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View Structure Prediction Details

Protein: RFC4
Organism: Saccharomyces cerevisiae
Length: 323 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



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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 RFC4.

Description E-value Query
Range
Subject
Range
gi|15988297, gi|... - gi|15988302|pdb|1IQP|F Chain F, Crystal Structure Of The Clamp Loader Small Subunit From Pyrococcus ...
1.0E-84 [8..322] [12..327]
gi|207341418 - gi|207341418|gb|EDZ69479.1| YOL094Cp-like protein [Saccharomyces cerevisiae AWRI1631]
RFC4_YEAST - Replication factor C subunit 4 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RFC4 PE=1...
gi|151945540 - gi|151945540|gb|EDN63781.1| replication factor C subunit 4 [Saccharomyces cerevisiae YJM789]
RFC4 - Subunit of heteropentameric Replication factor C (RF-C), which is a DNA binding protein and ATPase t...
1.0E-83 [1..323] [1..323]
RFCS_ARCFU - Replication factor C small subunit OS=Archaeoglobus fulgidus GN=rfcS PE=1 SV=1
RFCS_ARCFU - Replication factor C small subunit OS=Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 /...
4.0E-83 [4..322] [1..319]
gi|14601459, gi|... - gi|5105207|dbj|BAA80521.1| 346aa long hypothetical replication factor C subunit [Aeropyrum pernix K1...
RFCS_AERPE - (Q9YBS7) Replication factor C small subunit (RFC small subunit) (Clamp loader small subunit)
2.0E-82 [8..322] [27..343]
gi|15991286 - gi|15991286|dbj|BAB69675.1| replication factor C 40kDa subunit [Oryza sativa Japonica Group]
gi|218195393, gi... - gi|218195393|gb|EEC77820.1| hypothetical protein OsI_17026 [Oryza sativa Indica Group], gi|116310007...
5.0E-81 [7..323] [15..332]
RFC2_MOUSE - Replication factor C subunit 2 OS=Mus musculus GN=Rfc2 PE=1 SV=1
6.0E-81 [7..317] [29..340]
RFC2_CHICK - Replication factor C subunit 2 OS=Gallus gallus GN=RFC2 PE=2 SV=1
4.0E-80 [7..317] [39..350]
RFC2_ARATH - Replication factor C subunit 2 OS=Arabidopsis thaliana GN=RFC2 PE=1 SV=1
1.0E-78 [7..323] [13..330]
gi|7507776 - gi|7507776|pir||T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans
5.0E-78 [7..317] [34..344]

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Predicted Domain #1
Region A:
Residues: [1-14]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSKTLSLQLP WVEK

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [167-230]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SDEDVLKRLL QIIKLEDVKY TNDGLEAIIF TAEGDMRQAI NNLQSTVAGH GLVNADNVFK  60
   61 IVDS

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 785.39794
Match: 1iqpA_
Description: Replication factor C
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
DNA clamp loader activity 6.51495346697904 bayes_pls_golite062009
protein-DNA loading ATPase activity 6.40748863504898 bayes_pls_golite062009
DNA-dependent ATPase activity 2.72462789867829 bayes_pls_golite062009
binding 2.64537357529343 bayes_pls_golite062009
mismatched DNA binding 2.51625633651862 bayes_pls_golite062009
DNA helicase activity 2.2817164193758 bayes_pls_golite062009
nucleic acid binding 2.21184938313192 bayes_pls_golite062009
pyrophosphatase activity 2.13284212711072 bayes_pls_golite062009
DNA binding 1.94055378599526 bayes_pls_golite062009
ATP-dependent DNA helicase activity 1.88455339138556 bayes_pls_golite062009
1.85506769032946 bayes_pls_golite062009
transcription regulator activity 1.83584389083042 bayes_pls_golite062009
helicase activity 1.70242731830224 bayes_pls_golite062009
guanine/thymine mispair binding 1.69026972999845 bayes_pls_golite062009
DNA insertion or deletion binding 1.68890613599528 bayes_pls_golite062009
RNA helicase activity 1.63960194106079 bayes_pls_golite062009
DNA replication origin binding 1.62491387774159 bayes_pls_golite062009
ATP-dependent RNA helicase activity 1.61735400124552 bayes_pls_golite062009
RNA-dependent ATPase activity 1.60404584546501 bayes_pls_golite062009
structure-specific DNA binding 1.2539059700735 bayes_pls_golite062009
purine ribonucleotide binding 1.21658213854831 bayes_pls_golite062009
ribonucleotide binding 1.21652144153182 bayes_pls_golite062009
purine nucleotide binding 1.21571071905795 bayes_pls_golite062009
nucleotide binding 1.20347573865566 bayes_pls_golite062009
ATP-dependent helicase activity 1.19311444180077 bayes_pls_golite062009
purine NTP-dependent helicase activity 1.19311444180077 bayes_pls_golite062009
motor activity 1.14667913749579 bayes_pls_golite062009
microtubule motor activity 1.1277447806079 bayes_pls_golite062009
double-stranded DNA binding 1.117585097627 bayes_pls_golite062009
catalytic activity 1.00104173493322 bayes_pls_golite062009
DNA-directed DNA polymerase activity 0.971476020912368 bayes_pls_golite062009
DNA polymerase activity 0.928091843881235 bayes_pls_golite062009
transcription factor activity 0.697256579145077 bayes_pls_golite062009
transcription repressor activity 0.677612020025357 bayes_pls_golite062009
guanyl nucleotide binding 0.656009904481476 bayes_pls_golite062009
guanyl ribonucleotide binding 0.64416740142962 bayes_pls_golite062009
GTP binding 0.643084645864898 bayes_pls_golite062009
single base insertion or deletion binding 0.629563765934841 bayes_pls_golite062009
single-stranded DNA binding 0.568457189190858 bayes_pls_golite062009
cytoskeletal protein binding 0.500462538667228 bayes_pls_golite062009
GTPase activity 0.406399103964327 bayes_pls_golite062009
DNA strand annealing activity 0.283577486331079 bayes_pls_golite062009
protein binding 0.170837278876362 bayes_pls_golite062009
nucleoside-triphosphatase activity 0.147579541298736 bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides 0.113504049290503 bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0.111293884322157 bayes_pls_golite062009
structural constituent of ribosome 0.089234257580272 bayes_pls_golite062009
3'-5' DNA helicase activity 0.0769112340058804 bayes_pls_golite062009
lysine N-acetyltransferase activity 0.0320943071400439 bayes_pls_golite062009
histone acetyltransferase activity 0.0320943071400439 bayes_pls_golite062009
double-strand/single-strand DNA junction binding 0.0136229525922795 bayes_pls_golite062009
actin binding 0.00482938540552702 bayes_pls_golite062009

Predicted Domain #2
Region A:
Residues: [15-166]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YRPQVLSDIV GNKETIDRLQ QIAKDGNMPH MIISGMPGIG KTTSVHCLAH ELLGRSYADG  60
   61 VLELNASDDR GIDVVRNQIK HFAQKKLHLP PGKHKIVILD EADSMTAGAQ QALRRTMELY 120
  121 SNSTRFAFAC NQSNKIIEPL QSRCAILRYS KL

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [231-323]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PHPLIVKKML LASNLEDSIQ ILRTDLWKKG YSSIDIVTTS FRVTKNLAQV KESVRLEMIK  60
   61 EIGLTHMRIL EGVGTYLQLA SMLAKIHKLN NKA

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 785.39794
Match: 1iqpA_
Description: Replication factor C
Matching Structure (courtesy of the PDB):

YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle