Citrus Sinensis ID: 016336

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-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-
MAPIRGSKKRRKIEKKAEGNASASGSSEQEASFVWWLEYSKRINGFQSPLKGLDKFKSVFKISRRTFDYICSLVEEKMVVKTGGFSFTSGKHLSFRDQVAIALRRLSSGDSLMSIGDSCGLHHSTVSQVTWRFVEAMEQKGLQHLQWPSETEMAEIKSKFEKIQGLPNCCGVIDTTHILMCLPSSDPTNNLWLDHMKNHSMVLQAIVDPEMRFRDIVTGWPGKMEDRLIFRSSNFYKLCEEGKRLNGKILELSGGSEIREYIIGDSGYPFLPYLVTPYKGQELPELGSEFNRRHSASHLVAQRALARLKDKWKIIQGVMWRPDKHKLPRIILVCCLLHNIVIDLEDEMQDEIPLLHDHDSGYHQQVCETADMEGEYLRDKLSLYLSGKLPP
cccccccHHHHHHHHHHcccccccccccccccccHHHcccccccccccccccHHHHHHHccccHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHcccccHHHHHHHHcccHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHcccccEEEEEccEEEEccccccccccccccccccccEEEEEEEcccccEEEEEEcccccccHHHHHHccHHHHHHHHccccccccccccccccccEEEEEccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccc
ccccHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHcccccccccHHHHHHHHcccHHHHHHHHHHHHHHccccccccHHcccccccHHHHHHHHHHHHHccccHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccEEEEEccEEEEEccccHHHcccccccccccEEEEEEEEccccEEEEEEccccccccHHHHHHccHHHHHHHcccccccccEEccccccccEEEEEccccccccEEEcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHccHcccccccccccccccccccccccccHHHHHHHHHHHHHHHHHccc
mapirgskkRRKIEKKaegnasasgsseqeASFVWWLEYSKRIngfqsplkgldkfkSVFKISRRTFDYICSLVEEKMvvktggfsftsgkhlsfRDQVAIALRRLssgdslmsigdscglhhstVSQVTWRFVEAMEQKglqhlqwpsetEMAEIKSKFEKiqglpnccgvidtthilmclpssdptnnlwldHMKNHSMVLQAivdpemrfrdivtgwpgkmedrlifrsSNFYKLCEEGKRLNGKILelsggseireyiigdsgypflpylvtpykgqelpelgsefnrrhSASHLVAQRALARLKDKWKIIQgvmwrpdkhklprIILVCCLLHNIVIDLEdemqdeipllhdhdsgyhqQVCETADMEGEYLRDKLSLylsgklpp
mapirgskkrrkiekkaegnasasgsseqeASFVWWLEYSKRINgfqsplkgldKFKSVFKISRRTFDYICSLVEEKMVVKTGGfsftsgkhlsfRDQVAIALRRLSSGDSLMSIGDSCGLHHSTVSQVTWRFVEAMEQKGlqhlqwpsETEMAEIKSKFEKIQGLPNCCGVIDTTHILMCLPSSDPTNNLWLDHMKNHSMVLQAIVDPEMRFRDIVTGWPGKMEDRLIFRSSNFYKLCEEGKRLNGKILELSGGSEIREYIIGDSGYPFLPYLVTPYKGQELPELGSEFNRRHSASHLVAQRALARLKDKWKIIQGvmwrpdkhklPRIILVCCLLHNIVIDLEDEMQDEIPLLHDHDSGYHQQVCETADMEGEYLRDKlslylsgklpp
MAPIRGSKKRRKIEKKaegnasasgsseqeasFVWWLEYSKRINGFQSPLKGLDKFKSVFKISRRTFDYICSLVEEKMVVKTGGFSFTSGKHLSFRDQVAIALRRLSSGDSLMSIGDSCGLHHSTVSQVTWRFVEAMEQKGLQHLQWPSETEMAEIKSKFEKIQGLPNCCGVIDTTHILMCLPSSDPTNNLWLDHMKNHSMVLQAIVDPEMRFRDIVTGWPGKMEDRLIFRSSNFYKLCEEGKRLNGKILELSGGSEIREYIIGDSGYPFLPYLVTPYKGQELPELGSEFNRRHSASHLVAQRALARLKDKWKIIQGVMWRPDKHKLPRIILVCCLLHNIVIDLEDEMQDEIPLLHDHDSGYHQQVCETADMEGEYLRDKLSLYLSGKLPP
*******************************SFVWWLEYSKRINGFQSPLKGLDKFKSVFKISRRTFDYICSLVEEKMVVKTGGFSFTSGKHLSFRDQVAIALRRLSSGDSLMSIGDSCGLHHSTVSQVTWRFVEAMEQKGLQHLQWPSETEMAEIKSKFEKIQGLPNCCGVIDTTHILMCLPSSDPTNNLWLDHMKNHSMVLQAIVDPEMRFRDIVTGWPGKMEDRLIFRSSNFYKLCEEGKRLNGKILELSGGSEIREYIIGDSGYPFLPYLVTPYKGQELPEL*********ASHLVAQRALARLKDKWKIIQGVMWRPDKHKLPRIILVCCLLHNIVIDLEDEMQDEIPLLHDHDSGYHQQVCETADMEGEYLRDKLSLYL******
**********************************WWLEYSKRINGFQSPLKGLDKFKSVFKISRRTFDYICSLVEEKMVVKTGGFSFT*GKHLSFRDQVAIALRRLSSGDSLMSIGDSCGLHHSTVSQVTWRFVEAMEQKGLQHLQWPSETEMAEIKSKFEKIQGLPNCCGVIDTTHILMCLPSSDPTNNLWLDHMKNHSMVLQAIVDPEMRFRDIVTGWPGKMEDRLIFRSSNFYKLCEEGKRLNGKILELSGGSEIREYIIGDSGYPFLPYLVTPYKGQELPELGSEFNRRHSASHLVAQRALARLKDKWKIIQGVMWRPDKHKLPRIILVCCLLHNIVIDLEDEMQDEIPLLH*******************YLRDKLSLYLSGKL**
******************************ASFVWWLEYSKRINGFQSPLKGLDKFKSVFKISRRTFDYICSLVEEKMVVKTGGFSFTSGKHLSFRDQVAIALRRLSSGDSLMSIGDSCGLHHSTVSQVTWRFVEAMEQKGLQHLQWPSETEMAEIKSKFEKIQGLPNCCGVIDTTHILMCLPSSDPTNNLWLDHMKNHSMVLQAIVDPEMRFRDIVTGWPGKMEDRLIFRSSNFYKLCEEGKRLNGKILELSGGSEIREYIIGDSGYPFLPYLVTPYKGQELPELGSEFNRRHSASHLVAQRALARLKDKWKIIQGVMWRPDKHKLPRIILVCCLLHNIVIDLEDEMQDEIPLLHDHDSGYHQQVCETADMEGEYLRDKLSLYLSGKLPP
****************************QEASFVWWLEYSKRINGFQSPLKGLDKFKSVFKISRRTFDYICSLVEEKMVVKTGGFSFTSGKHLSFRDQVAIALRRLSSGDSLMSIGDSCGLHHSTVSQVTWRFVEAMEQKGLQHLQWPSETEMAEIKSKFEKIQGLPNCCGVIDTTHILMCLPSSDPTNNLWLDHMKNHSMVLQAIVDPEMRFRDIVTGWPGKMEDRLIFRSSNFYKLCEEGKRLNGKILELSGGSEIREYIIGDSGYPFLPYLVTPYKGQELPELGSEFNRRHSASHLVAQRALARLKDKWKIIQGVMWRPDKHKLPRIILVCCLLHNIVIDLEDEMQDEIPLLHDHDSGYHQQVCETADMEGEYLRDKLSLYLSGKLPP
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MAPIRGSKKRRKIEKKAEGNASASGSSEQEASFVWWLEYSKRINGFQSPLKGLDKFKSVFKISRRTFDYICSLVEEKMVVKTGGFSFTSGKHLSFRDQVAIALRRLSSGDSLMSIGDSCGLHHSTVSQVTWRFVEAMEQKGLQHLQWPSETEMAEIKSKFEKIQGLPNCCGVIDTTHILMCLPSSDPTNNLWLDHMKNHSMVLQAIVDPEMRFRDIVTGWPGKMEDRLIFRSSNFYKLCEEGKRLNGKILELSGGSEIREYIIGDSGYPFLPYLVTPYKGQELPELGSEFNRRHSASHLVAQRALARLKDKWKIIQGVMWRPDKHKLPRIILVCCLLHNIVIDLEDEMQDEIPLLHDHDSGYHQQVCETADMEGEYLRDKLSLYLSGKLPP
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 ?
Query391 2.2.26 [Sep-21-2011]
Q6AZB8349 Putative nuclease HARBI1 no no 0.716 0.802 0.244 3e-24
Q8BR93349 Putative nuclease HARBI1 yes no 0.787 0.882 0.239 7e-22
B0BN95349 Putative nuclease HARBI1 yes no 0.685 0.767 0.235 1e-20
Q96MB7349 Putative nuclease HARBI1 yes no 0.685 0.767 0.235 1e-20
Q17QR8349 Putative nuclease HARBI1 yes no 0.685 0.767 0.229 1e-20
Q5U538347 Putative nuclease HARBI1 N/A no 0.680 0.766 0.227 3e-17
>sp|Q6AZB8|HARB1_DANRE Putative nuclease HARBI1 OS=Danio rerio GN=harbi1 PE=2 SV=1 Back     alignment and function desciption
 Score =  113 bits (282), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 75/307 (24%), Positives = 145/307 (47%), Gaps = 27/307 (8%)

Query: 41  KRINGFQSPLKGLDKFKSVFKISRRTFDYICSLVEEKMVVKTGGFSFTSGKHLSFRDQVA 100
           K ++ F       D   + F   R    Y+  L+++ ++ +T        + +S   Q+ 
Sbjct: 20  KTLDRFDIETVSDDFLLNTFGFPREFIYYLVELLKDSLLRRT-----QRSRAISPDVQIL 74

Query: 101 IALRRLSSGDSLMSIGDSCGLHHSTVSQVTWRFVEAMEQKGLQHLQWP-SETEMAEIKSK 159
            AL   +SG     +GD+ G+  +++S+      +A+ +K  + + +   E    + K +
Sbjct: 75  AALGFYTSGSFQSKMGDAIGISQASMSRCVSNVTKALIEKAPEFIGFTRDEATKQQFKDE 134

Query: 160 FEKIQGLPNCCGVIDTTHILMCLPSSDPTNNLWLDHMKNHSMVLQAIVDPEMRFRDIVTG 219
           F +I G+PN  GV+D  HI +  P++D ++  +++    HS+  Q + D         T 
Sbjct: 135 FYRIAGIPNVTGVVDCAHIAIKAPNADDSS--YVNKKGFHSINCQLVCDARGLLLSAETH 192

Query: 220 WPGKMEDRLIFRSSNFYKLCEEGKRLNGKILELSGGSEIREYIIGDSGYPFLPYLVTPYK 279
           WPG + DR +F+ SN  KL EE +            ++   +++GD+ YP   +L+TP +
Sbjct: 193 WPGSLTDRAVFKQSNVAKLFEEQE------------NDDEGWLLGDNRYPLKKWLMTPVQ 240

Query: 280 GQELPELGSEFNRRHSASHLVAQRALARLKDKWKIIQG----VMWRPDKHKLPRIILVCC 335
             E P     +N  H+ +H +  R    ++ +++ + G    + + P+  K   II  CC
Sbjct: 241 SPESPA-DYRYNLAHTTTHEIVDRTFRAIQTRFRCLDGAKGYLQYSPE--KCSHIIQACC 297

Query: 336 LLHNIVI 342
           +LHNI +
Sbjct: 298 VLHNISL 304
Transposase-derived protein that may have nuclease activity (Potential). Does not have transposase activity.
Danio rerio (taxid: 7955)
EC: 3EC: .EC: 1EC: .EC: -EC: .EC: -
>sp|Q8BR93|HARB1_MOUSE Putative nuclease HARBI1 OS=Mus musculus GN=Harbi1 PE=2 SV=1 Back     alignment and function description
>sp|B0BN95|HARB1_RAT Putative nuclease HARBI1 OS=Rattus norvegicus GN=Harbi1 PE=2 SV=1 Back     alignment and function description
>sp|Q96MB7|HARB1_HUMAN Putative nuclease HARBI1 OS=Homo sapiens GN=HARBI1 PE=1 SV=1 Back     alignment and function description
>sp|Q17QR8|HARB1_BOVIN Putative nuclease HARBI1 OS=Bos taurus GN=HARBI1 PE=2 SV=1 Back     alignment and function description
>sp|Q5U538|HARB1_XENLA Putative nuclease HARBI1 OS=Xenopus laevis GN=harbi1 PE=2 SV=1 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 ?
Query391
225435066384 PREDICTED: putative nuclease HARBI1 [Vit 0.979 0.997 0.696 1e-163
356550247393 PREDICTED: putative nuclease HARBI1-like 0.997 0.992 0.691 1e-153
356558280395 PREDICTED: putative nuclease HARBI1-like 0.997 0.987 0.675 1e-153
449517792388 PREDICTED: LOW QUALITY PROTEIN: putative 0.979 0.987 0.664 1e-149
449462621388 PREDICTED: putative nuclease HARBI1-like 0.979 0.987 0.664 1e-149
357454103388 hypothetical protein MTR_2g096450 [Medic 0.976 0.984 0.642 1e-145
449459932392 PREDICTED: putative nuclease HARBI1-like 0.997 0.994 0.636 1e-140
255582388 591 RNA binding protein, putative [Ricinus c 0.987 0.653 0.615 1e-138
357454107390 hypothetical protein MTR_2g096480 [Medic 0.971 0.974 0.617 1e-135
225449613398 PREDICTED: putative nuclease HARBI1 [Vit 0.997 0.979 0.586 1e-134
>gi|225435066|ref|XP_002281425.1| PREDICTED: putative nuclease HARBI1 [Vitis vinifera] gi|297746131|emb|CBI16187.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  580 bits (1496), Expect = e-163,   Method: Compositional matrix adjust.
 Identities = 273/392 (69%), Positives = 326/392 (83%), Gaps = 9/392 (2%)

Query: 1   MAPIRGSKKRRKIEKKAEGNASASGSSEQEASFVWWLEYSKRINGFQSPLKGLDKFKSVF 60
           M P+RG KKRRKIEK+ E        S +E S  WW E+SKRI G  S  KGLDKF+SVF
Sbjct: 1   MGPVRGYKKRRKIEKREE--------SSEEGSVDWWDEFSKRIAGLLSSSKGLDKFESVF 52

Query: 61  KISRRTFDYICSLVEEKMVVKTGGFSFTSGKHLSFRDQVAIALRRLSSGDSLMSIGDSCG 120
           KISR+TF+YIC+LV+E M+ K G F FT+G+ +   DQVA+ALRRLSSGDSL++IGD+ G
Sbjct: 53  KISRKTFNYICALVKEDMMAKPGNFIFTNGRPMCLNDQVAVALRRLSSGDSLLTIGDAFG 112

Query: 121 LHHSTVSQVTWRFVEAMEQKGLQHLQWPS-ETEMAEIKSKFEKIQGLPNCCGVIDTTHIL 179
           L+HSTVSQVTWRFVE ME++ L HLQWPS E E+ EI SKFEKI+GLPNCCG IDTTHI+
Sbjct: 113 LNHSTVSQVTWRFVEIMEERALHHLQWPSTEPEITEITSKFEKIRGLPNCCGAIDTTHIM 172

Query: 180 MCLPSSDPTNNLWLDHMKNHSMVLQAIVDPEMRFRDIVTGWPGKMEDRLIFRSSNFYKLC 239
           MCLPS+D  N++WLD   +HSM+LQAIVDPEMRFRDIVTGWPGKM+D  + +SSNF+KLC
Sbjct: 173 MCLPSADSANSVWLDSENHHSMILQAIVDPEMRFRDIVTGWPGKMKDSSVLQSSNFFKLC 232

Query: 240 EEGKRLNGKILELSGGSEIREYIIGDSGYPFLPYLVTPYKGQELPELGSEFNRRHSASHL 299
           E+G+RLNGK +EL+ GSEI EYI+GDSGYP LP+LVTPY+G+EL E  +EFNRRH A+ +
Sbjct: 233 EKGQRLNGKKIELAEGSEISEYIVGDSGYPLLPWLVTPYQGKELSESKAEFNRRHFATRM 292

Query: 300 VAQRALARLKDKWKIIQGVMWRPDKHKLPRIILVCCLLHNIVIDLEDEMQDEIPLLHDHD 359
           VAQRALARLK+ WK+IQGVMWRPDK++LPRIILVCCLLHNIVIDLEDE+QDE+PL H HD
Sbjct: 293 VAQRALARLKEMWKVIQGVMWRPDKNRLPRIILVCCLLHNIVIDLEDEVQDEMPLSHHHD 352

Query: 360 SGYHQQVCETADMEGEYLRDKLSLYLSGKLPP 391
            GY QQ+CE+AD     +RDKLSLYLSG+LPP
Sbjct: 353 LGYRQQICESADNNASIVRDKLSLYLSGRLPP 384

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|356550247|ref|XP_003543499.1| PREDICTED: putative nuclease HARBI1-like [Glycine max] Back     alignment and taxonomy information
>gi|356558280|ref|XP_003547435.1| PREDICTED: putative nuclease HARBI1-like [Glycine max] Back     alignment and taxonomy information
>gi|449517792|ref|XP_004165928.1| PREDICTED: LOW QUALITY PROTEIN: putative nuclease HARBI1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449462621|ref|XP_004149039.1| PREDICTED: putative nuclease HARBI1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|357454103|ref|XP_003597332.1| hypothetical protein MTR_2g096450 [Medicago truncatula] gi|355486380|gb|AES67583.1| hypothetical protein MTR_2g096450 [Medicago truncatula] Back     alignment and taxonomy information
>gi|449459932|ref|XP_004147700.1| PREDICTED: putative nuclease HARBI1-like [Cucumis sativus] gi|449513511|ref|XP_004164345.1| PREDICTED: putative nuclease HARBI1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|255582388|ref|XP_002531983.1| RNA binding protein, putative [Ricinus communis] gi|223528380|gb|EEF30419.1| RNA binding protein, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|357454107|ref|XP_003597334.1| hypothetical protein MTR_2g096480 [Medicago truncatula] gi|355486382|gb|AES67585.1| hypothetical protein MTR_2g096480 [Medicago truncatula] Back     alignment and taxonomy information
>gi|225449613|ref|XP_002279396.1| PREDICTED: putative nuclease HARBI1 [Vitis vinifera] 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 ?
Query391
TAIR|locus:2099901406 AT3G55350 [Arabidopsis thalian 0.887 0.854 0.567 4.8e-110
TAIR|locus:2077259396 AT3G63270 [Arabidopsis thalian 0.895 0.883 0.477 1.3e-86
ZFIN|ZDB-GENE-050327-32415 zgc:113227 "zgc:113227" [Danio 0.813 0.766 0.299 1.1e-32
TAIR|locus:2143104502 AT5G12010 [Arabidopsis thalian 0.751 0.585 0.283 4.7e-32
ZFIN|ZDB-GENE-040608-1349 harbi1 "harbinger transposase 0.710 0.796 0.245 2.6e-24
TAIR|locus:2123874540 AT4G29780 "AT4G29780" [Arabido 0.721 0.522 0.268 7.6e-24
MGI|MGI:2443194349 Harbi1 "harbinger transposase 0.693 0.776 0.254 2.9e-23
UNIPROTKB|E2RCW9349 HARBI1 "Uncharacterized protei 0.695 0.779 0.238 3.4e-22
UNIPROTKB|F1SIA2349 HARBI1 "Uncharacterized protei 0.693 0.776 0.234 4.3e-22
UNIPROTKB|Q17QR8349 HARBI1 "Putative nuclease HARB 0.693 0.776 0.234 1.8e-21
TAIR|locus:2099901 AT3G55350 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1087 (387.7 bits), Expect = 4.8e-110, P = 4.8e-110
 Identities = 202/356 (56%), Positives = 266/356 (74%)

Query:    35 WWLEYSKRINGFQSPLKGLDKFKSVFKISRRTFDYICSLVEEKMVVKTGGFSFTSGKHLS 94
             WW  +S+RI G  +  K    F+SVFKISR+TFDYICSLV+     K   FS ++G  LS
Sbjct:    54 WWDGFSRRIYGGSTDPK---TFESVFKISRKTFDYICSLVKADFTAKPANFSDSNGNPLS 110

Query:    95 FRDQVAIALRRLSSGDSLMSIGDSCGLHHSTVSQVTWRFVEAMEQKGLQHLQWPSETEMA 154
               D+VA+ALRRL SG+SL  IG++ G++ STVSQ+TWRFVE+ME++ + HL WPS+ +  
Sbjct:   111 LNDRVAVALRRLGSGESLSVIGETFGMNQSTVSQITWRFVESMEERAIHHLSWPSKLD-- 168

Query:   155 EIKSKFEKIQGLPNCCGVIDTTHILMCLPSSDPTNNLWLDHMKNHSMVLQAIVDPEMRFR 214
             EIKSKFEKI GLPNCCG ID THI+M LP+ +P+N +WLD  KN SM LQA+VDP+MRF 
Sbjct:   169 EIKSKFEKISGLPNCCGAIDITHIVMNLPAVEPSNKVWLDGEKNFSMTLQAVVDPDMRFL 228

Query:   215 DIVTGWPGKMEDRLIFRSSNFYKLCEEGKRLNGKILELSGGSEIREYIIGDSGYPFLPYL 274
             D++ GWPG + D ++ ++S FYKL E+GKRLNG+ L LS  +E+REYI+GDSG+P LP+L
Sbjct:   229 DVIAGWPGSLNDDVVLKNSGFYKLVEKGKRLNGEKLPLSERTELREYIVGDSGFPLLPWL 288

Query:   275 VTPYKGQ--ELPELGSEFNRRHSASHLVAQRALARLKDKWKIIQGVMWRPDKHKLPRIIL 332
             +TPY+G+   LP+  +EFN+RHS +   AQ AL++LKD+W+II GVMW PD+++LPRII 
Sbjct:   289 LTPYQGKPTSLPQ--TEFNKRHSEATKAAQMALSKLKDRWRIINGVMWMPDRNRLPRIIF 346

Query:   333 VCCLLHNIVIDLEDEMQDEIPLLHDHDSGYHQQVCETADMEGEYLRDKLSLYLSGK 388
             VCCLLHNI+ID+ED+  D+ PL   HD  Y Q+ C+ AD     LRD+LS  L GK
Sbjct:   347 VCCLLHNIIIDMEDQTLDDQPLSQQHDMNYRQRSCKLADEASSVLRDELSDQLCGK 402
GO:0005634 "nucleus" evidence=ISM
GO:0016788 "hydrolase activity, acting on ester bonds" evidence=IEA
TAIR|locus:2077259 AT3G63270 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-050327-32 zgc:113227 "zgc:113227" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
TAIR|locus:2143104 AT5G12010 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040608-1 harbi1 "harbinger transposase derived 1" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
TAIR|locus:2123874 AT4G29780 "AT4G29780" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
MGI|MGI:2443194 Harbi1 "harbinger transposase derived 1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|E2RCW9 HARBI1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F1SIA2 HARBI1 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|Q17QR8 HARBI1 "Putative nuclease HARBI1" [Bos taurus (taxid:9913)] 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:
GSVIVG00024389001
SubName- Full=Chromosome chr6 scaffold_3, whole genome shotgun sequence; (402 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 ?
Query391
pfam13359155 pfam13359, DDE_4, DDE superfamily endonuclease 4e-33
>gnl|CDD|222071 pfam13359, DDE_4, DDE superfamily endonuclease Back     alignment and domain information 
 Score =  121 bits (305), Expect = 4e-33
 Identities = 48/172 (27%), Positives = 83/172 (48%), Gaps = 22/172 (12%)

Query: 173 IDTTHILMCLPSSDPTNNL-WLDHMKNHSMVLQAIVDPEMRFRDIVTGWPGKMEDRLIFR 231
           ID T I +  P S       +  + K++++ +  +VDP+ R   +  GWPG + D+ I  
Sbjct: 1   IDGTEIPIERPKSLEEQAQTYSGYKKHNTLKVLIVVDPDGRIIFVSVGWPGSVSDKRILE 60

Query: 232 SSNFYKLCEEGKRLNGKILELSGGSEIREYIIGDSGYPFLPYLVTP----YKGQELPELG 287
           +S   +    G                 +Y++ D G+P    L+ P      G +L E  
Sbjct: 61  NSGLLEKLPPG-----------------DYVLADRGFPLSDSLLAPPAKKPGGAQLTEEE 103

Query: 288 SEFNRRHSASHLVAQRALARLKDKWKIIQGVMWRPDKHKLPRIILVCCLLHN 339
            EFNRR +++ +  +R + RLK +++I++G +       L +I+LVCC LHN
Sbjct: 104 VEFNRRIASARIHVERVIGRLKGRFRILRGRLRISKLTTLDKIVLVCCALHN 155

This family of proteins are related to pfam00665 and are probably endonucleases of the DDE superfamily. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contain three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction. Length = 155

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 391
KOG4585326 consensus Predicted transposase [Replication, reco 100.0
PF04827205 Plant_tran: Plant transposon protein; InterPro: IP 100.0
PF13359158 DDE_Tnp_4: DDE superfamily endonuclease 100.0
PF1361353 HTH_Tnp_4: Helix-turn-helix of DDE superfamily end 99.01
PF13612155 DDE_Tnp_1_3: Transposase DDE domain 98.83
PF1358688 DDE_Tnp_1_2: Transposase DDE domain 97.4
PF01609213 DDE_Tnp_1: Transposase DDE domain; InterPro: IPR00 97.06
PF1393644 HTH_38: Helix-turn-helix domain; PDB: 2W48_A. 96.01
PF0279645 HTH_7: Helix-turn-helix domain of resolvase; Inter 95.93
PF0454550 Sigma70_r4: Sigma-70, region 4; InterPro: IPR00763 95.87
PF0421853 CENP-B_N: CENP-B N-terminal DNA-binding domain; In 95.56
smart00351125 PAX Paired Box domain. 94.51
PF1338450 HTH_23: Homeodomain-like domain; PDB: 2X48_C. 94.17
PF1351852 HTH_28: Helix-turn-helix domain 93.94
cd00131128 PAX Paired Box domain 93.77
PF1301185 LZ_Tnp_IS481: leucine-zipper of insertion element 93.63
PF0828154 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013 93.02
PF0522545 HTH_psq: helix-turn-helix, Psq domain; InterPro: I 92.77
cd0657190 Bac_DnaA_C C-terminal domain of bacterial DnaA pro 92.15
PRK00118104 putative DNA-binding protein; Validated 91.95
cd0056942 HTH_Hin_like Helix-turn-helix domain of Hin and re 91.7
PF0220936 VHP: Villin headpiece domain; InterPro: IPR003128 91.66
COG3415138 Transposase and inactivated derivatives [DNA repli 91.51
PF1211682 SpoIIID: Stage III sporulation protein D; InterPro 91.08
PRK04217110 hypothetical protein; Provisional 91.07
PRK09413121 IS2 repressor TnpA; Reviewed 90.94
smart0042158 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulo 90.65
smart0015336 VHP Villin headpiece domain. 90.51
cd0617155 Sigma70_r4 Sigma70, region (SR) 4 refers to the mo 90.33
TIGR0132194 TrpR trp operon repressor, proteobacterial. This m 89.49
PRK12529178 RNA polymerase sigma factor; Provisional 89.38
PF0152776 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transp 89.23
PF1334075 DUF4096: Putative transposase of IS4/5 family (DUF 89.07
PRK06030124 hypothetical protein; Provisional 88.46
PRK09639166 RNA polymerase sigma factor SigX; Provisional 88.39
TIGR00721137 tfx DNA-binding protein, Tfx family. Tfx from Meth 87.92
TIGR02985161 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Ba 87.47
PRK09652182 RNA polymerase sigma factor RpoE; Provisional 87.41
TIGR0253188 yecD_yerC TrpR-related protein YerC/YecD. This mod 87.4
TIGR0387973 near_KaiC_dom probable regulatory domain. This mod 87.38
PRK05911257 RNA polymerase sigma factor sigma-28; Reviewed 86.96
PRK12519194 RNA polymerase sigma factor; Provisional 86.83
PHA0067578 hypothetical protein 86.72
PRK07037163 extracytoplasmic-function sigma-70 factor; Validat 86.24
cd0617057 LuxR_C_like C-terminal DNA-binding domain of LuxR- 86.23
TIGR02960324 SigX5 RNA polymerase sigma-70 factor, TIGR02960 fa 86.09
PF0829970 Bac_DnaA_C: Bacterial dnaA protein helix-turn-heli 86.06
PRK08301234 sporulation sigma factor SigE; Reviewed 86.05
TIGR02952170 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02 85.74
PF1354252 HTH_Tnp_ISL3: Helix-turn-helix domain of transposa 85.42
TIGR02937158 sigma70-ECF RNA polymerase sigma factor, sigma-70 85.42
TIGR02392270 rpoH_proteo alternative sigma factor RpoH. A sigma 85.32
PRK05803233 sporulation sigma factor SigK; Reviewed 84.78
PRK12514179 RNA polymerase sigma factor; Provisional 84.7
PRK09638176 RNA polymerase sigma factor SigY; Reviewed 84.52
PRK06596284 RNA polymerase factor sigma-32; Reviewed 84.01
PRK09641187 RNA polymerase sigma factor SigW; Provisional 83.6
PRK12547164 RNA polymerase sigma factor; Provisional 83.47
PRK12530189 RNA polymerase sigma factor; Provisional 83.21
PHA0054282 putative Cro-like protein 83.16
PRK09415179 RNA polymerase factor sigma C; Reviewed 82.9
PRK11924179 RNA polymerase sigma factor; Provisional 82.53
PRK12511182 RNA polymerase sigma factor; Provisional 82.52
PRK07408256 RNA polymerase sigma factor SigF; Reviewed 82.45
PRK12524196 RNA polymerase sigma factor; Provisional 82.37
PRK12533216 RNA polymerase sigma factor; Provisional 82.13
TIGR02989159 Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodop 81.98
TIGR02939190 RpoE_Sigma70 RNA polymerase sigma factor RpoE. A s 81.9
PRK12516187 RNA polymerase sigma factor; Provisional 81.83
PRK12534187 RNA polymerase sigma factor; Provisional 81.81
PRK11923193 algU RNA polymerase sigma factor AlgU; Provisional 81.75
PRK12515189 RNA polymerase sigma factor; Provisional 81.53
PF0496753 HTH_10: HTH DNA binding domain; InterPro: IPR00705 81.44
PRK12537182 RNA polymerase sigma factor; Provisional 81.33
PRK03975141 tfx putative transcriptional regulator; Provisiona 81.33
PRK05572252 sporulation sigma factor SigF; Validated 81.12
PRK09047161 RNA polymerase factor sigma-70; Validated 81.11
PRK05602186 RNA polymerase sigma factor; Reviewed 80.96
PRK15320251 transcriptional activator SprB; Provisional 80.93
TIGR02983162 SigE-fam_strep RNA polymerase sigma-70 factor, sig 80.89
PRK06704228 RNA polymerase factor sigma-70; Validated 80.83
TIGR02999183 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 f 80.45
PRK12512184 RNA polymerase sigma factor; Provisional 80.4
PRK07500289 rpoH2 RNA polymerase factor sigma-32; Reviewed 80.34
PRK13919186 putative RNA polymerase sigma E protein; Provision 80.29
PRK12531194 RNA polymerase sigma factor; Provisional 80.29
TIGR02984189 Sig-70_plancto1 RNA polymerase sigma-70 factor, Pl 80.21
TIGR02846227 spore_sigmaK RNA polymerase sigma-K factor. The sp 80.18
TIGR02393238 RpoD_Cterm RNA polymerase sigma factor RpoD, C-ter 80.01
PF1373055 HTH_36: Helix-turn-helix domain 80.01
>KOG4585 consensus Predicted transposase [Replication, recombination and repair] Back     alignment and domain information 
Probab=100.00  E-value=3.6e-42  Score=327.82  Aligned_cols=313  Identities=36%  Similarity=0.578  Sum_probs=254.1

Q ss_pred             hcCCCHHHHHHHHHHhhhccccccCCcccCCCCccCHHHHHHHHHHHhcCCCCccccccccCCcccccchhhhHHHHHHH
Q 016336           59 VFKISRRTFDYICSLVEEKMVVKTGGFSFTSGKHLSFRDQVAIALRRLSSGDSLMSIGDSCGLHHSTVSQVTWRFVEAME  138 (391)
Q Consensus        59 ~frms~~tF~~L~~~l~~~~~~~~~~~~~~~~~~l~~e~~l~i~L~~L~~g~~~~~l~~~Fgvs~sTvs~~~~~~~~~l~  138 (391)
                      .|++++.+|++|+.............+....+  +++...+++.|+.++++.+...++..||...+|+     .+...+.
T Consensus         7 ~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~v~~~~~~~~~~~~~~~i~~~fg~~~~~~-----~~~~~~~   79 (326)
T KOG4585|consen    7 EFRKSYTTFDKICSLVQSLNVVKNSGFMLSSL--LPADTLVAVALWRLKTGESLRTVEKKFGLGQSTC-----KFLEEKE   79 (326)
T ss_pred             HHHHHHHHHHHHhhhhhhhhhhcccchhhhcc--ccHHhhhhhhhccccccchHHHHHHHcCCcchhh-----hHHHhhh
Confidence            78999999999999876654443322222222  2289999999999999999999999999999999     6667777


Q ss_pred             HhccccccCCCHHHHHHHHHHHhHhhCCCccceeeeeeEEEeecCCCCCccccccCCCCcceeEEEEeeCCCcceeeccc
Q 016336          139 QKGLQHLQWPSETEMAEIKSKFEKIQGLPNCCGVIDTTHILMCLPSSDPTNNLWLDHMKNHSMVLQAIVDPEMRFRDIVT  218 (391)
Q Consensus       139 ~~~~~~i~~P~~~~~~~i~~~f~~~~~fp~~~GaIDgthi~i~~p~~~~~~~~y~~~k~~~s~~~q~v~d~~~~f~~v~~  218 (391)
                      ..+++++.||....+.++.+.|+.   +|+|+|+||+|||++..|+.  ....|.|+  .+++++|+|||.+++|++|.+
T Consensus        80 ~~~~~~~~~p~~~~~~~i~~~~~~---~~~~~g~~d~~hi~~~~~~~--~~~~~~n~--~~~~Nvlav~n~d~~f~~v~v  152 (326)
T KOG4585|consen   80 DLAPHFLKWPSRRILYEIRERFES---LPNCVGAIDTTHIPIRVPPK--SGSVYFNK--EQSKNLLAVCNFDMRFIYVDV  152 (326)
T ss_pred             cccchhhcCchhhhhhhhcccccc---ccchhccccccccceecCcc--cccccccc--ccchhhhheecCCceEEEEEc
Confidence            788999999998888889888876   99999999999999996654  45677777  889999999999999999999


Q ss_pred             CCCCCCCcHHHHhhChhhHHhhhccccCCccccc-CCCCccceEEeeCCCCCCCCcccccCCCCCCCchhhhhhhchhhh
Q 016336          219 GWPGKMEDRLIFRSSNFYKLCEEGKRLNGKILEL-SGGSEIREYIIGDSGYPFLPYLVTPYKGQELPELGSEFNRRHSAS  297 (391)
Q Consensus       219 g~pGs~~D~~v~~~S~l~~~~~~g~~l~~~~~~~-~~g~~~~~~llgD~gYpl~~~l~~P~~~~~~~~~~~~fN~~ls~~  297 (391)
                      |||||+||+.|++.+.+.+....+..+   ++.+ ..|-+.+.+++|+.+||+.+++|+|+.++..+..++.||.+|+.+
T Consensus       153 g~~Gs~~D~kvl~~~~~~~~~~~~~~~---k~yl~d~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~elFN~rh~~~  229 (326)
T KOG4585|consen  153 GWPGSAHDTKVLQDSLLYKRNFPHPPL---KYYLVDSGYPLRPGLLGPIGFPLYSLLMFPYGGPQPTNSQELFNKRHSSL  229 (326)
T ss_pred             cCCCCccHHHHHHhhcccccccccCCc---cccccccCcccccccccccccccchhhhcccCCCCCCchHHHHhhhhhhH
Confidence            999999999999999998776665433   3333 345577889999999999999999999887899999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhccccCCCCCchhHHHHHHHHHHchhcccCCccCCCCCCCCCCCCC--cc-cccccccChhH
Q 016336          298 HLVAQRALARLKDKWKIIQGVMWRPDKHKLPRIILVCCLLHNIVIDLEDEMQDEIPLLHDHDSG--YH-QQVCETADMEG  374 (391)
Q Consensus       298 R~~vE~afg~Lk~rfriL~~~~~~~~~~~~~~ii~acc~LHN~~~~~~d~~~~~~~~~~~~~~~--~~-~~~~~~~~~~~  374 (391)
                      |.++|++||++|.||+||... +..+..+.+.||.|||+||||+++.++...++...+..++.+  .. ..........+
T Consensus       230 r~v~e~~fg~lk~rw~il~~~-~~~~~~~~~~iV~a~caLHN~~~~~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~  308 (326)
T KOG4585|consen  230 RSVAERAFGVLKAKWRILQRR-EKYDLKKLPKIVTACCALHNIIRDSDEEDPDDPKWEKFDDYGENVAHLRYAPQQRDYM  308 (326)
T ss_pred             HHHHHHHHHHhhhhhHHHhhc-ccccccchHHHHHHHHHHHHHHHhhcccccccccccccccccccchhcccchhHHHHH
Confidence            999999999999999999998 667788999999999999999999987554443222222222  01 11122345567


Q ss_pred             HHHHHHHHHHhccCC
Q 016336          375 EYLRDKLSLYLSGKL  389 (391)
Q Consensus       375 ~~~Rd~l~~~~~~~~  389 (391)
                      ...|+.|+.-+.+..
T Consensus       309 ~~~r~~l~~~l~~~~  323 (326)
T KOG4585|consen  309 EKIRDNLLSELWNGT  323 (326)
T ss_pred             HHHHHHHHHHHHhcc
Confidence            888999988876654

>PF04827 Plant_tran: Plant transposon protein; InterPro: IPR006912 This entry represents a putative Harbinger transposase-derived nuclease, which is thought to have nuclease activity Back     alignment and domain information
>PF13359 DDE_Tnp_4: DDE superfamily endonuclease Back     alignment and domain information
>PF13613 HTH_Tnp_4: Helix-turn-helix of DDE superfamily endonuclease Back     alignment and domain information
>PF13612 DDE_Tnp_1_3: Transposase DDE domain Back     alignment and domain information
>PF13586 DDE_Tnp_1_2: Transposase DDE domain Back     alignment and domain information
>PF01609 DDE_Tnp_1: Transposase DDE domain; InterPro: IPR002559 Autonomous mobile genetic elements such as transposon or insertion sequences (IS) encode an enzyme, transposase, that is required for excising and inserting the mobile element Back     alignment and domain information
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A Back     alignment and domain information
>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms Back     alignment and domain information
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription Back     alignment and domain information
>PF04218 CENP-B_N: CENP-B N-terminal DNA-binding domain; InterPro: IPR006695 Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere Back     alignment and domain information
>smart00351 PAX Paired Box domain Back     alignment and domain information
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C Back     alignment and domain information
>PF13518 HTH_28: Helix-turn-helix domain Back     alignment and domain information
>cd00131 PAX Paired Box domain Back     alignment and domain information
>PF13011 LZ_Tnp_IS481: leucine-zipper of insertion element IS481 Back     alignment and domain information
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription Back     alignment and domain information
>PF05225 HTH_psq: helix-turn-helix, Psq domain; InterPro: IPR007889 This DNA-binding motif is found in four copies in the pipsqueak protein of Drosophila melanogaster [] Back     alignment and domain information
>cd06571 Bac_DnaA_C C-terminal domain of bacterial DnaA proteins Back     alignment and domain information
>PRK00118 putative DNA-binding protein; Validated Back     alignment and domain information
>cd00569 HTH_Hin_like Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella Back     alignment and domain information
>PF02209 VHP: Villin headpiece domain; InterPro: IPR003128 Villin is an F-actin bundling protein involved in the maintenance of the microvilli of the absorptive epithelia Back     alignment and domain information
>COG3415 Transposase and inactivated derivatives [DNA replication, recombination, and repair] Back     alignment and domain information
>PF12116 SpoIIID: Stage III sporulation protein D; InterPro: IPR014208 Members of this entry represent the transcriptional regulator SpoIIID, or stage III sporulation protein D Back     alignment and domain information
>PRK04217 hypothetical protein; Provisional Back     alignment and domain information
>PRK09413 IS2 repressor TnpA; Reviewed Back     alignment and domain information
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon Back     alignment and domain information
>smart00153 VHP Villin headpiece domain Back     alignment and domain information
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs) Back     alignment and domain information
>TIGR01321 TrpR trp operon repressor, proteobacterial Back     alignment and domain information
>PRK12529 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PF01527 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transposase proteins are necessary for efficient DNA transposition Back     alignment and domain information
>PF13340 DUF4096: Putative transposase of IS4/5 family (DUF4096) Back     alignment and domain information
>PRK06030 hypothetical protein; Provisional Back     alignment and domain information
>PRK09639 RNA polymerase sigma factor SigX; Provisional Back     alignment and domain information
>TIGR00721 tfx DNA-binding protein, Tfx family Back     alignment and domain information
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1 Back     alignment and domain information
>PRK09652 RNA polymerase sigma factor RpoE; Provisional Back     alignment and domain information
>TIGR02531 yecD_yerC TrpR-related protein YerC/YecD Back     alignment and domain information
>TIGR03879 near_KaiC_dom probable regulatory domain Back     alignment and domain information
>PRK05911 RNA polymerase sigma factor sigma-28; Reviewed Back     alignment and domain information
>PRK12519 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PHA00675 hypothetical protein Back     alignment and domain information
>PRK07037 extracytoplasmic-function sigma-70 factor; Validated Back     alignment and domain information
>cd06170 LuxR_C_like C-terminal DNA-binding domain of LuxR-like proteins Back     alignment and domain information
>TIGR02960 SigX5 RNA polymerase sigma-70 factor, TIGR02960 family Back     alignment and domain information
>PF08299 Bac_DnaA_C: Bacterial dnaA protein helix-turn-helix; InterPro: IPR013159 This entry represents the C-terminal domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication Back     alignment and domain information
>PRK08301 sporulation sigma factor SigE; Reviewed Back     alignment and domain information
>TIGR02952 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02952 family Back     alignment and domain information
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3 Back     alignment and domain information
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family Back     alignment and domain information
>TIGR02392 rpoH_proteo alternative sigma factor RpoH Back     alignment and domain information
>PRK05803 sporulation sigma factor SigK; Reviewed Back     alignment and domain information
>PRK12514 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK09638 RNA polymerase sigma factor SigY; Reviewed Back     alignment and domain information
>PRK06596 RNA polymerase factor sigma-32; Reviewed Back     alignment and domain information
>PRK09641 RNA polymerase sigma factor SigW; Provisional Back     alignment and domain information
>PRK12547 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK12530 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PHA00542 putative Cro-like protein Back     alignment and domain information
>PRK09415 RNA polymerase factor sigma C; Reviewed Back     alignment and domain information
>PRK11924 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK12511 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK07408 RNA polymerase sigma factor SigF; Reviewed Back     alignment and domain information
>PRK12524 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK12533 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>TIGR02989 Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family Back     alignment and domain information
>TIGR02939 RpoE_Sigma70 RNA polymerase sigma factor RpoE Back     alignment and domain information
>PRK12516 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK12534 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional Back     alignment and domain information
>PRK12515 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif Back     alignment and domain information
>PRK12537 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK03975 tfx putative transcriptional regulator; Provisional Back     alignment and domain information
>PRK05572 sporulation sigma factor SigF; Validated Back     alignment and domain information
>PRK09047 RNA polymerase factor sigma-70; Validated Back     alignment and domain information
>PRK05602 RNA polymerase sigma factor; Reviewed Back     alignment and domain information
>PRK15320 transcriptional activator SprB; Provisional Back     alignment and domain information
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family Back     alignment and domain information
>PRK06704 RNA polymerase factor sigma-70; Validated Back     alignment and domain information
>TIGR02999 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 family Back     alignment and domain information
>PRK12512 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK07500 rpoH2 RNA polymerase factor sigma-32; Reviewed Back     alignment and domain information
>PRK13919 putative RNA polymerase sigma E protein; Provisional Back     alignment and domain information
>PRK12531 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>TIGR02984 Sig-70_plancto1 RNA polymerase sigma-70 factor, Planctomycetaceae-specific subfamily 1 Back     alignment and domain information
>TIGR02846 spore_sigmaK RNA polymerase sigma-K factor Back     alignment and domain information
>TIGR02393 RpoD_Cterm RNA polymerase sigma factor RpoD, C-terminal domain Back     alignment and domain information
>PF13730 HTH_36: Helix-turn-helix domain 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 ?
Query391
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-06
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 7e-06
>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 = 49.5 bits (117), Expect = 1e-06
 Identities = 65/493 (13%), Positives = 138/493 (27%), Gaps = 142/493 (28%)

Query: 11  RKIEKKAE-GNASASGSSEQEASFVWWLEYSKRINGFQSPLKGL---------DKFKSVF 60
           + I  K E  +   S  +      ++W   SK+    Q  ++ +            K+  
Sbjct: 43  KSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQ 102

Query: 61  KI-SRRTFDYICSLVEEKMVVKTGGFSFTSGKHLSFR----DQVAIALRRLSSGDSL--- 112
           +  S  T  YI    E++  +      F   K+   R     ++  AL  L    ++   
Sbjct: 103 RQPSMMTRMYI----EQRDRLYNDNQVFA--KYNVSRLQPYLKLRQALLELRPAKNVLID 156

Query: 113 -MS-IGDSCGLHHSTVSQV--TWRFVEAMEQKGLQHLQWPSETEMAEIKSKFEKIQGLPN 168
            +   G +  +       V  +++    M+ K      W +   +    S    ++ L  
Sbjct: 157 GVLGSGKTW-V----ALDVCLSYKVQCKMDFKIF----WLN---LKNCNSPETVLEMLQK 204

Query: 169 CCGVIDTTHILMCLPSSDPT----------NNLWLDHMKNHS-MVLQAIVDPEM------ 211
               ID         SS+              L       +  +VL  + + +       
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNL 264

Query: 212 --------RFRDIVTGWPGKMEDR--LIFRSSNFYKLCEEGKRLNGKILELSGGSEIREY 261
                   RF+ +             L   S       +E K L  K L+       RE 
Sbjct: 265 SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP--DEVKSLLLKYLDCRPQDLPREV 322

Query: 262 IIGDSGYPFLPYLVTPYKGQELPELGSEFNR-RH------------SASHLVAQ------ 302
           +   +  P    ++     + + +  + ++  +H            S + L         
Sbjct: 323 L---TTNPRRLSII----AESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMF 375

Query: 303 RALARLKDKWKIIQGVM---WRPDKHKLPRIILVCCL---------------LHNIVIDL 344
             L+       I   ++   W         +++                   + +I ++L
Sbjct: 376 DRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLEL 435

Query: 345 EDEMQDEIPLLH-------------DHDS--------------GYHQQVCETADMEGEYL 377
           + ++++E   LH             D D               G+H +  E  +    + 
Sbjct: 436 KVKLENE-YALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFR 494

Query: 378 RDKLSL-YLSGKL 389
              L   +L  K+
Sbjct: 495 MVFLDFRFLEQKI 507
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query391
1tc3_C51 Protein (TC3 transposase); DNA binding, helix-turn 95.81
2glo_A59 Brinker CG9653-PA; protein-DNA complex, helix-turn 94.85
2w7n_A101 TRFB transcriptional repressor protein; INCP, plas 94.8
1jhg_A101 Trp operon repressor; complex (regulatory protein- 94.35
1jko_C52 HIN recombinase, DNA-invertase HIN; water-mediated 93.39
1tty_A87 Sigma-A, RNA polymerase sigma factor RPOD; helix-t 93.19
2jn6_A97 Protein CGL2762, transposase; GFT PSI-2, protein s 92.9
1ku3_A73 Sigma factor SIGA; helix-turn-helix, transcription 92.88
2p7v_B68 Sigma-70, RNA polymerase sigma factor RPOD; RSD, r 92.86
2o8x_A70 Probable RNA polymerase sigma-C factor; promoter r 92.62
3hug_A92 RNA polymerase sigma factor; ECF sigma factor, zin 92.07
1wy3_A35 Villin; structural protein; HET: NLE; 0.95A {Synth 91.87
3t72_q99 RNA polymerase sigma factor RPOD, DNA-directed RN 91.57
1und_A37 Advillin, P92; actin binding, F-actin binding, cyt 91.18
1j1v_A94 Chromosomal replication initiator protein DNAA, 5' 91.17
1u78_A141 TC3 transposase, transposable element TC3 transpos 90.65
2elh_A87 CG11849-PA, LD40883P; structural genomics, NPPSFA, 90.25
2x48_A55 CAG38821; archeal virus, viral protein; 2.60A {Sul 90.04
1fse_A74 GERE; helix-turn-helix DNA-binding protein transcr 89.47
1pdn_C128 Protein (PRD paired); protein-DNA complex, double 89.39
1k78_A149 Paired box protein PAX5; paired domain, ETS domain 89.3
3pvv_A101 Chromosomal replication initiator protein DNAA; he 89.05
1s7o_A113 Hypothetical UPF0122 protein SPY1201/SPYM3_0842/SP 88.87
1iuf_A144 Centromere ABP1 protein; riken structural genomics 88.63
1rp3_A239 RNA polymerase sigma factor sigma-28 (FLIA); trans 88.07
1or7_A194 Sigma-24, RNA polymerase sigma-E factor; regulatio 88.05
1je8_A82 Nitrate/nitrite response regulator protein NARL; p 87.98
2q1z_A184 RPOE, ECF SIGE; ECF sigma factor, cupin fold, zinc 87.63
1hlv_A131 CENP-B, major centromere autoantigen B; helix-turn 87.46
3c57_A95 Two component transcriptional regulatory protein; 87.35
2jrt_A95 Uncharacterized protein; solution, structure, NESG 87.18
2jpc_A61 SSRB; DNA binding protein, structural genomics, PS 87.1
2k27_A159 Paired box protein PAX-8; paired domain, solution 86.42
1x3u_A79 Transcriptional regulatory protein FIXJ; helix-tur 85.9
3hot_A345 Transposable element mariner, complete CDS; protei 85.54
2rnj_A91 Response regulator protein VRAR; HTH LUXR-type dom 85.53
1xsv_A113 Hypothetical UPF0122 protein SAV1236; helix-turn-h 84.88
1qzp_A68 Dematin; villin headpiece, actin binding domain, p 84.86
1p4w_A99 RCSB; solution structure, DNA binding domain, DNA 84.65
2rn7_A108 IS629 ORFA; helix, all alpha, unknown function, st 84.42
3frw_A107 Putative Trp repressor protein; structural genomic 83.51
1yu8_X67 Villin; alpha helix, 3-10 helix, structural protei 82.21
1u78_A141 TC3 transposase, transposable element TC3 transpos 81.64
3ulq_B90 Transcriptional regulatory protein COMA; tetratric 81.32
3mzy_A164 RNA polymerase sigma-H factor; PSI, MCSG, structur 81.24
2k6m_S67 Supervillin; SVHP, HP, headpiece, archvillin, acti 80.95
>1tc3_C Protein (TC3 transposase); DNA binding, helix-turn-helix, TC1/mariner family, complex (transposase/DNA), DNA binding protein/DNA complex; HET: DNA; 2.45A {Caenorhabditis elegans} SCOP: a.4.1.2 Back     alignment and structure
Probab=95.81  E-value=0.0023  Score=41.99  Aligned_cols=42  Identities=12%  Similarity=0.043  Sum_probs=33.6

Q ss_pred             CCccCHHHHHHHHHHHhcCCCCccccccccCCcccccchhhhH
Q 016336           90 GKHLSFRDQVAIALRRLSSGDSLMSIGDSCGLHHSTVSQVTWR  132 (391)
Q Consensus        90 ~~~l~~e~~l~i~L~~L~~g~~~~~l~~~Fgvs~sTvs~~~~~  132 (391)
                      +..++.+++..+.+. +..|.++..||..+|||.+||.+++.+
T Consensus         3 ~~~l~~~~~~~i~~~-~~~g~s~~~IA~~lgis~~Tv~~~~~~   44 (51)
T 1tc3_C            3 GSALSDTERAQLDVM-KLLNVSLHEMSRKISRSRHCIRVYLKD   44 (51)
T ss_dssp             SCCCCHHHHHHHHHH-HHTTCCHHHHHHHHTCCHHHHHHHHHC
T ss_pred             CCCCCHHHHHHHHHH-HHcCCCHHHHHHHHCcCHHHHHHHHhh
Confidence            456788777655554 468999999999999999999998754
>2glo_A Brinker CG9653-PA; protein-DNA complex, helix-turn-helix motif, transcription/DNA complex; NMR {Drosophila melanogaster} Back     alignment and structure
>2w7n_A TRFB transcriptional repressor protein; INCP, plasmid, repressor, DNA-binding, transcription/DNA; HET: BRU; 1.85A {Escherichia coli} Back     alignment and structure
>1jhg_A Trp operon repressor; complex (regulatory protein-peptide), DNA-binding regulatory complex (regulatory protein-peptide) complex; HET: TRP; 1.30A {Escherichia coli} SCOP: a.4.12.1 PDB: 1co0_A* 1mi7_R 1p6z_R 1wrp_R* 1zt9_A* 2oz9_R* 3ssw_R 3wrp_A 1rcs_A* 1wrs_R* 1wrt_R 2xdi_A 3ssx_R* 1trr_A* 1tro_A* Back     alignment and structure
>1jko_C HIN recombinase, DNA-invertase HIN; water-mediated recognition, protein-DNA complex, A10G mutant, DNA binding protein/DNA complex; 2.24A {Synthetic} SCOP: a.4.1.2 PDB: 1ijw_C* 1jj6_C* 1jj8_C* 1hcr_A 1jkp_C 1jkq_C 1jkr_C Back     alignment and structure
>1tty_A Sigma-A, RNA polymerase sigma factor RPOD; helix-turn-helix, transcription; NMR {Thermotoga maritima} SCOP: a.4.13.2 Back     alignment and structure
>2jn6_A Protein CGL2762, transposase; GFT PSI-2, protein structure, structural genomics, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: a.4.1.19 Back     alignment and structure
>1ku3_A Sigma factor SIGA; helix-turn-helix, transcription; 1.80A {Thermus aquaticus} SCOP: a.4.13.2 PDB: 1ku7_A 1rio_H 3n97_A* Back     alignment and structure
>2p7v_B Sigma-70, RNA polymerase sigma factor RPOD; RSD, regulator of sigma 70, sigma 70 domain 4, transcription, regulation, helix-turn-helix; 2.60A {Escherichia coli} SCOP: a.4.13.2 Back     alignment and structure
>2o8x_A Probable RNA polymerase sigma-C factor; promoter recognition, transcription regulation, helix-turn-H motif, transcription; 3.00A {Mycobacterium tuberculosis} Back     alignment and structure
>3hug_A RNA polymerase sigma factor; ECF sigma factor, zinc binding anti-sigma factor, oxidative transcription regulation; 2.35A {Mycobacterium tuberculosis} Back     alignment and structure
>1wy3_A Villin; structural protein; HET: NLE; 0.95A {Synthetic} PDB: 1wy4_A 1yri_A* 1yrf_A* 2f4k_A* 1vii_A 3trv_A* 3trw_A 3tjw_B* 3trv_B* 3try_A* 2ppz_A 2jm0_A* 3tjw_A* 3iur_B* Back     alignment and structure
>3t72_q RNA polymerase sigma factor RPOD, DNA-directed RN polymerase subunit beta; winged-helix motif, transcription activation, DNA-binding; 4.33A {Escherichia coli} PDB: 1tlh_B Back     alignment and structure
>1und_A Advillin, P92; actin binding, F-actin binding, cytoskeleton, headpiece subdomain; NMR {Homo sapiens} SCOP: a.14.1.1 Back     alignment and structure
>1j1v_A Chromosomal replication initiator protein DNAA, 5'-D(*CP*CP*TP*GP*TP*GP*GP*AP*TP*AP*AP*CP*A)-3'; protein-DNA complex; 2.10A {Escherichia coli} SCOP: a.4.12.2 Back     alignment and structure
>1u78_A TC3 transposase, transposable element TC3 transposase; transposon DNA, bipartite DNA-binding, HTH- motif, DNA binding protein/DNA complex; 2.69A {Caenorhabditis elegans} SCOP: a.4.1.2 a.4.1.2 Back     alignment and structure
>2elh_A CG11849-PA, LD40883P; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Drosophila melanogaster} Back     alignment and structure
>2x48_A CAG38821; archeal virus, viral protein; 2.60A {Sulfolobus islandicus rod-shaped virusorganism_taxid} Back     alignment and structure
>1fse_A GERE; helix-turn-helix DNA-binding protein transcriptional regulat transcription; 2.05A {Bacillus subtilis} SCOP: a.4.6.2 Back     alignment and structure
>1pdn_C Protein (PRD paired); protein-DNA complex, double helix, PAX, paired domain, DNA-binding protein, gene regulation/DNA complex; HET: DNA; 2.50A {Drosophila melanogaster} SCOP: a.4.1.5 Back     alignment and structure
>1k78_A Paired box protein PAX5; paired domain, ETS domain, transcription factor, transcription/DNA complex; 2.25A {Homo sapiens} SCOP: a.4.1.5 a.4.1.5 PDB: 1mdm_A 6pax_A Back     alignment and structure
>3pvv_A Chromosomal replication initiator protein DNAA; helix-turn-helix motif, interacting with DNAA-BOX, DNAA-box; HET: DNA; 2.00A {Mycobacterium tuberculosis} PDB: 3pvp_A* Back     alignment and structure
>1s7o_A Hypothetical UPF0122 protein SPY1201/SPYM3_0842/SPS1042/SPYM18_1152; putative DNA binding protein, structural genomics; 2.31A {Streptococcus pyogenes serotype M3} SCOP: a.4.13.3 Back     alignment and structure
>1iuf_A Centromere ABP1 protein; riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; NMR {Schizosaccharomyces pombe} SCOP: a.4.1.7 a.4.1.7 Back     alignment and structure
>1rp3_A RNA polymerase sigma factor sigma-28 (FLIA); transcription; 2.30A {Aquifex aeolicus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1sc5_A Back     alignment and structure
>1or7_A Sigma-24, RNA polymerase sigma-E factor; regulation, DNA-binding, transmembrane, transcription; 2.00A {Escherichia coli} SCOP: a.4.13.2 a.177.1.1 PDB: 2h27_A Back     alignment and structure
>1je8_A Nitrate/nitrite response regulator protein NARL; protein-DNA complex, two-component response regulator, helix-turn-helix, DNA bending; 2.12A {Escherichia coli} SCOP: a.4.6.2 PDB: 1zg1_A 1zg5_A Back     alignment and structure
>1hlv_A CENP-B, major centromere autoantigen B; helix-turn-helix, protein-DNA complex, riken structural genomics/proteomics initiative, RSGI; 2.50A {Homo sapiens} SCOP: a.4.1.7 a.4.1.7 PDB: 1bw6_A Back     alignment and structure
>3c57_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 1.70A {Mycobacterium tuberculosis} PDB: 1zlk_A 1zlj_A Back     alignment and structure
>2jrt_A Uncharacterized protein; solution, structure, NESG, PSI, target RHR5, structural genomics, protein structure initiative; NMR {Rhodobacter sphaeroides} Back     alignment and structure
>2jpc_A SSRB; DNA binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium} Back     alignment and structure
>2k27_A Paired box protein PAX-8; paired domain, solution structure, triple frequency, 3D NMR, induced FIT, alternative splicing, developmental protein; NMR {Homo sapiens} Back     alignment and structure
>1x3u_A Transcriptional regulatory protein FIXJ; helix-turn-helix; NMR {Sinorhizobium meliloti} Back     alignment and structure
>3hot_A Transposable element mariner, complete CDS; protein-DNA complex, synaptic complex, transposase, inverted DNA, DNA binding protein-DNA complex; HET: 5IU; 3.25A {Drosophila mauritiana} PDB: 3hos_A* Back     alignment and structure
>2rnj_A Response regulator protein VRAR; HTH LUXR-type domain, DNA binding domain, activator, antibiotic resistance, cytoplasm, DNA-binding; NMR {Staphylococcus aureus} Back     alignment and structure
>1xsv_A Hypothetical UPF0122 protein SAV1236; helix-turn-helix, putative DNA-binding protein, signal recognition particle, unknown function; 1.70A {Staphylococcus aureus subsp} SCOP: a.4.13.3 Back     alignment and structure
>1qzp_A Dematin; villin headpiece, actin binding domain, protein binding; NMR {Homo sapiens} SCOP: a.14.1.1 PDB: 1zv6_A Back     alignment and structure
>1p4w_A RCSB; solution structure, DNA binding domain, DNA binding protein; NMR {Erwinia amylovora} SCOP: a.4.6.2 Back     alignment and structure
>2rn7_A IS629 ORFA; helix, all alpha, unknown function, structural genomics, PSI-2, protein structure initiative; NMR {Shigella flexneri} Back     alignment and structure
>3frw_A Putative Trp repressor protein; structural genomics, APC21159, PSI-2, P structure initiative; 2.05A {Ruminococcus obeum atcc 29174} PDB: 3g1c_A Back     alignment and structure
>1yu8_X Villin; alpha helix, 3-10 helix, structural protein; 1.45A {Gallus gallus} SCOP: a.14.1.1 PDB: 1qqv_A 1yu5_X 2rjx_A 2rjy_A 1yu7_X 2rjv_A 2rjw_A 3nkj_A 3myc_A 3mya_A 3mye_X 1unc_A Back     alignment and structure
>1u78_A TC3 transposase, transposable element TC3 transposase; transposon DNA, bipartite DNA-binding, HTH- motif, DNA binding protein/DNA complex; 2.69A {Caenorhabditis elegans} SCOP: a.4.1.2 a.4.1.2 Back     alignment and structure
>3ulq_B Transcriptional regulatory protein COMA; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis} PDB: 2krf_A Back     alignment and structure
>3mzy_A RNA polymerase sigma-H factor; PSI, MCSG, structural genomics, midwest center for structura genomics, protein structure initiative; 2.50A {Fusobacterium nucleatum subsp} Back     alignment and structure
>2k6m_S Supervillin; SVHP, HP, headpiece, archvillin, actin capping, actin-binding, alternative splicing, calcium, cytoplasm, cytoskeleton, membrane; NMR {Homo sapiens} PDB: 2k6n_A Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query391
d1ijwc_47 HIN recombinase (DNA-binding domain) {Synthetic} 96.92
d1hlva166 DNA-binding domain of centromere binding protein B 95.37
d1rp3a271 Sigma factor sigma-28 (FliA) {Aquifex aeolicus [Ta 94.44
d1k78a163 Pax-5 {Human (Homo sapiens) [TaxId: 9606]} 94.01
d1pdnc_123 Paired protein (prd) {Fruit fly (Drosophila melano 93.7
d1s7oa_106 Hypothetical protein SPy1201 {Streptococcus pyogen 92.46
d1or7a168 SigmaE factor (RpoE) {Escherichia coli [TaxId: 562 92.01
d1unda_36 Advillin {Human (Homo sapiens) [TaxId: 9606]} 91.33
d1xsva_106 Hypothetical protein SAV1236 {Staphylococcus aureu 91.21
d1yu8x135 Villin {Chicken (Gallus gallus) [TaxId: 9031]} 90.99
d2jn6a189 Uncharacterized protein Cgl2762 {Corynebacterium g 89.67
d1i5za169 Catabolite gene activator protein (CAP), C-termina 88.93
d3e5ua180 Chlorophenol reduction protein CprK {Desulfitobact 87.67
d1ku3a_61 Sigma70 (SigA, RpoD) {Thermus aquaticus [TaxId: 27 85.78
d1l8qa1110 Chromosomal replication initiation factor DnaA C-t 85.51
d1ft9a180 CO-sensing protein CooA, C-terminal domain {Rhodos 85.19
d2gaua181 Transcriptional regulator PG0396, C-terminal domai 85.09
d1a04a167 Nitrate/nitrite response regulator (NarL) {Escheri 84.72
d1zyba173 Probable transcription regulator BT4300, C-termina 83.61
d1l3la165 Quorum-sensing transcription factor TraR, C-termin 83.49
d1ttya_87 Sigma70 (SigA, RpoD) {Thermotoga maritima [TaxId: 83.46
d1qzpa_68 Dematin {Human (Homo sapiens) [TaxId: 9606]} 82.69
d1j1va_94 Chromosomal replication initiation factor DnaA C-t 82.44
d1fsea_67 Germination protein GerE {Bacillus subtilis [TaxId 82.15
d2p7vb168 Sigma70 (SigA, RpoD) {Escherichia coli [TaxId: 562 80.86
d1yu5x167 Villin {Chicken (Gallus gallus) [TaxId: 9031]} 80.8
d1yioa170 Response regulatory protein StyR, C-terminal domai 80.79
d1p4wa_87 Transcriptional regulator RcsB {Erwinia amylovora 80.25
>d1ijwc_ a.4.1.2 (C:) HIN recombinase (DNA-binding domain) {Synthetic} Back     information, alignment and structure
class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Recombinase DNA-binding domain
domain: HIN recombinase (DNA-binding domain)
species: Synthetic

Probab=96.92  E-value=0.00011  Score=47.02  Aligned_cols=40  Identities=15%  Similarity=0.114  Sum_probs=35.1

Q ss_pred             CCccCHHHHHHHHHHHhcCCCCccccccccCCcccccchhh
Q 016336           90 GKHLSFRDQVAIALRRLSSGDSLMSIGDSCGLHHSTVSQVT  130 (391)
Q Consensus        90 ~~~l~~e~~l~i~L~~L~~g~~~~~l~~~Fgvs~sTvs~~~  130 (391)
                      .+.++. +|+..+...++.|.+-.+||..||||++|+++++
T Consensus         3 ~~~lt~-~q~~~a~~l~~~G~s~~~iA~~~gVSr~TiYry~   42 (47)
T d1ijwc_           3 PRAINK-HEQEQISRLLEKGHPRQQLAIIFGIGVSTLYRYF   42 (47)
T ss_dssp             CCSSCH-HHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHS
T ss_pred             CCcCCH-HHHHHHHHHHHCCCCHHHHHHHHCcCHHHHHhhC
Confidence            345664 7888999999999999999999999999999975
>d1hlva1 a.4.1.7 (A:1-66) DNA-binding domain of centromere binding protein B (CENP-B) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1rp3a2 a.4.13.2 (A:164-234) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure
>d1k78a1 a.4.1.5 (A:19-81) Pax-5 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1pdnc_ a.4.1.5 (C:) Paired protein (prd) {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d1s7oa_ a.4.13.3 (A:) Hypothetical protein SPy1201 {Streptococcus pyogenes [TaxId: 1314]} Back     information, alignment and structure
>d1or7a1 a.4.13.2 (A:120-187) SigmaE factor (RpoE) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1unda_ a.14.1.1 (A:) Advillin {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1xsva_ a.4.13.3 (A:) Hypothetical protein SAV1236 {Staphylococcus aureus, strain Mu50 / ATCC 700699 [TaxId: 1280]} Back     information, alignment and structure
>d1yu8x1 a.14.1.1 (X:42-76) Villin {Chicken (Gallus gallus) [TaxId: 9031]} Back     information, alignment and structure
>d2jn6a1 a.4.1.19 (A:1-89) Uncharacterized protein Cgl2762 {Corynebacterium glutamicum [TaxId: 1718]} Back     information, alignment and structure
>d1i5za1 a.4.5.4 (A:138-206) Catabolite gene activator protein (CAP), C-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d3e5ua1 a.4.5.4 (A:148-227) Chlorophenol reduction protein CprK {Desulfitobacterium hafniense [TaxId: 49338]} Back     information, alignment and structure
>d1ku3a_ a.4.13.2 (A:) Sigma70 (SigA, RpoD) {Thermus aquaticus [TaxId: 271]} Back     information, alignment and structure
>d1l8qa1 a.4.12.2 (A:290-399) Chromosomal replication initiation factor DnaA C-terminal domain IV {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure
>d1ft9a1 a.4.5.4 (A:134-213) CO-sensing protein CooA, C-terminal domain {Rhodospirillum rubrum [TaxId: 1085]} Back     information, alignment and structure
>d2gaua1 a.4.5.4 (A:152-232) Transcriptional regulator PG0396, C-terminal domain {Porphyromonas gingivalis [TaxId: 837]} Back     information, alignment and structure
>d1a04a1 a.4.6.2 (A:150-216) Nitrate/nitrite response regulator (NarL) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1zyba1 a.4.5.4 (A:148-220) Probable transcription regulator BT4300, C-terminal domain {Bacteroides thetaiotaomicron [TaxId: 818]} Back     information, alignment and structure
>d1l3la1 a.4.6.2 (A:170-234) Quorum-sensing transcription factor TraR, C-terminal domain {Agrobacterium tumefaciens [TaxId: 358]} Back     information, alignment and structure
>d1ttya_ a.4.13.2 (A:) Sigma70 (SigA, RpoD) {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1qzpa_ a.14.1.1 (A:) Dematin {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1j1va_ a.4.12.2 (A:) Chromosomal replication initiation factor DnaA C-terminal domain IV {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1fsea_ a.4.6.2 (A:) Germination protein GerE {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d2p7vb1 a.4.13.2 (B:546-613) Sigma70 (SigA, RpoD) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1yu5x1 a.14.1.1 (X:10-76) Villin {Chicken (Gallus gallus) [TaxId: 9031]} Back     information, alignment and structure
>d1yioa1 a.4.6.2 (A:131-200) Response regulatory protein StyR, C-terminal domain {Pseudomonas fluorescens [TaxId: 294]} Back     information, alignment and structure
>d1p4wa_ a.4.6.2 (A:) Transcriptional regulator RcsB {Erwinia amylovora [TaxId: 552]} Back     information, alignment and structure