YRC Public Data Repository - Protein Structure Prediction

Protein:	SMC1A
Organism:	Homo sapiens
Length:	1233 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 SMC1A.

Description	E-value	Query Range	Subject Range
gi\|68388302 - gi\|68388302\|ref\|XP_696268.1\| PREDICTED: similar to slow myosin heavy chain 1 [Danio rerio]	3.0E-97	[60..1025]	[1862..2796]
gi\|149758007 - gi\|149758007\|ref\|XP_001495236.1\| PREDICTED: similar to olfactory receptor, family 5, subfamily AT, m... SMC1A_BOVIN - Structural maintenance of chromosomes protein 1A OS=Bos taurus GN=SMC1A PE=1 SV=1	2.0E-87	[1..1233]	[1..1233]
gi\|74007448 - gi\|74007448\|ref\|XP_538049.2\| PREDICTED: similar to Structural maintenance of chromosome 1-like 1 pro...	2.0E-87	[1..1233]	[63..1295]
SMC1A_RAT - Structural maintenance of chromosomes protein 1A OS=Rattus norvegicus GN=Smc1a PE=1 SV=1	3.0E-87	[1..1233]	[1..1233]
SM1A_MOUSE, SMC1... - Structural maintenance of chromosomes protein 1A OS=Mus musculus GN=Smc1a PE=1 SV=3, (Q9CU62) Struct...	3.0E-87	[1..1233]	[1..1233]
gi\|999380, gi\|21... - gi\|999380\|gb\|AAB34405.1\| mitosis-specific chromosome segregation protein SMC1 homolog [Homo sapiens]...	4.0E-87	[1..1233]	[1..1233]
gi\|56710334, gi\|... - gi\|56710334\|ref\|NP_989847.1\| SMC1 protein cohesin subunit [Gallus gallus], gi\|29837126\|emb\|CAD58850....	2.0E-85	[1..1233]	[1..1234]
gi\|148232365, gi... - gi\|28436771\|gb\|AAH46691.1\| Smc1l1 protein [Xenopus laevis], gi\|148232365\|ref\|NP_001080490.1\| SMC-lik...	5.0E-84	[1..1231]	[1..1231]
gi\|7521921, gi\|3... - pir\|\|T30534 chromosome segregation protein SMC1 homolog - Japanese pufferfish, gi\|3098266\|gb\|AAC1558...	5.0E-82	[1..1232]	[1..1233]

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Predicted Domain #1

Region A:
Residues: [1-142]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MGFLKLIEIE NFKSYKGRQI IGPFQRFTAI IGPNGSGKSN LMDAISFVLG EKTSNLRVKT  60
   61 LRDLIHGAPV GKPAANRAFV SMVYSEEGAE DRTFARVIVG GSSEYKINNK VVQLHEYSEE 120
  121 LEKLGILIKA RNFLVFQGAV ES

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	23.69897
Match:	1w1wA
Description:	Sc Smc1hd:Scc1-C complex, ATPgS
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [143-452]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IAMKNPKERT ALFEEISRSG ELAQEYDKRK KEMVKAEEDT QFNYHRKKNI AAERKEAKQE  60
   61 KEEADRYQRL KDEVVRAQVQ LQLFKLYHNE VEIEKLNKEL ASKNKEIEKD KKRMDKVEDE 120
  121 LKEKKKELGK MMREQQQIEK EIKEKDSELN QKRPQYIKAK ENTSHKIKKL EAAKKSLQNA 180
  181 QKHYKKRKGD MDELEKEMLS VEKARQEFEE RMEEESQSQG RDLTLEENQV KKYHRLKEEA 240
  241 SKRAATLAQE LEKFNRDQKA DQDRLDLEER KKVETEAKIK QKLREIEENQ KRIEKLEEYI 300
  301 TTSKQSLEEQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	13.522879
Match:	1i84S
Description:	Heavy meromyosin subfragment
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [453-690]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KKLEGELTEE VEMAKRRIDE INKELNQVME QLGDARIDRQ ESSRQQRKAE IMESIKRLYP  60
   61 GSVYGRLIDL CQPTQKKYQI AVTKVLGKNM DAIIVDSEKT GRDCIQYIKE QRGEPETFLP 120
  121 LDYLEVKPTD EKLRELKGAK LVIDVIRYEP PHIKKALQYA CGNALVCDNV EDARRIAFGG 180
  181 HQRHKTVALD GTLFQKSGVI SGGASDLKAK ARRWDEKAVD KLKEKKERLT EELKEQMK

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	4.68
Match:	1gxlA
Description:	Smc hinge domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.91859588671053	bayes_pls_golite062009
structure-specific DNA binding	1.23709457794394	bayes_pls_golite062009
nucleic acid binding	1.16063754070957	bayes_pls_golite062009
DNA binding	1.10832034923143	bayes_pls_golite062009
protein binding	1.02696508439754	bayes_pls_golite062009
DNA secondary structure binding	1.02239440262162	bayes_pls_golite062009
double-stranded DNA binding	0.999818859536395	bayes_pls_golite062009
protein heterodimerization activity	0.558475595998159	bayes_pls_golite062009
catalytic activity	0.265320175609019	bayes_pls_golite062009
protein dimerization activity	0.108132520107784	bayes_pls_golite062009

Predicted Domain #4

Region A:
Residues: [691-1119]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AKRKEAELRQ VQSQAHGLQM RLKYSQSDLE QTKTRHLALN LQEKSKLESE LANFGPRIND  60
   61 IKRIIQSRER EMKDLKEKMN QVEDEVFEEF CREIGVRNIR EFEEEKVKRQ NEIAKKRLEF 120
  121 ENQKTRLGIQ LDFEKNQLKE DQDKVHMWEQ TVKKDENEIE KLKKEEQRHM KIIDETMAQL 180
  181 QDLKNQHLAK KSEVNDKNHE MEEIRKKLGG ANKEMTHLQK EVTAIETKLE QKRSDRHNLL 240
  241 QACKMQDIKL PLSKGTMDDI SQEEGSSQGE DSVSGSQRIS SIYAREALIE IDYGDLCEDL 300
  301 KDAQAEEEIK QEMNTLQQKL NEQQSVLQRI AAPNMKAMEK LESVRDKFQE TSDEFEAARK 360
  361 RAKKAKQAFE QIKKERFDRF NACFESVATN IDEIYKALSR NSSAQAFLGP ENPEEPYLDG 420
  421 INYNCVAPG

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	2.1
Match:	2oevA
Description:	No description for 2oevA was found.

Predicted Domain #5

Region A:
Residues: [1120-1233]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KRFRPMDNLS GGEKTVAALA LLFAIHSYKP APFFVLDEID AALDNTNIGK VANYIKEQST  60
   61 CNFQAIVISL KEEFYTKAES LIGVYPEQGD CVISKVLTFD LTKYPDANPN PNEQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	10.522879
Match:	1xewY
Description:	Structural biochemistry of ATP-driven dimerization and DNA stimulated activation of SMC ATPases.
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: