Citrus Sinensis ID: 015913

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-------40
MHFEARLIMDSSDDEKDGVYGNHIPKELNHNLPSNGMKFVDEVLNGQSERCLENFRMDKKVFYKLCDILQSKGLLRHTNRIKIEEQLAIFMFIVGHNLRTRAVQELFRYSGETISRHFNNVLNAIMAISLDFFQPPGPDVPPEISLDPRLYPYFKDCVGAVDGIHIPVMVGVDEQGPFRNKSGLLSQNVLAACSFDLKFHYVLAGWEGSASDLRVLNSALTRRNKLQVPEGKYYLVDNKYANMPGFIAPYQAVSYHTNQTTTGYHPQDAKELFNQRHSLLRNATDRIFGALKERFPILLSAPPYPLQTQVKLVVAACALHNYIQREKPDDWLFRMYEQDTLLPMAESLLPLEGEQPIVHVDTRALEFGFQTEQLELASHFRDSIATEMWDDYISGLAS
ccccHHHccccccccccccccccccccccccccccHHHHHHHHHcccHHHHHHHccccHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHcccccHHHHHHHHcccHHHHHHHHHHHHHHHHHcccccccccccccHHHHHcccccccccccccEEccEEEEEEEEccccccccccccccccEEEEEEEcccccEEEEEcccccccccHHHHHHHHHHHcccccccccEEEcccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccHHcccccHHHHHHHHHHHHHHHHHHHHHHHHcccc
cccEEEEEEEcccHHccccHcccccccccccccccHHHHHHHHHcccHHHHHHHHcccHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHccccHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHccccccccccccEEEEcccEEEEEEcHHHHHHHcccccccEEEEEEEEccccEEEEEEccccccccHHHHHHHHHHHcccccccccEEEEEcccccccccEcccccccEEccHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHccHHHHHHHHHHHHHHHHHccccccHcccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHcccccc
MHFEARlimdssddekdgvygnhipkelnhnlpsngMKFVDEVLNGQSERCLENFRMDKKVFYKLCDILQskgllrhtnrIKIEEQLAIFMFIVGHNLRTRAVQELFRYSGETISRHFNNVLNAIMAISLdffqppgpdvppeisldprlypyfkdcvgavdgihipvmvgvdeqgpfrnksgllsQNVLAACSFDLKFHYVLAGWEGSASDLRVLNSALTrrnklqvpegkyylvdnkyanmpgfiapyqavsyhtnqtttgyhpqdaKELFNQRHSLLRNATDRIFGALKErfpillsappyplqtQVKLVVAACALHNyiqrekpddwLFRMYEQdtllpmaesllplegeqpivhvdtralefGFQTEQLELASHFRDSIATEMWDDYISGLAS
mhfearlimdssddekdgVYGNHIPKELNHNLPSNGMKFVDEVLNGQSERCLENFRMDKKVFYKLCDILQSKGLLRHTNRIKIEEQLAIFMFIVGHNLRTRAVQELFRYSGETISRHFNNVLNAIMAISLDFFQPPGPDVPPEISLDPRLYPYFKDCVGAVDGIHIPVMVGVDEQGPFRNKSGLLSQNVLAACSFDLKFHYVLAGWEGSASDLRVLNSAltrrnklqvpegKYYLVDNKYANMPGFIAPYQAVSYHTNQTTTGYHPQDAKELFNQRHSLLRNATDRIFGALKERFPILLSAPPYPLQTQVKLVVAACALHnyiqrekpddwLFRMYEQDTLLPMAESLLPLEGEQPIVHVDTRALEFGFQTEQLELASHFRDSIATEMWDDYISGLAS
MHFEARLIMDSSDDEKDGVYGNHIPKELNHNLPSNGMKFVDEVLNGQSERCLENFRMDKKVFYKLCDILQSKGLLRHTNRIKIEEQLAIFMFIVGHNLRTRAVQELFRYSGETISRHFNNVLNAIMAISLDFFQPPGPDVPPEISLDPRLYPYFKDCVGAVDGIHIPVMVGVDEQGPFRNKSGLLSQNVLAACSFDLKFHYVLAGWEGSASDLRVLNSALTRRNKLQVPEGKYYLVDNKYANMPGFIAPYQAVSYHTNQTTTGYHPQDAKELFNQRHSLLRNATDRIFGALKERFPILLSAPPYPLQTQVKLVVAACALHNYIQREKPDDWLFRMYEQDTLLPMAESLLPLEGEQPIVHVDTRALEFGFQTEQLELASHFRDSIATEMWDDYISGLAS
************************************MKFVDEVLNGQSERCLENFRMDKKVFYKLCDILQSKGLLRHTNRIKIEEQLAIFMFIVGHNLRTRAVQELFRYSGETISRHFNNVLNAIMAISLDFFQPPGPDVPPEISLDPRLYPYFKDCVGAVDGIHIPVMVGVDEQGPFRNKSGLLSQNVLAACSFDLKFHYVLAGWEGSASDLRVLNSALTRRNKLQVPEGKYYLVDNKYANMPGFIAPYQAVSYHTNQTTTGYHPQDAKELFNQRHSLLRNATDRIFGALKERFPILLSAPPYPLQTQVKLVVAACALHNYIQREKPDDWLFRMYEQDTLLPMAESLLPLEGEQPIVHVDTRALEFGFQTEQLELASHFRDSIATEMWDDYIS****
***EARLIMDSSDDEKDGVYGNHIPKELNHNLPSNGMKFVDEVLNGQSERCLENFRMDKKVFYKLCDILQSKGLLR***RIKIEEQLAIFMFIVGHNLRTRAVQELFRYSGETISRHFNNVLNAIMAISLDFFQPPGPDVPPEISLDPRLYPYFKDCVGAVDGIHIPVMVGVDEQGPFRNKSGLLSQNVLAACSFDLKFHYVLAGWEGSASDLRVLNSALTRRNKLQVPEGKYYLVDNKYANMPGFIAPYQAVSYHTNQTTT****QDAKELFNQRHSLLRNATDRIFGALKERFPILLSAPPYPLQTQVKLVVAACALHNYIQREKPDDWLFRMYEQDTLLPM******************************ELASHFRDSIATEMWDDYISGL**
MHFEARLIMDSSDDEKDGVYGNHIPKELNHNLPSNGMKFVDEVLNGQSERCLENFRMDKKVFYKLCDILQSKGLLRHTNRIKIEEQLAIFMFIVGHNLRTRAVQELFRYSGETISRHFNNVLNAIMAISLDFFQPPGPDVPPEISLDPRLYPYFKDCVGAVDGIHIPVMVGVDEQGPFRNKSGLLSQNVLAACSFDLKFHYVLAGWEGSASDLRVLNSALTRRNKLQVPEGKYYLVDNKYANMPGFIAPYQAVSYHTNQTTTGYHPQDAKELFNQRHSLLRNATDRIFGALKERFPILLSAPPYPLQTQVKLVVAACALHNYIQREKPDDWLFRMYEQDTLLPMAESLLPLEGEQPIVHVDTRALEFGFQTEQLELASHFRDSIATEMWDDYISGLAS
*HFEARLIMDSSDDEKDGVYGNHIPKELNHNLPSNGMKFVDEVLNGQSERCLENFRMDKKVFYKLCDILQSKGLLRHTNRIKIEEQLAIFMFIVGHNLRTRAVQELFRYSGETISRHFNNVLNAIMAISLDFFQPPGPDVPPEISLDPRLYPYFKDCVGAVDGIHIPVMVGVDEQGPFRNKSGLLSQNVLAACSFDLKFHYVLAGWEGSASDLRVLNSALTRRNKLQVPEGKYYLVDNKYANMPGFIAPYQAVSYHTNQTTTGYHPQDAKELFNQRHSLLRNATDRIFGALKERFPILLSAPPYPLQTQVKLVVAACALHNYIQREKPDDWLFRMYE*******************************FQTEQLE*ASHFRDSIATEMWDDYIS****
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MHFEARLIMDSSDDEKDGVYGNHIPKELNHNLPSNGMKFVDEVLNGQSERCLENFRMDKKVFYKLCDILQSKGLLRHTNRIKIEEQLAIFMFIVGHNLRTRAVQELFRYSGETISRHFNNVLNAIMAISLDFFQPPGPDVPPEISLDPRLYPYFKDCVGAVDGIHIPVMVGVDEQGPFRNKSGLLSQNVLAACSFDLKFHYVLAGWEGSASDLRVLNSALTRRNKLQVPEGKYYLVDNKYANMPGFIAPYQAVSYHTNQTTTGYHPQDAKELFNQRHSLLRNATDRIFGALKERFPILLSAPPYPLQTQVKLVVAACALHNYIQREKPDDWLFRMYEQDTLLPMAESLLPLEGEQPIVHVDTRALEFGFQTEQLELASHFRDSIATEMWDDYISGLAS
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 ?
Query398 2.2.26 [Sep-21-2011]
B0BN95349 Putative nuclease HARBI1 yes no 0.695 0.793 0.25 1e-12
Q96MB7349 Putative nuclease HARBI1 yes no 0.695 0.793 0.243 4e-11
Q17QR8349 Putative nuclease HARBI1 yes no 0.695 0.793 0.240 8e-11
Q6AZB8349 Putative nuclease HARBI1 no no 0.658 0.750 0.238 5e-07
Q5U538347 Putative nuclease HARBI1 N/A no 0.650 0.746 0.235 6e-05
>sp|B0BN95|HARB1_RAT Putative nuclease HARBI1 OS=Rattus norvegicus GN=Harbi1 PE=2 SV=1 Back     alignment and function desciption
 Score = 74.3 bits (181), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 79/316 (25%), Positives = 126/316 (39%), Gaps = 39/316 (12%)

Query: 40  VDEVLNGQSERCLENFRMD--------------KKVFYKLCDILQSKGLLRHTNR---IK 82
            D +L G+  R L+ F++D              ++  Y L ++L +  L R T R   I 
Sbjct: 10  CDLLLYGRGHRTLDRFKLDDVTDEYLMSMYGFPRQFIYYLVELLGAS-LSRPTQRSRAIS 68

Query: 83  IEEQ-LAIFMFIVGHNLRTRAVQELFRYSGETISRHFNNVLNAIMAISLDFFQPPGPDVP 141
            E Q LA   F    + +TR + +    S  ++SR   NV  A++  +  F   P  +  
Sbjct: 69  PETQILAALGFYTSGSFQTR-MGDAIGISQASMSRCVANVTEALVERASQFIHFPADEAA 127

Query: 142 PEISLDPRLYPY--FKDCVGAVDGIHIPVMVGVDEQGPFRNKSGLLSQNVLAACSFDLKF 199
            + SL    Y        +GAVD IH+ +     E   + N+ GL S N L  C      
Sbjct: 128 IQ-SLKDEFYGLAGMPGVIGAVDCIHVAIKAPNAEDLSYVNRKGLHSLNCLVVCDIRGAL 186

Query: 200 HYVLAGWEGSASDLRVL-NSALTRRNKLQVPEGKYYLVDNKYANMPGFIAPYQAVSYHTN 258
             V   W GS  D  VL  S+L+ + +  +P+  + L D+ +     F+  +     H  
Sbjct: 187 MTVETSWPGSLQDCAVLQQSSLSSQFETGMPKDSWLLGDSSF-----FLHTWLLTPLHIP 241

Query: 259 QTTTGYHPQDAKELFNQRHSLLRNATDRIFGALKERFPIL---LSAPPYPLQTQVKLVVA 315
           +T   Y        +N+ HS   +  ++    L  RF  L     A  Y  +    +++A
Sbjct: 242 ETPAEYR-------YNRAHSATHSVIEKTLRTLCCRFRCLDGSKGALQYSPEKSSHIILA 294

Query: 316 ACALHNYIQREKPDDW 331
            C LHN       D W
Sbjct: 295 CCVLHNISLEHGMDVW 310
Transposase-derived protein that may have nuclease activity (Potential). Does not have transposase activity.
Rattus norvegicus (taxid: 10116)
EC: 3EC: .EC: 1EC: .EC: -EC: .EC: -
>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|Q6AZB8|HARB1_DANRE Putative nuclease HARBI1 OS=Danio rerio 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 ?
Query398
225456199390 PREDICTED: uncharacterized protein LOC10 0.967 0.987 0.805 0.0
255579925390 conserved hypothetical protein [Ricinus 0.977 0.997 0.792 0.0
449439467392 PREDICTED: uncharacterized protein LOC10 0.977 0.992 0.774 1e-180
449526788392 PREDICTED: LOW QUALITY PROTEIN: uncharac 0.977 0.992 0.771 1e-180
356520675387 PREDICTED: uncharacterized protein LOC10 0.962 0.989 0.747 1e-171
356529493392 PREDICTED: uncharacterized protein LOC10 0.962 0.977 0.752 1e-170
357499113390 hypothetical protein MTR_6g069810 [Medic 0.967 0.987 0.686 1e-153
15238244374 uncharacterized protein [Arabidopsis tha 0.922 0.981 0.641 1e-137
225463187391 PREDICTED: putative nuclease HARBI1-like 0.904 0.920 0.513 1e-103
356530983481 PREDICTED: uncharacterized protein LOC10 0.909 0.752 0.494 4e-96
>gi|225456199|ref|XP_002282832.1| PREDICTED: uncharacterized protein LOC100262931 [Vitis vinifera] gi|147776987|emb|CAN67849.1| hypothetical protein VITISV_033748 [Vitis vinifera] Back     alignment and taxonomy information
 Score =  657 bits (1696), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 310/385 (80%), Positives = 341/385 (88%)

Query: 9   MDSSDDEKDGVYGNHIPKELNHNLPSNGMKFVDEVLNGQSERCLENFRMDKKVFYKLCDI 68
           M+SSDDEKDGV   +IPKEL++ L +NG KFVDEVLNGQ+E CLENFRMDK VFYKLCDI
Sbjct: 1   MESSDDEKDGVLEGYIPKELSYGLAANGTKFVDEVLNGQNESCLENFRMDKHVFYKLCDI 60

Query: 69  LQSKGLLRHTNRIKIEEQLAIFMFIVGHNLRTRAVQELFRYSGETISRHFNNVLNAIMAI 128
           LQ+KGLLRHTNRIKIEEQLAIFMFI+GHNLRTRAVQELFRYSGETISRHFNNVLNAIMAI
Sbjct: 61  LQAKGLLRHTNRIKIEEQLAIFMFIIGHNLRTRAVQELFRYSGETISRHFNNVLNAIMAI 120

Query: 129 SLDFFQPPGPDVPPEISLDPRLYPYFKDCVGAVDGIHIPVMVGVDEQGPFRNKSGLLSQN 188
           SLDFF+PP  D+PPEI  D R YPYF+DCVGAVDGIHIPVMVGVDEQGPFRNKSG LSQN
Sbjct: 121 SLDFFEPPVLDIPPEILEDGRFYPYFQDCVGAVDGIHIPVMVGVDEQGPFRNKSGFLSQN 180

Query: 189 VLAACSFDLKFHYVLAGWEGSASDLRVLNSALTRRNKLQVPEGKYYLVDNKYANMPGFIA 248
           VLAACS DLKFHY+LAGWEGSA+DLRVLNSALTRRNKLQ+PEGKYYLVD KYANMPGFIA
Sbjct: 181 VLAACSLDLKFHYILAGWEGSAADLRVLNSALTRRNKLQIPEGKYYLVDTKYANMPGFIA 240

Query: 249 PYQAVSYHTNQTTTGYHPQDAKELFNQRHSLLRNATDRIFGALKERFPILLSAPPYPLQT 308
           PY  V YH N+++ G+HPQDAKELFN RH LLR+ATDRIFGALK RFPIL+SAPPYPLQT
Sbjct: 241 PYPGVPYHLNESSAGFHPQDAKELFNYRHFLLRSATDRIFGALKARFPILMSAPPYPLQT 300

Query: 309 QVKLVVAACALHNYIQREKPDDWLFRMYEQDTLLPMAESLLPLEGEQPIVHVDTRALEFG 368
           QVKLVVAACA+HNYI+REKPDDWLF++YEQ+T + M ES    E EQP+VHV+   LE  
Sbjct: 301 QVKLVVAACAIHNYIRREKPDDWLFKIYEQETGIQMEESFPAPEMEQPVVHVEPPPLEMA 360

Query: 369 FQTEQLELASHFRDSIATEMWDDYI 393
           F  +QLE+ S  RD+IA EMWDDYI
Sbjct: 361 FDADQLEVTSRLRDTIAAEMWDDYI 385

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255579925|ref|XP_002530798.1| conserved hypothetical protein [Ricinus communis] gi|223529653|gb|EEF31599.1| conserved hypothetical protein [Ricinus communis] Back     alignment and taxonomy information
>gi|449439467|ref|XP_004137507.1| PREDICTED: uncharacterized protein LOC101221521 [Cucumis sativus] Back     alignment and taxonomy information
>gi|449526788|ref|XP_004170395.1| PREDICTED: LOW QUALITY PROTEIN: uncharacterized LOC101221521 [Cucumis sativus] Back     alignment and taxonomy information
>gi|356520675|ref|XP_003528986.1| PREDICTED: uncharacterized protein LOC100778909 [Glycine max] Back     alignment and taxonomy information
>gi|356529493|ref|XP_003533325.1| PREDICTED: uncharacterized protein LOC100779133 [Glycine max] Back     alignment and taxonomy information
>gi|357499113|ref|XP_003619845.1| hypothetical protein MTR_6g069810 [Medicago truncatula] gi|355494860|gb|AES76063.1| hypothetical protein MTR_6g069810 [Medicago truncatula] Back     alignment and taxonomy information
>gi|15238244|ref|NP_199013.1| uncharacterized protein [Arabidopsis thaliana] gi|9757943|dbj|BAB08431.1| unnamed protein product [Arabidopsis thaliana] gi|28416671|gb|AAO42866.1| At5g41980 [Arabidopsis thaliana] gi|110743283|dbj|BAE99532.1| hypothetical protein [Arabidopsis thaliana] gi|332007366|gb|AED94749.1| uncharacterized protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|225463187|ref|XP_002267524.1| PREDICTED: putative nuclease HARBI1-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|356530983|ref|XP_003534058.1| PREDICTED: uncharacterized protein LOC100811756 [Glycine max] 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 ?
Query398
TAIR|locus:2165775374 AT5G41980 [Arabidopsis thalian 0.929 0.989 0.636 4.2e-127
TAIR|locus:504956234324 AT1G43722 "AT1G43722" [Arabido 0.683 0.839 0.347 3.9e-37
TAIR|locus:2148690148 AT5G28950 "AT5G28950" [Arabido 0.228 0.614 0.608 2.9e-29
TAIR|locus:504954841211 AT5G35695 [Arabidopsis thalian 0.439 0.829 0.388 8.7e-24
TAIR|locus:2184226296 AT5G28730 "AT5G28730" [Arabido 0.173 0.233 0.471 1.4e-20
ZFIN|ZDB-GENE-050327-32415 zgc:113227 "zgc:113227" [Danio 0.673 0.645 0.246 1.4e-10
RGD|1584007349 Harbi1 "harbinger transposase 0.673 0.767 0.249 4.2e-10
UNIPROTKB|E2RCW9349 HARBI1 "Uncharacterized protei 0.673 0.767 0.242 2e-09
UNIPROTKB|F1SIA2349 HARBI1 "Uncharacterized protei 0.673 0.767 0.245 2e-09
UNIPROTKB|Q96MB7349 HARBI1 "Putative nuclease HARB 0.673 0.767 0.242 3.5e-09
TAIR|locus:2165775 AT5G41980 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1248 (444.4 bits), Expect = 4.2e-127, P = 4.2e-127
 Identities = 249/391 (63%), Positives = 303/391 (77%)

Query:     9 MDSSDDEKDGVYGNHIPKELNHNLPSNGMKFVDEVLNGQSERCLENFRMDKKVFYKLCDI 68
             +   +D+++ V    +PKE++    S+G KFV ++LNG +E+C ENFRMDK VFYKLCD+
Sbjct:     3 ISGEEDKEEAVT---LPKEVSKISISDGNKFVYQILNGPNEQCFENFRMDKPVFYKLCDL 59

Query:    69 LQSKGLLRHTNRIKIEEQLAIFMFIVGHNLRTRAVQELFRYSGETISRHFNNVLNAIMAI 128
             LQ++GLLRHTNRIKIE QLAIF+FI+GHNLRTRAVQELF YSGETISRHFNNVLNA++AI
Sbjct:    60 LQTRGLLRHTNRIKIEAQLAIFLFIIGHNLRTRAVQELFCYSGETISRHFNNVLNAVIAI 119

Query:   129 SLDFFQPPGPDVPPEISLDPRLYPYFKDCVGAVDGIHIPVMVGVDEQGPFRNKSGLLSQN 188
             S DFFQP        +  D    PYFKDCVG VD  HIPVMVGVDEQGPFRN +GLL+QN
Sbjct:   120 SKDFFQPNSNS--DTLENDD---PYFKDCVGVVDSFHIPVMVGVDEQGPFRNGNGLLTQN 174

Query:   189 VLAACSFDLKFHYVLAGWEGSASDLRVLNSALTRRNKLQVPEGKYYLVDNKYANMPGFIA 248
             VLAA SFDL+F+YVLAGWEGSASD +VLN+ALTRRNKLQVP+GKYY+VDNKY N+PGFIA
Sbjct:   175 VLAASSFDLRFNYVLAGWEGSASDQQVLNAALTRRNKLQVPQGKYYIVDNKYPNLPGFIA 234

Query:   249 PYQAVSYHTNQTTTGYHPQDAKELFNQRHSLLRNATDRIFGALKERFPILLSAPPYPLQT 308
             PY  VS  TN        ++AKE+FN+RH LL  A  R FGALKERFPILLSAPPYPLQT
Sbjct:   235 PYHGVS--TNSR------EEAKEMFNERHKLLHRAIHRTFGALKERFPILLSAPPYPLQT 286

Query:   309 QVKLVVAACALHNYIQREKPDDWLFRMYEQDTLLPMAESL-LPLEGEQPIVHVDTRALEF 367
             QVKLV+AACALHNY++ EKPDD +FRM+E++TL    E   + LE EQ    V+    E 
Sbjct:   287 QVKLVIAACALHNYVRLEKPDDLVFRMFEEETLAEAGEDREVALEEEQ----VEIVGQEH 342

Query:   368 GFQTEQLELASHFRDSIATEMWDDYISGLAS 398
             GF+ E++E +   RD IA+E+W+ Y+  +++
Sbjct:   343 GFRPEEVEDSLRLRDEIASELWNHYVQNMST 373
GO:0005634 "nucleus" evidence=ISM
GO:0016788 "hydrolase activity, acting on ester bonds" evidence=IEA
TAIR|locus:504956234 AT1G43722 "AT1G43722" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2148690 AT5G28950 "AT5G28950" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:504954841 AT5G35695 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2184226 AT5G28730 "AT5G28730" [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
RGD|1584007 Harbi1 "harbinger transposase derived 1" [Rattus norvegicus (taxid:10116)] 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|Q96MB7 HARBI1 "Putative nuclease HARBI1" [Homo sapiens (taxid:9606)] 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:
GSVIVG00017866001
SubName- Full=Putative uncharacterized protein (Chromosome chr17 scaffold_16, whole genome shotgun sequence); (390 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 ?
Query398
pfam13359155 pfam13359, DDE_4, DDE superfamily endonuclease 3e-27
pfam04827205 pfam04827, Plant_tran, Plant transposon protein 8e-04
>gnl|CDD|222071 pfam13359, DDE_4, DDE superfamily endonuclease Back     alignment and domain information 
 Score =  105 bits (265), Expect = 3e-27
 Identities = 48/166 (28%), Positives = 68/166 (40%), Gaps = 16/166 (9%)

Query: 161 VDGIHIPVMVGVDEQG---PFRNKSGLLSQNVLAACSFDLKFHYVLAGWEGSASDLRVL- 216
           +DG  IP+      +     +       +  VL     D +  +V  GW GS SD R+L 
Sbjct: 1   IDGTEIPIERPKSLEEQAQTYSGYKKHNTLKVLIVVDPDGRIIFVSVGWPGSVSDKRILE 60

Query: 217 NSALTRRNKLQVPEGKYYLVDNKYANMPGFIAPYQAVSYHTNQTTTGYHPQDAKELFNQR 276
           NS L      ++P G Y L D  +      +AP          T       + +  FN+R
Sbjct: 61  NSGL----LEKLPPGDYVLADRGFPLSDSLLAPPAKKPGGAQLT-------EEEVEFNRR 109

Query: 277 HSLLRNATDRIFGALKERFPILLSAPPY-PLQTQVKLVVAACALHN 321
            +  R   +R+ G LK RF IL        L T  K+V+  CALHN
Sbjct: 110 IASARIHVERVIGRLKGRFRILRGRLRISKLTTLDKIVLVCCALHN 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
>gnl|CDD|203098 pfam04827, Plant_tran, Plant transposon protein Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 398
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 98.91
PF13612155 DDE_Tnp_1_3: Transposase DDE domain 98.78
PF01609213 DDE_Tnp_1: Transposase DDE domain; InterPro: IPR00 97.93
PF1358688 DDE_Tnp_1_2: Transposase DDE domain 96.84
PF1393644 HTH_38: Helix-turn-helix domain; PDB: 2W48_A. 95.84
PF0454550 Sigma70_r4: Sigma-70, region 4; InterPro: IPR00763 95.82
PF0421853 CENP-B_N: CENP-B N-terminal DNA-binding domain; In 95.09
PF0828154 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013 94.64
PF0279645 HTH_7: Helix-turn-helix domain of resolvase; Inter 94.13
PF1338450 HTH_23: Homeodomain-like domain; PDB: 2X48_C. 93.59
PF1334075 DUF4096: Putative transposase of IS4/5 family (DUF 93.09
PF1351852 HTH_28: Helix-turn-helix domain 93.01
PF1211682 SpoIIID: Stage III sporulation protein D; InterPro 92.88
smart00351125 PAX Paired Box domain. 92.2
PF0522545 HTH_psq: helix-turn-helix, Psq domain; InterPro: I 91.77
PF1301185 LZ_Tnp_IS481: leucine-zipper of insertion element 91.75
COG3415138 Transposase and inactivated derivatives [DNA repli 91.55
smart0042158 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulo 91.31
cd00131128 PAX Paired Box domain 91.1
PRK09413121 IS2 repressor TnpA; Reviewed 90.94
PRK04217110 hypothetical protein; Provisional 90.37
PF0152776 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transp 90.06
cd0617155 Sigma70_r4 Sigma70, region (SR) 4 refers to the mo 89.67
TIGR0132194 TrpR trp operon repressor, proteobacterial. This m 89.33
PRK09639166 RNA polymerase sigma factor SigX; Provisional 88.86
PF0220936 VHP: Villin headpiece domain; InterPro: IPR003128 88.73
PRK00118104 putative DNA-binding protein; Validated 88.08
TIGR0253188 yecD_yerC TrpR-related protein YerC/YecD. This mod 87.99
cd0617057 LuxR_C_like C-terminal DNA-binding domain of LuxR- 87.08
smart0015336 VHP Villin headpiece domain. 87.0
PRK12529178 RNA polymerase sigma factor; Provisional 86.97
TIGR0387973 near_KaiC_dom probable regulatory domain. This mod 86.82
PRK08301234 sporulation sigma factor SigE; Reviewed 86.7
PRK09652182 RNA polymerase sigma factor RpoE; Provisional 86.68
PRK12519194 RNA polymerase sigma factor; Provisional 86.31
PF0035646 LacI: Bacterial regulatory proteins, lacI family; 85.72
PF1354252 HTH_Tnp_ISL3: Helix-turn-helix domain of transposa 85.66
PRK09638176 RNA polymerase sigma factor SigY; Reviewed 85.6
PRK05911257 RNA polymerase sigma factor sigma-28; Reviewed 85.12
PRK12522173 RNA polymerase sigma factor; Provisional 84.81
cd0056942 HTH_Hin_like Helix-turn-helix domain of Hin and re 84.61
PRK0138199 Trp operon repressor; Provisional 84.36
PRK07037163 extracytoplasmic-function sigma-70 factor; Validat 84.32
cd0657190 Bac_DnaA_C C-terminal domain of bacterial DnaA pro 84.18
PRK09415179 RNA polymerase factor sigma C; Reviewed 84.17
TIGR00721137 tfx DNA-binding protein, Tfx family. Tfx from Meth 84.15
TIGR02952170 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02 83.94
PRK05803233 sporulation sigma factor SigK; Reviewed 83.93
PF0496753 HTH_10: HTH DNA binding domain; InterPro: IPR00705 83.83
PRK09047161 RNA polymerase factor sigma-70; Validated 83.76
TIGR02950154 SigM_subfam RNA polymerase sigma factor, SigM fami 83.74
TIGR02999183 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 f 83.49
PRK12537182 RNA polymerase sigma factor; Provisional 83.44
TIGR02989159 Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodop 83.39
PRK12533216 RNA polymerase sigma factor; Provisional 83.18
PRK12530189 RNA polymerase sigma factor; Provisional 83.08
TIGR02937158 sigma70-ECF RNA polymerase sigma factor, sigma-70 83.02
PRK12511182 RNA polymerase sigma factor; Provisional 82.99
PRK12514179 RNA polymerase sigma factor; Provisional 82.95
PF00872381 Transposase_mut: Transposase, Mutator family; Inte 82.93
TIGR02985161 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Ba 82.73
PF1280262 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP 82.71
PRK03975141 tfx putative transcriptional regulator; Provisiona 82.62
PRK12525168 RNA polymerase sigma factor; Provisional 82.56
PRK11923193 algU RNA polymerase sigma factor AlgU; Provisional 82.55
COG1595182 RpoE DNA-directed RNA polymerase specialized sigma 82.42
PRK09641187 RNA polymerase sigma factor SigW; Provisional 82.34
PRK12528161 RNA polymerase sigma factor; Provisional 82.31
PF0102247 HTH_5: Bacterial regulatory protein, arsR family; 82.09
TIGR02392270 rpoH_proteo alternative sigma factor RpoH. A sigma 81.9
PRK13919186 putative RNA polymerase sigma E protein; Provision 81.7
PRK12547164 RNA polymerase sigma factor; Provisional 81.67
TIGR02939190 RpoE_Sigma70 RNA polymerase sigma factor RpoE. A s 81.62
PRK12524196 RNA polymerase sigma factor; Provisional 81.6
PRK12516187 RNA polymerase sigma factor; Provisional 81.58
PRK11924179 RNA polymerase sigma factor; Provisional 81.4
PRK09642160 RNA polymerase sigma factor SigW; Reviewed 81.36
TIGR02835234 spore_sigmaE RNA polymerase sigma-E factor. Member 81.27
PF1373055 HTH_36: Helix-turn-helix domain 81.14
TIGR03697193 NtcA_cyano global nitrogen regulator NtcA, cyanoba 81.07
TIGR02983162 SigE-fam_strep RNA polymerase sigma-70 factor, sig 80.95
PRK09651172 RNA polymerase sigma factor FecI; Provisional 80.83
TIGR02947193 SigH_actino RNA polymerase sigma-70 factor, TIGR02 80.21
PRK15320251 transcriptional activator SprB; Provisional 80.2
PF0019658 GerE: Bacterial regulatory proteins, luxR family; 80.2
PRK07408256 RNA polymerase sigma factor SigF; Reviewed 80.19
PRK09637181 RNA polymerase sigma factor SigZ; Provisional 80.08
PF13751125 DDE_Tnp_1_6: Transposase DDE domain 80.08
>KOG4585 consensus Predicted transposase [Replication, recombination and repair] Back     alignment and domain information 
Probab=100.00  E-value=9.3e-44  Score=339.21  Aligned_cols=311  Identities=31%  Similarity=0.521  Sum_probs=257.3

Q ss_pred             hcCCCHHHHHHHHHHHhcCCcccc-----CCCCCHHHHHHhheeccccccchhhhhcccccccchhhhhhhhHHHHHHHh
Q 015913           54 NFRMDKKVFYKLCDILQSKGLLRH-----TNRIKIEEQLAIFMFIVGHNLRTRAVQELFRYSGETISRHFNNVLNAIMAI  128 (398)
Q Consensus        54 ~frms~~~F~~L~~~l~~~~~~~~-----~~~~s~e~~l~~~L~~L~~~~~~~~l~~~fgis~stv~r~~~~v~~~l~~~  128 (398)
                      .|++++.+|..++...........     ...+++...+++.++.++++.+.+.++..||...+|+     .+.......
T Consensus         7 ~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~i~~~fg~~~~~~-----~~~~~~~~~   81 (326)
T KOG4585|consen    7 EFRKSYTTFDKICSLVQSLNVVKNSGFMLSSLLPADTLVAVALWRLKTGESLRTVEKKFGLGQSTC-----KFLEEKEDL   81 (326)
T ss_pred             HHHHHHHHHHHHhhhhhhhhhhcccchhhhccccHHhhhhhhhccccccchHHHHHHHcCCcchhh-----hHHHhhhcc
Confidence            678899999999988765432222     1223389999999999999999999999999999999     556666678


Q ss_pred             hccccCCCCCCCccccccCCccccccccceeeecceEEEEEeCCCCCCCCCCCCCccccceeeeecCCcceEEeecCccc
Q 015913          129 SLDFFQPPGPDVPPEISLDPRLYPYFKDCVGAVDGIHIPVMVGVDEQGPFRNKSGLLSQNVLAACSFDLKFHYVLAGWEG  208 (398)
Q Consensus       129 ~~~~i~~P~~~~~~~i~~~~~~~~~fp~~iG~IDgt~i~i~~P~~~~~~y~~~k~~~s~~~q~v~d~~~~~~~v~~g~~G  208 (398)
                      ++.++.||......++.+..+.   ||+|+|+||+|||++..|+.....|.|+  .++.|+|+|||+|++|++|.+||||
T Consensus        82 ~~~~~~~p~~~~~~~i~~~~~~---~~~~~g~~d~~hi~~~~~~~~~~~~~n~--~~~~Nvlav~n~d~~f~~v~vg~~G  156 (326)
T KOG4585|consen   82 APHFLKWPSRRILYEIRERFES---LPNCVGAIDTTHIPIRVPPKSGSVYFNK--EQSKNLLAVCNFDMRFIYVDVGWPG  156 (326)
T ss_pred             cchhhcCchhhhhhhhcccccc---ccchhccccccccceecCcccccccccc--ccchhhhheecCCceEEEEEccCCC
Confidence            9999999997666666654443   8999999999999999999999999998  8899999999999999999999999


Q ss_pred             ccccHHHHHHHHhh-cCCCCCCCCceeeccCCCCCCCCccccccCcccCcccccCCC-CchhHHHHHHHHHHHHHhHHHH
Q 015913          209 SASDLRVLNSALTR-RNKLQVPEGKYYLVDNKYANMPGFIAPYQAVSYHTNQTTTGY-HPQDAKELFNQRHSLLRNATDR  286 (398)
Q Consensus       209 s~~D~~vl~~sl~~-~~~~~~~~g~~~l~D~gYp~~~~ll~P~~~~~~~l~~~~~~~-~~~~~~~~fN~~~s~~R~~VE~  286 (398)
                      |.||+.|++.++.. ......+. +|+|.|.||++.++++.|+..+.++...|..++ .|+..++.||++|+.+|.++|+
T Consensus       157 s~~D~kvl~~~~~~~~~~~~~~~-k~yl~d~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~elFN~rh~~~r~v~e~  235 (326)
T KOG4585|consen  157 SAHDTKVLQDSLLYKRNFPHPPL-KYYLVDSGYPLRPGLLGPIGFPLYSLLMFPYGGPQPTNSQELFNKRHSSLRSVAER  235 (326)
T ss_pred             CccHHHHHHhhcccccccccCCc-cccccccCcccccccccccccccchhhhcccCCCCCCchHHHHhhhhhhHHHHHHH
Confidence            99999999988654 23334455 999999999999999999999999999998777 4889999999999999999999


Q ss_pred             HHHHHHhhhhhhccCCCCCccchhHHhHHHHHHHhhhhccCCCcccccccccCCcccccccCCCCCCCCCCCCccccccc
Q 015913          287 IFGALKERFPILLSAPPYPLQTQVKLVVAACALHNYIQREKPDDWLFRMYEQDTLLPMAESLLPLEGEQPIVHVDTRALE  366 (398)
Q Consensus       287 ~fg~LK~rf~iL~~~~~~~~~~~~~ii~ac~~LHN~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~p~~~~~~~~~~  366 (398)
                      +||+||.||+||.....+...+...||.|||+|||++++.+.++..+..++...              .+.    .....
T Consensus       236 ~fg~lk~rw~il~~~~~~~~~~~~~iV~a~caLHN~~~~~~~~~~~~~~~e~~~--------------d~~----~~~~~  297 (326)
T KOG4585|consen  236 AFGVLKAKWRILQRREKYDLKKLPKIVTACCALHNIIRDSDEEDPDDPKWEKFD--------------DYG----ENVAH  297 (326)
T ss_pred             HHHHhhhhhHHHhhcccccccchHHHHHHHHHHHHHHHhhcccccccccccccc--------------ccc----ccchh
Confidence            999999999999977778899999999999999999999887664433222111              000    01112


Q ss_pred             cccchHhHHHHHHHHHHHHHHHHHHhh
Q 015913          367 FGFQTEQLELASHFRDSIATEMWDDYI  393 (398)
Q Consensus       367 ~~~~~~~~~~~~~lRd~ia~~lw~~~~  393 (398)
                      .....+.++.|+.+|+.|+..||+...
T Consensus       298 ~~~~~~~~~~~~~~r~~l~~~l~~~~~  324 (326)
T KOG4585|consen  298 LRYAPQQRDYMEKIRDNLLSELWNGTR  324 (326)
T ss_pred             cccchhHHHHHHHHHHHHHHHHHhccc
Confidence            233456778899999999999998753

>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
>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
>PF13586 DDE_Tnp_1_2: Transposase DDE domain Back     alignment and domain information
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A 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
>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
>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
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C Back     alignment and domain information
>PF13340 DUF4096: Putative transposase of IS4/5 family (DUF4096) Back     alignment and domain information
>PF13518 HTH_28: Helix-turn-helix domain 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
>smart00351 PAX Paired Box domain 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
>PF13011 LZ_Tnp_IS481: leucine-zipper of insertion element IS481 Back     alignment and domain information
>COG3415 Transposase and inactivated derivatives [DNA replication, recombination, and repair] Back     alignment and domain information
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon Back     alignment and domain information
>cd00131 PAX Paired Box domain Back     alignment and domain information
>PRK09413 IS2 repressor TnpA; Reviewed Back     alignment and domain information
>PRK04217 hypothetical protein; 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
>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
>PRK09639 RNA polymerase sigma factor SigX; Provisional 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
>PRK00118 putative DNA-binding protein; Validated Back     alignment and domain information
>TIGR02531 yecD_yerC TrpR-related protein YerC/YecD Back     alignment and domain information
>cd06170 LuxR_C_like C-terminal DNA-binding domain of LuxR-like proteins Back     alignment and domain information
>smart00153 VHP Villin headpiece domain Back     alignment and domain information
>PRK12529 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>TIGR03879 near_KaiC_dom probable regulatory domain Back     alignment and domain information
>PRK08301 sporulation sigma factor SigE; Reviewed Back     alignment and domain information
>PRK09652 RNA polymerase sigma factor RpoE; Provisional Back     alignment and domain information
>PRK12519 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif Back     alignment and domain information
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3 Back     alignment and domain information
>PRK09638 RNA polymerase sigma factor SigY; Reviewed Back     alignment and domain information
>PRK05911 RNA polymerase sigma factor sigma-28; Reviewed Back     alignment and domain information
>PRK12522 RNA polymerase sigma factor; Provisional 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
>PRK01381 Trp operon repressor; Provisional Back     alignment and domain information
>PRK07037 extracytoplasmic-function sigma-70 factor; Validated Back     alignment and domain information
>cd06571 Bac_DnaA_C C-terminal domain of bacterial DnaA proteins Back     alignment and domain information
>PRK09415 RNA polymerase factor sigma C; Reviewed Back     alignment and domain information
>TIGR00721 tfx DNA-binding protein, Tfx family Back     alignment and domain information
>TIGR02952 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02952 family Back     alignment and domain information
>PRK05803 sporulation sigma factor SigK; Reviewed 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
>PRK09047 RNA polymerase factor sigma-70; Validated Back     alignment and domain information
>TIGR02950 SigM_subfam RNA polymerase sigma factor, SigM family Back     alignment and domain information
>TIGR02999 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 family Back     alignment and domain information
>PRK12537 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
>PRK12533 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK12530 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family Back     alignment and domain information
>PRK12511 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK12514 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PF00872 Transposase_mut: Transposase, Mutator family; InterPro: IPR001207 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
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1 Back     alignment and domain information
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B Back     alignment and domain information
>PRK03975 tfx putative transcriptional regulator; Provisional Back     alignment and domain information
>PRK12525 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional Back     alignment and domain information
>COG1595 RpoE DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription] Back     alignment and domain information
>PRK09641 RNA polymerase sigma factor SigW; Provisional Back     alignment and domain information
>PRK12528 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PF01022 HTH_5: Bacterial regulatory protein, arsR family; InterPro: IPR001845 Bacterial transcription regulatory proteins that bind DNA via a helix-turn-helix (HTH) motif can be grouped into families on the basis of sequence similarities Back     alignment and domain information
>TIGR02392 rpoH_proteo alternative sigma factor RpoH Back     alignment and domain information
>PRK13919 putative RNA polymerase sigma E protein; Provisional Back     alignment and domain information
>PRK12547 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>TIGR02939 RpoE_Sigma70 RNA polymerase sigma factor RpoE Back     alignment and domain information
>PRK12524 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK12516 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK11924 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK09642 RNA polymerase sigma factor SigW; Reviewed Back     alignment and domain information
>TIGR02835 spore_sigmaE RNA polymerase sigma-E factor Back     alignment and domain information
>PF13730 HTH_36: Helix-turn-helix domain Back     alignment and domain information
>TIGR03697 NtcA_cyano global nitrogen regulator NtcA, cyanobacterial Back     alignment and domain information
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family Back     alignment and domain information
>PRK09651 RNA polymerase sigma factor FecI; Provisional Back     alignment and domain information
>TIGR02947 SigH_actino RNA polymerase sigma-70 factor, TIGR02947 family Back     alignment and domain information
>PRK15320 transcriptional activator SprB; Provisional Back     alignment and domain information
>PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators Back     alignment and domain information
>PRK07408 RNA polymerase sigma factor SigF; Reviewed Back     alignment and domain information
>PRK09637 RNA polymerase sigma factor SigZ; Provisional Back     alignment and domain information
>PF13751 DDE_Tnp_1_6: Transposase DDE 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 ?
Query398
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-10
>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 = 60.6 bits (146), Expect = 4e-10
 Identities = 61/398 (15%), Positives = 110/398 (27%), Gaps = 137/398 (34%)

Query: 40  VDEVLNGQSERCLENF----RM-----DKKVFYKLCDILQSKGLLRHTNRIKIE------ 84
           +  V   Q+ +    F    ++      K+V     D L +      T  I ++      
Sbjct: 250 LLNV---QNAKAWNAFNLSCKILLTTRFKQVT----DFLSAA----TTTHISLDHHSMTL 298

Query: 85  ---EQLAIFMFIVGHN---LRTRAVQ----------ELFRYSGETIS--RHFN-NVLNAI 125
              E  ++ +  +      L    +           E  R    T    +H N + L  I
Sbjct: 299 TPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTI 358

Query: 126 MAISLDFFQPPGPDVPPEISLDPRLY-PYFKDCVGAV--DGIHIPVMV------GVDEQG 176
           +  SL+              L+P  Y   F     +V     HIP ++       V +  
Sbjct: 359 IESSLN-------------VLEPAEYRKMFDRL--SVFPPSAHIPTILLSLIWFDVIKSD 403

Query: 177 P------FRNKSGLLSQNV------LAACSFDLKFHYVLAGWEGSASDLRVLNSALTRRN 224
                      S L+ +        + +   +LK             +   L+ ++   +
Sbjct: 404 VMVVVNKLHKYS-LVEKQPKESTISIPSIYLELKVK---------LENEYALHRSI--VD 451

Query: 225 KLQVPEGKYYLVDNKYANMPGFIAPYQAVSYHTNQTTTGYHPQDAKELFNQRHSLLRNAT 284
              +P+  +   D     +  +   +            G+H ++ +    +R +L R   
Sbjct: 452 HYNIPK-TFDSDDLIPPYLDQYFYSH-----------IGHHLKNIEH--PERMTLFR--- 494

Query: 285 DRIFGALKERF----------PILLSAPPYPLQTQVKLVVAACALHNYIQREKPDDWLFR 334
             +F  L  RF              S        Q+K          YI    P      
Sbjct: 495 -MVF--LDFRFLEQKIRHDSTAWNASGSILNTLQQLKF------YKPYICDNDPK----- 540

Query: 335 MYEQDTLLPMAESLLPLEGEQPIVHVDTRALEFGFQTE 372
            YE+  L+      LP   E  I    T  L      E
Sbjct: 541 -YER--LVNAILDFLPKIEENLICSKYTDLLRIALMAE 575

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query398
2w7n_A101 TRFB transcriptional repressor protein; INCP, plas 95.03
1jhg_A101 Trp operon repressor; complex (regulatory protein- 94.6
1tc3_C51 Protein (TC3 transposase); DNA binding, helix-turn 94.32
2o8x_A70 Probable RNA polymerase sigma-C factor; promoter r 93.86
2glo_A59 Brinker CG9653-PA; protein-DNA complex, helix-turn 93.14
2p7v_B68 Sigma-70, RNA polymerase sigma factor RPOD; RSD, r 93.13
1tty_A87 Sigma-A, RNA polymerase sigma factor RPOD; helix-t 93.01
2jn6_A97 Protein CGL2762, transposase; GFT PSI-2, protein s 92.97
3hug_A92 RNA polymerase sigma factor; ECF sigma factor, zin 92.89
1ku3_A73 Sigma factor SIGA; helix-turn-helix, transcription 92.74
3t72_q99 RNA polymerase sigma factor RPOD, DNA-directed RN 91.12
1fse_A74 GERE; helix-turn-helix DNA-binding protein transcr 90.95
1jko_C52 HIN recombinase, DNA-invertase HIN; water-mediated 90.66
2jrt_A95 Uncharacterized protein; solution, structure, NESG 90.46
1p4w_A99 RCSB; solution structure, DNA binding domain, DNA 90.27
1je8_A82 Nitrate/nitrite response regulator protein NARL; p 90.19
3c57_A95 Two component transcriptional regulatory protein; 89.94
1wy3_A35 Villin; structural protein; HET: NLE; 0.95A {Synth 89.61
2elh_A87 CG11849-PA, LD40883P; structural genomics, NPPSFA, 89.41
1s7o_A113 Hypothetical UPF0122 protein SPY1201/SPYM3_0842/SP 89.32
2x48_A55 CAG38821; archeal virus, viral protein; 2.60A {Sul 89.24
1xsv_A113 Hypothetical UPF0122 protein SAV1236; helix-turn-h 88.79
3frw_A107 Putative Trp repressor protein; structural genomic 88.78
1und_A37 Advillin, P92; actin binding, F-actin binding, cyt 88.48
1x3u_A79 Transcriptional regulatory protein FIXJ; helix-tur 87.59
1or7_A194 Sigma-24, RNA polymerase sigma-E factor; regulatio 87.57
2rnj_A91 Response regulator protein VRAR; HTH LUXR-type dom 87.24
1pdn_C128 Protein (PRD paired); protein-DNA complex, double 87.18
1k78_A149 Paired box protein PAX5; paired domain, ETS domain 86.85
2jpc_A61 SSRB; DNA binding protein, structural genomics, PS 86.81
3ulq_B90 Transcriptional regulatory protein COMA; tetratric 86.37
1u78_A141 TC3 transposase, transposable element TC3 transpos 86.05
1rp3_A239 RNA polymerase sigma factor sigma-28 (FLIA); trans 86.04
2lfw_A157 PHYR sigma-like domain; signal transduction, respo 85.76
2rn7_A108 IS629 ORFA; helix, all alpha, unknown function, st 85.35
1hlv_A131 CENP-B, major centromere autoantigen B; helix-turn 85.15
1iuf_A144 Centromere ABP1 protein; riken structural genomics 84.91
2q1z_A184 RPOE, ECF SIGE; ECF sigma factor, cupin fold, zinc 83.69
3mzy_A164 RNA polymerase sigma-H factor; PSI, MCSG, structur 83.06
2k27_A159 Paired box protein PAX-8; paired domain, solution 82.46
1j1v_A94 Chromosomal replication initiator protein DNAA, 5' 80.98
1u78_A141 TC3 transposase, transposable element TC3 transpos 80.52
>2w7n_A TRFB transcriptional repressor protein; INCP, plasmid, repressor, DNA-binding, transcription/DNA; HET: BRU; 1.85A {Escherichia coli} Back     alignment and structure
Probab=95.03  E-value=0.017  Score=44.79  Aligned_cols=60  Identities=12%  Similarity=0.129  Sum_probs=47.1

Q ss_pred             CCCHHHHHHHHHHHhcCCccccCCCCCHHHHHHhheeccccccchhhhhcccccccchhhhhhhhHHHHHH
Q 015913           56 RMDKKVFYKLCDILQSKGLLRHTNRIKIEEQLAIFMFIVGHNLRTRAVQELFRYSGETISRHFNNVLNAIM  126 (398)
Q Consensus        56 rms~~~F~~L~~~l~~~~~~~~~~~~s~e~~l~~~L~~L~~~~~~~~l~~~fgis~stv~r~~~~v~~~l~  126 (398)
                      |||.+.|+.+...++          ++. ..+-++=.|+-.|.++.++|..+|+|+++|++.+.+.-+...
T Consensus         4 rmT~~eFe~~~~~l~----------~~~-~~~~~A~lyYv~g~tQ~eIA~~lGiSR~~VsrlL~~Ar~~~~   63 (101)
T 2w7n_A            4 RLTESQFQEAIQGLE----------VGQ-QTIEIARGVLVDGKPQATFATSLGLTRGAVSQAVHRVWAAFE   63 (101)
T ss_dssp             CCCHHHHHHHHTTCC----------CCH-HHHHHHHHHHTTCCCHHHHHHHHTCCHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHccCC----------hHH-HHHHHHHHHHHcCCCHHHHHHHHCCCHHHHHHHHHHHHHHHh
Confidence            799999999987662          222 224445556677999999999999999999999998887653
>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
>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
>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
>2glo_A Brinker CG9653-PA; protein-DNA complex, helix-turn-helix motif, transcription/DNA complex; NMR {Drosophila melanogaster} 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
>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
>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
>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
>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
>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
>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
>2jrt_A Uncharacterized protein; solution, structure, NESG, PSI, target RHR5, structural genomics, protein structure initiative; NMR {Rhodobacter sphaeroides} 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
>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
>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
>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
>2elh_A CG11849-PA, LD40883P; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Drosophila melanogaster} 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
>2x48_A CAG38821; archeal virus, viral protein; 2.60A {Sulfolobus islandicus rod-shaped virusorganism_taxid} 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
>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
>1und_A Advillin, P92; actin binding, F-actin binding, cytoskeleton, headpiece subdomain; NMR {Homo sapiens} SCOP: a.14.1.1 Back     alignment and structure
>1x3u_A Transcriptional regulatory protein FIXJ; helix-turn-helix; NMR {Sinorhizobium meliloti} 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
>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
>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
>2jpc_A SSRB; DNA binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium} 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
>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
>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
>2lfw_A PHYR sigma-like domain; signal transduction, response regulator, sigma factor mimicr sigma factor, general stress response, signaling protein; NMR {Sphingomonas SP} 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
>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
>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
>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
>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
>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

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 ?
Query398
d1ijwc_47 HIN recombinase (DNA-binding domain) {Synthetic} 96.31
d1rp3a271 Sigma factor sigma-28 (FliA) {Aquifex aeolicus [Ta 94.59
d1hlva166 DNA-binding domain of centromere binding protein B 93.75
d1s7oa_106 Hypothetical protein SPy1201 {Streptococcus pyogen 93.0
d1or7a168 SigmaE factor (RpoE) {Escherichia coli [TaxId: 562 92.91
d1xsva_106 Hypothetical protein SAV1236 {Staphylococcus aureu 90.93
d2jn6a189 Uncharacterized protein Cgl2762 {Corynebacterium g 90.54
d1k78a163 Pax-5 {Human (Homo sapiens) [TaxId: 9606]} 90.2
d1i5za169 Catabolite gene activator protein (CAP), C-termina 89.55
d1unda_36 Advillin {Human (Homo sapiens) [TaxId: 9606]} 89.09
d1pdnc_123 Paired protein (prd) {Fruit fly (Drosophila melano 89.05
d1yu8x135 Villin {Chicken (Gallus gallus) [TaxId: 9031]} 88.84
d1ft9a180 CO-sensing protein CooA, C-terminal domain {Rhodos 87.82
d1fsea_67 Germination protein GerE {Bacillus subtilis [TaxId 87.55
d1zyba173 Probable transcription regulator BT4300, C-termina 86.58
d1l3la165 Quorum-sensing transcription factor TraR, C-termin 86.49
d1a04a167 Nitrate/nitrite response regulator (NarL) {Escheri 86.4
d1yioa170 Response regulatory protein StyR, C-terminal domai 85.44
d2d1ha1109 Hypothetical transcriptional regulator ST1889 {Sul 84.76
d1ku3a_61 Sigma70 (SigA, RpoD) {Thermus aquaticus [TaxId: 27 84.68
d1p4wa_87 Transcriptional regulator RcsB {Erwinia amylovora 84.02
d2gaua181 Transcriptional regulator PG0396, C-terminal domai 83.9
d2hsga157 Glucose-resistance amylase regulator CcpA, N-termi 83.74
d3e5ua180 Chlorophenol reduction protein CprK {Desulfitobact 83.65
d1qpza157 Purine repressor (PurR), N-terminal domain {Escher 82.4
d1efaa159 Lac repressor (LacR), N-terminal domain {Escherich 80.02
>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=96.31  E-value=0.00037  Score=44.51  Aligned_cols=35  Identities=11%  Similarity=0.159  Sum_probs=32.0

Q ss_pred             HHHHHhheeccccccchhhhhcccccccchhhhhh
Q 015913           84 EEQLAIFMFIVGHNLRTRAVQELFRYSGETISRHF  118 (398)
Q Consensus        84 e~~l~~~L~~L~~~~~~~~l~~~fgis~stv~r~~  118 (398)
                      ++|+..+..+++.|.+..+||..||||++|++|++
T Consensus         8 ~~q~~~a~~l~~~G~s~~~iA~~~gVSr~TiYry~   42 (47)
T d1ijwc_           8 KHEQEQISRLLEKGHPRQQLAIIFGIGVSTLYRYF   42 (47)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHS
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHCcCHHHHHhhC
Confidence            47788888889999999999999999999999986
>d1rp3a2 a.4.13.2 (A:164-234) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure
>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
>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
>d1xsva_ a.4.13.3 (A:) Hypothetical protein SAV1236 {Staphylococcus aureus, strain Mu50 / ATCC 700699 [TaxId: 1280]} 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
>d1k78a1 a.4.1.5 (A:19-81) Pax-5 {Human (Homo sapiens) [TaxId: 9606]} 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
>d1unda_ a.14.1.1 (A:) Advillin {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
>d1yu8x1 a.14.1.1 (X:42-76) Villin {Chicken (Gallus gallus) [TaxId: 9031]} 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
>d1fsea_ a.4.6.2 (A:) Germination protein GerE {Bacillus subtilis [TaxId: 1423]} 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
>d1a04a1 a.4.6.2 (A:150-216) Nitrate/nitrite response regulator (NarL) {Escherichia coli [TaxId: 562]} 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
>d2d1ha1 a.4.5.50 (A:1-109) Hypothetical transcriptional regulator ST1889 {Sulfolobus tokodaii [TaxId: 111955]} Back     information, alignment and structure
>d1ku3a_ a.4.13.2 (A:) Sigma70 (SigA, RpoD) {Thermus aquaticus [TaxId: 271]} Back     information, alignment and structure
>d1p4wa_ a.4.6.2 (A:) Transcriptional regulator RcsB {Erwinia amylovora [TaxId: 552]} 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
>d2hsga1 a.35.1.5 (A:2-58) Glucose-resistance amylase regulator CcpA, N-terminal domain {Bacillus megaterium [TaxId: 1404]} 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
>d1qpza1 a.35.1.5 (A:2-58) Purine repressor (PurR), N-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1efaa1 a.35.1.5 (A:2-60) Lac repressor (LacR), N-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure