Citrus Sinensis ID: 008136

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-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570------

MGASRKLQGEIDRVLKKVQEGVDVFDSIWNKVYDTDNANQKEKFEADLKKEIKKLQRYRDQIKTWIQSSEIKDKKVSASYEQALVDARKLIEREMERFKICEKETKTKAFSKEGLGQQPKTDPKEKAKSETRDWLNNLVSELESQIDSFEAELEGLTVKKGKTRPPRLTHLETSITRHKAHIMKLELILRLLDNDELSPEQVNDVKDLLEDYVERNQDDFEEFSDVDELYHLLPLDKVESLEDLVTIGPPGLVKGAPALSLKASLAASASQMPATVISTHQQVTSVQEQGEDTASQDSNSDVAARTPPAKSSGVGSTASTPAVGPATPISINVPAQTLSNASNTSPVLPGSSSVRGVFDNTGPISSSPPVNLTSSTKEEDVGNFPGRRSSPSLTDVRVMGRGGLSSQPSSSIPLSSATAVPSNGNLGAVPLVSDVAKRNILGAEERLGSSGMVQSLVSPLSNRMILSQAAKGNDGTGSIDSNNAGETVAMAGRVFTPSMGMQWRTGNSFQNQNEPGQFRGRTEIAPDQREKFLQRLQQVQQQGHSNLLGMPLGGNKQFSSQQNPLLQQVRFCARDF

cccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHcccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHccc

cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHccHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHcccccHHHHccccHHHHHcccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccccccccccccccccccccccccccccccccccccccccccccEEcccccccccccEEccccccccccccccccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccccccHHHHHHHHHccc

MGASRKLQGEIDRVLKKVQEGVDVFDSIWNKvydtdnanqKEKFEADLKKEIKKLQRYRDQIKTWIQSSEIKDKKVSASYEQALVDARKLIEREMERFKICEKETKTkafskeglgqqpktdpkekakSETRDWLNNLVSELESQIDSFEAELEGltvkkgktrpprlthlETSITRHKAHIMKLELILRLldndelspeqvNDVKDLLEDYVERnqddfeefsdvdelyhllpldkvesledlvtigppglvkgapalSLKASLAASASQMPATVISTHQQVTSVqeqgedtasqdsnsdvaartppakssgvgstastpavgpatpisinvpaqtlsnasntspvlpgsssvrgvfdntgpisssppvnltsstkeedvgnfpgrrsspsltdvrvmgrgglssqpsssiplssatavpsngnlgavplvsdVAKRNILGAeerlgssgmvqsLVSPLSNRMILSqaakgndgtgsidsnnagetvamagrvftpsmgmqwrtgnsfqnqnepgqfrgrteiapdQREKFLQRLQQVQQQGHsnllgmplggnkqfssqqnpLLQQVRFCARDF

mgasrklqgeiDRVLKKVQEGVDVFDSIWNkvydtdnanqkekFEADLKKEIKKLQRYRDQIKtwiqsseikdkkvsaSYEQALVDARKLIEREMERFKiceketktkafskeglgqqpktdpkekaksETRDWLNNLVSELESQIDSFEAELegltvkkgktrpprlthletsitrhkaHIMKLELILRLLDNDELSPEQVNDVKDLLEDYVERNQDDFEEFSDVDELYHLLPLDKVESLEDLVTIGPPGLVKGAPALSLKASLAASASQMPATVISTHQQVTSVQEQGEdtasqdsnsdvaartppakssgvgstastpaVGPATPISINVPAQTLSNASNTSPVLPGSSSVRGVFDNtgpisssppvnltsstkeedvgnfpgrrsspsltdvRVMGRGGLSSQPSSSIPLSSATAVPSNGNLGAVPLVSDVAKRNILGaeerlgssgmVQSLVSPLSNRMILSQAAkgndgtgsidsnnagETVAMAGRVFTPSMGMQWRTGNSFQNQNEPGQFRGRTEIAPDQREKFLQRLQQVQQQGHSNLLGMPLGGNKQFSSQQNPLLQQVRFCARDF

MGASRKLQGEIDRVLKKVQEGVDVFDSIWNKVYDTDNANQKEKFEADLKKEIKKLQRYRDQIKTWIQSSEIKDKKVSASYEQALVDARKLIEREMERFKICEKETKTKAFSKEGLGQQPKTDPKEKAKSETRDWLNNLVSELESQIDSFEAELEGLTVKKGKTRPPRLTHLETSITRHKAHIMKLELILRLLDNDELSPEQVNDVKDLLEDYVERNQDDFEEFSDVDELYHLLPLDKVESLEDLVTIGPPGLVKGapalslkaslaasasQMPATVISTHQQVTSVQEQGEDTASQDSNSDVAARTPPAKSSGVGSTASTPAVGPATPISINVPAQTLSNASNTSPVLPGSSSVRGVFDNTGPISSSPPVNLTSSTKEEDVGNFPGRRSSPSLTDVRVMGRGGlssqpsssiplssATAVPSNGNLGAVPLVSDVAKRNILGAEERLGSSGMVQSLVSPLSNRMILSQAAKGNDGTGSIDSNNAGETVAMAGRVFTPSMGMQWRTGNSFQNQNEPGQFRGRTEIAPDQREKFlqrlqqvqqqGHSNLLGMPLGGNKQFSSQQNPLLQQVRFCARDF

***********DRVLKKVQEGVDVFDSIWNKVYDTDN*************EIKKLQRYRDQIKTWIQS***********YEQALVDARKLIEREMERFKIC********************************************************************HLETSITRHKAHIMKLELILRLLDNDELS**QVNDVKDLLEDYVERNQDDFEEFSDVDELYHLLPLDKVESLEDLVTIGPPGLVKGA*****************************************************************************************************************************************************************************PLVSDV*********************************************************************************************************************************************

******L*GEIDRVLKKVQEGVDVFDSIW***********************************************SASYEQALVDARKLIEREMERF********************************TRDWLNNLVSELESQIDS**************************ITRHKAHIMKLELILRLLDNDELSPEQVNDVKDLLEDYVERNQDDFEEFSDVDELYHLLPLDKVE**************************************************************************************************************************************************************************************************************************************************************************************************************************************LQQVRFCARDF

MGASRKLQGEIDRVLKKVQEGVDVFDSIWNKVYDTDNANQKEKFEADLKKEIKKLQRYRDQIKTWIQSSEIKDKKVSASYEQALVDARKLIEREMERFKICEKETKTKAFSKE******************RDWLNNLVSELESQIDSFEAELEGLTVKKGKTRPPRLTHLETSITRHKAHIMKLELILRLLDNDELSPEQVNDVKDLLEDYVERNQDDFEEFSDVDELYHLLPLDKVESLEDLVTIGPPGLVKGAPALSLKASLAASASQMPATVIS*******************************************AVGPATPISINVPAQTLSNASNTSPVLPGSSSVRGVFDNTGPISSS****************FPGRRSSPSLTDVRVMGR*****************AVPSNGNLGAVPLVSDVAKRNILGAEERLGSSGMVQSLVSPLSNRMILSQAAKGNDGTGSIDSNNAGETVAMAGRVFTPSMGMQWRTGNSFQNQNEPGQFRGRTEIAPDQREKFLQRLQQVQQQGHSNLLGMPLGGNKQFSSQQNPLLQQVRFCARDF

****RKLQGEIDRVLKKVQEGVDVFDSIWNKVYDTDNANQKEKFEADLKKEIKKLQRYRDQIKTWIQSSEIKDKKVSASYEQALVDARKLIEREMERFKICEKETKTKAFSKEGLGQQPKTDPKEKAKSETRDWLNNLVSELESQIDSFEAELEGLTVKKGKTRPPRLTHLETSITRHKAHIMKLELILRLLDNDELSPEQVNDVKDLLEDYVERNQDDFEEFSDVDELYHLLPLDKVESLED*************************************************************************************************************************************************************************************************************************************************GETVAMAGRVFTPSMGMQWRTGNS**********R**TEIAPDQREKFLQRLQQVQQQGHSNLLGMP***NKQF*S*QNPLLQQVRFCARDF

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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MGASRKLQGEIDRVLKKVQEGVDVFDSIWNKVYDTDNANQxxxxxxxxxxxxxxxxxxxxxIKTWIQSSEIKDKKVSASYEQALVDARKLIEREMERFKICEKETKTKAFSKEGLGQQPKTDPKEKAKSETxxxxxxxxxxxxxxxxxxxxxxxxxxxxKGKTRPPRLTHLETSITRHKAHIMKLELILRLLDNDELSPEQVNDVKDLLEDYVERNQDDFEEFSDVDELYHLLPLDKVESLEDLVTIGPPGLVKGAPALSLKASLAASASQMPATVISTHQQVTSVQEQGEDTASQDSNSDVAARTPPAKSSGVGSTASTPAVGPATPISINVPAQTLSNASNTSPVLPGSSSVRGVFDNTGPISSSPPVNLTSSTKEEDVGNFPGRRSSPSLTDVRVMGRGGLSSQPSSSIPLSSATAVPSNGNLGAVPLVSDVAKRNILGAEERLGSSGMVQSLVSPLSNRMILSQAAKGNDGTGSIDSNNAGETVAMAGRVFTPSMGMQWRTGNSFQNQNEPGQFRGRTEIAPDQREKFLQRLQQVQQQGHSNLLGMPLGGNKQFSSQQNPLLQQVRFCARDF

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
Query		576	2.2.26 [Sep-21-2011]
O75175		753	CCR4-NOT transcription co	yes	no	0.413	0.316	0.511	3e-62
Q8K0V4		751	CCR4-NOT transcription co	yes	no	0.413	0.316	0.507	8e-62
O13870		640	General negative regulato	yes	no	0.75	0.675	0.337	7e-54
P06102		836	General negative regulato	yes	no	0.369	0.254	0.403	2e-37
Q12514		560	General negative regulato	no	no	0.498	0.512	0.353	2e-37

>sp\|O75175\|CNOT3_HUMAN CCR4-NOT transcription complex subunit 3 OS=Homo sapiens GN=CNOT3 PE=1 SV=1	Back alignment and function desciption

 Score =  239 bits (611), Expect = 3e-62,   Method: Compositional matrix adjust.
 Identities = 131/256 (51%), Positives = 170/256 (66%), Gaps = 18/256 (7%)

Query: 1   MGASRKLQGEIDRVLKKVQEGVDVFDSIWNKVYDTDNANQKEKFEADLKKEIKKLQRYRD 60
           M   RKLQGEIDR LKKV EGV+ F+ IW K+++  NANQKEK+EADLKKEIKKLQR RD
Sbjct: 1   MADKRKLQGEIDRCLKKVSEGVEQFEDIWQKLHNAANANQKEKYEADLKKEIKKLQRLRD 60

Query: 61  QIKTWIQSSEIKDKKVSASYEQALVDARKLIEREMERFKICEKETKTKAFSKEGLGQQPK 120
           QIKTW+ S+EIKDK+        L+D RKLIE +MERFK+ E+ETKTKA+SKEGLG   K
Sbjct: 61  QIKTWVASNEIKDKR-------QLIDNRKLIETQMERFKVVERETKTKAYSKEGLGLAQK 113

Query: 121 TDPKEKAKSETRDWLNNLVSELESQIDSFEAELEGLTVK-----KGKTRPPRLTHLETSI 175
            DP +K K E   WL N +  L  Q+D FE+E+E L+V+       K +  R+  L+  I
Sbjct: 114 VDPAQKEKEEVGQWLTNTIDTLNMQVDQFESEVESLSVQTRKKKGDKDKQDRIEGLKRHI 173

Query: 176 TRHKAHIMKLELILRLLDNDELSPEQVNDVKDLLEDYVERNQD-DFEEFSDVDELYHLLP 234
            +H+ H+  LE ILR+LDND +  + +  +KD +E YV+ +QD DFEE    + LY  L 
Sbjct: 174 EKHRYHVRMLETILRMLDNDSILVDAIRKIKDDVEYYVDSSQDPDFEE---NEFLYDDLD 230

Query: 235 LDKVESLEDLVTIGPP 250
           L+ +   + LV   PP
Sbjct: 231 LEDIP--QALVATSPP 244

The CCR4-NOT complex functions as general transcription regulation complex.
Homo sapiens (taxid: 9606)

>sp\|Q8K0V4\|CNOT3_MOUSE CCR4-NOT transcription complex subunit 3 OS=Mus musculus GN=Cnot3 PE=1 SV=1	Back alignment and function description

>sp\|O13870\|NOT3_SCHPO General negative regulator of transcription subunit 3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=not3 PE=1 SV=2	Back alignment and function description

>sp\|P06102\|NOT3_YEAST General negative regulator of transcription subunit 3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=NOT3 PE=1 SV=2	Back alignment and function description

>sp\|Q12514\|NOT5_YEAST General negative regulator of transcription subunit 5 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=NOT5 PE=1 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
Query		576
224125888		886	predicted protein [Populus trichocarpa]	0.975	0.634	0.783	0.0
147860327		652	hypothetical protein VITISV_041711 [Viti	0.979	0.865	0.776	0.0
297739742		897	unnamed protein product [Vitis vinifera]	0.980	0.629	0.777	0.0
255568948		889	conserved hypothetical protein [Ricinus	0.977	0.633	0.774	0.0
359481840		888	PREDICTED: uncharacterized protein LOC10	0.972	0.630	0.765	0.0
224144772		895	predicted protein [Populus trichocarpa]	0.979	0.630	0.751	0.0
356560386		884	PREDICTED: uncharacterized protein LOC10	0.968	0.631	0.737	0.0
356559538		892	PREDICTED: uncharacterized protein LOC10	0.975	0.630	0.716	0.0
356571684		882	PREDICTED: uncharacterized protein LOC10	0.965	0.630	0.731	0.0
449446768		900	PREDICTED: uncharacterized protein LOC10	0.956	0.612	0.713	0.0

>gi\|224125888\|ref\|XP_002319700.1\| predicted protein [Populus trichocarpa] gi\|222858076\|gb\|EEE95623.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

 Score =  855 bits (2208), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 449/573 (78%), Positives = 491/573 (85%), Gaps = 11/573 (1%)

Query: 1   MGASRKLQGEIDRVLKKVQEGVDVFDSIWNKVYDTDNANQKEKFEADLKKEIKKLQRYRD 60
           MGASRKLQGEIDRVLKKVQEGVDVFDSIWNKVYDTDN NQKEKFEADLKKEIKKLQRYRD
Sbjct: 1   MGASRKLQGEIDRVLKKVQEGVDVFDSIWNKVYDTDNVNQKEKFEADLKKEIKKLQRYRD 60

Query: 61  QIKTWIQSSEIKDKKVSASYEQALVDARKLIEREMERFKICEKETKTKAFSKEGLGQQPK 120
           QIKTWIQSSEIKDKKVSASYEQALVDARK IE+EMERFKICEKETKTKAFSKEGLGQQPK
Sbjct: 61  QIKTWIQSSEIKDKKVSASYEQALVDARKTIEKEMERFKICEKETKTKAFSKEGLGQQPK 120

Query: 121 TDPKEKAKSETRDWLNNLVSELESQIDSFEAELEGLTVKKGKTRPPRLTHLETSITRHKA 180
           TDPKEKAKSETRDWLNN+V ELESQIDSFEAE+EGLTVKKGKTRPPRLTHLE SITRHK 
Sbjct: 121 TDPKEKAKSETRDWLNNVVGELESQIDSFEAEIEGLTVKKGKTRPPRLTHLEASITRHKL 180

Query: 181 HIMKLELILRLLDNDELSPEQVNDVKDLLEDYVERNQDDFEEFSDVDELYHLLPLDKVES 240
           HI KLELILRLLDNDELSPEQVNDVKD L+DYVERNQ+DF++FSDVD+LY+ LPLDKVES
Sbjct: 181 HIKKLELILRLLDNDELSPEQVNDVKDFLDDYVERNQEDFDDFSDVDDLYNSLPLDKVES 240

Query: 241 LEDLVTIGPPGLVKGAPALSLKASLAASASQMPATVISTHQQVTSVQEQGEDTASQDSNS 300
           LEDLVTIGPPGLVKGAP  SLK SL  SA QMPATV STH +   VQ+Q +DT SQDSNS
Sbjct: 241 LEDLVTIGPPGLVKGAPVHSLKTSLVTSAPQMPATVASTHHEGAVVQDQADDTTSQDSNS 300

Query: 301 DVAARTPPAKSSGVGSTASTPAVGPATPISINVPAQTLSNASNTSPVLPGSSSVRGVFDN 360
           D+ ARTPPAKSS VGS+A+    G   PIS+NV AQTL + S  SP LPGS+SVRGV +N
Sbjct: 301 DIVARTPPAKSSMVGSSAAATPTGNHAPISVNVQAQTLHDLSAASPTLPGSTSVRGVLEN 360

Query: 361 TGPISSSPPVNLTSSTKEEDVGNFPGRRSSPSLTD---VRVMGRGGLSSQPSSSIPLSSA 417
             P + S P  L +S KEE++  FPGRRSSPSL D    R +GRGGLSSQPSSSIPL S 
Sbjct: 361 AAPFNPSSPATLGNSMKEEEIAGFPGRRSSPSLADAGLARGIGRGGLSSQPSSSIPL-SP 419

Query: 418 TAVPSNGNLGAVPLVSDVAKRNILGAEERLGSSGMVQSLVSPLSNRMILSQAAKGNDGTG 477
             +PSNG  G+VPL SD+AKRNILG ++R+GS+GMVQ L SPLSNRMIL QA    DGT 
Sbjct: 420 VVIPSNGAHGSVPLASDIAKRNILGNDDRIGSAGMVQPLASPLSNRMILPQAG---DGTS 476

Query: 478 SIDSNNAGETVAMAGRVFTPSM-GMQWRTGNSFQNQNEPGQFRGRTEIAPDQREKFLQRL 536
           ++D+++AGE   M GRVF+P + GMQWR G+SFQNQNEPGQFR RTEIAPDQREKFLQRL
Sbjct: 477 AVDTSSAGEAATMGGRVFSPLVTGMQWRPGSSFQNQNEPGQFRARTEIAPDQREKFLQRL 536

Query: 537 QQVQQQGHSNLLGMP--LGGN-KQFSSQQNPLL 566
           QQVQQQGHSN+LGMP   GGN KQ+S+QQNPLL
Sbjct: 537 QQVQQQGHSNILGMPPLTGGNHKQYSAQQNPLL 569

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|147860327\|emb\|CAN83574.1\| hypothetical protein VITISV_041711 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|297739742\|emb\|CBI29924.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|255568948\|ref\|XP_002525444.1\| conserved hypothetical protein [Ricinus communis] gi\|223535257\|gb\|EEF36934.1\| conserved hypothetical protein [Ricinus communis]	Back alignment and taxonomy information

>gi\|359481840\|ref\|XP_003632676.1\| PREDICTED: uncharacterized protein LOC100253711 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|224144772\|ref\|XP_002325409.1\| predicted protein [Populus trichocarpa] gi\|222862284\|gb\|EEE99790.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|356560386\|ref\|XP_003548473.1\| PREDICTED: uncharacterized protein LOC100783415 [Glycine max]	Back alignment and taxonomy information

>gi\|356559538\|ref\|XP_003548056.1\| PREDICTED: uncharacterized protein LOC100819202 [Glycine max]	Back alignment and taxonomy information

>gi\|356571684\|ref\|XP_003554004.1\| PREDICTED: uncharacterized protein LOC100785965 [Glycine max]	Back alignment and taxonomy information

>gi\|449446768\|ref\|XP_004141143.1\| PREDICTED: uncharacterized protein LOC101206210 [Cucumis sativus] gi\|449509538\|ref\|XP_004163617.1\| PREDICTED: uncharacterized LOC101206210 [Cucumis sativus]	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
Query		576
TAIR\|locus:2172389		845	AT5G18230 [Arabidopsis thalian	0.651	0.443	0.707	1.3e-169
ZFIN\|ZDB-GENE-040927-6		901	cnot3a "CCR4-NOT transcription	0.828	0.529	0.370	6.7e-65
UNIPROTKB\|O75175		753	CNOT3 "CCR4-NOT transcription	0.748	0.572	0.386	1.8e-64
UNIPROTKB\|F6XXD6		753	CNOT3 "Uncharacterized protein	0.776	0.593	0.369	2.9e-64
MGI\|MGI:2385261		751	Cnot3 "CCR4-NOT transcription	0.807	0.619	0.364	3.7e-64
UNIPROTKB\|F1RNH3		719	CNOT3 "Uncharacterized protein	0.657	0.527	0.407	4.7e-64
UNIPROTKB\|E1BCS1		744	CNOT3 "Uncharacterized protein	0.612	0.474	0.422	7.6e-64
RGD\|1304771		751	Cnot3 "CCR4-NOT transcription	0.876	0.672	0.356	9.7e-64
ZFIN\|ZDB-GENE-030131-5838		908	cnot3b "CCR4-NOT transcription	0.645	0.409	0.407	1.2e-63
UNIPROTKB\|E2R344		710	CNOT3 "Uncharacterized protein	0.590	0.478	0.420	5.4e-63

TAIR\|locus:2172389 AT5G18230 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1310 (466.2 bits), Expect = 1.3e-169, Sum P(2) = 1.3e-169
 Identities = 278/393 (70%), Positives = 310/393 (78%)

Query:     1 MGASRKLQGEIDRVLKKVQEGVDVFDSIWNK--VYDTDNANQKEKFEADLKKEIKKLQRY 58
             MGASRKLQGEIDRVLKKVQEGVDVFDSIWNK  VYDTDN NQKEKFEADLKKEIKKLQRY
Sbjct:     1 MGASRKLQGEIDRVLKKVQEGVDVFDSIWNKWNVYDTDNVNQKEKFEADLKKEIKKLQRY 60

Query:    59 RDQIKTWIQSSEIKDKKVSASYEQALVDARKLIEREMERFKICEKETKTKAFSKEGLGQQ 118
             RDQIKTWIQSSEIKDKKVSASYEQ+LVDARKLIE+EMERFKICEKETKTKAFSKEGLGQQ
Sbjct:    61 RDQIKTWIQSSEIKDKKVSASYEQSLVDARKLIEKEMERFKICEKETKTKAFSKEGLGQQ 120

Query:   119 PKTDPKEKAKSETRDWLNNLVSELESQIDSFEAELEGLTVKKGKTRPPRLTHLETSITRH 178
             PKTDPKEKAKSETRDWLNN+VSELESQIDSFEAELEGL+VKKGKTRPPRLTHLETSITRH
Sbjct:   121 PKTDPKEKAKSETRDWLNNVVSELESQIDSFEAELEGLSVKKGKTRPPRLTHLETSITRH 180

Query:   179 KAHIMKLELILRLLDNDELSPEQVNDVKDLLEDYVERNQDDFEEFSDVDELYHLLPLDKV 238
             K HI+KLELILRLLDNDELSPEQVNDVKD L+DYVERNQDDF+EFSDVDELY  LPLD+V
Sbjct:   181 KDHIIKLELILRLLDNDELSPEQVNDVKDFLDDYVERNQDDFDEFSDVDELYSTLPLDEV 240

Query:   239 ESLEDLVTIGPPGLVKGXXXXXXXXXXXXXXXQMPATVISTHQQVTSVQEQGEDTASQDS 298
             E LEDLVT GP  LVKG               Q+ +  + TH Q     E+ EDT+  DS
Sbjct:   241 EGLEDLVTAGP--LVKGTPLSMKSSLAASAS-QVRSISLPTHHQ-----EKTEDTSLPDS 292

Query:   299 NSDVAARTPPAKS-SGVGSTASTPAVGPATPISINVPAQTLSNASNT-SPVLPGSSSVRG 356
             ++++  +TPP K+ +G+ S  STPA G   P S+NVPA  +SN S T S  +P  +S+  
Sbjct:   293 SAEMVPKTPPPKNGAGLHSAPSTPAGG--RP-SLNVPAGNVSNTSVTLSTSIPTQTSIES 349

Query:   357 VFDNTGPISSSPP--VNLTSSTKEEDVGNFPGR 387
             +  +  P+++       L S      V + P R
Sbjct:   350 M-GSLSPVAAKEEDATTLPSRKPPSSVADTPLR 381

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=ISS

ZFIN\|ZDB-GENE-040927-6 cnot3a "CCR4-NOT transcription complex, subunit 3a" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

UNIPROTKB\|O75175 CNOT3 "CCR4-NOT transcription complex subunit 3" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|F6XXD6 CNOT3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

MGI\|MGI:2385261 Cnot3 "CCR4-NOT transcription complex, subunit 3" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

UNIPROTKB\|F1RNH3 CNOT3 "Uncharacterized protein" [Sus scrofa (taxid:9823)]	Back alignment and assigned GO terms

UNIPROTKB\|E1BCS1 CNOT3 "Uncharacterized protein" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

RGD\|1304771 Cnot3 "CCR4-NOT transcription complex, subunit 3" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

ZFIN\|ZDB-GENE-030131-5838 cnot3b "CCR4-NOT transcription complex, subunit 3b" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

UNIPROTKB\|E2R344 CNOT3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	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:
	estExt_fgenesh4_pg.C_LG_XIII0282	hypothetical protein (886 aa)
		(Populus trichocarpa)
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
Query		576
pfam04065		233	pfam04065, Not3, Not1 N-terminal domain, CCR4-Not	8e-96
COG5665		548	COG5665, NOT5, CCR4-NOT transcriptional regulation	1e-54

>gnl\|CDD\|217869 pfam04065, Not3, Not1 N-terminal domain, CCR4-Not complex component	Back alignment and domain information

 Score =  291 bits (748), Expect = 8e-96
 Identities = 134/240 (55%), Positives = 170/240 (70%), Gaps = 14/240 (5%)

Query: 3   ASRKLQGEIDRVLKKVQEGVDVFDSIWNKVYDTDNANQKEKFEADLKKEIKKLQRYRDQI 62
           A+RKLQ EID++LKKV EG++ FDSI+ K+ +  NA+QKEK E+DLK+EIKKLQR RDQI
Sbjct: 2   AARKLQQEIDKLLKKVAEGLESFDSIYEKLENATNASQKEKLESDLKREIKKLQRLRDQI 61

Query: 63  KTWIQSSEIKDKKVSASYEQALVDARKLIEREMERFKICEKETKTKAFSKEGLGQQPKTD 122
           KTW+ SS+IKDK        +L++ RKLIE  MERFK  EKE KTKAFSKEGL    K D
Sbjct: 62  KTWLSSSDIKDK-------DSLLENRKLIETAMERFKAVEKEMKTKAFSKEGLSAASKLD 114

Query: 123 PKEKAKSETRDWLNNLVSELESQIDSFEAELEGLTV--KKGKTRPP---RLTHLETSITR 177
           PKEK K+E  D+L+N + EL  QI+  EAE+E L+V  KK K       R+  LE  + R
Sbjct: 115 PKEKEKAEVCDFLSNTIDELNKQIELLEAEVESLSVQRKKRKADAAKQERIAELEELLER 174

Query: 178 HKAHIMKLELILRLLDNDELSPEQVNDVKDLLEDYVERNQDDFEEFSDVDELYHLLPLDK 237
           HK HI KLELILRLL+N EL PEQV+D+K+ +E YVE NQ+   +F + + +Y  L LD+
Sbjct: 175 HKFHISKLELILRLLENGELDPEQVDDIKEDIEYYVESNQE--PDFVEDETIYDDLNLDE 232

Length = 233

>gnl\|CDD\|227952 COG5665, NOT5, CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		576
PF04065		233	Not3: Not1 N-terminal domain, CCR4-Not complex com	100.0
KOG2150		575	consensus CCR4-NOT transcriptional regulation comp	100.0
COG5665		548	NOT5 CCR4-NOT transcriptional regulation complex,	100.0
cd07674		261	F-BAR_FCHO1 The F-BAR (FES-CIP4 Homology and Bin/A	95.82
PHA02562		562	46 endonuclease subunit; Provisional	95.74
PF08317		325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	95.21
cd07673		269	F-BAR_FCHO2 The F-BAR (FES-CIP4 Homology and Bin/A	93.73
PF12128		1201	DUF3584: Protein of unknown function (DUF3584); In	93.62
TIGR03185		650	DNA_S_dndD DNA sulfur modification protein DndD. T	92.77
PF00038		312	Filament: Intermediate filament protein; InterPro:	92.55
PF03357		171	Snf7: Snf7; InterPro: IPR005024 This is a family o	92.21
KOG0963		629	consensus Transcription factor/CCAAT displacement	91.63
KOG0996		1293	consensus Structural maintenance of chromosome pro	91.38
PRK04863		1486	mukB cell division protein MukB; Provisional	91.31
cd00632		105	Prefoldin_beta Prefoldin beta; Prefoldin is a hexa	91.12
KOG4438		446	consensus Centromere-associated protein NUF2 [Cell	90.95
TIGR02169		1164	SMC_prok_A chromosome segregation protein SMC, pri	90.6
KOG0996		1293	consensus Structural maintenance of chromosome pro	90.42
KOG2911		439	consensus Uncharacterized conserved protein [Funct	90.37
cd07648		261	F-BAR_FCHO The F-BAR (FES-CIP4 Homology and Bin/Am	90.36
cd07675		252	F-BAR_FNBP1L The F-BAR (FES-CIP4 Homology and Bin/	89.81
PF08317		325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	89.8
PRK04778		569	septation ring formation regulator EzrA; Provision	89.76
COG1196		1163	Smc Chromosome segregation ATPases [Cell division	89.45
PF07139		302	DUF1387: Protein of unknown function (DUF1387); In	88.94
PF10168		717	Nup88: Nuclear pore component; InterPro: IPR019321	88.92
PRK03918		880	chromosome segregation protein; Provisional	88.75
cd07653		251	F-BAR_CIP4-like The F-BAR (FES-CIP4 Homology and B	88.71
TIGR02338		110	gimC_beta prefoldin, beta subunit, archaeal. Chape	87.92
PHA00425		88	DNA packaging protein, small subunit	87.8
KOG0250		1074	consensus DNA repair protein RAD18 (SMC family pro	87.79
KOG4674		1822	consensus Uncharacterized conserved coiled-coil pr	87.65
PTZ00464		211	SNF-7-like protein; Provisional	87.29
cd07655		258	F-BAR_PACSIN The F-BAR (FES-CIP4 Homology and Bin/	87.06
COG1196		1163	Smc Chromosome segregation ATPases [Cell division	86.97
KOG0995		581	consensus Centromere-associated protein HEC1 [Cell	86.74
PRK02224		880	chromosome segregation protein; Provisional	86.66
cd00176		213	SPEC Spectrin repeats, found in several proteins i	86.28
PRK11637		428	AmiB activator; Provisional	85.95
smart00503		117	SynN Syntaxin N-terminal domain. Three-helix domai	85.87
PRK02224		880	chromosome segregation protein; Provisional	85.79
PRK01156		895	chromosome segregation protein; Provisional	85.68
PF09789		319	DUF2353: Uncharacterized coiled-coil protein (DUF2	85.65
PF09745		127	DUF2040: Coiled-coil domain-containing protein 55	85.53
KOG0250		1074	consensus DNA repair protein RAD18 (SMC family pro	85.34
COG4942		420	Membrane-bound metallopeptidase [Cell division and	85.16
PF12729		181	4HB_MCP_1: Four helix bundle sensory module for si	84.96
KOG1899		861	consensus LAR transmembrane tyrosine phosphatase-i	84.52
KOG2150		575	consensus CCR4-NOT transcriptional regulation comp	83.95
PRK09343		121	prefoldin subunit beta; Provisional	83.94
KOG0161		1930	consensus Myosin class II heavy chain [Cytoskeleto	83.81
PF03962		188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	83.68
COG0419		908	SbcC ATPase involved in DNA repair [DNA replicatio	83.58
TIGR00606		1311	rad50 rad50. This family is based on the phylogeno	83.23
PRK03918		880	chromosome segregation protein; Provisional	83.11
KOG0933		1174	consensus Structural maintenance of chromosome pro	82.74
KOG0161		1930	consensus Myosin class II heavy chain [Cytoskeleto	82.57
PRK09039		343	hypothetical protein; Validated	82.52
PF14662		193	CCDC155: Coiled-coil region of CCDC155	82.29
PTZ00446		191	vacuolar sorting protein SNF7-like; Provisional	82.24
TIGR02168		1179	SMC_prok_B chromosome segregation protein SMC, com	82.11
cd07647		239	F-BAR_PSTPIP The F-BAR (FES-CIP4 Homology and Bin/	82.08
COG3096		1480	MukB Uncharacterized protein involved in chromosom	81.98
PF13166		712	AAA_13: AAA domain	81.97
PF01544		292	CorA: CorA-like Mg2+ transporter protein; InterPro	81.9
PF07106		169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	81.53
PRK05771		646	V-type ATP synthase subunit I; Validated	81.25
KOG3771		460	consensus Amphiphysin [Intracellular trafficking,	80.84
PF11123		82	DNA_Packaging_2: DNA packaging protein ; InterPro:	80.5
KOG1029		1118	consensus Endocytic adaptor protein intersectin [S	80.28

>PF04065 Not3: Not1 N-terminal domain, CCR4-Not complex component ; InterPro: IPR007207 The Ccr4-Not complex (Not1, Not2, Not3, Not4 and Not5) is a global regulator of transcription that affects genes positively and negatively and is thought to regulate transcription factor TFIID []	Back alignment and domain information

Probab=100.00  E-value=2e-91  Score=682.40  Aligned_cols=227  Identities=63%  Similarity=0.919  Sum_probs=217.2

Q ss_pred             ccccchhhhHHHHHHHHHHhHHhHHHHHHHhhcCCChhhHHHHHHHHHHHHHHHHHhHHHHHhhhcccchhhhhhhhhHH
Q 008136            2 GASRKLQGEIDRVLKKVQEGVDVFDSIWNKVYDTDNANQKEKFEADLKKEIKKLQRYRDQIKTWIQSSEIKDKKVSASYE   81 (576)
Q Consensus         2 aa~RKLQ~EIDr~LKKV~EGVe~Fd~iyeKl~~a~n~nQKEKlE~DLKKEIKKLQRlRDQIKtWlasneIKDK~~~a~~~   81 (576)
                      |++||||+|||||||||+|||+.||+||+||++++|+|||||||+|||||||||||||||||+|++++|||||+      
T Consensus         1 m~~RKLQ~Eid~~lKkv~EG~~~F~~i~~K~~~~~n~~QKEK~E~DLKkEIKKLQR~RdQIK~W~~~~diKdk~------   74 (233)
T PF04065_consen    1 MAKRKLQQEIDRTLKKVQEGVEEFDEIYEKVESATNQNQKEKLEADLKKEIKKLQRLRDQIKTWLSSNDIKDKK------   74 (233)
T ss_pred             CCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCcchHHHHHHHHHHHHHHHHHHHHHHHHHccCcccccHH------
Confidence            35599999999999999999999999999999999999999999999999999999999999999999999999      


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhccccccccccCCCCCCChhHHHHHHHHHHHHHHHHHHHHhHhhHHHHhhhhhcccC
Q 008136           82 QALVDARKLIEREMERFKICEKETKTKAFSKEGLGQQPKTDPKEKAKSETRDWLNNLVSELESQIDSFEAELEGLTVKKG  161 (576)
Q Consensus        82 ~~L~E~RKlIE~~MErFK~vEKE~KTKafSKEGL~~~~K~DP~EkeK~E~~~WL~~~IdeL~~QiE~~EaEiE~Ls~KK~  161 (576)
                       +|+|+||+||++|||||+|||+|||||||||||+++.++||.+++|.|+++||+++|++|++|||.||+|+|+|+.+++
T Consensus        75 -~L~e~Rk~IE~~MErFK~vEkesKtKafSkeGL~~~~k~dp~e~ek~e~~~wl~~~Id~L~~QiE~~E~E~E~L~~~~k  153 (233)
T PF04065_consen   75 -KLLENRKLIEEQMERFKVVEKESKTKAFSKEGLMAASKLDPKEKEKEEARDWLKDSIDELNRQIEQLEAEIESLSSQKK  153 (233)
T ss_pred             -HHHHHHHHHHHHHHHHHHHHHHhcccccchhhhhcccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence             9999999999999999999999999999999999999999999999999999999999999999999999999975433


Q ss_pred             CC-----CCchhHHHHHHHHHHHHHHHHHHHHHHhhhCCCCChhhhhhhhHHHHHHHHhCCC-CccccCCccccccCCCC
Q 008136          162 KT-----RPPRLTHLETSITRHKAHIMKLELILRLLDNDELSPEQVNDVKDLLEDYVERNQD-DFEEFSDVDELYHLLPL  235 (576)
Q Consensus       162 Kk-----~~~rl~eLe~~ieRhk~HI~kLE~lLRlLdNd~Ldpe~V~dIKEdIeyYVE~nqd-DF~E~~dde~iYd~L~L  235 (576)
                      |+     +.+|+++|+.+|+||+|||.+||.|||+|+||.|+|++|++|||||+|||++|+| ||++   +++|||+|+|
T Consensus       154 Kkk~~~~~~~r~~~l~~~ierhk~Hi~kLE~lLR~L~N~~l~~e~V~~ikedieyYve~n~d~Df~e---de~iYddl~L  230 (233)
T PF04065_consen  154 KKKKDSTKQERIEELESRIERHKFHIEKLELLLRLLDNDELDPEQVEDIKEDIEYYVESNQDPDFEE---DEDIYDDLNL  230 (233)
T ss_pred             cCccCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHcCCCCcccc---hHhHhhccCC
Confidence            32     4689999999999999999999999999999999999999999999999999999 8875   5899999999


Q ss_pred             CCc
Q 008136          236 DKV  238 (576)
Q Consensus       236 de~  238 (576)
                      +++
T Consensus       231 dee  233 (233)
T PF04065_consen  231 DEE  233 (233)
T ss_pred             CCC
Confidence            974

This domain is the N-terminal region of the Not proteins.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus

>KOG2150 consensus CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]	Back alignment and domain information

>COG5665 NOT5 CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]	Back alignment and domain information

>cd07674 F-BAR_FCHO1 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH domain Only 1 protein	Back alignment and domain information

>PHA02562 46 endonuclease subunit; Provisional	Back alignment and domain information

>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association []	Back alignment and domain information

>cd07673 F-BAR_FCHO2 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH domain Only 2 protein	Back alignment and domain information

>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins	Back alignment and domain information

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD	Back alignment and domain information

>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope	Back alignment and domain information

>PF03357 Snf7: Snf7; InterPro: IPR005024 This is a family of eukaryotic proteins which are variously described as either hypothetical protein, developmental protein or related to yeast SNF7	Back alignment and domain information

>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]	Back alignment and domain information

>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]	Back alignment and domain information

>PRK04863 mukB cell division protein MukB; Provisional	Back alignment and domain information

>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea	Back alignment and domain information

>KOG4438 consensus Centromere-associated protein NUF2 [Cell cycle control, cell division, chromosome partitioning]	Back alignment and domain information

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type	Back alignment and domain information

>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]	Back alignment and domain information

>KOG2911 consensus Uncharacterized conserved protein [Function unknown]	Back alignment and domain information

>cd07648 F-BAR_FCHO The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH domain Only proteins	Back alignment and domain information

>cd07675 F-BAR_FNBP1L The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Formin Binding Protein 1-Like	Back alignment and domain information

>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association []	Back alignment and domain information

>PRK04778 septation ring formation regulator EzrA; Provisional	Back alignment and domain information

>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]	Back alignment and domain information

>PF07139 DUF1387: Protein of unknown function (DUF1387); InterPro: IPR009816 This family represents a conserved region approximately 300 residues long within a number of hypothetical proteins of unknown function that seem to be restricted to mammals	Back alignment and domain information

>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs	Back alignment and domain information

>PRK03918 chromosome segregation protein; Provisional	Back alignment and domain information

>cd07653 F-BAR_CIP4-like The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Cdc42-Interacting Protein 4 and similar proteins	Back alignment and domain information

>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal	Back alignment and domain information

>PHA00425 DNA packaging protein, small subunit	Back alignment and domain information

>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]	Back alignment and domain information

>KOG4674 consensus Uncharacterized conserved coiled-coil protein [Function unknown]	Back alignment and domain information

>PTZ00464 SNF-7-like protein; Provisional	Back alignment and domain information

>cd07655 F-BAR_PACSIN The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Protein kinase C and Casein kinase Substrate in Neurons (PACSIN) proteins	Back alignment and domain information

>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]	Back alignment and domain information

>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]	Back alignment and domain information

>PRK02224 chromosome segregation protein; Provisional	Back alignment and domain information

>cd00176 SPEC Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; the repeats are independent folding units; tandem repeats are found in differing numbers and arrange in an antiparallel manner to form dimers; the repeats are defined by a characteristic tryptophan (W) residue in helix A and a leucine (L) at the carboxyl end of helix C and separated by a linker of 5 residues; two copies of the repeat are present here

Back alignment and domain information

>PRK11637 AmiB activator; Provisional	Back alignment and domain information

>smart00503 SynN Syntaxin N-terminal domain	Back alignment and domain information

>PRK02224 chromosome segregation protein; Provisional	Back alignment and domain information

>PRK01156 chromosome segregation protein; Provisional	Back alignment and domain information

>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function	Back alignment and domain information

>PF09745 DUF2040: Coiled-coil domain-containing protein 55 (DUF2040); InterPro: IPR018612 This entry represents a conserved domain of approximately 130 residues of proteins conserved from fungi to humans	Back alignment and domain information

>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]	Back alignment and domain information

>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]	Back alignment and domain information

>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain	Back alignment and domain information

>KOG1899 consensus LAR transmembrane tyrosine phosphatase-interacting protein liprin [General function prediction only]	Back alignment and domain information

>KOG2150 consensus CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]	Back alignment and domain information

>PRK09343 prefoldin subunit beta; Provisional	Back alignment and domain information

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]	Back alignment and domain information

>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast)	Back alignment and domain information

>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]	Back alignment and domain information

>TIGR00606 rad50 rad50	Back alignment and domain information

>PRK03918 chromosome segregation protein; Provisional	Back alignment and domain information

>KOG0933 consensus Structural maintenance of chromosome protein 2 (chromosome condensation complex Condensin, subunit E) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]	Back alignment and domain information

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]	Back alignment and domain information

>PRK09039 hypothetical protein; Validated	Back alignment and domain information

>PF14662 CCDC155: Coiled-coil region of CCDC155	Back alignment and domain information

>PTZ00446 vacuolar sorting protein SNF7-like; Provisional	Back alignment and domain information

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type	Back alignment and domain information

>cd07647 F-BAR_PSTPIP The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Proline-Serine-Threonine Phosphatase-Interacting Proteins	Back alignment and domain information

>COG3096 MukB Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]	Back alignment and domain information

>PF13166 AAA_13: AAA domain	Back alignment and domain information

>PF01544 CorA: CorA-like Mg2+ transporter protein; InterPro: IPR002523 The CorA transport system is the primary Mg2+ influx system of Salmonella typhimurium and Escherichia coli [, ]	Back alignment and domain information

>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences	Back alignment and domain information

>PRK05771 V-type ATP synthase subunit I; Validated	Back alignment and domain information

>KOG3771 consensus Amphiphysin [Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>PF11123 DNA_Packaging_2: DNA packaging protein ; InterPro: IPR024345 This entry represents Gp18 (gene 18 product), also known as DNA maturase A, from T7-like bacteriophages	Back alignment and domain information

>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]	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
Query		576
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-08
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04
3i2w_A		290	Syndapin, LD46328P; EFC, FBAR, SH3 domain, endocyt	5e-04

>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 = 55.6 bits (133), Expect = 3e-08
 Identities = 47/263 (17%), Positives = 86/263 (32%), Gaps = 69/263 (26%)

Query: 7   LQGEIDRVL--KKVQEGVDVFDSIWNKVYDTDNANQKEKFEA-DLKKEIKKLQRYRDQIK 63
           +Q E+ R+L  K  +  + V  ++ N           + + A +L              K
Sbjct: 230 IQAELRRLLKSKPYENCLLVLLNVQN----------AKAWNAFNL------------SCK 267

Query: 64  TWIQSSEIKDKKVSASYEQALVDARKLIEREMERFKICEKETKTKAFSKEGLGQQPKTDP 123
             + +   + K+V+   +         I  +     +   E K+    K  L  +P+  P
Sbjct: 268 ILLTT---RFKQVT---DFLSAATTTHISLDHHSMTLTPDEVKS-LLLKY-LDCRPQDLP 319

Query: 124 KEKAK----------SETRD-------WLNNLVSELESQIDSFEAELEGLTVKKGKTRPP 166
           +E                RD       W +    +L + I+S    LE    +K      
Sbjct: 320 REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRK------ 373

Query: 167 RLTHLETSITRHKAHIMKLELILRLLDNDELSPEQVNDVKDLLEDY--VERNQDDFEEFS 224
               L  S+    AHI    ++L L+  D +    V  V + L  Y  VE+   +    S
Sbjct: 374 MFDRL--SVFPPSAHIP--TILLSLIWFD-VIKSDVMVVVNKLHKYSLVEKQPKES-TIS 427

Query: 225 DVDELYHLLPLDKVESLEDLVTI 247
                   + L+    LE+   +
Sbjct: 428 -----IPSIYLELKVKLENEYAL 445

PyMOL of 1vt4

>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

>3i2w_A Syndapin, LD46328P; EFC, FBAR, SH3 domain, endocytosis; 2.67A {Drosophila melanogaster} Length = 290	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		576
3oja_B		597	Anopheles plasmodium-responsive leucine-rich REPE	92.9
1i84_S		1184	Smooth muscle myosin heavy chain; muscle protein,	89.88
1i84_S		1184	Smooth muscle myosin heavy chain; muscle protein,	86.55
1ez3_A		127	Syntaxin-1A; three helix bundle, endocytosis/exocy	86.06
3oja_B		597	Anopheles plasmodium-responsive leucine-rich REPE	84.5
2v0o_A		276	FCHO2, FCH domain only protein 2; lipid-binding pr	84.32
3na7_A		256	HP0958; flagellar biogenesis, flagellum export, C4	83.27
3ghg_A		562	Fibrinogen alpha chain; triple-stranded coiled coi	81.1
2zqm_A		117	Prefoldin beta subunit 1; chaperone; HET: CIT; 1.9	80.58
2efl_A		305	Formin-binding protein 1; EFC domain, structural g	80.39

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}	Back alignment and structure

Probab=92.90  E-value=1.9  Score=44.87  Aligned_cols=28  Identities=18%  Similarity=0.232  Sum_probs=16.0

Q ss_pred             HHHHHHHHHhHhhHHHHhhhhhcccCCC
Q 008136          136 NNLVSELESQIDSFEAELEGLTVKKGKT  163 (576)
Q Consensus       136 ~~~IdeL~~QiE~~EaEiE~Ls~KK~Kk  163 (576)
                      ++.+.+|+++++.+.+|+..|..+..+.
T Consensus       557 ~~~~~~l~~e~~~~~~~~~~l~~~~~~~  584 (597)
T 3oja_B          557 RAKQAELRQETSLKRQKVKQLEAKKNRN  584 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTC--
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            4456666666666666666664444443

PyMOL of 3oja

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A	Back alignment and structure

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A	Back alignment and structure

>1ez3_A Syntaxin-1A; three helix bundle, endocytosis/exocytosis complex; 1.90A {Rattus norvegicus} SCOP: a.47.2.1 PDB: 1br0_A 3lg7_A*	Back alignment and structure

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}	Back alignment and structure

>2v0o_A FCHO2, FCH domain only protein 2; lipid-binding protein, EFC domain, vesicle trafficking, membrane curvature, endocytosis, exocytosis, F-BAR domain; 2.30A {Homo sapiens}	Back alignment and structure

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}	Back alignment and structure

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*	Back alignment and structure

Probab=81.10  E-value=15  Score=40.24  Aligned_cols=125  Identities=14%  Similarity=0.187  Sum_probs=73.2

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHhhhcccchhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccCCCCC
Q 008136           41 KEKFEADLKKEIKKLQRYRDQIKTWIQSSEIKDKKVSASYEQALVDARKLIEREMERFKICEKETKTKAFSKEGLGQQPK  120 (576)
Q Consensus        41 KEKlE~DLKKEIKKLQRlRDQIKtWlasneIKDK~~~a~~~~~L~E~RKlIE~~MErFK~vEKE~KTKafSKEGL~~~~K  120 (576)
                      =+|.|-||++-|.||...-|+|                      ..+|+-|+.-|+.-   -.          -|     
T Consensus        55 LdkqErDltkrINELKnqLEdl----------------------sKnsKdseqy~k~~---~E----------~L-----   94 (562)
T 3ghg_A           55 IDEVNQDFTNRINKLKNSLFEY----------------------QKNNKDSHSLTTNI---ME----------IL-----   94 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTHH----------------------HHHHHHHHHHHHHH---HH----------TT-----
T ss_pred             HHhhcCcHHHHHHHHHHHHHHH----------------------HhhchhHHHHHHHH---HH----------HH-----
Confidence            4688889999888887544433                      44455555543211   11          11     


Q ss_pred             CChhHHHHHHHHHHHHHHHHHHHHhHhhHHHHhhhhhcccCCCCCchhHHHHHHHHHHHHHHHHHHHHHHh-h-------
Q 008136          121 TDPKEKAKSETRDWLNNLVSELESQIDSFEAELEGLTVKKGKTRPPRLTHLETSITRHKAHIMKLELILRL-L-------  192 (576)
Q Consensus       121 ~DP~EkeK~E~~~WL~~~IdeL~~QiE~~EaEiE~Ls~KK~Kk~~~rl~eLe~~ieRhk~HI~kLE~lLRl-L-------  192 (576)
                       -.+.+...+...=++.+-++|+++|+-++.+|+..-        .+|..|+..|+..+--|.|||.-+.. |       
T Consensus        95 -r~rq~q~~dNdNtynE~S~ELRRrIqyLKekVdnQl--------snIrvLQsnLedq~~kIQRLEvDIdiqirsCKgsC  165 (562)
T 3ghg_A           95 -RGDFSSANNRDNTYNRVSEDLRSRIEVLKRKVIEKV--------QHIQLLQKNVRAQLVDMKRLEVDIDIKIRSCRGSC  165 (562)
T ss_dssp             -SSHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGTB
T ss_pred             -HHHHHhhhccchhHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence             112233335555566666788888888888876641        44667888888888888888764432 1       


Q ss_pred             ---hCCCCChhhhhhhhHHHHHHHH
Q 008136          193 ---DNDELSPEQVNDVKDLLEDYVE  214 (576)
Q Consensus       193 ---dNd~Ldpe~V~dIKEdIeyYVE  214 (576)
                         -+-+||.+.-++|+--|+..+.
T Consensus       166 sr~~~~~vd~~sY~~~QKQLeQv~a  190 (562)
T 3ghg_A          166 SRALAREVDLKDYEDQQKQLEQVIA  190 (562)
T ss_dssp             SCCCCCCCCHHHHHHHHHHHHHHHT
T ss_pred             cchheeecchHHHHHHHHHHHHHhh
Confidence               1234555555555555555443

PyMOL of 3ghg

>2zqm_A Prefoldin beta subunit 1; chaperone; HET: CIT; 1.90A {Thermococcus SP} PDB: 2zdi_A	Back alignment and structure

>2efl_A Formin-binding protein 1; EFC domain, structural genomics, NPPSFA, national project on structural and functional analyses; 2.61A {Homo sapiens} SCOP: a.238.1.4	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
Query		576
d2efla1		288	Formin-binding protein 1, FNBP1 {Human (Homo sapie	94.42
d2efka1		279	CDC42-interacting protein 4, CIP4 {Human (Homo sap	90.78
d1ez3a_		124	Syntaxin 1A N-terminal domain {Rat (Rattus norvegi	88.17
d1fioa_		196	Sso1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	85.94

>d2efla1 a.238.1.4 (A:1-288) Formin-binding protein 1, FNBP1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

class: All alpha proteins
fold: BAR/IMD domain-like
superfamily: BAR/IMD domain-like
family: FCH domain
domain: Formin-binding protein 1, FNBP1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.42  E-value=0.51  Score=41.39  Aligned_cols=28  Identities=25%  Similarity=0.382  Sum_probs=18.9

Q ss_pred             cchhhhHHHHHHHHHHhHHhHHHHHHHh
Q 008136            5 RKLQGEIDRVLKKVQEGVDVFDSIWNKV   32 (576)
Q Consensus         5 RKLQ~EIDr~LKKV~EGVe~Fd~iyeKl   32 (576)
                      ..|-.-+|.+++++..|+..++++-.=|
T Consensus         5 ~~l~d~~~~l~~~~~~~~~~~~~~~~~~   32 (288)
T d2efla1           5 TELWDQFDNLEKHTQWGIDILEKYIKFV   32 (288)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455667778888888887777654433

PyMOL of d2efla1

>d2efka1 a.238.1.4 (A:10-288) CDC42-interacting protein 4, CIP4 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1ez3a_ a.47.2.1 (A:) Syntaxin 1A N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure

>d1fioa_ a.47.2.1 (A:) Sso1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure