YRC Public Data Repository - Protein Structure Prediction

Protein:	cnd1
Organism:	Schizosaccharomyces pombe
Length:	1158 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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 cnd1.

Description	E-value	Query Range	Subject Range
gi\|32423103, gi\|... - gi\|32423103\|ref\|XP_331989.1\| hypothetical protein [Neurospora crassa], gi\|28919807\|gb\|EAA29207.1\| hy... gi\|85090494 - gi\|85090494\|ref\|XP_958443.1\| hypothetical protein NCU09297 [Neurospora crassa OR74A]	1364.0	[0..1]	[1156..4]
gi\|46126953, gi\|... - gi\|46126953\|ref\|XP_388030.1\| hypothetical protein FG07854.1 [Gibberella zeae PH-1], gi\|42555205\|gb\|E...	1350.0	[0..1]	[1156..4]
gi\|39942814, gi\|... - gi\|39942814\|ref\|XP_360944.1\| hypothetical protein MG03487.4 [Magnaporthe grisea 70-15], gb\|EAA51892....	1330.0	[0..1]	[1156..5]
gi\|67525987, gi\|... - gi\|67525987\|ref\|XP_661055.1\| hypothetical protein AN3451.2 [Aspergillus nidulans FGSC A4], ref\|XP_40...	1327.0	[0..1]	[1158..5]
gi\|114189414, gi... - gi\|115402983\|ref\|XP_001217568.1\| conserved hypothetical protein [Aspergillus terreus NIH2624], gi\|11...	1278.0	[0..1]	[1158..5]
gi\|169779882 - gi\|169779882\|ref\|XP_001824405.1\| hypothetical protein [Aspergillus oryzae RIB40] gi\|83773145 - gi\|83773145\|dbj\|BAE63272.1\| unnamed protein product [Aspergillus oryzae]	1275.0	[0..3]	[1158..7]
gi\|119195425, gi... - gi\|90307102\|gb\|EAS36733.1\| condensin complex subunit 1 [Coccidioides immitis RS], gi\|119195425\|ref\|X...	1241.0	[0..1]	[1156..5]
gi\|88184633, gi\|... - gi\|88184633\|gb\|EAQ92101.1\| hypothetical protein CHGG_00336 [Chaetomium globosum CBS 148.51], gi\|1161...	1206.0	[0..1]	[1156..4]
gi\|111068687, gi... - gi\|169600481\|ref\|XP_001793663.1\| hypothetical protein SNOG_03076 [Phaeosphaeria nodorum SN15], gi\|11...	1130.0	[0..1]	[1156..5]
orf19.9439, orf1... - orf19.1883 CGDID:CAL0001793 Assembly 19, Contig19-10135 (36937, 33419) CDS, reverse complemented, tr... gi\|46434666, gi\|... - gi\|68485904\|ref\|XP_713140.1\| potential nuclear condensin complex subunit D [Candida albicans SC5314]...	1120.0	[0..5]	[1156..1]

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Predicted Domain #1

Region A:
Residues: [1-202]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSLDLLSRLK KYIHDEENSD LDSIYAECEN AGLTAVVNDV IDTLLLGTSS CFDEDCLEKL  60
   61 FAICSHFADL SSSVRNKVYD LLTSNISSES AILEDMISAN ATDFTVPQTN LETTGIAFQL 120
  121 TVNSLSSSNQ LSVIRSSTNT VKGRKKNPTT NSNWNGISHV NALLDAIITL FQKKLSRVWT 180
  181 TSSERDMFLS LFLKPIYTLM ES

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [203-877]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EINIKNASFR SRLFNIIGLA VQFHNHTTAA ETNIIQNLQY FEHLSEYAAD LVHIVTVQFN  60
   61 SVTLAEGIIR TLCSLEFNDN DVKGPKQVAL FLVRLSSLIP NLCLKQLTQL VKLLDSESYT 120
  121 LRCAIIEVLA NVVIDQIHDE AQNEMSESVP ATVQSLMDLL SERLLDISPY CRTKVLHVFI 180
  181 KIFDLPIKYP RKRQEIAELV IRCLQDRSSH VRRNAIKLFS KLLTTHPFSV MHNGLLTRNI 240
  241 WEKGLSIIEE QLNSLQPKQQ EKVVDSELEV DENLLEDATM IQDDESHEGE SHLENSLSEY 300
  301 VDSVPAEEIV KVNLTKRFYL EALQYIDIVE AGAKIISQLL FAKNKSEVIE SMDFFVFCNS 360
  361 FGISSSKLYI KKMIHLIWVK GTSDEGNNIQ NHVLSCYKTL FFEPPPNSGT NEAANYIARN 420
  421 LISLTYDASL AELTSLEQML CILMKDGYFS HLVITKLWQV YSYQKKDISR TQRRGSIIVI 480
  481 GMLALGNTDV VMQGLDHLIQ IGLGPPGLED LVLARYTCIA IKRIGKDASG SSNINFPNSH 540
  541 TLCQKLCMLL LRPSFSEEWF GLEEQAIEAI YAVAKHPDEL CTNIILLLTK QLFKPSNHEN 600
  601 TTSNDDHAMD EDLDDSPEEE TLKDEEEIGI RLAHLIFLVG HVAIKQLVYI EYCEAEFKRR 660
  661 KADAERLAVQ NSNNP

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	2.28
Match:	1gw5B
Description:	Adaptin beta subunit N-terminal fragment
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.96084803796407	bayes_pls_golite062009
nucleic acid binding	2.69616509670156	bayes_pls_golite062009
protein transporter activity	2.20824633932947	bayes_pls_golite062009
transcription regulator activity	2.19067997822967	bayes_pls_golite062009
DNA binding	1.96172460362671	bayes_pls_golite062009
protein binding	1.61131270705552	bayes_pls_golite062009
transporter activity	1.44589191111517	bayes_pls_golite062009
transcription factor activity	1.21493607378314	bayes_pls_golite062009
substrate-specific transporter activity	1.19535295481088	bayes_pls_golite062009
cytoskeletal protein binding	0.66737572008694	bayes_pls_golite062009
transmembrane transporter activity	0.338017015160581	bayes_pls_golite062009
protein transmembrane transporter activity	0.320459307923303	bayes_pls_golite062009
structural molecule activity	0.279533827088985	bayes_pls_golite062009
RNA binding	0.243875756041061	bayes_pls_golite062009
transcription activator activity	0.142253868848261	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	0.0946244209704199	bayes_pls_golite062009
transcription factor binding	8.79739237675814E-4	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [878-1158]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 INGQETSEYD LITGTSEDDF SEAMTFIRER ELLYGENSLL SRFAPLVVEL CSNHKSHNNQ  60
   61 SLLLAASLTL SKFMCLSNNF CMEHLPLLIT ILEKCDNPII RNNLVIGLAD LTVCFNHFID 120
  121 EISEYLYRRL MDEESSVKKT CFMTLAFLIL AGQIKVKGQL GIMARSLEDE DARISDLARM 180
  181 FFTDFAAKDN SVYNNFIDIF SVLSRSAEEQ DEDDAKFKRI IRFLTSFIEK ERHTKQLAER 240
  241 LAARLDRCKT QRQWDHVVYA LSLLPHKADN IQKLIDDGYH E

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	60.221849
Match:	1gw5B
Description:	Adaptin beta subunit N-terminal fragment
Matching Structure (courtesy of the PDB):

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

Predicted functions: