Citrus Sinensis ID: 047201

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-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770--

MWLIAAVLHASNFLPLPCHLACPYNLYFSLFSFCLSFHPYYLNIFQENNNLLFFVIVLYFTLQHRGGRSHRRGFSDRPFNGANGRFVSGDSHISSVSNSNRGVRQGNYTAVPPAPFYQNQPFRQPPPYNQNQQFRPPPLYNRNPQFRRPRPPFDQNQAVQSRPRPRPPKPLDYRNWEHSKASLPPYSERFVVLSYNILADYLALSHRSKLYFHIPRHLLDWEWRKRSILFELGLWSADIMCFQEVDRFQDLEVELKFRGYTGIWKMRTGNAIDGCAIFWRASRFKLLYEEGIEFNKLGLRDNVAQICVLELLSQNFTENSAALPTSSAHSKKVAICNIHVLFNPKRGEIKLGQVRTLLEKAHAVSKTWNDAPVVLCGDFNCTPKSPLYNFILEQKLDLSGVDRDKVSGQASAEIREPPPPHSRVQSDGSTQGPPEAGISVSDPPSDNLEHDKDGNAEILNSTNSSSRSQCTDTVLGVSDKASSHMHCANKDSATSDEVTKESRQTMIDDSEVAVSGNGDKASNEHSDSNENTESVNHSTASLGNDCPSSVYQKKGSSSTLHQVEASSTATSIDFVLADKLENLSLGNLDETKAESESIREDGNAFLFALHSTEDSSQSNFDHYAQSNLDPNSEELGDELIDDLSPALDSEAVNAEETTYNPSLWTPMEIATATGNADCTYLEHPLQLRSTYAEVEDCTGTRDSHGEPLVTSYNRRFKGTVDYILRSEGLQTVRVLAPIPKHAMQWTPGYPTKKWGSDHIALASEVAFVETIK

ccHHHHHHHcccccccccccccccccHHHHHHHcccccccHHHHHcccccEEEEEEEEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccEEEEEEcHHccccccccccccccccccccccHHHHHHHHHHHHHcccccccHHccccHHHHHHHHHHccccEEEEEcccccccccEEEEEcccccEEEEEEEEEcccccccccHHHHHHHHHHHccccccccccccccccccEEEEEEEEEccccccccHHHHHHHHHHHHHHHHHcccccccEEEEcccccccccHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHccccccccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccccccccccccccccccccccHHHHHHcccccccccccccccccccccccccccccccccccccEEEccccccccEEEEEEcccccEEEccccccHHHHcccccccccccccccHHHccEEEEEEccc

cHHHHHHHHHHccccccccccccccHHHHHHHHHHcccHHHHHHHHHcccHEEEEEEEHEEHHccccccccccccccccccccccEEccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHccccccccccccccEEEccccccccccccccEEEEEEHHHHHHHHHHccHHHHccccHHHHcHHHHHHHHHHHHHHccccEEEEHccccHHHHHHHHHHccccEEEEcccccccccEEEEEEcccEEEEEcccEEHHHHHccccHHHHHHEHHHHHcccccccccccccccccEEEEEEEEEEEccccccHHHHHHHHHHHHHHHHHHccccccEEEEEccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEcHHHHcccccccccccccccccccccccHHHHHHHccccccccccccHcccccHHHHHHHcccccccccccccccccccccccccccccccHHHHHHHccccccEEEEccccEEEEEEEEcccccccccccccEEEEccccccEEEEEEEEcccccEEEEcccccHHHHHHcccccccccccHHHHHHHHHHHccccc

MWLIAAVLhasnflplpchlacpynlyFSLFSfclsfhpyYLNIFQENNNLLFFVIVLYFTLqhrggrshrrgfsdrpfngangrfvsgdshissvsnsnrgvrqgnytavppapfyqnqpfrqpppynqnqqfrppplynrnpqfrrprppfdqnqavqsrprprppkpldyrnwehskaslppyserFVVLSYNILADYLALSHRsklyfhiprhlldWEWRKRSILFELGLWSADIMCFQEVDRFQDLEVELKFRGYTGIwkmrtgnaidgCAIFWRASRFKLLYEEGiefnklglrdNVAQICVLELLSQnftensaalptssahsKKVAICNIHvlfnpkrgeikLGQVRTLLEKAHAVsktwndapvvlcgdfnctpksplynfileqkldlsgvdrdkvsgqasaeirepppphsrvqsdgstqgppeagisvsdppsdnlehdkdgnaeilnstnsssrsqctdtvlgvsdkasshmhcankdsatsdevTKESRqtmiddsevavsgngdkasnehsdsnentesvnhstaslgndcpssvyqkkgssstlhqveasstaTSIDFVLADklenlslgnldetkaeseSIREDGNAFLFALhstedssqsnfdhyaqsnldpnseelgdeliddlspaldseavnaeettynpslwtpmeiatatgnadctylehplqlrstyaevedctgtrdshgeplvtsynrrfKGTVDYILRseglqtvrvlapipkhamqwtpgyptkkwgsdhIALASEVAFVETIK

MWLIAAVLHASNFLPLPCHLACPYNLYFSLFSFCLSFHPYYLNIFQENNNLLFFVIVLYFTLQHRGGRshrrgfsdrpfngANGRFVSGDSHISSVSNSNRGVRQGNYTAVPPAPFYQNQPFRQPPPYNQNQQFRPPPLYNRNPQfrrprppfdqnqavqsrprprppkpldyrnwehskaslppysERFVVLSYNILADYLALSHRSKLYFHIPRHLLDWEWRKRSILFELGLWSADIMCFQEVDRFQDLEVELKFRGytgiwkmrtgnaIDGCAIFWRASRFKLLYEEGIEFNKLGLRDNVAQICVLELLSQNFTENSAALPTSSAHSKKVAICNIHVLFNPKRGEIKLGQVRTLLEKAHAvsktwndapVVLCGDFNCTPKSPLYNFILEQKLDLSGVDRDKVSGqasaeirepppphsrvqsDGSTQGPPEAGISVSDPPSDNLEHDKDGNAEIlnstnsssrsqcTDTVLGVSDKASSHMhcankdsatsdevTKESRqtmiddsevavsgngdkasnehsdsnenTESVNHSTASLGNDCPSSVYQKKGSSSTLHQVEASSTATSIDFVLADKLENLSLGNLDETKAESESIREDGNAFLFALHSTEDSSQSNFDHYAQSNLDPNSEELGDELIDDLSPALDSEAVNAEEttynpslwtPMEIATATGNADCTYLEHPLQLRSTYAEVEDCtgtrdshgeplvtsynrrFKGTVDYILRSEGLQTVRVLAPIPKHAMQWTPGYPTKKWGSDHIALASEVAFVETIK

MWLIAAVLHASNFLPLPCHLACPYNlyfslfsfclsfHPYYLNIFQENNNLLFFVIVLYFTLQhrggrshrrgfsdrPFNGANGRFVSGDSHISSVSNSNRGVRQGNYTAVPPAPFYQNQPFRQPPPYNQNQQFRPPPLYnrnpqfrrprppfdqnqAVQSRPRPRPPKPLDYRNWEHSKASLPPYSERFVVLSYNILADYLALSHRSKLYFHIPRHLLDWEWRKRSILFELGLWSADIMCFQEVDRFQDLEVELKFRGYTGIWKMRTGNAIDGCAIFWRASRFKLLYEEGIEFNKLGLRDNVAQICVLELLSQNFTENSAALPTSSAHSKKVAICNIHVLFNPKRGEIKLGQVRTLLEKAHAVSKTWNDAPVVLCGDFNCTPKSPLYNFILEQKLDLSGVDRDKVSGQASAEIREPPPPHSRVQSDGSTQGPPEAGISVSDPPSDNLEHDKDGNAEILNSTNSSSRSQCTDTVLGVSDKASSHMHCANKDSATSDEVTKESRQTMIDDSEVAVSGNGDKASNEHSDSNENTESVNHSTASLGNDCPSSVYQKKGSSSTLHQVEASSTATSIDFVLADKLENLSLGNLDETKAESESIREDGNAFLFALHSTEDSSQSNFDHYAQSNLDPNSEELGDELIDDLSPALDSEAVNAEETTYNPSLWTPMEIATATGNADCTYLEHPLQLRSTYAEVEDCTGTRDSHGEPLVTSYNRRFKGTVDYILRSEGLQTVRVLAPIPKHAMQWTPGYPTKKWGSDHIALASEVAFVETIK

*WLIAAVLHASNFLPLPCHLACPYNLYFSLFSFCLSFHPYYLNIFQENNNLLFFVIVLYFTLQHR***********************************************************************************************************************PYSERFVVLSYNILADYLALSHRSKLYFHIPRHLLDWEWRKRSILFELGLWSADIMCFQEVDRFQDLEVELKFRGYTGIWKMRTGNAIDGCAIFWRASRFKLLYEEGIEFNKLGLRDNVAQICVLELLSQNFTEN**********SKKVAICNIHVLFNPKRGEIKLGQVRTLLEKAHAVSKTWNDAPVVLCGDFNCTPKSPLYNFILEQKLDL*****************************************************************************************************************************************************************************IDFVLADKL************************FLF**************************************************TYNPSLWTPMEIATATGNADCTYLEHPLQLRSTYAEVEDCTGTRDSHGEPLVTSYNRRFKGTVDYILRSEGLQTVRVLAPIPKHAMQWTPGYPTKKWGSDHIALASEVAFV****

*WLIAAVLHASNFLPLPCHLACPYNLYFSLFSFCLSFHPYYLNIFQENNNLLFFVIVLYFT*************************************************************************************************************LDY****************FVVLSYNILADYLALSHRSKLYFHIPRHLLDWEWRKRSILFELGLWSADIMCFQEVDRFQDLEVELKFRGYTGIWKMRTGNAIDGCAIFWRASRFKLLYEEGIEFNKLGLRDNVAQICVLELLSQNFTENSAALPTSSAHSKKVAICNIHVLFNPKRGEIKLGQVRTLLEKAHAVSKTWNDAPVVLCGDFNCTPKSPLYNFILEQKLDLSGVDR********************VQS**STQGPPEAGISVSDPPSDNLEHDKDGNAEILN*************VLGVSDKASSHMHCANKDSATS****KE**QTMIDDSEVAVSGNGDKASNEHSD******************************ST*HQVEASSTA******************************EDGNAFLFALHSTEDSSQSNFD*************************************Y***LWTPMEIATATGNADCTYLEHPLQLRSTYAEVEDCTG**DSHGEPLVTSYNRRFKGTVDYILRSEGLQTVRVLAPIPKHAMQWTPGYPTKKWGSDHIALASEVAFVET**

MWLIAAVLHASNFLPLPCHLACPYNLYFSLFSFCLSFHPYYLNIFQENNNLLFFVIVLYFTLQHRGGRSHRRGFSDRPFNGANGRFVSGDSHISSVSNSNRGVRQGNYTAVPPAPFYQNQPFRQPPPYNQNQQFRPPPLYNRNPQFRRPRPPFD************PPKPLDYRNWEHSKASLPPYSERFVVLSYNILADYLALSHRSKLYFHIPRHLLDWEWRKRSILFELGLWSADIMCFQEVDRFQDLEVELKFRGYTGIWKMRTGNAIDGCAIFWRASRFKLLYEEGIEFNKLGLRDNVAQICVLELLSQNFTEN***********KKVAICNIHVLFNPKRGEIKLGQVRTLLEKAHAVSKTWNDAPVVLCGDFNCTPKSPLYNFILEQKLDLSGVDRDKV*******************************ISVSDPPSDNLEHDKDGNAEILNS**********DTVLGVSD************************QTMIDDSEV*****************************LGNDCPS******************STATSIDFVLADKLENLSLGNLDETKAESESIREDGNAFLFALHSTEDSSQSNFDHYAQSNLDPNSEELGDELIDDLSPALDSEAVNAEETTYNPSLWTPMEIATATGNADCTYLEHPLQLRSTYAEVEDCTGTRDSHGEPLVTSYNRRFKGTVDYILRSEGLQTVRVLAPIPKHAMQWTPGYPTKKWGSDHIALASEVAFVETIK

MWLIAAVLHASNFLPLPCHLACPYNLYFSLFSFCLSFHPYYLNIFQENNNLLFFVIVLYFTLQHRG*******FSDRPFNGA**RFVS*DSHISSVSNSNRGVRQGNYTAVPPAPFYQNQPFRQPPPYNQNQQFRPPPLYNRNPQFRRPRPPFDQNQAVQSRPRPRPPKPLDYRNWEHSKASLPPYSERFVVLSYNILADYLALSHRSKLYFHIPRHLLDWEWRKRSILFELGLWSADIMCFQEVDRFQDLEVELKFRGYTGIWKMRTGNAIDGCAIFWRASRFKLLYEEGIEFNKLGLRDNVAQICVLELLSQNF************HSKKVAICNIHVLFNPKRGEIKLGQVRTLLEKAHAVSKTWNDAPVVLCGDFNCTPKSPLYNFILEQKLDLSGVDRDKVSGQASAEIREPPPPHSRVQSDGSTQGPPEAGISVSDPPSDNLEHDKDGNAEILNSTNSSSRSQCTDTVLGVSDKASSHMHCANKDSATSDEVTKESRQ*****************************************************************TSID***ADKLENL*LG*************EDG*A*********DSSQSNFDHYAQSNLDPNSEEL***LIDDLSPALDSEAVNAEETTYNPSLWTPMEIATATGNADCTYLEHPLQLRSTYAEVEDCTGTRDSHGEPLVTSYNRRFKGTVDYILRSEGLQTVRVLAPIPKHAMQWTPGYPTKKWGSDHIALASEVAFVETI*

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SSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii

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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		772	2.2.26 [Sep-21-2011]
Q8VYU4		754	Carbon catabolite repress	yes	no	0.852	0.872	0.509	0.0
Q0WKY2		454	Carbon catabolite repress	no	no	0.309	0.526	0.467	2e-58
Q9LS39		448	Carbon catabolite repress	no	no	0.269	0.464	0.490	7e-55
Q8VCU0		667	Protein angel homolog 1 O	yes	no	0.330	0.382	0.340	9e-36
B2RYM0		667	Protein angel homolog 1 O	yes	no	0.330	0.382	0.340	9e-36
Q8K1C0		544	Protein angel homolog 2 O	no	no	0.430	0.610	0.318	1e-34
Q9UNK9		670	Protein angel homolog 1 O	yes	no	0.274	0.316	0.365	2e-34
A6H7I3		544	Protein angel homolog 2 O	no	no	0.272	0.386	0.400	6e-34
Q5RGT6		569	Protein angel homolog 2 O	no	no	0.268	0.363	0.393	9e-34
Q5VTE6		544	Protein angel homolog 2 O	no	no	0.347	0.492	0.348	6e-33

>sp\|Q8VYU4\|CCR4F_ARATH Carbon catabolite repressor protein 4 homolog 6 OS=Arabidopsis thaliana GN=CCR4-6 PE=2 SV=2	Back alignment and function desciption

 Score =  645 bits (1663), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 376/738 (50%), Positives = 462/738 (62%), Gaps = 80/738 (10%)

Query: 74  FSDRPFNGANGR--FVSGDSHISSVSNSNRGVRQGNYTAVPPAPFYQNQP---FRQPPPY 128
           FSDRP+N   GR  FV+GDSH  SV ++N   R G        P+ Q+QP    RQ PP+
Sbjct: 50  FSDRPYNDDAGRDQFVTGDSHFQSVHDANFRFRHGE-------PYRQHQPPLDQRQQPPF 102

Query: 129 NQNQQFR-PPPLYNRNPQFRRPR-------------PPFDQNQAVQSRP------RPRPP 168
           NQN +FR PPP   +  QFR+P              PPF QNQ  +  P      RPR  
Sbjct: 103 NQNYEFRPPPPSRGQWQQFRQPNQFPSNQNYAACPPPPFYQNQMSRPPPQQSFRQRPR-S 161

Query: 169 KPLDYRNWEHSKASLPPYSERFVVLSYNILADYLALSHRSKLYFHIPRHLLDWEWRKRSI 228
           KP DYR WE++K    P SE+FVVLSYNILADYLA  H   LYFHIPR++L W WRK  +
Sbjct: 162 KPSDYREWEYAKTPPSPGSEKFVVLSYNILADYLANDHWRSLYFHIPRNMLSWGWRKSKL 221

Query: 229 LFELGLWSADIMCFQEVDRFQDLEVELKFRGYTGIWKMRTGNAIDGCAIFWRASRFKLLY 288
           +FEL LWSADIMC QEVD+FQDLE E+K RGY+ IWKMRTGNA+DGCAIFWR++RFKL++
Sbjct: 222 VFELSLWSADIMCLQEVDKFQDLEEEMKHRGYSAIWKMRTGNAVDGCAIFWRSNRFKLVH 281

Query: 289 EEGIEFNKLGLRDNVAQICVLE-LLSQNFTENSAALPTSSAHSKKVAICNIHVLFNPKRG 347
           EE I+FN+LGLRDNVAQICVLE LL+ +  EN    P SSA S +V ICNIHVLFNPKRG
Sbjct: 282 EESIQFNQLGLRDNVAQICVLETLLTSHTKENETPPPESSAGSHRVVICNIHVLFNPKRG 341

Query: 348 EIKLGQVRTLLEKAHAVSKTWNDAPVVLCGDFNCTPKSPLYNFILEQKLDLSGVDRDKVS 407
           + KLGQVRTLL+KAHAVSK W+DAP+VLCGDFNCTPKSPLYNFI ++KLDLSG+ RDKVS
Sbjct: 342 DFKLGQVRTLLDKAHAVSKLWDDAPIVLCGDFNCTPKSPLYNFISDRKLDLSGLARDKVS 401

Query: 408 GQASAEIREPPPPHSRVQSDGSTQGPPEAGISVSDPPSDNLEHDKDGNAEILNSTNSSSR 467
           GQ SAE R PP P +      S    P+  +    PP+       + N+ I   T  S +
Sbjct: 402 GQVSAEFR-PPRPENYTTRYQSANKSPQGQVQ---PPNLITNAHMENNSNIDVGTAPSEK 457

Query: 468 SQ---CTDTVLGVSDKASSHMHCANKDSATSDEVTKESRQTMIDDSEVAVSGNGDKASNE 524
           +    C DT+L   +  SS       ++  SD       Q  I++ +   SGN   A + 
Sbjct: 458 TSELPCGDTILAGHEATSSSDQVLPCENMASD------CQFGIENRKPDDSGNLSTAEDL 511

Query: 525 HSDSNENTESVNHSTASLGNDCPSSVYQKKGSSSTLHQVE---------ASSTATSID-F 574
            S +  +TE  + S+A    +   SV    G S T    E         +SS +T +D F
Sbjct: 512 SSLTISDTEPQHASSAREDLNTDRSV--SSGLSETEQTPEEICSSDQDISSSLSTKVDTF 569

Query: 575 VLADKLENLSLGNLDETKAESESIREDGNAFLFALHSTEDSSQSNFDHYAQSNLDPNSEE 634
           V   KL+ L L        + ES+ EDG  FL  LH                    N+E 
Sbjct: 570 VAEMKLDGLKLDEPVVFAQDEESLGEDGETFLAKLHD-------------------NNEN 610

Query: 635 LGD--ELIDDLSPALDSEAVNAEETTYNPSLWTPMEIATATGNADCTYLEHPLQLRSTYA 692
           L    EL+ ++     SEA+N+++ TY+PS WTPMEIATATG+ + T +EH L+L+STY+
Sbjct: 611 LSQKGELVSEVPLKWSSEALNSDKITYSPSSWTPMEIATATGDPERTTVEHALELKSTYS 670

Query: 693 EVEDCTGTRDSHGEPLVTSYNRRFKGTVDYILRSEGLQTVRVLAPIPKHAMQWTPGYPTK 752
           EVE    TRD +GEP+VTSY+R F GTVDYI RSEGLQTVRVLAPIPK AMQWTPG+PT 
Sbjct: 671 EVEGQANTRDENGEPVVTSYHRCFMGTVDYIWRSEGLQTVRVLAPIPKQAMQWTPGFPTP 730

Query: 753 KWGSDHIALASEVAFVET 770
           KWGSDHIAL SE+AF  +
Sbjct: 731 KWGSDHIALVSELAFCSS 748

Acts as catalytic component of the CCR4-NOT core complex, which in the nucleus seems to be a general transcription factor, and in the cytoplasm the major mRNA deadenylase involved in mRNA turnover.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 1EC: .EC: 1EC: 3EC: .EC: 4

>sp\|Q0WKY2\|CCR4E_ARATH Carbon catabolite repressor protein 4 homolog 5 OS=Arabidopsis thaliana GN=CCR4-5 PE=2 SV=2	Back alignment and function description

>sp\|Q9LS39\|CCR4C_ARATH Carbon catabolite repressor protein 4 homolog 3 OS=Arabidopsis thaliana GN=CCR4-3 PE=2 SV=2	Back alignment and function description

>sp\|Q8VCU0\|ANGE1_MOUSE Protein angel homolog 1 OS=Mus musculus GN=Angel1 PE=2 SV=2	Back alignment and function description

>sp\|B2RYM0\|ANGE1_RAT Protein angel homolog 1 OS=Rattus norvegicus GN=Angel1 PE=2 SV=2	Back alignment and function description

>sp\|Q8K1C0\|ANGE2_MOUSE Protein angel homolog 2 OS=Mus musculus GN=Angel2 PE=2 SV=1	Back alignment and function description

>sp\|Q9UNK9\|ANGE1_HUMAN Protein angel homolog 1 OS=Homo sapiens GN=ANGEL1 PE=2 SV=1	Back alignment and function description

>sp\|A6H7I3\|ANGE2_BOVIN Protein angel homolog 2 OS=Bos taurus GN=ANGEL2 PE=2 SV=1	Back alignment and function description

>sp\|Q5RGT6\|ANGE2_DANRE Protein angel homolog 2 OS=Danio rerio GN=angel2 PE=2 SV=1	Back alignment and function description

>sp\|Q5VTE6\|ANGE2_HUMAN Protein angel homolog 2 OS=Homo sapiens GN=ANGEL2 PE=2 SV=1	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		772
359476096		786	PREDICTED: carbon catabolite repressor p	0.900	0.884	0.515	0.0
22326729		754	carbon catabolite repressor protein 4-li	0.852	0.872	0.509	0.0
17979010		754	At5g11350/F2I11_240 [Arabidopsis thalian	0.852	0.872	0.508	0.0
297807175		753	endonuclease/exonuclease/phosphatase fam	0.851	0.872	0.510	0.0
357436861		848	Carbon catabolite repressor protein-like	0.861	0.784	0.436	1e-165
147776898		559	hypothetical protein VITISV_004443 [Viti	0.654	0.903	0.512	1e-151
356554329		852	PREDICTED: carbon catabolite repressor p	0.840	0.761	0.423	1e-150
8953397		700	putative protein [Arabidopsis thaliana]	0.768	0.847	0.447	1e-145
255546605		809	conserved hypothetical protein [Ricinus	0.536	0.511	0.596	1e-142
449437380		871	PREDICTED: carbon catabolite repressor p	0.586	0.520	0.509	1e-128

>gi\|359476096\|ref\|XP_002282223.2\| PREDICTED: carbon catabolite repressor protein 4 homolog 6-like [Vitis vinifera] gi\|296081966\|emb\|CBI20971.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

 Score =  709 bits (1830), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 407/790 (51%), Positives = 512/790 (64%), Gaps = 95/790 (12%)

Query: 64  HRGGRSH-RRGFSDRPFNGANGRFVSGDSHISSVSNSNRGVRQG-----NYTAVPPAPFY 117
           +R  R+  RRGFS+R   G +G  V+GDSH  SV ++N G+RQG     N +   P  + 
Sbjct: 7   YRSSRNRWRRGFSNRSDAGESGELVTGDSHFRSVRDANLGLRQGERRNFNESGFQPQSYN 66

Query: 118 QNQPF------------------RQPPPYNQNQQFRPPPLYNRNPQFRRPRPPFD----- 154
             QPF                  RQ P +N NQ F+ PP +N N +FR+P P        
Sbjct: 67  PRQPFPRNQPFRRPPPFNPNQPFRQSPAFNPNQPFQQPPPFNPNQRFRQPPPFNPNQPFN 126

Query: 155 --QNQAVQSRPRPRPPKPLDYRNWEHSKASLPPYSERFVVLSYNILADYLALSHRSKLYF 212
                    + +PRP +PLDYRNWE+S+A    + ERF VLSYNILADYLA++ RS+LYF
Sbjct: 127 QNHRFQQPQQFQPRPTRPLDYRNWEYSEAGPSSHCERFTVLSYNILADYLAVNQRSRLYF 186

Query: 213 HIPRHLLDWEWRKRSILFELGLWSADIMCFQEVDRFQDLEVELKFRGYTGIWKMRTGNAI 272
           HIPRH+LDWEWRKR+I+FELGLWSAD+MCFQEVDRF DLE ELK RGYTGIWKMRTG+ +
Sbjct: 187 HIPRHMLDWEWRKRNIIFELGLWSADVMCFQEVDRFGDLEEELKLRGYTGIWKMRTGDPV 246

Query: 273 DGCAIFWRASRFKLLYEEGIEFNKLGLRDNVAQICVLELLSQNFTENSAALPTSSAHSKK 332
           DGCAIFWRASRFKLL+EE IEFNKLGLRDNVAQICVLE ++QN++ +++ALP SS  S K
Sbjct: 247 DGCAIFWRASRFKLLHEECIEFNKLGLRDNVAQICVLESINQNYSWSTSALPASSTGSNK 306

Query: 333 VAICNIHVLFNPKRGEIKLGQVRTLLEKAHAVSKTWNDAPVVLCGDFNCTPKSPLYNFIL 392
           V ICNIHVL+NP+RGEIKLGQVR LL+KAHAVSK WNDAP+V+CGDFNCTPKSPLYNFI 
Sbjct: 307 VVICNIHVLYNPRRGEIKLGQVRALLDKAHAVSKIWNDAPIVICGDFNCTPKSPLYNFIS 366

Query: 393 EQKLDLSGVDRDKVSGQASAEIREPP--PPHSRVQ-SDGSTQGPPEAGI-SVSDPPSDN- 447
           EQKLDLSG+DRDKVSGQASAEIR P    P+ R+Q +D S QG     +  V    SD+ 
Sbjct: 367 EQKLDLSGLDRDKVSGQASAEIRAPRQFSPNPRIQLTDNSAQGLTMNDVREVGAKDSDSL 426

Query: 448 LEHDK----DGNAEILNSTNSSSRSQCTDTVLGVSDKASSHMHCANKDSATSDEVTKESR 503
           LE  K    D N   + S ++ S++QC +TVL V DK+ ++    N   A SDE+ KE++
Sbjct: 427 LEIQKQTYPDSNVGNVASMDNLSQAQCINTVLHV-DKSCTNGQHENDTRAPSDEMIKETQ 485

Query: 504 QTMIDDSE-----VAVSGNGDKASNEHSDSNENTESVNHSTASLGNDCPSS--------- 549
           Q  +   E      A     D   N+     E    V+     +  + P +         
Sbjct: 486 QEKVGGFENETEPTAYDPVDDSKENQSISLIEGEAVVDQVNGGIWENTPPAASLHEETYS 545

Query: 550 ------------------------------VYQKKGSSSTLHQVEASSTATSIDFVLADK 579
                                         V  +K + ST +++  S  +TS D VL  +
Sbjct: 546 SDMIERRQGERITVISNPVHQFFSEHSQPGVDDEKDTPSTPYEINISDASTSFDIVLDKQ 605

Query: 580 LENLSLGNLDETKAESESIREDGNAFLFALHSTEDSSQSNFDHYAQSNLDPNSEELGDEL 639
           LENL+L   DE   E+ ++ ED + FL  L+ TE++  S+F    +S          D++
Sbjct: 606 LENLTLDEADEDTEENGNLGEDCSTFLSELNKTEETFPSDFGQSVRS----------DQI 655

Query: 640 IDDLSPALDSEAVNAEETTYNPSLWTPMEIATATGNADCTYLEHPLQLRSTYAEVEDCTG 699
           +DD SP+++ E    E + Y+PS+WTPMEI TATGNADCT+LEHPL+L+STY EVED +G
Sbjct: 656 LDDFSPSIEPEPFEMEISAYDPSVWTPMEIETATGNADCTHLEHPLKLKSTYTEVEDRSG 715

Query: 700 TRDSHGEPLVTSYNRRFKGTVDYILRSEGLQTVRVLAPIPKHAMQWTPGYPTKKWGSDHI 759
           T+DS+GEPLVTSYNR F GTVDYI RSEGL+T+R LAPIPK AMQWTPG+PTKKWGSDHI
Sbjct: 716 TKDSNGEPLVTSYNRCFLGTVDYIWRSEGLKTIRALAPIPKQAMQWTPGFPTKKWGSDHI 775

Query: 760 ALASEVAFVE 769
           ALA+E+AF +
Sbjct: 776 ALATELAFTK 785

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|22326729\|ref\|NP_196696.2\| carbon catabolite repressor protein 4-like 6 [Arabidopsis thaliana] gi\|215275264\|sp\|Q8VYU4.2\|CCR4F_ARATH RecName: Full=Carbon catabolite repressor protein 4 homolog 6; Short=CCR4 homolog 6 gi\|332004281\|gb\|AED91664.1\| carbon catabolite repressor protein 4-like 6 [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|17979010\|gb\|AAL47464.1\| At5g11350/F2I11_240 [Arabidopsis thaliana] gi\|23506113\|gb\|AAN28916.1\| At5g11350/F2I11_240 [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|297807175\|ref\|XP_002871471.1\| endonuclease/exonuclease/phosphatase family protein [Arabidopsis lyrata subsp. lyrata] gi\|297317308\|gb\|EFH47730.1\| endonuclease/exonuclease/phosphatase family protein [Arabidopsis lyrata subsp. lyrata]	Back alignment and taxonomy information

>gi\|357436861\|ref\|XP_003588706.1\| Carbon catabolite repressor protein-like protein [Medicago truncatula] gi\|355477754\|gb\|AES58957.1\| Carbon catabolite repressor protein-like protein [Medicago truncatula]	Back alignment and taxonomy information

>gi\|147776898\|emb\|CAN65720.1\| hypothetical protein VITISV_004443 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|356554329\|ref\|XP_003545500.1\| PREDICTED: carbon catabolite repressor protein 4 homolog 6-like [Glycine max]	Back alignment and taxonomy information

>gi\|8953397\|emb\|CAB96670.1\| putative protein [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|255546605\|ref\|XP_002514362.1\| conserved hypothetical protein [Ricinus communis] gi\|223546818\|gb\|EEF48316.1\| conserved hypothetical protein [Ricinus communis]	Back alignment and taxonomy information

>gi\|449437380\|ref\|XP_004136470.1\| PREDICTED: carbon catabolite repressor protein 4 homolog 6-like [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		772
TAIR\|locus:2832132		754	AT5G11350 "AT5G11350" [Arabido	0.847	0.867	0.508	5e-163
TAIR\|locus:504956231		454	AT1G73875 "AT1G73875" [Arabido	0.310	0.528	0.460	3.6e-80
MGI\|MGI:1915987		667	Angel1 "angel homolog 1 (Droso	0.273	0.316	0.380	1.1e-33
MGI\|MGI:1196310		544	Angel2 "angel homolog 2 (Droso	0.348	0.494	0.352	1.3e-31
ZFIN\|ZDB-GENE-030131-6498		569	angel2 "angel homolog 2 (Droso	0.400	0.543	0.333	8.7e-31
FB\|FBgn0016762		354	angel "angel" [Drosophila mela	0.256	0.559	0.337	1.3e-25
MGI\|MGI:2443226		608	Pde12 "phosphodiesterase 12" [	0.260	0.330	0.331	1.4e-23
RGD\|1310975		608	Pde12 "phosphodiesterase 12" [	0.260	0.330	0.327	3e-23
UNIPROTKB\|F1SGK9		609	PDE12 "Uncharacterized protein	0.255	0.323	0.324	4.8e-22
UNIPROTKB\|Q6L8Q7		609	PDE12 "2',5'-phosphodiesterase	0.255	0.323	0.319	7.9e-22

TAIR\|locus:2832132 AT5G11350 "AT5G11350" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1587 (563.7 bits), Expect = 5.0e-163, P = 5.0e-163
 Identities = 362/712 (50%), Positives = 448/712 (62%)

Query:    85 RFVSGDSHISSVSNSNRGVRQGN-YTA-VPPA------PFYQNQPFRQPPPYN-QNQQFR 135
             +FV+GDSH  SV ++N   R G  Y    PP       PF QN  FR PPP   Q QQFR
Sbjct:    63 QFVTGDSHFQSVHDANFRFRHGEPYRQHQPPLDQRQQPPFNQNYEFRPPPPSRGQWQQFR 122

Query:   136 PPPLYXXXXXXXXXXXXXXXXXAVQSRPRP------RP-PKPLDYRNWEHSKASLPPYSE 188
              P  +                  + SRP P      RP  KP DYR WE++K    P SE
Sbjct:   123 QPNQFPSNQNYAACPPPPFYQNQM-SRPPPQQSFRQRPRSKPSDYREWEYAKTPPSPGSE 181

Query:   189 RFVVLSYNILADYLALSHRSKLYFHIPRHLLDWEWRKRSILFELGLWSADIMCFQEVDRF 248
             +FVVLSYNILADYLA  H   LYFHIPR++L W WRK  ++FEL LWSADIMC QEVD+F
Sbjct:   182 KFVVLSYNILADYLANDHWRSLYFHIPRNMLSWGWRKSKLVFELSLWSADIMCLQEVDKF 241

Query:   249 QDLEVELKFRGYTGIWKMRTGNAIDGCAIFWRASRFKLLYEEGIEFNKLGLRDNVAQICV 308
             QDLE E+K RGY+ IWKMRTGNA+DGCAIFWR++RFKL++EE I+FN+LGLRDNVAQICV
Sbjct:   242 QDLEEEMKHRGYSAIWKMRTGNAVDGCAIFWRSNRFKLVHEESIQFNQLGLRDNVAQICV 301

Query:   309 LE-LLSQNFTENSAALPTSSAHSKKVAICNIHVLFNPKRGEIKLGQVRTLLEKAHAVSKT 367
             LE LL+ +  EN    P SSA S +V ICNIHVLFNPKRG+ KLGQVRTLL+KAHAVSK 
Sbjct:   302 LETLLTSHTKENETPPPESSAGSHRVVICNIHVLFNPKRGDFKLGQVRTLLDKAHAVSKL 361

Query:   368 WNDAPVVLCGDFNCTPKSPLYNFILEQKLDLSGVDRDKVSGQASAEIREPPPPHSRVQSD 427
             W+DAP+VLCGDFNCTPKSPLYNFI ++KLDLSG+ RDKVSGQ SAE R PP P +     
Sbjct:   362 WDDAPIVLCGDFNCTPKSPLYNFISDRKLDLSGLARDKVSGQVSAEFR-PPRPENYTTRY 420

Query:   428 GSTQGPPEAGISVSDPPS--DNLEHDKDGNAEILNS-TNSSSRSQCTDTVLGVSDKASSH 484
              S    P+  +    PP+   N   + + N ++  + +  +S   C DT+L   +  SS 
Sbjct:   421 QSANKSPQGQVQ---PPNLITNAHMENNSNIDVGTAPSEKTSELPCGDTILAGHEATSSS 477

Query:   485 MHCANKDSATSD-EVTKESRQTMIDDSEVAVSGNGDKASNEHSDSNENTESVNHSTA--S 541
                   ++  SD +   E+R+   DDS     GN   A +  S +  +TE  + S+A   
Sbjct:   478 DQVLPCENMASDCQFGIENRKP--DDS-----GNLSTAEDLSSLTISDTEPQHASSARED 530

Query:   542 LGNDCP-----SSVYQKKGSSSTLHQVEASSTATSID-FVLADKLENLSLGNLDETKAES 595
             L  D       S   Q      +  Q  +SS +T +D FV   KL+ L L        + 
Sbjct:   531 LNTDRSVSSGLSETEQTPEEICSSDQDISSSLSTKVDTFVAEMKLDGLKLDEPVVFAQDE 590

Query:   596 ESIREDGNAFLFALHSTEDSSQSNFDHYAQSNLDPNSEELGDELIDDLSPALDSEAVNAE 655
             ES+ EDG  FL  LH   D+++             N  + G EL+ ++     SEA+N++
Sbjct:   591 ESLGEDGETFLAKLH---DNNE-------------NLSQKG-ELVSEVPLKWSSEALNSD 633

Query:   656 ETTYNPSLWTPMEIATATGNADCTYLEHPLQLRSTYAEVEDCTGTRDSHGEPLVTSYNRR 715
             + TY+PS WTPMEIATATG+ + T +EH L+L+STY+EVE    TRD +GEP+VTSY+R 
Sbjct:   634 KITYSPSSWTPMEIATATGDPERTTVEHALELKSTYSEVEGQANTRDENGEPVVTSYHRC 693

Query:   716 FKGTVDYILRSEGLQTVRVLAPIPKHAMQWTPGYPTKKWGSDHIALASEVAF 767
             F GTVDYI RSEGLQTVRVLAPIPK AMQWTPG+PT KWGSDHIAL SE+AF
Sbjct:   694 FMGTVDYIWRSEGLQTVRVLAPIPKQAMQWTPGFPTPKWGSDHIALVSELAF 745

GO:0003824 "catalytic activity" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR\|locus:504956231 AT1G73875 "AT1G73875" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

MGI\|MGI:1915987 Angel1 "angel homolog 1 (Drosophila)" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

MGI\|MGI:1196310 Angel2 "angel homolog 2 (Drosophila)" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

ZFIN\|ZDB-GENE-030131-6498 angel2 "angel homolog 2 (Drosophila)" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

FB\|FBgn0016762 angel "angel" [Drosophila melanogaster (taxid:7227)]	Back alignment and assigned GO terms

MGI\|MGI:2443226 Pde12 "phosphodiesterase 12" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

RGD\|1310975 Pde12 "phosphodiesterase 12" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

UNIPROTKB\|F1SGK9 PDE12 "Uncharacterized protein" [Sus scrofa (taxid:9823)]	Back alignment and assigned GO terms

UNIPROTKB\|Q6L8Q7 PDE12 "2',5'-phosphodiesterase 12" [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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8VYU4	CCR4F_ARATH	3, ., 1, ., 1, 3, ., 4	0.5094	0.8523	0.8726	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.1.13.4	0.914
3rd Layer	3.1.13	0.921

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00032567001	SubName- Full=Chromosome chr4 scaffold_6, whole genome shotgun sequence; (597 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
Query		772
cd09097		329	cd09097, Deadenylase_CCR4, C-terminal deadenylase	6e-40
PLN03144		606	PLN03144, PLN03144, Carbon catabolite repressor pr	7e-36
cd09096		280	cd09096, Deadenylase_nocturnin, C-terminal deadeny	1e-22
cd10313		350	cd10313, Deadenylase_CCR4a, C-terminal deadenylase	8e-22
cd10312		348	cd10312, Deadenylase_CCR4b, C-terminal deadenylase	1e-19
COG5239		378	COG5239, CCR4, mRNA deadenylase, exonuclease subun	1e-18
cd09083		252	cd09083, EEP-1, Exonuclease-Endonuclease-Phosphata	2e-11
cd09082		348	cd09082, Deadenylase, C-terminal deadenylase domai	4e-11
cd09097		329	cd09097, Deadenylase_CCR4, C-terminal deadenylase	3e-09
PLN03144		606	PLN03144, PLN03144, Carbon catabolite repressor pr	2e-06
cd09084		246	cd09084, EEP-2, Exonuclease-Endonuclease-Phosphata	2e-04
cd10283		266	cd10283, MnuA_DNase1-like, Mycoplasma pulmonis Mnu	6e-04
cd08372		241	cd08372, EEP, Exonuclease-Endonuclease-Phosphatase	0.003
COG3568		259	COG3568, ElsH, Metal-dependent hydrolase [General	0.004

>gnl\|CDD\|197331 cd09097, Deadenylase_CCR4, C-terminal deadenylase domain of CCR4 and related domains	Back alignment and domain information

 Score =  149 bits (379), Expect = 6e-40
 Identities = 75/243 (30%), Positives = 123/243 (50%), Gaps = 49/243 (20%)

Query: 192 VLSYNILADYLALSHRSKLYFHIPRHLLDWEWRKRSILFELGLWSADIMCFQEV--DRFQ 249
           V+ YN+L D  A     + Y + P   L+W++RK++IL E+  ++ADI+C QEV  D+++
Sbjct: 1   VMCYNVLCDKYA---TRQQYGYCPSWALNWDYRKQNILKEILSYNADILCLQEVETDQYE 57

Query: 250 DL-EVELKFRGYTGIWKMRTG---------NAIDGCAIFWRASRFKLLYEEGIEFNKLGL 299
           D    ELK  GY G++K ++            +DGCAIF++ S+FKL+ +  IEFN+L +
Sbjct: 58  DFFLPELKQHGYDGVFKPKSRAKTMSEAERKHVDGCAIFFKTSKFKLVEKHLIEFNQLAM 117

Query: 300 -----------------RDNVAQICVLELLSQNFTENSAALPTSSAHSKKVAICNIHVLF 342
                            +DN+A I VLE    ++  N   L         + + N H+ +
Sbjct: 118 ANADAEGSEDMLNRVMTKDNIALIVVLEARETSYEGNKGQL---------LIVANTHIHW 168

Query: 343 NPKRGEIKLGQVRTLLE------KAHAVSKTWN--DAPVVLCGDFNCTPKSPLYNFILEQ 394
           +P+  ++KL Q   LLE      +  +     +  D P+V+CGDFN  P S +Y  +   
Sbjct: 169 DPEFSDVKLVQTMMLLEELEKIAEKFSRYPYEDSADIPLVVCGDFNSLPDSGVYELLSNG 228

Query: 395 KLD 397
            + 
Sbjct: 229 SVS 231

This subfamily contains the C-terminal catalytic domain of the deadenylases, Saccharomyces cerevisiae Ccr4p and two vertebrate homologs (CCR4a and CCR4b), and related domains. CCR4 belongs to the large EEP (exonuclease/endonuclease/phosphatase) superfamily that contains functionally diverse enzymes that share a common catalytic mechanism of cleaving phosphodiester bonds. CCR4 is the major deadenylase subunit of the CCR4-NOT transcription complex, which contains two deadenylase subunits and several noncatalytic subunits. The other deadenylase subunit, Caf1 (called Pop2 in yeast), is a DEDD-type protein and does not belong in this superfamily. Saccharomyces cerevisiae CCR4 (or Ccr4p) is a 3'-5' poly(A) RNA and ssDNA exonuclease. It is the catalytic subunit of the yeast mRNA deadenylase (Ccr4p/Pop2p/Not complex). This complex participates in various ways in mRNA metabolism, including transcription initiation and elongation, and mRNA degradation. Ccr4p degrades both poly(A) and single-stranded DNA. There are two vertebrate homologs of Ccr4p, CCR4a (also called CCR4-NOT transcription complex subunit 6 or CNOT6) and CCR4b (also called CNOT6-like or CNOT6L), which independently associate with other components to form distinct CCR4-NOT multisubunit complexes. The nuclease domain of CNOT6 and CNOT6L exhibits Mg2+-dependent deadenylase activity, with specificity for poly (A) RNA as substrate. CCR4a is a component of P-bodies and is necessary for foci formation. CCR4b regulates p27/Kip1 mRNA levels, thereby influencing cell cycle progression. They both contribute to the prevention of cell death by regulating insulin-like growth factor-binding protein 5. Length = 329

>gnl\|CDD\|178689 PLN03144, PLN03144, Carbon catabolite repressor protein 4 homolog; Provisional	Back alignment and domain information

>gnl\|CDD\|197330 cd09096, Deadenylase_nocturnin, C-terminal deadenylase domain of nocturnin and related domains	Back alignment and domain information

>gnl\|CDD\|197340 cd10313, Deadenylase_CCR4a, C-terminal deadenylase domain of CCR4a, also known as CCR4-NOT transcription complex subunit 6	Back alignment and domain information

>gnl\|CDD\|197339 cd10312, Deadenylase_CCR4b, C-terminal deadenylase domain of CCR4b, also known as CCR4-NOT transcription complex subunit 6-like	Back alignment and domain information

>gnl\|CDD\|227564 COG5239, CCR4, mRNA deadenylase, exonuclease subunit and related nucleases [RNA processing and modification]	Back alignment and domain information

>gnl\|CDD\|197317 cd09083, EEP-1, Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1	Back alignment and domain information

>gnl\|CDD\|197316 cd09082, Deadenylase, C-terminal deadenylase domain of CCR4, nocturnin, and related domains	Back alignment and domain information

>gnl\|CDD\|197331 cd09097, Deadenylase_CCR4, C-terminal deadenylase domain of CCR4 and related domains	Back alignment and domain information

>gnl\|CDD\|178689 PLN03144, PLN03144, Carbon catabolite repressor protein 4 homolog; Provisional	Back alignment and domain information

>gnl\|CDD\|197318 cd09084, EEP-2, Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2	Back alignment and domain information

>gnl\|CDD\|197338 cd10283, MnuA_DNase1-like, Mycoplasma pulmonis MnuA nuclease-like	Back alignment and domain information

>gnl\|CDD\|197306 cd08372, EEP, Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily	Back alignment and domain information

>gnl\|CDD\|226098 COG3568, ElsH, Metal-dependent hydrolase [General function prediction only]	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		772
PLN03144		606	Carbon catabolite repressor protein 4 homolog; Pro	100.0
KOG2338		495	consensus Transcriptional effector CCR4-related pr	100.0
COG5239		378	CCR4 mRNA deadenylase, exonuclease subunit and rel	100.0
KOG0620		361	consensus Glucose-repressible alcohol dehydrogenas	100.0
TIGR03395		283	sphingomy sphingomyelin phosphodiesterase. Members	99.8
PRK11756		268	exonuclease III; Provisional	99.71
PRK05421		263	hypothetical protein; Provisional	99.7
smart00476		276	DNaseIc deoxyribonuclease I. Deoxyribonuclease I c	99.67
COG3568		259	ElsH Metal-dependent hydrolase [General function p	99.64
PF03372		249	Exo_endo_phos: Endonuclease/Exonuclease/phosphatas	99.64
TIGR00195		254	exoDNase_III exodeoxyribonuclease III. The model b	99.57
TIGR00633		255	xth exodeoxyribonuclease III (xth). This family is	99.57
PTZ00297		1452	pantothenate kinase; Provisional	99.45
COG0708		261	XthA Exonuclease III [DNA replication, recombinati	99.44
KOG2756		349	consensus Predicted Mg2+-dependent phosphodiestera	99.37
KOG3873		422	consensus Sphingomyelinase family protein [Signal	99.37
PRK13911		250	exodeoxyribonuclease III; Provisional	99.3
PRK15251		271	cytolethal distending toxin subunit CdtB; Provisio	99.18
COG2374		798	Predicted extracellular nuclease [General function	98.8
COG3021		309	Uncharacterized protein conserved in bacteria [Fun	98.36
smart00128		310	IPPc Inositol polyphosphate phosphatase, catalytic	98.26
KOG0566		1080	consensus Inositol-1,4,5-triphosphate 5-phosphatas	96.73
KOG1924		1102	consensus RhoA GTPase effector DIA/Diaphanous [Sig	93.97
COG5239		378	CCR4 mRNA deadenylase, exonuclease subunit and rel	93.25
PF14529		119	Exo_endo_phos_2: Endonuclease-reverse transcriptas	91.26
PRK11756		268	exonuclease III; Provisional	87.81
PLN03191		621	Type I inositol-1,4,5-trisphosphate 5-phosphatase	87.65
KOG1924		1102	consensus RhoA GTPase effector DIA/Diaphanous [Sig	87.44
PTZ00312		356	inositol-1,4,5-triphosphate 5-phosphatase; Provisi	87.07
PTZ00297		1452	pantothenate kinase; Provisional	86.78
COG3021		309	Uncharacterized protein conserved in bacteria [Fun	86.21
KOG2236		483	consensus Uncharacterized conserved protein [Funct	84.65

>PLN03144 Carbon catabolite repressor protein 4 homolog; Provisional	Back alignment and domain information

Probab=100.00  E-value=1.7e-61  Score=549.76  Aligned_cols=202  Identities=38%  Similarity=0.646  Sum_probs=167.8

Q ss_pred             CCCceEEEeeccccCcccccccccccccCCccccchHHHHHHHHHHhhcCCCcEEEEeeecc--hhh-HHHHHHhCCceE
Q 047201          186 YSERFVVLSYNILADYLALSHRSKLYFHIPRHLLDWEWRKRSILFELGLWSADIMCFQEVDR--FQD-LEVELKFRGYTG  262 (772)
Q Consensus       186 ~~~~fRVMSYNILAd~~a~s~~~~lY~ycP~~~LdWd~Rk~lIikEI~~~dPDIICLQEVD~--f~d-L~~~L~~~GY~g  262 (772)
                      ....|||||||||++.|+.   +++|.|||+++++|++|+++|+++|..++|||||||||+.  |++ +.+.|.++||.+
T Consensus       251 ~~~~frVmSYNILAd~ya~---~dly~ycp~~aL~W~yRk~lIl~EI~~~~aDIICLQEV~~~~~~d~~~p~L~~~GY~G  327 (606)
T PLN03144        251 SAGTFTVLSYNILSDLYAT---SDMYSYCPPWALSWTYRRQNLLREIVGYRADILCLQEVQSDHFEEFFAPELDKHGYQA  327 (606)
T ss_pred             CCCCEEEEEeeeccccccC---cccccCCCccccCHHHHHHHHHHHHHhcCCCEEEEeecCHHHHHHHHHhhhhhcCceE
Confidence            3578999999999999885   5799999999999999999999999999999999999976  655 588999999999


Q ss_pred             EEecCCCC-------CceeEEEEEccCcceeEEeeeeeccCCC--------------------CCCceeEEEEEEEeccc
Q 047201          263 IWKMRTGN-------AIDGCAIFWRASRFKLLYEEGIEFNKLG--------------------LRDNVAQICVLELLSQN  315 (772)
Q Consensus       263 vf~~Rtg~-------~~dG~AIFyRrSRF~LL~~e~I~fs~lg--------------------lrdnVaqi~vLe~Lr~~  315 (772)
                      +|..|++.       ..||||||||++||++++...|.|+...                    +++|++++++|+.... 
T Consensus       328 v~~~Kt~~~~~~~~~~~DGcAIFyr~drFeLv~~~~ief~~~~lslt~~~~~s~~~~~~l~Rl~kdNVAliv~Le~k~~-  406 (606)
T PLN03144        328 LYKKKTTEVYTGNTYVIDGCATFFRRDRFSLVKKYEVEFNKAAQSLTEALIPSAQKKAALNRLLKDNVALIVVLEAKFG-  406 (606)
T ss_pred             EEeCCCCccccccccCCceeEEEEECcceEEEEeeeeeccchhhccCccccccccchhhhhhhccCcEEEEEEEEEecc-
Confidence            99877542       5899999999999999999888776421                    2466777777775310 


Q ss_pred             ccccccCCCCccCCCCeEEEEEEecCCCCCChHhHHHHHHHHHHHHHHhhccCCCCCEEEEcCCCCCCCcHHHHHHHhCC
Q 047201          316 FTENSAALPTSSAHSKKVAICNIHVLFNPKRGEIKLGQVRTLLEKAHAVSKTWNDAPVVLCGDFNCTPKSPLYNFILEQK  395 (772)
Q Consensus       316 ~~~~~~~Lp~~~t~gk~LvVaNTHL~~nPk~~dIRL~Qa~iLL~~L~aLsk~~~~vPVILcGDFNStPdS~vYr~Ls~~~  395 (772)
                          ..... ....++.|+|+||||+|+|...++|+.|++.|++.|+++++. .++|||||||||++|+|++|++|++|.
T Consensus       407 ----~~~~~-~~~~~~~l~VaNTHL~~~p~~~dvRl~Q~~~Ll~~l~~~~~~-~~~PvIlcGDFNS~P~S~vy~lLt~G~  480 (606)
T PLN03144        407 ----NQGAD-NGGKRQLLCVANTHIHANQELKDVKLWQVHTLLKGLEKIAAS-ADIPMLVCGDFNSVPGSAPHCLLATGK  480 (606)
T ss_pred             ----ccccc-CCCCccEEEEEEeeeccCCccchhHHHHHHHHHHHHHHHhhc-CCCceEEeccCCCCCCChhhhhhhcCC
Confidence                00000 012346799999999999999999999999999999998642 479999999999999999999999875


Q ss_pred             CC
Q 047201          396 LD  397 (772)
Q Consensus       396 Ld  397 (772)
                      ++
T Consensus       481 v~  482 (606)
T PLN03144        481 VD  482 (606)
T ss_pred             cC
Confidence            53

>KOG2338 consensus Transcriptional effector CCR4-related protein [Transcription]	Back alignment and domain information

>COG5239 CCR4 mRNA deadenylase, exonuclease subunit and related nucleases [RNA processing and modification]	Back alignment and domain information

>KOG0620 consensus Glucose-repressible alcohol dehydrogenase transcriptional effector CCR4 and related proteins [Transcription]	Back alignment and domain information

>TIGR03395 sphingomy sphingomyelin phosphodiesterase	Back alignment and domain information

>PRK11756 exonuclease III; Provisional	Back alignment and domain information

>PRK05421 hypothetical protein; Provisional	Back alignment and domain information

>smart00476 DNaseIc deoxyribonuclease I	Back alignment and domain information

>COG3568 ElsH Metal-dependent hydrolase [General function prediction only]	Back alignment and domain information

>PF03372 Exo_endo_phos: Endonuclease/Exonuclease/phosphatase family Subset of Pfam family Subset of Pfam family; InterPro: IPR005135 This domain is found in a large number of proteins including magnesium dependent endonucleases and phosphatases involved in intracellular signalling []	Back alignment and domain information

>TIGR00195 exoDNase_III exodeoxyribonuclease III	Back alignment and domain information

>TIGR00633 xth exodeoxyribonuclease III (xth)	Back alignment and domain information

>PTZ00297 pantothenate kinase; Provisional	Back alignment and domain information

>COG0708 XthA Exonuclease III [DNA replication, recombination, and repair]	Back alignment and domain information

>KOG2756 consensus Predicted Mg2+-dependent phosphodiesterase TTRAP [Signal transduction mechanisms]	Back alignment and domain information

>KOG3873 consensus Sphingomyelinase family protein [Signal transduction mechanisms]	Back alignment and domain information

>PRK13911 exodeoxyribonuclease III; Provisional	Back alignment and domain information

>PRK15251 cytolethal distending toxin subunit CdtB; Provisional	Back alignment and domain information

>COG2374 Predicted extracellular nuclease [General function prediction only]	Back alignment and domain information

>COG3021 Uncharacterized protein conserved in bacteria [Function unknown]	Back alignment and domain information

>smart00128 IPPc Inositol polyphosphate phosphatase, catalytic domain homologues	Back alignment and domain information

>KOG0566 consensus Inositol-1,4,5-triphosphate 5-phosphatase (synaptojanin), INP51/INP52/INP53 family [Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]	Back alignment and domain information

>COG5239 CCR4 mRNA deadenylase, exonuclease subunit and related nucleases [RNA processing and modification]	Back alignment and domain information

>PF14529 Exo_endo_phos_2: Endonuclease-reverse transcriptase ; PDB: 2EI9_A 1WDU_B	Back alignment and domain information

>PRK11756 exonuclease III; Provisional	Back alignment and domain information

>PLN03191 Type I inositol-1,4,5-trisphosphate 5-phosphatase 2; Provisional	Back alignment and domain information

>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]	Back alignment and domain information

>PTZ00312 inositol-1,4,5-triphosphate 5-phosphatase; Provisional	Back alignment and domain information

>PTZ00297 pantothenate kinase; Provisional	Back alignment and domain information

>COG3021 Uncharacterized protein conserved in bacteria [Function unknown]	Back alignment and domain information

>KOG2236 consensus Uncharacterized conserved protein [Function unknown]	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
Query		772
3ngq_A		398	Crystal Structure Of The Human Cnot6l Nuclease Doma		2e-22
3ngn_A		398	Crystal Structure Of The Human Cnot6l Nuclease Doma		2e-22
4b8c_D		727	Nuclease Module Of The Yeast Ccr4-Not Complex Lengt		2e-17

>pdb|3NGQ|A Chain A, Crystal Structure Of The Human Cnot6l Nuclease Domain Length = 398

Back alignment and structure

Iteration: 1

Score = 104 bits (259), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 77/267 (28%), Positives = 127/267 (47%), Gaps = 47/267 (17%) Query: 163 PRPRPPKPLDYRNWEHSKASLPPYSERFVVLSYNILADYLALSHRSKLYFHIPRHLLDWE 222 P PP+P + + LP S F V+ YN+L D A +LY + P L+WE Sbjct: 9 PEQLPPRP--WITLKERDQILP--SASFTVMCYNVLCDKYA---TRQLYGYCPSWALNWE 61 Query: 223 WRKRSILFELGLWSADIMCFQEVDRFQDLEV---ELKFRGYTGIWKMRTGNAI------- 272 +RK+ I+ E+ ADI+ QEV+ Q + LK RGY G + ++ I Sbjct: 62 YRKKGIMEEIVNCDADIISLQEVETEQYFTLFLPALKERGYDGFFSPKSRAKIMSEQERK 121 Query: 273 --DGCAIFWRASRFKLLYEEGIEFNKLGL---------------RDNVAQICVLELLSQN 315 DGCAIF++ +F L+ + +EFN++ + +DN+ VLE+ + Sbjct: 122 HVDGCAIFFKTEKFTLVQKHTVEFNQVAMANSDGSEAMLNRVMTKDNIGVAVVLEVHKEL 181 Query: 316 FTENSAALPTSSAHSKKVAICNIHVLFNPKRGEIKLGQ-------VRTLLEKAHAV---- 364 F + P +A + + + N H+ ++P+ ++KL Q V+ +LEKA + Sbjct: 182 F--GAGMKPIHAADKQLLIVANAHMHWDPEYSDVKLIQTMMFVSEVKNILEKASSRPGSP 239 Query: 365 SKTWNDAPVVLCGDFNCTPKSPLYNFI 391 + N P+VLC D N P S + ++ Sbjct: 240 TADPNSIPLVLCADLNSLPDSGVVEYL 266

PyMOL of 3ngq

>pdb|3NGN|A Chain A, Crystal Structure Of The Human Cnot6l Nuclease Domain In Complex With Amp Length = 398

Back alignment and structure

>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex Length = 727

Back alignment and structure

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		772
3ngq_A		398	CCR4-NOT transcription complex subunit 6-like; alp	9e-43
3ngq_A		398	CCR4-NOT transcription complex subunit 6-like; alp	3e-10
3mpr_A		298	Putative endonuclease/exonuclease/phosphatase FAM	4e-27
3g6s_A		267	Putative endonuclease/exonuclease/phosphatase fami	3e-26
3l1w_A		257	Uncharacterized protein; APC29019.2, conserved pro	7e-21
3i41_A		317	Beta-hemolysin; beta toxin, sphingomyelinase, toxi	1e-10
1zwx_A		301	SMCL, sphingomyelinase-C; dnase1-like fold, beta-h	7e-10
2ddr_A		306	Sphingomyelin phosphodiesterase; DNAse I like fold	2e-09
3teb_A		266	Endonuclease/exonuclease/phosphatase; PSI-biology,	2e-09
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-04
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-04

>3ngq_A CCR4-NOT transcription complex subunit 6-like; alpha/beta sandwich fold, hydrolase; HET: 1PS; 1.80A {Homo sapiens} PDB: 3ngo_A 3ngn_A Length = 398	Back alignment and structure

 Score =  159 bits (402), Expect = 9e-43
 Identities = 71/288 (24%), Positives = 124/288 (43%), Gaps = 49/288 (17%)

Query: 159 VQSRPRPRPPKPLDYRNWEH-SKASLPPYSERFVVLSYNILADYLALSHRSKLYFHIPRH 217
           +   P   PP     R W    +      S  F V+ YN+L D  A     +LY + P  
Sbjct: 5   LAVHPEQLPP-----RPWITLKERDQILPSASFTVMCYNVLCDKYA---TRQLYGYCPSW 56

Query: 218 LLDWEWRKRSILFELGLWSADIMCFQEVDRFQ---DLEVELKFRGYTGIWKMRTG----- 269
            L+WE+RK+ I+ E+    ADI+  QEV+  Q        LK RGY G +  ++      
Sbjct: 57  ALNWEYRKKGIMEEIVNCDADIISLQEVETEQYFTLFLPALKERGYDGFFSPKSRAKIMS 116

Query: 270 ----NAIDGCAIFWRASRFKLLYEEGIEFNKLGL---------------RDNVAQICVLE 310
                 +DGCAIF++  +F L+ +  +EFN++ +               +DN+    VLE
Sbjct: 117 EQERKHVDGCAIFFKTEKFTLVQKHTVEFNQVAMANSDGSEAMLNRVMTKDNIGVAVVLE 176

Query: 311 LLSQNFTENSAALPTSSAHSKKVAICNIHVLFNPKRGEIKLGQVRTLLEKAHAVSKTW-- 368
           +  + F   +   P  +A  + + + N H+ ++P+  ++KL Q    + +   + +    
Sbjct: 177 VHKELF--GAGMKPIHAADKQLLIVANAHMHWDPEYSDVKLIQTMMFVSEVKNILEKASS 234

Query: 369 ---------NDAPVVLCGDFNCTPKSPLYNFILEQKLDLSGVDRDKVS 407
                    N  P+VLC D N  P S +  ++    +  +  D  ++ 
Sbjct: 235 RPGSPTADPNSIPLVLCADLNSLPDSGVVEYLSNGGVADNHKDFKELR 282

PyMOL of 3ngq

>3ngq_A CCR4-NOT transcription complex subunit 6-like; alpha/beta sandwich fold, hydrolase; HET: 1PS; 1.80A {Homo sapiens} PDB: 3ngo_A 3ngn_A Length = 398	Back alignment and structure

>3mpr_A Putative endonuclease/exonuclease/phosphatase FAM protein; structural genomics, PSI-2, protein structure initiative; HET: MSE PEG; 1.90A {Bacteroides thetaiotaomicron} Length = 298	Back alignment and structure

>3g6s_A Putative endonuclease/exonuclease/phosphatase family protein; alpha-beta protein, structural genomics, PSI-2; 2.50A {Bacteroides vulgatus atcc 8482} Length = 267	Back alignment and structure

>3l1w_A Uncharacterized protein; APC29019.2, conserved protein, enterococcus faecalis V583, PSI-2, MCSG, structural genomics; 1.60A {Enterococcus faecalis} Length = 257	Back alignment and structure

>3i41_A Beta-hemolysin; beta toxin, sphingomyelinase, toxin; 1.75A {Staphylococcus aureus} PDB: 3i46_A 3i48_A 3i5v_A* 3k55_A Length = 317	Back alignment and structure

>1zwx_A SMCL, sphingomyelinase-C; dnase1-like fold, beta-hairpin, hydrolase; 1.90A {Listeria ivanovii} SCOP: d.151.1.3 Length = 301	Back alignment and structure

>2ddr_A Sphingomyelin phosphodiesterase; DNAse I like folding, riken structural genomics/proteomics initiative, RSGI, structural genomics, hydrolase; 1.40A {Bacillus cereus} SCOP: d.151.1.3 PDB: 2dds_A 2ddt_A* 2uyr_X Length = 306	Back alignment and structure

>3teb_A Endonuclease/exonuclease/phosphatase; PSI-biology, MCSG, midwest center for structural genomics; 2.99A {Leptotrichia buccalis c-1013-b} Length = 266	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

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		772
3ngq_A		398	CCR4-NOT transcription complex subunit 6-like; alp	100.0
4b8c_D		727	Glucose-repressible alcohol dehydrogenase transcr	100.0
3l1w_A		257	Uncharacterized protein; APC29019.2, conserved pro	99.93
3g6s_A		267	Putative endonuclease/exonuclease/phosphatase fami	99.92
3mpr_A		298	Putative endonuclease/exonuclease/phosphatase FAM	99.92
3teb_A		266	Endonuclease/exonuclease/phosphatase; PSI-biology,	99.88
4f1h_A		250	Tyrosyl-DNA phosphodiesterase 2; hydrolase-DNA com	99.87
4gz1_A		256	Tyrosyl-DNA phosphodiesterase 2; protein-DNA compl	99.87
1zwx_A		301	SMCL, sphingomyelinase-C; dnase1-like fold, beta-h	99.86
4fva_A		256	5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosy	99.85
3i41_A		317	Beta-hemolysin; beta toxin, sphingomyelinase, toxi	99.85
4gew_A		362	5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosy	99.83
2ddr_A		306	Sphingomyelin phosphodiesterase; DNAse I like fold	99.82
2jc4_A		256	Exodeoxyribonuclease III; hydrolase, repair phosph	99.78
1ako_A		268	Exonuclease III; AP-endonuclease, DNA repair; 1.70	99.76
2a40_B		260	Deoxyribonuclease-1; WAVE, WH2, WAsp, actin, DNAse	99.73
2jc5_A		259	Exodeoxyribonuclease; hydrolase, repair phosphodie	99.71
1vyb_A		238	ORF2 contains A reverse transcriptase domain; endo	99.69
2voa_A		257	AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP	99.67
2o3h_A		285	DNA-(apurinic or apyrimidinic site) lyase; APE, en	99.65
3g91_A		265	MTH0212, exodeoxyribonuclease; double-strand speci	99.64
1hd7_A		318	DNA-(apurinic or apyrimidinic site) lyase; DNA rep	99.62
1wdu_A		245	TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA	99.57
2j63_A		467	AP-endonuclease; base excision repair, lyase; 2.48	99.54
2imq_X		282	Salivary nitrophorin; ferrous heme, beta-sandwich,	99.45
2f1n_A		262	CDT B, cytolethal distending toxin subunit B; E.co	99.35
1sr4_B		261	CDT B, cytolethal distending toxin protein B; bact	99.31
2ei9_A		240	Non-LTR retrotransposon R1BMKS ORF2 protein; four	99.22
1i9z_A		347	Synaptojanin, phosphatidylinositol phosphate phosp	99.0
2xsw_A		357	72 kDa inositol polyphosphate 5-phosphatase; inosi	98.73
4a9c_A		316	Phosphatidylinositol-3,4,5-trisphosphate 5-phosph;	98.06
3mtc_A		313	Type II inositol-1,4,5-trisphosphate 5-phosphatas;	98.01
4f1h_A		250	Tyrosyl-DNA phosphodiesterase 2; hydrolase-DNA com	97.06
4gz1_A		256	Tyrosyl-DNA phosphodiesterase 2; protein-DNA compl	97.06
4fva_A		256	5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosy	96.66
4gew_A		362	5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosy	95.8
2jc5_A		259	Exodeoxyribonuclease; hydrolase, repair phosphodie	94.04
3teb_A		266	Endonuclease/exonuclease/phosphatase; PSI-biology,	93.87
1zwx_A		301	SMCL, sphingomyelinase-C; dnase1-like fold, beta-h	93.62
3g6s_A		267	Putative endonuclease/exonuclease/phosphatase fami	92.86
2voa_A		257	AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP	92.4
2jc4_A		256	Exodeoxyribonuclease III; hydrolase, repair phosph	92.21
3l1w_A		257	Uncharacterized protein; APC29019.2, conserved pro	92.17
2ddr_A		306	Sphingomyelin phosphodiesterase; DNAse I like fold	91.16
1vyb_A		238	ORF2 contains A reverse transcriptase domain; endo	90.39
1wdu_A		245	TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA	89.43
1ako_A		268	Exonuclease III; AP-endonuclease, DNA repair; 1.70	89.09
3g91_A		265	MTH0212, exodeoxyribonuclease; double-strand speci	88.85
2o3h_A		285	DNA-(apurinic or apyrimidinic site) lyase; APE, en	88.53
2j63_A		467	AP-endonuclease; base excision repair, lyase; 2.48	88.47
3mpr_A		298	Putative endonuclease/exonuclease/phosphatase FAM	87.76
1hd7_A		318	DNA-(apurinic or apyrimidinic site) lyase; DNA rep	85.69

>3ngq_A CCR4-NOT transcription complex subunit 6-like; alpha/beta sandwich fold, hydrolase; HET: 1PS; 1.80A {Homo sapiens} PDB: 3ngo_A 3ngn_A	Back alignment and structure

Probab=100.00  E-value=8e-61  Score=522.94  Aligned_cols=221  Identities=31%  Similarity=0.566  Sum_probs=175.2

Q ss_pred             CCcccccccCCCC-CCCCceEEEeeccccCcccccccccccccCCccccchHHHHHHHHHHhhcCCCcEEEEeeecc--h
Q 047201          172 DYRNWEHSKASLP-PYSERFVVLSYNILADYLALSHRSKLYFHIPRHLLDWEWRKRSILFELGLWSADIMCFQEVDR--F  248 (772)
Q Consensus       172 ~~R~W~~~~~~~~-~~~~~fRVMSYNILAd~~a~s~~~~lY~ycP~~~LdWd~Rk~lIikEI~~~dPDIICLQEVD~--f  248 (772)
                      ..|.|+.+..... .....||||||||+++.+++   +.+|.+||.+.++|.+|++.|+++|..++|||||||||+.  +
T Consensus        13 ~~R~wi~~~~~~~~~~~~~~~V~syNIl~d~~~~---~~~~~~~p~~~~~W~~R~~~i~~~i~~~~pDIi~lQEv~~~q~   89 (398)
T 3ngq_A           13 PPRPWITLKERDQILPSASFTVMCYNVLCDKYAT---RQLYGYCPSWALNWEYRKKGIMEEIVNCDADIISLQEVETEQY   89 (398)
T ss_dssp             CCCCEEECSCCC--CCCEEEEEEEEECCCGGGCC---TTTCTTSCHHHHSHHHHHHHHHHHHHHHCCSEEEEEEEEHHHH
T ss_pred             CCCcceECCCCCCCCCCCCEEEEEEccCcCcCCc---cccccCCChhhcCHHHHHHHHHHHHHhcCCCEEEEecccHHHH
Confidence            4799998865332 12358999999999998875   5899999999999999999999999999999999999986  4


Q ss_pred             -hhHHHHHHhCCceEEEecCCC---------CCceeEEEEEccCcceeEEeeeeeccCC------C---------CCCce
Q 047201          249 -QDLEVELKFRGYTGIWKMRTG---------NAIDGCAIFWRASRFKLLYEEGIEFNKL------G---------LRDNV  303 (772)
Q Consensus       249 -~dL~~~L~~~GY~gvf~~Rtg---------~~~dG~AIFyRrSRF~LL~~e~I~fs~l------g---------lrdnV  303 (772)
                       +++.+.|..+||.++|..++.         .+.+|||||||++||++++...|+|++.      +         -++|+
T Consensus        90 ~~~l~~~L~~~gY~~v~~~k~r~~~~~~~~~~~~eG~AIfyr~~~f~ll~~~~i~ls~~~~~~s~~~~~~~~Ri~t~~nv  169 (398)
T 3ngq_A           90 FTLFLPALKERGYDGFFSPKSRAKIMSEQERKHVDGCAIFFKTEKFTLVQKHTVEFNQVAMANSDGSEAMLNRVMTKDNI  169 (398)
T ss_dssp             HHTHHHHHHHTTEEEEEEESCTTSCCCHHHHHTCEEEEEEEETTTEEEEEEEEEEHHHHHHHTCTTCHHHHHTTTTCCCE
T ss_pred             HHHHHHHHHhCCceEEEecCCCccccccccccCcceeEEEEECCcceEEeeeEEecCCCcccccccchhhhcceeeccce
Confidence             457888989999999875422         3579999999999999999999999752      1         24788


Q ss_pred             eEEEEEEEecccccccccCCCCccCCCCeEEEEEEecCCCCCChHhHHHHHHHHHHHHHHhhccC-----------CCCC
Q 047201          304 AQICVLELLSQNFTENSAALPTSSAHSKKVAICNIHVLFNPKRGEIKLGQVRTLLEKAHAVSKTW-----------NDAP  372 (772)
Q Consensus       304 aqi~vLe~Lr~~~~~~~~~Lp~~~t~gk~LvVaNTHL~~nPk~~dIRL~Qa~iLL~~L~aLsk~~-----------~~vP  372 (772)
                      +++++|+...... . ....+.....++.|+|+||||+|+|.+.++|+.|++.|+++|+++.+.+           .+.|
T Consensus       170 al~~~L~~~~~~~-~-~~~~~~~~~~~~~l~V~nTHL~~~p~~~~vRl~Q~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~P  247 (398)
T 3ngq_A          170 GVAVVLEVHKELF-G-AGMKPIHAADKQLLIVANAHMHWDPEYSDVKLIQTMMFVSEVKNILEKASSRPGSPTADPNSIP  247 (398)
T ss_dssp             EEEEEEEECGGGC-------------CCEEEEEEEECCCCTTCHHHHHHHHHHHHHHHHHHHCC-------------CCC
T ss_pred             eEEEEEEEccccc-c-cccccccCCCCcEEEEEEeCcCCCCCCHHHHHHHHHHHHHHHHHHHHHhhcccccccccCCCCc
Confidence            8888888642000 0 0000001124678999999999999999999999999999999886432           3589


Q ss_pred             EEEEcCCCCCCCcHHHHHHHhCCCC
Q 047201          373 VVLCGDFNCTPKSPLYNFILEQKLD  397 (772)
Q Consensus       373 VILcGDFNStPdS~vYr~Ls~~~Ld  397 (772)
                      ||||||||++|+|++|++|++|.++
T Consensus       248 vIl~GDFNs~P~s~vy~~L~~G~v~  272 (398)
T 3ngq_A          248 LVLCADLNSLPDSGVVEYLSNGGVA  272 (398)
T ss_dssp             EEEEEECSCCTTSHHHHHHHHTEEE
T ss_pred             eEEEeeCCCCCCCHHHHHHhcCCCC
Confidence            9999999999999999999988654

PyMOL of 3ngq

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}	Back alignment and structure

>3l1w_A Uncharacterized protein; APC29019.2, conserved protein, enterococcus faecalis V583, PSI-2, MCSG, structural genomics; 1.60A {Enterococcus faecalis}	Back alignment and structure

>3g6s_A Putative endonuclease/exonuclease/phosphatase family protein; alpha-beta protein, structural genomics, PSI-2; 2.50A {Bacteroides vulgatus atcc 8482}	Back alignment and structure

>3mpr_A Putative endonuclease/exonuclease/phosphatase FAM protein; structural genomics, PSI-2, protein structure initiative; HET: MSE PEG; 1.90A {Bacteroides thetaiotaomicron}	Back alignment and structure

>3teb_A Endonuclease/exonuclease/phosphatase; PSI-biology, MCSG, midwest center for structural genomics; 2.99A {Leptotrichia buccalis c-1013-b}	Back alignment and structure

>4f1h_A Tyrosyl-DNA phosphodiesterase 2; hydrolase-DNA complex; HET: DNA; 1.66A {Danio rerio} PDB: 4fpv_A* 4f1h_B*	Back alignment and structure

>4gz1_A Tyrosyl-DNA phosphodiesterase 2; protein-DNA complex, DNA repair, 5'-DNA END processing, endonuclease/exonuclease/phosphatase domain; HET: DNA EPE; 1.50A {Mus musculus} PDB: 4gyz_A* 4gz0_A* 4gz2_A*	Back alignment and structure

>1zwx_A SMCL, sphingomyelinase-C; dnase1-like fold, beta-hairpin, hydrolase; 1.90A {Listeria ivanovii} SCOP: d.151.1.3	Back alignment and structure

>4fva_A 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosyl-DNA diesterase, hydrolase; HET: EDO; 2.07A {Caenorhabditis elegans}	Back alignment and structure

>3i41_A Beta-hemolysin; beta toxin, sphingomyelinase, toxin; 1.75A {Staphylococcus aureus} PDB: 3i46_A 3i48_A 3i5v_A* 3k55_A	Back alignment and structure

>4gew_A 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosyl-DNA diesterase, hydrolase; 2.35A {Caenorhabditis elegans} PDB: 4f1i_A	Back alignment and structure

>2ddr_A Sphingomyelin phosphodiesterase; DNAse I like folding, riken structural genomics/proteomics initiative, RSGI, structural genomics, hydrolase; 1.40A {Bacillus cereus} SCOP: d.151.1.3 PDB: 2dds_A 2ddt_A* 2uyr_X	Back alignment and structure

>2jc4_A Exodeoxyribonuclease III; hydrolase, repair phosphodiesterase, DNA repair, exonuclease, endonuclease; HET: 1PE; 1.90A {Neisseria meningitidis}	Back alignment and structure

>1ako_A Exonuclease III; AP-endonuclease, DNA repair; 1.70A {Escherichia coli} SCOP: d.151.1.1	Back alignment and structure

>2a40_B Deoxyribonuclease-1; WAVE, WH2, WAsp, actin, DNAse I, ARP2/3, structural protein; HET: HIC NAG ATP; 1.80A {Bos taurus} SCOP: d.151.1.1 PDB: 1dnk_A* 2a3z_B* 2a41_B* 2a42_B* 2d1k_B* 2dnj_A* 3cjc_D* 3dni_A* 1atn_D*	Back alignment and structure

>2jc5_A Exodeoxyribonuclease; hydrolase, repair phosphodiesterase, DNA repair, exonuclease, endonuclease; HET: BCN DIO GOL; 1.50A {Neisseria meningitidis}	Back alignment and structure

>1vyb_A ORF2 contains A reverse transcriptase domain; endonuclease, APE-1 type, retrotransposition, retrotransposon, transferase; 1.8A {Homo sapiens} SCOP: d.151.1.1 PDB: 2v0s_A 2v0r_A	Back alignment and structure

>2voa_A AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP endonuclease, lyase; 1.7A {Archaeoglobus fulgidus}	Back alignment and structure

>2o3h_A DNA-(apurinic or apyrimidinic site) lyase; APE, endonuclease; 1.90A {Homo sapiens} PDB: 1bix_A 1dew_A* 1de8_B* 1de9_A* 2o3c_A	Back alignment and structure

>3g91_A MTH0212, exodeoxyribonuclease; double-strand specific 3'-5' exonuclease, AP endonuclease; HET: PG4; 1.23A {Methanothermobacter thermautotrophicusorganism_taxid} PDB: 3fzi_A 3g0a_A 3g1k_A 3g2c_A 3g3c_A* 3g3y_A* 3g4t_A* 3g00_A 3g0r_A* 3g2d_A* 3g38_A 3g8v_A* 3ga6_A	Back alignment and structure

>1hd7_A DNA-(apurinic or apyrimidinic site) lyase; DNA repair, endonuclease, APE1, HAP1, REF-1; 1.95A {Homo sapiens} SCOP: d.151.1.1 PDB: 1e9n_A 3u8u_A 2isi_A	Back alignment and structure

>1wdu_A TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA binding protein; 2.40A {Bombyx mori} SCOP: d.151.1.1	Back alignment and structure

>2j63_A AP-endonuclease; base excision repair, lyase; 2.48A {Leishmania major}	Back alignment and structure

>2imq_X Salivary nitrophorin; ferrous heme, beta-sandwich, transport protein; HET: HEM; 1.30A {Cimex lectularius} SCOP: d.151.1.2 PDB: 1ntf_A* 1y21_A* 1yjh_A* 1si6_X*	Back alignment and structure

>2f1n_A CDT B, cytolethal distending toxin subunit B; E.coli, DNAse I, microbatch; 1.73A {Escherichia coli} SCOP: d.151.1.1	Back alignment and structure

>1sr4_B CDT B, cytolethal distending toxin protein B; bacterial, virulence, DNA damage, genotoxin, cytotoxins, cell cycle, apoptosis, lectin; 2.00A {Haemophilus ducreyi} SCOP: d.151.1.1 PDB: 2f2f_B	Back alignment and structure

>2ei9_A Non-LTR retrotransposon R1BMKS ORF2 protein; four layered alpha beta sandwich, gene regulation; 2.00A {Bombyx mori}	Back alignment and structure

>1i9z_A Synaptojanin, phosphatidylinositol phosphate phosphatase; spsynaptojanin, IPP5C, IP3, IP2,, hydrolase; HET: 2IP; 1.80A {Schizosaccharomyces pombe} SCOP: d.151.1.2 PDB: 1i9y_A*	Back alignment and structure

>2xsw_A 72 kDa inositol polyphosphate 5-phosphatase; inositol signalling, SGC stockholm, structural genomics CONS hydrolase; 1.90A {Homo sapiens}	Back alignment and structure

>4a9c_A Phosphatidylinositol-3,4,5-trisphosphate 5-phosph; SGC, signalling, structural genomics consortium stockholm, magnesium binding, hydrolase; HET: B5F; 2.10A {Homo sapiens} PDB: 3nr8_B*	Back alignment and structure

>3mtc_A Type II inositol-1,4,5-trisphosphate 5-phosphatas; INPP5BA,phosphoinositide 5-phosphatase, inositol signalling, phosphatase, magnesium; HET: PIF; 2.40A {Homo sapiens} PDB: 3n9v_A	Back alignment and structure

>4f1h_A Tyrosyl-DNA phosphodiesterase 2; hydrolase-DNA complex; HET: DNA; 1.66A {Danio rerio} PDB: 4fpv_A* 4f1h_B*	Back alignment and structure

>4gz1_A Tyrosyl-DNA phosphodiesterase 2; protein-DNA complex, DNA repair, 5'-DNA END processing, endonuclease/exonuclease/phosphatase domain; HET: DNA EPE; 1.50A {Mus musculus} PDB: 4gyz_A* 4gz0_A* 4gz2_A*	Back alignment and structure

>4fva_A 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosyl-DNA diesterase, hydrolase; HET: EDO; 2.07A {Caenorhabditis elegans}	Back alignment and structure

>4gew_A 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosyl-DNA diesterase, hydrolase; 2.35A {Caenorhabditis elegans} PDB: 4f1i_A	Back alignment and structure

>2jc5_A Exodeoxyribonuclease; hydrolase, repair phosphodiesterase, DNA repair, exonuclease, endonuclease; HET: BCN DIO GOL; 1.50A {Neisseria meningitidis}	Back alignment and structure

>3teb_A Endonuclease/exonuclease/phosphatase; PSI-biology, MCSG, midwest center for structural genomics; 2.99A {Leptotrichia buccalis c-1013-b}	Back alignment and structure

>1zwx_A SMCL, sphingomyelinase-C; dnase1-like fold, beta-hairpin, hydrolase; 1.90A {Listeria ivanovii} SCOP: d.151.1.3	Back alignment and structure

>3g6s_A Putative endonuclease/exonuclease/phosphatase family protein; alpha-beta protein, structural genomics, PSI-2; 2.50A {Bacteroides vulgatus atcc 8482}	Back alignment and structure

>2voa_A AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP endonuclease, lyase; 1.7A {Archaeoglobus fulgidus}	Back alignment and structure

>2jc4_A Exodeoxyribonuclease III; hydrolase, repair phosphodiesterase, DNA repair, exonuclease, endonuclease; HET: 1PE; 1.90A {Neisseria meningitidis}	Back alignment and structure

>3l1w_A Uncharacterized protein; APC29019.2, conserved protein, enterococcus faecalis V583, PSI-2, MCSG, structural genomics; 1.60A {Enterococcus faecalis}	Back alignment and structure

>2ddr_A Sphingomyelin phosphodiesterase; DNAse I like folding, riken structural genomics/proteomics initiative, RSGI, structural genomics, hydrolase; 1.40A {Bacillus cereus} SCOP: d.151.1.3 PDB: 2dds_A 2ddt_A* 2uyr_X	Back alignment and structure

>1vyb_A ORF2 contains A reverse transcriptase domain; endonuclease, APE-1 type, retrotransposition, retrotransposon, transferase; 1.8A {Homo sapiens} SCOP: d.151.1.1 PDB: 2v0s_A 2v0r_A	Back alignment and structure

>1wdu_A TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA binding protein; 2.40A {Bombyx mori} SCOP: d.151.1.1	Back alignment and structure

>1ako_A Exonuclease III; AP-endonuclease, DNA repair; 1.70A {Escherichia coli} SCOP: d.151.1.1	Back alignment and structure

>3g91_A MTH0212, exodeoxyribonuclease; double-strand specific 3'-5' exonuclease, AP endonuclease; HET: PG4; 1.23A {Methanothermobacter thermautotrophicusorganism_taxid} PDB: 3fzi_A 3g0a_A 3g1k_A 3g2c_A 3g3c_A* 3g3y_A* 3g4t_A* 3g00_A 3g0r_A* 3g2d_A* 3g38_A 3g8v_A* 3ga6_A	Back alignment and structure

>2o3h_A DNA-(apurinic or apyrimidinic site) lyase; APE, endonuclease; 1.90A {Homo sapiens} PDB: 1bix_A 1dew_A* 1de8_B* 1de9_A* 2o3c_A	Back alignment and structure

>2j63_A AP-endonuclease; base excision repair, lyase; 2.48A {Leishmania major}	Back alignment and structure

>3mpr_A Putative endonuclease/exonuclease/phosphatase FAM protein; structural genomics, PSI-2, protein structure initiative; HET: MSE PEG; 1.90A {Bacteroides thetaiotaomicron}	Back alignment and structure

>1hd7_A DNA-(apurinic or apyrimidinic site) lyase; DNA repair, endonuclease, APE1, HAP1, REF-1; 1.95A {Homo sapiens} SCOP: d.151.1.1 PDB: 1e9n_A 3u8u_A 2isi_A	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Alignment Graph	Length	Definition	E-value
Query		772
d1zwxa1		293	d.151.1.3 (A:41-333) Sphingomyelin phosphodiestera	1e-11
d2ddra1		299	d.151.1.3 (A:7-305) Sphingomyelin phosphodiesteras	2e-09
d1sr4b_		261	d.151.1.1 (B:) Cytolethal distending toxin subunit	2e-08
d2f1na1		250	d.151.1.1 (A:1-250) Cytolethal distending toxin su	2e-04

>d1zwxa1 d.151.1.3 (A:41-333) Sphingomyelin phosphodiesterase C {Listeria ivanovii [TaxId: 1638]} Length = 293	Back information, alignment and structure


class: Alpha and beta proteins (a+b)
fold: DNase I-like
superfamily: DNase I-like
family: Sphingomyelin phosphodiesterase-like
domain: Sphingomyelin phosphodiesterase C
species: Listeria ivanovii [TaxId: 1638]

 Score = 63.8 bits (153), Expect = 1e-11
 Identities = 25/216 (11%), Positives = 52/216 (24%), Gaps = 18/216 (8%)

Query: 186 YSERFVVLSYNILADYLALSHRSKLYFHIPRHLLDWEWRKRSILFELGLWSADIMCFQEV 245
           Y   F + S+N+            L+            R   I     + + D++   E 
Sbjct: 1   YPGNFKITSHNV-----------YLFSRNIYPNWGQMHRADLIAQADYMKNNDVVILNEA 49

Query: 246 DRFQDLEVELK--FRGYTGIWKMRTGNAIDGCAIFWRASRFKLLYEEGIEFNKLGLRDNV 303
                    L      Y     +   +           S F L        ++  + +  
Sbjct: 50  FDTSASHRLLNNLREMYPHQTPVIGRSKHGWDKTEGNYSNFALEDGGVAVVSQWPIVEKS 109

Query: 304 AQICVLELLSQNFTENSAALPTSSAHSKKVAICNIHVLFNPKRGEIKLGQVRTLLEKAHA 363
             I      +   +    A      + K   I   H   +         +     +    
Sbjct: 110 QHIFQRGGGADRLSNKGFAYVKIMKNGKPYHIIGTHTQADDSLISKDTSRAIRAEQMQEI 169

Query: 364 VSKTW-----NDAPVVLCGDFNCTPKSPLYNFILEQ 394
            +         D  + + GD N    +  Y+ +L+ 
Sbjct: 170 QTFIAKKNIPKDEIIFIGGDLNVNYGTDEYHDMLKL 205

PyMOL of d1zwxa1

>d2ddra1 d.151.1.3 (A:7-305) Sphingomyelin phosphodiesterase C {Bacillus cereus [TaxId: 1396]} Length = 299	Back information, alignment and structure

>d1sr4b_ d.151.1.1 (B:) Cytolethal distending toxin subunit B {Haemophilus ducreyi [TaxId: 730]} Length = 261	Back information, alignment and structure

>d2f1na1 d.151.1.1 (A:1-250) Cytolethal distending toxin subunit B {Escherichia coli [TaxId: 562]} Length = 250	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
Query		772
d1zwxa1		293	Sphingomyelin phosphodiesterase C {Listeria ivanov	99.81
d2ddra1		299	Sphingomyelin phosphodiesterase C {Bacillus cereus	99.78
d2a40b1		260	Deoxyribonuclease I {Cow (Bos taurus) [TaxId: 9913	99.64
d1sr4b_		261	Cytolethal distending toxin subunit B {Haemophilus	99.54
d1vyba_		236	Endonuclease domain of LINE-1 reverse transcriptas	99.5
d2f1na1		250	Cytolethal distending toxin subunit B {Escherichia	99.46
d1wdua_		228	Endonuclease domain of TRAS1 retrotransposon (ORF2	99.38
d2imqx1		280	Salivary nitrophorin {Bedbug (Cimex lectularius) [	99.09
d1hd7a_		275	DNA repair endonuclease Hap1 {Human (Homo sapiens)	98.99
d1akoa_		268	DNA-repair enzyme exonuclease III {Escherichia col	98.71
d1i9za_		345	Synaptojanin, IPP5C domain {Fission yeast (Schizos	98.71
d2ddra1		299	Sphingomyelin phosphodiesterase C {Bacillus cereus	95.63
d1akoa_		268	DNA-repair enzyme exonuclease III {Escherichia col	95.14
d1hd7a_		275	DNA repair endonuclease Hap1 {Human (Homo sapiens)	92.48
d1zwxa1		293	Sphingomyelin phosphodiesterase C {Listeria ivanov	92.18
d1wdua_		228	Endonuclease domain of TRAS1 retrotransposon (ORF2	89.32
d1sr4b_		261	Cytolethal distending toxin subunit B {Haemophilus	88.01
d1vyba_		236	Endonuclease domain of LINE-1 reverse transcriptas	87.29
d2a40b1		260	Deoxyribonuclease I {Cow (Bos taurus) [TaxId: 9913	87.1
d2imqx1		280	Salivary nitrophorin {Bedbug (Cimex lectularius) [	86.6

>d1zwxa1 d.151.1.3 (A:41-333) Sphingomyelin phosphodiesterase C {Listeria ivanovii [TaxId: 1638]}	Back information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: DNase I-like
superfamily: DNase I-like
family: Sphingomyelin phosphodiesterase-like
domain: Sphingomyelin phosphodiesterase C
species: Listeria ivanovii [TaxId: 1638]

Probab=99.81  E-value=3e-19  Score=173.51  Aligned_cols=177  Identities=16%  Similarity=0.107  Sum_probs=115.7

Q ss_pred             CceEEEeeccccCcccccccccccccCCccccchHHHHHHHHHHhhcCCCcEEEEeeecch---hhHHHHHHhCCceEEE
Q 047201          188 ERFVVLSYNILADYLALSHRSKLYFHIPRHLLDWEWRKRSILFELGLWSADIMCFQEVDRF---QDLEVELKFRGYTGIW  264 (772)
Q Consensus       188 ~~fRVMSYNILAd~~a~s~~~~lY~ycP~~~LdWd~Rk~lIikEI~~~dPDIICLQEVD~f---~dL~~~L~~~GY~gvf  264 (772)
                      +.||||||||+....      .+++     ...+..|.++|+++|...+|||||||||...   ..|...|. ..|....
T Consensus         3 ~~lki~s~Nv~~~~~------~~~~-----~~~~~~r~~~i~~~i~~~~~DVi~LQEv~~~~~~~~l~~~~~-~~~~~~~   70 (293)
T d1zwxa1           3 GNFKITSHNVYLFSR------NIYP-----NWGQMHRADLIAQADYMKNNDVVILNEAFDTSASHRLLNNLR-EMYPHQT   70 (293)
T ss_dssp             CSCEEEEEEEEECCT------TTST-----TSCHHHHHHHHHTSGGGSSCSEEEEEEECSHHHHHHHHHHTT-TTCCEEC
T ss_pred             CCCEEEEEecCcCcc------ccCC-----CcCHHHHHHHHHHHHHhcCCCEEEEEccCCcchHHHHHHHHh-hhcccee
Confidence            689999999975321      2222     2245788999999999999999999999863   33444443 2233221


Q ss_pred             ec----------------CCCCCceeEEEEEccCcceeEEeeeeeccCCCCCCc-eeEEEEEEEecccccccccCCCCcc
Q 047201          265 KM----------------RTGNAIDGCAIFWRASRFKLLYEEGIEFNKLGLRDN-VAQICVLELLSQNFTENSAALPTSS  327 (772)
Q Consensus       265 ~~----------------Rtg~~~dG~AIFyRrSRF~LL~~e~I~fs~lglrdn-Vaqi~vLe~Lr~~~~~~~~~Lp~~~  327 (772)
                      ..                .......|++|+   +|+++.....+.+......+. ..+.++...+              .
T Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~il---sr~pi~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~  133 (293)
T d1zwxa1          71 PVIGRSKHGWDKTEGNYSNFALEDGGVAVV---SQWPIVEKSQHIFQRGGGADRLSNKGFAYVKI--------------M  133 (293)
T ss_dssp             CCTTSCSTTCSEEEC-----CCBCCCCEEE---ESSCEEEEEEEECSCCCGGGGGBCCEEEEEEE--------------E
T ss_pred             hhcccccccccccccccccccccccceEEE---eccCcccceeeeeeccccccccccceEEEEEE--------------e
Confidence            11                011234589999   899999887766554321111 1111111111              1


Q ss_pred             CCCCeEEEEEEecCCCCCC------hHhHHHHHHHHHHHHHHhhccCCCCCEEEEcCCCCCCCcHHHHHHHhC
Q 047201          328 AHSKKVAICNIHVLFNPKR------GEIKLGQVRTLLEKAHAVSKTWNDAPVVLCGDFNCTPKSPLYNFILEQ  394 (772)
Q Consensus       328 t~gk~LvVaNTHL~~nPk~------~dIRL~Qa~iLL~~L~aLsk~~~~vPVILcGDFNStPdS~vYr~Ls~~  394 (772)
                      ..+..++|+||||.+....      ...|..|++.++..+.+... ..+.|||||||||..|.+..++.|...
T Consensus       134 ~~~~~~~v~~~Hl~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~-~~~~~vil~GDfN~~~~~~~~~~~~~~  205 (293)
T d1zwxa1         134 KNGKPYHIIGTHTQADDSLISKDTSRAIRAEQMQEIQTFIAKKNI-PKDEIIFIGGDLNVNYGTDEYHDMLKL  205 (293)
T ss_dssp             ETTEEEEEEEEECCCCCTTSCHHHHHHHHHHHHHHHHHHHHHHTC-CTTSEEEEEEECCCCTTSHHHHHHHHH
T ss_pred             cCCceEEEEEeeeeccCCccchhHHHHHHHHHHHHhhhhhhhhcc-CCCCcEEEEeecCCCCCchHHHHHHhh
Confidence            2467899999999875321      24588898888888776532 356799999999999999999887653

PyMOL of d1zwxa1

>d2ddra1 d.151.1.3 (A:7-305) Sphingomyelin phosphodiesterase C {Bacillus cereus [TaxId: 1396]}	Back information, alignment and structure

>d2a40b1 d.151.1.1 (B:1-260) Deoxyribonuclease I {Cow (Bos taurus) [TaxId: 9913]}	Back information, alignment and structure

>d1sr4b_ d.151.1.1 (B:) Cytolethal distending toxin subunit B {Haemophilus ducreyi [TaxId: 730]}	Back information, alignment and structure

>d1vyba_ d.151.1.1 (A:) Endonuclease domain of LINE-1 reverse transcriptase homolog {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2f1na1 d.151.1.1 (A:1-250) Cytolethal distending toxin subunit B {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1wdua_ d.151.1.1 (A:) Endonuclease domain of TRAS1 retrotransposon (ORF2) {Silkworm (Bombyx mori) [TaxId: 7091]}	Back information, alignment and structure

>d2imqx1 d.151.1.2 (X:3-282) Salivary nitrophorin {Bedbug (Cimex lectularius) [TaxId: 79782]}	Back information, alignment and structure

>d1hd7a_ d.151.1.1 (A:) DNA repair endonuclease Hap1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1akoa_ d.151.1.1 (A:) DNA-repair enzyme exonuclease III {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1i9za_ d.151.1.2 (A:) Synaptojanin, IPP5C domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}	Back information, alignment and structure

>d2ddra1 d.151.1.3 (A:7-305) Sphingomyelin phosphodiesterase C {Bacillus cereus [TaxId: 1396]}	Back information, alignment and structure

>d1akoa_ d.151.1.1 (A:) DNA-repair enzyme exonuclease III {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1hd7a_ d.151.1.1 (A:) DNA repair endonuclease Hap1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1zwxa1 d.151.1.3 (A:41-333) Sphingomyelin phosphodiesterase C {Listeria ivanovii [TaxId: 1638]}	Back information, alignment and structure

>d1wdua_ d.151.1.1 (A:) Endonuclease domain of TRAS1 retrotransposon (ORF2) {Silkworm (Bombyx mori) [TaxId: 7091]}	Back information, alignment and structure

>d1sr4b_ d.151.1.1 (B:) Cytolethal distending toxin subunit B {Haemophilus ducreyi [TaxId: 730]}	Back information, alignment and structure

>d1vyba_ d.151.1.1 (A:) Endonuclease domain of LINE-1 reverse transcriptase homolog {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2a40b1 d.151.1.1 (B:1-260) Deoxyribonuclease I {Cow (Bos taurus) [TaxId: 9913]}	Back information, alignment and structure

>d2imqx1 d.151.1.2 (X:3-282) Salivary nitrophorin {Bedbug (Cimex lectularius) [TaxId: 79782]}	Back information, alignment and structure