YRC Public Data Repository - Protein Structure Prediction

Protein:	PUS1
Organism:	Saccharomyces cerevisiae
Length:	544 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

[What does the above image mean?]

[Show Ginzu Version Information]

Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for PUS1.

Description	E-value	Query Range	Subject Range
PUS1_YEAST - tRNA pseudouridine synthase 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PUS1 PE=1 ... gi\|151942589 - gi\|151942589\|gb\|EDN60935.1\| tRNA-pseudouridine synthase [Saccharomyces cerevisiae YJM789] PUS1 - tRNA:pseudouridine synthase, introduces pseudouridines at positions 26-28, 34-36, 65, and 67 of tRNA... gi\|190407751 - gi\|190407751\|gb\|EDV11016.1\| tRNA pseudouridine synthase [Saccharomyces cerevisiae RM11-1a]	0.0	[1..544]	[1..544]
gi\|25518568, gi\|... - gi\|9558589\|gb\|AAF88152.1\|AC026234_3 Contains similarity to a pseudouridine synthase 1 from Homo sapi...	2.0E-96	[30..524]	[8..547]
pus1 - tRNA pseudouridylate synthase Lsp1 PUS1_SCHPO - tRNA pseudouridine synthase 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=pus1 PE=1 SV...	2.0E-87	[44..506]	[11..531]
TRUA_SALCH - tRNA pseudouridine synthase A OS=Salmonella choleraesuis GN=truA PE=3 SV=1 TRUA_SALTI - tRNA pseudouridine synthase A OS=Salmonella typhi GN=truA PE=3 SV=1 TRUA_SALA4 - tRNA pseudouridine synthase A OS=Salmonella agona (strain SL483) GN=truA PE=3 SV=1 TRUA_SALPK - tRNA pseudouridine synthase A OS=Salmonella paratyphi A (strain AKU_12601) GN=truA PE=3 SV=1 TRUA_SALDC - tRNA pseudouridine synthase A OS=Salmonella dublin (strain CT_02021853) GN=truA PE=3 SV=1 gi\|200388490, gi... - gi\|200388490\|ref\|ZP_03215102.1\| tRNA pseudouridine synthase A [Salmonella enterica subsp. enterica s... TRUA_SALNS - tRNA pseudouridine synthase A OS=Salmonella newport (strain SL254) GN=truA PE=3 SV=1 TRUA_SALHS - tRNA pseudouridine synthase A OS=Salmonella heidelberg (strain SL476) GN=truA PE=3 SV=1 TRUA_SALPA - tRNA pseudouridine synthase A OS=Salmonella paratyphi A GN=truA PE=3 SV=1 gi\|194471784, gi... - gi\|194471784\|ref\|ZP_03077768.1\| tRNA pseudouridine synthase A [Salmonella enterica subsp. enterica s... TRUA_SALPB - tRNA pseudouridine synthase A OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=truA PE=3 S... TRUA_SALSV - tRNA pseudouridine synthase A OS=Salmonella schwarzengrund (strain CVM19633) GN=truA PE=3 SV=1 gi\|238912353 - gi\|238912353\|ref\|ZP_04656190.1\| tRNA pseudouridine synthase A [Salmonella enterica subsp. enterica s... gi\|29136636, gi\|... - gi\|29141011\|ref\|NP_804353.1\| tRNA pseudouridine synthase A [Salmonella enterica subsp. enterica sero... gi\|197289616, gi... - gi\|197289616\|gb\|EDY28979.1\| tRNA pseudouridine synthase A [Salmonella enterica subsp. enterica serov... gi\|16761293 - gi\|16761293\|ref\|NP_456910.1\| tRNA pseudouridine synthase A [Salmonella enterica subsp. enterica sero... gi\|168242494, gi... - gi\|205338670\|gb\|EDZ25434.1\| tRNA pseudouridine synthase A [Salmonella enterica subsp. enterica serov... gi\|168465920, gi... - gi\|195631471\|gb\|EDX50031.1\| tRNA pseudouridine synthase A [Salmonella enterica subsp. enterica serov... TRUA_SALTI - tRNA pseudouridine synthase A OS=Salmonella typhi GN=truA PE=3 SV=1 gi\|205344778, gi... - gi\|205344778\|gb\|EDZ31542.1\| tRNA pseudouridine synthase A [Salmonella enterica subsp. enterica serov... gi\|205325206, gi... - gi\|205325206\|gb\|EDZ13045.1\| tRNA pseudouridine synthase A [Salmonella enterica subsp. enterica serov... gi\|205335762, gi... - gi\|205335762\|gb\|EDZ22526.1\| tRNA pseudouridine synthase A [Salmonella enterica subsp. enterica serov... gi\|214002040 - gi\|214002040\|ref\|ZP_03412775.1\| tRNA pseudouridine synthase A [Salmonella enterica subsp. enterica s... TRUA_SALPC - tRNA pseudouridine synthase A OS=Salmonella paratyphi C (strain RKS4594) GN=truA PE=3 SV=1 gi\|213161334 - gi\|213161334\|ref\|ZP_03347044.1\| tRNA pseudouridine synthase A [Salmonella enterica subsp. enterica s... gi\|213426977 - gi\|213426977\|ref\|ZP_03359727.1\| tRNA pseudouridine synthase A [Salmonella enterica subsp. enterica s... TRUA_SALCH - tRNA pseudouridine synthase A OS=Salmonella choleraesuis GN=truA PE=3 SV=1 gi\|213646800 - gi\|213646800\|ref\|ZP_03376853.1\| tRNA pseudouridine synthase A [Salmonella enterica subsp. enterica s... TRUA_SALPB - tRNA pseudouridine synthase A OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=truA PE=3 S... gi\|213852689 - gi\|213852689\|ref\|ZP_03382221.1\| tRNA pseudouridine synthase A [Salmonella enterica subsp. enterica s... gi\|204929209, gi... - gi\|204929209\|ref\|ZP_03220352.1\| tRNA pseudouridine synthase A [Salmonella enterica subsp. enterica s... TRUA_SALG2 - tRNA pseudouridine synthase A OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=truA PE=3 SV=... TRUA_SALCH - tRNA pseudouridine synthase A OS=Salmonella choleraesuis (strain SC-B67) GN=truA PE=3 SV=1 TRUA_SALEP - tRNA pseudouridine synthase A OS=Salmonella enteritidis PT4 (strain P125109) GN=truA PE=3 SV=1 TRUA_SALPA - tRNA pseudouridine synthase A OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=truA PE=3 SV=... gi\|213022210 - gi\|213022210\|ref\|ZP_03336657.1\| tRNA pseudouridine synthase A [Salmonella enterica subsp. enterica s...	1.0E-73	[71..305]	[6..236]
gi\|262167166\|ref... - tRNA pseudouridine synthase A [Vibrio cholerae RC27] gi\|194535182, gi... - gi\|75823320\|ref\|ZP_00752830.1\| COG0101: Pseudouridylate synthase [Vibrio cholerae RC385], gi\|2542235... gi\|254848129, gi... - gi\|75829810\|ref\|ZP_00759102.1\| COG0101: Pseudouridylate synthase [Vibrio cholerae MO10], gi\|25484812... gi\|262151270\|ref... - tRNA pseudouridine synthase A [Vibrio cholerae INDRE 91/1] TRUA_VIBCM - tRNA pseudouridine synthase A OS=Vibrio cholerae serotype O1 (strain M66-2) GN=truA PE=3 SV=1 gi\|229357625, gi... - gi\|229505402\|ref\|ZP_04394912.1\| tRNA pseudouridine synthase A [Vibrio cholerae BX 330286], gi\|229357... gi\|121587328, gi... - gi\|121587328\|ref\|ZP_01677099.1\| tRNA pseudouridine synthase A [Vibrio cholerae 2740-80], gi\|12154841... gi\|229510928, gi... - gi\|229510928\|ref\|ZP_04400407.1\| tRNA pseudouridine synthase A [Vibrio cholerae B33], gi\|229350893\|gb... gi\|124118635, gi... - gi\|153222761\|ref\|ZP_01953420.1\| tRNA pseudouridine synthase A [Vibrio cholerae MAK 757], gi\|12411863... gi\|229344764, gi... - gi\|229518049\|ref\|ZP_04407493.1\| tRNA pseudouridine synthase A [Vibrio cholerae RC9], gi\|229344764\|gb... gi\|126509619, gi... - gi\|153819838\|ref\|ZP_01972505.1\| tRNA pseudouridine synthase A [Vibrio cholerae NCTC 8457], gi\|126509... gi\|229529907, gi... - gi\|229529907\|ref\|ZP_04419297.1\| tRNA pseudouridine synthase A [Vibrio cholerae 12129(1)], gi\|2293336... gi\|229371076, gi... - gi\|229608421\|ref\|YP_002879069.1\| tRNA pseudouridine synthase A [Vibrio cholerae MJ-1236], gi\|2293710... gi\|183179415, gi... - gi\|183179415\|ref\|ZP_02957626.1\| tRNA pseudouridine synthase A [Vibrio cholerae MZO-3], gi\|183012826\|... gi\|255744781\|ref... - tRNA pseudouridine synthase A [Vibrio cholera CIRS 101] gi\|262190865\|ref... - tRNA pseudouridine synthase A [Vibrio cholerae CT 5369-93] TRUA_VIBC3 - tRNA pseudouridine synthase A OS=Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 39... TRUA_VIBCH - tRNA pseudouridine synthase A OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N1696... TRUA_VIBCH - tRNA pseudouridine synthase A OS=Vibrio cholerae GN=truA PE=3 SV=1	1.0E-73	[76..305]	[2..227]
gi\|293415611\|ref... - tRNA pseudouridine synthase A [Escherichia coli B185] TRUA_ECOL6 - tRNA pseudouridine synthase A OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=truA... gi\|209764792, gi... - pir\|\|C85873 pseudouridylate synthase I [imported] - Escherichia coli (strain O157:H7, substrain EDL... gi\|291283559\|ref... - tRNA pseudouridine synthase A [Escherichia coli O55:H7 str. CB9615] gi\|12516677, gi\|... - gi\|15802865\|ref\|NP_288892.1\| tRNA pseudouridine synthase A [Escherichia coli O157:H7 EDL933], gi\|125... gi\|189362830, gi... - gi\|189362830\|gb\|EDU81249.1\| tRNA pseudouridine synthase A [Escherichia coli O157:H7 str. EC4486], gi... TRUA_ECO57 - tRNA pseudouridine synthase A OS=Escherichia coli O157:H7 GN=truA PE=3 SV=1 gi\|168761239, gi... - gi\|189368293\|gb\|EDU86709.1\| tRNA pseudouridine synthase A [Escherichia coli O157:H7 str. EC4501], gi... TRUA_ECOL6 - tRNA pseudouridine synthase A OS=Escherichia coli O6 GN=truA PE=3 SV=1 gi\|189357607, gi... - gi\|189357607\|gb\|EDU76026.1\| tRNA pseudouridine synthase A [Escherichia coli O157:H7 str. EC4401], gi... gi\|293410675\|ref... - tRNA pseudouridine synthase A [Escherichia coli B354] gi\|261223227\|ref... - tRNA pseudouridine synthase A [Escherichia coli O157:H7 str. FRIK2000] gi\|188017261, gi... - gi\|188017261\|gb\|EDU55383.1\| tRNA pseudouridine synthase A [Escherichia coli O157:H7 str. EC4113], gi... gi\|168798493, gi... - gi\|189378874\|gb\|EDU97290.1\| tRNA pseudouridine synthase A [Escherichia coli O157:H7 str. EC508], gi\|... gi\|168787230, gi... - gi\|189372810\|gb\|EDU91226.1\| tRNA pseudouridine synthase A [Escherichia coli O157:H7 str. EC869], gi\|... gi\|168780178, gi... - gi\|189001906\|gb\|EDU70892.1\| tRNA pseudouridine synthase A [Escherichia coli O157:H7 str. EC4076], gi... gi\|187771144, gi... - gi\|187771144\|gb\|EDU34988.1\| tRNA pseudouridine synthase A [Escherichia coli O157:H7 str. EC4196], gi... gi\|293405784\|ref... - tRNA pseudouridine synthase A [Escherichia coli FVEC1412] gi\|13362672, gi\|... - gi\|15832456\|ref\|NP_311229.1\| tRNA pseudouridine synthase A [Escherichia coli O157:H7 str. Sakai], gi... gi\|261259223\|ref... - tRNA pseudouridine synthase A [Escherichia coli O157:H7 str. FRIK966] TRUA_ECOLU - tRNA pseudouridine synthase A OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=truA PE=3 S... TRUA_ECO7I - tRNA pseudouridine synthase A OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=truA PE=3 SV=1 gi\|208811862, gi... - gi\|208811862\|ref\|ZP_03253191.1\| tRNA pseudouridine synthase A [Escherichia coli O157:H7 str. EC4045]... gi\|208727696, gi... - gi\|208807895\|ref\|ZP_03250232.1\| tRNA pseudouridine synthase A [Escherichia coli O157:H7 str. EC4206]... gi\|195935697 - gi\|195935697\|ref\|ZP_03081079.1\| tRNA pseudouridine synthase A [Escherichia coli O157:H7 str. EC4024] TRUA_ECOSM - tRNA pseudouridine synthase A OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=truA PE=3 SV=1 TRUA_ECO55 - tRNA pseudouridine synthase A OS=Escherichia coli (strain 55989 / EAEC) GN=truA PE=3 SV=1 gi\|217319539, gi... - gi\|217327172\|ref\|ZP_03443255.1\| tRNA pseudouridine synthase A [Escherichia coli O157:H7 str. TW14588... TRUA_ECO5E - tRNA pseudouridine synthase A OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=truA PE=3 SV=1 gi\|208741667, gi... - gi\|208821544\|ref\|ZP_03261864.1\| tRNA pseudouridine synthase A [Escherichia coli O157:H7 str. EC4042]... gi\|293446655\|ref... - tRNA pseudouridine synthase A [Escherichia coli B088] gi\|254794211, gi... - gi\|254794211\|ref\|YP_003079048.1\| tRNA pseudouridine synthase A [Escherichia coli O157:H7 str. TW1435... gi\|227887378, gi... - gi\|227887378\|ref\|ZP_04005183.1\| tRNA pseudouridine synthase A [Escherichia coli 83972], gi\|227835728... TRUA_SHIDS - tRNA pseudouridine synthase A OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=truA PE=3 SV=1	8.0E-73	[72..305]	[7..236]

Back

Predicted Domain #1

Region A:
Residues: [1-64]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSEENLRPAY DDQVNEDVYK RGAQSKLTKA RKADFDDEKD KKKDNDKHID KRPKSGPRLD  60
   61 ENGN

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.339	a.4.1	Homeodomain-like
View	Download	0.212	a.179.1	Replisome organizer (g39p helicase loader/inhibitor protein)

Predicted Domain #2

Region A:
Residues: [65-201]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PLPKEPRLPK RKVAVMVGYC GTGYHGMQYN PPNPTIESAL FKAFVEAGAI SKDNSNDLKK  60
   61 NGFMRAARTD KGVHAGGNLI SLKMIIEDPD IKQKINEKLP EGIRVWDIER VNKAFDCRKM 120
  121 CSSRWYEYLL PTYSLIG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	100.68867
Match:	1dj0A_
Description:	Pseudouridine synthase I
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [202-306]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PKPGSILYRD IEESKTELPG VLDEDLESKE FWEEFKKDAN EKFSTEEIEA ILAYVPPARD  60
   61 EFDINEELYQ KVKKYKQLEN AHRRRYRISA AKLAKFRAST SQYLG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	100.68867
Match:	1dj0A_
Description:	Pseudouridine synthase I
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [307-544]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AHNFHNFTLG KDFKEPSAIR FMKDIKVSDP FVIGDAQTEW ISIKIHGQSF MLHQIRKMVS  60
   61 MATLITRCGC PVERISQAYG QQKINIPKAP ALGLLLEAPV FEGYNKRLEQ FGYKAIDFSK 120
  121 YQDEVDKFKM KHIYDKIYKE EVDENVFNAF FSYIDSFNKV TGAQGEETAD KSGPAVQKSI 180
  181 FEFLTAKGIP GLTDAPESNK KIKQRKRMEE EEAASKKAEI SSTTQSNEPE VQPEAAAN

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits