Citrus Sinensis ID: 041863

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------
MKVLIVFDDVTCFTQLESLIGSLDWLTPVSRIIITTRNKQVLRNWEVRKIYEIEALEYHHALDLFSRHAFKRNHLDVGYEKLSSNVMKCAQGVLKISYDGLDDKEKNIFLDVACFFQGQDVNLVMNFLNASGFYPEIGISFLVDKSLIVISNNNKITMHDLKQEFGQEIIQEESINPENRSRLWHHKDTYEVLTYNT
cEEEEEEcccccHHHHHHHHccccccccccEEEEEcccHHHHHHccccEEEEcccccHHHHHHHHHHHcccccccccHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHccccHHHHHHHHHHcccccccHHHHHHccccEEEccccEEEccHHHHHHHHHHHHHccccccccccccccHHHHHHHHccc
cEEEEEEccccHHHHHHHHHccccccccccEEEEEcccHHHHHHccccEEEEEccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccEEEEcccccHHHHHHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHHHcEEEEEcccccEEHHHHHHHHcHHHHEccccccccccccccHHHHHHHHHccc
MKVLIVFDDVTCFTQLESLigsldwltpvsRIIITTRNKQVLRNWEVRKIYEIEALEYHHALDLFSRHAFKRNHLDVGYEKLSSNVMKCAQGVLKIsydglddkekniFLDVACFFQGQDVNLVMNFLnasgfypeigISFLVDKSLivisnnnkitMHDLKQEFGQEIIqeesinpenrsrlwhhkdtyevltynt
mkvlivfdDVTCFTQLEsligsldwltpvSRIIittrnkqvlrnwEVRKIYEIEALEYHHALDLFSRHAFKRNHLDVGYEKLSSNVMKCAQGVLKISYDGLDDKEKNIFLDVACFFQGQDVNLVMNFLNASGFYPEIGISFLVDKSLIVISNNNKITMHDLKQEFGQEIIQEEsinpenrsrlwhhkdtyevltynt
MKVLIVFDDVTCFTQLESLIGSLDWLTPVSRIIITTRNKQVLRNWEVRKIYEIEALEYHHALDLFSRHAFKRNHLDVGYEKLSSNVMKCAQGVLKISYDGLDDKEKNIFLDVACFFQGQDVNLVMNFLNASGFYPEIGISFLVDKSLIVISNNNKITMHDLKQEFGQEIIQEESINPENRSRLWHHKDTYEVLTYNT
**VLIVFDDVTCFTQLESLIGSLDWLTPVSRIIITTRNKQVLRNWEVRKIYEIEALEYHHALDLFSRHAFKRNHLDVGYEKLSSNVMKCAQGVLKISYDGLDDKEKNIFLDVACFFQGQDVNLVMNFLNASGFYPEIGISFLVDKSLIVISNNNKITMHDLKQEFGQEII************LWHHKDTYEVL****
MKVLIVFDDVTCFTQLESLIGSLDWLTPVSRIIITTRNKQVLRNWEVRKIYEIEALEYHHALDLFSRHAFKRNHLDVGYEKLSSNVMKCAQGVLKISYDGLDDKEKNIFLDVACFFQGQDVNLVMNFLNASGFYPEIGISFLVDKSLIVISNNNKITMHDLKQEFGQEIIQEESINPENRSRLWHHKDTYEVLTYN*
MKVLIVFDDVTCFTQLESLIGSLDWLTPVSRIIITTRNKQVLRNWEVRKIYEIEALEYHHALDLFSRHAFKRNHLDVGYEKLSSNVMKCAQGVLKISYDGLDDKEKNIFLDVACFFQGQDVNLVMNFLNASGFYPEIGISFLVDKSLIVISNNNKITMHDLKQEFGQEIIQEESINPENRSRLWHHKDTYEVLTYNT
MKVLIVFDDVTCFTQLESLIGSLDWLTPVSRIIITTRNKQVLRNWEVRKIYEIEALEYHHALDLFSRHAFKRNHLDVGYEKLSSNVMKCAQGVLKISYDGLDDKEKNIFLDVACFFQGQDVNLVMNFLNASGFYPEIGISFLVDKSLIVISNNNKITMHDLKQEFGQEIIQEESINPENRSRLWHHKDTYEVLTYN*
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MKVLIVFDDVTCFTQLESLIGSLDWLTPVSRIIITTRNKQVLRNWEVRKIYEIEALEYHHALDLFSRHAFKRNHLDVGYEKLSSNVMKCAQGVLKISYDGLDDKEKNIFLDVACFFQGQDVNLVMNFLNASGFYPEIGISFLVDKSLIVISNNNKITMHDLKQEFGQEIIQEESINPENRSRLWHHKDTYEVLTYNT
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query197 2.2.26 [Sep-21-2011]
Q9FL92 1372 Probable WRKY transcripti yes no 0.928 0.133 0.382 9e-36
Q40392 1144 TMV resistance protein N N/A no 0.979 0.168 0.367 8e-33
Q9FH83 1288 Probable WRKY transcripti no no 0.984 0.150 0.363 4e-31
O82500 1095 Putative disease resistan no no 0.994 0.178 0.323 9e-26
Q9SZ67 1895 Probable WRKY transcripti no no 0.934 0.097 0.317 2e-25
Q9FKN7 1613 Protein DA1-related 4 OS= no no 0.969 0.118 0.337 2e-24
O23530 1301 Protein SUPPRESSOR OF npr no no 0.969 0.146 0.307 8e-23
>sp|Q9FL92|WRK16_ARATH Probable WRKY transcription factor 16 OS=Arabidopsis thaliana GN=WRKY16 PE=2 SV=1 Back     alignment and function desciption
 Score =  149 bits (377), Expect = 9e-36,   Method: Compositional matrix adjust.
 Identities = 85/222 (38%), Positives = 119/222 (53%), Gaps = 39/222 (17%)

Query: 2   KVLIVFDDVTCFTQLESLIGSLDWLTPVSRIIITTRNKQVLRNWEVRKIYEIEALEYHHA 61
           +VL+V DDV     +ES +G  DW  P S IIIT+++K V R   V +IYE++ L    A
Sbjct: 242 RVLVVLDDVRSPLVVESFLGGFDWFGPKSLIIITSKDKSVFRLCRVNQIYEVQGLNEKEA 301

Query: 62  LDLFSRHAFKRNHLDVGYEKLSSNVMKCAQG----------------------------- 92
           L LFS  A   +  +    ++S  V+K A G                             
Sbjct: 302 LQLFSLCASIDDMAEQNLHEVSMKVIKYANGHPLALNLYGRELMGKKRPPEMEIAFLKLK 361

Query: 93  ---------VLKISYDGLDDKEKNIFLDVACFFQGQDVNLVMNFLNASGFYPEIGISFLV 143
                     +K SYD L+D+EKNIFLD+ACFFQG++V+ VM  L   GF+P +GI  LV
Sbjct: 362 ECPPAIFVDAIKSSYDTLNDREKNIFLDIACFFQGENVDYVMQLLEGCGFFPHVGIDVLV 421

Query: 144 DKSLIVISNNNKITMHDLKQEFGQEIIQEESINPENRSRLWH 185
           +KSL+ IS  N++ MH+L Q+ G++II  E+   + RSRLW 
Sbjct: 422 EKSLVTIS-ENRVRMHNLIQDVGRQIINRETRQTKRRSRLWE 462
Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May also act as a disease resistance protein.
Arabidopsis thaliana (taxid: 3702)
>sp|Q40392|TMVRN_NICGU TMV resistance protein N OS=Nicotiana glutinosa GN=N PE=1 SV=1 Back     alignment and function description
>sp|Q9FH83|WRK52_ARATH Probable WRKY transcription factor 52 OS=Arabidopsis thaliana GN=WRKY52 PE=2 SV=3 Back     alignment and function description
>sp|O82500|Y4117_ARATH Putative disease resistance protein At4g11170 OS=Arabidopsis thaliana GN=At4g11170 PE=2 SV=1 Back     alignment and function description
>sp|Q9SZ67|WRK19_ARATH Probable WRKY transcription factor 19 OS=Arabidopsis thaliana GN=WRKY19 PE=2 SV=1 Back     alignment and function description
>sp|Q9FKN7|DAR4_ARATH Protein DA1-related 4 OS=Arabidopsis thaliana GN=DAR4 PE=1 SV=2 Back     alignment and function description
>sp|O23530|SNC1_ARATH Protein SUPPRESSOR OF npr1-1, CONSTITUTIVE 1 OS=Arabidopsis thaliana GN=SNC1 PE=1 SV=3 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query197
359493574 813 PREDICTED: TMV resistance protein N [Vit 0.994 0.241 0.448 1e-44
297734814 872 unnamed protein product [Vitis vinifera] 0.994 0.224 0.452 2e-44
147774169 924 hypothetical protein VITISV_032106 [Viti 0.994 0.212 0.448 2e-44
359493572 2338 PREDICTED: uncharacterized protein LOC10 0.994 0.083 0.452 3e-44
357468563 1161 Disease resistance protein [Medicago tru 0.994 0.168 0.423 2e-43
357468645 936 TIR-NBS-LRR RCT1 resistance protein [Med 0.994 0.209 0.429 3e-43
193584700 1098 TIR-NBS-LRR RCT1 resistance protein [Med 0.994 0.178 0.429 4e-43
357468653 1116 TIR-NBS-LRR RCT1-like resistance protein 0.994 0.175 0.429 9e-43
359493570 2663 PREDICTED: uncharacterized protein LOC10 0.989 0.073 0.448 1e-42
193584702 1125 TIR-NBS-LRR RCT1-like resistance protein 0.994 0.174 0.421 5e-42
>gi|359493574|ref|XP_002271071.2| PREDICTED: TMV resistance protein N [Vitis vinifera] Back     alignment and taxonomy information
 Score =  185 bits (469), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 105/234 (44%), Positives = 129/234 (55%), Gaps = 38/234 (16%)

Query: 2   KVLIVFDDVTCFTQLESLIGSLDWLTPVSRIIITTRNKQVLRNWEVRKIYEIEALEYHHA 61
           KVL+  DDV   TQLE LIG  +W  P SRIIITTR K +L   EV  IYE++ L +H A
Sbjct: 302 KVLVFLDDVDELTQLEHLIGKHNWFGPGSRIIITTRKKDLLTRHEVNDIYEVKKLNFHEA 361

Query: 62  LDLFSRHAFKRNHLDVGYEKLSSNVMKCAQG----------------------------- 92
           L LF R+AFK++HL  GY  LS  V++ A G                             
Sbjct: 362 LQLFCRYAFKQHHLKEGYADLSHQVVRYADGLPLALKVLGSLLFGKRLPNWKSELRKLEK 421

Query: 93  --------VLKISYDGLDDKEKNIFLDVACFFQGQDVNLVMNFLNASGFYPEIGISFLVD 144
                   VLKIS+DGLD  ++ IFLD+ACFF+G DV +V   L+ S F  E GI+ LVD
Sbjct: 422 VPNMEIVNVLKISFDGLDYTQRMIFLDIACFFKGGDVEIVSRILDGSEFNAESGINALVD 481

Query: 145 KSLIVISNNNKITMHDLKQEFGQEIIQEESIN-PENRSRLWHHKDTYEVLTYNT 197
           +  I IS +  I MHDL  + G+ I+ EE  N P  RSRLW H D Y VL  NT
Sbjct: 482 RCFITISKDKTIEMHDLLAQMGKGIVDEECPNEPGERSRLWRHTDIYRVLKRNT 535

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|297734814|emb|CBI17048.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|147774169|emb|CAN63551.1| hypothetical protein VITISV_032106 [Vitis vinifera] Back     alignment and taxonomy information
>gi|359493572|ref|XP_002270741.2| PREDICTED: uncharacterized protein LOC100261885 [Vitis vinifera] Back     alignment and taxonomy information
>gi|357468563|ref|XP_003604566.1| Disease resistance protein [Medicago truncatula] gi|355505621|gb|AES86763.1| Disease resistance protein [Medicago truncatula] Back     alignment and taxonomy information
>gi|357468645|ref|XP_003604607.1| TIR-NBS-LRR RCT1 resistance protein [Medicago truncatula] gi|355505662|gb|AES86804.1| TIR-NBS-LRR RCT1 resistance protein [Medicago truncatula] Back     alignment and taxonomy information
>gi|193584700|gb|ACF19650.1| TIR-NBS-LRR RCT1 resistance protein [Medicago truncatula] Back     alignment and taxonomy information
>gi|357468653|ref|XP_003604611.1| TIR-NBS-LRR RCT1-like resistance protein [Medicago truncatula] gi|355505666|gb|AES86808.1| TIR-NBS-LRR RCT1-like resistance protein [Medicago truncatula] Back     alignment and taxonomy information
>gi|359493570|ref|XP_002270429.2| PREDICTED: uncharacterized protein LOC100253289 [Vitis vinifera] Back     alignment and taxonomy information
>gi|193584702|gb|ACF19651.1| TIR-NBS-LRR RCT1-like resistance protein [Medicago sativa] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query197
UNIPROTKB|Q40392 1144 N "TMV resistance protein N" [ 0.522 0.090 0.432 4.6e-34
TAIR|locus:2122199 1607 AT4G36140 [Arabidopsis thalian 0.456 0.056 0.505 1.1e-31
TAIR|locus:2175991 1294 AT5G17680 [Arabidopsis thalian 0.527 0.080 0.415 4e-30
TAIR|locus:2081790 1253 AT3G51560 [Arabidopsis thalian 0.532 0.083 0.354 5e-30
TAIR|locus:2122955 1309 AT4G19500 [Arabidopsis thalian 0.538 0.080 0.476 1e-29
TAIR|locus:2146243 900 AT5G18360 [Arabidopsis thalian 0.593 0.13 0.403 1.3e-29
TAIR|locus:2155189 980 AT5G49140 [Arabidopsis thalian 0.614 0.123 0.357 1.2e-28
TAIR|locus:2136108 1095 AT4G11170 [Arabidopsis thalian 0.532 0.095 0.420 1.1e-27
TAIR|locus:2151491 1123 AT5G46450 [Arabidopsis thalian 0.522 0.091 0.419 9.8e-26
TAIR|locus:2167457 1191 AT5G36930 [Arabidopsis thalian 0.507 0.083 0.443 1.7e-25
UNIPROTKB|Q40392 N "TMV resistance protein N" [Nicotiana glutinosa (taxid:35889)] Back     alignment and assigned GO terms
 Score = 239 (89.2 bits), Expect = 4.6e-34, Sum P(2) = 4.6e-34
 Identities = 45/104 (43%), Positives = 70/104 (67%)

Query:    94 LKISYDGLDDKEKNIFLDVACFFQGQDVNLVMNFLNASGFYPEIGISFLVDKSLIVISNN 153
             LKISYDGL+ K++ +FLD+ACF +G++ + ++  L +     E G+  L+DKSL+ IS  
Sbjct:   423 LKISYDGLEPKQQEMFLDIACFLRGEEKDYILQILESCHIGAEYGLRILIDKSLVFISEY 482

Query:   154 NKITMHDLKQEFGQEIIQEESINPENRSRLWHHKDTYEVLTYNT 197
             N++ MHDL Q+ G+ I+  +  +P  RSRLW  K+  EV++ NT
Sbjct:   483 NQVQMHDLIQDMGKYIVNFQK-DPGERSRLWLAKEVEEVMSNNT 525
GO:0005515 "protein binding" evidence=IPI
TAIR|locus:2122199 AT4G36140 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2175991 AT5G17680 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2081790 AT3G51560 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2122955 AT4G19500 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2146243 AT5G18360 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2155189 AT5G49140 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2136108 AT4G11170 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2151491 AT5G46450 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2167457 AT5G36930 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
GSVIVG00032057001
SubName- Full=Chromosome chr18 scaffold_61, whole genome shotgun sequence; (902 aa)
(Vitis vinifera)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query197
PLN03210 1153 PLN03210, PLN03210, Resistant to P 1e-31
pfam00931285 pfam00931, NB-ARC, NB-ARC domain 4e-08
>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P Back     alignment and domain information 
 Score =  120 bits (302), Expect = 1e-31
 Identities = 79/234 (33%), Positives = 111/234 (47%), Gaps = 39/234 (16%)

Query: 2   KVLIVFDDVTCFTQLESLIGSLDWLTPVSRIIITTRNKQVLRNWEVRKIYEIEALEYHHA 61
           KVLI  DD+     L++L G   W    SRII+ T++K  LR   +  IYE+       A
Sbjct: 297 KVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELA 356

Query: 62  LDLFSRHAFKRNHLDVGYEKLSSNVMKCA------------------------------- 90
           L++F R AFK+N    G+ +L+S V   A                               
Sbjct: 357 LEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRN 416

Query: 91  ------QGVLKISYDGLDD-KEKNIFLDVACFFQGQDVNLVMNFLNASGFYPEIGISFLV 143
                 +  L++SYDGL++ K+K IF  +AC F G+ VN +   L  S     IG+  LV
Sbjct: 417 GLDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLV 476

Query: 144 DKSLIVISNNNKITMHDLKQEFGQEIIQEESINPENRSRLWHHKDTYEVLTYNT 197
           DKSLI +  +  + MH L QE G+EI++ +S  P  R  L   KD  +VL  NT
Sbjct: 477 DKSLIHVREDI-VEMHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNT 529

syringae 6; Provisional. Length = 1153
>gnl|CDD|216202 pfam00931, NB-ARC, NB-ARC domain Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 197
KOG4658 889 consensus Apoptotic ATPase [Signal transduction me 100.0
PLN03210 1153 Resistant to P. syringae 6; Provisional 100.0
PF00931287 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is 99.92
PRK04841 903 transcriptional regulator MalT; Provisional 98.61
TIGR00635305 ruvB Holliday junction DNA helicase, RuvB subunit. 97.54
PRK00080328 ruvB Holliday junction DNA helicase RuvB; Reviewed 97.43
PF05729166 NACHT: NACHT domain 97.32
COG2909 894 MalT ATP-dependent transcriptional regulator [Tran 97.02
COG3903414 Predicted ATPase [General function prediction only 96.78
PRK06893229 DNA replication initiation factor; Validated 96.77
PF01637234 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 95.59
PF13173128 AAA_14: AAA domain 95.44
PRK00411394 cdc6 cell division control protein 6; Reviewed 94.58
TIGR00678188 holB DNA polymerase III, delta' subunit. At positi 93.84
COG3899 849 Predicted ATPase [General function prediction only 92.84
PRK09087226 hypothetical protein; Validated 92.72
PRK08727233 hypothetical protein; Validated 92.66
TIGR03015269 pepcterm_ATPase putative secretion ATPase, PEP-CTE 92.31
PRK05564313 DNA polymerase III subunit delta'; Validated 91.93
PRK09112351 DNA polymerase III subunit delta'; Validated 91.59
TIGR03420226 DnaA_homol_Hda DnaA regulatory inactivator Hda. Me 91.54
PRK13342 413 recombination factor protein RarA; Reviewed 91.41
PRK08084235 DNA replication initiation factor; Provisional 91.16
PRK06645 507 DNA polymerase III subunits gamma and tau; Validat 91.1
TIGR02928365 orc1/cdc6 family replication initiation protein. M 91.09
PRK07003 830 DNA polymerase III subunits gamma and tau; Validat 90.94
PRK12323 700 DNA polymerase III subunits gamma and tau; Provisi 90.84
PRK07471365 DNA polymerase III subunit delta'; Validated 90.69
COG2256 436 MGS1 ATPase related to the helicase subunit of the 90.02
PRK14961363 DNA polymerase III subunits gamma and tau; Provisi 89.95
PRK14963 504 DNA polymerase III subunits gamma and tau; Provisi 89.88
PRK06620214 hypothetical protein; Validated 89.65
TIGR02397355 dnaX_nterm DNA polymerase III, subunit gamma and t 89.26
PRK12402337 replication factor C small subunit 2; Reviewed 88.66
PRK05642234 DNA replication initiation factor; Validated 87.01
PRK05707328 DNA polymerase III subunit delta'; Validated 85.96
PLN03025319 replication factor C subunit; Provisional 85.52
PRK07940394 DNA polymerase III subunit delta'; Validated 84.92
PRK00440319 rfc replication factor C small subunit; Reviewed 84.68
COG1373398 Predicted ATPase (AAA+ superfamily) [General funct 84.64
TIGR01242364 26Sp45 26S proteasome subunit P45 family. Many pro 84.23
PF02463220 SMC_N: RecF/RecN/SMC N terminal domain; InterPro: 83.71
PRK04195 482 replication factor C large subunit; Provisional 83.04
PRK14960 702 DNA polymerase III subunits gamma and tau; Provisi 82.67
PRK13341 725 recombination factor protein RarA/unknown domain f 82.32
PRK14962 472 DNA polymerase III subunits gamma and tau; Provisi 81.89
PRK14951 618 DNA polymerase III subunits gamma and tau; Provisi 81.15
PRK14957 546 DNA polymerase III subunits gamma and tau; Provisi 80.79
PF00308219 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013 80.73
PRK14959 624 DNA polymerase III subunits gamma and tau; Provisi 80.35
>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms] Back     alignment and domain information 
Probab=100.00  E-value=1e-36  Score=274.86  Aligned_cols=171  Identities=26%  Similarity=0.334  Sum_probs=156.9

Q ss_pred             CEEEEEEeCCCChHHHHHhhccCCCCCCCcEEEEEeCChHHHHh-cCCceeEecCCCChHHHHHHHHhhcCCCC-CCChh
Q 041863            1 MKVLIVFDDVTCFTQLESLIGSLDWLTPVSRIIITTRNKQVLRN-WEVRKIYEIEALEYHHALDLFSRHAFKRN-HLDVG   78 (197)
Q Consensus         1 kr~LlVLDdv~~~~~~~~l~~~~~~~~~gs~iivTTR~~~v~~~-~~~~~~~~l~~L~~~~a~~L~~~~a~~~~-~~~~~   78 (197)
                      |||||||||||+..+|+.+..++|...+||+|++|||++.|+.. +++...+++..|++++||+||.+.+|... ...+.
T Consensus       261 krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~  340 (889)
T KOG4658|consen  261 KRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSHPD  340 (889)
T ss_pred             CceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhcccccccccc
Confidence            79999999999999999999999988889999999999999999 78888999999999999999999998774 33345


Q ss_pred             HHHHHHHHHHHccC---------------------------------------------cccccccCCCHHhHHHHHHhh
Q 041863           79 YEKLSSNVMKCAQG---------------------------------------------VLKISYDGLDDKEKNIFLDVA  113 (197)
Q Consensus        79 ~~~~~~~i~~~c~g---------------------------------------------~l~~s~~~L~~~~k~~fl~la  113 (197)
                      .+.+|++++++|+|                                             ++++||+.||++.|.||+|||
T Consensus       341 i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~~lK~CFLyca  420 (889)
T KOG4658|consen  341 IEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPEELKSCFLYCA  420 (889)
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhHHHHHHHHhhc
Confidence            89999999999999                                             889999999999999999999


Q ss_pred             cCCCC--CCHHHHHHHHHHcCCCc------------ccchHHHhhCcCceeecC----CcEEecHHHHHHHHHHHh
Q 041863          114 CFFQG--QDVNLVMNFLNASGFYP------------EIGISFLVDKSLIVISNN----NKITMHDLKQEFGQEIIQ  171 (197)
Q Consensus       114 ~fp~~--~~~~~l~~~w~~~g~~~------------~~~l~~L~~~sll~~~~~----~~~~mHdlv~~~a~~~~~  171 (197)
                      +||++  ++.+.++.+|+|||++.            ..++++|++++|++....    ..|+|||+|||+|..++.
T Consensus       421 lFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~~~kmHDvvRe~al~ias  496 (889)
T KOG4658|consen  421 LFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDEGRKETVKMHDVVREMALWIAS  496 (889)
T ss_pred             cCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcccccceeEEEeeHHHHHHHHHHhc
Confidence            99999  59999999999999763            457999999999998753    349999999999999999

>PLN03210 Resistant to P Back     alignment and domain information
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals [] Back     alignment and domain information
>PRK04841 transcriptional regulator MalT; Provisional Back     alignment and domain information
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit Back     alignment and domain information
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed Back     alignment and domain information
>PF05729 NACHT: NACHT domain Back     alignment and domain information
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription] Back     alignment and domain information
>COG3903 Predicted ATPase [General function prediction only] Back     alignment and domain information
>PRK06893 DNA replication initiation factor; Validated Back     alignment and domain information
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP Back     alignment and domain information
>PF13173 AAA_14: AAA domain Back     alignment and domain information
>PRK00411 cdc6 cell division control protein 6; Reviewed Back     alignment and domain information
>TIGR00678 holB DNA polymerase III, delta' subunit Back     alignment and domain information
>COG3899 Predicted ATPase [General function prediction only] Back     alignment and domain information
>PRK09087 hypothetical protein; Validated Back     alignment and domain information
>PRK08727 hypothetical protein; Validated Back     alignment and domain information
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily Back     alignment and domain information
>PRK05564 DNA polymerase III subunit delta'; Validated Back     alignment and domain information
>PRK09112 DNA polymerase III subunit delta'; Validated Back     alignment and domain information
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda Back     alignment and domain information
>PRK13342 recombination factor protein RarA; Reviewed Back     alignment and domain information
>PRK08084 DNA replication initiation factor; Provisional Back     alignment and domain information
>PRK06645 DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>TIGR02928 orc1/cdc6 family replication initiation protein Back     alignment and domain information
>PRK07003 DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK07471 DNA polymerase III subunit delta'; Validated Back     alignment and domain information
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK06620 hypothetical protein; Validated Back     alignment and domain information
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau Back     alignment and domain information
>PRK12402 replication factor C small subunit 2; Reviewed Back     alignment and domain information
>PRK05642 DNA replication initiation factor; Validated Back     alignment and domain information
>PRK05707 DNA polymerase III subunit delta'; Validated Back     alignment and domain information
>PLN03025 replication factor C subunit; Provisional Back     alignment and domain information
>PRK07940 DNA polymerase III subunit delta'; Validated Back     alignment and domain information
>PRK00440 rfc replication factor C small subunit; Reviewed Back     alignment and domain information
>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only] Back     alignment and domain information
>TIGR01242 26Sp45 26S proteasome subunit P45 family Back     alignment and domain information
>PF02463 SMC_N: RecF/RecN/SMC N terminal domain; InterPro: IPR003395 This domain is found at the N terminus of structural maintenance of chromosomes (SMC) proteins, which function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression [] Back     alignment and domain information
>PRK04195 replication factor C large subunit; Provisional Back     alignment and domain information
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed Back     alignment and domain information
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication Back     alignment and domain information
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query197
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-16
2a5y_B549 CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis 5e-11
1z6t_A 591 APAF-1, apoptotic protease activating factor 1; ca 4e-09
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
 Score = 75.7 bits (185), Expect = 2e-16
 Identities = 35/239 (14%), Positives = 73/239 (30%), Gaps = 74/239 (30%)

Query: 2   KVLIVFDDVTCFTQLESLIGSLDWLTPVSRIIITTRNKQV------LRNWEVRKIYEIEA 55
             L+V  +V    Q      + +      +I++TTR KQV           +   +    
Sbjct: 245 NCLLVLLNV----QNAKAWNAFN---LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT 297

Query: 56  LEYHHALDLFSRH------------------------AFKRNHLD-------VGYEKLSS 84
           L       L  ++                           R+ L        V  +KL++
Sbjct: 298 LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTT 357

Query: 85  NVMKCAQGVLKISYDGLDDKE-KNIFLDVACFFQGQDVN-----LVMNFLNASGFYPEIG 138
                   +++ S + L+  E + +F  ++ F      +     L + + +       + 
Sbjct: 358 --------IIESSLNVLEPAEYRKMFDRLSVF--PPSAHIPTILLSLIWFDVIKSDVMVV 407

Query: 139 ISFLVDKSLIVISNNN-KITMHDLKQEFGQEIIQEESINPENRSRLWHHK---DTYEVL 193
           ++ L   SL+        I++  +  E          +  EN   L  H+   D Y + 
Sbjct: 408 VNKLHKYSLVEKQPKESTISIPSIYLEL--------KVKLENEYAL--HRSIVDHYNIP 456
>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Length = 549 Back     alignment and structure
>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query197
2a5y_B549 CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis 99.97
3sfz_A 1249 APAF-1, apoptotic peptidase activating factor 1; a 99.95
1z6t_A 591 APAF-1, apoptotic protease activating factor 1; ca 99.92
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 99.91
2qen_A350 Walker-type ATPase; unknown function; HET: ADP; 2. 98.39
2fna_A357 Conserved hypothetical protein; structural genomic 98.29
1w5s_A412 Origin recognition complex subunit 2 ORC2; replica 98.11
1fnn_A389 CDC6P, cell division control protein 6; ORC1, AAA 97.3
1njg_A250 DNA polymerase III subunit gamma; rossman-like fol 97.06
2qby_A386 CDC6 homolog 1, cell division control protein 6 ho 96.88
2qby_B384 CDC6 homolog 3, cell division control protein 6 ho 96.86
2v1u_A387 Cell division control protein 6 homolog; DNA repli 96.6
2chg_A226 Replication factor C small subunit; DNA-binding pr 95.79
1sxj_B323 Activator 1 37 kDa subunit; clamp loader, processi 95.14
1hqc_A324 RUVB; extended AAA-ATPase domain, complex with nuc 93.68
2chq_A319 Replication factor C small subunit; DNA-binding pr 92.73
1iqp_A327 RFCS; clamp loader, extended AAA-ATPase domain, co 92.69
1jr3_A373 DNA polymerase III subunit gamma; processivity, pr 90.63
1a5t_A334 Delta prime, HOLB; zinc finger, DNA replication; 2 89.31
3pfi_A338 Holliday junction ATP-dependent DNA helicase RUVB; 87.41
3bos_A242 Putative DNA replication factor; P-loop containing 86.27
1sxj_E354 Activator 1 40 kDa subunit; clamp loader, processi 83.78
1d2n_A272 N-ethylmaleimide-sensitive fusion protein; hexamer 80.76
>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Back     alignment and structure
Probab=99.97  E-value=4e-32  Score=235.97  Aligned_cols=165  Identities=14%  Similarity=0.182  Sum_probs=137.6

Q ss_pred             CEEEEEEeCCCChHHHHHhhccCCCCCCCcEEEEEeCChHHHHhcC-CceeEecCCCChHHHHHHHHhhcCCCCCCChhH
Q 041863            1 MKVLIVFDDVTCFTQLESLIGSLDWLTPVSRIIITTRNKQVLRNWE-VRKIYEIEALEYHHALDLFSRHAFKRNHLDVGY   79 (197)
Q Consensus         1 kr~LlVLDdv~~~~~~~~l~~~~~~~~~gs~iivTTR~~~v~~~~~-~~~~~~l~~L~~~~a~~L~~~~a~~~~~~~~~~   79 (197)
                      ||+||||||||+.+++ .+ +.    .+||+||||||++.++..++ ...+|++++|+.++||+||.++++.... .+.+
T Consensus       243 kr~LlVLDdv~~~~~~-~~-~~----~~gs~ilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~  315 (549)
T 2a5y_B          243 PNTLFVFDDVVQEETI-RW-AQ----ELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPV-GEKE  315 (549)
T ss_dssp             TTEEEEEEEECCHHHH-HH-HH----HTTCEEEEEESBGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC---CHH
T ss_pred             CcEEEEEECCCCchhh-cc-cc----cCCCEEEEEcCCHHHHHHcCCCCeEEECCCCCHHHHHHHHHHHhcCCCC-chhH
Confidence            4899999999998876 22 21    26999999999999998876 4468999999999999999999987643 3578


Q ss_pred             HHHHHHHHHHccC-------------------------------------cccccccCCCHHhHHHHH-----------H
Q 041863           80 EKLSSNVMKCAQG-------------------------------------VLKISYDGLDDKEKNIFL-----------D  111 (197)
Q Consensus        80 ~~~~~~i~~~c~g-------------------------------------~l~~s~~~L~~~~k~~fl-----------~  111 (197)
                      .+++++|+++|||                                     ++.+||+.||++.|.||+           |
T Consensus       316 ~~~~~~I~~~c~GlPLAl~~~g~~l~~~~w~~~~~l~~~l~~~~~~~i~~~l~~Sy~~L~~~lk~~f~~Ls~~er~l~~~  395 (549)
T 2a5y_B          316 EDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAF  395 (549)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHHCSSTTCCCSSSSSSSHHHHHHHHHHTSCHHHHHHTTG
T ss_pred             HHHHHHHHHHhCCChHHHHHHHHHhccchHHHHHHhHHHhhcccHHHHHHHHhcccccccHHHHHHHhccchhhhhHhhh
Confidence            8899999999999                                     678999999999999999           9


Q ss_pred             hhcCCCCCCHHHHHHHHHHc--CCCcc-----------cchHHHhhCcCceeecC---CcEEecHHHHHHHHHHHhhhc
Q 041863          112 VACFFQGQDVNLVMNFLNAS--GFYPE-----------IGISFLVDKSLIVISNN---NKITMHDLKQEFGQEIIQEES  174 (197)
Q Consensus       112 la~fp~~~~~~~l~~~w~~~--g~~~~-----------~~l~~L~~~sll~~~~~---~~~~mHdlv~~~a~~~~~~e~  174 (197)
                      ||+||++++..  +.+|+++  |++..           .+|++|+++||+++...   ++|+|||+||+||++++.+++
T Consensus       396 ls~fp~~~~i~--i~~w~a~~~G~i~~~~~~~~~~~~~~~l~~L~~rsLl~~~~~~~~~~~~mHdlv~~~a~~~~~~~~  472 (549)
T 2a5y_B          396 AVVMPPGVDIP--VKLWSCVIPVDICSNEEEQLDDEVADRLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQT  472 (549)
T ss_dssp             GGSSCTTCCEE--HHHHHHHSCC-------CCCTHHHHHHHHHTTTBSSCSEEECSSSCEEECCHHHHHHHHTTSCTHH
T ss_pred             eeeeCCCCeee--eeeeeeeccceeccCCCCCCHHHHHHHHHHHHHcCCeeEecCCCceEEEeChHHHHHHHHHHHHHH
Confidence            99999987555  8899999  77632           26999999999998753   359999999999998877664
>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A* Back     alignment and structure
>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Back     alignment and structure
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi} Back     alignment and structure
>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20 Back     alignment and structure
>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A* Back     alignment and structure
>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20 Back     alignment and structure
>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A* Back     alignment and structure
>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus} Back     alignment and structure
>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus} Back     alignment and structure
>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix} Back     alignment and structure
>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus} Back     alignment and structure
>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20 Back     alignment and structure
>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C* Back     alignment and structure
>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A Back     alignment and structure
>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20 Back     alignment and structure
>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B* Back     alignment and structure
>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E* Back     alignment and structure
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp} Back     alignment and structure
>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A Back     alignment and structure
>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20 Back     alignment and structure
>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A* Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 197
d2a5yb3277 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor 9e-08
>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277 Back     information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 48.7 bits (115), Expect = 9e-08
 Identities = 15/89 (16%), Positives = 29/89 (32%), Gaps = 7/89 (7%)

Query: 2   KVLIVFDDVTCFTQLESLIGSLDWLTPVSRIIITTRNKQVLRN-WEVRKIYEIEALEYHH 60
             L VFDDV                    R ++TTR+ ++     +  +  E+ +LE   
Sbjct: 136 NTLFVFDDV------VQEETIRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDE 189

Query: 61  ALDLFSRHAFKRNHLDVGYEKLSSNVMKC 89
             D    +       +   + L+  +   
Sbjct: 190 CYDFLEAYGMPMPVGEKEEDVLNKTIELS 218

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query197
d2a5yb3277 CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI 99.86
d1a5ta2207 delta prime subunit of DNA polymerase III, N-domai 91.57
d1njfa_239 delta prime subunit of DNA polymerase III, N-domai 90.08
d1sxjc2227 Replication factor C3 {Baker's yeast (Saccharomyce 85.79
d1sxje2252 Replication factor C5 {Baker's yeast (Saccharomyce 85.66
d2fnaa2283 Archaeal ATPase SSO1545 {Sulfolobus solfataricus [ 83.19
d1sxjd2237 Replication factor C2 {Baker's yeast (Saccharomyce 80.32
>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=99.86  E-value=3.8e-22  Score=157.56  Aligned_cols=105  Identities=18%  Similarity=0.189  Sum_probs=92.0

Q ss_pred             CEEEEEEeCCCChHHHHHhhccCCCCCCCcEEEEEeCChHHHHhcCCc-eeEecCCCChHHHHHHHHhhcCCCCCCChhH
Q 041863            1 MKVLIVFDDVTCFTQLESLIGSLDWLTPVSRIIITTRNKQVLRNWEVR-KIYEIEALEYHHALDLFSRHAFKRNHLDVGY   79 (197)
Q Consensus         1 kr~LlVLDdv~~~~~~~~l~~~~~~~~~gs~iivTTR~~~v~~~~~~~-~~~~l~~L~~~~a~~L~~~~a~~~~~~~~~~   79 (197)
                      ||+|+||||||+..+|+.+..      .||+||||||++.++..+... +.|++++|+.++|++||.++++..... +..
T Consensus       135 kr~LlVLDDv~~~~~~~~~~~------~~srilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~-~~~  207 (277)
T d2a5yb3         135 PNTLFVFDDVVQEETIRWAQE------LRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVG-EKE  207 (277)
T ss_dssp             TTEEEEEEEECCHHHHHHHHH------TTCEEEEEESBGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC---CHH
T ss_pred             CCeeEecchhhHHhhhhhhcc------cCceEEEEeehHHHHHhcCCCCceEECCCCCHHHHHHHHHHHhCCccCc-hhh
Confidence            589999999999999988754      489999999999999887544 689999999999999999998866544 356


Q ss_pred             HHHHHHHHHHccC-------------------------------------cccccccCCCHHhHHHHHHh
Q 041863           80 EKLSSNVMKCAQG-------------------------------------VLKISYDGLDDKEKNIFLDV  112 (197)
Q Consensus        80 ~~~~~~i~~~c~g-------------------------------------~l~~s~~~L~~~~k~~fl~l  112 (197)
                      .+++++|+++|||                                     ++.+||+.||+++|.||.++
T Consensus       208 ~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~~~~~~v~~il~~sY~~L~~~lk~c~~~l  277 (277)
T d2a5yb3         208 EDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVL  277 (277)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHHCSSTTCCCSSSSSSSHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccHHHHHHHHhC
Confidence            7889999999999                                     89999999999999999864
>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]} Back     information, alignment and structure
>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure