Citrus Sinensis ID: 035627

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-------400-------410-------420-------430----
RILFSFTPEDTNQKPYAASIKDITQSRDGSMMVTGRWFYHPEEADRKGGGNWLSGDTRELFYSFHRDEIPVESVMHKCVVHFVPIHKHLPNHKQHPGLSFKRFMTLWTGNSGSLLIKTMKIISSMRLISLDQKTRVRFGDLPDIEPQETAAQEQEDQLKAKRMLWKKNISPLDVSREEGCMTRFKALTRETYRDKWLERLLQGLQHNGNSFLWPDTAIAAVTALEKASHDALSSDFQKRNQKLRQLLFNLKSTALLALRFLKGKLEPSKILDMSPNELNEGLTAEETAKEESDESEQMQMTDARCSRCNECKVGLRDIIQAGLGDRYQQLSKALGVYCHGHSWYASRNEASSLTIDGRGSAAKSIGIASLAAAKFDSLEKNLSSPREFEKSANDLLKKSSEAYMPVLEAHRSFSKSKTEENPDSSKVKKANRQS
ccEEEEEcccccccccEEEEcEEcccccccEEEEEEEEEcccccccccccccccccccccEEEccccccccccccccEEEEEccccccccccccccccccccccccccccccccccHHHHcccHHHHHcccccHHHccccccccccccccHHHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHccccHHHHHHHHccccccHHHccccHHHccccccHHHHHHHcHHHHHHcccccccccccccccccEEEEEEccccccccccccEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccHHHHHcccccccccccccccccHHHcccc
cEEEEEcccccccccEEEEEEEEEEcccccEEEEEEEEEcHHHHHHHccccEccccccEEEEccccccccHHHEcccEEEEEEcccEEcccccccccEEEEEEEcccccEEEEEcccccccccccHccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccHHHHHccccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHccHHHHHHHHcccccHHHHEEccHHHHHHccHHHHHHHHcHHHHHHHccHHccccccccccccHHHHHHcccccccccccEEEEEEcccccEEcccccEEEEEEcccccccccccccccHHcHHHHHHHHccccccccccHHHHHccccccccccHHHccccccccccccccHHHHHHHHccc
rilfsftpedtnqkpyaaSIKDitqsrdgsmmvtgrwfyhpeeadrkgggnwlsgdtrelfysfhrdeipvesvMHKCVVHfvpihkhlpnhkqhpglsfkrfmtlwtgnsgsLLIKTMKIISSMRLISldqktrvrfgdlpdiepqetAAQEQEDQLKAKRMLWKknispldvsreegcmTRFKALTRETYRDKWLERLLQGLQhngnsflwpDTAIAAVTALEKASHDALSSDFQKRNQKLRQLLFNLKSTALLALRFLKgklepskildmspnelnegltaeetakeesdeseqmqmtdarcsrcnecKVGLRDIIQAGLGDRYQQLSKALGVychghswyasrneassltidgrgsaaKSIGIASLAAAKFDsleknlsspreFEKSANDLLKKSSEAYMPVLEAHrsfskskteenpdsskvkkanrqs
rilfsftpedtnqkpyaasikditqsrdgsMMVTGRWFYHPEEADRKGGGNWLSGDTRELFYSFHRDEIPVESVMHKCVVHFVPIHkhlpnhkqHPGLSFKRFMTLWTGNSGSLLIKTMKIISSMRLISLDQKTRVRFGDLPDIEPQETAAQEQEDQLKAKRMLWKKnispldvsreegcmTRFKALTRETYRDKWLERLLQGLQHNGNSFLWPDTAIAAVTALEKASHDALSSDFQKRNQKLRQLLFNLKSTALLALRFLKGklepskildmspnelnegLTAEetakeesdeseqmqmtdarcSRCNECKVGLRDIIQAGLGDRYQQLSKALGVYCHGHSWYASRNEASSLTIDGRGSAAKSIGIASLAAAKFDSLEKNLSSPREFEKSANDLLKKSSEAYMPVLEAhrsfskskteenpdsskvkkanrqs
RILFSFTPEDTNQKPYAASIKDITQSRDGSMMVTGRWFYHPEEADRKGGGNWLSGDTRELFYSFHRDEIPVESVMHKCVVHFVPIHKHLPNHKQHPGLSFKRFMTLWTGNSGSLLIKTMKIISSMRLISLDQKTRVRFGDLPDIEPQETAAQEQEDQLKAKRMLWKKNISPLDVSREEGCMTRFKALTRETYRDKWLERLLQGLQHNGNSFLWPDTAIAAVTALEKASHDALSSDFQKRNQKLRQLLFNLKSTALLALRFLKGKLEPSKILDMSPNELNEGLtaeetakeesdeseQMQMTDARCSRCNECKVGLRDIIQAGLGDRYQQLSKALGVYCHGHSWYASRNEASSLTIDGRGSAAKSIGIASLAAAKFDSLEKNLSSPREFEKSANDLLKKSSEAYMPVLEAHRSFSKSKTEENPDSSKVKKANRQS
******************************MMVTGRWFYHPEEADRKGGGNWLSGDTRELFYSFHRDEIPVESVMHKCVVHFVPIHKHLPNHKQHPGLSFKRFMTLWTGNSGSLLIKTMKIISSMRLISLDQKTRVRFG************************LWKKNISPLDVSREEGCMTRFKALTRETYRDKWLERLLQGLQHNGNSFLWPDTAIAAVTALEKA**************KLRQLLFNLKSTALLALRFLKGKL***************************************CSRCNECKVGLRDIIQAGLGDRYQQLSKALGVYCHGHSWYASRN*****************GI*******************************************************************
RILFSFTPEDTNQKPYAASIKDITQSRDGSMMVTGRWFYHPEEADRKG******GDTRELFYSFHRDEIPVESVMHKCVVHFVPIH**********GLSFKRFMTLWTGNSGSLLIKTMKI**********************************************************************YRDKWLERLLQGLQHNGNSFLWPDTAIAAVTALEKASHDALSSDFQKRNQKLRQLLFNLKSTALLALRFLKGKLEPSKILDMS*********************************CNECKVGLRD***********QLSKALGVYCHGHSW*******************************************************************************************
RILFSFTPEDTNQKPYAASIKDITQSRDGSMMVTGRWFYHPEEADRKGGGNWLSGDTRELFYSFHRDEIPVESVMHKCVVHFVPIHKHLPNHKQHPGLSFKRFMTLWTGNSGSLLIKTMKIISSMRLISLDQKTRVRFGDLPDIEPQ***********KAKRMLWKKNISPLDVSREEGCMTRFKALTRETYRDKWLERLLQGLQHNGNSFLWPDTAIAAVTALE**********FQKRNQKLRQLLFNLKSTALLALRFLKGKLEPSKILDMSPNELNEGL**********************CSRCNECKVGLRDIIQAGLGDRYQQLSKALGVYCHGHSWYASRNEASSLTIDGRGSAAKSIGIASLAAAKFDSL*************ANDLLKKSSEAYMPVLEAH************************
RILFSFTPEDTNQKPYAASIKDITQSRDGSMMVTGRWFYHPEEADRKGGGNWLSGDTRELFYSFHRDEIPVESVMHKCVVHFVPIHKHLPNHKQHPGLSFKRFMTLWTGNSGSLLIKTMKIISSMRLISLDQKTRVRFGDLP********************************SREEGCMTRFKALTRETYRDKWLERLLQGLQHNGNSFLWPDTAIAAVTALEKASHDALSSDFQKRNQKLRQLLFNLKSTALLALRFLKGKLEPSKILDMSPNELNEGLTAEETAKEESDESEQMQMTDARCSRCNECKVGLRDIIQAGLGDRYQQLSKALGVYCHGHSWYASRNEASSLTIDGR**********SL*AAKFDSL*KNLS**************KSSEAYMPVLEAHRSFS********************
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RILFSFTPEDTNQKPYAASIKDITQSRDGSMMVTGRWFYHPEEADRKGGGNWLSGDTRELFYSFHRDEIPVESVMHKCVVHFVPIHKHLPNHKQHPGLSFKRFMTLWTGNSGSLLIKTMKIISSMRLISLDQKTRVRFGDLPDIEPQETAAQEQEDQLKAKRMLWKKNISPLDVSREEGCMTRFKALTRETYRDKWLERLLQGLQHNGNSFLWPDTAIAAVTALEKASHDALSSDFQKRNQKLRQLLFNLKSTALLALRFLKGKLEPSKILDMSPNELNEGLTAEETAKEESDESEQMQMTDARCSRCNECKVGLRDIIQAGLGDRYQQLSKALGVYCHGHSWYASRNEASSLTIDGRGSAAKSIGIASLAAAKFDSLEKNLSSPREFEKSANDLLKKSSEAYMPVLEAHRSFSKSKTEENPDSSKVKKANRQS
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 ?
Query434 2.2.26 [Sep-21-2011]
Q3UHR02643 BAH and coiled-coil domai yes no 0.145 0.023 0.378 0.0001
Q8BSQ9 1634 Protein polybromo-1 OS=Mu no no 0.168 0.044 0.302 0.0003
Q90941 1633 Protein polybromo-1 OS=Ga no no 0.168 0.044 0.302 0.0003
Q86U86 1689 Protein polybromo-1 OS=Ho no no 0.168 0.043 0.302 0.0004
Q9P2812608 BAH and coiled-coil domai no no 0.145 0.024 0.393 0.0004
>sp|Q3UHR0|BAHC1_MOUSE BAH and coiled-coil domain-containing protein 1 OS=Mus musculus GN=Bahcc1 PE=2 SV=2 Back     alignment and function desciption
 Score = 48.1 bits (113), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 25/66 (37%), Positives = 35/66 (53%), Gaps = 3/66 (4%)

Query: 15   PYAASIKDITQSRDGSMMVTGRWFYHPEEADRKGGGNWLSGDTRELFYSFHRDEIPVESV 74
            PY   I+ + +S   +M+V  +WFYHPEE      G   S     L+ S H DE  V+++
Sbjct: 2536 PYIGRIESLWESWGSNMVVKVKWFYHPEETKL---GKRQSDGKNALYQSCHEDENDVQTI 2592

Query: 75   MHKCVV 80
             HKC V
Sbjct: 2593 SHKCQV 2598

Mus musculus (taxid: 10090)
>sp|Q8BSQ9|PB1_MOUSE Protein polybromo-1 OS=Mus musculus GN=Pbrm1 PE=1 SV=4 Back     alignment and function description
>sp|Q90941|PB1_CHICK Protein polybromo-1 OS=Gallus gallus GN=PBRM1 PE=1 SV=1 Back     alignment and function description
>sp|Q86U86|PB1_HUMAN Protein polybromo-1 OS=Homo sapiens GN=PBRM1 PE=1 SV=1 Back     alignment and function description
>sp|Q9P281|BAHC1_HUMAN BAH and coiled-coil domain-containing protein 1 OS=Homo sapiens GN=BAHCC1 PE=1 SV=3 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query434
224058512 611 predicted protein [Populus trichocarpa] 0.947 0.672 0.551 1e-136
224071890 607 predicted protein [Populus trichocarpa] 0.953 0.682 0.540 1e-132
449452318 610 PREDICTED: uncharacterized protein LOC10 0.949 0.675 0.527 1e-132
356528332 605 PREDICTED: uncharacterized protein LOC10 0.949 0.680 0.536 1e-131
225426420 595 PREDICTED: uncharacterized protein LOC10 0.949 0.692 0.526 1e-129
297742521 1085 unnamed protein product [Vitis vinifera] 0.949 0.379 0.526 1e-129
356528334 596 PREDICTED: uncharacterized protein LOC10 0.949 0.691 0.537 1e-127
359474210 584 PREDICTED: uncharacterized protein LOC10 0.949 0.705 0.532 1e-125
357481593 596 BAH and coiled-coil domain-containing pr 0.960 0.699 0.489 1e-120
356513389 571 PREDICTED: uncharacterized protein LOC10 0.852 0.647 0.533 1e-117
>gi|224058512|ref|XP_002299533.1| predicted protein [Populus trichocarpa] gi|222846791|gb|EEE84338.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  490 bits (1262), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 267/484 (55%), Positives = 313/484 (64%), Gaps = 73/484 (15%)

Query: 6   FTPEDTNQKPYAASIKDITQSRDGSMMVTGRWFYHPEEADRKGGGNWLSGDTRELFYSFH 65
             PED  QKPY A IKDI+Q++DGSMMVTG+WFY PEEA+RKGGG+W S DTRELFYSFH
Sbjct: 134 LVPEDKEQKPYVAIIKDISQTKDGSMMVTGQWFYRPEEAERKGGGSWQSRDTRELFYSFH 193

Query: 66  RDEIPVESVMHKCVVHFVPIHKHLPNHKQHPGLSFKRFMTLWTGNSGSLLIKTMKIISSM 125
           RDE+P ESVMHKCVVHFVP+HK LPN KQ+PG   ++           L  K  +     
Sbjct: 194 RDEVPAESVMHKCVVHFVPVHKQLPNRKQYPGFIVRKVYDTVERKLWKLTDKDYEDNKQH 253

Query: 126 RLISLDQKTRVRFGDLPDIEPQETAAQ---EQEDQLKAKRMLWKKNISPLDVSREEGCMT 182
            +  L QKT  R GDLPDIE ++  A    E ED  KAKR L +K +SPLDV+REE   T
Sbjct: 254 EIDLLVQKTLSRMGDLPDIEVEDAPAAAPPELEDPTKAKRTLRRKTVSPLDVTREEEATT 313

Query: 183 R-------------------------FKALTRETYRDKWLERLLQGLQH----------- 206
           R                         F ALT +T+RDKWLERLLQ +Q+           
Sbjct: 314 RSDNFKAETPGSCTGNGSEYYAILVKFDALTGDTHRDKWLERLLQCIQYMCISSNSTLDD 373

Query: 207 ---------------------------NGNSFLWPDTAIAAVTALEKASHDALSSDFQKR 239
                                      N  SF WP+ A+ AV+ALEKASHDALSSDFQK 
Sbjct: 374 DKIKGGSDGVDHKKEQKSQGAANGSEENSKSFPWPEAAVPAVSALEKASHDALSSDFQKY 433

Query: 240 NQKLRQLLFNLKSTALLALRFLKGKLEPSKILDMSPNELNEGLTAEETAKEESDESEQMQ 299
           NQKLRQL+FNLK+ A LA R L  +LEPSKIL+MSPNEL EGLTAEETAK+E +ESE+MQ
Sbjct: 434 NQKLRQLVFNLKNNAFLARRLLNRELEPSKILNMSPNELKEGLTAEETAKKEPEESERMQ 493

Query: 300 MTDARCSRCNECKVGLRDIIQAGLGDRYQQLSKALGVYCHGHSWYASRNEASSLTIDGRG 359
           MTDARCSRC+E KVGLRDIIQAG G RYQ     L     G+SWYASR+E S L+ID   
Sbjct: 494 MTDARCSRCSEFKVGLRDIIQAGHGARYQ-----LECIACGNSWYASRDEVSMLSIDT-P 547

Query: 360 SAAKSIGIASLAAAKFDSLEKNLSSPREFEKSANDLLKKSSEAYMPVLEAHRSFSKSKTE 419
           S+A+S+G A  A AKFD +EK L SPRE +K+A + LKK+SE YMPVLE  RSF+K K E
Sbjct: 548 SSARSVGTAPWATAKFDEVEKKLVSPRESDKAA-EFLKKTSEPYMPVLENQRSFNKVKIE 606

Query: 420 ENPD 423
           ENP+
Sbjct: 607 ENPE 610

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224071890|ref|XP_002303589.1| predicted protein [Populus trichocarpa] gi|222841021|gb|EEE78568.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|449452318|ref|XP_004143906.1| PREDICTED: uncharacterized protein LOC101218620 [Cucumis sativus] Back     alignment and taxonomy information
>gi|356528332|ref|XP_003532758.1| PREDICTED: uncharacterized protein LOC100787670 isoform 1 [Glycine max] Back     alignment and taxonomy information
>gi|225426420|ref|XP_002270094.1| PREDICTED: uncharacterized protein LOC100251356 isoform 1 [Vitis vinifera] Back     alignment and taxonomy information
>gi|297742521|emb|CBI34670.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|356528334|ref|XP_003532759.1| PREDICTED: uncharacterized protein LOC100787670 isoform 2 [Glycine max] Back     alignment and taxonomy information
>gi|359474210|ref|XP_003631417.1| PREDICTED: uncharacterized protein LOC100251356 isoform 2 [Vitis vinifera] Back     alignment and taxonomy information
>gi|357481593|ref|XP_003611082.1| BAH and coiled-coil domain-containing protein [Medicago truncatula] gi|355512417|gb|AES94040.1| BAH and coiled-coil domain-containing protein [Medicago truncatula] Back     alignment and taxonomy information
>gi|356513389|ref|XP_003525396.1| PREDICTED: uncharacterized protein LOC100796051 [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 ?
Query434
TAIR|locus:2123136587 AT4G11560 [Arabidopsis thalian 0.391 0.289 0.543 2.7e-90
TAIR|locus:2040209380 AT2G25120 [Arabidopsis thalian 0.546 0.623 0.356 1.2e-35
TAIR|locus:2121601360 AT4G23120 [Arabidopsis thalian 0.543 0.655 0.349 3.3e-31
TAIR|locus:2097134380 AT3G43990 [Arabidopsis thalian 0.603 0.689 0.318 7.1e-29
TAIR|locus:2097915 1613 SUO "'shuttle' in chinese" [Ar 0.186 0.050 0.357 4.8e-06
TAIR|locus:2097925 1611 AT3G48060 [Arabidopsis thalian 0.186 0.050 0.357 7.6e-06
TAIR|locus:2137256193 AT4G04260 [Arabidopsis thalian 0.186 0.419 0.345 1.3e-05
TAIR|locus:2120693234 EBS "EARLY BOLTING IN SHORT DA 0.186 0.346 0.333 5.9e-05
UNIPROTKB|E1BNH8 1664 E1BNH8 "Uncharacterized protei 0.421 0.109 0.25 0.00017
UNIPROTKB|E7EVG21461 PBRM1 "Protein polybromo-1" [H 0.421 0.125 0.255 0.00041
TAIR|locus:2123136 AT4G11560 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 481 (174.4 bits), Expect = 2.7e-90, Sum P(2) = 2.7e-90
 Identities = 93/171 (54%), Positives = 116/171 (67%)

Query:     8 PEDTNQKPYAASIKDITQSRDGSMMVTGRWFYHPEEADRKGGGNWLSGDTRELFYSFHRD 67
             PED +QKPY A IKDITQ++DGSMM+ G+WFY PEEA+++GGGNW S DTRELFYSFHRD
Sbjct:   141 PEDKSQKPYVAIIKDITQTKDGSMMILGQWFYRPEEAEKRGGGNWQSSDTRELFYSFHRD 200

Query:    68 EIPVESVMHKCVVHFVPIHKHLPNHKQHPGLSFKRFMTLWTGNSGSLLIKTMKIISSMRL 127
             E+P ESVMH+CVV+FVP HK LP  K +PG   ++           L  K  +      +
Sbjct:   201 EVPAESVMHRCVVYFVPAHKQLPKRKNNPGFIVRKVYDTVEKKLWKLTDKDYEDSKQREI 260

Query:   128 ISLDQKTRVRFGDLPDIEPQETAAQEQEDQLKAKRMLWKKNISPLDVSREE 178
               L +KT    GDLPD+E ++    +QE+ LKAKR   K NISP+DV REE
Sbjct:   261 DVLVKKTMNVLGDLPDLESEDMLV-DQENVLKAKRSFRKVNISPVDVRREE 310
GO:0003677 "DNA binding" evidence=IEA;ISS
GO:0005634 "nucleus" evidence=ISM
GO:0006351 "transcription, DNA-dependent" evidence=IEA
GO:0000956 "nuclear-transcribed mRNA catabolic process" evidence=RCA
GO:0009630 "gravitropism" evidence=RCA
TAIR|locus:2040209 AT2G25120 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2121601 AT4G23120 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2097134 AT3G43990 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2097915 SUO "'shuttle' in chinese" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2097925 AT3G48060 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2137256 AT4G04260 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2120693 EBS "EARLY BOLTING IN SHORT DAYS" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|E1BNH8 E1BNH8 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|E7EVG2 PBRM1 "Protein polybromo-1" [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:
GSVIVG00000421001
SubName- Full=Chromosome chr2 scaffold_105, whole genome shotgun sequence; (595 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 ?
Query434
cd04713146 cd04713, BAH_plant_3, BAH, or Bromo Adjacent Homol 4e-42
cd04370123 cd04370, BAH, BAH, or Bromo Adjacent Homology doma 8e-15
smart00439121 smart00439, BAH, Bromo adjacent homology domain 3e-14
cd04714121 cd04714, BAH_BAHCC1, BAH, or Bromo Adjacent Homolo 7e-14
pfam01426120 pfam01426, BAH, BAH domain 9e-13
pfam07500115 pfam07500, TFIIS_M, Transcription factor S-II (TFI 6e-09
smart00510102 smart00510, TFS2M, Domain in the central regions o 1e-06
cd04717121 cd04717, BAH_polybromo, BAH, or Bromo Adjacent Hom 3e-06
cd04721130 cd04721, BAH_plant_1, BAH, or Bromo Adjacent Homol 1e-05
>gnl|CDD|240064 cd04713, BAH_plant_3, BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function Back     alignment and domain information 
 Score =  145 bits (367), Expect = 4e-42
 Identities = 51/92 (55%), Positives = 63/92 (68%), Gaps = 1/92 (1%)

Query: 6   FTPEDTNQKPYAASIKDITQSRDGSMMVTGRWFYHPEEADRKGGGNWLSGDTRELFYSFH 65
             PED +QKPY A IKDI +  +GS+ +  +W Y PEE ++K GGNW + D RELFYSFH
Sbjct: 29  LVPED-DQKPYIAIIKDIYKQEEGSLKLEVQWLYRPEEIEKKKGGNWKAEDPRELFYSFH 87

Query: 66  RDEIPVESVMHKCVVHFVPIHKHLPNHKQHPG 97
           RDE+P ESV+H C V FVP  K +P  K H G
Sbjct: 88  RDEVPAESVLHPCKVAFVPKGKQIPLRKGHSG 119

BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions. Length = 146
>gnl|CDD|239835 cd04370, BAH, BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif) Back     alignment and domain information
>gnl|CDD|214664 smart00439, BAH, Bromo adjacent homology domain Back     alignment and domain information
>gnl|CDD|240065 cd04714, BAH_BAHCC1, BAH, or Bromo Adjacent Homology domain, as present in mammalian BAHCC1 and similar proteins Back     alignment and domain information
>gnl|CDD|216495 pfam01426, BAH, BAH domain Back     alignment and domain information
>gnl|CDD|219433 pfam07500, TFIIS_M, Transcription factor S-II (TFIIS), central domain Back     alignment and domain information
>gnl|CDD|128786 smart00510, TFS2M, Domain in the central regions of transcription elongation factor S-II (and elsewhere) Back     alignment and domain information
>gnl|CDD|240068 cd04717, BAH_polybromo, BAH, or Bromo Adjacent Homology domain, as present in polybromo and yeast RSC1/2 Back     alignment and domain information
>gnl|CDD|240072 cd04721, BAH_plant_1, BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 434
TIGR01385299 TFSII transcription elongation factor S-II. This m 100.0
KOG1105296 consensus Transcription elongation factor TFIIS/Co 100.0
KOG1886464 consensus BAH domain proteins [Transcription] 100.0
cd04713146 BAH_plant_3 BAH, or Bromo Adjacent Homology domain 99.96
cd04714121 BAH_BAHCC1 BAH, or Bromo Adjacent Homology domain, 99.93
cd04716122 BAH_plantDCM_I BAH, or Bromo Adjacent Homology dom 99.92
smart00510102 TFS2M Domain in the central regions of transcripti 99.91
cd04717121 BAH_polybromo BAH, or Bromo Adjacent Homology doma 99.91
PF07500115 TFIIS_M: Transcription factor S-II (TFIIS), centra 99.9
smart00439120 BAH Bromo adjacent homology domain. 99.88
cd04718148 BAH_plant_2 BAH, or Bromo Adjacent Homology domain 99.87
cd04370123 BAH BAH, or Bromo Adjacent Homology domain (also c 99.87
cd04721130 BAH_plant_1 BAH, or Bromo Adjacent Homology domain 99.86
cd04715159 BAH_Orc1p_like BAH, or Bromo Adjacent Homology dom 99.86
cd04710135 BAH_fungalPHD BAH, or Bromo Adjacent Homology doma 99.85
PF01426119 BAH: BAH domain; InterPro: IPR001025 The BAH (brom 99.84
cd04709164 BAH_MTA BAH, or Bromo Adjacent Homology domain, as 99.83
cd04712130 BAH_DCM_I BAH, or Bromo Adjacent Homology domain, 99.79
cd04760124 BAH_Dnmt1_I BAH, or Bromo Adjacent Homology domain 99.79
cd04719128 BAH_Orc1p_animal BAH, or Bromo Adjacent Homology d 99.72
cd04720179 BAH_Orc1p_Yeast BAH, or Bromo Adjacent Homology do 99.71
cd04711137 BAH_Dnmt1_II BAH, or Bromo Adjacent Homology domai 99.68
cd04708202 BAH_plantDCM_II BAH, or Bromo Adjacent Homology do 99.68
smart0044040 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding mo 99.36
PF0109639 TFIIS_C: Transcription factor S-II (TFIIS); InterP 99.31
KOG1827629 consensus Chromatin remodeling complex RSC, subuni 99.27
COG1594113 RPB9 DNA-directed RNA polymerase, subunit M/Transc 99.23
PHA02998195 RNA polymerase subunit; Provisional 99.21
KOG2906105 consensus RNA polymerase III subunit C11 [Transcri 99.09
TIGR01384104 TFS_arch transcription factor S, archaeal. There h 99.0
KOG1634 778 consensus Predicted transcription factor DATF1, co 98.93
KOG2907116 consensus RNA polymerase I transcription factor TF 98.07
KOG2691113 consensus RNA polymerase II subunit 9 [Transcripti 97.87
KOG3554 693 consensus Histone deacetylase complex, MTA1 compon 95.37
PF0985564 DUF2082: Nucleic-acid-binding protein containing Z 90.85
COG5076371 Transcription factor involved in chromatin remodel 81.07
>TIGR01385 TFSII transcription elongation factor S-II Back     alignment and domain information 
Probab=100.00  E-value=3e-48  Score=386.00  Aligned_cols=226  Identities=15%  Similarity=0.186  Sum_probs=179.4

Q ss_pred             hhhccccchhHHHHhHHHHhHhCCCCCCCcccchhh----h-h------hhhH--HhhhhhccccCCCCCCCCcC-Cccc
Q 035627          117 KTMKIISSMRLISLDQKTRVRFGDLPDIEPQETAAQ----E-Q------EDQL--KAKRMLWKKNISPLDVSREE-GCMT  182 (434)
Q Consensus       117 ~~~~~~~~~EId~Lv~Kti~kw~d~vd~EK~~k~~~----~-~------~~~~--~~~~~~~k~~~~~~~~~R~~-~d~v  182 (434)
                      .-++.|.+.+|..|+..+|..|++.|+.++.++.+.    . +      +...  +.......++..+.+.+|++ ++++
T Consensus        50 n~lrkh~~~~I~~lAk~li~~WK~~v~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  129 (299)
T TIGR01385        50 NKLRKHPNEDISKLAKKIIKSWKKVVDKNKSDHPGGNPEDKTTVGESVNSVKQEAKSQSDKIEQPKYVSSSPRNAKNDFV  129 (299)
T ss_pred             HHHHcCCcHHHHHHHHHHHHHHHHHHhhhcccCcccccccccccCCCCCCCCccccCCcccccCCCCCCCcccccCCCCC
Confidence            345679999999999999999999999875543211    0 0      0000  00001111223344566766 7888


Q ss_pred             ccccccChhHHHHHHHHHHhhhccCCCCCCChhhHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHhcc--cChhhhhhh
Q 035627          183 RFKALTRETYRDKWLERLLQGLQHNGNSFLWPDTAIAAVTALEKASHDALSSDFQKRNQKLRQLLFNLK--STALLALRF  260 (434)
Q Consensus       183 ~~~~~Tgd~~RDkcielLy~aL~~~~~s~~~~~~v~~~A~~IE~a~~~~~~~~~~~Yk~K~Rsl~~NLK--~Np~Lr~rv  260 (434)
                      .+ .+|||++||+|+++||+||+.+.+......++..+|.+||.++|..++.+..+|++|||||+||||  +||+||++|
T Consensus       130 ~~-~~t~d~~Rdk~r~~L~~aL~~~~~~~~~~~~~~~lA~~iE~~~f~~~~~~~~~Yk~k~Rsl~~NLKd~kNp~Lr~~v  208 (299)
T TIGR01385       130 PT-AVTNDKVRDKCRELLYDALAKDSDHPPQSIDPEAKAIQIEELKFNNLGTTEAAYKARYRSIYSNLRDKNNPDLRHNV  208 (299)
T ss_pred             CC-ccCCcHHHHHHHHHHHHHHhhcCCCCccccCHHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCCCCHHHHHHH
Confidence            88 589999999999999999998744322222566789999999999999888899999999999998  699999999


Q ss_pred             ccCCCCccccccCChhhhcchhcHHHHhhhhhHHHhhccc--------CccccCCCCCccccceeeecccCCCCcceeee
Q 035627          261 LKGKLEPSKILDMSPNELNEGLTAEETAKEESDESEQMQM--------TDARCSRCNECKVGLRDIIQAGLGDRYQQLSK  332 (434)
Q Consensus       261 l~G~I~p~~lv~Ms~eELas~~~~ee~~k~e~~~i~~~q~--------~~~~CgkCk~~k~ty~q~~qtrsaDe~mtt~~  332 (434)
                      |+|+|+|++|+.|+++||||+++++++++...+.++..|+        +.|+|++|++++|+|+|+ ||||||||||  +
T Consensus       209 l~G~i~p~~lv~Ms~eEmas~e~k~~~e~~~ke~l~~~~~~~~~~~~t~~~~C~~C~~~~~~~~q~-QtrsaDEpmT--~  285 (299)
T TIGR01385       209 LTGEITPEKLATMTAEEMASAELKQEREEITKENLFEAQGAKIQKAVTDLFTCGKCKQKKCTYYQL-QTRSADEPMT--T  285 (299)
T ss_pred             HcCCCCHHHHhcCCHHHcCCHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccCCCCCCccceEEEe-cccCCCCCCe--E
Confidence            9999999999999999999988877776666666665544        347999999999999995 9999999999  5


Q ss_pred             eeeccccCcccccC
Q 035627          333 ALGVYCHGHSWYAS  346 (434)
Q Consensus       333 FvtC~~CGnrWk~s  346 (434)
                      |++|++|||+|+||
T Consensus       286 f~~C~~Cg~~w~fc  299 (299)
T TIGR01385       286 FVTCEECGNRWKFC  299 (299)
T ss_pred             EEEcCCCCCeeeeC
Confidence            88999999999998

This model represents eukaryotic transcription elongation factor S-II. This protein allows stalled RNA transcription complexes to perform a cleavage of the nascent RNA and restart at the newly generated 3-prime end.
>KOG1105 consensus Transcription elongation factor TFIIS/Cofactor of enhancer-binding protein Sp1 [Transcription] Back     alignment and domain information
>KOG1886 consensus BAH domain proteins [Transcription] Back     alignment and domain information
>cd04713 BAH_plant_3 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function Back     alignment and domain information
>cd04714 BAH_BAHCC1 BAH, or Bromo Adjacent Homology domain, as present in mammalian BAHCC1 and similar proteins Back     alignment and domain information
>cd04716 BAH_plantDCM_I BAH, or Bromo Adjacent Homology domain, first copy present in DNA (Cytosine-5)-methyltransferases (DCM) from plants Back     alignment and domain information
>smart00510 TFS2M Domain in the central regions of transcription elongation factor S-II (and elsewhere) Back     alignment and domain information
>cd04717 BAH_polybromo BAH, or Bromo Adjacent Homology domain, as present in polybromo and yeast RSC1/2 Back     alignment and domain information
>PF07500 TFIIS_M: Transcription factor S-II (TFIIS), central domain; InterPro: IPR003618 Transcription factor S-II (TFIIS) is a eukaryotic protein which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites Back     alignment and domain information
>smart00439 BAH Bromo adjacent homology domain Back     alignment and domain information
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function Back     alignment and domain information
>cd04370 BAH BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif) Back     alignment and domain information
>cd04721 BAH_plant_1 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function Back     alignment and domain information
>cd04715 BAH_Orc1p_like BAH, or Bromo Adjacent Homology domain, as present in the Schizosaccharomyces pombe homolog of Saccharomyces cerevisiae Orc1p and similar proteins Back     alignment and domain information
>cd04710 BAH_fungalPHD BAH, or Bromo Adjacent Homology domain, as present in fungal proteins containing PHD domains Back     alignment and domain information
>PF01426 BAH: BAH domain; InterPro: IPR001025 The BAH (bromo-adjacent homology) family contains proteins such as eukaryotic DNA (cytosine-5) methyltransferases IPR001525 from INTERPRO, the origin recognition complex 1 (Orc1) proteins, as well as several proteins involved in transcriptional regulation Back     alignment and domain information
>cd04709 BAH_MTA BAH, or Bromo Adjacent Homology domain, as present in MTA1 and similar proteins Back     alignment and domain information
>cd04712 BAH_DCM_I BAH, or Bromo Adjacent Homology domain, as present in DNA (Cytosine-5)-methyltransferases (DCM) 1 Back     alignment and domain information
>cd04760 BAH_Dnmt1_I BAH, or Bromo Adjacent Homology domain, first copy present in DNA (Cytosine-5)-methyltransferases from Bilateria, Dnmt1 and similar proteins Back     alignment and domain information
>cd04719 BAH_Orc1p_animal BAH, or Bromo Adjacent Homology domain, as present in animal homologs of Saccharomyces cerevisiae Orc1p Back     alignment and domain information
>cd04720 BAH_Orc1p_Yeast BAH, or Bromo Adjacent Homology domain, as present in Orc1p, which again is part of the Saccharomyces cerevisiae Sir1-origin recognition complex, and as present in Sir3p Back     alignment and domain information
>cd04711 BAH_Dnmt1_II BAH, or Bromo Adjacent Homology domain, second copy present in DNA (Cytosine-5)-methyltransferases from Bilateria, Dnmt1 and similar proteins Back     alignment and domain information
>cd04708 BAH_plantDCM_II BAH, or Bromo Adjacent Homology domain, second copy present in DNA (Cytosine-5)-methyltransferases (DCM) from plants Back     alignment and domain information
>smart00440 ZnF_C2C2 C2C2 Zinc finger Back     alignment and domain information
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule Back     alignment and domain information
>KOG1827 consensus Chromatin remodeling complex RSC, subunit RSC1/Polybromo and related proteins [Chromatin structure and dynamics; Transcription] Back     alignment and domain information
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription] Back     alignment and domain information
>PHA02998 RNA polymerase subunit; Provisional Back     alignment and domain information
>KOG2906 consensus RNA polymerase III subunit C11 [Transcription] Back     alignment and domain information
>TIGR01384 TFS_arch transcription factor S, archaeal Back     alignment and domain information
>KOG1634 consensus Predicted transcription factor DATF1, contains PHD and TFS2M domains [Transcription] Back     alignment and domain information
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12 Back     alignment and domain information
>KOG2691 consensus RNA polymerase II subunit 9 [Transcription] Back     alignment and domain information
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics] Back     alignment and domain information
>PF09855 DUF2082: Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); InterPro: IPR018652 This family of proteins contains various hypothetical prokaryotic proteins as well as some Zn-ribbon nucleic-acid-binding proteins Back     alignment and domain information
>COG5076 Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription] Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query434
1w4s_A174 Crystal Structure Of The Proximal Bah Domain Of Pol 5e-05

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query434
1w4s_A174 Polybromo, polybromo 1 protein; BAH, bromo-associa 1e-22
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-10
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 7e-06
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-04
3ndq_A108 Transcription elongation factor A protein 1; helix 2e-09
3swr_A 1002 DNA (cytosine-5)-methyltransferase 1; epigenetics, 2e-08
3swr_A 1002 DNA (cytosine-5)-methyltransferase 1; epigenetics, 3e-05
4dov_A163 ORC1, origin recognition complex subunit 1; DNA re 3e-08
3av4_A 1330 DNA (cytosine-5)-methyltransferase 1; CXXC-type zi 7e-08
3av4_A 1330 DNA (cytosine-5)-methyltransferase 1; CXXC-type zi 2e-05
3po3_S178 Transcription elongation factor S-II; RNA polymera 7e-08
2dme_A120 PHD finger protein 3; PHF3, TFS2M, glioblastoma mu 1e-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
>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
>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
>3ndq_A Transcription elongation factor A protein 1; helix bundle; 1.93A {Homo sapiens} Length = 108 Back     alignment and structure
>3swr_A DNA (cytosine-5)-methyltransferase 1; epigenetics, DNA methyltransferase fold, maintenance methyla transferase; HET: DNA SFG MES; 2.49A {Homo sapiens} PDB: 3pta_A* 3pt6_A* 3pt9_A* 4da4_A* Length = 1002 Back     alignment and structure
>3swr_A DNA (cytosine-5)-methyltransferase 1; epigenetics, DNA methyltransferase fold, maintenance methyla transferase; HET: DNA SFG MES; 2.49A {Homo sapiens} PDB: 3pta_A* 3pt6_A* 3pt9_A* 4da4_A* Length = 1002 Back     alignment and structure
>4dov_A ORC1, origin recognition complex subunit 1; DNA replication, replication; 1.70A {Mus musculus} PDB: 4dow_A* Length = 163 Back     alignment and structure
>3av4_A DNA (cytosine-5)-methyltransferase 1; CXXC-type zinc finger/C5-methyltransferase family; HET: DNA; 2.75A {Mus musculus} PDB: 3av5_A* 3av6_A* Length = 1330 Back     alignment and structure
>3av4_A DNA (cytosine-5)-methyltransferase 1; CXXC-type zinc finger/C5-methyltransferase family; HET: DNA; 2.75A {Mus musculus} PDB: 3av5_A* 3av6_A* Length = 1330 Back     alignment and structure
>3po3_S Transcription elongation factor S-II; RNA polymerase II, mRNA, transcription, arrest, BACKTRACKING cleavage, transferase-DNA-RNA complex; HET: DNA BRU EPE PGE; 3.30A {Saccharomyces cerevisiae} PDB: 1y1v_S 1y1y_S 3gtm_S* 1enw_A Length = 178 Back     alignment and structure
>2dme_A PHD finger protein 3; PHF3, TFS2M, glioblastoma multiforme, brain tumor, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 120 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query434
3po3_S178 Transcription elongation factor S-II; RNA polymera 100.0
1pqv_S309 STP-alpha, transcription elongation factor S-II, D 100.0
2lw4_A113 Transcription elongation factor A protein 2; struc 99.94
3ndq_A108 Transcription elongation factor A protein 1; helix 99.93
2dme_A120 PHD finger protein 3; PHF3, TFS2M, glioblastoma mu 99.91
1w4s_A174 Polybromo, polybromo 1 protein; BAH, bromo-associa 99.88
3av4_A 1330 DNA (cytosine-5)-methyltransferase 1; CXXC-type zi 99.72
3swr_A 1002 DNA (cytosine-5)-methyltransferase 1; epigenetics, 99.7
4dov_A163 ORC1, origin recognition complex subunit 1; DNA re 99.6
1tfi_A50 Transcriptional elongation factor SII; transcripti 99.54
4ft4_B 784 DNA (cytosine-5)-methyltransferase 1; chromodomain 99.44
3swr_A 1002 DNA (cytosine-5)-methyltransferase 1; epigenetics, 99.43
3av4_A 1330 DNA (cytosine-5)-methyltransferase 1; CXXC-type zi 99.37
1qyp_A57 RNA polymerase II; transcription, RPB9, Zn ribbon, 99.2
3h0g_I113 DNA-directed RNA polymerases I, II, and III subuni 99.09
1twf_I122 B12.6, DNA-directed RNA polymerase II 14.2 kDa pol 99.07
3qt1_I133 DNA-directed RNA polymerases I, II, and III subun; 98.97
2fl7_A232 Regulatory protein SIR3; ORC, silencing, chromatin 98.39
1m4z_A238 Origin recognition complex subunit 1; DNA replicat 98.35
2kwq_A92 Protein MCM10 homolog; DNA replication, DNA bindin 83.24
>3po3_S Transcription elongation factor S-II; RNA polymerase II, mRNA, transcription, arrest, BACKTRACKING cleavage, transferase-DNA-RNA complex; HET: DNA BRU EPE PGE; 3.30A {Saccharomyces cerevisiae} PDB: 1y1v_S 1y1y_S 3gtm_S* 1enw_A Back     alignment and structure
Probab=100.00  E-value=7.8e-46  Score=343.39  Aligned_cols=165  Identities=16%  Similarity=0.194  Sum_probs=136.3

Q ss_pred             CcC-CcccccccccChhHHHHHHHHHHhhhccCCCCCCChhhHHHHHHHHHHHHHHhccC-ChH-HHHHHHHHHHHhcc-
Q 035627          176 REE-GCMTRFKALTRETYRDKWLERLLQGLQHNGNSFLWPDTAIAAVTALEKASHDALSS-DFQ-KRNQKLRQLLFNLK-  251 (434)
Q Consensus       176 R~~-~d~v~~~~~Tgd~~RDkcielLy~aL~~~~~s~~~~~~v~~~A~~IE~a~~~~~~~-~~~-~Yk~K~Rsl~~NLK-  251 (434)
                      |++ +|||++ .+|||++||+|+++||+||+.+.  .+.+..++.+|.+||+++|+.+++ ++. +|++|+|||+|||| 
T Consensus         1 r~~~~d~v~~-~~~~d~vRdk~~~lL~~aL~~~~--~~~~~~~~~~A~~IE~~if~~~~~~~~~k~Yk~k~Rsl~~NLKd   77 (178)
T 3po3_S            1 RNSKNDGVDT-AIYHHKLRDQVLKALYDVLAKES--EHPPQSILHTAKAIESEMNKVNNCDTNEAAYKARYRIIYSNVIS   77 (178)
T ss_dssp             ---------------CHHHHHHHHHHHHHTTSSS--SCSTTHHHHHHHHHHHHHHHHTSCSSSSTHHHHHHHHHHHHHHS
T ss_pred             CCccCCCcCc-CcCCChHHHHHHHHHHHHHhcCC--CCchhhHHHHHHHHHHHHHHHhcCCCchhhhhhhhhHHHHHcCC
Confidence            455 899999 68999999999999999999984  345778999999999999999986 344 89999999999998 


Q ss_pred             -cChhhhhhhccCCCCccccccCChhhhcchhcHHHHhhhhhHHHhhccc--------CccccCCCCCccccceeeeccc
Q 035627          252 -STALLALRFLKGKLEPSKILDMSPNELNEGLTAEETAKEESDESEQMQM--------TDARCSRCNECKVGLRDIIQAG  322 (434)
Q Consensus       252 -~Np~Lr~rvl~G~I~p~~lv~Ms~eELas~~~~ee~~k~e~~~i~~~q~--------~~~~CgkCk~~k~ty~q~~qtr  322 (434)
                       +||+||++|++|+|+|+.|+.|+++||||+++++++++...+.++++|+        +.++|++||++++.|+|+ |+|
T Consensus        78 ~~N~~Lr~~vl~g~isp~~lv~Ms~eElas~elk~~~e~~~~e~l~~~~~~~~~~~~t~~~~Cp~C~~~~a~~~q~-Q~r  156 (178)
T 3po3_S           78 KNNPDLKHKIANGDITPEFLATCDAKDLAPAPLKQKIEEIAKQNLYNAQGATIERSVTDRFTCGKCKEKKVSYYQL-QTR  156 (178)
T ss_dssp             SSCSHHHHHHHHCCCTTHHHHCCTTTTSSCSHHHHHHHHHHHHHHHHTBCCCCCCCCBSSSCCSSSCCSCEECCCC-CCS
T ss_pred             CCCHHHHHHHhcCCCCHHHHHhcCchhhCCHHHHHHHHHHHHHHHHHhhhccccCCCcCCcCCCCCCCCceEEEEe-ecc
Confidence             6999999999999999999999999999998887776666667766543        347999999999999995 999


Q ss_pred             CCCCcceeeeeeeccccCcccccC
Q 035627          323 LGDRYQQLSKALGVYCHGHSWYAS  346 (434)
Q Consensus       323 saDe~mtt~~FvtC~~CGnrWk~s  346 (434)
                      |||||||  +|++|.+|||+|+||
T Consensus       157 saDE~mt--~f~~C~~C~~~w~f~  178 (178)
T 3po3_S          157 SAAAPLT--TFCTCEACGNRWKFS  178 (178)
T ss_dssp             CTTSCCC--CCEEETTTCCEECCC
T ss_pred             cCCCCCc--EEEEcCCCCCeeccC
Confidence            9999999  588999999999997
>1pqv_S STP-alpha, transcription elongation factor S-II, DNA; mRNA cleavage, proofreading, BACKTRACKING, gene expression, multiprotein complex; 3.80A {Saccharomyces cerevisiae} SCOP: i.8.1.1 PDB: 1eo0_A Back     alignment and structure
>2lw4_A Transcription elongation factor A protein 2; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens} Back     alignment and structure
>3ndq_A Transcription elongation factor A protein 1; helix bundle; 1.93A {Homo sapiens} Back     alignment and structure
>2dme_A PHD finger protein 3; PHF3, TFS2M, glioblastoma multiforme, brain tumor, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>3av4_A DNA (cytosine-5)-methyltransferase 1; CXXC-type zinc finger/C5-methyltransferase family; HET: DNA; 2.75A {Mus musculus} PDB: 3av5_A* 3av6_A* Back     alignment and structure
>3swr_A DNA (cytosine-5)-methyltransferase 1; epigenetics, DNA methyltransferase fold, maintenance methyla transferase; HET: DNA SFG MES; 2.49A {Homo sapiens} PDB: 3pta_A* 3pt6_A* 3pt9_A* 4da4_A* Back     alignment and structure
>4dov_A ORC1, origin recognition complex subunit 1; DNA replication, replication; 1.70A {Mus musculus} PDB: 4dow_A* Back     alignment and structure
>1tfi_A Transcriptional elongation factor SII; transcription regulation; NMR {Homo sapiens} SCOP: g.41.3.1 Back     alignment and structure
>4ft4_B DNA (cytosine-5)-methyltransferase 1; chromodomain, BAH domain, DNA methyltransferase domain, H3K9 binding, methylation, transferase; HET: DNA MLY SAH; 2.70A {Zea mays} PDB: 4ft2_A* 4fsx_A* Back     alignment and structure
>3swr_A DNA (cytosine-5)-methyltransferase 1; epigenetics, DNA methyltransferase fold, maintenance methyla transferase; HET: DNA SFG MES; 2.49A {Homo sapiens} PDB: 3pta_A* 3pt6_A* 3pt9_A* 4da4_A* Back     alignment and structure
>3av4_A DNA (cytosine-5)-methyltransferase 1; CXXC-type zinc finger/C5-methyltransferase family; HET: DNA; 2.75A {Mus musculus} PDB: 3av5_A* 3av6_A* Back     alignment and structure
>1qyp_A RNA polymerase II; transcription, RPB9, Zn ribbon, hyperthermophilic, extremophIle; NMR {Thermococcus celer} SCOP: g.41.3.1 Back     alignment and structure
>3h0g_I DNA-directed RNA polymerases I, II, and III subunit rpabc5; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} Back     alignment and structure
>1twf_I B12.6, DNA-directed RNA polymerase II 14.2 kDa polypepti; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: g.41.3.1 g.41.3.1 PDB: 1i3q_I 1i6h_I 1k83_I* 1nik_I 1nt9_I 1pqv_I 1r5u_I 1r9s_I* 1r9t_I* 1sfo_I* 1twa_I* 1twc_I* 1i50_I* 1twg_I* 1twh_I* 1wcm_I 1y1v_I 1y1w_I 1y1y_I 1y77_I* ... Back     alignment and structure
>3qt1_I DNA-directed RNA polymerases I, II, and III subun; transferase-transcription complex, RNA polymerase II, transc elongation; 4.30A {Saccharomyces cerevisiae} Back     alignment and structure
>2fl7_A Regulatory protein SIR3; ORC, silencing, chromatin, transcription; 1.85A {Saccharomyces cerevisiae} PDB: 2fvu_A 3tu4_K* Back     alignment and structure
>1m4z_A Origin recognition complex subunit 1; DNA replication, transcriptional silencing, chromatin, BAH D gene regulation; 2.20A {Saccharomyces cerevisiae} SCOP: b.34.12.1 PDB: 1zhi_A 1zbx_A Back     alignment and structure
>2kwq_A Protein MCM10 homolog; DNA replication, DNA binding, zinc motif, zinc ribbon binding protein; NMR {Xenopus laevis} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 434
d1m4za_217 b.34.12.1 (A:) Origin-recognition complex protein 3e-08
d1enwa_114 a.5.4.1 (A:) Elongation factor TFIIS domain 2 {Bak 4e-07
>d1m4za_ b.34.12.1 (A:) Origin-recognition complex protein 120kDa subunit, Orc1p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 217 Back     information, alignment and structure

class: All beta proteins
fold: SH3-like barrel
superfamily: BAH domain
family: BAH domain
domain: Origin-recognition complex protein 120kDa subunit, Orc1p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 51.9 bits (124), Expect = 3e-08
 Identities = 7/79 (8%), Positives = 20/79 (25%), Gaps = 2/79 (2%)

Query: 26  SRDGSMMVTGRWFYHPEEADRKGGGNWLSGDTRELFYSFHRDEIPVESVMHKCVVHFVPI 85
           +              P            + +  EL+ +    E+ + + +    V     
Sbjct: 103 AHYRQFNPDANILNRPLN--YYNKLFSETANKNELYLTAELAELQLFNFIRVANVMDGSK 160

Query: 86  HKHLPNHKQHPGLSFKRFM 104
            + L  +         R++
Sbjct: 161 WEVLKGNVDPERDFTVRYI 179
>d1enwa_ a.5.4.1 (A:) Elongation factor TFIIS domain 2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 114 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query434
d1enwa_114 Elongation factor TFIIS domain 2 {Baker's yeast (S 99.9
d1tfia_50 Transcriptional factor SII, C-terminal domain {Hum 99.69
d1qypa_57 RBP9 subunit of RNA polymerase II {Archaeon Thermo 99.4
d1m4za_217 Origin-recognition complex protein 120kDa subunit, 99.36
d1twfi272 RBP9 subunit of RNA polymerase II {Baker's yeast ( 99.29
>d1enwa_ a.5.4.1 (A:) Elongation factor TFIIS domain 2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: Elongation factor TFIIS domain 2
family: Elongation factor TFIIS domain 2
domain: Elongation factor TFIIS domain 2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.90  E-value=2.1e-25  Score=191.04  Aligned_cols=106  Identities=16%  Similarity=0.200  Sum_probs=96.6

Q ss_pred             CCCCCcC-CcccccccccChhHHHHHHHHHHhhhccCCCCCCChhhHHHHHHHHHHHHHHhccC--ChHHHHHHHHHHHH
Q 035627          172 LDVSREE-GCMTRFKALTRETYRDKWLERLLQGLQHNGNSFLWPDTAIAAVTALEKASHDALSS--DFQKRNQKLRQLLF  248 (434)
Q Consensus       172 ~~~~R~~-~d~v~~~~~Tgd~~RDkcielLy~aL~~~~~s~~~~~~v~~~A~~IE~a~~~~~~~--~~~~Yk~K~Rsl~~  248 (434)
                      ++.||++ +|||+. .+|+|.+||+|+++||++|+.+  ..+.++.+..+|.+||+++|..|+.  ...+|++|+|||+|
T Consensus         2 ~~~pr~~k~d~v~~-~~~~d~~R~~~~~~L~~aL~~~--~~~~~~~~~~la~~IE~~lf~~~~~~~~~~~Y~~k~rsi~~   78 (114)
T d1enwa_           2 SHMPRNSKNDGVDT-AIYHHKLRDQVLKALYDVLAKE--SEHPPQSILHTAKAIESEMNKVNNCDTNEAAYKARYRIIYS   78 (114)
T ss_dssp             CCCSCSTTTTCCCC-CSSTTTTHHHHHHHHHHHHHHH--CSSSCSCHHHHHHHHTTTTTSSCTTTTTHHHHHHHHHHHHH
T ss_pred             CCCCCCccCCCCCC-ccCCcHHHHHHHHHHHHHHhCc--CccchhHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHHH
Confidence            5678999 899999 7899999999999999999987  3446788999999999999999864  34689999999999


Q ss_pred             hcc--cChhhhhhhccCCCCccccccCChhhhcc
Q 035627          249 NLK--STALLALRFLKGKLEPSKILDMSPNELNE  280 (434)
Q Consensus       249 NLK--~Np~Lr~rvl~G~I~p~~lv~Ms~eELas  280 (434)
                      |||  +||+||++|++|+|+|++|+.|+++|||+
T Consensus        79 NLkd~~N~~L~~~v~~g~i~p~~l~~M~~~ElaP  112 (114)
T d1enwa_          79 NVISKNNPDLKHKIANGDITPEFLATCDAKDLAP  112 (114)
T ss_dssp             HHTTSCCCCTTTHHHHCSSCCSSHHHHTTTTTCS
T ss_pred             HcCccchHHHHHHHHcCCCCHHHHhCCCHHHcCC
Confidence            998  59999999999999999999999999998
>d1tfia_ g.41.3.1 (A:) Transcriptional factor SII, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1qypa_ g.41.3.1 (A:) RBP9 subunit of RNA polymerase II {Archaeon Thermococcus celer [TaxId: 2264]} Back     information, alignment and structure
>d1m4za_ b.34.12.1 (A:) Origin-recognition complex protein 120kDa subunit, Orc1p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1twfi2 g.41.3.1 (I:50-121) RBP9 subunit of RNA polymerase II {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure