Citrus Sinensis ID: 043643

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Local Sequence Feature Prediction

Residue Number Marker
--------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----
Protein Sequence
KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGSVIDARRNNMARARVSPFNAAPEDASAPGARRNVPTTFQLPAEPEQFTDDEQLSVNSIGPASPSRAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAPSLPNDADRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRPECTALLDVFCTHKDSASMEIHQVEGEKVEIRRPEVLSTADKKVNLQVDRQRSRLLVAETIADAQRMAEVGDLESAQALLAERRSGLLSSAAAQAGDVLCNWLEAELREIRERMASMDLYERTGRAYLLSGLSSHSWQRATTRGDTTQILATNGDRGHSGSIDSTRSYETPWMTTMVTRSQTLNFTSGEQQSQANK
Secondary Structure (PSIPRED)
ccccccccccccccccEEEEcccccccccccccccccccccccccccccccccccccccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEccccccccccccccccEEEEEEEccccccccccccccEEEEEEccccccccHHHHHHHHHHHHHHccccccEEEEEEccccEEEEccccccHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHcccccccEEEEEEccccccccccccccccccccccccHHHHHccccHHHHHHHHHHccccccEEEEEccccccHHHHHHHHHHcccEEEEcccHHHHHHHHHHHHHccccEEEEEEEEEEEEccccEEEEEcccccccccccccccEEEEEccccccccEEEEEEEEEEcccccccccccccEEEEEEEEEEEccccccEEEEcccEEEEEcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccHHHHHHHHHHHccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEHccccccccEEEEEEEcccccccHHHHHHccccccEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEccccccccccccccccEEEEEEEccccccccccccccEEEEEEcccccccHHHHHHHHHHHHHHHcccccEEEEEEEccccEEEEccccccccHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHcccccccEEEEEEEcccccccccccHHccccccccccccccHHcccccHHHHHHHHHcccccEEEEEcccccccHHHHHHHHHHccccEEEEccHHHHHHHHHHHHHccHEEEEEEEEEEEEEccccEEEEEEEcccccccccccccccEEEccccccccEEEEEEEEEccccccccccccccEEEEEEEEEEcccccccEEEcccccEEEccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHEEccccccHHHHHcccccccccccccccccccccHHHHHHcccHHHHHHHHHHHHcccccccccccccc
Coil and Loop (DISEMBL)
ktcpiclgslrrgqGVAIFTAECSHSFHFCCIAAnvqhgnricpicrcewkdvpfqapgsvIDARRNNMArarvspfnaapedasapgarrnvpttfqlpaepeqftddeqlsvnsigpaspSRAQALAVKAFpefgavaaaecpPKFAVLLRVcapslpndadrapidLVTVLDvsgsmssklplLKRAVHFIIQNlgsadrlsIVIFSSVarrifplqrmtdsGRENAIRAINTLssnggtniVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRnsytqdeassipsnelaylnllpssiclskreagqptfpvhtfgfglehdsEAMHAIAdasggtfsFIETLSILQDAFARCIGGLLSVVSQDVKLTIrsksagvrigsipsgrynsevldeGQQAVIDIGNLYADEEKEFMVYLSipvssaegeqrpecTALLDVFcthkdsasmEIHQvegekveirrpevlstaDKKVNLQVDRQRSRLLVAETIADAQRMAEVGDLESAQALLAERRSGLLSSAAAQAGDVLCNWLEAELREIRERMASMDLYERTGRAYLLSGlsshswqrattrgdttqilatngdrghsgsidstrsyetpwmttMVTRSqtlnftsgeqqsqank
Flexible Loop (DISEMBL)
ktcpiclgslrrGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGSVIDARRNNMARARVSpfnaapedasapgaRRNVPTTFQLPAEPEQFTDDEQLSVNSIGPASPSRAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAPSlpndadrapIDLVTVLDVSGSMSSKLPLLKRAVHFIIQnlgsadrlsiVIFSSVARRIFPLQRMTDSGRENAIRAIntlssnggtniveGLKKGARVLEERRERSPVasiillsdgqdthNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSvvsqdvkltirsksagvrigsipsgrynsevldEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRPECTALLDVFCTHKDSASmeihqvegekveirrpevlstadkkvnlqvdrqrsrLLVAETIADAQRMAEVGDLESAQALLAERRSGLLSSAAAQAGDVLCNWLEAELREIRERMASMDLYERTGRAYLLSGLSSHSWQRATTRGdttqilatngdrghsgsidstrsyetpWMTTMVTRSQtlnftsgeqqsqank
Low Complexity Region (SEG)
KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGSVIDARRNNMARARVSPFNAAPEDASAPGARRNVPTTFQLPAEPEQFTDDEQLSVNSIGPASPSRAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAPSLPNDADRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRPECTALLDVFCTHKDSASMEIHQVEGEKVEIRRPEVLSTADKKVNLQVDRQRSRLLVAETIADAQRMAEVGDLESAQallaerrsgllssaaaqagDVLCNWLEAELREIRERMASMDLYERTGRAYLLSGLSSHSWQRATTRGDTTQILATNGDRGHSGSIDSTRSYETPWMTTMVTRSQTLNFTSGEQQSQANK
Disordered region (IsUnstruct)
**CPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGSVI*****************************************************************LAVKAFPEFGAVAAAECPPKFAVLLRVCAPSLPNDADRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMT******AIRAINTL******NIVE*******************SIILLS************************ELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSS******PECTALLDVFCTHKD**************************************RLLVAETIAD***********************LLSSAAAQAGDVLCNWLEAELREIRERMASMDLYERTGRAYLLSGLSSHSW***********************************************************
Disordered Region (DISOPRED)
KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD************************FNAAPEDA*******************EQFTDDEQLSVNS***************AFPEFGAVAAAECPPKFAVLL***************IDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLE**R*RSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAE*EQRPECTALLDVFCTHKDSASMEIHQVEGEKVEIRRPE***********QVDRQRSRLLVAETIADAQRMAE**D*ESAQALLAERRS****************WLEA***********************LSGLS*********************************SYETPWMT**********************
Disordered Region (DISEMBL)
KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGSVIDARRNNMARARVSPF***********ARRNVPTTFQLPAEPEQFTDDEQLSVNSIGPASPSRAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAPSLPNDADRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRPECTALLDVFCTHKDSASMEIHQVEGEKVEIRRPEVLSTADKKVNLQVDRQRSRLLVAETIADAQRMAEVGDLESAQALLAERRSGLLSSAAAQAGDVLCNWLEAELREIRERMASMDLYERTGRAYLLSGLSSHSWQRATTRGDTTQILATNGDRGHSGSIDSTRSYETPWMTTMVTRSQTLNFT**********
Disordered Region (DISPRO)
*TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQA*************************DASAPGARRNVPTTFQLPAEPEQFTDDEQLSVNSIGPASPSRAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAPSLPNDADRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNS*TQ********NELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRPECTALLDVFCTHKDSASMEIHQVEGEKVEIRRPEVLSTADKKVNLQVDRQRSRLLVAETIADAQRMAEVGDLESAQALLAERRSGLLSSAAAQAGDVLCNWLEAELREIRERMASMDLYERTGRAYLLSGL******************************D**********TTMVTR*****************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGSVIDARRNNMARARVSPFNAAPEDASAPGARRNVPTTFQLPAEPEQFTDDEQLSVNSIGPASPSRAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAPSLPNDADRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRPECTALLDVFCTHKDSASMEIHQVEGEKVEIRRPEVLSTADKKVNLQVDRQRSRLLVAETIADAQRMAEVGDLESAQALLAERRSGLLSSAAAQAGDVLCNWLEAELREIRERMASMDLYERTGRAYLLSGLSSHSWQRATTRGDTTQILATNGDRGHSGSIDSTRSYETPWMTTMVTRSQTLNFTSGEQQSQANK
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	634	2.2.26 [Sep-21-2011]
Q55874	420	Uncharacterized protein s	N/A	no	0.373	0.564	0.284	4e-13
P76481	575	Uncharacterized protein Y	N/A	no	0.305	0.337	0.280	2e-11
Q9GLY5	903	Inter-alpha-trypsin inhib	yes	no	0.257	0.180	0.286	6e-08
P97280	886	Inter-alpha-trypsin inhib	N/A	no	0.257	0.183	0.266	1e-07
P54281	903	Epithelial chloride chann	yes	no	0.164	0.115	0.373	3e-07
Q5RB37	876	Inter-alpha-trypsin inhib	yes	no	0.257	0.186	0.257	5e-06
Q61704	889	Inter-alpha-trypsin inhib	no	no	0.257	0.183	0.266	6e-06
Q06033	890	Inter-alpha-trypsin inhib	yes	no	0.257	0.183	0.257	7e-06
Q6Q473	924	Calcium-activated chlorid	no	no	0.190	0.130	0.311	8e-06
Q0VCM5	906	Inter-alpha-trypsin inhib	no	no	0.258	0.181	0.238	2e-05

>sp|Q55874|Y103_SYNY3 Uncharacterized protein sll0103 OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=sll0103 PE=4 SV=1

 Score = 77.4 bits (189), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 80/281 (28%), Positives = 132/281 (46%), Gaps = 44/281 (15%)

Query: 152 LRVCAPSLPNDADR-APIDLVTVLDVSGSMSSK-LPLLKRAVHFIIQNLGSADRLSIVIF 209
           LR+   +  +D DR  P++L  VLD SGSM  + L  +K A   +I  L   DRLS++ F
Sbjct: 25  LRIAVAAKADDHDRRLPLNLCLVLDHSGSMDGQPLETVKSAALGLIDRLEEDDRLSVIAF 84

Query: 210 SSVARRIFPLQRMTDSGRENAI-RAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASI 268
              A+ +   Q++ +     AI +AI  L + GGT I EGLK G +   + +E   V+ I
Sbjct: 85  DHRAKIVIENQQVRNGA---AIAKAIERLKAEGGTAIDEGLKLGIQEAAKGKE-DRVSHI 140

Query: 269 ILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFG 328
            LL+DG++ H                ++    L  + S   L+          VHT GFG
Sbjct: 141 FLLTDGENEHG--------------DNDRCLKLGTVASDYKLT----------VHTLGFG 176

Query: 329 LEHDSEAMHAIADASGGTFSFIET----LSILQDAFARCIGGLLSVVSQDVKLTIRSKSA 384
              + + + AIA ++ G+ S+IE     L   +  F R     L+     ++L  ++  A
Sbjct: 177 DHWNQDVLEAIAASAQGSLSYIENPSEALHTFRQLFQRMSNVGLTNAHLLLELAPQAHLA 236

Query: 385 GVRIGSIPSGRYNSEVLD---EGQQAV--IDIGNLYADEEK 420
            V+    P  + + E +D   + Q A+  + +G+L  D+E+
Sbjct: 237 IVK----PVAQVSPETMDLTVQNQGAIEEVRLGDLMTDQER 273

Synechocystis sp. (strain PCC 6803 / Kazusa) (taxid: 1111708)

>sp|P76481|YFBK_ECOLI Uncharacterized protein YfbK OS=Escherichia coli (strain K12) GN=yfbK PE=4 SV=1

 Score = 71.2 bits (173), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 62/221 (28%), Positives = 106/221 (47%), Gaps = 27/221 (12%)

Query: 169 DLVTVLDVSGSMSS--KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSG 226
           +LV ++D SGSM S  +LPL++ ++  +++ L   D ++IV ++  +R   P   ++ S 
Sbjct: 216 NLVFLIDTSGSMISDERLPLIQSSLKLLVKELREQDNIAIVTYAGDSRIALP--SISGSH 273

Query: 227 RENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYT 286
           +     AI++L + G TN   GL+   +   +   +  +  I+L +DG     +      
Sbjct: 274 KAEINAAIDSLDAEGSTNGGAGLELAYQQATKGFIKGGINRILLATDGDFNVGI------ 327

Query: 287 QDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHA-IADASGG 345
            D+  SI             S+   +RE+G     + TFG G  + +EAM   IAD   G
Sbjct: 328 -DDPKSI------------ESMVKKQRESG---VTLSTFGVGNSNYNEAMMVRIADVGNG 371

Query: 346 TFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGV 386
            +S+I+TLS  Q      +  +L  V++DVK  I    A V
Sbjct: 372 NYSYIDTLSEAQKVLNSEMRQMLITVAKDVKAQIEFNPAWV 412

Escherichia coli (strain K12) (taxid: 83333)

>sp|Q9GLY5|ITIH3_RABIT Inter-alpha-trypsin inhibitor heavy chain H3 OS=Oryctolagus cuniculus GN=ITIH3 PE=2 SV=1

 Score = 60.1 bits (144), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 59/206 (28%), Positives = 94/206 (45%), Gaps = 43/206 (20%)

Query: 166 APIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSS-VARRIFPLQRMT 223
            P ++V V+DVSGSM   KL   K A+  I++++   D L+ ++FSS V      L + T
Sbjct: 281 VPKNVVFVIDVSGSMYGRKLEQTKDALLKILEDMREEDHLNFILFSSDVTTWKEHLVQAT 340

Query: 224 DSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRE--RSPVAS---IILLSDGQDTH 278
               + A   + ++   G TN+ +GL +G  +L   RE  R P  S   +I+L+DG    
Sbjct: 341 PENLQEARAFVKSIQDQGSTNLNDGLLRGISMLNTAREEHRVPERSTSIVIMLTDG---- 396

Query: 279 NVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHA 338
                     +A+S  S         P  I  + R A    FP++  GFG          
Sbjct: 397 ----------DANSGESR--------PEKIQENVRNAIGGKFPLYNLGFG---------- 428

Query: 339 IADASGGTFSFIETLSILQDAFARCI 364
               +   ++F+E+L++  D FAR I
Sbjct: 429 ----NNLNYNFLESLALENDGFARRI 450

May act as a carrier of hyaluronan in serum or as a binding protein between hyaluronan and other matrix protein, including those on cell surfaces in tissues to regulate the localization, synthesis and degradation of hyaluronan which are essential to cells undergoing biological processes.

Oryctolagus cuniculus (taxid: 9986)

>sp|P97280|ITIH3_MESAU Inter-alpha-trypsin inhibitor heavy chain H3 OS=Mesocricetus auratus GN=ITIH3 PE=1 SV=1

 Score = 59.3 bits (142), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 55/206 (26%), Positives = 98/206 (47%), Gaps = 43/206 (20%)

Query: 166 APIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSS-VARRIFPLQRMT 223
            P ++V V+D+SGSM+  K+   + A+  I+ ++   D L+ ++FS+ V      L + T
Sbjct: 278 VPKNIVFVIDISGSMAGRKIQQTRVALLKILDDMKQDDYLNFILFSTGVTTWKDSLVQAT 337

Query: 224 DSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPV-----ASIILLSDGQDTH 278
            +  E A   + ++S  G TNI +GL +G R+L + RE+  V     + II+L+DG    
Sbjct: 338 PANLEEARTFVRSISDQGMTNINDGLLRGIRMLTDAREQHTVPERSTSIIIMLTDG---- 393

Query: 279 NVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHA 338
                     +A++  S         P  I  + R+A +  FP++  GFG          
Sbjct: 394 ----------DANTGESR--------PEKIQENVRKAIEGRFPLYNLGFG---------- 425

Query: 339 IADASGGTFSFIETLSILQDAFARCI 364
               +   ++F+ET+++     AR I
Sbjct: 426 ----NNLNYNFLETMALENHGVARRI 447

May act as a carrier of hyaluronan in serum or as a binding protein between hyaluronan and other matrix protein, including those on cell surfaces in tissues to regulate the localization, synthesis and degradation of hyaluronan which are essential to cells undergoing biological processes.

Mesocricetus auratus (taxid: 10036)

>sp|P54281|ECLC_BOVIN Epithelial chloride channel protein OS=Bos taurus PE=2 SV=1

 Score = 57.8 bits (138), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 40/107 (37%), Positives = 59/107 (55%), Gaps = 3/107 (2%)

Query: 173 VLDVSGSMSSKLPLLKR---AVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGREN 229
           VLD SGSMSS+  L +    A  F+IQ +     + +V F SVA     L ++TD     
Sbjct: 312 VLDKSGSMSSEDRLFRMNQAAELFLIQIIEKGSLVGMVTFDSVAEIRNNLTKITDDNVYE 371

Query: 230 AIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQD 276
            I A     +NGGT+I  GLK G + + + ++ +  + IILL+DG+D
Sbjct: 372 NITANLPQEANGGTSICRGLKAGFQAIIQSQQSTSGSEIILLTDGED 418

Voltage-gated chloride channel. Chloride channels have several functions including the regulation of cell volume; membrane potential stabilization, signal transduction and transepithelial transport.

Bos taurus (taxid: 9913)

>sp|Q5RB37|ITIH3_PONAB Inter-alpha-trypsin inhibitor heavy chain H3 OS=Pongo abelii GN=ITIH3 PE=2 SV=1

 Score = 53.5 bits (127), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 53/206 (25%), Positives = 89/206 (43%), Gaps = 43/206 (20%)

Query: 166 APIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFS-SVARRIFPLQRMT 223
            P ++  V+D+SGSM+  KL   K A+  I++++   D L+ ++FS  V+     L + T
Sbjct: 278 VPKNVAFVIDISGSMAGRKLEQTKEALLRILEDMKKEDYLNFILFSGDVSTWKEHLVQAT 337

Query: 224 DSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRE--RSPVAS---IILLSDGQDTH 278
               + A   + ++   G TNI +GL +G  +L + RE  R P  S   +I+L+DG    
Sbjct: 338 PENLQEARTFVKSMEDKGMTNINDGLLRGISMLNKAREEHRVPERSTSIVIMLTDGDANV 397

Query: 279 NVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHA 338
              R                      P  I  + R A    FP++  GFG          
Sbjct: 398 GESR----------------------PEKIQENVRNAIGGKFPLYNLGFG---------- 425

Query: 339 IADASGGTFSFIETLSILQDAFARCI 364
               +   ++F+E +++    FAR I
Sbjct: 426 ----NNLNYNFLENMALENHGFARRI 447

May act as a carrier of hyaluronan in serum or as a binding protein between hyaluronan and other matrix protein, including those on cell surfaces in tissues to regulate the localization, synthesis and degradation of hyaluronan which are essential to cells undergoing biological processes.

Pongo abelii (taxid: 9601)

>sp|Q61704|ITIH3_MOUSE Inter-alpha-trypsin inhibitor heavy chain H3 OS=Mus musculus GN=Itih3 PE=1 SV=3

 Score = 53.1 bits (126), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 55/206 (26%), Positives = 91/206 (44%), Gaps = 43/206 (20%)

Query: 166 APIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSS-VARRIFPLQRMT 223
            P ++V V+DVSGSMS  K+   + A+  I+ ++   D L+ ++FS+ V      L + T
Sbjct: 281 VPKNIVFVIDVSGSMSGRKIQQTREALLKILDDVKEDDYLNFILFSTDVTTWKDHLVQAT 340

Query: 224 DSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPV-----ASIILLSDGQDTH 278
            +  + A   +  +     TNI +GL KG  +L + RE   V     + II+L+DG    
Sbjct: 341 PANLKEAKTFVKNIHDQSMTNINDGLLKGIEMLNKAREDHTVPERSTSIIIMLTDG---- 396

Query: 279 NVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHA 338
                     +A++  S         P  I  + R A    FP++  GFG          
Sbjct: 397 ----------DANTGESR--------PEKIQENVRNAIGGKFPLYNLGFG---------- 428

Query: 339 IADASGGTFSFIETLSILQDAFARCI 364
               +   ++F+ETL++     AR I
Sbjct: 429 ----NNLNYNFLETLALENHGLARRI 450

May act as a carrier of hyaluronan in serum or as a binding protein between hyaluronan and other matrix protein, including those on cell surfaces in tissues to regulate the localization, synthesis and degradation of hyaluronan which are essential to cells undergoing biological processes.

Mus musculus (taxid: 10090)

>sp|Q06033|ITIH3_HUMAN Inter-alpha-trypsin inhibitor heavy chain H3 OS=Homo sapiens GN=ITIH3 PE=1 SV=2

 Score = 53.1 bits (126), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 53/206 (25%), Positives = 89/206 (43%), Gaps = 43/206 (20%)

Query: 166 APIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFS-SVARRIFPLQRMT 223
            P ++  V+D+SGSM+  KL   K A+  I++++   D L+ ++FS  V+     L + T
Sbjct: 281 VPKNVAFVIDISGSMAGRKLEQTKEALLRILEDMQEEDYLNFILFSGDVSTWKEHLVQAT 340

Query: 224 DSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRE--RSPVAS---IILLSDGQDTH 278
               + A   + ++   G TNI +GL +G  +L + RE  R P  S   +I+L+DG    
Sbjct: 341 PENLQEARTFVKSMEDKGMTNINDGLLRGISMLNKAREEHRIPERSTSIVIMLTDGDANV 400

Query: 279 NVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHA 338
              R                      P  I  + R A    FP++  GFG          
Sbjct: 401 GESR----------------------PEKIQENVRNAIGGKFPLYNLGFG---------- 428

Query: 339 IADASGGTFSFIETLSILQDAFARCI 364
               +   ++F+E +++    FAR I
Sbjct: 429 ----NNLNYNFLENMALENHGFARRI 450

May act as a carrier of hyaluronan in serum or as a binding protein between hyaluronan and other matrix protein, including those on cell surfaces in tissues to regulate the localization, synthesis and degradation of hyaluronan which are essential to cells undergoing biological processes.

Homo sapiens (taxid: 9606)

>sp|Q6Q473|CLCA4_MOUSE Calcium-activated chloride channel regulator 4 OS=Mus musculus GN=Clca4 PE=1 SV=2

 Score = 52.8 bits (125), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 42/135 (31%), Positives = 70/135 (51%), Gaps = 14/135 (10%)

Query: 146 PKFAVLLRVCAPSLPNDADRAPIDLVTVLDVSGSMSS--KLPLLKRAV-HFIIQNLGSAD 202
           P F  LLR+        ++R    +  VLDVSGSM+S  +L  + +A  +F+ Q + +  
Sbjct: 295 PPFFSLLRI--------SERI---MCLVLDVSGSMTSYDRLNRMNQAAKYFLSQIIENRS 343

Query: 203 RLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRER 262
            + +V FSS A  +  L ++      N +      S+NGGT+I  G+K   +V +    +
Sbjct: 344 WVGMVHFSSQATIVHELIQINSDIERNQLLQTLPTSANGGTSICSGIKAAFQVFKNGEYQ 403

Query: 263 SPVASIILLSDGQDT 277
           +    I+LLSDG+D+
Sbjct: 404 TDGTEILLLSDGEDS 418

May be involved in mediating calcium-activated chloride conductance.

Mus musculus (taxid: 10090)

>sp|Q0VCM5|ITIH1_BOVIN Inter-alpha-trypsin inhibitor heavy chain H1 OS=Bos taurus GN=ITIH1 PE=2 SV=1

 Score = 51.6 bits (122), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 46/193 (23%), Positives = 85/193 (44%), Gaps = 29/193 (15%)

Query: 160 PNDADRAPIDLVTVLDVSGSM-SSKLPLLKRAVHFIIQNLGSADRLSIVIF-SSVARRIF 217
           P +  +   ++V V+D+S SM   KL   K A+H I+ ++   D   +V+F S+V     
Sbjct: 278 PQNLKKLNKNVVFVIDISSSMEGQKLKQTKEALHKILGDMRPGDYFDLVLFGSAVQSWKG 337

Query: 218 PLQRMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVAS-----IILLS 272
            L + + +  E A   +   S  G TN+  GL +G  +L + ++  P  S     +I+L+
Sbjct: 338 SLVQASPANLEAARNFVQQFSLAGATNLNGGLLRGIEILNKAQQSLPELSNHASILIMLT 397

Query: 273 DGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHD 332
           DG+ T  V+                        + I  + R+  +  FP++  GFG + D
Sbjct: 398 DGEPTEGVMDR----------------------TQILKNVRDGIKGRFPLYNLGFGHDVD 435

Query: 333 SEAMHAIADASGG 345
              +  ++  + G
Sbjct: 436 LNFLEVMSLENNG 448

May act as a carrier of hyaluronan in serum or as a binding protein between hyaluronan and other matrix protein, including those on cell surfaces in tissues to regulate the localization, synthesis and degradation of hyaluronan which are essential to cells undergoing biological processes.

Bos taurus (taxid: 9913)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	634
147776143	686	hypothetical protein VITISV_014218 [Viti	0.992	0.916	0.636	0.0
359495321	722	PREDICTED: uncharacterized protein LOC10	0.992	0.871	0.633	0.0
224072363	587	predicted protein [Populus trichocarpa]	0.911	0.984	0.582	0.0
224057976	595	predicted protein [Populus trichocarpa]	0.927	0.988	0.589	0.0
302143246	630	unnamed protein product [Vitis vinifera]	0.810	0.815	0.574	0.0
255587116	728	protein binding protein, putative [Ricin	0.943	0.821	0.453	1e-151
225449026	710	PREDICTED: uncharacterized protein LOC10	0.921	0.822	0.449	1e-150
147815707	715	hypothetical protein VITISV_016246 [Viti	0.922	0.818	0.450	1e-149
224113057	714	predicted protein [Populus trichocarpa]	0.919	0.816	0.453	1e-149
224097862	713	predicted protein [Populus trichocarpa]	0.927	0.824	0.452	1e-148

>gi|147776143|emb|CAN69721.1| hypothetical protein VITISV_014218 [Vitis vinifera]

 Score =  788 bits (2035), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 417/655 (63%), Positives = 503/655 (76%), Gaps = 26/655 (3%)

Query: 1   KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGS 60
           KTC ICLG+L+ GQG AIFTAECSHSFHF CIA++V+HGN++CPICR +W+DVPFQAP +
Sbjct: 28  KTCAICLGNLKTGQGQAIFTAECSHSFHFNCIASSVRHGNQLCPICRSKWRDVPFQAPAN 87

Query: 61  VIDARRNNMARARVSPFNAAPEDASAPGARRNVPTTFQLPAEPEQFTDDEQLSVNSIGPA 120
           + D + N M +ARVSPF+  PED      R   P + Q P EP  F+DDE L VNS    
Sbjct: 88  IGDPQCNGMGQARVSPFHPPPEDFHGQTPRNLQPXSPQSP-EPRHFSDDEPLVVNSAEST 146

Query: 121 SP------SRAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAPSLPNDA---DRAPIDLV 171
            P      SR Q + VKA PE+ A++A+E    FAVL+ + AP+L +DA   DRAPIDLV
Sbjct: 147 DPTSLVSLSRPQLVTVKALPEWPAISASESFRTFAVLVGIKAPALLDDAHLLDRAPIDLV 206

Query: 172 TVLDVSGSMS-SKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENA 230
            VLDVSGSM+ SKL LLKRAV F+IQNLG +DRLSIV FSS ARRIFPL+RM+D+GRE A
Sbjct: 207 AVLDVSGSMAGSKLSLLKRAVCFLIQNLGPSDRLSIVSFSSTARRIFPLRRMSDNGREAA 266

Query: 231 IRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNV--LRNSYTQD 288
             AIN+L S+GGTNIVEGLKKG RVLEER E++PVASIILLSDG+DT+N   +    T  
Sbjct: 267 GLAINSLXSSGGTNIVEGLKKGVRVLEERSEQNPVASIILLSDGKDTYNCDNVNRRQTSH 326

Query: 289 EASSIPSNELAYLNLLPSSICLSKREAG----QPTFPVHTFGFGLEHDSEAMHAIADASG 344
            ASS P   L YLNLLP+SIC   RE+G    Q   PVHTFGFG +HDS AMHAI+D SG
Sbjct: 327 CASSNPRQVLEYLNLLPASICPRNRESGDEGRQAIIPVHTFGFGSDHDSTAMHAISDESG 386

Query: 345 GTFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEG 404
           GTFSFIE+++ +QDAFA CIGGLLSVV+Q+++LT++S S GV I SIPSG+Y SE+ D+G
Sbjct: 387 GTFSFIESVAXVQDAFAMCIGGLLSVVAQELRLTVKSVSPGVHIESIPSGKYLSEICDQG 446

Query: 405 QQAVIDIGNLYADEEKEFMVYLSIP-VSSAEGEQRPECTALLDVFCTHKDSASMEIHQVE 463
           QQ VID+G+LYA+E KEF++YL++P +SSAEGE+R + T LLDV C++KDS S E+ QVE
Sbjct: 447 QQGVIDVGDLYAEEGKEFLIYLTVPELSSAEGEERVKRTTLLDVMCSYKDSVSKEVVQVE 506

Query: 464 GEKVEIRRPEVLSTADKKVNLQVDRQRSRLLVAETIADAQRMAEVGDLESAQALLAERRS 523
            E+VEIRRPEVLS  D  V L+VDRQR+RL VAE IA+AQRMAE G+LE A+A+LA RRS
Sbjct: 507 CERVEIRRPEVLSPMDMIVCLEVDRQRNRLWVAEGIAEAQRMAETGNLEGAKAVLAHRRS 566

Query: 524 GLLSSAAAQAGDVLCNWLEAELREIRERMASMDLYERTGRAYLLSGLSSHSWQRATTRGD 583
            LLSSA+AQAGD LCNWLE+ELREIR+RMASM+LYE+TGRAY+LSGLSSHSWQRATTRGD
Sbjct: 567 TLLSSASAQAGDGLCNWLESELREIRQRMASMELYEQTGRAYVLSGLSSHSWQRATTRGD 626

Query: 584 -TTQILATN---GDRGHSGSIDSTRSYETPWMTTMVTRSQTLNFTSGEQQSQANK 634
            TTQI   +   GD   SG I     YETP M +MVT+SQTLN T  +Q  + NK
Sbjct: 627 STTQITLLSRECGDSSTSGVI----GYETPSMVSMVTKSQTLNLTPAQQSRRLNK 677

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495321|ref|XP_002271188.2| PREDICTED: uncharacterized protein LOC100266793 [Vitis vinifera]

 Score =  784 bits (2025), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 415/655 (63%), Positives = 502/655 (76%), Gaps = 26/655 (3%)

Query: 1   KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGS 60
           KTC ICLG+L+ GQG AIFTAECSHSFHF CIA++V+HGN++CPICR +W+DVPFQAP +
Sbjct: 64  KTCAICLGNLKTGQGQAIFTAECSHSFHFNCIASSVRHGNQLCPICRSKWRDVPFQAPAN 123

Query: 61  VIDARRNNMARARVSPFNAAPEDASAPGARRNVPTTFQLPAEPEQFTDDEQLSVNSIGPA 120
           + D + N M +ARVSP++  PED          P + Q P EP  F+DDE L VNS    
Sbjct: 124 IGDPQCNGMGQARVSPYHPPPEDFHGQTPCNLQPQSPQSP-EPRHFSDDEPLVVNSAEST 182

Query: 121 SP------SRAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAPSLPNDA---DRAPIDLV 171
            P      SR Q + VKA PE  A++A+E    FAVL+ + AP+L +DA   DRAPIDLV
Sbjct: 183 DPTSLVSLSRPQLVTVKALPELPAISASESFRTFAVLVGIKAPALLDDAHLLDRAPIDLV 242

Query: 172 TVLDVSGSMS-SKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENA 230
            VLDVSGSM+ SKL LLKRAV F+IQNLG +DRLSIV FSS ARRIFPL+RM+D+GRE A
Sbjct: 243 AVLDVSGSMAGSKLSLLKRAVCFLIQNLGPSDRLSIVSFSSTARRIFPLRRMSDNGREAA 302

Query: 231 IRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNV--LRNSYTQD 288
             AIN+L+S+GGTNIVEGLKKG RVLEER E++PVASIILLSDG+DT+N   +    T  
Sbjct: 303 GLAINSLTSSGGTNIVEGLKKGVRVLEERSEQNPVASIILLSDGKDTYNCDNVNRRQTSH 362

Query: 289 EASSIPSNELAYLNLLPSSICLSKREAG----QPTFPVHTFGFGLEHDSEAMHAIADASG 344
            ASS P   L YLNLLP+SIC   RE+G    Q   PVHTFGFG +HDS AMHAI+D SG
Sbjct: 363 CASSNPRQVLEYLNLLPASICPRNRESGDEGRQAIIPVHTFGFGSDHDSTAMHAISDESG 422

Query: 345 GTFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEG 404
           GTFSFIE+++ +QDAFA CIGGLLSVV+Q+++LT++S S GV I SIPSG+Y SE+ D+G
Sbjct: 423 GTFSFIESVATVQDAFAMCIGGLLSVVAQELRLTVKSVSPGVHIESIPSGKYLSEICDQG 482

Query: 405 QQAVIDIGNLYADEEKEFMVYLSIP-VSSAEGEQRPECTALLDVFCTHKDSASMEIHQVE 463
           QQ VID+G+LYA+E KEF++YL++P +SSAEGE+R + T LLDV C++KDS S E+ QVE
Sbjct: 483 QQGVIDVGDLYAEEGKEFLIYLTVPELSSAEGEERVKRTTLLDVMCSYKDSVSKEVVQVE 542

Query: 464 GEKVEIRRPEVLSTADKKVNLQVDRQRSRLLVAETIADAQRMAEVGDLESAQALLAERRS 523
            E+VEIRRPEVLS  D  V L+VDRQR+RL VAE IA+AQRMAE G+LE A+A+LA RRS
Sbjct: 543 CERVEIRRPEVLSPMDMIVCLEVDRQRNRLWVAEGIAEAQRMAETGNLEGAKAVLAHRRS 602

Query: 524 GLLSSAAAQAGDVLCNWLEAELREIRERMASMDLYERTGRAYLLSGLSSHSWQRATTRGD 583
            LLSSA+AQAGD LCNWLE+ELREIR+RMASM+LYE+TGRAY+LSGLSSHSWQRATTRGD
Sbjct: 603 TLLSSASAQAGDGLCNWLESELREIRQRMASMELYEQTGRAYVLSGLSSHSWQRATTRGD 662

Query: 584 -TTQILATN---GDRGHSGSIDSTRSYETPWMTTMVTRSQTLNFTSGEQQSQANK 634
            TTQI   +   GD   SG I     YETP M +MVT+SQTLN T  +Q  + NK
Sbjct: 663 STTQITLLSRECGDSSTSGVI----GYETPSMVSMVTKSQTLNLTPAQQSRRLNK 713

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224072363|ref|XP_002303700.1| predicted protein [Populus trichocarpa] gi|222841132|gb|EEE78679.1| predicted protein [Populus trichocarpa]

 Score =  698 bits (1802), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 367/630 (58%), Positives = 456/630 (72%), Gaps = 52/630 (8%)

Query: 1   KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGS 60
           K C ICL SLR+GQG AIF AECSH FHF CIA N +HGN  CPICR +WKDVPFQAP +
Sbjct: 3   KKCAICLRSLRKGQGQAIFYAECSHPFHFNCIADNTKHGNLKCPICRSKWKDVPFQAPRN 62

Query: 61  VIDARRNNMARARVSPFNAAPEDASAPGARRNVPTTFQLPAEPEQFTDDEQLSVNSIGPA 120
             + +R     A VSP+N  P                 +  E E F+DDE LS  S   +
Sbjct: 63  APNFQRAGSLHAHVSPYNVPP-----------------VQIEAEHFSDDEVLSDVSPDQS 105

Query: 121 SPSRAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAP----SLPNDADRAPIDLVTVLDV 176
             SR  A+ VK F E+ AV+A+E    F VL+R+ AP    +LP+   RAPID+VTVLDV
Sbjct: 106 LSSRPHAITVKTFTEYPAVSASESFSNFGVLVRILAPPLDNTLPHHRARAPIDVVTVLDV 165

Query: 177 SGSMSSKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINT 236
           SGSM+SKL LLKRAV+FIIQNLG +DRLSIV FSS ARR+ PL+RM+ SGRE+A   +++
Sbjct: 166 SGSMASKLILLKRAVNFIIQNLGPSDRLSIVTFSSSARRMLPLRRMSGSGREDATSVVDS 225

Query: 237 LSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDT--HNVLRNSYTQDEASSIP 294
           +S+ GGTNIV GLKKG +VLEERR+ + VA+IILLSDG DT  HN               
Sbjct: 226 ISAIGGTNIVAGLKKGVQVLEERRQHNSVATIILLSDGCDTQSHNA-------------- 271

Query: 295 SNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLS 354
            N L YL          K E+ QPTFPV+TFGFG +HDS AMHAI+DAS GTFSFIE+++
Sbjct: 272 QNRLDYL----------KEESKQPTFPVYTFGFGSDHDSAAMHAISDASRGTFSFIESIN 321

Query: 355 ILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNL 414
           ILQDAFARCIGGL+S+V++DV+L +RS S GV+I S PSGR+ +++ D+G QAVIDIG+L
Sbjct: 322 ILQDAFARCIGGLISIVARDVQLKVRSASPGVQILSTPSGRHKNKIFDQGHQAVIDIGDL 381

Query: 415 YADEEKEFMVYLSIPVSSA-EGEQRPECTALLDVFCTHKDSASMEIHQVEGEKVEIRRPE 473
           YA+EEKEF+V+LSIPVSSA +GE+R E T+L++V C HK S S++  QVEGE+VEIRRP 
Sbjct: 382 YAEEEKEFLVFLSIPVSSAVDGEERLENTSLVEVSCFHKGSVSVDTVQVEGERVEIRRPP 441

Query: 474 VLSTADKKVNLQVDRQRSRLLVAETIADAQRMAEVGDLESAQALLAERRSGLLSSAAAQA 533
            LS  D+ + L+VDRQR+RLLV ETIA  QRMAE+GDL+ AQALLA++ S LL++A++QA
Sbjct: 442 TLSPIDRVLCLEVDRQRNRLLVTETIAKTQRMAEMGDLKGAQALLAKQLSTLLTTASSQA 501

Query: 534 GDVLCNWLEAELREIRERMASMDLYERTGRAYLLSGLSSHSWQRATTRGDTTQILATNGD 593
           GD LCN LEAEL+E RERM + +LYER+GRAY+LSG+SSHSWQRA TRG +T IL+  G+
Sbjct: 502 GDDLCNQLEAELKETRERMETRELYERSGRAYVLSGMSSHSWQRAATRGHSTTILSQGGN 561

Query: 594 RGHSGSIDSTRSYETPWMTTMVTRSQTLNF 623
              S     T SYETP MT+MV +SQ LN 
Sbjct: 562 SDTS----FTTSYETPSMTSMVLKSQILNL 587

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224057976|ref|XP_002299418.1| predicted protein [Populus trichocarpa] gi|222846676|gb|EEE84223.1| predicted protein [Populus trichocarpa]

 Score =  690 bits (1781), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 369/626 (58%), Positives = 450/626 (71%), Gaps = 38/626 (6%)

Query: 1   KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGS 60
           K C ICL SL++GQG AIF AECSH FHF CIA NV+HGN  CP+CR +WKDVPFQAP +
Sbjct: 5   KKCAICLTSLKKGQGQAIFYAECSHPFHFNCIADNVKHGNLRCPVCRSKWKDVPFQAPKN 64

Query: 61  VIDARRNNMARARVSPFNAAPEDASAPGARRNVPTTFQLPAEPEQFTDDEQLSVNSIGPA 120
           V   +R+    A V   NA+P                 +  EP+ F+DDE +   S G  
Sbjct: 65  VPSFQRSGSLHAYVP--NASP-----------------VHIEPDHFSDDELVPDVSQGQP 105

Query: 121 SPSRAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAPSLPND--ADRAPIDLVTVLDVSG 178
           S SR  A+ VK  PE+ AV+A+E   KF VL+RV AP L N     RAPID+V VLDVSG
Sbjct: 106 SSSRPHAITVKTLPEYPAVSASESFSKFGVLVRVLAPPLDNTLPHHRAPIDIVNVLDVSG 165

Query: 179 SMSSKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLS 238
           SM+ KL LLKRAV+FIIQNLG +DRLSIV FSS ARRI PL+ M+ SGRE+AI  +N+LS
Sbjct: 166 SMAGKLILLKRAVNFIIQNLGPSDRLSIVTFSSSARRILPLRTMSGSGREDAISVVNSLS 225

Query: 239 SNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNEL 298
           + GGTNIV GL+KG RVLEERR+ + VASIILLSDG DT             S    N L
Sbjct: 226 ATGGTNIVAGLRKGVRVLEERRQHNSVASIILLSDGCDTQ------------SHSTHNRL 273

Query: 299 AYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQD 358
            YL L+  S   S  E+ QPTFP+HTFGFGL+HDS AMHAI+D SGGTFSFIE++ ILQD
Sbjct: 274 EYLKLIFPSNNASGEESRQPTFPIHTFGFGLDHDSAAMHAISDVSGGTFSFIESIDILQD 333

Query: 359 AFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADE 418
           AFARCIGGL S+V++DV+L +RS S GV+I S PSGR+ +++ D+G QA IDIG+LYA+E
Sbjct: 334 AFARCIGGLTSIVARDVQLKVRSASPGVQILSTPSGRHKNKIFDQGHQATIDIGDLYAEE 393

Query: 419 EKEFMVYLSIPVSSA-EGEQRPECTALLDVFCTHKDSASMEIHQVEGEKVEIRRPEVLST 477
           EKEF+V+LSIPV  A +GE+  E   L+DV    KDS S +  +VEGE+VEIRRP+ LS+
Sbjct: 394 EKEFLVFLSIPVFPAVDGEEMLENMPLVDVSGFQKDSVSTDTVEVEGERVEIRRPQFLSS 453

Query: 478 ADKKVNLQVDRQRSRLLVAETIADAQRMAEVGDLESAQALLAERRSGLLSSAAAQAGDVL 537
            D    L+VDRQR+RLLV ETIA  QRMAE+GDL+ AQALLAE+ S LLS+A+AQAGD L
Sbjct: 454 TDWVPCLEVDRQRNRLLVTETIAKTQRMAEMGDLKGAQALLAEQLSTLLSTASAQAGDDL 513

Query: 538 CNWLEAELREIRERMASMDLYERTGRAYLLSGLSSHSWQRATTRGDTTQILATNGDRGHS 597
           CN LEAEL+E R+RM + +LYER+GRAY+LSG+SSHSWQRA TRG +  I  ++G  G+S
Sbjct: 514 CNQLEAELKETRKRMETRELYERSGRAYVLSGMSSHSWQRAATRGPSMPI--SSG--GNS 569

Query: 598 GSIDSTRSYETPWMTTMVTRSQTLNF 623
               +T SYETP MTTMVT+SQ LN 
Sbjct: 570 DMRRTTTSYETPSMTTMVTKSQNLNL 595

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143246|emb|CBI20541.3| unnamed protein product [Vitis vinifera]

 Score =  643 bits (1658), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 349/607 (57%), Positives = 425/607 (70%), Gaps = 93/607 (15%)

Query: 1   KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGS 60
           KTC ICLG+L+ GQG AIFTAECSHSFHF CIA++V+HGN++CPICR +W+DVPFQAP +
Sbjct: 64  KTCAICLGNLKTGQGQAIFTAECSHSFHFNCIASSVRHGNQLCPICRSKWRDVPFQAPAN 123

Query: 61  VIDARRNNMARARVSPFNAAPEDASAPGARRNVPTTFQLPAEPEQFTDDEQLSVNSIGPA 120
           + D + N M +A                                    DE L VNS    
Sbjct: 124 IGDPQCNGMGQAH-----------------------------------DEPLVVNSAEST 148

Query: 121 SP------SRAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAPSLPNDA---DRAPIDLV 171
            P      SR Q + VKA PE  A++A+E    FAVL+ + AP+L +DA   DRAPIDLV
Sbjct: 149 DPTSLVSLSRPQLVTVKALPELPAISASESFRTFAVLVGIKAPALLDDAHLLDRAPIDLV 208

Query: 172 TVLDVSGSMS-SKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENA 230
            VLDVSGSM+ SKL LLKRAV F+IQNLG +DRLSIV FSS ARRIFPL+RM+D+GRE A
Sbjct: 209 AVLDVSGSMAGSKLSLLKRAVCFLIQNLGPSDRLSIVSFSSTARRIFPLRRMSDNGREAA 268

Query: 231 IRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNV--LRNSYTQD 288
             AIN+L+S+GGTNIVEGLKKG RVLEER E++PVASIILLSDG+DT+N   +    T  
Sbjct: 269 GLAINSLTSSGGTNIVEGLKKGVRVLEERSEQNPVASIILLSDGKDTYNCDNVNRRQTSH 328

Query: 289 EASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFS 348
            ASS P                  R+  Q   PVHTFGFG +HDS AMHAI+D SGGTFS
Sbjct: 329 CASSNP------------------RQGRQAIIPVHTFGFGSDHDSTAMHAISDESGGTFS 370

Query: 349 FIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAV 408
           FIE+++ +QDAFA CIGGLLSVV+Q+++LT++S S GV I SIPSG+Y SE+ D+GQQ V
Sbjct: 371 FIESVATVQDAFAMCIGGLLSVVAQELRLTVKSVSPGVHIESIPSGKYLSEICDQGQQGV 430

Query: 409 IDIGNLYADEEKEFMVYLSIP-VSSAEGEQRPECTALLDVFCTHKDSASMEIHQVEGEKV 467
           ID+G+LYA+E KEF++YL++P +SSAEGE+R + T LLDV C++KDS S E         
Sbjct: 431 IDVGDLYAEEGKEFLIYLTVPELSSAEGEERVKRTTLLDVMCSYKDSVSKE--------- 481

Query: 468 EIRRPEVLSTADKKVNLQVDRQRSRLLVAETIADAQRMAEVGDLESAQALLAERRSGLLS 527
                             VDRQR+RL VAE IA+AQRMAE G+LE A+A+LA RRS LLS
Sbjct: 482 ------------------VDRQRNRLWVAEGIAEAQRMAETGNLEGAKAVLAHRRSTLLS 523

Query: 528 SAAAQAGDVLCNWLEAELREIRERMASMDLYERTGRAYLLSGLSSHSWQRATTRGDTTQI 587
           SA+AQAGD LCNWLE+ELREIR+RMASM+LYE+TGRAY+LSGLSSHSWQRATTRGD+T  
Sbjct: 524 SASAQAGDGLCNWLESELREIRQRMASMELYEQTGRAYVLSGLSSHSWQRATTRGDSTTQ 583

Query: 588 LATNGDR 594
           +   G R
Sbjct: 584 ITLMGLR 590

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255587116|ref|XP_002534143.1| protein binding protein, putative [Ricinus communis] gi|223525789|gb|EEF28236.1| protein binding protein, putative [Ricinus communis]

 Score =  540 bits (1391), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 300/661 (45%), Positives = 427/661 (64%), Gaps = 63/661 (9%)

Query: 1   KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGS 60
           +TC ICL  +++G G AIFTAECSHSFHF CIA+NV+HGN+ICP+CR +WK++P QAP  
Sbjct: 74  QTCSICLTKMKQGGGHAIFTAECSHSFHFHCIASNVKHGNQICPVCRAKWKEIPSQAPSL 133

Query: 61  VIDARRN--------NMARARVSPFNAAPEDASAPGARRNVPTTFQLPAEPEQFTDDEQL 112
               R +        N A   V      P        R  VP      +EP  F DDE L
Sbjct: 134 DPPGRASINAVGWPQNDALMTVIRRFPPPPPRRELNRRPTVP--LLQASEPSIFDDDESL 191

Query: 113 SVN------SIGPASPSR--AQALAVKAFPEFGAVAAAECPPKFAVLLRVCAP------- 157
            +       S G  +P     +++ +K +PE  + + +     F VL+ + AP       
Sbjct: 192 DLQPAFSDRSSGNKTPDHNSQKSIEIKTYPEVPSASRSCAYDNFTVLVHLKAPATVTMQN 251

Query: 158 ------SLP--NDADRAPIDLVTVLDVSGSMS-SKLPLLKRAVHFIIQNLGSADRLSIVI 208
                 SLP  + + RAP+DLVTVLD+SGSM+ +KL LLKRA+ F+IQNLGS DRLS++ 
Sbjct: 252 PRINQASLPQLSQSPRAPVDLVTVLDISGSMAGTKLALLKRAMGFVIQNLGSNDRLSVIA 311

Query: 209 FSSVARRIFPLQRMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASI 268
           FSS ARR+FPL+RM+D+GR+ A++A+N+L ++GGTNI EGL+KGA+V+E+RRE++PVASI
Sbjct: 312 FSSTARRLFPLRRMSDTGRQQALQAVNSLVAHGGTNIAEGLRKGAKVMEDRREKNPVASI 371

Query: 269 ILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFG 328
           ILLSDGQDT+ V  +   Q + +        Y  LLP SI        Q   PVH FGFG
Sbjct: 372 ILLSDGQDTYTVSSSGANQPQPN--------YHLLLPLSIHGGDTSGFQ--IPVHAFGFG 421

Query: 329 LEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRI 388
            +HD+ +MH+I++ SGGTFSFIET +++QDAFA+CIGGLLSVV Q++++ +      + +
Sbjct: 422 ADHDASSMHSISEVSGGTFSFIETEAVIQDAFAQCIGGLLSVVVQELQVGVECVHPSIHL 481

Query: 389 GSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRPECTALLDVF 448
           GS+ +G Y S V+D+ +  ++D+G+LYADEE++F+V +++PV S+E +     T+LL V 
Sbjct: 482 GSLKAGSYPSRVMDDTRSGLVDVGDLYADEERDFLVSVNVPVESSENQ-----TSLLKVR 536

Query: 449 CTHKDSASMEIHQVEGEKVEIRRPEVLSTADKKVNLQVDRQRSRLLVAETIADAQRMAEV 508
           C +KD  + E+  +E E+V ++RPE+  +    V+++VDRQR+RL  AE+++ A+  AE 
Sbjct: 537 CVYKDPLTKEMTTLESEEVVLKRPEI--SGGAAVSIEVDRQRNRLQAAESMSQARSAAER 594

Query: 509 GDLESAQALLAERRSGLLSSAAAQAGDVLCNWLEAELREIRERMASMDLYERTGRAYLLS 568
           GDL  A ++L   R  L  + +A++ D LC  L+AEL+E++ERMAS  +YE +GRAY+LS
Sbjct: 595 GDLAGAVSILENCRRVLSETVSAKSHDRLCLALDAELKEMQERMASRHVYEASGRAYILS 654

Query: 569 GLSSHSWQRATTRGDTTQILATNGDRGHSGSIDSTRSYETPWMTTMVTRSQTLNFTSGEQ 628
           GLSSHSWQRAT RGD+T            GS    ++Y+TP MT M+TRSQ +   S   
Sbjct: 655 GLSSHSWQRATARGDSTD-----------GS-SLVQAYQTPSMTEMLTRSQAMLLGSPSA 702

Query: 629 Q 629
           Q
Sbjct: 703 Q 703

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225449026|ref|XP_002273050.1| PREDICTED: uncharacterized protein LOC100253096 [Vitis vinifera]

 Score =  536 bits (1382), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 293/652 (44%), Positives = 414/652 (63%), Gaps = 68/652 (10%)

Query: 2   TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGSV 61
           TC ICL S++RG G AIFTAECSHSFHF CI +NV+HG++ICP+CR +WK++PF+ P   
Sbjct: 67  TCAICLTSMKRGHGQAIFTAECSHSFHFHCITSNVKHGSQICPVCRAKWKEIPFEGPNLD 126

Query: 62  IDARRNNMARARVSPFNAAPEDASAPGARRNVP---------TTFQLPAEPEQFTDDEQL 112
              RR     AR++P +    +      RR  P               +EP  F DDE L
Sbjct: 127 PPPRR-----ARINPVDWHQNNDLMTIIRRLPPPRLDSNRNIMALHQASEPGVFNDDESL 181

Query: 113 SVNSI---------GPASPSRAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAP------ 157
               +           A  +  + + +K +PE  A   ++    F VL+ + A       
Sbjct: 182 DHQPVPAERNSSNGNAAENNPVRTVEIKTYPEVSAAPRSKSYDNFTVLVHLKAAVANTGQ 241

Query: 158 ---------SLPNDADRAPIDLVTVLDVSGSMS-SKLPLLKRAVHFIIQNLGSADRLSIV 207
                     L +   RAP+DLVTVLD+SGSM+ +KL LLKRA+ F+IQNLGS+DRLS++
Sbjct: 242 NIQRNMSNSPLNSHNPRAPVDLVTVLDISGSMAGTKLALLKRAMGFVIQNLGSSDRLSVI 301

Query: 208 IFSSVARRIFPLQRMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVAS 267
            FSS ARR+FPL+RMTD+GR+ A++A+N+L +NGGTNI EGL+KGA+V+E+R+ER+PV+S
Sbjct: 302 AFSSTARRLFPLRRMTDAGRQQALQAVNSLVANGGTNIAEGLRKGAKVMEDRKERNPVSS 361

Query: 268 IILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGF 327
           IILLSDGQDT+ V  +S  Q + +        Y  LLP S+  S+    Q   PVH+FGF
Sbjct: 362 IILLSDGQDTYTVNGSSGNQPQPN--------YQLLLPLSMHGSQNTGFQ--IPVHSFGF 411

Query: 328 GLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVR 387
           G +HD+ +MH I++ SGGTFSFIET S++QDAFA+CIGGLLSVV Q++++ +      +R
Sbjct: 412 GTDHDASSMHTISEISGGTFSFIETESVIQDAFAQCIGGLLSVVVQELQVGVECVDPSLR 471

Query: 388 IGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRPECTALLDV 447
           +GS+ +G Y S V+ + +   ID+G+LYADEE++F+V + +P   +  +     T+L+ V
Sbjct: 472 LGSLKAGSYPSHVMGDARTGSIDVGDLYADEERDFLVSVKVPAELSGAK-----TSLIKV 526

Query: 448 FCTHKDSASMEIHQVEGEKVEIRRPEVLSTADKKVNLQVDRQRSRLLVAETIADAQRMAE 507
            C +KD  + E+  +E E+V I RPE  +   + V+++VDRQR+RL  AE +  A+  AE
Sbjct: 527 RCVYKDPLTKEMATLESEEVRIERPE--TAGQEVVSIEVDRQRNRLQAAEAMVQARAAAE 584

Query: 508 VGDLESAQALLAERRSGLLSSAAAQAGDVLCNWLEAELREIRERMASMDLYERTGRAYLL 567
            GDL  A ++L   R  L  + +A++ D LC  L+AEL+E++ERMAS  +YE +GRAY+L
Sbjct: 585 QGDLAGAVSILESCRKALSDTVSAKSHDRLCVALDAELKEMQERMASRHVYEASGRAYIL 644

Query: 568 SGLSSHSWQRATTRGDTTQILATNGDRGHSGSIDSTRSYETPWMTTMVTRSQ 619
           SGLSSHSWQRAT RGD+T            GS    ++Y+TP M  M+TRSQ
Sbjct: 645 SGLSSHSWQRATARGDSTD-----------GS-SLVQAYQTPSMAEMLTRSQ 684

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147815707|emb|CAN70517.1| hypothetical protein VITISV_016246 [Vitis vinifera]

 Score =  536 bits (1381), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 294/653 (45%), Positives = 413/653 (63%), Gaps = 68/653 (10%)

Query: 1   KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGS 60
           KTC ICL S++RG G AIFTAECSHSFHF CI +NV+HG++ICP+CR +WK++PF+ P  
Sbjct: 71  KTCAICLTSMKRGHGQAIFTAECSHSFHFHCITSNVKHGSQICPVCRAKWKEIPFEGPNL 130

Query: 61  VIDARRNNMARARVSPFNAAPEDASAPGARRNVP---------TTFQLPAEPEQFTDDEQ 111
               RR     AR++P +    +      RR  P               +EP  F DDE 
Sbjct: 131 DPPPRR-----ARINPVDWHQNNDLMTIIRRLPPPRLDSNRNIMALHQASEPGVFNDDES 185

Query: 112 LSVNSI---------GPASPSRAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAP----- 157
           L    +           A  +  + + +K +PE  A   ++    F VL+ + A      
Sbjct: 186 LDHQPVPAERNSSNGNAAENNPVRTVEIKTYPEVSAAPRSKSYDNFTVLVHLKAAVANTG 245

Query: 158 ----------SLPNDADRAPIDLVTVLDVSGSMS-SKLPLLKRAVHFIIQNLGSADRLSI 206
                      L +   RAP+DLVTVLD+SGSM+ +KL LLKRA+ F+IQNLGS+DRLS+
Sbjct: 246 QNIQRNMSNSPLNSHNPRAPVDLVTVLDISGSMAGTKLALLKRAMGFVIQNLGSSDRLSV 305

Query: 207 VIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVA 266
           + FSS ARR+FPL+RMTD+GR+ A++A+N+L +NGGTNI EGL+KGA+V+E+R+ER+PV+
Sbjct: 306 IAFSSTARRLFPLRRMTDAGRQQALQAVNSLVANGGTNIAEGLRKGAKVMEDRKERNPVS 365

Query: 267 SIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFG 326
           SIILLSDGQDT+ V          SS    +  Y  LLP S+  S+    Q   PVH+FG
Sbjct: 366 SIILLSDGQDTYTV--------NGSSGNXPQPNYQLLLPLSMHGSQNTGFQ--IPVHSFG 415

Query: 327 FGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGV 386
           FG +HD+ +MH I++ SGGTFSFIET S++QDAFA+CIGGLLSVV Q++++ +      +
Sbjct: 416 FGTDHDASSMHTISEISGGTFSFIETESVIQDAFAQCIGGLLSVVVQELQVGVECVDPSL 475

Query: 387 RIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRPECTALLD 446
           R+GS+ +G Y S V+ + +   ID+G+LYADEE++F+V + +P   +  +     T+L+ 
Sbjct: 476 RLGSLKAGSYPSHVMGDARTGSIDVGDLYADEERDFLVSVKVPAELSGAK-----TSLIK 530

Query: 447 VFCTHKDSASMEIHQVEGEKVEIRRPEVLSTADKKVNLQVDRQRSRLLVAETIADAQRMA 506
           V C +KD  + E+  +E E+V I RPE  +   + V+++VDRQR+RL  AE +  A+  A
Sbjct: 531 VRCVYKDPLTKEMATLESEEVRIERPE--TAGQEVVSIEVDRQRNRLQAAEAMVQARAAA 588

Query: 507 EVGDLESAQALLAERRSGLLSSAAAQAGDVLCNWLEAELREIRERMASMDLYERTGRAYL 566
           E GDL  A ++L   R  L  + +A++ D LC  L+AEL+E++ERMAS  +YE +GRAY+
Sbjct: 589 EQGDLAGAVSILESCRKALSDTVSAKSHDRLCVALDAELKEMQERMASRHVYEASGRAYI 648

Query: 567 LSGLSSHSWQRATTRGDTTQILATNGDRGHSGSIDSTRSYETPWMTTMVTRSQ 619
           LSGLSSHSWQRAT RGD+T            GS    ++Y+TP M  M+TRSQ
Sbjct: 649 LSGLSSHSWQRATARGDSTD-----------GS-SLVQAYQTPSMAEMLTRSQ 689

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224113057|ref|XP_002316375.1| predicted protein [Populus trichocarpa] gi|222865415|gb|EEF02546.1| predicted protein [Populus trichocarpa]

 Score =  536 bits (1381), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 296/653 (45%), Positives = 420/653 (64%), Gaps = 70/653 (10%)

Query: 1   KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGS 60
           +TC ICL  +++G G AIFTAECSHSFHF CI++NV+HGN++CP+CR +WK++PFQAP  
Sbjct: 72  QTCSICLAKMKQGDGHAIFTAECSHSFHFHCISSNVKHGNQLCPVCRAKWKEIPFQAP-- 129

Query: 61  VIDARRNNMA------RARVSPFNAAPEDASAPGARRNVPTTFQLPAEPEQFTDDEQLSV 114
            +D      +       A ++  +  P        RR+V +  Q P EP  F DDE L +
Sbjct: 130 TLDPLPGRASAGWPQTDALMTMVHRLPPPPRRDLNRRHV-SLLQAP-EPSVFDDDESLDL 187

Query: 115 NSIGPASPSR------------AQALAVKAFPEFGAVAAAECPPKFAVLLRVCAP----- 157
               PAS  R            A+ + +K +PE  A + +     F VL+ + A      
Sbjct: 188 Q---PASSERSSGNKNDAGHNPAKTVEIKTYPEVSAASCSNSYDNFTVLVHIKAAATVGR 244

Query: 158 --------SLP--NDADRAPIDLVTVLDVSGSMS-SKLPLLKRAVHFIIQNLGSADRLSI 206
                   SLP  +   RAP+DLVTVLD+SGSM+ +KL LLKRA+ F+IQNLGS DRLS+
Sbjct: 245 LNPRGNQASLPQLSQTPRAPVDLVTVLDISGSMAGTKLALLKRAMGFVIQNLGSNDRLSV 304

Query: 207 VIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVA 266
           + FSS ARR+FPL+RM+D+GR++A++A+N L +NGGTNI EGL+KGA+V+E+RRE++PVA
Sbjct: 305 IAFSSTARRLFPLRRMSDTGRQHALQAVNALVANGGTNIAEGLRKGAKVMEDRREKNPVA 364

Query: 267 SIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFG 326
           SIILLSDGQDT+ V  N   Q + +        Y  LLP SI        Q   PVH FG
Sbjct: 365 SIILLSDGQDTYTVSGNGGNQPQPN--------YQLLLPVSIHGGDNAGFQ--IPVHAFG 414

Query: 327 FGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGV 386
           FG +HD+ +MH+I++ SGGTFSFIET +++QDAFA+CIGGLLSVV Q++++ +      V
Sbjct: 415 FGADHDASSMHSISEISGGTFSFIETEAVIQDAFAQCIGGLLSVVVQELQVGVECMHPSV 474

Query: 387 RIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRPECTALLD 446
            +GS+ +G Y S V+ + +   ID+G+LYADEE++F+V +++P   +  +     T+LL 
Sbjct: 475 HLGSLKAGSYPSRVMVDARSGFIDVGDLYADEERDFLVSVNVPAEPSRNQ-----TSLLK 529

Query: 447 VFCTHKDSASMEIHQVEGEKVEIRRPEVLSTADKKVNLQVDRQRSRLLVAETIADAQRMA 506
           V C ++D  + E+  +E E++++ RPE+  + +  V+++VDRQR+R   AE ++ A+  A
Sbjct: 530 VRCAYRDPLTKEMATLESEEIKLERPEI--SGEAIVSIEVDRQRNRFQAAEAMSRARTTA 587

Query: 507 EVGDLESAQALLAERRSGLLSSAAAQAGDVLCNWLEAELREIRERMASMDLYERTGRAYL 566
           E GDL  A ++L   R  L  + +A+  D LC  L+AEL+E++ERMAS  +YE +GRAY+
Sbjct: 588 ERGDLAGAASILENCRMLLSETVSAKFHDRLCIGLDAELKEMQERMASRHVYEASGRAYI 647

Query: 567 LSGLSSHSWQRATTRGDTTQILATNGDRGHSGSIDSTRSYETPWMTTMVTRSQ 619
           LSGLSSHSWQRAT RGD+T            GS    +SY+TP MT M+ RSQ
Sbjct: 648 LSGLSSHSWQRATVRGDSTD-----------GS-SLVQSYQTPSMTEMLARSQ 688

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224097862|ref|XP_002311085.1| predicted protein [Populus trichocarpa] gi|222850905|gb|EEE88452.1| predicted protein [Populus trichocarpa]

 Score =  532 bits (1370), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 293/647 (45%), Positives = 420/647 (64%), Gaps = 59/647 (9%)

Query: 1   KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGS 60
           +TC ICL  +++G G AIFTAECSHSFHF CI++NV+HGN++CP+CR +WK++PFQAP  
Sbjct: 72  QTCSICLTKMKQGGGHAIFTAECSHSFHFHCISSNVKHGNQLCPVCRAKWKEIPFQAPTL 131

Query: 61  VIDARRNNMARARVSPFNAAPEDASAPGARR--NVPTTFQLPAEPEQFTDDEQLSV---- 114
                R ++   +             P  R   +V    Q+P EP  F DDE L +    
Sbjct: 132 DPLPGRASVGWPQTDAMMTVVHRLPPPPRRDRRHVVPLLQVP-EPSVFNDDESLDLQPAF 190

Query: 115 ------NSIGPASPSRAQALAVKAFPEFGAVAAAECPPKFAVLLRVCA------------ 156
                 N I  A  +  + + +K +PE  A + +     F VL+ + A            
Sbjct: 191 AERSSGNKIA-AGHNAGKIVEIKTYPEVSAASRSNSYDNFTVLVHLKAGATVARENPRGN 249

Query: 157 -PSLP--NDADRAPIDLVTVLDVSGSMS-SKLPLLKRAVHFIIQNLGSADRLSIVIFSSV 212
             SLP  +   RAP+DLVTVLD+SGSM+ +KL LLKRA+ F+IQNLGS DRLS++ FSS 
Sbjct: 250 LASLPQLSQTPRAPVDLVTVLDISGSMAGTKLALLKRAMGFVIQNLGSNDRLSVIAFSST 309

Query: 213 ARRIFPLQRMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLS 272
           ARR+F L+RM+D+GR++A++A+N+L +NGGTNI EGL+KGA+V+EERRE++PVASIILLS
Sbjct: 310 ARRLFSLRRMSDAGRQHALQAVNSLVANGGTNIAEGLRKGAKVMEERREKNPVASIILLS 369

Query: 273 DGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHD 332
           DGQDT+ V  +S  Q + +        Y  LLP SI        Q   PVH FGFG +HD
Sbjct: 370 DGQDTYTVSGSSGNQPQPN--------YRLLLPLSIHGGDNAGFQ--IPVHAFGFGADHD 419

Query: 333 SEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSIP 392
           + +MH+I++ SGGTFSFIET +++QDAFA+CIGGLLSVV Q++++ +      +R+GS+ 
Sbjct: 420 ASSMHSISEISGGTFSFIETEAVIQDAFAQCIGGLLSVVVQELQVGVECMHPSIRLGSLK 479

Query: 393 SGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRPECTALLDVFCTHK 452
           +G Y S V+ + +   ID+G+LYADEE++F+V +++P   +  +     T+LL V C ++
Sbjct: 480 AGSYPSRVMADTRSGFIDVGDLYADEERDFLVSINVPAEPSMNQ-----TSLLKVRCAYR 534

Query: 453 DSASMEIHQVEGEKVEIRRPEVLSTADKKVNLQVDRQRSRLLVAETIADAQRMAEVGDLE 512
           D  + E+  +E  ++++ RPE+  + +  V+++VDRQR+RL  AE ++ A+ +AE GDL 
Sbjct: 535 DPLTKEMTTLESAEIKLERPEI--SGEAVVSIEVDRQRNRLQAAEAMSQARTVAERGDLA 592

Query: 513 SAQALLAERRSGLLSSAAAQAGDVLCNWLEAELREIRERMASMDLYERTGRAYLLSGLSS 572
            A ++L   R  L  + +A++ D LC  L+AEL+E++ERMAS  +YE +GRAY+LSGLSS
Sbjct: 593 GAASILENCRRLLSETVSAKSHDRLCIALDAELKEMQERMASRHVYEASGRAYILSGLSS 652

Query: 573 HSWQRATTRGDTTQILATNGDRGHSGSIDSTRSYETPWMTTMVTRSQ 619
           HSWQRAT RGD+T            GS    +SY+TP MT M+TRSQ
Sbjct: 653 HSWQRATARGDSTD-----------GS-SLVQSYQTPSMTEMLTRSQ 687

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	634
TAIR|locus:2102445	675	AT3G54780 "AT3G54780" [Arabido	0.531	0.499	0.441	1e-124
TAIR|locus:2064945	692	AT2G38970 "AT2G38970" [Arabido	0.763	0.699	0.419	5.2e-97
TAIR|locus:2175796	704	AT5G60710 "AT5G60710" [Arabido	0.651	0.586	0.477	8.4e-97
TAIR|locus:2205160	641	AT1G08050 "AT1G08050" [Arabido	0.484	0.478	0.415	1.2e-77
TAIR|locus:504954897	740	AT5G49665 "AT5G49665" [Arabido	0.282	0.241	0.405	2.8e-54
TAIR|locus:2121008	739	EDA40 "AT4G37890" [Arabidopsis	0.328	0.281	0.342	1.3e-42
TAIR|locus:2065999	683	WAVH1 "AT2G22680" [Arabidopsis	0.436	0.405	0.344	5.8e-42
TAIR|locus:504954891	717	WAVH2 "AT5G65683" [Arabidopsis	0.406	0.359	0.332	2.4e-33
UNIPROTKB|Q8E999	451	SO_4385 "von Willebrand factor	0.264	0.372	0.252	2.7e-16
TIGR_CMR|SO_4385	451	SO_4385 "von Willebrand factor	0.264	0.372	0.252	2.7e-16

TAIR|locus:2102445 AT3G54780 "AT3G54780" [Arabidopsis thaliana (taxid:3702)]

 Score = 658 (236.7 bits), Expect = 1.0e-124, Sum P(2) = 1.0e-124
 Identities = 158/358 (44%), Positives = 217/358 (60%)

Query:     1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGS 60
             KTC ICL  ++ G G AIFTAECSH FHF CIA+NV+HGN++CP+CR +WK++P Q P  
Sbjct:    72 KTCSICLNKMKEGCGHAIFTAECSHMFHFHCIASNVKHGNQVCPVCRAKWKEIPIQKPSL 131

Query:    61 VIDA----RRNNMARARVSPFNAAPEDASAPGARRNVPTTFQLPAE-PEQFTDDEQLSVN 115
              +      R NN   A +S F   P    A       P TF       EQ   D +  V 
Sbjct:   132 DLPYYPFDRCNN--DAAISLFRCLPPSQRAITQGHPEPATFDDDERLEEQIVFDGETEV- 188

Query:   116 SIGPASPSRAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAPSLPNDAD--RAPIDLVTV 173
              +   +    + + +K +PE  AV  ++    F VL+ + A +    +   RAPIDLVTV
Sbjct:   189 -LKKENRDYVRMMDMKVYPEVSAVPQSKSCENFDVLVHLKAVTGDQISQYRRAPIDLVTV 247

Query:   174 LDVSGSMS-SKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIR 232
             LD+SGSM  +KL LLKRA+ F+IQNLGS+DRLS++ FSS ARR+FPL RM+D+GR+ A++
Sbjct:   248 LDISGSMGGTKLALLKRAMGFVIQNLGSSDRLSVIAFSSTARRLFPLTRMSDAGRQLALQ 307

Query:   233 AINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTH--NVLRNSYTQDEA 290
             A+N+L +NGGTNIV+GL+KGA+V+E+R ER+ VASIILLSDG+DT+  N    SY +   
Sbjct:   308 AVNSLVANGGTNIVDGLRKGAKVMEDRLERNSVASIILLSDGRDTYTTNHPDPSY-KVML 366

Query:   291 SSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFS 348
               I  +   + +   +S+  S  E    TF   +F   +E +S    A+A   GG  S
Sbjct:   367 PQISVHSFGFGSDHDASVMHSVSEVSGGTF---SF---IESESVIQDALAQCIGGLLS 418

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005576 "extracellular region" evidence=ISM

GO:0005886 "plasma membrane" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

TAIR|locus:2064945 AT2G38970 "AT2G38970" [Arabidopsis thaliana (taxid:3702)]

 Score = 964 (344.4 bits), Expect = 5.2e-97, P = 5.2e-97
 Identities = 222/529 (41%), Positives = 329/529 (62%)

Query:     1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPG- 59
             KTC ICL  ++ G G A+FTAECSHSFHF CIA+NV+HGN++CP+CR +WK++P Q P  
Sbjct:    70 KTCSICLNKMKEGGGHALFTAECSHSFHFHCIASNVKHGNQVCPVCRAKWKEIPMQHPSF 129

Query:    60 --SVIDARRNNMARARVSPFNAAPEDASAPGARRNVPTTFQLPAEPEQFTDDEQLSVNSI 117
                 + AR  N   A +S  +  P         R +     +  + E+       S  S 
Sbjct:   130 DLPYLFARSYNNDAA-ISLVHRLPRSRGVMNQGRGLAPEPSMFDDDERLEQQLVFSGKSY 188

Query:   118 GPASPSR--AQALAVKAFPEFGAVAAAECPPKFAVL--LRVCAP------SLPNDADR-- 165
               A  +    + + +K +PE  AV  A+   KF VL  LR  A       SL N   R  
Sbjct:   189 SDALENNHPVRMMDLKIYPEVSAVPRADSREKFDVLVHLRAAAMVTGNANSLNNQISRYP 248

Query:   166 -APIDLVTVLDVSGSMS-SKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMT 223
              AP+DLVTVLD+SGSM+ +KL LLKRA+ F+IQNLGS DRLS++ FSS ARR+FPL +M+
Sbjct:   249 RAPVDLVTVLDISGSMAGTKLALLKRAMGFVIQNLGSNDRLSVIAFSSTARRLFPLTKMS 308

Query:   224 DSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRN 283
             D+GR+ A++A+N++ +NGGTNI EGL+KG +V+E+RR+++PVASIILLSDG+DT      
Sbjct:   309 DAGRQRALQAVNSVVANGGTNIAEGLRKGVKVMEDRRDKNPVASIILLSDGRDT------ 362

Query:   284 SYTQDEASSIPSNELAYLNLLPSSI--CLSKREAGQPTFPVHTFGFGLEHDSEAMHAIAD 341
              YT ++A   P+ +L    LLP S+  C SKR       PVH+FGFG +HD+  MH++++
Sbjct:   363 -YTMNQAD--PNYKL----LLPLSMHGCESKRFQ----IPVHSFGFGSDHDASLMHSVSE 411

Query:   342 ASGGTFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVL 401
              SGGTFSFIE+ S++QDA A+CIGGLLSV  Q+++L I    + V + SI +G Y S V 
Sbjct:   412 TSGGTFSFIESESVIQDALAQCIGGLLSVAVQELRLEIEGMCSDVHLSSIKAGSYQSLVS 471

Query:   402 DEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRP--ECTALLDVFCTHKDSASMEI 459
              +G+   +DIG+LYADEE++F++ ++IP    +G + P  +   +     T K+  +++ 
Sbjct:   472 GDGRSGCVDIGDLYADEERDFLISVNIPPQK-DGNETPLLKMRCVYKDLLT-KEIVTLQS 529

Query:   460 HQVEGEKVEIRRPEVLST--ADKKVNLQVDRQRSRLLVAETIADAQRMA 506
             H ++ ++ E    EV+ +   D++ N  +  +   ++ A  +A+ + +A
Sbjct:   530 HMLKIQRPETVGQEVVVSIEVDRQRNRFLAAEA--MVKARALAEREDLA 576

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005576 "extracellular region" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

TAIR|locus:2175796 AT5G60710 "AT5G60710" [Arabidopsis thaliana (taxid:3702)]

 Score = 962 (343.7 bits), Expect = 8.4e-97, P = 8.4e-97
 Identities = 213/446 (47%), Positives = 285/446 (63%)

Query:     1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGS 60
             KTC ICL +++ GQG AIFTAECSHSFHF CI  NV+HGN+ICP+CR +W ++P Q+P +
Sbjct:    70 KTCAICLTAMKAGQGHAIFTAECSHSFHFQCITTNVKHGNQICPVCRAKWNEIPIQSPNA 129

Query:    61 VIDARRNNMARARVSPFNAAPEDASAPGARRNVPTTFQLPA----EPEQFTDDEQL---- 112
                +    + R R   + + P   S+P    + P   ++ +    EP  F DDE L    
Sbjct:   130 KPKSGVKPIGRPRDDAWMSIPPRRSSPIQYTSRPDCLRVSSIFNTEPAVFNDDEALEHQD 189

Query:   113 -SVNSIGPASPSRAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAP------SLPNDADR 165
              S  S G   P     L VK +PE   V  +     FAVL+ + AP      S P+ + R
Sbjct:   190 RSAES-GLDKPGVTGTLEVKTYPEISEVVRSVSFKDFAVLINLKAPTSSKSSSNPSSSSR 248

Query:   166 APIDLVTVLDVSGSMS-SKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTD 224
             AP+DLVTVLDVSGSM+ +KL LLKRA+ F+IQNLG  DRLS++ FSS ARR FPL+ MT+
Sbjct:   249 APVDLVTVLDVSGSMAGTKLALLKRAMGFVIQNLGPFDRLSVISFSSTARRNFPLRLMTE 308

Query:   225 SGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNS 284
             +G++ A++A+N+L SNGGTNI EGLKKGARVL +RR ++PV+SI+LLSDGQDT       
Sbjct:   309 TGKQEALQAVNSLVSNGGTNIAEGLKKGARVLIDRRFKNPVSSIVLLSDGQDT------- 361

Query:   285 YTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASG 344
             YT    +   S    Y  LLP       +E      PVH FGFG +HD+  MH+IA+ SG
Sbjct:   362 YTMTSPNG--SRGTDYKALLP-------KEINGNRIPVHAFGFGADHDASLMHSIAENSG 412

Query:   345 GTFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEG 404
             GTFSFIE+ +++QDAFA+CIGGLLSVV Q++ +TI      +RIGS+ +G Y  +     
Sbjct:   413 GTFSFIESETVIQDAFAQCIGGLLSVVVQELCVTIECMHHLLRIGSVKAGSYRFDNGPNS 472

Query:   405 QQAVIDIGNLYADEEKEFMVYLSIPV 430
             +   I +G+LYA+EE+ F+V L IP+
Sbjct:   473 RTGSIAVGDLYAEEERNFLVNLDIPI 498

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005576 "extracellular region" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

GO:0005886 "plasma membrane" evidence=IDA

GO:0009690 "cytokinin metabolic process" evidence=RCA

TAIR|locus:2205160 AT1G08050 "AT1G08050" [Arabidopsis thaliana (taxid:3702)]

 Score = 583 (210.3 bits), Expect = 1.2e-77, Sum P(2) = 1.2e-77
 Identities = 138/332 (41%), Positives = 193/332 (58%)

Query:   300 YLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDA 359
             Y +LLPSS C           P+HTFGFG +HD+E MH I++ S GTFSFIET +++QDA
Sbjct:   327 YESLLPSS-C---------RIPIHTFGFGSDHDAELMHTISEVSSGTFSFIETETVIQDA 376

Query:   360 FARCIGGLLSVVSQDVKLTIRS-KSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADE 418
             FA+CIGGLLSVV  +  + I      G++I SI +G Y S +  + + A ID+G++YA+E
Sbjct:   377 FAQCIGGLLSVVILEQVVEIECIHEQGLKISSIKAGSYRSRIAPDARTATIDVGDMYAEE 436

Query:   419 EKEFMVYLSIPVSSAEGEQRPECTALLDVFCTHKDSASMEIHQVEGEKVEIRRPEVLSTA 478
             E++F+V L IP     G    E  +LL V C +KD  + EI  VE  ++ I+RP  L T 
Sbjct:   437 ERDFLVLLEIPCCD-NGSGESESLSLLKVRCVYKDPVTKEIVHVESGELSIQRPMKL-TG 494

Query:   479 DKKVNLQVDRQRSRLLVAETIADAQRMAEVGDLESAQXXXXXXXXXXXXXXXXXXXDVLC 538
              + V+++VDRQ +R LV++ +++A+ +A+ GDL  A                    D LC
Sbjct:   495 KEVVSIEVDRQLNRFLVSQAMSEARVLADGGDLSGAVGILRNRERELSETPSAQSSDRLC 554

Query:   539 NWLEAELREIRERMASMDLYERTGRAYLLSGLSSHSWQRATTRGDTTQILATNGDRGHSG 598
               L +EL  ++ERM S  +Y  +GRAY  S +SSHS QRAT RGD+TQ        G S 
Sbjct:   555 QSLSSELSALQERMTSRRMYRTSGRAYAFSSMSSHSAQRATARGDSTQ--------GFS- 605

Query:   599 SIDSTRSYETPWMTTMVTRSQTLNFTSGEQQS 630
                  ++Y+T  M  MVTRSQ L   S  + S
Sbjct:   606 ---PVQAYQTSPMARMVTRSQLLVLESPTKPS 634

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005576 "extracellular region" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

GO:0005886 "plasma membrane" evidence=IDA

GO:0000165 "MAPK cascade" evidence=RCA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0007154 "cell communication" evidence=RCA

GO:0009409 "response to cold" evidence=RCA

GO:0009627 "systemic acquired resistance" evidence=RCA

GO:0009690 "cytokinin metabolic process" evidence=RCA

GO:0009697 "salicylic acid biosynthetic process" evidence=RCA

GO:0009738 "abscisic acid mediated signaling pathway" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0043069 "negative regulation of programmed cell death" evidence=RCA

GO:0050832 "defense response to fungus" evidence=RCA

TAIR|locus:504954897 AT5G49665 "AT5G49665" [Arabidopsis thaliana (taxid:3702)]

 Score = 312 (114.9 bits), Expect = 2.8e-54, Sum P(3) = 2.8e-54
 Identities = 79/195 (40%), Positives = 121/195 (62%)

Query:   111 QLSVNSIGPASPSRAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAPSLPNDADRAPIDL 170
             + +V S+G    +RA AL VKA P   A        +  V  R+  PS      RAP+DL
Sbjct:   287 EAAVVSVGCGYETRAVALRVKAPPPLTA--------RGGVGRRLLDPS-----QRAPVDL 333

Query:   171 VTVLDVSGSMS-SKLPLLKRAVHFIIQNLGSADRLSIV-IFSSVARRIFPLQRMTDSGRE 228
             V V+DV G+M+ +KL ++KRA+  +I +LGSADRLSIV +  +V +R+ PL+RMT+ G+ 
Sbjct:   334 VVVVDVGGTMNGAKLQMVKRAMRLVISSLGSADRLSIVAVVMTVPKRLLPLKRMTEHGKR 393

Query:   229 NAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQD 288
             +A   ++ L    G+N  E LKK +RVLE+RRER+PVASI+LL+DGQ   + +  +  + 
Sbjct:   394 SAGAVVDGLLCGQGSNTSEALKKASRVLEDRRERNPVASIVLLTDGQGQLSKVHTNQ-RS 452

Query:   289 EASSIPSNELAYLNL 303
               +++ S   A++ +
Sbjct:   453 TITNVGSTRFAHIEI 467

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005576 "extracellular region" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

GO:0005886 "plasma membrane" evidence=IDA

TAIR|locus:2121008 EDA40 "AT4G37890" [Arabidopsis thaliana (taxid:3702)]

 Score = 273 (101.2 bits), Expect = 1.3e-42, Sum P(3) = 1.3e-42
 Identities = 77/225 (34%), Positives = 126/225 (56%)

Query:    60 SVIDARRNNMARARVSPFNAAPEDASAPGARRNVPTTFQLPA-EPEQFTDDEQLS---VN 115
             S I   +NN    RV  +N      S+P +R    T  +    E E+  DD +     VN
Sbjct:   241 SKIRESKNNNKSLRV--YNDDEPLISSPISRTGFNTIPESNEDEEEEDNDDGEFKGFYVN 298

Query:   116 SIGPASPSRAQA------LAVKAFPEFGAVAAAECPPKFAVLLRVCAPSLPNDADRAPID 169
             +  P +  +         + VK   E   VA       ++VL+++ +PSLP  A R+P+D
Sbjct:   299 TPSPLTTKKMLTDSVTGHVDVKLSSEAAIVAVGRGNETYSVLMKIKSPSLPT-ARRSPVD 357

Query:   170 LVTVLDVSGSMSSKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGREN 229
             LVTV+DVSG     + ++KRA+  +I +L   DRLS+V FSS ++R+ PL+RMT +GR  
Sbjct:   358 LVTVIDVSGG---NIEMVKRAMRQVISSLRETDRLSMVSFSSSSKRLTPLRRMTANGRRL 414

Query:   230 AIRAINTLSSNG-GTNIVEGLKKGARVLEERRERSPVASIILLSD 273
             A R ++ +S +G G ++ + +KK A+V+E+RR+++   +I +L+D
Sbjct:   415 ARRIVDDISGDGDGMSVNDAVKKAAKVIEDRRQKNLFTTIFVLTD 459

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

GO:0010197 "polar nucleus fusion" evidence=IMP

GO:0005886 "plasma membrane" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

GO:0009690 "cytokinin metabolic process" evidence=RCA

TAIR|locus:2065999 WAVH1 "AT2G22680" [Arabidopsis thaliana (taxid:3702)]

 Score = 395 (144.1 bits), Expect = 5.8e-42, Sum P(2) = 5.8e-42
 Identities = 107/311 (34%), Positives = 171/311 (54%)

Query:     3 CPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQ-HGNRI--CPICRCEW-KDVP-FQA 57
             C ICL S++ GQG AIFTAECSH+FHF C+ +    + NR+  CP+C      ++  +  
Sbjct:   130 CGICLQSVKSGQGTAIFTAECSHTFHFPCVTSRAAANHNRLASCPVCGSSLLPEIRNYAK 189

Query:    58 PGSVIDARRNNMARARVSPFNAAPEDASAPGARRNVPTTFQLPAEPEQFTDDEQLSVNSI 117
             P S I     N +  RV  +N      S+P +    P  F    E ++  D E+ +  S+
Sbjct:   190 PESQIKPEIKNKS-LRV--YNDDEALISSPIS----PAGFHTILESDENEDCEEFTGFSV 242

Query:   118 GPASPSRAQALA-----VKAFPEFGAVAAAECPPKFAVLLRVCAPSLPND---ADRAPID 169
                SP  A+ L      VK  PE   VA+ +    ++V+++V +P  P     A R P+D
Sbjct:   243 NTPSPLTAKLLTDRNVDVKLSPESAIVASGKGYETYSVVMKVKSPPFPTARGFARRVPVD 302

Query:   170 LVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRE 228
             LV VLDVSG  S  KL +LK+ +  ++ NL   DRLSI+ FSS ++R+ PL+RMT +GR 
Sbjct:   303 LVAVLDVSGRNSGGKLEMLKQTMRIVLSNLREMDRLSIIAFSSSSKRLSPLRRMTANGRR 362

Query:   229 NAIRAINTLSSNG------------GTNIVEGLKKGARVLEERRERSPVASIILLSDGQD 276
             +A R ++ ++  G            G ++ + LKK  +VL++RR+++P  ++ +L+D Q 
Sbjct:   363 SARRIVDIITVPGSVSGVGIDFSGEGMSVNDALKKAVKVLDDRRQKNPFTAVFVLTDRQ- 421

Query:   277 THNVLRNSYTQ 287
              H V + ++++
Sbjct:   422 AHQVAQLAHSR 432

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005576 "extracellular region" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

GO:0009062 "fatty acid catabolic process" evidence=RCA

GO:0009690 "cytokinin metabolic process" evidence=RCA

GO:0016132 "brassinosteroid biosynthetic process" evidence=RCA

TAIR|locus:504954891 WAVH2 "AT5G65683" [Arabidopsis thaliana (taxid:3702)]

 Score = 288 (106.4 bits), Expect = 2.4e-33, Sum P(2) = 2.4e-33
 Identities = 94/283 (33%), Positives = 139/283 (49%)

Query:    17 AIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGSVIDA---RRNNMARAR 73
             AIFTAECSHSFH  C+          C           + A  +   +   RR  +   +
Sbjct:   157 AIFTAECSHSFHLSCVNGLEDKRCPFCSAAWNHAPKSNYPAVNNNFGSDPIRRPEIREIK 216

Query:    74 VSP----FNAAPEDASAPGARRNVPTTFQLPAEPEQFTDDEQLSV----NSI-GPASPSR 124
                    +N     A +P +   + T  +   E +   DD+        +SI     PS 
Sbjct:   217 TGKSLRVYNDDEPLAYSPVSLAQINTIHESD-ENDDVEDDDDFPGFFRDSSITSDMVPSI 275

Query:   125 AQALAVKAFPEFGAVAAAECPPKFAVLLRVCA---PSLPNDADRA--P-IDLVTVLDVSG 178
             +  L VK  PE   V   +      V++++ A   PS   DA +A  P IDLVTVLD+S 
Sbjct:   276 SGNLEVKLLPESAVVETGKKKETHVVIMKLKASPSPSSITDAIKARRPSIDLVTVLDLSN 335

Query:   179 SMSSKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLS 238
                + L  +K A+  +I  L   DRLSIV+FS+ ++R+ PL+RMT  GR +A R ++ L 
Sbjct:   336 G-GANLQTVKHAMRSVISLLREMDRLSIVVFSTGSKRLMPLRRMTAKGRRSARRMVDALG 394

Query:   239 ---SNGGT--NIVEGLKKGARVLEERRERSPVASIILLSDGQD 276
                + GG   ++ + LKK  +V+E+RRE++P  SI +LSDGQD
Sbjct:   395 GMETTGGVGMSVNDALKKAVKVVEDRREKNPSTSIFVLSDGQD 437

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA;ISS

UNIPROTKB|Q8E999 SO_4385 "von Willebrand factor type A domain protein" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 143 (55.4 bits), Expect = 2.7e-16, Sum P(2) = 2.7e-16
 Identities = 46/182 (25%), Positives = 94/182 (51%)

Query:   315 AGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSVVSQD 374
             AG+    V T G G  ++ + M A+A  S G  +++E  + L+ AF R    ++SVV+Q+
Sbjct:   196 AGKQGIAVTTIGLGNGYNEDLMTALAGFSDGNHAYVENSADLETAFVREFNDVMSVVAQE 255

Query:   375 VKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAE 434
             V +TI+ +  GV+   +  GR + ++L  G    + +  LY+++EK  ++ + +P    E
Sbjct:   256 VVVTIKLQD-GVKPVRL-LGR-DGDIL--GNNVTVKMNQLYSNQEKYVLLEV-VPPKGKE 309

Query:   435 GEQR--PECTALLDVFCTH-KDSASMEIH-----QVEGEKVEIRRPEVLSTADKKVNLQV 486
              E +   + +   D   TH KD+ + +++       +  +  ++   V+ +A +K N++ 
Sbjct:   310 SENKLLADVSISYDNLKTHHKDTFNDQVNISYSKSPQAVQAAVKEEIVVDSAIQKANIEN 369

Query:   487 DR 488
              R
Sbjct:   370 TR 371

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|SO_4385 SO_4385 "von Willebrand factor type A domain protein" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 143 (55.4 bits), Expect = 2.7e-16, Sum P(2) = 2.7e-16
 Identities = 46/182 (25%), Positives = 94/182 (51%)

Query:   315 AGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSVVSQD 374
             AG+    V T G G  ++ + M A+A  S G  +++E  + L+ AF R    ++SVV+Q+
Sbjct:   196 AGKQGIAVTTIGLGNGYNEDLMTALAGFSDGNHAYVENSADLETAFVREFNDVMSVVAQE 255

Query:   375 VKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAE 434
             V +TI+ +  GV+   +  GR + ++L  G    + +  LY+++EK  ++ + +P    E
Sbjct:   256 VVVTIKLQD-GVKPVRL-LGR-DGDIL--GNNVTVKMNQLYSNQEKYVLLEV-VPPKGKE 309

Query:   435 GEQR--PECTALLDVFCTH-KDSASMEIH-----QVEGEKVEIRRPEVLSTADKKVNLQV 486
              E +   + +   D   TH KD+ + +++       +  +  ++   V+ +A +K N++ 
Sbjct:   310 SENKLLADVSISYDNLKTHHKDTFNDQVNISYSKSPQAVQAAVKEEIVVDSAIQKANIEN 369

Query:   487 DR 488
              R
Sbjct:   370 TR 371

GO:0008150 "biological_process" evidence=ND

GO:0003674 "molecular_function" evidence=ND

---

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

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	634
cd01466	155	cd01466, vWA_C3HC4_type, VWA C3HC4-type: Von Wille	1e-47
cd01465	170	cd01465, vWA_subgroup, VWA subgroup: Von Willebran	3e-26
cd00198	161	cd00198, vWFA, Von Willebrand factor type A (vWA)	3e-21
cd01461	171	cd01461, vWA_interalpha_trypsin_inhibitor, vWA_int	2e-20
pfam00092	178	pfam00092, VWA, von Willebrand factor type A domai	6e-20
smart00327	175	smart00327, VWA, von Willebrand factor (vWF) type	7e-19
pfam13768	156	pfam13768, VWA_3, von Willebrand factor type A dom	2e-16
pfam13519	172	pfam13519, VWA_2, von Willebrand factor type A dom	4e-13
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	1e-10
cd01450	161	cd01450, vWFA_subfamily_ECM, Von Willebrand factor	1e-10
TIGR00868	863	TIGR00868, hCaCC, calcium-activated chloride chann	2e-09
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	6e-09
TIGR03788	596	TIGR03788, marine_srt_targ, marine proteobacterial	1e-08
cd01456	206	cd01456, vWA_ywmD_type, VWA ywmD type:Von Willebra	3e-08
cd01474	185	cd01474, vWA_ATR, ATR (Anthrax Toxin Receptor): An	2e-07
smart00184	40	smart00184, RING, Ring finger	2e-07
COG2304	399	COG2304, COG2304, Uncharacterized protein containi	3e-07
cd01463	190	cd01463, vWA_VGCC_like, VWA Voltage gated Calcium	1e-06
pfam05762	223	pfam05762, VWA_CoxE, VWA domain containing CoxE-li	5e-06
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	6e-06
TIGR03436	296	TIGR03436, acidobact_VWFA, VWFA-related Acidobacte	1e-05
cd01462	152	cd01462, VWA_YIEM_type, VWA YIEM type: Von Willebr	1e-05
cd01471	186	cd01471, vWA_micronemal_protein, Micronemal protei	2e-05
cd01472	164	cd01472, vWA_collagen, von Willebrand factor (vWF)	3e-05
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	3e-05
cd01467	180	cd01467, vWA_BatA_type, VWA BatA type: Von Willebr	3e-05
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	4e-05
cd01476	163	cd01476, VWA_integrin_invertebrates, VWA_integrin	5e-05
COG1240	261	COG1240, ChlD, Mg-chelatase subunit ChlD [Coenzyme	8e-05
cd01464	176	cd01464, vWA_subfamily, VWA subfamily: Von Willebr	1e-04
COG2425	437	COG2425, COG2425, Uncharacterized protein containi	0.001
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	0.003

>gnl|CDD|238743 cd01466, vWA_C3HC4_type, VWA C3HC4-type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)

 Score =  164 bits (416), Expect = 1e-47
 Identities = 82/185 (44%), Positives = 111/185 (60%), Gaps = 31/185 (16%)

Query: 168 IDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSG 226
           +DLV VLDVSGSM+  KL L+K A+ F+I +LG ADRLSIV FS+ A+R+ PL+RMT  G
Sbjct: 1   VDLVAVLDVSGSMAGDKLQLVKHALRFVISSLGDADRLSIVTFSTSAKRLSPLRRMTAKG 60

Query: 227 RENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYT 286
           + +A R ++ L + GGTN+V GLKK  +VL +RR+++PVASI+LLSDGQD H        
Sbjct: 61  KRSAKRVVDGLQAGGGTNVVGGLKKALKVLGDRRQKNPVASIMLLSDGQDNHGA------ 114

Query: 287 QDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGT 346
                                       A     P+HTFG G  HD   +  IA+ +GGT
Sbjct: 115 ------------------------VVLRADNAPIPIHTFGLGASHDPALLAFIAEITGGT 150

Query: 347 FSFIE 351
           FS+++
Sbjct: 151 FSYVK 155

Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains. Membes of this subgroup belong to Zinc-finger family as they are found fused to RING finger domains. The MIDAS motif is not conserved in all the members of this family. The function of vWA domains however is not known. Length = 155

>gnl|CDD|238742 cd01465, vWA_subgroup, VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)

 Score =  105 bits (264), Expect = 3e-26
 Identities = 53/194 (27%), Positives = 87/194 (44%), Gaps = 25/194 (12%)

Query: 168 IDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSG 226
           ++LV V+D SGSM   KLPL+K A+  ++  L   DRL+IV +   A  + P   + D  
Sbjct: 1   LNLVFVIDRSGSMDGPKLPLVKSALKLLVDQLRPDDRLAIVTYDGAAETVLPATPVRD-- 58

Query: 227 RENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYT 286
           +   + AI+ L++ G T    G++ G +  ++      V  I+L +DG            
Sbjct: 59  KAAILAAIDRLTAGGSTAGGAGIQLGYQEAQKHFVPGGVNRILLATDGDFNVGETDPDEL 118

Query: 287 QDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGT 346
               +                    KRE+G     + T GFG  ++ + M AIADA  G 
Sbjct: 119 ARLVA-------------------QKRESG---ITLSTLGFGDNYNEDLMEAIADAGNGN 156

Query: 347 FSFIETLSILQDAF 360
            ++I+ L+  +  F
Sbjct: 157 TAYIDNLAEARKVF 170

Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains. Not much is known about the function of the VWA domain in these proteins. The members do have a conserved MIDAS motif. The biochemical function however is not known. Length = 170

>gnl|CDD|238119 cd00198, vWFA, Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)

 Score = 90.7 bits (225), Expect = 3e-21
 Identities = 53/188 (28%), Positives = 83/188 (44%), Gaps = 33/188 (17%)

Query: 168 IDLVTVLDVSGSMS-SKLPLLKRAVHFIIQNLGSA---DRLSIVIFSSVARRIFPLQRMT 223
            D+V +LDVSGSM   KL   K A+  ++ +L ++   DR+ +V F S AR + PL   T
Sbjct: 1   ADIVFLLDVSGSMGGEKLDKAKEALKALVSSLSASPPGDRVGLVTFGSNARVVLPLTTDT 60

Query: 224 DSGRENAIRAINTL--SSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVL 281
           D  + + + AI+ L     GGTNI   L+    +L+  +  +    IILL+DG+      
Sbjct: 61  D--KADLLEAIDALKKGLGGGTNIGAALRLALELLKSAKRPNARRVIILLTDGEPNDGPE 118

Query: 282 RNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIAD 341
             +    E                       R+ G     V+T G G + + + +  IAD
Sbjct: 119 LLAEAAREL----------------------RKLG---ITVYTIGIGDDANEDELKEIAD 153

Query: 342 ASGGTFSF 349
            + G   F
Sbjct: 154 KTTGGAVF 161

Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains. Length = 161

>gnl|CDD|238738 cd01461, vWA_interalpha_trypsin_inhibitor, vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin)

 Score = 88.0 bits (219), Expect = 2e-20
 Identities = 49/186 (26%), Positives = 75/186 (40%), Gaps = 30/186 (16%)

Query: 167 PIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFP-LQRMTD 224
           P ++V V+D SGSMS  K+   K A+   +++L   D  +I+ FS       P     T 
Sbjct: 2   PKEVVFVIDTSGSMSGTKIEQTKEALLTALKDLPPGDYFNIIGFSDTVEEFSPSSVSATA 61

Query: 225 SGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNS 284
                AI  +N L + GGTN+ + L+    +L        V  IILL+DG+ T+      
Sbjct: 62  ENVAAAIEYVNRLQALGGTNMNDALEAALELLN--SSPGSVPQIILLTDGEVTN------ 113

Query: 285 YTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASG 344
                                S I  + REA      + TFG G + ++  +  +A    
Sbjct: 114 --------------------ESQILKNVREALSGRIRLFTFGIGSDVNTYLLERLAREGR 153

Query: 345 GTFSFI 350
           G    I
Sbjct: 154 GIARRI 159

Bikunin confers the protease-inhibitor function while the heavy chains are involved in rendering stability to the extracellular matrix by binding to hyaluronic acid. The heavy chains carry the VWA domain with a conserved MIDAS motif. Although the exact role of the VWA domains remains unknown, it has been speculated to be involved in mediating protein-protein interactions with the components of the extracellular matrix. Length = 171

>gnl|CDD|215711 pfam00092, VWA, von Willebrand factor type A domain

 Score = 87.4 bits (217), Expect = 6e-20
 Identities = 46/203 (22%), Positives = 74/203 (36%), Gaps = 39/203 (19%)

Query: 169 DLVTVLDVSGSMS-SKLPLLKRAVHFIIQNL---GSADRLSIVIFSSVARRIFPLQRMTD 224
           D+V +LD SGS+  +    +K  +  +++ L       R+ +V +SS     F L     
Sbjct: 1   DIVFLLDGSGSIGEANFEKVKEFIKKLVERLDIGPDGTRVGLVQYSSDVTTEFSLNDYKS 60

Query: 225 SGRENAIRAINTLSSNGGTNIVEGLKKGARVL----EERRERSPVASIILLSDGQDTHNV 280
                +  + N     GGTN  + LK     L       R  +P   +ILL+DG+     
Sbjct: 61  KDDLLSAVSKNIYYLGGGTNTGKALKYALENLFSSSAGSRPNAPK-VVILLTDGKSNDGG 119

Query: 281 LRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFG-LEHDSEAMHAI 339
           L                       P++    +R+ G     +  FG G  + D E +  I
Sbjct: 120 LV----------------------PAAAAALRRKVG-----IIVFGVGVGDVDEEELRLI 152

Query: 340 A--DASGGTFSFIETLSILQDAF 360
           A    S G   ++     LQD  
Sbjct: 153 ASEPCSEGHVFYVTDFDALQDIQ 175

Length = 178

>gnl|CDD|214621 smart00327, VWA, von Willebrand factor (vWF) type A domain

 Score = 84.0 bits (208), Expect = 7e-19
 Identities = 47/192 (24%), Positives = 77/192 (40%), Gaps = 36/192 (18%)

Query: 169 DLVTVLDVSGSMS-SKLPLLKRAVHFIIQNL---GSADRLSIVIFSSVARRIFPLQRMTD 224
           D+V +LD SGSM  ++  L K  V  +++ L      DR+ +V FS  AR +FPL     
Sbjct: 1   DVVFLLDGSGSMGGNRFELAKEFVLKLVEQLDIGPDGDRVGLVTFSDDARVLFPLNDSRS 60

Query: 225 SGRENAIRAINTLS--SNGGTNIVEGLKKGARVLEERRERSPVAS---IILLSDGQDTHN 279
             ++  + A+ +LS    GGTN+   L+     L  +   S   +   +IL++DG+    
Sbjct: 61  --KDALLEALASLSYKLGGGTNLGAALQYALENLFSKSAGSRRGAPKVVILITDGESNDG 118

Query: 280 VLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAI 339
                                            + +G     V   G G + D E +  +
Sbjct: 119 PKD----------------------LLKAAKELKRSG---VKVFVVGVGNDVDEEELKKL 153

Query: 340 ADASGGTFSFIE 351
           A A GG + F+ 
Sbjct: 154 ASAPGGVYVFLP 165

VWA domains in extracellular eukaryotic proteins mediate adhesion via metal ion-dependent adhesion sites (MIDAS). Intracellular VWA domains and homologues in prokaryotes have recently been identified. The proposed VWA domains in integrin beta subunits have recently been substantiated using sequence-based methods. Length = 175

>gnl|CDD|222367 pfam13768, VWA_3, von Willebrand factor type A domain

 Score = 76.3 bits (188), Expect = 2e-16
 Identities = 47/185 (25%), Positives = 82/185 (44%), Gaps = 32/185 (17%)

Query: 168 IDLVTVLDVSGSMS-SKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQR-MTDS 225
            D+V ++DVS SMS   + L+K A+  I+++L   D+ ++V+F +  R +FP  R ++ S
Sbjct: 1   GDVVILVDVSSSMSGEPINLVKDALSAILRSLPPRDKFNVVLFGTEPRPLFPGGRAVSSS 60

Query: 226 GRENAIRAINTLS-SNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNS 284
             +  ++ I TL    GGTN++  LK   R L+       +  ++LLSDG  + N    S
Sbjct: 61  HLQELLQFIKTLEPPLGGTNLLGALKLAMRALKSPG---IIRHVLLLSDGSPSDN---PS 114

Query: 285 YTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASG 344
            T                                   +  +G G     + +  +A+A G
Sbjct: 115 RTSQLIR-----------------------QAPRHIRIFAYGLGPTLSPDMLQELAEAGG 151

Query: 345 GTFSF 349
           G++ F
Sbjct: 152 GSYEF 156

Length = 156

>gnl|CDD|222192 pfam13519, VWA_2, von Willebrand factor type A domain

 Score = 67.8 bits (166), Expect = 4e-13
 Identities = 52/194 (26%), Positives = 87/194 (44%), Gaps = 44/194 (22%)

Query: 169 DLVTVLDVSGSMS------SKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRM 222
           DLV VLDVSGSM+      S+L   K A+  ++  L   DR+ ++ F+  A  + PL   
Sbjct: 1   DLVIVLDVSGSMNATDLKPSRLTRAKAAIADLLARLPG-DRVGLIAFAGSAYLVLPL--- 56

Query: 223 TDSGR--ENAIRAINT-LSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHN 279
           TD       A+ A++  +   GGTN+   L    R+L      S   +I+L++DG+DT +
Sbjct: 57  TDDRAALAAALPALSPRIMPGGGTNLAAALALALRLLAGAGGGS--GAIVLITDGEDTPS 114

Query: 280 VLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEA-MHA 338
           +       + AS++                   ++AG     V+  G G +  +E  +  
Sbjct: 115 L------LEAASAL-------------------KQAG---VRVYVLGVGTDEGAEDALQR 146

Query: 339 IADASGGTFSFIET 352
           +A A+GG +     
Sbjct: 147 LAKATGGRYVDATA 160

Length = 172

>gnl|CDD|238093 cd00162, RING, RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)

 Score = 56.7 bits (137), Expect = 1e-10
 Identities = 16/49 (32%), Positives = 20/49 (40%), Gaps = 4/49 (8%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEW 50
           CPICL   R      +    C H F   CI   ++ G   CP+CR   
Sbjct: 1  ECPICLEEFRE----PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

>gnl|CDD|238727 cd01450, vWFA_subfamily_ECM, Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)

 Score = 60.0 bits (146), Expect = 1e-10
 Identities = 30/119 (25%), Positives = 54/119 (45%), Gaps = 12/119 (10%)

Query: 168 IDLVTVLDVSGSMSSK-LPLLKRAVHFIIQNLGSAD---RLSIVIFSSVARRIFPLQRMT 223
           +D+V +LD S S+  +    +K  +  +++ L       R+ +V +S   R  F L    
Sbjct: 1   LDIVFLLDGSESVGPENFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVRVEFSLNDYK 60

Query: 224 DSGRENAIRAINTLSSNGG--TNIVEGLKKGARVL---EERRERSPVASIILLSDGQDT 277
              +++ ++A+  L   GG  TN  + L+     L      RE  P   II+L+DG+  
Sbjct: 61  S--KDDLLKAVKNLKYLGGGGTNTGKALQYALEQLFSESNARENVPKV-IIVLTDGRSD 116

Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains . Length = 161

>gnl|CDD|129946 TIGR00868, hCaCC, calcium-activated chloride channel protein 1

 Score = 60.7 bits (147), Expect = 2e-09
 Identities = 53/211 (25%), Positives = 90/211 (42%), Gaps = 36/211 (17%)

Query: 173 VLDVSGSMSSKLPLLK---RAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGREN 229
           VLD SGSM+ +  L +    A  F++Q +     + +V F S A     L ++T S   +
Sbjct: 310 VLDKSGSMTVEDRLKRMNQAAKLFLLQTVEKGSWVGMVTFDSAAYIKNELIQITSSAERD 369

Query: 230 AIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDE 289
           A+ A    +++GGT+I  GLK   +V+++  + +  + I+LL+DG+D           + 
Sbjct: 370 ALTANLPTAASGGTSICSGLKAAFQVIKKSYQSTDGSEIVLLTDGED-----------NT 418

Query: 290 ASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSF 349
            SS                C    E  Q    +HT   G     + +  ++D +GG   +
Sbjct: 419 ISS----------------CFE--EVKQSGAIIHTIALGPSAA-KELEELSDMTGGLRFY 459

Query: 350 IET---LSILQDAFARCIGGLLSVVSQDVKL 377
                  + L DAF     G  S   Q ++L
Sbjct: 460 ASDQADNNGLIDAFGALSSGNGSASQQSIQL 490

found a row in 1A13.INFO that was not parsed out AC found a row in 1A13.INFO that was not parsed out EC found a row in 1A13.INFO that was not parsed out GA found a row in 1A13.INFO that was not parsed out SO found a row in 1A13.INFO that was not parsed out RH found a row in 1A13.INFO that was not parsed out EN found a row in 1A13.INFO that was not parsed out GS found a row in 1A13.INFO that was not parsed out AL found a row in 1A13.INFO that was not parsed out The Epithelial Chloride Channel (E-ClC) Family (TC 1.A.13) found a row in 1A13.INFO that was not parsed out found a row in 1A13.INFO that was not parsed out Mammals have multiple isoforms of epithelial chloride channel proteins. The first member of this family to be characterized was a respiratory epithelium, Ca found a row in 1A13.INFO that was not parsed out 2+-regulated, chloride channel protein isolated from bovine tracheal apical membranes. It was biochemically characterized as a 140 kDa complex. The purified found a row in 1A13.INFO that was not parsed out complex when reconstituted in a planar lipid bilayer behaved as an anion-selective channel. It was regulated by Ca 2+ via a calmodulin kinase II-dependent found a row in 1A13.INFO that was not parsed out mechanism. When the cRNA was injected into Xenopus oocytes, an outward rectifying, DIDS-sensitive, anion conductance was measured. A related gene, found a row in 1A13.INFO that was not parsed out Lu-ECAM, was cloned from the bovine aortic endothelial cell line, BAEC. It is expressed in the lung and spleen but not in the trachea. Homologues are found in found a row in 1A13.INFO that was not parsed out several mammals, and at least three paralogues(hCaCC-1-3) are present in humans, each with different tissue distributions. found a row in 1A13.INFO that was not parsed out [Transport and binding proteins, Anions]. Length = 863

>gnl|CDD|222279 pfam13639, zf-RING_2, Ring finger domain

 Score = 51.6 bits (124), Expect = 6e-09
 Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 3/46 (6%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICR 47
           CPICL     G+ V +    C H FH  C+   ++  N  CP+CR
Sbjct: 2  ECPICLDEFEPGEEVVVL--PCGHVFHKECLDKWLRSSNT-CPLCR 44

Length = 46

>gnl|CDD|234353 TIGR03788, marine_srt_targ, marine proteobacterial sortase target protein

 Score = 57.8 bits (140), Expect = 1e-08
 Identities = 55/237 (23%), Positives = 90/237 (37%), Gaps = 40/237 (16%)

Query: 149 AVLLRVCAPSLPNDADRAPIDLVTVLDVSGSMSSK-LPLLKRAVHFIIQNLGSADRLSIV 207
             L  V  P+    A   P +LV V+D SGSM+ + +   K A+   +  L   DR +I+
Sbjct: 253 YGLAMVMPPTEAAVAQVLPRELVFVIDTSGSMAGESIEQAKSALLLALDQLRPGDRFNII 312

Query: 208 IFSSVARRIFPLQRMTDSG-RENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVA 266
            F S    +FP+     +     A + +  L ++GGT +   L      L   R+  P +
Sbjct: 313 QFDSDVTLLFPVPVPATAHNLARARQFVAGLQADGGTEMAGALS---AAL---RDDGPES 366

Query: 267 S-----IILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFP 321
           S     ++ L+DG                 ++  NE A   L+                 
Sbjct: 367 SGALRQVVFLTDG-----------------AV-GNEDALFQLI---------RTKLGDSR 399

Query: 322 VHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSVVSQDVKLT 378
           + T G G   +S  M   A    G+F+FI +   +Q   ++    L      D+ LT
Sbjct: 400 LFTVGIGSAPNSYFMRKAAQFGRGSFTFIGSTDEVQRKMSQLFAKLEQPALTDIALT 456

Members of this protein family are restricted to the Proteobacteria. Each contains a C-terminal sortase-recognition motif, transmembrane domain, and basic residues cluster at the the C-terminus, and is encoded adjacent to a sortase gene. This protein is frequently the only sortase target in its genome, which is as unusual its occurrence in Gram-negative rather than Gram-positive genomes. Many bacteria with this system are marine. In addition to the LPXTG signal, members carry a vault protein inter-alpha-trypsin inhibitor domain (pfam08487) and a von Willebrand factor type A domain (pfam00092). Length = 596

>gnl|CDD|238733 cd01456, vWA_ywmD_type, VWA ywmD type:Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)

 Score = 54.0 bits (130), Expect = 3e-08
 Identities = 49/205 (23%), Positives = 77/205 (37%), Gaps = 46/205 (22%)

Query: 165 RAPIDLVTVLDVSGSMS-------SKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARR-- 215
           + P ++  VLD SGSM        ++L   K A+      L    RL +  FS       
Sbjct: 18  QLPPNVAIVLDNSGSMREVDGGGETRLDNAKAALDETANALPDGTRLGLWTFSGDGDNPL 77

Query: 216 -----IFPLQRMTDSG------RENAIRAINTLSSN-GGTNIVEGLKKGARVLEERRERS 263
                +                R     A+N+L +  G T +   L + A  ++  R   
Sbjct: 78  DVRVLVPKGCLTAPVNGFPSAQRSALDAALNSLQTPTGWTPLAAALAEAAAYVDPGR--- 134

Query: 264 PVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVH 323
            V  ++L++DG+DT          D      + ELA            KR    P   V+
Sbjct: 135 -VNVVVLITDGEDTC-------GPD--PCEVARELA------------KRRTPAPPIKVN 172

Query: 324 TFGFGLEHDSEAMHAIADASGGTFS 348
              FG + D   + AIA+A+GGT++
Sbjct: 173 VIDFGGDADRAELEAIAEATGGTYA 197

Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains. Not much is known about the function of the members of this subgroup. All members of this subgroup however have a conserved MIDAS motif. . Length = 206

>gnl|CDD|238751 cd01474, vWA_ATR, ATR (Anthrax Toxin Receptor): Anthrax toxin is a key virulence factor for Bacillus anthracis, the causative agent of anthrax

 Score = 51.4 bits (123), Expect = 2e-07
 Identities = 39/131 (29%), Positives = 59/131 (45%), Gaps = 16/131 (12%)

Query: 169 DLVTVLDVSGSMSSKLP----LLKRAVH-FIIQNLGSADRLSIVIFSSVARRIFPLQRMT 223
           DL  VLD SGS+++        +++ V  F    L    R S + FS+ A +I PL    
Sbjct: 6   DLYFVLDKSGSVAANWIEIYDFVEQLVDRFNSPGL----RFSFITFSTRATKILPLT--D 59

Query: 224 DSGREN-AIRAINTLSSNGGTNIVEGLKKGARVL--EERRERSPVASIILLSDGQDTHNV 280
           DS      +  +  ++ +G T I EGL+     +       R  V+ II L+DGQ   N 
Sbjct: 60  DSSAIIKGLEVLKKVTPSGQTYIHEGLENANEQIFNRNGGGRETVSVIIALTDGQLLLNG 119

Query: 281 LRNSYTQDEAS 291
             + Y + EA 
Sbjct: 120 --HKYPEHEAK 128

ATR is the cellular receptor for the anthrax protective antigen and facilitates entry of the toxin into cells. The VWA domain in ATR contains the toxin binding site and mediates interaction with protective antigen. The binding is mediated by divalent cations that binds to the MIDAS motif. These proteins are a family of vertebrate ECM receptors expressed by endothelial cells. Length = 185

>gnl|CDD|214546 smart00184, RING, Ring finger

 Score = 47.5 bits (113), Expect = 2e-07
 Identities = 16/44 (36%), Positives = 20/44 (45%), Gaps = 4/44 (9%)

Query: 3  CPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPIC 46
          CPICL    +          C H+F   CI   ++ GN  CPIC
Sbjct: 1  CPICLEEYLK----DPVILPCGHTFCRSCIRKWLESGNNTCPIC 40

E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s). Length = 40

>gnl|CDD|225187 COG2304, COG2304, Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 52.6 bits (126), Expect = 3e-07
 Identities = 50/220 (22%), Positives = 79/220 (35%), Gaps = 32/220 (14%)

Query: 151 LLRVCAPSLPNDADRA----PIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLS 205
           L       +   A       P +L   +D SGSM+   L L K A   ++  L   D LS
Sbjct: 17  LRLALVILIGAFAIDLDLLVPANLTLAIDTSGSMTGALLELAKSAAIELVNGLNPGDLLS 76

Query: 206 IVIFSSVARRIFPLQRMTDSGRENAIRAI-NTLSSNGGTNIVEGLKKGARVLEERRERSP 264
           IV F+  A  + P    T+  +E+   AI  +L + G T +   L     +  +   R  
Sbjct: 77  IVTFAGSADVLIPPTGATN--KESITAAIDQSLQAGGATAVEASLSLAVELAAKALPRGT 134

Query: 265 VASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHT 324
           +  I+LL+DG++           D +      +LA    +                 + T
Sbjct: 135 LNRILLLTDGENNL------GLVDPSRLSALAKLAAGKGI----------------VLDT 172

Query: 325 FGFGLE--HDSEAMHAIADASGGTFSFIETLSILQDAFAR 362
            G G +   D     A A      F ++ +LS  Q   A 
Sbjct: 173 LGLGDDVNEDELTGIAAAANGNLAFIYLSSLSEAQFVIAL 212

Length = 399

>gnl|CDD|238740 cd01463, vWA_VGCC_like, VWA Voltage gated Calcium channel like: Voltage-gated calcium channels are a complex of five proteins: alpha 1, beta 1, gamma, alpha 2 and delta

 Score = 48.9 bits (117), Expect = 1e-06
 Identities = 42/150 (28%), Positives = 70/150 (46%), Gaps = 16/150 (10%)

Query: 167 PIDLVTVLDVSGSMSSK-LPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFP-----LQ 220
           P D+V +LDVSGSM+ + L L K+ V  I+  L   D  +I+ FS+    + P     L 
Sbjct: 13  PKDIVILLDVSGSMTGQRLHLAKQTVSSILDTLSDNDFFNIITFSNEVNPVVPCFNDTLV 72

Query: 221 RMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVAS-------IILLSD 273
           + T S ++    A++ L + G  N  + L+    +L +  + +   S       I+L++D
Sbjct: 73  QATTSNKKVLKEALDMLEAKGIANYTKALEFAFSLLLKNLQSNHSGSRSQCNQAIMLITD 132

Query: 274 GQD--THNVLRNSYTQDEASSIPSNELAYL 301
           G       +  + Y  D+ S IP     YL
Sbjct: 133 GVPENYKEIF-DKYNWDKNSEIPVRVFTYL 161

The alpha 2 and delta subunits result from proteolytic processing of a single gene product and carries at its N-terminus the VWA and cache domains, The alpha 2 delta gene family has orthologues in D. melanogaster and C. elegans but none have been detected in aither A. thaliana or yeast. The exact biochemical function of the VWA domain is not known but the alpha 2 delta complex has been shown to regulate various functional properties of the channel complex. Length = 190

>gnl|CDD|147747 pfam05762, VWA_CoxE, VWA domain containing CoxE-like protein

 Score = 47.8 bits (114), Expect = 5e-06
 Identities = 31/116 (26%), Positives = 47/116 (40%), Gaps = 8/116 (6%)

Query: 164 DRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMT 223
            R P  LV +LDVSGSM+    +    +H +   L    R  +  F +    +    R  
Sbjct: 54  LRKPRRLVLLLDVSGSMADYSRIFLALLHAL---LAGRPRTRLFAFGTRLTDLTRALRER 110

Query: 224 DSGRENAIRAINTLSSN--GGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDT 277
           D     A+  ++    +  GGT I   L      L  R   S  A ++L+SDG + 
Sbjct: 111 D--PAEALLRVSARVEDWGGGTRIGAALAYFNE-LWTRPALSRGAVVVLVSDGLER 163

This family is annotated by SMART as containing a VWA (von Willebrand factor type A) domain. The exact function of this family is unknown. It is found as part of a CO oxidising (Cox) system operon is several bacteria. Length = 223

>gnl|CDD|215715 pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING finger)

 Score = 43.2 bits (102), Expect = 6e-06
 Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 4/44 (9%)

Query: 3  CPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPIC 46
          CPICL   +      +    C H F   CI + ++ GN  CP+C
Sbjct: 1  CPICLEEPKD----PVTILPCGHLFCSKCILSWLESGNVTCPLC 40

The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid. Many proteins containing a RING finger play a key role in the ubiquitination pathway. Length = 40

>gnl|CDD|234208 TIGR03436, acidobact_VWFA, VWFA-related Acidobacterial domain

 Score = 47.7 bits (114), Expect = 1e-05
 Identities = 50/219 (22%), Positives = 80/219 (36%), Gaps = 43/219 (19%)

Query: 166 APIDLVTVLDVSGSMSSKLPLLKRA-VHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTD 224
            P+ +  V+D SGSM + L   + A + F+   L   DR+ +V F++   R+  LQ  T 
Sbjct: 52  LPLTVGLVIDTSGSMRNDLDRARAAAIRFLKTVLRPNDRVFVVTFNT---RLRLLQDFTS 108

Query: 225 SGRE-----NAIRAINTLSSNGGTNIVEG--------------LKKGARVLEERRERSPV 265
             R      N ++       N     V                L++ A  L     R   
Sbjct: 109 DPRLLEAALNRLKPPLRTDYNSSGAFVRDGGGTALYDAITLAALEQLANALAGIPGRK-- 166

Query: 266 ASIILLSDGQDTHNVLRNSYTQDEASS--IPSNELAYLNLLPSSICLSKREAGQPTFPVH 323
            ++I++SDG D     R+  T + A      ++   Y      SI      A        
Sbjct: 167 -ALIVISDGGDN----RSRDTLERAIDAAQRADVAIY------SIDARGLRAPDLGAGAK 215

Query: 324 TFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFAR 362
               G     EA+  +A+ +GG   F    + L  AFA+
Sbjct: 216 AGLGG----PEALERLAEETGGRA-FYVNSNDLDGAFAQ 249

Members of this family are bacterial domains that include a region related to the von Willebrand factor type A (VWFA) domain (pfam00092). These domains are restricted to, and have undergone a large paralogous family expansion in, the Acidobacteria, including Solibacter usitatus and Acidobacterium capsulatum ATCC 51196. Length = 296

>gnl|CDD|238739 cd01462, VWA_YIEM_type, VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)

 Score = 45.0 bits (107), Expect = 1e-05
 Identities = 25/109 (22%), Positives = 54/109 (49%), Gaps = 5/109 (4%)

Query: 169 DLVTVLDVSGSMSSKLPLLKRAVHF-IIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGR 227
            ++ ++D SGSM      + +AV   +++   + +R + +I      +   + + TD   
Sbjct: 2   PVILLVDQSGSMYGAPEEVAKAVALALLRIALAENRDTYLILFDSEFQTKIVDK-TDDLE 60

Query: 228 ENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQD 276
           E  +  ++ +   GGT+I + L+    ++E R  R   A I+L++DG +
Sbjct: 61  E-PVEFLSGVQLGGGTDINKALRYALELIERRDPRK--ADIVLITDGYE 106

Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains. Members of this subgroup have a conserved MIDAS motif, however, their biochemical function is not well characterised. Length = 152

>gnl|CDD|238748 cd01471, vWA_micronemal_protein, Micronemal proteins: The Toxoplasma lytic cycle begins when the parasite actively invades a target cell

 Score = 45.1 bits (107), Expect = 2e-05
 Identities = 34/118 (28%), Positives = 59/118 (50%), Gaps = 11/118 (9%)

Query: 168 IDLVTVLDVSGSM--SSKLPLLKRAVHFIIQNLGSAD---RLSIVIFSSVARRIFPLQRM 222
           +DL  ++D SGS+  S+ +  +   +H  +QNL  +     L +V FS+ A+ +  L   
Sbjct: 1   LDLYLLVDGSGSIGYSNWVTHVVPFLHTFVQNLNISPDEINLYLVTFSTNAKELIRLSSP 60

Query: 223 TDSGRE---NAIRAINTL-SSNGGTNIVEGLKKGARVLEERRERSPVAS--IILLSDG 274
             + ++   NAIRA+ +L   NG TN    L    + L + R     A   +I+++DG
Sbjct: 61  NSTNKDLALNAIRALLSLYYPNGSTNTTSALLVVEKHLFDTRGNRENAPQLVIIMTDG 118

In association with invasion, T. gondii sequentially discharges three sets of secretory organelles beginning with the micronemes, which contain adhesive proteins involved in parasite attachment to a host cell. Deployed as protein complexes, several micronemal proteins possess vertebrate-derived adhesive sequences that function in binding receptors. The VWA domain likely mediates the protein-protein interactions of these with their interacting partners. Length = 186

>gnl|CDD|238749 cd01472, vWA_collagen, von Willebrand factor (vWF) type A domain; equivalent to the I-domain of integrins

 Score = 44.5 bits (106), Expect = 3e-05
 Identities = 32/125 (25%), Positives = 57/125 (45%), Gaps = 10/125 (8%)

Query: 168 IDLVTVLDVSGSM-SSKLPLLKRAVHFIIQNLG-SAD--RLSIVIFSSVARRIFPLQRMT 223
            D+V ++D S S+  S   L+K  V  +++ L    D  R+ +V +S   R  F L    
Sbjct: 1   ADIVFLVDGSESIGLSNFNLVKDFVKRVVERLDIGPDGVRVGVVQYSDDPRTEFYLNTYR 60

Query: 224 DSGRENAIRAINTLSS-NGGTNIVEGLKKGARVL--EERRERSPVASI-ILLSDGQDTHN 279
              +++ + A+  L    GGTN  + LK     L  E    R  V  + ++++DG+   +
Sbjct: 61  S--KDDVLEAVKNLRYIGGGTNTGKALKYVRENLFTEASGSREGVPKVLVVITDGKSQDD 118

Query: 280 VLRNS 284
           V   +
Sbjct: 119 VEEPA 123

This domain has a variety of functions including: intermolecular adhesion, cell migration, signalling, transcription, and DNA repair. In integrins these domains form heterodimers while in vWF it forms homodimers and multimers. There are different interaction surfaces of this domain as seen by its complexes with collagen with either integrin or human vWFA. In integrins collagen binding occurs via the metal ion-dependent adhesion site (MIDAS) and involves three surface loops located on the upper surface of the molecule. In human vWFA, collagen binding is thought to occur on the bottom of the molecule and does not involve the vestigial MIDAS motif. Length = 164

>gnl|CDD|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)

 Score = 41.3 bits (97), Expect = 3e-05
 Identities = 17/46 (36%), Positives = 22/46 (47%), Gaps = 5/46 (10%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICR 47
           CPICL  LR      +    C H F   CI   ++  ++ CPICR
Sbjct: 4  ECPICLDLLRD----PVVLTPCGHVFCRECILRYLKKKSK-CPICR 44

Length = 45

>gnl|CDD|238744 cd01467, vWA_BatA_type, VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)

 Score = 44.6 bits (106), Expect = 3e-05
 Identities = 31/120 (25%), Positives = 53/120 (44%), Gaps = 17/120 (14%)

Query: 168 IDLVTVLDVSGSMS-------SKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQ 220
            D++  LDVSGSM        S+L   K  +   I      DR+ +V+F+  A   F   
Sbjct: 3   RDIMIALDVSGSMLAQDFVKPSRLEAAKEVLSDFIDRR-ENDRIGLVVFAGAA---FTQA 58

Query: 221 RMTDSGRENAIRAINTLS---SNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDT 277
            +T   RE+    +  +    +  GT I + +    + L+    +  V  I+LL+DG++ 
Sbjct: 59  PLT-LDRESLKELLEDIKIGLAGQGTAIGDAIGLAIKRLKNSEAKERV--IVLLTDGENN 115

Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains. Members of this subgroup are bacterial in origin. They are typified by the presence of a MIDAS motif. Length = 180

>gnl|CDD|221705 pfam12678, zf-rbx1, RING-H2 zinc finger

 Score = 42.0 bits (99), Expect = 4e-05
 Identities = 15/54 (27%), Positives = 21/54 (38%), Gaps = 9/54 (16%)

Query: 2  TCPICLGSL--------RRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICR 47
           C IC              G    +   EC H+FH  CI+  ++     CP+CR
Sbjct: 21 VCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLK-TRNTCPLCR 73

There are 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding. The protein, of which this domain is the conserved region, participates in diverse functions relevant to chromosome metabolism and cell cycle control. Length = 73

>gnl|CDD|238753 cd01476, VWA_integrin_invertebrates, VWA_integrin (invertebrates): Integrins are a family of cell surface receptors that have diverse functions in cell-cell and cell-extracellular matrix interactions

 Score = 43.9 bits (104), Expect = 5e-05
 Identities = 31/117 (26%), Positives = 54/117 (46%), Gaps = 16/117 (13%)

Query: 169 DLVTVLDVSGSM----SSKLPLLKRAV-HFIIQNLGSADRLSIVIFSSVARRI--FPLQR 221
           DL+ VLD SGS+          ++R V    I    +A R++++ +S   R+   F L +
Sbjct: 2   DLLFVLDSSGSVRGKFEKYKKYIERIVEGLEIGP--TATRVALITYSGRGRQRVRFNLPK 59

Query: 222 MTDSGRENAIRAINTLSSNGG-TNIVEGLKKGARVLEE---RRERSPVASIILLSDG 274
             D   E  +  ++ L   GG T     ++   + L+    RRE  P   +++L+DG
Sbjct: 60  HND--GEELLEKVDNLRFIGGTTATGAAIEVALQQLDPSEGRREGIPKV-VVVLTDG 113

Because of their involvement in many biologically important adhesion processes, integrins are conserved across a wide range of multicellular animals. Integrins from invertebrates have been identified from six phyla. There are no data to date to suggest any immunological functions for the invertebrate integrins. The members of this sub-group have the conserved MIDAS motif that is charateristic of this domain suggesting the involvement of the integrins in the recognition and binding of multi-ligands. Length = 163

>gnl|CDD|224161 COG1240, ChlD, Mg-chelatase subunit ChlD [Coenzyme metabolism]

 Score = 44.3 bits (105), Expect = 8e-05
 Identities = 32/120 (26%), Positives = 58/120 (48%), Gaps = 16/120 (13%)

Query: 165 RAPIDLVTVLDVSGSMSS--KLPLLKRAVHFIIQNLGSA----DRLSIVIFS-SVARRIF 217
           RA   +V V+D SGSM++  ++   K A    +  L  A    D+++++ F    A  + 
Sbjct: 76  RAGNLIVFVVDASGSMAARRRMAAAKGA---ALSLLRDAYQRRDKVAVIAFRGEKAELLL 132

Query: 218 PLQRMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSP--VASIILLSDGQ 275
           P    T S    A RA+  L + G T + + L++   VL   + R P     +++++DG+
Sbjct: 133 P---PTSSVEL-AERALERLPTGGKTPLADALRQAYEVLAREKRRGPDRRPVMVVITDGR 188

Length = 261

>gnl|CDD|238741 cd01464, vWA_subfamily, VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)

 Score = 42.7 bits (101), Expect = 1e-04
 Identities = 38/132 (28%), Positives = 60/132 (45%), Gaps = 33/132 (25%)

Query: 165 RAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGSADR----------LSIVIFSSVAR 214
           R PI L+  LD SGSM+ + P+   A++  +Q L S  R          +S++ F S AR
Sbjct: 3   RLPIYLL--LDTSGSMAGE-PI--EALNQGLQMLQSELRQDPYALESVEISVITFDSAAR 57

Query: 215 RIFPLQRMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERS---------PV 265
            I PL   T             L+++GGT++   L+     ++ R +R          P 
Sbjct: 58  VIVPL---TPLESFQP----PRLTASGGTSMGAALELALDCIDRRVQRYRADQKGDWRPW 110

Query: 266 ASIILLSDGQDT 277
             + LL+DG+ T
Sbjct: 111 --VFLLTDGEPT 120

Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains. Members of this subgroup have no assigned function. This subfamily is typified by the presence of a conserved MIDAS motif. Length = 176

>gnl|CDD|225281 COG2425, COG2425, Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 27/118 (22%), Positives = 48/118 (40%), Gaps = 9/118 (7%)

Query: 164 DRAPIDLVTVLDVSGSMSSKLPLLKRAV--HFIIQNLGSADRLSIVIFSSVARRIFPLQR 221
              P+  + +LD SGSMS       +AV    +   L       +++F S        ++
Sbjct: 271 SEGPV--ILLLDKSGSMSGFKEQWAKAVALALMRIALAENRDCYVILFDSEVIEYELYEK 328

Query: 222 MTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHN 279
                 E  I  + +    GGT+I + L+     L+ R      A I++++DG+D   
Sbjct: 329 --KIDIEELIEFL-SYVFGGGTDITKALRSALEDLKSRELFK--ADIVVITDGEDERL 381

Length = 437

>gnl|CDD|227521 COG5194, APC11, Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]

 Score = 37.1 bits (86), Expect = 0.003
 Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 1/49 (2%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEW 50
          TCP C   +  G    +    C+H+FH  CI   +     +CP+ R  W
Sbjct: 33 TCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKG-VCPLDRQTW 80

Length = 88

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	634
TIGR03788	596	marine_srt_targ marine proteobacterial sortase tar	99.93
cd01466	155	vWA_C3HC4_type VWA C3HC4-type: Von Willebrand fact	99.93
cd01465	170	vWA_subgroup VWA subgroup: Von Willebrand factor t	99.92
cd01463	190	vWA_VGCC_like VWA Voltage gated Calcium channel li	99.92
cd01470	198	vWA_complement_factors Complement factors B and C2	99.91
PRK13685	326	hypothetical protein; Provisional	99.9
TIGR00868	863	hCaCC calcium-activated chloride channel protein 1	99.9
cd01461	171	vWA_interalpha_trypsin_inhibitor vWA_interalpha tr	99.9
PF13768	155	VWA_3: von Willebrand factor type A domain	99.89
cd01456	206	vWA_ywmD_type VWA ywmD type:Von Willebrand factor	99.88
cd01451	178	vWA_Magnesium_chelatase Magnesium chelatase: Mg-ch	99.87
cd01480	186	vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI	99.86
TIGR03436	296	acidobact_VWFA VWFA-related Acidobacterial domain.	99.86
cd01453	183	vWA_transcription_factor_IIH_type Transcription fa	99.86
cd01474	185	vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxi	99.86
cd01467	180	vWA_BatA_type VWA BatA type: Von Willebrand factor	99.84
cd01472	164	vWA_collagen von Willebrand factor (vWF) type A do	99.83
cd01464	176	vWA_subfamily VWA subfamily: Von Willebrand factor	99.82
PF13519	172	VWA_2: von Willebrand factor type A domain; PDB: 3	99.82
cd01477	193	vWA_F09G8-8_type VWA F09G8.8 type: Von Willebrand	99.81
cd01471	186	vWA_micronemal_protein Micronemal proteins: The To	99.81
cd01475	224	vWA_Matrilin VWA_Matrilin: In cartilaginous plate,	99.8
cd01469	177	vWA_integrins_alpha_subunit Integrins are a class	99.79
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	99.78
cd01473	192	vWA_CTRP CTRP for CS protein-TRAP-related protein:	99.77
PTZ00441	576	sporozoite surface protein 2 (SSP2); Provisional	99.76
cd01482	164	vWA_collagen_alphaI-XII-like Collagen: The extrace	99.76
COG1240	261	ChlD Mg-chelatase subunit ChlD [Coenzyme metabolis	99.75
cd01476	163	VWA_integrin_invertebrates VWA_integrin (invertebr	99.74
cd01455	191	vWA_F11C1-5a_type Von Willebrand factor type A (vW	99.74
cd01450	161	vWFA_subfamily_ECM Von Willebrand factor type A (v	99.73
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	99.73
PF14624	80	Vwaint: VWA / Hh protein intein-like	99.72
cd01454	174	vWA_norD_type norD type: Denitrifying bacteria con	99.71
PF00092	178	VWA: von Willebrand factor type A domain; InterPro	99.68
cd01462	152	VWA_YIEM_type VWA YIEM type: Von Willebrand factor	99.68
smart00327	177	VWA von Willebrand factor (vWF) type A domain. VWA	99.68
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	99.64
cd01481	165	vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(V	99.63
cd00198	161	vWFA Von Willebrand factor type A (vWA) domain was	99.59
PLN00162	761	transport protein sec23; Provisional	99.57
COG4245	207	TerY Uncharacterized protein encoded in toxicity p	99.54
cd01452	187	VWA_26S_proteasome_subunit 26S proteasome plays a	99.53
KOG1985	887	consensus Vesicle coat complex COPII, subunit SEC2	99.53
cd01457	199	vWA_ORF176_type VWA ORF176 type: Von Willebrand fa	99.51
PTZ00395	1560	Sec24-related protein; Provisional	99.5
KOG2353	1104	consensus L-type voltage-dependent Ca2+ channel, a	99.42
KOG1984	1007	consensus Vesicle coat complex COPII, subunit SFB3	99.35
PF10138	200	vWA-TerF-like: vWA found in TerF C terminus ; Inte	99.35
cd01460	266	vWA_midasin VWA_Midasin: Midasin is a member of th	99.34
cd01458	218	vWA_ku Ku70/Ku80 N-terminal domain. The Ku78 heter	99.25
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.17
COG5028	861	Vesicle coat complex COPII, subunit SEC24/subunit	99.13
cd01479	244	Sec24-like Sec24-like: Protein and membrane traffi	99.07
PRK10997	487	yieM hypothetical protein; Provisional	99.06
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.02
cd01468	239	trunk_domain trunk domain. COPII-coated vesicles c	99.02
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.0
COG2425	437	Uncharacterized protein containing a von Willebran	98.97
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	98.95
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.91
PF04811	243	Sec23_trunk: Sec23/Sec24 trunk domain; InterPro: I	98.9
cd01478	267	Sec23-like Sec23-like: Protein and membrane traffi	98.88
COG2304	399	Uncharacterized protein containing a von Willebran	98.83
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.79
PF04056	193	Ssl1: Ssl1-like; InterPro: IPR007198 Ssl1-like pro	98.78
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.77
PHA02929	238	N1R/p28-like protein; Provisional	98.73
PHA02926	242	zinc finger-like protein; Provisional	98.72
PF05762	222	VWA_CoxE: VWA domain containing CoxE-like protein;	98.71
KOG1986	745	consensus Vesicle coat complex COPII, subunit SEC2	98.7
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.7
KOG3768	888	consensus DEAD box RNA helicase [General function	98.68
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.65
PF11775	219	CobT_C: Cobalamin biosynthesis protein CobT VWA do	98.64
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.57
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.55
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.55
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.53
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.52
COG4867	652	Uncharacterized protein with a von Willebrand fact	98.52
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	98.52
PF06707	205	DUF1194: Protein of unknown function (DUF1194); In	98.44
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.4
COG4548	637	NorD Nitric oxide reductase activation protein [In	98.4
PF09967	126	DUF2201: VWA-like domain (DUF2201); InterPro: IPR0	98.37
PF14634	44	zf-RING_5: zinc-RING finger domain	98.36
KOG2807	378	consensus RNA polymerase II transcription initiati	98.36
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.35
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.33
TIGR01651	600	CobT cobaltochelatase, CobT subunit. This model de	98.3
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.27
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.27
smart00187	423	INB Integrin beta subunits (N-terminal portion of	98.26
KOG2884	259	consensus 26S proteasome regulatory complex, subun	98.24
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.23
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.19
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.13
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.1
cd01459	254	vWA_copine_like VWA Copine: Copines are phospholip	98.07
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.06
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.02
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	97.99
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	97.86
PRK05325	401	hypothetical protein; Provisional	97.85
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.84
TIGR00627	279	tfb4 transcription factor tfb4. This family is bas	97.77
PF03731	224	Ku_N: Ku70/Ku80 N-terminal alpha/beta domain; Inte	97.69
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.67
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.67
PF00362	426	Integrin_beta: Integrin, beta chain; InterPro: IPR	97.65
PF04285	421	DUF444: Protein of unknown function (DUF444); Inte	97.63
TIGR02877	371	spore_yhbH sporulation protein YhbH. This protein	97.57
COG3552	395	CoxE Protein containing von Willebrand factor type	97.51
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.49
COG5148	243	RPN10 26S proteasome regulatory complex, subunit R	97.43
PF12034	183	DUF3520: Domain of unknown function (DUF3520); Int	97.42
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.39
PF03850	276	Tfb4: Transcription factor Tfb4; InterPro: IPR0046	97.39
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.39
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	97.36
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	97.32
PF11443	534	DUF2828: Domain of unknown function (DUF2828); Int	97.28
COG5242	296	TFB4 RNA polymerase II transcription initiation/nu	97.26
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.21
TIGR00578	584	ku70 ATP-dependent DNA helicase ii, 70 kDa subunit	97.19
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.19
COG4547	620	CobT Cobalamin biosynthesis protein CobT (nicotina	97.16
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.0
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	96.83
COG5152	259	Uncharacterized conserved protein, contains RING a	96.74
KOG1327	529	consensus Copine [Signal transduction mechanisms]	96.67
KOG4445	368	consensus Uncharacterized conserved protein, conta	96.64
COG5047	755	SEC23 Vesicle coat complex COPII, subunit SEC23 [I	96.64
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	96.62
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.55
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.52
PF11265	226	Med25_VWA: Mediator complex subunit 25 von Willebr	96.51
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	96.48
PF07002	146	Copine: Copine; InterPro: IPR010734 This represent	96.45
COG2718	423	Uncharacterized conserved protein [Function unknow	96.39
KOG2660	331	consensus Locus-specific chromosome binding protei	96.32
COG5151	421	SSL1 RNA polymerase II transcription initiation/nu	96.31
KOG2487	314	consensus RNA polymerase II transcription initiati	96.14
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.95
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	95.92
PF08033	96	Sec23_BS: Sec23/Sec24 beta-sandwich domain; InterP	95.89
COG3864	396	Uncharacterized protein conserved in bacteria [Fun	95.87
KOG0297	391	consensus TNF receptor-associated factor [Signal t	95.8
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.47
KOG1226	783	consensus Integrin beta subunit (N-terminal portio	95.3
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.11
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	94.79
PHA03096	284	p28-like protein; Provisional	94.57
COG5175	480	MOT2 Transcriptional repressor [Transcription]	94.18
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	94.14
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	93.9
PF04641	260	Rtf2: Rtf2 RING-finger	93.8
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.62
PHA02862	156	5L protein; Provisional	93.48
KOG3039	303	consensus Uncharacterized conserved protein [Funct	93.47
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	93.41
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	93.2
COG1721	416	Uncharacterized conserved protein (some members co	93.12
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	92.92
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	92.91
PHA02825	162	LAP/PHD finger-like protein; Provisional	92.81
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	92.75
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	92.57
KOG1940	276	consensus Zn-finger protein [General function pred	92.13
KOG1001	674	consensus Helicase-like transcription factor HLTF/	92.01
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	91.88
COG5236	493	Uncharacterized conserved protein, contains RING Z	91.87
KOG4739	233	consensus Uncharacterized protein involved in syna	91.72
KOG4465	598	consensus Uncharacterized conserved protein [Funct	91.15
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	90.09
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	89.88
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	89.71
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	88.92
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	88.62
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	87.86
KOG4849	498	consensus mRNA cleavage factor I subunit/CPSF subu	86.84
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	86.84
KOG0298	1394	consensus DEAD box-containing helicase-like transc	86.71
PF14569	80	zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.	86.03
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	84.79
KOG3053	293	consensus Uncharacterized conserved protein [Funct	84.51
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	82.5
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	82.0
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	81.82
KOG3579	352	consensus Predicted E3 ubiquitin ligase [Posttrans	80.74
KOG3899	381	consensus Uncharacterized conserved protein [Funct	80.5
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	80.23

>TIGR03788 marine_srt_targ marine proteobacterial sortase target protein

Probab=99.93  E-value=2.9e-24  Score=244.15  Aligned_cols=232  Identities=25%  Similarity=0.332  Sum_probs=187.2

Q ss_pred             eEEEEEEeCCCCCCCCCCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCc-ccCHH
Q 043643          148 FAVLLRVCAPSLPNDADRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQ-RMTDS  225 (634)
Q Consensus       148 ~~v~v~~~ap~~~~~~~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~-~~t~~  225 (634)
                      .++++.+.+|.......+.|.+++||||+||||.| +++.+|.++..++..|.++|+|+||.|++.+..++|.. ..+..
T Consensus       252 ~y~~~~~~pp~~~~~~~~~p~~vvfvlD~SgSM~g~~i~~ak~al~~~l~~L~~~d~~~ii~F~~~~~~~~~~~~~~~~~  331 (596)
T TIGR03788       252 RYGLAMVMPPTEAAVAQVLPRELVFVIDTSGSMAGESIEQAKSALLLALDQLRPGDRFNIIQFDSDVTLLFPVPVPATAH  331 (596)
T ss_pred             cEEEEEEeCCCccccccCCCceEEEEEECCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEECCcceEeccccccCCHH
Confidence            34566676665334557888999999999999999 99999999999999999999999999999999988753 56677


Q ss_pred             HHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhch
Q 043643          226 GRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLP  305 (634)
Q Consensus       226 ~~~~~~~~I~~l~~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~  305 (634)
                      +++.+..+|+.+.++|||+++.||..|++... ....+..+.|||||||..+                  +...+.+.+.
T Consensus       332 ~~~~a~~~i~~l~a~GgT~l~~aL~~a~~~~~-~~~~~~~~~iillTDG~~~------------------~~~~~~~~~~  392 (596)
T TIGR03788       332 NLARARQFVAGLQADGGTEMAGALSAALRDDG-PESSGALRQVVFLTDGAVG------------------NEDALFQLIR  392 (596)
T ss_pred             HHHHHHHHHhhCCCCCCccHHHHHHHHHHhhc-ccCCCceeEEEEEeCCCCC------------------CHHHHHHHHH
Confidence            88899999999999999999999999998742 2223556789999999753                  1223333322


Q ss_pred             hhhhccccccCCCCeeEEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHHHHHhhccccceeeeeEEEEEecCCC
Q 043643          306 SSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAG  385 (634)
Q Consensus       306 ~~i~~~~~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~l~~l~s~va~~~~l~v~~~~~~  385 (634)
                          .     ...+++||+||||.+.|..+|+.||+.++|.|+++.+.+++...+.+.+..+.+++.+++++.+..    
T Consensus       393 ----~-----~~~~~ri~tvGiG~~~n~~lL~~lA~~g~G~~~~i~~~~~~~~~~~~~l~~~~~p~l~~v~v~~~~----  459 (596)
T TIGR03788       393 ----T-----KLGDSRLFTVGIGSAPNSYFMRKAAQFGRGSFTFIGSTDEVQRKMSQLFAKLEQPALTDIALTFDN----  459 (596)
T ss_pred             ----H-----hcCCceEEEEEeCCCcCHHHHHHHHHcCCCEEEECCCHHHHHHHHHHHHHhhcCeEEEEEEEEEcC----
Confidence                1     234689999999999999999999999999999999999999999999999999999999988752    


Q ss_pred             eEEEEecCCCCCcccccCCceeEEEcCCccCCcEEEEEEEE
Q 043643          386 VRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYL  426 (634)
Q Consensus       386 v~i~~v~~~~~~~~~~~~~~~~~i~lg~l~~~e~r~~lv~l  426 (634)
                      ..+..+               ..-.+++||.|++..+..++
T Consensus       460 ~~~~~v---------------~P~~~p~L~~g~~l~v~g~~  485 (596)
T TIGR03788       460 GNAADV---------------YPSPIPDLYRGEPLQIAIKL  485 (596)
T ss_pred             Ccccee---------------ccCCCccccCCCEEEEEEEe
Confidence            111112               22347899999987777664

Members of this protein family are restricted to the Proteobacteria. Each contains a C-terminal sortase-recognition motif, transmembrane domain, and basic residues cluster at the the C-terminus, and is encoded adjacent to a sortase gene. This protein is frequently the only sortase target in its genome, which is as unusual its occurrence in Gram-negative rather than Gram-positive genomes. Many bacteria with this system are marine. In addition to the LPXTG signal, members carry a vault protein inter-alpha-trypsin inhibitor domain (pfam08487) and a von Willebrand factor type A domain (pfam00092).

>cd01466 vWA_C3HC4_type VWA C3HC4-type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)

Probab=99.93  E-value=2.8e-25  Score=209.31  Aligned_cols=154  Identities=54%  Similarity=0.902  Sum_probs=136.5

Q ss_pred             ceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCCCCCCcHH
Q 043643          168 IDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNGGTNIV  246 (634)
Q Consensus       168 ~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~~GgT~i~  246 (634)
                      +|++||||.||||.+ |++.+|+++..+++.|.++|+++||+|++.+..+.|+++++..++..+.+.|+.+.++|+|+++
T Consensus         1 ~~v~~vlD~S~SM~~~rl~~ak~a~~~l~~~l~~~~~~~li~F~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~g~T~~~   80 (155)
T cd01466           1 VDLVAVLDVSGSMAGDKLQLVKHALRFVISSLGDADRLSIVTFSTSAKRLSPLRRMTAKGKRSAKRVVDGLQAGGGTNVV   80 (155)
T ss_pred             CcEEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCcceEEEEEecCCccccCCCcccCHHHHHHHHHHHHhccCCCCccHH
Confidence            589999999999999 9999999999999999999999999999999999999988888889999999999999999999


Q ss_pred             HHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEE
Q 043643          247 EGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFG  326 (634)
Q Consensus       247 ~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G  326 (634)
                      .||..|.+.+......+..+.|||||||.++.+.                  ..   ..         ....++.||+||
T Consensus        81 ~al~~a~~~~~~~~~~~~~~~iillTDG~~~~~~------------------~~---~~---------~~~~~v~v~~ig  130 (155)
T cd01466          81 GGLKKALKVLGDRRQKNPVASIMLLSDGQDNHGA------------------VV---LR---------ADNAPIPIHTFG  130 (155)
T ss_pred             HHHHHHHHHHhhcccCCCceEEEEEcCCCCCcch------------------hh---hc---------ccCCCceEEEEe
Confidence            9999999999765555566789999999987430                  11   11         234789999999


Q ss_pred             ccCCCChHHHHHHHhhcCCeEEEcC
Q 043643          327 FGLEHDSEAMHAIADASGGTFSFIE  351 (634)
Q Consensus       327 ~G~~~d~~~L~~iA~~tgG~~~~i~  351 (634)
                      ||.+.+...|+.||+.+||+|||+.
T Consensus       131 ig~~~~~~~l~~iA~~t~G~~~~~~  155 (155)
T cd01466         131 LGASHDPALLAFIAEITGGTFSYVK  155 (155)
T ss_pred             cCCCCCHHHHHHHHhccCceEEEeC
Confidence            9999999999999999999999974

Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most,

>cd01465 vWA_subgroup VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)

Probab=99.92  E-value=4e-24  Score=204.11  Aligned_cols=169  Identities=29%  Similarity=0.483  Sum_probs=143.2

Q ss_pred             ceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCCCCCCcHH
Q 043643          168 IDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNGGTNIV  246 (634)
Q Consensus       168 ~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~~GgT~i~  246 (634)
                      ++++||||+||||.+ +++.+|.++..++..|.++++++||.|++....++|++..  .++..+...|+.+.++|+|+++
T Consensus         1 ~~~~~vlD~S~SM~~~~~~~~k~a~~~~~~~l~~~~~v~li~f~~~~~~~~~~~~~--~~~~~l~~~l~~~~~~g~T~~~   78 (170)
T cd01465           1 LNLVFVIDRSGSMDGPKLPLVKSALKLLVDQLRPDDRLAIVTYDGAAETVLPATPV--RDKAAILAAIDRLTAGGSTAGG   78 (170)
T ss_pred             CcEEEEEECCCCCCChhHHHHHHHHHHHHHhCCCCCEEEEEEecCCccEEecCccc--chHHHHHHHHHcCCCCCCCCHH
Confidence            589999999999999 9999999999999999999999999999999999887643  3457888899999999999999


Q ss_pred             HHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEE
Q 043643          247 EGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFG  326 (634)
Q Consensus       247 ~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G  326 (634)
                      .||..|++.+.....+...+.|||+|||.++.+..              ....+.+.+.        ..+..++.||+||
T Consensus        79 ~al~~a~~~~~~~~~~~~~~~ivl~TDG~~~~~~~--------------~~~~~~~~~~--------~~~~~~v~i~~i~  136 (170)
T cd01465          79 AGIQLGYQEAQKHFVPGGVNRILLATDGDFNVGET--------------DPDELARLVA--------QKRESGITLSTLG  136 (170)
T ss_pred             HHHHHHHHHHHhhcCCCCeeEEEEEeCCCCCCCCC--------------CHHHHHHHHH--------HhhcCCeEEEEEE
Confidence            99999999997665444557799999999886532              1223333322        1245789999999


Q ss_pred             ccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHH
Q 043643          327 FGLEHDSEAMHAIADASGGTFSFIETLSILQDAF  360 (634)
Q Consensus       327 ~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f  360 (634)
                      ||.+.+...|+.||..++|.|+++++..+++++|
T Consensus       137 ~g~~~~~~~l~~ia~~~~g~~~~~~~~~~~~~~~  170 (170)
T cd01465         137 FGDNYNEDLMEAIADAGNGNTAYIDNLAEARKVF  170 (170)
T ss_pred             eCCCcCHHHHHHHHhcCCceEEEeCCHHHHHhhC
Confidence            9998999999999999999999999999998875

Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if n

>cd01463 vWA_VGCC_like VWA Voltage gated Calcium channel like: Voltage-gated calcium channels are a complex of five proteins: alpha 1, beta 1, gamma, alpha 2 and delta

Probab=99.92  E-value=6e-24  Score=207.18  Aligned_cols=167  Identities=26%  Similarity=0.353  Sum_probs=136.6

Q ss_pred             CCCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCc-----ccCHHHHHHHHHHHhc
Q 043643          163 ADRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQ-----RMTDSGRENAIRAINT  236 (634)
Q Consensus       163 ~~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~-----~~t~~~~~~~~~~I~~  236 (634)
                      ....|.+++||||+||||.+ +|+.+|.++..+++.|.++|+++||+|++.++.++|+.     ..+..+++.+...|+.
T Consensus         9 ~~~~p~~vv~llD~SgSM~~~~l~~ak~~~~~ll~~l~~~d~v~lv~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~   88 (190)
T cd01463           9 AATSPKDIVILLDVSGSMTGQRLHLAKQTVSSILDTLSDNDFFNIITFSNEVNPVVPCFNDTLVQATTSNKKVLKEALDM   88 (190)
T ss_pred             cccCCceEEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCCCEEEEEEeCCCeeEEeeecccceEecCHHHHHHHHHHHhh
Confidence            34679999999999999999 99999999999999999999999999999999998754     2345678899999999


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhc-------cCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhh
Q 043643          237 LSSNGGTNIVEGLKKGARVLEERR-------ERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSIC  309 (634)
Q Consensus       237 l~~~GgT~i~~aL~~A~~~l~~~~-------~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~  309 (634)
                      |.++|+|+++.||..|++.+....       .++..+.|||||||.++...                 ..+..+..    
T Consensus        89 l~~~G~T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~~~-----------------~~~~~~~~----  147 (190)
T cd01463          89 LEAKGIANYTKALEFAFSLLLKNLQSNHSGSRSQCNQAIMLITDGVPENYK-----------------EIFDKYNW----  147 (190)
T ss_pred             CCCCCcchHHHHHHHHHHHHHHhhhcccccccCCceeEEEEEeCCCCCcHh-----------------HHHHHhcc----
Confidence            999999999999999999997621       12345689999999987421                 11221110    


Q ss_pred             ccccccCCCCeeEEEEEccCCC-ChHHHHHHHhhcCCeEEEcCCh
Q 043643          310 LSKREAGQPTFPVHTFGFGLEH-DSEAMHAIADASGGTFSFIETL  353 (634)
Q Consensus       310 ~~~~~~~~~~i~I~t~G~G~~~-d~~~L~~iA~~tgG~~~~i~~~  353 (634)
                      .   .....++.||+||||.+. |..+|+.||..++|+|+++++.
T Consensus       148 ~---~~~~~~v~i~tigiG~~~~d~~~L~~lA~~~~G~~~~i~~~  189 (190)
T cd01463         148 D---KNSEIPVRVFTYLIGREVTDRREIQWMACENKGYYSHIQSL  189 (190)
T ss_pred             c---ccCCCcEEEEEEecCCccccchHHHHHHhhcCCeEEEcccC
Confidence            0   112357999999999985 8999999999999999999875

The alpha 2 and delta subunits result from proteolytic processing of a single gene product and carries at its N-terminus the VWA and cache domains, The alpha 2 delta gene family has orthologues in D. melanogaster and C. elegans but none have been detected in aither A. thaliana or yeast. The exact biochemical function of the VWA domain is not known but the alpha 2 delta complex has been shown to regulate various functional properties of the channel complex.

>cd01470 vWA_complement_factors Complement factors B and C2 are two critical proteases for complement activation

Probab=99.91  E-value=1.7e-23  Score=205.35  Aligned_cols=180  Identities=19%  Similarity=0.310  Sum_probs=138.7

Q ss_pred             ceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCC-----
Q 043643          168 IDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLS-----  238 (634)
Q Consensus       168 ~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~-----  238 (634)
                      +|++||||+||||.+ +|+.+|.++..+++.|.   +.+|++||+|++.++.++|++.....++..+...|+.+.     
T Consensus         1 ~di~~vlD~SgSM~~~~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   80 (198)
T cd01470           1 LNIYIALDASDSIGEEDFDEAKNAIKTLIEKISSYEVSPRYEIISYASDPKEIVSIRDFNSNDADDVIKRLEDFNYDDHG   80 (198)
T ss_pred             CcEEEEEECCCCccHHHHHHHHHHHHHHHHHccccCCCceEEEEEecCCceEEEecccCCCCCHHHHHHHHHhCCccccc
Confidence            589999999999998 99999999999999986   379999999999999999998766667888999998875     


Q ss_pred             CCCCCcHHHHHHHHHHHHHhhcc------CCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccc
Q 043643          239 SNGGTNIVEGLKKGARVLEERRE------RSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSK  312 (634)
Q Consensus       239 ~~GgT~i~~aL~~A~~~l~~~~~------~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~  312 (634)
                      .+|||+++.||..+.+.+.....      .+..+.|||||||.++.+....           .....+..++..  ....
T Consensus        81 ~~ggT~~~~Al~~~~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~~~~-----------~~~~~~~~~~~~--~~~~  147 (198)
T cd01470          81 DKTGTNTAAALKKVYERMALEKVRNKEAFNETRHVIILFTDGKSNMGGSPL-----------PTVDKIKNLVYK--NNKS  147 (198)
T ss_pred             CccchhHHHHHHHHHHHHHHHHhcCccchhhcceEEEEEcCCCcCCCCChh-----------HHHHHHHHHHhc--cccc
Confidence            35899999999999988742211      1234679999999998653211           001122222110  0000


Q ss_pred             cccCCCCeeEEEEEccCCCChHHHHHHHhhcCC--eEEEcCChhhHHHHH
Q 043643          313 REAGQPTFPVHTFGFGLEHDSEAMHAIADASGG--TFSFIETLSILQDAF  360 (634)
Q Consensus       313 ~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG--~~~~i~~~~~l~~~f  360 (634)
                      ...+..++.||+||+|.+.|...|+.||..++|  ++|++.+.++|.++|
T Consensus       148 ~~~~~~~v~i~~iGvG~~~~~~~L~~iA~~~~g~~~~f~~~~~~~l~~v~  197 (198)
T cd01470         148 DNPREDYLDVYVFGVGDDVNKEELNDLASKKDNERHFFKLKDYEDLQEVF  197 (198)
T ss_pred             ccchhcceeEEEEecCcccCHHHHHHHhcCCCCCceEEEeCCHHHHHHhc
Confidence            012456899999999999999999999999998  578899999998876

They both contain three CCP or Sushi domains, a trypsin-type serine protease domain and a single VWA domain with a conserved metal ion dependent adhesion site referred commonly as the MIDAS motif. Orthologues of these molecules are found from echinoderms to chordates. During complement activation, the CCP domains are cleaved off, resulting in the formation of an active protease that cleaves and activates complement C3. Complement C2 is in the classical pathway and complement B is in the alternative pathway. The interaction of C2 with C4 and of factor B with C3b are both dependent on Mg2+ binding sites within the VWA domains and the VWA domain of factor B has been shown to mediate the binding of C3. This is consistent with the common inferred function of VWA domains as magnesium-dependent protein interaction domains.

>PRK13685 hypothetical protein; Provisional

Probab=99.90  E-value=6.3e-23  Score=216.33  Aligned_cols=179  Identities=26%  Similarity=0.350  Sum_probs=146.3

Q ss_pred             CCCCCceEEEEEeCCCCCCc------cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhc
Q 043643          163 ADRAPIDLVTVLDVSGSMSS------KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINT  236 (634)
Q Consensus       163 ~~r~p~dlv~VlD~SgSM~g------kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~  236 (634)
                      ..+.+.++|+|||+||||.+      ||+.+|+++..+++.+.++|+++||+|++++..+.|++    .+++.+...|+.
T Consensus        84 ~~~~~~~vvlvlD~S~SM~~~D~~p~RL~~ak~~~~~~l~~l~~~d~vglv~Fa~~a~~~~p~t----~d~~~l~~~l~~  159 (326)
T PRK13685         84 IPRNRAVVMLVIDVSQSMRATDVEPNRLAAAQEAAKQFADELTPGINLGLIAFAGTATVLVSPT----TNREATKNAIDK  159 (326)
T ss_pred             cCCCCceEEEEEECCccccCCCCCCCHHHHHHHHHHHHHHhCCCCCeEEEEEEcCceeecCCCC----CCHHHHHHHHHh
Confidence            45567899999999999984      89999999999999999999999999999999999988    578899999999


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhh------ccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhc
Q 043643          237 LSSNGGTNIVEGLKKGARVLEER------RERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICL  310 (634)
Q Consensus       237 l~~~GgT~i~~aL~~A~~~l~~~------~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~  310 (634)
                      +.++|+|++++||..|++.+...      ......+.|||+|||.++.+....           .....+. ...     
T Consensus       160 l~~~~~T~~g~al~~A~~~l~~~~~~~~~~~~~~~~~IILlTDG~~~~~~~~~-----------~~~~~~~-aa~-----  222 (326)
T PRK13685        160 LQLADRTATGEAIFTALQAIATVGAVIGGGDTPPPARIVLMSDGKETVPTNPD-----------NPRGAYT-AAR-----  222 (326)
T ss_pred             CCCCCCcchHHHHHHHHHHHHhhhcccccccCCCCCEEEEEcCCCCCCCCCCC-----------CcccHHH-HHH-----
Confidence            99999999999999999998642      112335679999999988653210           0000111 111     


Q ss_pred             cccccCCCCeeEEEEEccCC--------------CChHHHHHHHhhcCCeEEEcCChhhHHHHHHHHhh
Q 043643          311 SKREAGQPTFPVHTFGFGLE--------------HDSEAMHAIADASGGTFSFIETLSILQDAFARCIG  365 (634)
Q Consensus       311 ~~~~~~~~~i~I~t~G~G~~--------------~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~l~  365 (634)
                         .++..+|+||+||||.+              .|+..|++||+.|||.||++.+.++|.++|.++-.
T Consensus       223 ---~a~~~gi~i~~Ig~G~~~g~~~~~g~~~~~~~d~~~L~~iA~~tgG~~~~~~~~~~L~~if~~I~~  288 (326)
T PRK13685        223 ---TAKDQGVPISTISFGTPYGSVEINGQRQPVPVDDESLKKIAQLSGGEFYTAASLEELRAVYATLQQ  288 (326)
T ss_pred             ---HHHHcCCeEEEEEECCCCCCcCcCCceeeecCCHHHHHHHHHhcCCEEEEcCCHHHHHHHHHHHHH
Confidence               12457999999999974              47889999999999999999999999999998754

>TIGR00868 hCaCC calcium-activated chloride channel protein 1

Probab=99.90  E-value=1.3e-22  Score=231.32  Aligned_cols=185  Identities=25%  Similarity=0.348  Sum_probs=148.5

Q ss_pred             CCCCCCceEEEEEeCCCCCCc--cHHHHHHHHHHHH-HhcCCCCeEEEEEeCCCcEEEEcCcccCHH-HHHHHHHHHhcC
Q 043643          162 DADRAPIDLVTVLDVSGSMSS--KLPLLKRAVHFII-QNLGSADRLSIVIFSSVARRIFPLQRMTDS-GRENAIRAINTL  237 (634)
Q Consensus       162 ~~~r~p~dlv~VlD~SgSM~g--kl~~~K~al~~li-~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~-~~~~~~~~I~~l  237 (634)
                      .....+.++|||||+||||.+  ||..+|+|+..++ +.+.++|+++||+|++.+..+.||++++.. .++.+...+. +
T Consensus       299 ~lq~~~r~VVLVLDvSGSM~g~dRL~~lkqAA~~fL~~~l~~~DrVGLVtFsssA~vl~pLt~Its~~dr~aL~~~L~-~  377 (863)
T TIGR00868       299 LLKIRQRIVCLVLDKSGSMTVEDRLKRMNQAAKLFLLQTVEKGSWVGMVTFDSAAYIKNELIQITSSAERDALTANLP-T  377 (863)
T ss_pred             ecccCCceEEEEEECCccccccCHHHHHHHHHHHHHHHhCCCCCEEEEEEECCceeEeeccccCCcHHHHHHHHHhhc-c
Confidence            345566789999999999987  8999999987654 567889999999999999999999988764 4455555553 5


Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCC
Q 043643          238 SSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQ  317 (634)
Q Consensus       238 ~~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~  317 (634)
                      .++|||+|+.||..|+++|.....++..+.|||||||.++.+                  ......           .+.
T Consensus       378 ~A~GGT~I~~GL~~Alq~L~~~~~~~~~~~IILLTDGedn~~------------------~~~l~~-----------lk~  428 (863)
T TIGR00868       378 AASGGTSICSGLKAAFQVIKKSYQSTDGSEIVLLTDGEDNTI------------------SSCFEE-----------VKQ  428 (863)
T ss_pred             ccCCCCcHHHHHHHHHHHHHhcccccCCCEEEEEeCCCCCCH------------------HHHHHH-----------HHH
Confidence            689999999999999999987654455678999999998731                  111111           124


Q ss_pred             CCeeEEEEEccCCCChHHHHHHHhhcCCeEEEcCChh---hHHHHHHHHhhccccceeeeeEE
Q 043643          318 PTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLS---ILQDAFARCIGGLLSVVSQDVKL  377 (634)
Q Consensus       318 ~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~---~l~~~f~~~l~~l~s~va~~~~l  377 (634)
                      .+++|||||||.+.+. .|+.||+.|||.||++.+..   .|.++|.++..+..++..+.+.+
T Consensus       429 ~gVtI~TIg~G~dad~-~L~~IA~~TGG~~f~asd~~dl~~L~dAF~~issg~~~~~q~~lql  490 (863)
T TIGR00868       429 SGAIIHTIALGPSAAK-ELEELSDMTGGLRFYASDQADNNGLIDAFGALSSGNGSASQQSIQL  490 (863)
T ss_pred             cCCEEEEEEeCCChHH-HHHHHHHhcCCEEEEeCCHHHHHHHHHHHHHHhcccCccceeeEEe
Confidence            6999999999998764 58999999999999999765   57889999998888877666653

distributions. found a row in 1A13.INFO that was not parsed out

>cd01461 vWA_interalpha_trypsin_inhibitor vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin)

Probab=99.90  E-value=1.9e-22  Score=192.59  Aligned_cols=166  Identities=29%  Similarity=0.400  Sum_probs=137.8

Q ss_pred             CceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCc-ccCHHHHHHHHHHHhcCCCCCCCc
Q 043643          167 PIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQ-RMTDSGRENAIRAINTLSSNGGTN  244 (634)
Q Consensus       167 p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~-~~t~~~~~~~~~~I~~l~~~GgT~  244 (634)
                      |.+++||||+||||.+ +++.+|.++..++..|.++++++|++|++++..+.+.. ..+..+...+.+.|+.+.++|+|+
T Consensus         2 ~~~v~~vlD~S~SM~~~~~~~~~~al~~~l~~l~~~~~~~l~~Fs~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~T~   81 (171)
T cd01461           2 PKEVVFVIDTSGSMSGTKIEQTKEALLTALKDLPPGDYFNIIGFSDTVEEFSPSSVSATAENVAAAIEYVNRLQALGGTN   81 (171)
T ss_pred             CceEEEEEECCCCCCChhHHHHHHHHHHHHHhCCCCCEEEEEEeCCCceeecCcceeCCHHHHHHHHHHHHhcCCCCCcC
Confidence            7899999999999999 99999999999999999999999999999988876643 334556778888999999999999


Q ss_pred             HHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEE
Q 043643          245 IVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHT  324 (634)
Q Consensus       245 i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t  324 (634)
                      +..||..|++.+...  .+..+.|||+|||..+.                  ..++.+.+.        .+...+++||+
T Consensus        82 l~~al~~a~~~l~~~--~~~~~~iillTDG~~~~------------------~~~~~~~~~--------~~~~~~i~i~~  133 (171)
T cd01461          82 MNDALEAALELLNSS--PGSVPQIILLTDGEVTN------------------ESQILKNVR--------EALSGRIRLFT  133 (171)
T ss_pred             HHHHHHHHHHhhccC--CCCccEEEEEeCCCCCC------------------HHHHHHHHH--------HhcCCCceEEE
Confidence            999999999998652  34567899999998542                  123333222        12335899999


Q ss_pred             EEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHH
Q 043643          325 FGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAF  360 (634)
Q Consensus       325 ~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f  360 (634)
                      ||||.+.+...|+.||+.+||.|+++.+.+++.+.+
T Consensus       134 i~~g~~~~~~~l~~ia~~~gG~~~~~~~~~~~~~~~  169 (171)
T cd01461         134 FGIGSDVNTYLLERLAREGRGIARRIYETDDIESQL  169 (171)
T ss_pred             EEeCCccCHHHHHHHHHcCCCeEEEecChHHHHHHh
Confidence            999998999999999999999999999999887643

Bikunin confers the protease-inhibitor function while the heavy chains are involved in rendering stability to the extracellular matrix by binding to hyaluronic acid. The heavy chains carry the VWA domain with a conserved MIDAS motif. Although the exact role of the VWA domains remains unknown, it has been speculated to be involved in mediating protein-protein interactions with the components of the extracellular matrix.

>PF13768 VWA_3: von Willebrand factor type A domain

Probab=99.89  E-value=1.9e-22  Score=189.88  Aligned_cols=151  Identities=36%  Similarity=0.621  Sum_probs=129.5

Q ss_pred             eEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcC-cccCHHHHHHHHHHHhcCCC-CCCCcH
Q 043643          169 DLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPL-QRMTDSGRENAIRAINTLSS-NGGTNI  245 (634)
Q Consensus       169 dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl-~~~t~~~~~~~~~~I~~l~~-~GgT~i  245 (634)
                      |+|||||+|+||.| + +.+|+++..+++.|+++|+|+||.|++.+..++|- .+.+..+++.+.++|+.+.+ .|+|++
T Consensus         2 ~vvilvD~S~Sm~g~~-~~~k~al~~~l~~L~~~d~fnii~f~~~~~~~~~~~~~~~~~~~~~a~~~I~~~~~~~G~t~l   80 (155)
T PF13768_consen    2 DVVILVDTSGSMSGEK-ELVKDALRAILRSLPPGDRFNIIAFGSSVRPLFPGLVPATEENRQEALQWIKSLEANSGGTDL   80 (155)
T ss_pred             eEEEEEeCCCCCCCcH-HHHHHHHHHHHHhCCCCCEEEEEEeCCEeeEcchhHHHHhHHHHHHHHHHHHHhcccCCCccH
Confidence            79999999999999 7 99999999999999999999999999999888874 56788899999999999999 999999


Q ss_pred             HHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEE
Q 043643          246 VEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTF  325 (634)
Q Consensus       246 ~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~  325 (634)
                      ..||+.|++.+   ..++....|||||||.+..+                 ...+...+.    .     ....++||+|
T Consensus        81 ~~aL~~a~~~~---~~~~~~~~IilltDG~~~~~-----------------~~~i~~~v~----~-----~~~~~~i~~~  131 (155)
T PF13768_consen   81 LAALRAALALL---QRPGCVRAIILLTDGQPVSG-----------------EEEILDLVR----R-----ARGHIRIFTF  131 (155)
T ss_pred             HHHHHHHHHhc---ccCCCccEEEEEEeccCCCC-----------------HHHHHHHHH----h-----cCCCceEEEE
Confidence            99999999876   33456788999999997421                 123333332    1     2367999999


Q ss_pred             EccCCCChHHHHHHHhhcCCeEEE
Q 043643          326 GFGLEHDSEAMHAIADASGGTFSF  349 (634)
Q Consensus       326 G~G~~~d~~~L~~iA~~tgG~~~~  349 (634)
                      |||.+.+..+|+.||+.++|.|.|
T Consensus       132 ~~g~~~~~~~L~~LA~~~~G~~~f  155 (155)
T PF13768_consen  132 GIGSDADADFLRELARATGGSFHF  155 (155)
T ss_pred             EECChhHHHHHHHHHHcCCCEEEC
Confidence            999999999999999999999975

>cd01456 vWA_ywmD_type VWA ywmD type:Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)

Probab=99.88  E-value=4.5e-22  Score=196.53  Aligned_cols=169  Identities=28%  Similarity=0.374  Sum_probs=131.3

Q ss_pred             CCCCCCCceEEEEEeCCCCCC------c-cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCc------EEEEcCcccC----
Q 043643          161 NDADRAPIDLVTVLDVSGSMS------S-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVA------RRIFPLQRMT----  223 (634)
Q Consensus       161 ~~~~r~p~dlv~VlD~SgSM~------g-kl~~~K~al~~li~~L~~~drvsIV~Fs~~a------~~~~pl~~~t----  223 (634)
                      ....+.|.+++||||+||||.      + ||+.+|.++..+++.|.++++++||+|++..      +.++|..+++    
T Consensus        14 ~~~~~~~~~vv~vlD~SgSM~~~~~~~~~rl~~ak~a~~~~l~~l~~~~~v~lv~F~~~~~~~~~~~~~~p~~~~~~~~~   93 (206)
T cd01456          14 ETEPQLPPNVAIVLDNSGSMREVDGGGETRLDNAKAALDETANALPDGTRLGLWTFSGDGDNPLDVRVLVPKGCLTAPVN   93 (206)
T ss_pred             ccccCCCCcEEEEEeCCCCCcCCCCCcchHHHHHHHHHHHHHHhCCCCceEEEEEecCCCCCCccccccccccccccccC
Confidence            456778999999999999998      3 9999999999999999999999999999953      3333221111    


Q ss_pred             ---HHHHHHHHHHHhcCC-CCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHH
Q 043643          224 ---DSGRENAIRAINTLS-SNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELA  299 (634)
Q Consensus       224 ---~~~~~~~~~~I~~l~-~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~  299 (634)
                         ..++..+.+.|+.+. ++|+|+++.||..|.+.+.    .+..+.|||||||.++.+..              ....
T Consensus        94 ~~~~~~~~~l~~~i~~i~~~~G~T~l~~aL~~a~~~l~----~~~~~~iillTDG~~~~~~~--------------~~~~  155 (206)
T cd01456          94 GFPSAQRSALDAALNSLQTPTGWTPLAAALAEAAAYVD----PGRVNVVVLITDGEDTCGPD--------------PCEV  155 (206)
T ss_pred             CCCcccHHHHHHHHHhhcCCCCcChHHHHHHHHHHHhC----CCCcceEEEEcCCCccCCCC--------------HHHH
Confidence               146889999999998 9999999999999999985    23346799999999886421              0112


Q ss_pred             HHhhchhhhhccccccCCCCeeEEEEEccCCCChHHHHHHHhhcCCeE-EEcCChh
Q 043643          300 YLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTF-SFIETLS  354 (634)
Q Consensus       300 ~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~-~~i~~~~  354 (634)
                      ...+..    .   .....+|.||+||||.+.+...|+.||+.+||.| |.+.+..
T Consensus       156 ~~~~~~----~---~~~~~~i~i~~igiG~~~~~~~l~~iA~~tgG~~~~~~~~~~  204 (206)
T cd01456         156 ARELAK----R---RTPAPPIKVNVIDFGGDADRAELEAIAEATGGTYAYNQSDLA  204 (206)
T ss_pred             HHHHHH----h---cCCCCCceEEEEEecCcccHHHHHHHHHhcCCeEeccccccc
Confidence            222111    0   0123689999999999999999999999999999 7776654

Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if

>cd01451 vWA_Magnesium_chelatase Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto)

Probab=99.87  E-value=8.6e-21  Score=182.97  Aligned_cols=166  Identities=22%  Similarity=0.317  Sum_probs=129.8

Q ss_pred             EEEEEeCCCCCCc--cHHHHHHHHHHHHH-hcCCCCeEEEEEeCCC-cEEEEcCcccCHHHHHHHHHHHhcCCCCCCCcH
Q 043643          170 LVTVLDVSGSMSS--KLPLLKRAVHFIIQ-NLGSADRLSIVIFSSV-ARRIFPLQRMTDSGRENAIRAINTLSSNGGTNI  245 (634)
Q Consensus       170 lv~VlD~SgSM~g--kl~~~K~al~~li~-~L~~~drvsIV~Fs~~-a~~~~pl~~~t~~~~~~~~~~I~~l~~~GgT~i  245 (634)
                      ++||||+||||.+  |++.+|.++..++. .+.++|+++||+|++. +..++|++    .++..+...|+.+.++|+|++
T Consensus         3 v~lvlD~SgSM~~~~rl~~ak~a~~~~~~~~~~~~d~v~lv~F~~~~~~~~~~~t----~~~~~~~~~l~~l~~~G~T~l   78 (178)
T cd01451           3 VIFVVDASGSMAARHRMAAAKGAVLSLLRDAYQRRDKVALIAFRGTEAEVLLPPT----RSVELAKRRLARLPTGGGTPL   78 (178)
T ss_pred             EEEEEECCccCCCccHHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCceEEeCCC----CCHHHHHHHHHhCCCCCCCcH
Confidence            7899999999997  99999999988886 4578999999999975 77788887    456778889999999999999


Q ss_pred             HHHHHHHHHHHHh-hccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHH-HhhchhhhhccccccCCCCeeEE
Q 043643          246 VEGLKKGARVLEE-RRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAY-LNLLPSSICLSKREAGQPTFPVH  323 (634)
Q Consensus       246 ~~aL~~A~~~l~~-~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~-~~lv~~~i~~~~~~~~~~~i~I~  323 (634)
                      +.||..|++.+.. ...+...+.|||||||.++.|....              ... ..+..        ..+..+|.|+
T Consensus        79 ~~aL~~a~~~l~~~~~~~~~~~~ivliTDG~~~~g~~~~--------------~~~~~~~~~--------~l~~~gi~v~  136 (178)
T cd01451          79 AAGLLAAYELAAEQARDPGQRPLIVVITDGRANVGPDPT--------------ADRALAAAR--------KLRARGISAL  136 (178)
T ss_pred             HHHHHHHHHHHHHHhcCCCCceEEEEECCCCCCCCCCch--------------hHHHHHHHH--------HHHhcCCcEE
Confidence            9999999999832 2222345789999999998753211              111 22211        2245789999


Q ss_pred             EEEccCC-CChHHHHHHHhhcCCeEEEcCChhhHHHHHHHH
Q 043643          324 TFGFGLE-HDSEAMHAIADASGGTFSFIETLSILQDAFARC  363 (634)
Q Consensus       324 t~G~G~~-~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~  363 (634)
                      +||+|.+ .+..+|+.||+.+||.||+++|.+.  .+|..+
T Consensus       137 ~I~~~~~~~~~~~l~~iA~~tgG~~~~~~d~~~--~~~~~~  175 (178)
T cd01451         137 VIDTEGRPVRRGLAKDLARALGGQYVRLPDLSA--DAIASA  175 (178)
T ss_pred             EEeCCCCccCccHHHHHHHHcCCeEEEcCcCCH--HHHHHH
Confidence            9999865 5788999999999999999998864  345544

In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is a three sub-unit (BchI, BchD and BchH) enzyme with a novel arrangement of domains: the C-terminal helical domain is located behind the nucleotide binding site. The BchD domain contains a AAA domain at its N-terminus and a VWA domain at its C-terminus. The VWA domain has been speculated to be involved in mediating protein-protein interactions.

>cd01480 vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI) type: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions

Probab=99.86  E-value=3.2e-21  Score=187.34  Aligned_cols=163  Identities=20%  Similarity=0.215  Sum_probs=130.5

Q ss_pred             CceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC---------CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhc
Q 043643          167 PIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG---------SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINT  236 (634)
Q Consensus       167 p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~---------~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~  236 (634)
                      |+||+||||.||||.+ .++.+|+++..+++.|.         .++|++||+|++.+...+|++.. ..++..+.+.|++
T Consensus         2 ~~dvv~vlD~S~Sm~~~~~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs~~~~~~~~l~~~-~~~~~~l~~~i~~   80 (186)
T cd01480           2 PVDITFVLDSSESVGLQNFDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYSDQQEVEAGFLRD-IRNYTSLKEAVDN   80 (186)
T ss_pred             CeeEEEEEeCCCccchhhHHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEecCCceeeEecccc-cCCHHHHHHHHHh
Confidence            7899999999999998 99999999999998883         36899999999999999999743 3568899999999


Q ss_pred             CC-CCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhcccccc
Q 043643          237 LS-SNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREA  315 (634)
Q Consensus       237 l~-~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~  315 (634)
                      +. .+|+|+++.||..|.+.+.....++..+.|||+|||.++....                ..+...+.        .+
T Consensus        81 l~~~gg~T~~~~AL~~a~~~l~~~~~~~~~~~iillTDG~~~~~~~----------------~~~~~~~~--------~~  136 (186)
T cd01480          81 LEYIGGGTFTDCALKYATEQLLEGSHQKENKFLLVITDGHSDGSPD----------------GGIEKAVN--------EA  136 (186)
T ss_pred             CccCCCCccHHHHHHHHHHHHhccCCCCCceEEEEEeCCCcCCCcc----------------hhHHHHHH--------HH
Confidence            87 4899999999999999997633345678899999999753211                12222111        23


Q ss_pred             CCCCeeEEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhH
Q 043643          316 GQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSIL  356 (634)
Q Consensus       316 ~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l  356 (634)
                      +..+|.||+||+|. ++...|+.||..+++. |+.++..++
T Consensus       137 ~~~gi~i~~vgig~-~~~~~L~~IA~~~~~~-~~~~~~~~l  175 (186)
T cd01480         137 DHLGIKIFFVAVGS-QNEEPLSRIACDGKSA-LYRENFAEL  175 (186)
T ss_pred             HHCCCEEEEEecCc-cchHHHHHHHcCCcch-hhhcchhhh
Confidence            46799999999998 8999999999988887 555555444

The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.

>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain

Probab=99.86  E-value=2.8e-20  Score=194.09  Aligned_cols=175  Identities=23%  Similarity=0.312  Sum_probs=140.1

Q ss_pred             CCCceEEEEEeCCCCCCccHHHHHHHHHHHHHh-cCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCC----
Q 043643          165 RAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQN-LGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSS----  239 (634)
Q Consensus       165 r~p~dlv~VlD~SgSM~gkl~~~K~al~~li~~-L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~----  239 (634)
                      ..|++++||||.||||.+++..+|+++..+++. +.++|+++||.|++.+..+.+++    .++..+.+.|+.+.+    
T Consensus        51 ~~p~~vvlvlD~SgSM~~~~~~a~~a~~~~l~~~l~~~d~v~lv~f~~~~~~~~~~t----~~~~~l~~~l~~l~~~~~~  126 (296)
T TIGR03436        51 DLPLTVGLVIDTSGSMRNDLDRARAAAIRFLKTVLRPNDRVFVVTFNTRLRLLQDFT----SDPRLLEAALNRLKPPLRT  126 (296)
T ss_pred             CCCceEEEEEECCCCchHHHHHHHHHHHHHHHhhCCCCCEEEEEEeCCceeEeecCC----CCHHHHHHHHHhccCCCcc
Confidence            469999999999999999999999999999987 78999999999999999998887    557889999999877    


Q ss_pred             -----------CCCCcHHHHHHHHHH-HHHhhccC-CCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchh
Q 043643          240 -----------NGGTNIVEGLKKGAR-VLEERRER-SPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPS  306 (634)
Q Consensus       240 -----------~GgT~i~~aL~~A~~-~l~~~~~~-~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~  306 (634)
                                 +|+|+++.||..|.. .+...... ...+.|||||||.++.+                 ...+.+++. 
T Consensus       127 ~~~~~~~~~~~~g~T~l~~al~~aa~~~~~~~~~~~p~rk~iIllTDG~~~~~-----------------~~~~~~~~~-  188 (296)
T TIGR03436       127 DYNSSGAFVRDGGGTALYDAITLAALEQLANALAGIPGRKALIVISDGGDNRS-----------------RDTLERAID-  188 (296)
T ss_pred             ccccccccccCCCcchhHHHHHHHHHHHHHHhhcCCCCCeEEEEEecCCCcch-----------------HHHHHHHHH-
Confidence                       899999999977754 44333211 12467999999987642                 123443332 


Q ss_pred             hhhccccccCCCCeeEEEEEccCC-------------CChHHHHHHHhhcCCeEEEcCChhhHHHHHHHHhhcccc
Q 043643          307 SICLSKREAGQPTFPVHTFGFGLE-------------HDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLS  369 (634)
Q Consensus       307 ~i~~~~~~~~~~~i~I~t~G~G~~-------------~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~l~~l~s  369 (634)
                             .+...+|.||+||+|..             .+...|+.||+.|||.||++ +.++|..+|.++...+.+
T Consensus       189 -------~~~~~~v~vy~I~~~~~~~~~~~~~~~~~~~~~~~L~~iA~~TGG~~~~~-~~~~l~~~f~~i~~~~~~  256 (296)
T TIGR03436       189 -------AAQRADVAIYSIDARGLRAPDLGAGAKAGLGGPEALERLAEETGGRAFYV-NSNDLDGAFAQIAEELRS  256 (296)
T ss_pred             -------HHHHcCCEEEEeccCccccCCcccccccCCCcHHHHHHHHHHhCCeEecc-cCccHHHHHHHHHHHHhh
Confidence                   12357899999999842             25689999999999999999 889999999998876644

Members of this family are bacterial domains that include a region related to the von Willebrand factor type A (VWFA) domain (pfam00092). These domains are restricted to, and have undergone a large paralogous family expansion in, the Acidobacteria, including Solibacter usitatus and Acidobacterium capsulatum ATCC 51196.

>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme

Probab=99.86  E-value=7.9e-21  Score=183.66  Aligned_cols=164  Identities=18%  Similarity=0.307  Sum_probs=129.4

Q ss_pred             ceEEEEEeCCCCCCc------cHHHHHHHHHHHHHhc---CCCCeEEEEEe-CCCcEEEEcCcccCHHHHHHHHHHHhcC
Q 043643          168 IDLVTVLDVSGSMSS------KLPLLKRAVHFIIQNL---GSADRLSIVIF-SSVARRIFPLQRMTDSGRENAIRAINTL  237 (634)
Q Consensus       168 ~dlv~VlD~SgSM~g------kl~~~K~al~~li~~L---~~~drvsIV~F-s~~a~~~~pl~~~t~~~~~~~~~~I~~l  237 (634)
                      .|++++||+|+||..      ||+.+|.++..|++.+   .+.++++||+| ++.+..+.|++    .+.+.+...+..+
T Consensus         4 r~ivi~lD~S~SM~a~D~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~a~~~~PlT----~D~~~~~~~L~~~   79 (183)
T cd01453           4 RHLIIVIDCSRSMEEQDLKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGRAEKLTDLT----GNPRKHIQALKTA   79 (183)
T ss_pred             eEEEEEEECcHHHhcCCCCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCccEEEECCC----CCHHHHHHHhhcc
Confidence            589999999999984      9999999999999865   67899999999 79999999999    4455677777765


Q ss_pred             -CCCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccC
Q 043643          238 -SSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAG  316 (634)
Q Consensus       238 -~~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~  316 (634)
                       .+.|+|+++.||..|++.|.........+.|||+|||.+...                  .++.++..        .++
T Consensus        80 ~~~~G~t~l~~aL~~A~~~l~~~~~~~~~~iiil~sd~~~~~~------------------~~~~~~~~--------~l~  133 (183)
T cd01453          80 RECSGEPSLQNGLEMALESLKHMPSHGSREVLIIFSSLSTCDP------------------GNIYETID--------KLK  133 (183)
T ss_pred             cCCCCchhHHHHHHHHHHHHhcCCccCceEEEEEEcCCCcCCh------------------hhHHHHHH--------HHH
Confidence             667889999999999999975422223346888888865421                  11222211        123


Q ss_pred             CCCeeEEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHHHHH
Q 043643          317 QPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARC  363 (634)
Q Consensus       317 ~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~  363 (634)
                      +.+|+||+||||.+  ...|++||+.|||.||.+.|.++|.++|.+.
T Consensus       134 ~~~I~v~~IgiG~~--~~~L~~ia~~tgG~~~~~~~~~~l~~~~~~~  178 (183)
T cd01453         134 KENIRVSVIGLSAE--MHICKEICKATNGTYKVILDETHLKELLLEH  178 (183)
T ss_pred             HcCcEEEEEEechH--HHHHHHHHHHhCCeeEeeCCHHHHHHHHHhc
Confidence            57899999999964  4689999999999999999999888888764

Orthologues of these genes are found in all completed eukaryotic genomes and all these proteins contain a VWA domain. The p44 subunit of TFIIH functions as a DNA helicase in RNA polymerase II transcription initiation and DNA repair, and its transcriptional activity is dependent on its C-terminal Zn-binding domains. The function of the vWA domain is unclear, but may be involved in complex assembly. The MIDAS motif is not conserved in this sub-group.

>cd01474 vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxin is a key virulence factor for Bacillus anthracis, the causative agent of anthrax

Probab=99.86  E-value=3.3e-20  Score=180.03  Aligned_cols=178  Identities=23%  Similarity=0.276  Sum_probs=127.9

Q ss_pred             CCCceEEEEEeCCCCCCccHHHHHHHHHHHHHhc-CCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCCCCCC
Q 043643          165 RAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNL-GSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNGGT  243 (634)
Q Consensus       165 r~p~dlv~VlD~SgSM~gkl~~~K~al~~li~~L-~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~~GgT  243 (634)
                      ..++||+||||.||||.+.+...++.++.+++.+ .+++|++||+|++.++.++||+.... ......+.|+.+.++|+|
T Consensus         2 ~~~~Dvv~llD~SgSm~~~~~~~~~~~~~l~~~~~~~~~rvglv~Fs~~~~~~~~l~~~~~-~~~~~l~~l~~~~~~g~T   80 (185)
T cd01474           2 AGHFDLYFVLDKSGSVAANWIEIYDFVEQLVDRFNSPGLRFSFITFSTRATKILPLTDDSS-AIIKGLEVLKKVTPSGQT   80 (185)
T ss_pred             CCceeEEEEEeCcCchhhhHHHHHHHHHHHHHHcCCCCcEEEEEEecCCceEEEeccccHH-HHHHHHHHHhccCCCCCC
Confidence            3579999999999999983333445666666554 46899999999999999999985433 223334446777889999


Q ss_pred             cHHHHHHHHHHHHHhhc--cCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCee
Q 043643          244 NIVEGLKKGARVLEERR--ERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFP  321 (634)
Q Consensus       244 ~i~~aL~~A~~~l~~~~--~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~  321 (634)
                      +++.||..|.+.+....  .+...+.|||||||.++......            ......            ..+..++.
T Consensus        81 ~~~~aL~~a~~~l~~~~~~~r~~~~~villTDG~~~~~~~~~------------~~~~a~------------~l~~~gv~  136 (185)
T cd01474          81 YIHEGLENANEQIFNRNGGGRETVSVIIALTDGQLLLNGHKY------------PEHEAK------------LSRKLGAI  136 (185)
T ss_pred             cHHHHHHHHHHHHHhhccCCCCCCeEEEEEcCCCcCCCCCcc------------hHHHHH------------HHHHcCCE
Confidence            99999999999885322  22234779999999985211100            011111            12347899


Q ss_pred             EEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHHHHHhhccc
Q 043643          322 VHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLL  368 (634)
Q Consensus       322 I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~l~~l~  368 (634)
                      ||+||+| +++...|+.||..+++.|+...+++.|...+..+...+.
T Consensus       137 i~~vgv~-~~~~~~L~~iA~~~~~~f~~~~~~~~l~~~~~~~~~~~C  182 (185)
T cd01474         137 VYCVGVT-DFLKSQLINIADSKEYVFPVTSGFQALSGIIESVVKKAC  182 (185)
T ss_pred             EEEEeec-hhhHHHHHHHhCCCCeeEecCccHHHHHHHHHHHHHhhc
Confidence            9999994 688999999999776544456789999888888776654

ATR is the cellular receptor for the anthrax protective antigen and facilitates entry of the toxin into cells. The VWA domain in ATR contains the toxin binding site and mediates interaction with protective antigen. The binding is mediated by divalent cations that binds to the MIDAS motif. These proteins are a family of vertebrate ECM receptors expressed by endothelial cells.

>cd01467 vWA_BatA_type VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)

Probab=99.84  E-value=5.5e-20  Score=177.45  Aligned_cols=158  Identities=26%  Similarity=0.350  Sum_probs=123.8

Q ss_pred             CceEEEEEeCCCCCCc-------cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcC--
Q 043643          167 PIDLVTVLDVSGSMSS-------KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTL--  237 (634)
Q Consensus       167 p~dlv~VlD~SgSM~g-------kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l--  237 (634)
                      ++|++||||+|+||..       +++.+|.++..++.. .++|+++||.|++.+..++|++    .++..+.+.++.+  
T Consensus         2 ~~~vv~vlD~S~SM~~~~~~~~~r~~~a~~~~~~~~~~-~~~~~v~lv~f~~~~~~~~~~~----~~~~~~~~~l~~l~~   76 (180)
T cd01467           2 GRDIMIALDVSGSMLAQDFVKPSRLEAAKEVLSDFIDR-RENDRIGLVVFAGAAFTQAPLT----LDRESLKELLEDIKI   76 (180)
T ss_pred             CceEEEEEECCcccccccCCCCCHHHHHHHHHHHHHHh-CCCCeEEEEEEcCCeeeccCCC----ccHHHHHHHHHHhhh
Confidence            6899999999999973       688999998888775 4699999999999998888887    3355555555554  


Q ss_pred             -CCCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccC
Q 043643          238 -SSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAG  316 (634)
Q Consensus       238 -~~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~  316 (634)
                       .++|+|+++.||..+++.+....  ...+.|||+|||.++.+...              .......           +.
T Consensus        77 ~~~~g~T~l~~al~~a~~~l~~~~--~~~~~iiliTDG~~~~g~~~--------------~~~~~~~-----------~~  129 (180)
T cd01467          77 GLAGQGTAIGDAIGLAIKRLKNSE--AKERVIVLLTDGENNAGEID--------------PATAAEL-----------AK  129 (180)
T ss_pred             cccCCCCcHHHHHHHHHHHHHhcC--CCCCEEEEEeCCCCCCCCCC--------------HHHHHHH-----------HH
Confidence             46899999999999999997543  33467999999998754221              1122111           12


Q ss_pred             CCCeeEEEEEccC-----------CCChHHHHHHHhhcCCeEEEcCChhhH
Q 043643          317 QPTFPVHTFGFGL-----------EHDSEAMHAIADASGGTFSFIETLSIL  356 (634)
Q Consensus       317 ~~~i~I~t~G~G~-----------~~d~~~L~~iA~~tgG~~~~i~~~~~l  356 (634)
                      ..+|+||+||||.           +.+...|+.||+.|||.|+++.+.++|
T Consensus       130 ~~gi~i~~i~ig~~~~~~~~~~~~~~~~~~l~~la~~tgG~~~~~~~~~~~  180 (180)
T cd01467         130 NKGVRIYTIGVGKSGSGPKPDGSTILDEDSLVEIADKTGGRIFRALDGFEL  180 (180)
T ss_pred             HCCCEEEEEEecCCCCCcCCCCcccCCHHHHHHHHHhcCCEEEEecCcccC
Confidence            4689999999998           578889999999999999999887653

Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if

>cd01472 vWA_collagen von Willebrand factor (vWF) type A domain; equivalent to the I-domain of integrins

Probab=99.83  E-value=5.7e-20  Score=174.74  Aligned_cols=152  Identities=24%  Similarity=0.356  Sum_probs=124.8

Q ss_pred             ceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCC-CCC
Q 043643          168 IDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSS-NGG  242 (634)
Q Consensus       168 ~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~-~Gg  242 (634)
                      +|||||||+||||.+ +++.+|+++..++..|.   .++|++||+|++++..++|++.  ..+++.+.+.|+.+.+ +|+
T Consensus         1 ~Dvv~vlD~SgSm~~~~~~~~k~~~~~~~~~l~~~~~~~~~giv~Fs~~~~~~~~~~~--~~~~~~~~~~l~~l~~~~g~   78 (164)
T cd01472           1 ADIVFLVDGSESIGLSNFNLVKDFVKRVVERLDIGPDGVRVGVVQYSDDPRTEFYLNT--YRSKDDVLEAVKNLRYIGGG   78 (164)
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHHhhcccCCCCeEEEEEEEcCceeEEEecCC--CCCHHHHHHHHHhCcCCCCC
Confidence            589999999999999 99999999999999886   4679999999999999999985  3457888899999887 688


Q ss_pred             CcHHHHHHHHHHHHHhh---ccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCC
Q 043643          243 TNIVEGLKKGARVLEER---RERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPT  319 (634)
Q Consensus       243 T~i~~aL~~A~~~l~~~---~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~  319 (634)
                      |+++.||..|.+.+...   ..++..+.|||+|||.++.+.                ......     +       +..+
T Consensus        79 T~~~~al~~a~~~l~~~~~~~~~~~~~~iiliTDG~~~~~~----------------~~~~~~-----l-------~~~g  130 (164)
T cd01472          79 TNTGKALKYVRENLFTEASGSREGVPKVLVVITDGKSQDDV----------------EEPAVE-----L-------KQAG  130 (164)
T ss_pred             chHHHHHHHHHHHhCCcccCCCCCCCEEEEEEcCCCCCchH----------------HHHHHH-----H-------HHCC
Confidence            99999999999999753   234556789999999766321                011111     1       2478


Q ss_pred             eeEEEEEccCCCChHHHHHHHhhcCCeEEEc
Q 043643          320 FPVHTFGFGLEHDSEAMHAIADASGGTFSFI  350 (634)
Q Consensus       320 i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i  350 (634)
                      |.|++||+|.. +...|+.||..++|.|.|.
T Consensus       131 v~i~~ig~g~~-~~~~L~~ia~~~~~~~~~~  160 (164)
T cd01472         131 IEVFAVGVKNA-DEEELKQIASDPKELYVFN  160 (164)
T ss_pred             CEEEEEECCcC-CHHHHHHHHCCCchheEEe
Confidence            99999999976 9999999999999988765

This domain has a variety of functions including: intermolecular adhesion, cell migration, signalling, transcription, and DNA repair. In integrins these domains form heterodimers while in vWF it forms homodimers and multimers. There are different interaction surfaces of this domain as seen by its complexes with collagen with either integrin or human vWFA. In integrins collagen binding occurs via the metal ion-dependent adhesion site (MIDAS) and involves three surface loops located on the upper surface of the molecule. In human vWFA, collagen binding is thought to occur on the bottom of the molecule and does not involve the vestigial MIDAS motif.

>cd01464 vWA_subfamily VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)

Probab=99.82  E-value=1.6e-19  Score=173.76  Aligned_cols=144  Identities=23%  Similarity=0.384  Sum_probs=112.5

Q ss_pred             CceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCC------CCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCC
Q 043643          167 PIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGS------ADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSS  239 (634)
Q Consensus       167 p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~------~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~  239 (634)
                      .++++||||+||||.+ +++.+|+++..+++.|.+      +++++||+|++.++.++|++.+..       ..++.+.+
T Consensus         3 ~~~v~~llD~SgSM~~~~~~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F~~~a~~~~~l~~~~~-------~~~~~l~~   75 (176)
T cd01464           3 RLPIYLLLDTSGSMAGEPIEALNQGLQMLQSELRQDPYALESVEISVITFDSAARVIVPLTPLES-------FQPPRLTA   75 (176)
T ss_pred             CCCEEEEEECCCCCCChHHHHHHHHHHHHHHHHhcChhhccccEEEEEEecCCceEecCCccHHh-------cCCCcccC
Confidence            5789999999999999 999999999999998864      569999999999999999984321       12456789


Q ss_pred             CCCCcHHHHHHHHHHHHHhhcc-------CCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccc
Q 043643          240 NGGTNIVEGLKKGARVLEERRE-------RSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSK  312 (634)
Q Consensus       240 ~GgT~i~~aL~~A~~~l~~~~~-------~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~  312 (634)
                      +|||+++.||..|++.|.....       ....+.|||||||.++...                 ....+.+.       
T Consensus        76 ~GgT~l~~aL~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~~~-----------------~~~~~~~~-------  131 (176)
T cd01464          76 SGGTSMGAALELALDCIDRRVQRYRADQKGDWRPWVFLLTDGEPTDDL-----------------TAAIERIK-------  131 (176)
T ss_pred             CCCCcHHHHHHHHHHHHHHHHHHhcccCcCCcCcEEEEEcCCCCCchH-----------------HHHHHHHH-------
Confidence            9999999999999999965321       1224579999999987421                 11111121       


Q ss_pred             cccCCCCeeEEEEEccCCCChHHHHHHHhh
Q 043643          313 REAGQPTFPVHTFGFGLEHDSEAMHAIADA  342 (634)
Q Consensus       313 ~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~  342 (634)
                       .....++.|++||+|.++|...|+.||..
T Consensus       132 -~~~~~~~~i~~igiG~~~~~~~L~~ia~~  160 (176)
T cd01464         132 -EARDSKGRIVACAVGPKADLDTLKQITEG  160 (176)
T ss_pred             -hhcccCCcEEEEEeccccCHHHHHHHHCC
Confidence             12345899999999999999999999963

Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if

>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A

Probab=99.82  E-value=1.1e-19  Score=172.93  Aligned_cols=160  Identities=33%  Similarity=0.547  Sum_probs=126.2

Q ss_pred             eEEEEEeCCCCCCc------cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCC----
Q 043643          169 DLVTVLDVSGSMSS------KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLS----  238 (634)
Q Consensus       169 dlv~VlD~SgSM~g------kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~----  238 (634)
                      |+|||+|.||||.+      +++.+|.++..+++.++ ++|++|+.|++.....+|++    .++..+.+.++.+.    
T Consensus         1 dvv~v~D~SgSM~~~~~~~~~~~~~~~~~~~~~~~~~-~~~v~l~~f~~~~~~~~~~t----~~~~~~~~~l~~~~~~~~   75 (172)
T PF13519_consen    1 DVVFVLDNSGSMNGYDGNRTRIDQAKDALNELLANLP-GDRVGLVSFSDSSRTLSPLT----SDKDELKNALNKLSPQGM   75 (172)
T ss_dssp             EEEEEEE-SGGGGTTTSSS-HHHHHHHHHHHHHHHHT-TSEEEEEEESTSCEEEEEEE----SSHHHHHHHHHTHHHHG-
T ss_pred             CEEEEEECCcccCCCCCCCcHHHHHHHHHHHHHHHCC-CCEEEEEEeccccccccccc----ccHHHHHHHhhccccccc
Confidence            79999999999996      59999999999999975 88999999999999999987    56777888888764    


Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCC
Q 043643          239 SNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQP  318 (634)
Q Consensus       239 ~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~  318 (634)
                      ++|+|++..||..|.+.+....  ...+.|||+|||.++.                    ...+.+.        .....
T Consensus        76 ~~~~t~~~~al~~a~~~~~~~~--~~~~~iv~iTDG~~~~--------------------~~~~~~~--------~~~~~  125 (172)
T PF13519_consen   76 PGGGTNLYDALQEAAKMLASSD--NRRRAIVLITDGEDNS--------------------SDIEAAK--------ALKQQ  125 (172)
T ss_dssp             -SSS--HHHHHHHHHHHHHC-S--SEEEEEEEEES-TTHC--------------------HHHHHHH--------HHHCT
T ss_pred             CccCCcHHHHHHHHHHHHHhCC--CCceEEEEecCCCCCc--------------------chhHHHH--------HHHHc
Confidence            4789999999999999997653  4557799999998762                    1111111        12357


Q ss_pred             CeeEEEEEccCCCCh-HHHHHHHhhcCCeEEEc-CChhhHHHHHHHH
Q 043643          319 TFPVHTFGFGLEHDS-EAMHAIADASGGTFSFI-ETLSILQDAFARC  363 (634)
Q Consensus       319 ~i~I~t~G~G~~~d~-~~L~~iA~~tgG~~~~i-~~~~~l~~~f~~~  363 (634)
                      +++||+||+|.+.+. ..|+.||+.+||.|+.+ .+..+|.++|.++
T Consensus       126 ~i~i~~v~~~~~~~~~~~l~~la~~tgG~~~~~~~~~~~l~~~~~~I  172 (172)
T PF13519_consen  126 GITIYTVGIGSDSDANEFLQRLAEATGGRYFHVDNDPEDLDDAFQQI  172 (172)
T ss_dssp             TEEEEEEEES-TT-EHHHHHHHHHHTEEEEEEE-SSSHHHHHHHHH-
T ss_pred             CCeEEEEEECCCccHHHHHHHHHHhcCCEEEEecCCHHHHHHHHhcC
Confidence            899999999988764 78999999999999999 6889999999874

>cd01477 vWA_F09G8-8_type VWA F09G8

Probab=99.81  E-value=5.9e-19  Score=171.60  Aligned_cols=159  Identities=14%  Similarity=0.233  Sum_probs=121.3

Q ss_pred             CCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCC---------CCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHH
Q 043643          164 DRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGS---------ADRLSIVIFSSVARRIFPLQRMTDSGRENAIRA  233 (634)
Q Consensus       164 ~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~---------~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~  233 (634)
                      ...++|||||||.|+||.. +++.+|+.+..++..+.-         ++||+||+|++.+++.+||+..  .++..+.+.
T Consensus        16 ~~~~~DivfvlD~S~Sm~~~~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs~~a~~~~~L~d~--~~~~~~~~a   93 (193)
T cd01477          16 KNLWLDIVFVVDNSKGMTQGGLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYNSNATVVADLNDL--QSFDDLYSQ   93 (193)
T ss_pred             ccceeeEEEEEeCCCCcchhhHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEccCceEEEEecccc--cCHHHHHHH
Confidence            5578999999999999987 999999999888776543         4799999999999999999843  345666666


Q ss_pred             Hhc----CCCCCCCcHHHHHHHHHHHHHhh---ccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchh
Q 043643          234 INT----LSSNGGTNIVEGLKKGARVLEER---RERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPS  306 (634)
Q Consensus       234 I~~----l~~~GgT~i~~aL~~A~~~l~~~---~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~  306 (634)
                      |+.    +..+|||+++.||..|.++|...   ..++..+.|||||||..+.+..              +.....+    
T Consensus        94 i~~~~~~~~~~ggT~ig~aL~~A~~~l~~~~~~~R~~v~kvvIllTDg~~~~~~~--------------~~~~~a~----  155 (193)
T cd01477          94 IQGSLTDVSSTNASYLDTGLQAAEQMLAAGKRTSRENYKKVVIVFASDYNDEGSN--------------DPRPIAA----  155 (193)
T ss_pred             HHHHhhccccCCcchHHHHHHHHHHHHHhhhccccCCCCeEEEEEecCccCCCCC--------------CHHHHHH----
Confidence            663    45678999999999999999753   1234567799999986653311              1111111    


Q ss_pred             hhhccccccCCCCeeEEEEEccCCCChHHHHHHHhhcCCeEEE
Q 043643          307 SICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSF  349 (634)
Q Consensus       307 ~i~~~~~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~  349 (634)
                             .++..||.||+||+|.+.|...|.+|++...+.|+|
T Consensus       156 -------~l~~~GI~i~tVGiG~~~d~~~~~~L~~ias~~~~~  191 (193)
T cd01477         156 -------RLKSTGIAIITVAFTQDESSNLLDKLGKIASPGMNF  191 (193)
T ss_pred             -------HHHHCCCEEEEEEeCCCCCHHHHHHHHHhcCCCCCC
Confidence                   234679999999999998888888898887655543

8 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of mo

>cd01471 vWA_micronemal_protein Micronemal proteins: The Toxoplasma lytic cycle begins when the parasite actively invades a target cell

Probab=99.81  E-value=7.8e-19  Score=170.50  Aligned_cols=168  Identities=20%  Similarity=0.280  Sum_probs=128.1

Q ss_pred             ceEEEEEeCCCCCCc-c-HHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHh---c-CC
Q 043643          168 IDLVTVLDVSGSMSS-K-LPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAIN---T-LS  238 (634)
Q Consensus       168 ~dlv~VlD~SgSM~g-k-l~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~---~-l~  238 (634)
                      +||+||||.||||.+ . ++.+|+++..+++.+.   ++.|++||+|++.+..++|++.....++..+...++   . ..
T Consensus         1 ~Dv~~vlD~SgSm~~~~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs~~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~~   80 (186)
T cd01471           1 LDLYLLVDGSGSIGYSNWVTHVVPFLHTFVQNLNISPDEINLYLVTFSTNAKELIRLSSPNSTNKDLALNAIRALLSLYY   80 (186)
T ss_pred             CcEEEEEeCCCCccchhhHHHHHHHHHHHHHhcccCCCceEEEEEEecCCceEEEECCCccccchHHHHHHHHHHHhCcC
Confidence            589999999999998 5 9999999999999885   467999999999999999998665556666333333   3 35


Q ss_pred             CCCCCcHHHHHHHHHHHHHhh--ccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccC
Q 043643          239 SNGGTNIVEGLKKGARVLEER--RERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAG  316 (634)
Q Consensus       239 ~~GgT~i~~aL~~A~~~l~~~--~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~  316 (634)
                      ++|+|+++.||..|.+.+...  ..++..+.|||+|||.++....                 .+. ...        ..+
T Consensus        81 ~~G~T~l~~aL~~a~~~l~~~~~~r~~~~~~villTDG~~~~~~~-----------------~~~-~a~--------~l~  134 (186)
T cd01471          81 PNGSTNTTSALLVVEKHLFDTRGNRENAPQLVIIMTDGIPDSKFR-----------------TLK-EAR--------KLR  134 (186)
T ss_pred             CCCCccHHHHHHHHHHHhhccCCCcccCceEEEEEccCCCCCCcc-----------------hhH-HHH--------HHH
Confidence            789999999999999999752  2234567899999999874311                 111 111        123


Q ss_pred             CCCeeEEEEEccCCCChHHHHHHHhhc-C---CeEEEcCChhhHHHHHH
Q 043643          317 QPTFPVHTFGFGLEHDSEAMHAIADAS-G---GTFSFIETLSILQDAFA  361 (634)
Q Consensus       317 ~~~i~I~t~G~G~~~d~~~L~~iA~~t-g---G~~~~i~~~~~l~~~f~  361 (634)
                      ..++.|++||||.+.|...|+.||... +   -..|...++++|...+.
T Consensus       135 ~~gv~v~~igiG~~~d~~~l~~ia~~~~~~~~~~~~~~~~~~~~~~~~~  183 (186)
T cd01471         135 ERGVIIAVLGVGQGVNHEENRSLVGCDPDDSPCPLYLQSSWSEVQNVIK  183 (186)
T ss_pred             HCCCEEEEEEeehhhCHHHHHHhcCCCCCCCCCCeeecCCHHHHHHHhh
Confidence            468999999999999999999999865 1   24566778887776654

In association with invasion, T. gondii sequentially discharges three sets of secretory organelles beginning with the micronemes, which contain adhesive proteins involved in parasite attachment to a host cell. Deployed as protein complexes, several micronemal proteins possess vertebrate-derived adhesive sequences that function in binding receptors. The VWA domain likely mediates the protein-protein interactions of these with their interacting partners.

>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity

Probab=99.80  E-value=1e-18  Score=174.87  Aligned_cols=173  Identities=22%  Similarity=0.339  Sum_probs=135.1

Q ss_pred             CCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCC-C
Q 043643          166 APIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSS-N  240 (634)
Q Consensus       166 ~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~-~  240 (634)
                      .|+||+||||.||||.+ +++.+|.++..+++.|.   ..+||+||+|++.+++++||+..  .++..+.+.|+.+.. +
T Consensus         1 ~~~DlvfllD~S~Sm~~~~~~~~k~f~~~l~~~l~~~~~~~rvglv~fs~~~~~~~~l~~~--~~~~~l~~~i~~i~~~~   78 (224)
T cd01475           1 GPTDLVFLIDSSRSVRPENFELVKQFLNQIIDSLDVGPDATRVGLVQYSSTVKQEFPLGRF--KSKADLKRAVRRMEYLE   78 (224)
T ss_pred             CCccEEEEEeCCCCCCHHHHHHHHHHHHHHHHhcccCCCccEEEEEEecCceeEEeccccc--CCHHHHHHHHHhCcCCC
Confidence            47999999999999998 99999999999999885   36799999999999999999854  346778888888865 5


Q ss_pred             CCCcHHHHHHHHHHHHHhh-c--cC---CCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccc
Q 043643          241 GGTNIVEGLKKGARVLEER-R--ER---SPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKRE  314 (634)
Q Consensus       241 GgT~i~~aL~~A~~~l~~~-~--~~---~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~  314 (634)
                      |+|+++.||..+.+.+-.. .  .+   +..+.|||||||.++..                    +.....        .
T Consensus        79 ~~t~tg~AL~~a~~~~~~~~~g~r~~~~~~~kvvillTDG~s~~~--------------------~~~~a~--------~  130 (224)
T cd01475          79 TGTMTGLAIQYAMNNAFSEAEGARPGSERVPRVGIVVTDGRPQDD--------------------VSEVAA--------K  130 (224)
T ss_pred             CCChHHHHHHHHHHHhCChhcCCCCCCCCCCeEEEEEcCCCCccc--------------------HHHHHH--------H
Confidence            7899999999998765321 1  11   12567899999987531                    111111        1


Q ss_pred             cCCCCeeEEEEEccCCCChHHHHHHHhhcC-CeEEEcCChhhHHHHHHHHhhcccc
Q 043643          315 AGQPTFPVHTFGFGLEHDSEAMHAIADASG-GTFSFIETLSILQDAFARCIGGLLS  369 (634)
Q Consensus       315 ~~~~~i~I~t~G~G~~~d~~~L~~iA~~tg-G~~~~i~~~~~l~~~f~~~l~~l~s  369 (634)
                      ++..+|.||+||+|. .+...|+.||..++ +.+|.+.+.+.|......+.+.+..
T Consensus       131 lk~~gv~i~~VgvG~-~~~~~L~~ias~~~~~~~f~~~~~~~l~~~~~~l~~~~C~  185 (224)
T cd01475         131 ARALGIEMFAVGVGR-ADEEELREIASEPLADHVFYVEDFSTIEELTKKFQGKICV  185 (224)
T ss_pred             HHHCCcEEEEEeCCc-CCHHHHHHHhCCCcHhcEEEeCCHHHHHHHhhhcccccCc
Confidence            245789999999997 67899999998764 5778899999888777776665553

Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.

>cd01469 vWA_integrins_alpha_subunit Integrins are a class of adhesion receptors that link the extracellular matrix to the cytoskeleton and cooperate with growth factor receptors to promote celll survival, cell cycle progression and cell migration

Probab=99.79  E-value=3.7e-18  Score=164.47  Aligned_cols=162  Identities=20%  Similarity=0.320  Sum_probs=127.5

Q ss_pred             ceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCC---CCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCC-CCCC
Q 043643          168 IDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGS---ADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLS-SNGG  242 (634)
Q Consensus       168 ~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~---~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~-~~Gg  242 (634)
                      +||+||||.||||.. .++.+|..+..+++.|..   ..||+||+|++.++..++|+...  +...+.++|+.+. .+|+
T Consensus         1 ~Di~fvlD~S~S~~~~~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs~~~~~~~~l~~~~--~~~~~~~~i~~~~~~~g~   78 (177)
T cd01469           1 MDIVFVLDGSGSIYPDDFQKVKNFLSTVMKKLDIGPTKTQFGLVQYSESFRTEFTLNEYR--TKEEPLSLVKHISQLLGL   78 (177)
T ss_pred             CcEEEEEeCCCCCCHHHHHHHHHHHHHHHHHcCcCCCCcEEEEEEECCceeEEEecCccC--CHHHHHHHHHhCccCCCC
Confidence            589999999999998 999999999999998874   68999999999999999998543  4567788888874 5678


Q ss_pred             CcHHHHHHHHHHHHHh---hccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCC
Q 043643          243 TNIVEGLKKGARVLEE---RRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPT  319 (634)
Q Consensus       243 T~i~~aL~~A~~~l~~---~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~  319 (634)
                      |+++.||..|.+.+-.   ...++..+.+||||||.++.+..              . ....   .        .++..+
T Consensus        79 T~~~~AL~~a~~~l~~~~~g~R~~~~kv~illTDG~~~~~~~--------------~-~~~~---~--------~~k~~g  132 (177)
T cd01469          79 TNTATAIQYVVTELFSESNGARKDATKVLVVITDGESHDDPL--------------L-KDVI---P--------QAEREG  132 (177)
T ss_pred             ccHHHHHHHHHHHhcCcccCCCCCCCeEEEEEeCCCCCCccc--------------c-HHHH---H--------HHHHCC
Confidence            9999999999998732   12235567899999999885421              0 1111   1        123579


Q ss_pred             eeEEEEEccCCCC----hHHHHHHHhhcCC-eEEEcCChhhHH
Q 043643          320 FPVHTFGFGLEHD----SEAMHAIADASGG-TFSFIETLSILQ  357 (634)
Q Consensus       320 i~I~t~G~G~~~d----~~~L~~iA~~tgG-~~~~i~~~~~l~  357 (634)
                      +.||+||+|.+.+    ...|+.||..+++ .+|.+.|.++|.
T Consensus       133 v~v~~Vgvg~~~~~~~~~~~L~~ias~p~~~h~f~~~~~~~l~  175 (177)
T cd01469         133 IIRYAIGVGGHFQRENSREELKTIASKPPEEHFFNVTDFAALK  175 (177)
T ss_pred             cEEEEEEecccccccccHHHHHHHhcCCcHHhEEEecCHHHhc
Confidence            9999999998765    5899999998865 566678877664

Integrins consist of an alpha and a beta sub-unit. Each sub-unit has a large extracellular portion, a single transmembrane segment and a short cytoplasmic domain. The N-terminal domains of the alpha and beta subunits associate to form the integrin headpiece, which contains the ligand binding site, whereas the C-terminal segments traverse the plasma membrane and mediate interaction with the cytoskeleton and with signalling proteins.The VWA domains present in the alpha subunits of integrins seem to be a chordate specific radiation of the gene family being found only in vertebrates. They mediate protein-protein interactions.

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=99.78  E-value=8.3e-18  Score=187.90  Aligned_cols=172  Identities=21%  Similarity=0.280  Sum_probs=135.3

Q ss_pred             CCCCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHh-cCCCCeEEEEEeCCC-cEEEEcCcccCHHHHHHHHHHHhcCC
Q 043643          162 DADRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQN-LGSADRLSIVIFSSV-ARRIFPLQRMTDSGRENAIRAINTLS  238 (634)
Q Consensus       162 ~~~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~-L~~~drvsIV~Fs~~-a~~~~pl~~~t~~~~~~~~~~I~~l~  238 (634)
                      ...+.+..++||||+||||.+ +|..+|.++..++.. +.+.|+|+||+|++. +.+++|++    .+...+...|+.|.
T Consensus       396 ~~~~~~~~vvfvvD~SGSM~~~rl~~aK~a~~~ll~~ay~~rD~v~lI~F~g~~a~~~lppT----~~~~~~~~~L~~l~  471 (584)
T PRK13406        396 FKQRSETTTIFVVDASGSAALHRLAEAKGAVELLLAEAYVRRDQVALVAFRGRGAELLLPPT----RSLVRAKRSLAGLP  471 (584)
T ss_pred             hhccCCccEEEEEECCCCCcHhHHHHHHHHHHHHHHhhcCCCCEEEEEEECCCceeEEcCCC----cCHHHHHHHHhcCC
Confidence            456778999999999999988 999999999888854 688999999999765 88889988    36778889999999


Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCC-CCHHHHHhhchhhhhccccccCC
Q 043643          239 SNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIP-SNELAYLNLLPSSICLSKREAGQ  317 (634)
Q Consensus       239 ~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~-~~~~~~~~lv~~~i~~~~~~~~~  317 (634)
                      ++|||+|+.||..|++.+.....++..+.|||||||.+|.+....        .+. ....+...+..        ....
T Consensus       472 ~gGgTpL~~gL~~A~~~l~~~~~~~~~~~iVLlTDG~~n~~~~~~--------~~~~~~~~~~~~~a~--------~~~~  535 (584)
T PRK13406        472 GGGGTPLAAGLDAAAALALQVRRKGMTPTVVLLTDGRANIARDGT--------AGRAQAEEDALAAAR--------ALRA  535 (584)
T ss_pred             CCCCChHHHHHHHHHHHHHHhccCCCceEEEEEeCCCCCCCcccc--------ccccchhhHHHHHHH--------HHHh
Confidence            999999999999999998776555556789999999999754210        000 00111111111        2345


Q ss_pred             CCeeEEEEEccCCCChHHHHHHHhhcCCeEEEcCChh
Q 043643          318 PTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLS  354 (634)
Q Consensus       318 ~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~  354 (634)
                      .+|.+++|++|... ...++.||+.+||.||.+++.+
T Consensus       536 ~gi~~~vId~g~~~-~~~~~~LA~~~gg~y~~l~~~~  571 (584)
T PRK13406        536 AGLPALVIDTSPRP-QPQARALAEAMGARYLPLPRAD  571 (584)
T ss_pred             cCCeEEEEecCCCC-cHHHHHHHHhcCCeEEECCCCC
Confidence            78999999999654 4679999999999999999764

>cd01473 vWA_CTRP CTRP for CS protein-TRAP-related protein: Adhesion of Plasmodium to host cells is an important phenomenon in parasite invasion and in malaria associated pathology

Probab=99.77  E-value=1.2e-17  Score=162.75  Aligned_cols=175  Identities=20%  Similarity=0.265  Sum_probs=130.9

Q ss_pred             ceEEEEEeCCCCCCc-cHH-HHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCC----
Q 043643          168 IDLVTVLDVSGSMSS-KLP-LLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLS----  238 (634)
Q Consensus       168 ~dlv~VlD~SgSM~g-kl~-~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~----  238 (634)
                      .||+||||.|+||.. .+. .+|..+..+++.|.   .++||+||.|++.++..+||+.....++..++++|+.+.    
T Consensus         1 ~Di~fllD~S~Si~~~~f~~~~~~f~~~lv~~l~i~~~~~rvgvv~fs~~~~~~~~~~~~~~~~~~~l~~~i~~l~~~~~   80 (192)
T cd01473           1 YDLTLILDESASIGYSNWRKDVIPFTEKIINNLNISKDKVHVGILLFAEKNRDVVPFSDEERYDKNELLKKINDLKNSYR   80 (192)
T ss_pred             CcEEEEEeCCCcccHHHHHHHHHHHHHHHHHhCccCCCccEEEEEEecCCceeEEecCcccccCHHHHHHHHHHHHhccC
Confidence            589999999999987 576 48999999999886   468999999999999999998655556778888777663    


Q ss_pred             CCCCCcHHHHHHHHHHHHHhhcc--CCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccC
Q 043643          239 SNGGTNIVEGLKKGARVLEERRE--RSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAG  316 (634)
Q Consensus       239 ~~GgT~i~~aL~~A~~~l~~~~~--~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~  316 (634)
                      .+|+|+++.||..|.+.+.....  ++..+.+||||||.++....                ..+.....        .++
T Consensus        81 ~~g~T~~~~AL~~a~~~~~~~~~~r~~~~kv~IllTDG~s~~~~~----------------~~~~~~a~--------~lk  136 (192)
T cd01473          81 SGGETYIVEALKYGLKNYTKHGNRRKDAPKVTMLFTDGNDTSASK----------------KELQDISL--------LYK  136 (192)
T ss_pred             CCCcCcHHHHHHHHHHHhccCCCCcccCCeEEEEEecCCCCCcch----------------hhHHHHHH--------HHH
Confidence            47899999999999998854321  23467799999999874311                11221111        234


Q ss_pred             CCCeeEEEEEccCCCChHHHHHHHhhc--CC--eEEEcCChhhHHHHHHHHhhcc
Q 043643          317 QPTFPVHTFGFGLEHDSEAMHAIADAS--GG--TFSFIETLSILQDAFARCIGGL  367 (634)
Q Consensus       317 ~~~i~I~t~G~G~~~d~~~L~~iA~~t--gG--~~~~i~~~~~l~~~f~~~l~~l  367 (634)
                      ..||.|++||+|. .+...|+.||...  .+  .+++..++++|......+...+
T Consensus       137 ~~gV~i~~vGiG~-~~~~el~~ia~~~~~~~~~~~~~~~~f~~l~~~~~~l~~~i  190 (192)
T cd01473         137 EENVKLLVVGVGA-ASENKLKLLAGCDINNDNCPNVIKTEWNNLNGISKFLTDKI  190 (192)
T ss_pred             HCCCEEEEEEecc-ccHHHHHHhcCCCCCCCCCCeEEecchhhHHHHHHHHHhhc
Confidence            6899999999997 4678899999752  22  2445445988887777665544

CTRP encodes a protein containing a putative signal sequence followed by a long extracellular region of 1990 amino acids, a transmembrane domain, and a short cytoplasmic segment. The extracellular region of CTRP contains two separated adhesive domains. The first domain contains six 210-amino acid-long homologous VWA domain repeats. The second domain contains seven repeats of 87-60 amino acids in length, which share similarities with the thrombospondin type 1 domain found in a variety of adhesive molecules. Finally, CTRP also contains consensus motifs found in the superfamily of haematopoietin receptors. The VWA domains in these proteins likely mediate protein-protein interactions.

>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional

Probab=99.76  E-value=1.8e-17  Score=180.15  Aligned_cols=188  Identities=18%  Similarity=0.223  Sum_probs=142.9

Q ss_pred             CCCCCCceEEEEEeCCCCCCc--cHHHHHHHHHHHHHhcCC---CCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhc
Q 043643          162 DADRAPIDLVTVLDVSGSMSS--KLPLLKRAVHFIIQNLGS---ADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINT  236 (634)
Q Consensus       162 ~~~r~p~dlv~VlD~SgSM~g--kl~~~K~al~~li~~L~~---~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~  236 (634)
                      ......+||+||||.|+||..  .++.+|..+..|+..|..   ..+|+|++|++.++.+++++.....+++.++..|..
T Consensus        37 ~vC~~~lDIvFLLD~SgSMg~~Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~FSd~~r~vfpL~s~~s~Dk~~aL~~I~s  116 (576)
T PTZ00441         37 EVCNEEVDLYLLVDGSGSIGYHNWITHVIPMLMGLIQQLNLSDDAINLYMSLFSNNTTELIRLGSGASKDKEQALIIVKS  116 (576)
T ss_pred             ccccCCceEEEEEeCCCccCCccHHHHHHHHHHHHHHHhccCCCceEEEEEEeCCCceEEEecCCCccccHHHHHHHHHH
Confidence            455679999999999999976  568999999999998852   346677999999999999985544445556655554


Q ss_pred             ----CCCCCCCcHHHHHHHHHHHHHhhc-cCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhcc
Q 043643          237 ----LSSNGGTNIVEGLKKGARVLEERR-ERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLS  311 (634)
Q Consensus       237 ----l~~~GgT~i~~aL~~A~~~l~~~~-~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~  311 (634)
                          +.++|+|+++.||..+.+.+..+. ..+..+.|||||||.++...                  +....+.      
T Consensus       117 L~~~~~pgGgTnig~AL~~Aae~L~sr~~R~nvpKVVILLTDG~sns~~------------------dvleaAq------  172 (576)
T PTZ00441        117 LRKTYLPYGKTNMTDALLEVRKHLNDRVNRENAIQLVILMTDGIPNSKY------------------RALEESR------  172 (576)
T ss_pred             HHhhccCCCCccHHHHHHHHHHHHhhcccccCCceEEEEEecCCCCCcc------------------cHHHHHH------
Confidence                467899999999999999987542 23456789999999976321                  1111111      


Q ss_pred             ccccCCCCeeEEEEEccCCCChHHHHHHHh----hcCCeEEEcCChhhHHHHHHHHhhccccceeeee
Q 043643          312 KREAGQPTFPVHTFGFGLEHDSEAMHAIAD----ASGGTFSFIETLSILQDAFARCIGGLLSVVSQDV  375 (634)
Q Consensus       312 ~~~~~~~~i~I~t~G~G~~~d~~~L~~iA~----~tgG~~~~i~~~~~l~~~f~~~l~~l~s~va~~~  375 (634)
                        ..+..++.|++||+|.+.+..+|+.||.    .++|.||+..++.+|..+...++..+...|-++.
T Consensus       173 --~LR~~GVeI~vIGVG~g~n~e~LrlIAgC~p~~g~c~~Y~vadf~eL~~ivk~LikkVC~eve~~a  238 (576)
T PTZ00441        173 --KLKDRNVKLAVIGIGQGINHQFNRLLAGCRPREGKCKFYSDADWEEAKNLIKPFIAKVCTEVERTA  238 (576)
T ss_pred             --HHHHCCCEEEEEEeCCCcCHHHHHHHhccCCCCCCCceEEeCCHHHHHHHHHHHHHHhcccccccc
Confidence              1235799999999999999999999993    4567899999999888888888777766655443

>cd01482 vWA_collagen_alphaI-XII-like Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions

Probab=99.76  E-value=1.2e-17  Score=158.76  Aligned_cols=154  Identities=18%  Similarity=0.229  Sum_probs=120.5

Q ss_pred             ceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCC-CCCC
Q 043643          168 IDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLS-SNGG  242 (634)
Q Consensus       168 ~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~-~~Gg  242 (634)
                      .|++||||.||||.+ .+..+|.++..+++.+.   +++|++||+|+++++..+|++..  .+++.+.+.|..+. .+|+
T Consensus         1 ~Dv~~vlD~S~Sm~~~~~~~~k~~~~~l~~~~~~~~~~~rvgli~fs~~~~~~~~l~~~--~~~~~l~~~l~~~~~~~g~   78 (164)
T cd01482           1 ADIVFLVDGSWSIGRSNFNLVRSFLSSVVEAFEIGPDGVQVGLVQYSDDPRTEFDLNAY--TSKEDVLAAIKNLPYKGGN   78 (164)
T ss_pred             CCEEEEEeCCCCcChhhHHHHHHHHHHHHhheeeCCCceEEEEEEECCCeeEEEecCCC--CCHHHHHHHHHhCcCCCCC
Confidence            489999999999998 99999999999998874   57999999999999999999854  34678888898886 6889


Q ss_pred             CcHHHHHHHHHHHHHhh---ccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCC
Q 043643          243 TNIVEGLKKGARVLEER---RERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPT  319 (634)
Q Consensus       243 T~i~~aL~~A~~~l~~~---~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~  319 (634)
                      |+++.||..+.+.+...   ..++..+.|||||||.++..                    +.....        .++..+
T Consensus        79 T~~~~aL~~a~~~~~~~~~~~r~~~~k~iillTDG~~~~~--------------------~~~~a~--------~lk~~g  130 (164)
T cd01482          79 TRTGKALTHVREKNFTPDAGARPGVPKVVILITDGKSQDD--------------------VELPAR--------VLRNLG  130 (164)
T ss_pred             ChHHHHHHHHHHHhcccccCCCCCCCEEEEEEcCCCCCch--------------------HHHHHH--------HHHHCC
Confidence            99999999998765332   12345667999999997631                    111111        123579


Q ss_pred             eeEEEEEccCCCChHHHHHHHhhcCCe-EEEcCC
Q 043643          320 FPVHTFGFGLEHDSEAMHAIADASGGT-FSFIET  352 (634)
Q Consensus       320 i~I~t~G~G~~~d~~~L~~iA~~tgG~-~~~i~~  352 (634)
                      |.|++||+|. .+...|.+||..+... .|.+.|
T Consensus       131 i~i~~ig~g~-~~~~~L~~ia~~~~~~~~~~~~d  163 (164)
T cd01482         131 VNVFAVGVKD-ADESELKMIASKPSETHVFNVAD  163 (164)
T ss_pred             CEEEEEecCc-CCHHHHHHHhCCCchheEEEcCC
Confidence            9999999996 6688999999987654 454544

The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.

>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]

Probab=99.75  E-value=6.2e-17  Score=158.28  Aligned_cols=171  Identities=22%  Similarity=0.294  Sum_probs=136.2

Q ss_pred             CCCCCCceEEEEEeCCCCCCc--cHHHHHHHHHHHH-HhcCCCCeEEEEEeC-CCcEEEEcCcccCHHHHHHHHHHHhcC
Q 043643          162 DADRAPIDLVTVLDVSGSMSS--KLPLLKRAVHFII-QNLGSADRLSIVIFS-SVARRIFPLQRMTDSGRENAIRAINTL  237 (634)
Q Consensus       162 ~~~r~p~dlv~VlD~SgSM~g--kl~~~K~al~~li-~~L~~~drvsIV~Fs-~~a~~~~pl~~~t~~~~~~~~~~I~~l  237 (634)
                      ...+....||||+|.||||..  ||+.+|-++..|+ +.....|+|++|+|. +++.+++|.|    .+.+.+.++|..|
T Consensus        73 r~~r~g~lvvfvVDASgSM~~~~Rm~aaKG~~~~lL~dAYq~RdkvavI~F~G~~A~lll~pT----~sv~~~~~~L~~l  148 (261)
T COG1240          73 REGRAGNLIVFVVDASGSMAARRRMAAAKGAALSLLRDAYQRRDKVAVIAFRGEKAELLLPPT----SSVELAERALERL  148 (261)
T ss_pred             hccCcCCcEEEEEeCcccchhHHHHHHHHHHHHHHHHHHHHccceEEEEEecCCcceEEeCCc----ccHHHHHHHHHhC
Confidence            457788999999999999999  8999999886655 566779999999999 7799999999    6789999999999


Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhcc--CCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhcccccc
Q 043643          238 SSNGGTNIVEGLKKGARVLEERRE--RSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREA  315 (634)
Q Consensus       238 ~~~GgT~i~~aL~~A~~~l~~~~~--~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~  315 (634)
                      .++|+|.|.+||..|++++.....  ++....+|+||||.+|.+.+.+            ...+....        +...
T Consensus       149 ~~GG~TPL~~aL~~a~ev~~r~~r~~p~~~~~~vviTDGr~n~~~~~~------------~~~e~~~~--------a~~~  208 (261)
T COG1240         149 PTGGKTPLADALRQAYEVLAREKRRGPDRRPVMVVITDGRANVPIPLG------------PKAETLEA--------ASKL  208 (261)
T ss_pred             CCCCCCchHHHHHHHHHHHHHhhccCCCcceEEEEEeCCccCCCCCCc------------hHHHHHHH--------HHHH
Confidence            999999999999999999976543  4566789999999999765432            01121111        1123


Q ss_pred             CCCCeeEEEEEccCC-CChHHHHHHHhhcCCeEEEcCChhhH
Q 043643          316 GQPTFPVHTFGFGLE-HDSEAMHAIADASGGTFSFIETLSIL  356 (634)
Q Consensus       316 ~~~~i~I~t~G~G~~-~d~~~L~~iA~~tgG~~~~i~~~~~l  356 (634)
                      ...++++.+|..... ....+.+.||...||.|+++++..+.
T Consensus       209 ~~~g~~~lvid~e~~~~~~g~~~~iA~~~Gg~~~~L~~l~~~  250 (261)
T COG1240         209 RLRGIQLLVIDTEGSEVRLGLAEEIARASGGEYYHLDDLSDD  250 (261)
T ss_pred             hhcCCcEEEEecCCccccccHHHHHHHHhCCeEEecccccch
Confidence            457787778877543 45568899999999999999987654

>cd01476 VWA_integrin_invertebrates VWA_integrin (invertebrates): Integrins are a family of cell surface receptors that have diverse functions in cell-cell and cell-extracellular matrix interactions

Probab=99.74  E-value=5.3e-17  Score=154.05  Aligned_cols=151  Identities=23%  Similarity=0.388  Sum_probs=116.8

Q ss_pred             ceEEEEEeCCCCCCccHHHHHHHHHHHHHhcCC---CCeEEEEEeCC--CcEEEEcCcccCHHHHHHHHHHHhcCCC-CC
Q 043643          168 IDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGS---ADRLSIVIFSS--VARRIFPLQRMTDSGRENAIRAINTLSS-NG  241 (634)
Q Consensus       168 ~dlv~VlD~SgSM~gkl~~~K~al~~li~~L~~---~drvsIV~Fs~--~a~~~~pl~~~t~~~~~~~~~~I~~l~~-~G  241 (634)
                      +|++||||+|+||.+++...|+.+..++..|..   .+|++||.|++  .+.+.++++..  .++..+.+.|+.+.+ +|
T Consensus         1 ldv~~llD~S~Sm~~~~~~~~~~~~~~~~~l~~~~~~~~v~lv~f~~~~~~~~~~~l~~~--~~~~~l~~~i~~l~~~gg   78 (163)
T cd01476           1 LDLLFVLDSSGSVRGKFEKYKKYIERIVEGLEIGPTATRVALITYSGRGRQRVRFNLPKH--NDGEELLEKVDNLRFIGG   78 (163)
T ss_pred             CCEEEEEeCCcchhhhHHHHHHHHHHHHHhcCCCCCCcEEEEEEEcCCCceEEEecCCCC--CCHHHHHHHHHhCccCCC
Confidence            589999999999988888889999999988864   89999999999  67777888743  346788999999975 67


Q ss_pred             CCcHHHHHHHHHHHHHhhc--cCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCC
Q 043643          242 GTNIVEGLKKGARVLEERR--ERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPT  319 (634)
Q Consensus       242 gT~i~~aL~~A~~~l~~~~--~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~  319 (634)
                      +|+++.||..|.+.+....  .++..+.|||+|||.++.+.                 ....+.+.          ...+
T Consensus        79 ~T~l~~aL~~a~~~l~~~~~~r~~~~~~villTDG~~~~~~-----------------~~~~~~l~----------~~~~  131 (163)
T cd01476          79 TTATGAAIEVALQQLDPSEGRREGIPKVVVVLTDGRSHDDP-----------------EKQARILR----------AVPN  131 (163)
T ss_pred             CccHHHHHHHHHHHhccccCCCCCCCeEEEEECCCCCCCch-----------------HHHHHHHh----------hcCC
Confidence            8999999999999996321  23444789999999887431                 11211111          1378


Q ss_pred             eeEEEEEccCC--CChHHHHHHHhhcCCeE
Q 043643          320 FPVHTFGFGLE--HDSEAMHAIADASGGTF  347 (634)
Q Consensus       320 i~I~t~G~G~~--~d~~~L~~iA~~tgG~~  347 (634)
                      +.||+||+|..  .|...|..||......|
T Consensus       132 v~v~~vg~g~~~~~~~~~L~~ia~~~~~~~  161 (163)
T cd01476         132 IETFAVGTGDPGTVDTEELHSITGNEDHIF  161 (163)
T ss_pred             CEEEEEECCCccccCHHHHHHHhCCCcccc
Confidence            99999999998  88889999987655433

Because of their involvement in many biologically important adhesion processes, integrins are conserved across a wide range of multicellular animals. Integrins from invertebrates have been identified from six phyla. There are no data to date to suggest any immunological functions for the invertebrate integrins. The members of this sub-group have the conserved MIDAS motif that is charateristic of this domain suggesting the involvement of the integrins in the recognition and binding of multi-ligands.

>cd01455 vWA_F11C1-5a_type Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)

Probab=99.74  E-value=8e-17  Score=153.47  Aligned_cols=165  Identities=18%  Similarity=0.065  Sum_probs=119.7

Q ss_pred             eEEEEEeCCCCC------Cc----cHHHHHHHHHHHHHh--cCCCCeEEEEEeCCCcEEEEcCccc---C--HHHHHHHH
Q 043643          169 DLVTVLDVSGSM------SS----KLPLLKRAVHFIIQN--LGSADRLSIVIFSSVARRIFPLQRM---T--DSGRENAI  231 (634)
Q Consensus       169 dlv~VlD~SgSM------~g----kl~~~K~al~~li~~--L~~~drvsIV~Fs~~a~~~~pl~~~---t--~~~~~~~~  231 (634)
                      .|+++||+||||      .|    +|+.+|..+..|++.  -..+||++   |++.+....|++--   +  ....+.+.
T Consensus         2 ~l~lavDlSgSM~~~~~~dg~~~~RL~a~k~v~~~f~~f~~~r~~DriG---~~g~~~~~~~lt~d~p~t~d~~~~~~l~   78 (191)
T cd01455           2 RLKLVVDVSGSMYRFNGYDGRLDRSLEAVVMVMEAFDGFEDKIQYDIIG---HSGDGPCVPFVKTNHPPKNNKERLETLK   78 (191)
T ss_pred             ceEEEEECcHhHHHHhccCCccccHHHHHHHHHHHHHHHHHhCccceee---ecCcccccCccccccCcccchhHHHHHH
Confidence            489999999999      23    899999998888742  24689999   45544333332211   1  12235677


Q ss_pred             HHHhcCCC---CCCCcHHHHHHHHHHHHH-hhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHH-Hhhchh
Q 043643          232 RAINTLSS---NGGTNIVEGLKKGARVLE-ERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAY-LNLLPS  306 (634)
Q Consensus       232 ~~I~~l~~---~GgT~i~~aL~~A~~~l~-~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~-~~lv~~  306 (634)
                      ..++.++.   +.+|.  +||..|++.|. ....  ..+.|||||||.+|.+.-.|              .+. ..+   
T Consensus        79 ~~l~~~q~g~ag~~Ta--dAi~~av~rl~~~~~a--~~kvvILLTDG~n~~~~i~P--------------~~aAa~l---  137 (191)
T cd01455          79 MMHAHSQFCWSGDHTV--EATEFAIKELAAKEDF--DEAIVIVLSDANLERYGIQP--------------KKLADAL---  137 (191)
T ss_pred             HHHHhcccCccCccHH--HHHHHHHHHHHhcCcC--CCcEEEEEeCCCcCCCCCCh--------------HHHHHHH---
Confidence            77777654   34666  99999999996 5443  34569999999987654332              121 111   


Q ss_pred             hhhccccccCCCCeeEEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHHHHHhhc
Q 043643          307 SICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGG  366 (634)
Q Consensus       307 ~i~~~~~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~l~~  366 (634)
                              ++..+|+|||||+|.. |...|+.||+.+||.||.+.|..+|.+++.+++..
T Consensus       138 --------A~~~gV~iytIgiG~~-d~~~l~~iA~~tgG~~F~A~d~~~L~~iy~~I~~~  188 (191)
T cd01455         138 --------AREPNVNAFVIFIGSL-SDEADQLQRELPAGKAFVCMDTSELPHIMQQIFTS  188 (191)
T ss_pred             --------HHhCCCEEEEEEecCC-CHHHHHHHHhCCCCcEEEeCCHHHHHHHHHHHHHH
Confidence                    2468999999999973 67889999999999999999999999999998764

Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A

>cd01450 vWFA_subfamily_ECM Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)

Probab=99.73  E-value=3.6e-17  Score=153.92  Aligned_cols=152  Identities=22%  Similarity=0.332  Sum_probs=122.6

Q ss_pred             ceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCCC-C-
Q 043643          168 IDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSN-G-  241 (634)
Q Consensus       168 ~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~~-G-  241 (634)
                      +||+||||+||||.+ +++.++.++..++..+.   ++++++|++|++.+...++++...  ++..+.+.|+.+... | 
T Consensus         1 ~di~~llD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~~~~~~~~~~~~~--~~~~~~~~i~~~~~~~~~   78 (161)
T cd01450           1 LDIVFLLDGSESVGPENFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVRVEFSLNDYK--SKDDLLKAVKNLKYLGGG   78 (161)
T ss_pred             CcEEEEEeCCCCcCHHHHHHHHHHHHHHHHheeeCCCceEEEEEEEcCCceEEEECCCCC--CHHHHHHHHHhcccCCCC
Confidence            589999999999999 99999999999999886   489999999999999999988554  477888888887543 3 


Q ss_pred             CCcHHHHHHHHHHHHHhhc--cCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCC
Q 043643          242 GTNIVEGLKKGARVLEERR--ERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPT  319 (634)
Q Consensus       242 gT~i~~aL~~A~~~l~~~~--~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~  319 (634)
                      +|++..||..+.+.+....  ..+..+.|||+|||.++.+.                  ...+.+. .       .+..+
T Consensus        79 ~t~~~~al~~a~~~~~~~~~~~~~~~~~iiliTDG~~~~~~------------------~~~~~~~-~-------~~~~~  132 (161)
T cd01450          79 GTNTGKALQYALEQLFSESNARENVPKVIIVLTDGRSDDGG------------------DPKEAAA-K-------LKDEG  132 (161)
T ss_pred             CccHHHHHHHHHHHhcccccccCCCCeEEEEECCCCCCCCc------------------chHHHHH-H-------HHHCC
Confidence            8999999999999997654  24566789999999988532                  1122221 1       23468


Q ss_pred             eeEEEEEccCCCChHHHHHHHhhcCCeEE
Q 043643          320 FPVHTFGFGLEHDSEAMHAIADASGGTFS  348 (634)
Q Consensus       320 i~I~t~G~G~~~d~~~L~~iA~~tgG~~~  348 (634)
                      ++|++||+|. .+...|+.||..+++.|+
T Consensus       133 v~v~~i~~g~-~~~~~l~~la~~~~~~~~  160 (161)
T cd01450         133 IKVFVVGVGP-ADEEELREIASCPSERHV  160 (161)
T ss_pred             CEEEEEeccc-cCHHHHHHHhCCCCCCcc
Confidence            9999999998 889999999999855544

Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=99.73  E-value=8.5e-17  Score=181.49  Aligned_cols=177  Identities=19%  Similarity=0.307  Sum_probs=133.2

Q ss_pred             CCCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHh-cCCCCeEEEEEeCCC-cEEEEcCcccCHHHHHHHHHHHhcCCC
Q 043643          163 ADRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQN-LGSADRLSIVIFSSV-ARRIFPLQRMTDSGRENAIRAINTLSS  239 (634)
Q Consensus       163 ~~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~-L~~~drvsIV~Fs~~-a~~~~pl~~~t~~~~~~~~~~I~~l~~  239 (634)
                      ..+....++||||.||||.+ ||..+|.++..++.. +.+.|+|+||+|++. +..++|++    .++..+.+.|+.+.+
T Consensus       403 ~~~~~~~v~fvvD~SGSM~~~rl~~aK~av~~Ll~~~~~~~D~v~Li~F~~~~a~~~lp~t----~~~~~~~~~L~~l~~  478 (589)
T TIGR02031       403 RRKSGRLLIFVVDASGSAAVARMSEAKGAVELLLGEAYVHRDQVSLIAFRGTAAEVLLPPS----RSVEQAKRRLDVLPG  478 (589)
T ss_pred             ccccCceEEEEEECCCCCChHHHHHHHHHHHHHHHhhccCCCEEEEEEECCCCceEECCCC----CCHHHHHHHHhcCCC
Confidence            45567789999999999988 999999999998875 457899999999876 47777876    457778889999999


Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCC-CCHHHHHhhchhhhhccccccCCC
Q 043643          240 NGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIP-SNELAYLNLLPSSICLSKREAGQP  318 (634)
Q Consensus       240 ~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~-~~~~~~~~lv~~~i~~~~~~~~~~  318 (634)
                      +|+|+++.||..|++.+...........|||||||.+|.+......  +. ..+. ....++..+..        .....
T Consensus       479 gGgTpL~~gL~~A~~~~~~~~~~~~~~~ivllTDG~~nv~~~~~~~--~~-~~~~~~~~~~~~~~a~--------~~~~~  547 (589)
T TIGR02031       479 GGGTPLAAGLAAAFQTALQARSSGGTPTIVLITDGRGNIPLDGDPE--SI-KADREQAAEEALALAR--------KIREA  547 (589)
T ss_pred             CCCCcHHHHHHHHHHHHHHhcccCCceEEEEECCCCCCCCCCcccc--cc-cccchhHHHHHHHHHH--------HHHhc
Confidence            9999999999999999976544455578999999999976431000  00 0000 00112111111        23457


Q ss_pred             CeeEEEEEccCCC-ChHHHHHHHhhcCCeEEEcCChh
Q 043643          319 TFPVHTFGFGLEH-DSEAMHAIADASGGTFSFIETLS  354 (634)
Q Consensus       319 ~i~I~t~G~G~~~-d~~~L~~iA~~tgG~~~~i~~~~  354 (634)
                      +|.+.+|++|... +..+++.||+..||.||++++.+
T Consensus       548 gi~~~vid~~~~~~~~~~~~~lA~~~~g~y~~l~~~~  584 (589)
T TIGR02031       548 GMPALVIDTAMRFVSTGFAQKLARKMGAHYIYLPNAT  584 (589)
T ss_pred             CCeEEEEeCCCCCccchHHHHHHHhcCCcEEeCCCCC
Confidence            8999999999764 45689999999999999999865

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.

>PF14624 Vwaint: VWA / Hh protein intein-like

Probab=99.72  E-value=1.4e-18  Score=141.88  Aligned_cols=52  Identities=56%  Similarity=0.708  Sum_probs=49.8

Q ss_pred             hHHHHHHHHHHH-HHHHHhhchHHHhhhchhhhhhhhhhhhhhhhcccCCchh
Q 043643          535 DVLCNWLEAELR-EIRERMASMDLYERTGRAYLLSGLSSHSWQRATTRGDTTQ  586 (634)
Q Consensus       535 d~~~~~L~~eL~-e~~~~~~~~~~y~~~G~~y~~s~~ssH~~Qr~~~~g~~~~  586 (634)
                      |++|.+|.+||. |++++|++++.|++||||||+|+++||.|||||+|||++.
T Consensus         1 D~~~~~L~~eL~~qi~~a~~~~~~y~~~Gr~YllS~~ssH~~Qr~~s~~d~g~   53 (80)
T PF14624_consen    1 DPLCQSLMAELRGQISEAMSSREYYERWGRHYLLSLLSSHSRQRCNSFKDPGP   53 (80)
T ss_pred             CHHHHHHHHHHHHHHHHHHcCHHHHHHhhHHHHHHHHHHHHHHHhhhcCCCcc
Confidence            678999999999 9999999999999999999999999999999999999954

>cd01454 vWA_norD_type norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases

Probab=99.71  E-value=2.8e-16  Score=150.92  Aligned_cols=146  Identities=23%  Similarity=0.308  Sum_probs=105.6

Q ss_pred             eEEEEEeCCCCCCc--cHHHHHHHHHHHHHhcCC-CCeEEEEEeCCCc--E---EEEcCcccCHHHHHHHHHHHhcCCCC
Q 043643          169 DLVTVLDVSGSMSS--KLPLLKRAVHFIIQNLGS-ADRLSIVIFSSVA--R---RIFPLQRMTDSGRENAIRAINTLSSN  240 (634)
Q Consensus       169 dlv~VlD~SgSM~g--kl~~~K~al~~li~~L~~-~drvsIV~Fs~~a--~---~~~pl~~~t~~~~~~~~~~I~~l~~~  240 (634)
                      .++||||+||||.+  |++.+|+++..++..|.. +|+++|++|++.+  .   .+++..+.+......+...|..+.++
T Consensus         2 ~v~~llD~SgSM~~~~kl~~ak~a~~~l~~~l~~~~d~~~l~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~   81 (174)
T cd01454           2 AVTLLLDLSGSMRSDRRIDVAKKAAVLLAEALEACGVPHAILGFTTDAGGRERVRWIKIKDFDESLHERARKRLAALSPG   81 (174)
T ss_pred             EEEEEEECCCCCCCCcHHHHHHHHHHHHHHHHHHcCCcEEEEEecCCCCCccceEEEEecCcccccchhHHHHHHccCCC
Confidence            58999999999999  999999999999998885 9999999999984  2   23332222222234567788899999


Q ss_pred             CCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCe
Q 043643          241 GGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTF  320 (634)
Q Consensus       241 GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i  320 (634)
                      |+|+++.||..+.+.+..+.  ...+.|||||||.++.+....           .......+.+. .+.    .+...+|
T Consensus        82 g~T~~~~al~~a~~~l~~~~--~~~~~iiliTDG~~~~~~~~~-----------~~~~~~~~~~~-~~~----~~~~~gi  143 (174)
T cd01454          82 GNTRDGAAIRHAAERLLARP--EKRKILLVISDGEPNDLDYYE-----------GNVFATEDALR-AVI----EARKLGI  143 (174)
T ss_pred             CCCcHHHHHHHHHHHHhcCC--CcCcEEEEEeCCCcCcccccC-----------cchhHHHHHHH-HHH----HHHhCCc
Confidence            99999999999999997653  335679999999998653211           00001111110 011    2346799


Q ss_pred             eEEEEEccCCCC
Q 043643          321 PVHTFGFGLEHD  332 (634)
Q Consensus       321 ~I~t~G~G~~~d  332 (634)
                      .+|+||+|.+..
T Consensus       144 ~v~~igig~~~~  155 (174)
T cd01454         144 EVFGITIDRDAT  155 (174)
T ss_pred             EEEEEEecCccc
Confidence            999999999875

Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial denitrification has been established as NO3- ------ NO2- ------ NO ------- N2O --------- N2. This reaction generally occurs under oxygen limiting conditions. Genetic and biochemical studies have shown that the first srep of the biochemical pathway is catalyzed by periplasmic nitrate reductases. This family is widely present in proteobacteria and firmicutes. This version of the domain is also present in some archaeal members. The function of the vWA domain in this sub-group is not known. Members of this subgroup have a conserved MIDAS motif.

>PF00092 VWA: von Willebrand factor type A domain; InterPro: IPR002035 The von Willebrand factor is a large multimeric glycoprotein found in blood plasma

Probab=99.68  E-value=4e-16  Score=149.45  Aligned_cols=166  Identities=28%  Similarity=0.400  Sum_probs=127.0

Q ss_pred             eEEEEEeCCCCCCc-cHHHHHHHHHHHHHhc---CCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHH-hcC-CCCCC
Q 043643          169 DLVTVLDVSGSMSS-KLPLLKRAVHFIIQNL---GSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAI-NTL-SSNGG  242 (634)
Q Consensus       169 dlv~VlD~SgSM~g-kl~~~K~al~~li~~L---~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I-~~l-~~~Gg  242 (634)
                      ||+||||.|+||.+ .++.+|+++..+++.+   .+.+||+||+|++.+..++++..  ......+...+ ..+ ..+|+
T Consensus         1 DivflvD~S~sm~~~~~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~~~~~~~~~~~~--~~~~~~~~~~i~~~~~~~~g~   78 (178)
T PF00092_consen    1 DIVFLVDTSGSMSGDNFEKAKQFVKSIISRLSISNNGTRVGIVTFSDSARVLFSLTD--YQSKNDLLNAINDSIPSSGGG   78 (178)
T ss_dssp             EEEEEEE-STTSCHHHHHHHHHHHHHHHHHSTBSTTSEEEEEEEESSSEEEEEETTS--HSSHHHHHHHHHTTGGCCBSS
T ss_pred             CEEEEEeCCCCCchHHHHHHHHHHHHHHHhhhccccccccceeeeeccccccccccc--ccccccccccccccccccchh
Confidence            89999999999999 9999999999999966   46889999999999999999983  33456677776 444 56789


Q ss_pred             CcHHHHHHHHHHHHHhh---ccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCC
Q 043643          243 TNIVEGLKKGARVLEER---RERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPT  319 (634)
Q Consensus       243 T~i~~aL~~A~~~l~~~---~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~  319 (634)
                      |+++.||..+.+.+...   ..++..+.|||+|||.++.+...              ......     +.      ...+
T Consensus        79 t~~~~aL~~a~~~l~~~~~~~r~~~~~~iiliTDG~~~~~~~~--------------~~~~~~-----~~------~~~~  133 (178)
T PF00092_consen   79 TNLGAALKFAREQLFSSNNGGRPNSPKVIILITDGNSNDSDSP--------------SEEAAN-----LK------KSNG  133 (178)
T ss_dssp             B-HHHHHHHHHHHTTSGGGTTGTTSEEEEEEEESSSSSSHSGH--------------HHHHHH-----HH------HHCT
T ss_pred             hhHHHHHhhhhhcccccccccccccccceEEEEeecccCCcch--------------HHHHHH-----HH------HhcC
Confidence            99999999999999754   23466778999999998853211              011111     11      1157


Q ss_pred             eeEEEEEccCCCChHHHHHHHhhc--CCeEEEcCChhhHHHHHHH
Q 043643          320 FPVHTFGFGLEHDSEAMHAIADAS--GGTFSFIETLSILQDAFAR  362 (634)
Q Consensus       320 i~I~t~G~G~~~d~~~L~~iA~~t--gG~~~~i~~~~~l~~~f~~  362 (634)
                      |.+++||+ ...+...|+.|+..+  .+.++++.+..++.+++.+
T Consensus       134 i~~~~ig~-~~~~~~~l~~la~~~~~~~~~~~~~~~~~l~~~~~~  177 (178)
T PF00092_consen  134 IKVIAIGI-DNADNEELRELASCPTSEGHVFYLADFSDLSQIIQQ  177 (178)
T ss_dssp             EEEEEEEE-SCCHHHHHHHHSHSSTCHHHEEEESSHHHHHHHHHH
T ss_pred             cEEEEEec-CcCCHHHHHHHhCCCCCCCcEEEcCCHHHHHHHHhc
Confidence            77777777 467889999999664  4789999999999887765

Mutant forms are involved in the aetiology of bleeding disorders []. In von Willebrand factor, the type A domain (vWF) is the prototype for a protein superfamily. The vWF domain is found in various plasma proteins: complement factors B, C2, CR3 and CR4; the integrins (I-domains); collagen types VI, VII, XII and XIV; and other extracellular proteins [, , ]. Although the majority of VWA-containing proteins are extracellular, the most ancient ones present in all eukaryotes are all intracellular proteins involved in functions such as transcription, DNA repair, ribosomal and membrane transport and the proteasome. A common feature appears to be involvement in multiprotein complexes. Proteins that incorporate vWF domains participate in numerous biological events (e.g. cell adhesion, migration, homing, pattern formation, and signal transduction), involving interaction with a large array of ligands []. A number of human diseases arise from mutations in VWA domains. Secondary structure prediction from 75 aligned vWF sequences has revealed a largely alternating sequence of alpha-helices and beta-strands []. Fold recognition algorithms were used to score sequence compatibility with a library of known structures: the vWF domain fold was predicted to be a doubly-wound, open, twisted beta-sheet flanked by alpha-helices []. 3D structures have been determined for the I-domains of integrins CD11b (with bound magnesium) [] and CD11a (with bound manganese) []. The domain adopts a classic alpha/beta Rossmann fold and contains an unusual metal ion coordination site at its surface. It has been suggested that this site represents a general metal ion-dependent adhesion site (MIDAS) for binding protein ligands []. The residues constituting the MIDAS motif in the CD11b and CD11a I-domains are completely conserved, but the manner in which the metal ion is coordinated differs slightly [].; GO: 0005515 protein binding; PDB: 2XGG_B 3ZQK_B 3GXB_A 3PPV_A 3PPX_A 3PPW_A 3PPY_A 1CQP_B 3TCX_B 2ICA_A ....

>cd01462 VWA_YIEM_type VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)

Probab=99.68  E-value=8e-16  Score=144.28  Aligned_cols=144  Identities=17%  Similarity=0.222  Sum_probs=107.4

Q ss_pred             eEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC-CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCCCCCCcHH
Q 043643          169 DLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG-SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNGGTNIV  246 (634)
Q Consensus       169 dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~-~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~~GgT~i~  246 (634)
                      +++||||+||||.+ |+..+|.++..++..+. ++++++||.|++.. ...++.  ...+...+.+.+..+.++|+|+++
T Consensus         2 ~v~illD~SgSM~~~k~~~a~~~~~~l~~~~~~~~~~v~li~F~~~~-~~~~~~--~~~~~~~~~~~l~~~~~~ggT~l~   78 (152)
T cd01462           2 PVILLVDQSGSMYGAPEEVAKAVALALLRIALAENRDTYLILFDSEF-QTKIVD--KTDDLEEPVEFLSGVQLGGGTDIN   78 (152)
T ss_pred             CEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHcCCcEEEEEeCCCc-eEEecC--CcccHHHHHHHHhcCCCCCCcCHH
Confidence            68999999999999 89999999988888776 48999999999993 333333  234566777888888899999999


Q ss_pred             HHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEE
Q 043643          247 EGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFG  326 (634)
Q Consensus       247 ~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G  326 (634)
                      .||..+++.+.....  ....||++|||.++..                 ...+.+...  +      ....++.||+||
T Consensus        79 ~al~~a~~~l~~~~~--~~~~ivliTDG~~~~~-----------------~~~~~~~~~--~------~~~~~~~v~~~~  131 (152)
T cd01462          79 KALRYALELIERRDP--RKADIVLITDGYEGGV-----------------SDELLREVE--L------KRSRVARFVALA  131 (152)
T ss_pred             HHHHHHHHHHHhcCC--CCceEEEECCCCCCCC-----------------CHHHHHHHH--H------HHhcCcEEEEEE
Confidence            999999999875432  2356999999974421                 112211111  1      134579999999


Q ss_pred             ccCCCChHHHHHHHhh
Q 043643          327 FGLEHDSEAMHAIADA  342 (634)
Q Consensus       327 ~G~~~d~~~L~~iA~~  342 (634)
                      +|.++++.+++-.|+.
T Consensus       132 ~g~~~~~~~~~~~~~~  147 (152)
T cd01462         132 LGDHGNPGYDRISAED  147 (152)
T ss_pred             ecCCCCchHHHHhhhh
Confidence            9999998877666653

Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if

>smart00327 VWA von Willebrand factor (vWF) type A domain

Probab=99.68  E-value=1.4e-15  Score=145.20  Aligned_cols=155  Identities=30%  Similarity=0.500  Sum_probs=125.6

Q ss_pred             CceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCC---CCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCC--C
Q 043643          167 PIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGS---ADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSS--N  240 (634)
Q Consensus       167 p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~---~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~--~  240 (634)
                      |+|++||||+|+||.+ +++.+|.++..++..+..   +++++|++|++....+.++.  ...+...+...++.+.+  +
T Consensus         1 ~~~v~l~vD~S~SM~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~~~~~~~~~~~--~~~~~~~~~~~i~~~~~~~~   78 (177)
T smart00327        1 PLDVVFLLDGSGSMGPNRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFSDDATVLFPLN--DSRSKDALLEALASLSYKLG   78 (177)
T ss_pred             CccEEEEEeCCCccchHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCceEEEccc--ccCCHHHHHHHHHhcCCCCC
Confidence            6899999999999987 999999999999999876   89999999999998888874  22567888999999884  8


Q ss_pred             CCCcHHHHHHHHHHHHHhhcc---CCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCC
Q 043643          241 GGTNIVEGLKKGARVLEERRE---RSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQ  317 (634)
Q Consensus       241 GgT~i~~aL~~A~~~l~~~~~---~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~  317 (634)
                      |+|++..||..+.+.+.....   .+..+.||++|||.++.+.                  .+...+.        ....
T Consensus        79 ~~~~~~~al~~~~~~~~~~~~~~~~~~~~~iviitDg~~~~~~------------------~~~~~~~--------~~~~  132 (177)
T smart00327       79 GGTNLGAALQYALENLFSKSAGSRRGAPKVLILITDGESNDGG------------------DLLKAAK--------ELKR  132 (177)
T ss_pred             CCchHHHHHHHHHHHhcCcCCCCCCCCCeEEEEEcCCCCCCCc------------------cHHHHHH--------HHHH
Confidence            899999999999999863221   2225679999999988430                  1222222        1224


Q ss_pred             CCeeEEEEEccCCCChHHHHHHHhhcCCeEEE
Q 043643          318 PTFPVHTFGFGLEHDSEAMHAIADASGGTFSF  349 (634)
Q Consensus       318 ~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~  349 (634)
                      .++.|++||+|.+.+...|+.|+..++|.|.+
T Consensus       133 ~~i~i~~i~~~~~~~~~~l~~~~~~~~~~~~~  164 (177)
T smart00327      133 SGVKVFVVGVGNDVDEEELKKLASAPGGVYVF  164 (177)
T ss_pred             CCCEEEEEEccCccCHHHHHHHhCCCcceEEe
Confidence            56999999999877899999999999999987

VWA domains in extracellular eukaryotic proteins mediate adhesion via metal ion-dependent adhesion sites (MIDAS). Intracellular VWA domains and homologues in prokaryotes have recently been identified. The proposed VWA domains in integrin beta subunits have recently been substantiated using sequence-based methods.

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=99.64  E-value=5.4e-15  Score=168.76  Aligned_cols=167  Identities=22%  Similarity=0.284  Sum_probs=128.2

Q ss_pred             CCCCCCCceEEEEEeCCCCCCc--cHHHHHHHHHHHHH-hcCCCCeEEEEEeCC-CcEEEEcCcccCHHHHHHHHHHHhc
Q 043643          161 NDADRAPIDLVTVLDVSGSMSS--KLPLLKRAVHFIIQ-NLGSADRLSIVIFSS-VARRIFPLQRMTDSGRENAIRAINT  236 (634)
Q Consensus       161 ~~~~r~p~dlv~VlD~SgSM~g--kl~~~K~al~~li~-~L~~~drvsIV~Fs~-~a~~~~pl~~~t~~~~~~~~~~I~~  236 (634)
                      ....+.+..++||||.||||.+  ||..+|.++..++. .+...|+|+||+|++ .+..++|++    .++..+...|+.
T Consensus       459 ~~~~r~~~~vv~vvD~SgSM~~~~rl~~ak~a~~~ll~~a~~~~D~v~lI~F~g~~a~~~~p~t----~~~~~~~~~L~~  534 (633)
T TIGR02442       459 IRAGRAGNLVIFVVDASGSMAARGRMAAAKGAVLSLLRDAYQKRDKVALITFRGEEAEVLLPPT----SSVELAARRLEE  534 (633)
T ss_pred             HhcCCCCceEEEEEECCccCCCccHHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCceEEcCCC----CCHHHHHHHHHh
Confidence            3456778899999999999987  99999999877764 567799999999986 588888987    456777889999


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhh--ccCCCCcEEEEEeCCCCCCC-CCCCcccccccCCCCCCHHHHHhhchhhhhcccc
Q 043643          237 LSSNGGTNIVEGLKKGARVLEER--RERSPVASIILLSDGQDTHN-VLRNSYTQDEASSIPSNELAYLNLLPSSICLSKR  313 (634)
Q Consensus       237 l~~~GgT~i~~aL~~A~~~l~~~--~~~~~~~~IILlTDG~~~~g-~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~  313 (634)
                      +.++|+|+++.||..|++.+...  ..+.....|||||||.+|.+ .+.            ....+...+..        
T Consensus       535 l~~gG~Tpl~~aL~~A~~~l~~~~~~~~~~~~~vvliTDG~~n~~~~~~------------~~~~~~~~~a~--------  594 (633)
T TIGR02442       535 LPTGGRTPLAAGLLKAAEVLSNELLRDDDGRPLLVVITDGRANVADGGE------------PPTDDARTIAA--------  594 (633)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHhhccCCCCceEEEEECCCCCCCCCCCC------------ChHHHHHHHHH--------
Confidence            99999999999999999999742  23345567999999999874 111            01122222111        


Q ss_pred             ccCCCCeeEEEEEccCC-CChHHHHHHHhhcCCeEEEcC
Q 043643          314 EAGQPTFPVHTFGFGLE-HDSEAMHAIADASGGTFSFIE  351 (634)
Q Consensus       314 ~~~~~~i~I~t~G~G~~-~d~~~L~~iA~~tgG~~~~i~  351 (634)
                      .....+|.+++|+.+.. .....++.||+.+||.||+++
T Consensus       595 ~l~~~~i~~~vIdt~~~~~~~~~~~~lA~~~gg~y~~l~  633 (633)
T TIGR02442       595 KLAARGILFVVIDTESGFVRLGLAEDLARALGGEYVRLD  633 (633)
T ss_pred             HHHhcCCeEEEEeCCCCCcchhHHHHHHHhhCCeEEecC
Confidence            12346888888888654 456799999999999999874

A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.

>cd01481 vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(VI) like: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions

Probab=99.63  E-value=6.7e-15  Score=139.98  Aligned_cols=152  Identities=20%  Similarity=0.261  Sum_probs=117.5

Q ss_pred             eEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCCCC--C
Q 043643          169 DLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNG--G  242 (634)
Q Consensus       169 dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~~G--g  242 (634)
                      ||+||||.|+||.. .++.+|+.+..+++.+.   ...||+||+|++.++..++|...  .++..+++.|+++...|  +
T Consensus         2 DivfllD~S~Si~~~~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys~~~~~~~~l~~~--~~~~~l~~~i~~i~~~~g~~   79 (165)
T cd01481           2 DIVFLIDGSDNVGSGNFPAIRDFIERIVQSLDVGPDKIRVAVVQFSDTPRPEFYLNTH--STKADVLGAVRRLRLRGGSQ   79 (165)
T ss_pred             CEEEEEeCCCCcCHHHHHHHHHHHHHHHhhccCCCCCcEEEEEEecCCeeEEEecccc--CCHHHHHHHHHhcccCCCCc
Confidence            89999999999987 99999999999999886   46799999999999999999844  45788999999987654  5


Q ss_pred             CcHHHHHHHHHHHHHhhc-----cCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCC
Q 043643          243 TNIVEGLKKGARVLEERR-----ERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQ  317 (634)
Q Consensus       243 T~i~~aL~~A~~~l~~~~-----~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~  317 (634)
                      |+++.||..+.+.+-...     .++..+.+||+|||..+..                    +.....        .++.
T Consensus        80 t~t~~AL~~~~~~~f~~~~g~R~~~~~~kv~vviTdG~s~d~--------------------~~~~a~--------~lr~  131 (165)
T cd01481          80 LNTGSALDYVVKNLFTKSAGSRIEEGVPQFLVLITGGKSQDD--------------------VERPAV--------ALKR  131 (165)
T ss_pred             ccHHHHHHHHHHhhcCccccCCccCCCCeEEEEEeCCCCcch--------------------HHHHHH--------HHHH
Confidence            899999999987663321     1244577999999987621                    111111        1235


Q ss_pred             CCeeEEEEEccCCCChHHHHHHHhhcCCeEEEcCC
Q 043643          318 PTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIET  352 (634)
Q Consensus       318 ~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~  352 (634)
                      .||.|+++|+| ..|...|+.||.... ..|.++|
T Consensus       132 ~gv~i~~vG~~-~~~~~eL~~ias~p~-~vf~v~~  164 (165)
T cd01481         132 AGIVPFAIGAR-NADLAELQQIAFDPS-FVFQVSD  164 (165)
T ss_pred             CCcEEEEEeCC-cCCHHHHHHHhCCCc-cEEEecC
Confidence            78999999998 478999999998663 4444443

The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.

>cd00198 vWFA Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)

Probab=99.59  E-value=3.9e-14  Score=131.98  Aligned_cols=153  Identities=32%  Similarity=0.499  Sum_probs=121.3

Q ss_pred             ceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCC---CCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCC--CCC
Q 043643          168 IDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGS---ADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLS--SNG  241 (634)
Q Consensus       168 ~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~---~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~--~~G  241 (634)
                      .+++||||.|+||.. +++.+|.++..++..+..   .++++|+.|++....+.++...  .+.+.+.+.++.+.  .+|
T Consensus         1 ~~v~~viD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~   78 (161)
T cd00198           1 ADIVFLLDVSGSMGGEKLDKAKEALKALVSSLSASPPGDRVGLVTFGSNARVVLPLTTD--TDKADLLEAIDALKKGLGG   78 (161)
T ss_pred             CcEEEEEeCCCCcCcchHHHHHHHHHHHHHhcccCCCCcEEEEEEecCccceeeccccc--CCHHHHHHHHHhcccCCCC
Confidence            479999999999955 999999999999999986   8999999999999888888732  24677778888876  678


Q ss_pred             CCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCee
Q 043643          242 GTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFP  321 (634)
Q Consensus       242 gT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~  321 (634)
                      +|++..||..+.+.+.........+.||++|||.++.+..                 .....+.        ..+..++.
T Consensus        79 ~t~~~~al~~~~~~~~~~~~~~~~~~lvvitDg~~~~~~~-----------------~~~~~~~--------~~~~~~v~  133 (161)
T cd00198          79 GTNIGAALRLALELLKSAKRPNARRVIILLTDGEPNDGPE-----------------LLAEAAR--------ELRKLGIT  133 (161)
T ss_pred             CccHHHHHHHHHHHhcccCCCCCceEEEEEeCCCCCCCcc-----------------hhHHHHH--------HHHHcCCE
Confidence            9999999999999997654345667899999998875321                 1222221        12346899


Q ss_pred             EEEEEccCCCChHHHHHHHhhc-CCeE
Q 043643          322 VHTFGFGLEHDSEAMHAIADAS-GGTF  347 (634)
Q Consensus       322 I~t~G~G~~~d~~~L~~iA~~t-gG~~  347 (634)
                      |+.||+|.+.+...|+.|+..+ +|.|
T Consensus       134 v~~v~~g~~~~~~~l~~l~~~~~~~~~  160 (161)
T cd00198         134 VYTIGIGDDANEDELKEIADKTTGGAV  160 (161)
T ss_pred             EEEEEcCCCCCHHHHHHHhcccccccc
Confidence            9999999878889999999887 4443

Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains.

>PLN00162 transport protein sec23; Provisional

Probab=99.57  E-value=6.4e-12  Score=145.62  Aligned_cols=293  Identities=15%  Similarity=0.131  Sum_probs=193.4

Q ss_pred             CCCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCc--------------ccC----
Q 043643          163 ADRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQ--------------RMT----  223 (634)
Q Consensus       163 ~~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~--------------~~t----  223 (634)
                      ....|.-++||||+|  +.. .++.+|.++...++.|+++.+||||+|++.+...- |.              ..+    
T Consensus       120 ~~~~pp~fvFvID~s--~~~~~l~~lk~sl~~~L~~LP~~a~VGlITF~s~V~~~~-L~~~~~~~~~Vf~g~k~~t~~~l  196 (761)
T PLN00162        120 GAPSPPVFVFVVDTC--MIEEELGALKSALLQAIALLPENALVGLITFGTHVHVHE-LGFSECSKSYVFRGNKEVSKDQI  196 (761)
T ss_pred             CCCCCcEEEEEEecc--hhHHHHHHHHHHHHHHHHhCCCCCEEEEEEECCEEEEEE-cCCCCCcceEEecCCccCCHHHH
Confidence            344677899999988  455 89999999999999999999999999998764321 10              000    


Q ss_pred             -------------------------------------HHHHHHHHHHHhcCCCC---------CCCcHHHHHHHHHHHHH
Q 043643          224 -------------------------------------DSGRENAIRAINTLSSN---------GGTNIVEGLKKGARVLE  257 (634)
Q Consensus       224 -------------------------------------~~~~~~~~~~I~~l~~~---------GgT~i~~aL~~A~~~l~  257 (634)
                                                           .+.+..+...|+.|...         ....++.||..|..+|+
T Consensus       197 ~~~l~l~~~~~~~~~~~~~~~~~~~~~p~~~~fLvpl~e~~~~i~~lLe~L~~~~~~~~~~~rp~r~tG~AL~vA~~lL~  276 (761)
T PLN00162        197 LEQLGLGGKKRRPAGGGIAGARDGLSSSGVNRFLLPASECEFTLNSALEELQKDPWPVPPGHRPARCTGAALSVAAGLLG  276 (761)
T ss_pred             HHHhccccccccccccccccccccccCCCccceeEEHHHHHHHHHHHHHhhhccccccCCCCCCCccHHHHHHHHHHHHh
Confidence                                                 11234455555555422         25679999999999997


Q ss_pred             hhccCCCCcEEEEEeCCCCCCCCCCCcccccc---cCCCC--CCHHHHHhhchhhhhccccccCCCCeeEEEEEccCC-C
Q 043643          258 ERRERSPVASIILLSDGQDTHNVLRNSYTQDE---ASSIP--SNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLE-H  331 (634)
Q Consensus       258 ~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~---~~~~~--~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~-~  331 (634)
                      ... ++....|++++-|.++.|.+....+...   +....  .....+..-..+.++..+.++...++.|..|.++.+ .
T Consensus       277 ~~~-~~~gGrI~~F~sgppT~GpG~v~~r~~~~~~rsh~di~k~~~~~~~~a~~fY~~la~~~~~~gisvDlF~~s~dqv  355 (761)
T PLN00162        277 ACV-PGTGARIMAFVGGPCTEGPGAIVSKDLSEPIRSHKDLDKDAAPYYKKAVKFYEGLAKQLVAQGHVLDVFACSLDQV  355 (761)
T ss_pred             hcc-CCCceEEEEEeCCCCCCCCceeecccccccccCccccccchhhhcchHHHHHHHHHHHHHHcCceEEEEEcccccc
Confidence            542 3445679999999999987654221110   01000  001111111111222233345568899999988765 5


Q ss_pred             ChHHHHHHHhhcCCeEEEcCChhhHHHHHHHHhhccccc-------eeeeeEEEEEecCCCeEEEEecCCCCCc-c----
Q 043643          332 DSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSV-------VSQDVKLTIRSKSAGVRIGSIPSGRYNS-E----  399 (634)
Q Consensus       332 d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~l~~l~s~-------va~~~~l~v~~~~~~v~i~~v~~~~~~~-~----  399 (634)
                      +-..|+.+++.|||..++.++.+.  ..|.+.+..+++.       .+.+..++|++ ++|++|..+. |.+.+ .    
T Consensus       356 glaem~~l~~~TGG~v~~~~sF~~--~~f~~~l~r~~~r~~~~~~~~gf~a~~~Vrt-S~glkv~g~~-G~~~s~~~~~~  431 (761)
T PLN00162        356 GVAEMKVAVERTGGLVVLAESFGH--SVFKDSLRRVFERDGEGSLGLSFNGTFEVNC-SKDVKVQGAI-GPCASLEKKGP  431 (761)
T ss_pred             CHHHHhhhHhhcCcEEEEeCCcCh--HHHHHHHHHHhcccccccccccceeEEEEEe-cCCeEEeeeE-cCcccccccCC
Confidence            888999999999999999988865  3455555555542       68889999997 7999999886 43321 1    


Q ss_pred             -----cccCCceeEEEcCCccCCcEEEEEEEEEcCCCCCCCCCCCCccceEEEEEEEecCCCCceeeeecc
Q 043643          400 -----VLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRPECTALLDVFCTHKDSASMEIHQVEGE  465 (634)
Q Consensus       400 -----~~~~~~~~~i~lg~l~~~e~r~~lv~l~~p~~~~~~~~~~~~~~l~~v~~~Y~~~~~~~~~~~~~~  465 (634)
                           ..+.+....+.++.+..+....|.+++.-.......  .......+|+.+.|+++.+.+.++|.+-
T Consensus       432 ~vsd~~iG~g~T~~w~l~~l~~~~t~av~f~~~~~~~~~~~--~~~~~~~iQ~a~lYt~~~G~rRiRV~T~  500 (761)
T PLN00162        432 SVSDTEIGEGGTTAWKLCGLDKKTSLAVFFEVANSGQSNPQ--PPGQQFFLQFLTRYQHSNGQTRLRVTTV  500 (761)
T ss_pred             ccccccccCCCCceeeecCcCcCCEEEEEEEEccccccCCC--CCCceEEEEEEEEEEcCCCCEEEEEEcc
Confidence                 012244567899999998888888887633310000  0012567999999999988888888653

>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]

Probab=99.54  E-value=1.1e-13  Score=128.27  Aligned_cols=143  Identities=24%  Similarity=0.388  Sum_probs=105.3

Q ss_pred             ceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCC------CCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCCC
Q 043643          168 IDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGS------ADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSN  240 (634)
Q Consensus       168 ~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~------~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~~  240 (634)
                      +-+++|||+||||.| +|+.++..+..+++.|..      ...++||+|++.++...||+.+..       -....|.+.
T Consensus         4 lP~~lllDtSgSM~Ge~IealN~Glq~m~~~Lkqdp~Ale~v~lsIVTF~~~a~~~~pf~~~~n-------F~~p~L~a~   76 (207)
T COG4245           4 LPCYLLLDTSGSMIGEPIEALNAGLQMMIDTLKQDPYALERVELSIVTFGGPARVIQPFTDAAN-------FNPPILTAQ   76 (207)
T ss_pred             CCEEEEEecCcccccccHHHHHHHHHHHHHHHHhChhhhheeEEEEEEecCcceEEechhhHhh-------cCCCceecC
Confidence            348999999999999 999999999999999863      357999999999999999982111       112347789


Q ss_pred             CCCcHHHHHHHHHHHHHhhcc-------CCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhcccc
Q 043643          241 GGTNIVEGLKKGARVLEERRE-------RSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKR  313 (634)
Q Consensus       241 GgT~i~~aL~~A~~~l~~~~~-------~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~  313 (634)
                      |||.+++||..+.+.++.+..       ......|+|+|||.|+..                    +..-.....     
T Consensus        77 GgT~lGaAl~~a~d~Ie~~~~~~~a~~kgdyrP~vfLiTDG~PtD~--------------------w~~~~~~~~-----  131 (207)
T COG4245          77 GGTPLGAALTLALDMIEERKRKYDANGKGDYRPWVFLITDGEPTDD--------------------WQAGAALVF-----  131 (207)
T ss_pred             CCCchHHHHHHHHHHHHHHHhhcccCCccccceEEEEecCCCcchH--------------------HHhHHHHhh-----
Confidence            999999999999999987632       123456999999999742                    111100000     


Q ss_pred             ccCCCCeeEEEEEccCC-CChHHHHHHHhh
Q 043643          314 EAGQPTFPVHTFGFGLE-HDSEAMHAIADA  342 (634)
Q Consensus       314 ~~~~~~i~I~t~G~G~~-~d~~~L~~iA~~  342 (634)
                      ........|-.|++|.+ .|...|++|++.
T Consensus       132 ~~~~~~k~v~a~~~G~~~ad~~~L~qit~~  161 (207)
T COG4245         132 QGERRAKSVAAFSVGVQGADNKTLNQITEK  161 (207)
T ss_pred             hcccccceEEEEEecccccccHHHHHHHHh
Confidence            11234456778888876 777888888864

>cd01452 VWA_26S_proteasome_subunit 26S proteasome plays a major role in eukaryotic protein breakdown, especially for ubiquitin-tagged proteins

Probab=99.53  E-value=3.1e-13  Score=129.79  Aligned_cols=154  Identities=14%  Similarity=0.272  Sum_probs=116.4

Q ss_pred             EEEEEeCCCCCCc------cHHHHHHHHHHHHH---hcCCCCeEEEEEeCC-CcEEEEcCcccCHHHHHHHHHHHhcCCC
Q 043643          170 LVTVLDVSGSMSS------KLPLLKRAVHFIIQ---NLGSADRLSIVIFSS-VARRIFPLQRMTDSGRENAIRAINTLSS  239 (634)
Q Consensus       170 lv~VlD~SgSM~g------kl~~~K~al~~li~---~L~~~drvsIV~Fs~-~a~~~~pl~~~t~~~~~~~~~~I~~l~~  239 (634)
                      ++++||+|.||..      ||+.+|+++..++.   ...|.+|+|||+|.+ .+.++.|+|    .+...++..++.+.+
T Consensus         6 ~vi~lD~S~sM~a~D~~PnRL~aak~~i~~~~~~f~~~np~~~vGlv~fag~~a~v~~plT----~D~~~~~~~L~~i~~   81 (187)
T cd01452           6 TMICIDNSEYMRNGDYPPTRFQAQADAVNLICQAKTRSNPENNVGLMTMAGNSPEVLVTLT----NDQGKILSKLHDVQP   81 (187)
T ss_pred             EEEEEECCHHHHcCCCCCCHHHHHHHHHHHHHHHHHhcCCCccEEEEEecCCceEEEECCC----CCHHHHHHHHHhCCC
Confidence            6899999999985      99999999988762   235789999999999 999999999    668899999999999


Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCC-cEEEEEeCC-CCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCC
Q 043643          240 NGGTNIVEGLKKGARVLEERRERSPV-ASIILLSDG-QDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQ  317 (634)
Q Consensus       240 ~GgT~i~~aL~~A~~~l~~~~~~~~~-~~IILlTDG-~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~  317 (634)
                      +|+|++..||..|...|+.+..++.. +.||+++++ .++.                   .++.+.+.        ..++
T Consensus        82 ~g~~~l~~AL~~A~~~L~~~~~~~~~~rivi~v~S~~~~d~-------------------~~i~~~~~--------~lkk  134 (187)
T cd01452          82 KGKANFITGIQIAQLALKHRQNKNQKQRIVAFVGSPIEEDE-------------------KDLVKLAK--------RLKK  134 (187)
T ss_pred             CCcchHHHHHHHHHHHHhcCCCcCCcceEEEEEecCCcCCH-------------------HHHHHHHH--------HHHH
Confidence            99999999999999999876654443 446666655 4431                   23333322        2346


Q ss_pred             CCeeEEEEEccCC-CChHHHHHHHhhcC----CeEEEcCChh
Q 043643          318 PTFPVHTFGFGLE-HDSEAMHAIADASG----GTFSFIETLS  354 (634)
Q Consensus       318 ~~i~I~t~G~G~~-~d~~~L~~iA~~tg----G~~~~i~~~~  354 (634)
                      .+|.|++||||.. .+...|+.+.+.-+    -+|..++...
T Consensus       135 ~~I~v~vI~~G~~~~~~~~l~~~~~~~~~~~~s~~~~~~~~~  176 (187)
T cd01452         135 NNVSVDIINFGEIDDNTEKLTAFIDAVNGKDGSHLVSVPPGE  176 (187)
T ss_pred             cCCeEEEEEeCCCCCCHHHHHHHHHHhcCCCCceEEEeCCCC
Confidence            7999999999965 45667777766542    3455555433

It is an ATP-dependent protease responsible for the bulk of non-lysosomal proteolysis in eukaryotes, often using covalent modification of proteins by ubiquitylation. It consists of a 20S proteolytic core particle (CP) and a 19S regulatory particle (RP). The CP is an ATP independent peptidase consisting of hydrolyzing activities. One or both ends of CP carry the RP that confers both ubiquitin and ATP dependence to the 26S proteosome. The RP's proposed functions include recognition of substrates and translocation of these to CP for proteolysis. The RP can dissociate into a stable lid and base subcomplexes. The base is composed of three non-ATPase subunits (Rpn 1, 2 and 10). A single residue in the vWA domain of Rpn10 has been implicated to be responsible for stabilizing the lid-base association.

>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.53  E-value=2.7e-12  Score=141.61  Aligned_cols=297  Identities=18%  Similarity=0.180  Sum_probs=204.5

Q ss_pred             EEEEEEeCCCCCCCCCCCCceEEEEEeCCCCCCc--cHHHHHHHHHHHHHhcC--CCCeEEEEEeCCCcEEEE-------
Q 043643          149 AVLLRVCAPSLPNDADRAPIDLVTVLDVSGSMSS--KLPLLKRAVHFIIQNLG--SADRLSIVIFSSVARRIF-------  217 (634)
Q Consensus       149 ~v~v~~~ap~~~~~~~r~p~dlv~VlD~SgSM~g--kl~~~K~al~~li~~L~--~~drvsIV~Fs~~a~~~~-------  217 (634)
                      .-.|++.||......+..|.-+|||||+|-|-..  -++.+++++..-++.|.  +..|+++|+|++...-.-       
T Consensus       276 ~s~vE~iAP~eYmlR~P~Pavy~FliDVS~~a~ksG~L~~~~~slL~~LD~lpgd~Rt~igfi~fDs~ihfy~~~~~~~q  355 (887)
T KOG1985|consen  276 SSVVEFIAPSEYMLRPPQPAVYVFLIDVSISAIKSGYLETVARSLLENLDALPGDPRTRIGFITFDSTIHFYSVQGDLNQ  355 (887)
T ss_pred             ceeEEEecCcccccCCCCCceEEEEEEeehHhhhhhHHHHHHHHHHHhhhcCCCCCcceEEEEEeeceeeEEecCCCcCC
Confidence            4568999999888888899999999999976554  89999999999999998  678999999998653210       


Q ss_pred             -----------cCcccCH-------HHHHHHHHHHhcC---C---CCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeC
Q 043643          218 -----------PLQRMTD-------SGRENAIRAINTL---S---SNGGTNIVEGLKKGARVLEERRERSPVASIILLSD  273 (634)
Q Consensus       218 -----------pl~~~t~-------~~~~~~~~~I~~l---~---~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTD  273 (634)
                                 ++-+|-+       +-|+.+...|+.|   -   -.-+.+++.||+.|.+++....+     .|+++.-
T Consensus       356 p~mm~vsdl~d~flp~pd~lLv~L~~ck~~i~~lL~~lp~~F~~~~~t~~alGpALkaaf~li~~~GG-----ri~vf~s  430 (887)
T KOG1985|consen  356 PQMMIVSDLDDPFLPMPDSLLVPLKECKDLIETLLKTLPEMFQDTRSTGSALGPALKAAFNLIGSTGG-----RISVFQS  430 (887)
T ss_pred             CceeeeccccccccCCchhheeeHHHHHHHHHHHHHHHHHHHhhccCcccccCHHHHHHHHHHhhcCC-----eEEEEec
Confidence                       0111110       2244444444443   2   23477899999999999976653     4899999


Q ss_pred             CCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEEccCCC-ChHHHHHHHhhcCCeEEEcCC
Q 043643          274 GQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEH-DSEAMHAIADASGGTFSFIET  352 (634)
Q Consensus       274 G~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~~-d~~~L~~iA~~tgG~~~~i~~  352 (634)
                      +.||.|.+...-+++...........+..--...++..+.++.+.+|.|.-|-|...+ |-+.|..|+..+||..||..+
T Consensus       431 ~lPnlG~G~L~~rEdp~~~~s~~~~qlL~~~t~FYK~~a~~cs~~qI~VDlFl~s~qY~DlAsLs~LskySgG~~y~YP~  510 (887)
T KOG1985|consen  431 TLPNLGAGKLKPREDPNVRSSDEDSQLLSPATDFYKDLALECSKSQICVDLFLFSEQYTDLASLSCLSKYSGGQVYYYPS  510 (887)
T ss_pred             cCCCCCccccccccccccccchhhhhccCCCchHHHHHHHHhccCceEEEEEeecccccchhhhhccccccCceeEEccC
Confidence            9999998765444222222211111011001111222223567899999999997665 778999999999999888776


Q ss_pred             hhhH----HHHHHHHhhcccc-ceeeeeEEEEEecCCCeEEEEecCCCCCcccccCCceeEEEcCCccCCcEEEEEEEEE
Q 043643          353 LSIL----QDAFARCIGGLLS-VVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLS  427 (634)
Q Consensus       353 ~~~l----~~~f~~~l~~l~s-~va~~~~l~v~~~~~~v~i~~v~~~~~~~~~~~~~~~~~i~lg~l~~~e~r~~lv~l~  427 (634)
                      ++.=    ...|.+.+...++ .++-+..++|+| +.|+.+..++ |++..+     .+....+..+..+..-.|-+.++
T Consensus       511 f~~s~p~~~~Kf~~el~r~Ltr~~~feaVmRiR~-S~gl~~~~f~-GnFF~R-----StDLla~~~v~~D~sy~~qisiE  583 (887)
T KOG1985|consen  511 FDGSNPHDVLKFARELARYLTRKIGFEAVMRIRC-STGLRMSSFF-GNFFVR-----STDLLALPNVNPDQSYAFQISIE  583 (887)
T ss_pred             CCCCCHHHHHHHHHHHHHHhhhhhhhheeEEeec-ccccccccee-cccccC-----cHHHhcccCCCCCccceEEEEee
Confidence            5432    4567777776665 599999999998 7899998874 555443     34566777888877766666665


Q ss_pred             cCCCCCCCCCCCCccceEEEEEEEecCCCCceeeeecc
Q 043643          428 IPVSSAEGEQRPECTALLDVFCTHKDSASMEIHQVEGE  465 (634)
Q Consensus       428 ~p~~~~~~~~~~~~~~l~~v~~~Y~~~~~~~~~~~~~~  465 (634)
                        .....      ..-.+|+.+.|+...+.+.++|.+-
T Consensus       584 --esl~~------~~~~fQvAlLyT~~~GERRIRV~T~  613 (887)
T KOG1985|consen  584 --ESLTT------GFCVFQVALLYTLSKGERRIRVHTL  613 (887)
T ss_pred             --hhcCC------ceeEEEeeeeecccCCceeEEEEEe
Confidence              22221      1345899999999999999988643

>cd01457 vWA_ORF176_type VWA ORF176 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)

Probab=99.51  E-value=2.8e-13  Score=132.98  Aligned_cols=149  Identities=17%  Similarity=0.249  Sum_probs=109.5

Q ss_pred             CceEEEEEeCCCCCCc--------cHHHHHHHHHHHHHhcC--CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhc
Q 043643          167 PIDLVTVLDVSGSMSS--------KLPLLKRAVHFIIQNLG--SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINT  236 (634)
Q Consensus       167 p~dlv~VlD~SgSM~g--------kl~~~K~al~~li~~L~--~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~  236 (634)
                      +.|++|+||.||||..        |++.+|+++..++..+.  +.|+++++.|++......|++      +..+.+.+.+
T Consensus         2 ~~dvv~~ID~SgSM~~~~~~~~~~k~~~ak~~~~~l~~~~~~~D~d~i~l~~f~~~~~~~~~~~------~~~v~~~~~~   75 (199)
T cd01457           2 NRDYTLLIDKSGSMAEADEAKERSRWEEAQESTRALARKCEEYDSDGITVYLFSGDFRRYDNVN------SSKVDQLFAE   75 (199)
T ss_pred             CcCEEEEEECCCcCCCCCCCCCchHHHHHHHHHHHHHHHHHhcCCCCeEEEEecCCccccCCcC------HHHHHHHHhc
Confidence            5699999999999973        79999999999888764  478899999999887666654      6677778888


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhccC---C-CCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccc
Q 043643          237 LSSNGGTNIVEGLKKGARVLEERRER---S-PVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSK  312 (634)
Q Consensus       237 l~~~GgT~i~~aL~~A~~~l~~~~~~---~-~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~  312 (634)
                      +.+.|+|+++.+|..+++.+..+...   . ....||++|||.++..                  ....+++.+....  
T Consensus        76 ~~p~G~T~l~~~l~~a~~~~~~~~~~~~~~p~~~~vIiiTDG~~~d~------------------~~~~~~i~~a~~~--  135 (199)
T cd01457          76 NSPDGGTNLAAVLQDALNNYFQRKENGATCPEGETFLVITDGAPDDK------------------DAVERVIIKASDE--  135 (199)
T ss_pred             CCCCCcCcHHHHHHHHHHHHHHHHhhccCCCCceEEEEEcCCCCCcH------------------HHHHHHHHHHHHh--
Confidence            98999999999999998655433211   1 1477999999998731                  2223322211111  


Q ss_pred             cccCCCCeeEEEEEccCCC-ChHHHHHHHhh
Q 043643          313 REAGQPTFPVHTFGFGLEH-DSEAMHAIADA  342 (634)
Q Consensus       313 ~~~~~~~i~I~t~G~G~~~-d~~~L~~iA~~  342 (634)
                       .....++.|+++++|.+. +...|+.|++.
T Consensus       136 -l~~~~~i~i~~v~vG~~~~~~~~L~~ld~~  165 (199)
T cd01457         136 -LDADNELAISFLQIGRDPAATAFLKALDDQ  165 (199)
T ss_pred             -hccccCceEEEEEeCCcHHHHHHHHHHhHH
Confidence             112257999999999874 56678888864

Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most

>PTZ00395 Sec24-related protein; Provisional

Probab=99.50  E-value=9.2e-12  Score=143.79  Aligned_cols=287  Identities=15%  Similarity=0.180  Sum_probs=190.9

Q ss_pred             CCCCCCceEEEEEeCCCCCCc--cHHHHHHHHHHHHHhcC-CCCeEEEEEeCCCcEE-----------------------
Q 043643          162 DADRAPIDLVTVLDVSGSMSS--KLPLLKRAVHFIIQNLG-SADRLSIVIFSSVARR-----------------------  215 (634)
Q Consensus       162 ~~~r~p~dlv~VlD~SgSM~g--kl~~~K~al~~li~~L~-~~drvsIV~Fs~~a~~-----------------------  215 (634)
                      .....|.-++||||+|-.--.  -+..+-++++..|+.|. +..||+||+|++...-                       
T Consensus       947 ~~~p~PP~YvFLIDVS~~AVkSGLl~tacesIK~sLDsL~dpRTRVGIITFDSsLHFYNLks~l~~~~~~~~~~~~l~qP 1026 (1560)
T PTZ00395        947 VKNMLPPYFVFVVECSYNAIYNNITYTILEGIRYAVQNVKCPQTKIAIITFNSSIYFYHCKGGKGVSGEEGDGGGGSGNH 1026 (1560)
T ss_pred             ccCCCCCEEEEEEECCHHHHhhChHHHHHHHHHHHHhcCCCCCcEEEEEEecCcEEEEecCcccccccccccccccCCCc
Confidence            345677899999999965432  67778888888888875 5689999999986410                       


Q ss_pred             ---EE-----cCcccC--------HHHHHHHHHHHhcCC------CCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeC
Q 043643          216 ---IF-----PLQRMT--------DSGRENAIRAINTLS------SNGGTNIVEGLKKGARVLEERRERSPVASIILLSD  273 (634)
Q Consensus       216 ---~~-----pl~~~t--------~~~~~~~~~~I~~l~------~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTD  273 (634)
                         ++     |+.++.        .+.++.+...|+.|.      ...+..++.||+.|.++|+....   ...|+++.-
T Consensus      1027 QMLVVSDLDDPFLPlP~ddLLVnL~ESRevIe~LLDkLPemFt~t~~~esCLGSALqAA~~aLk~~GG---GGKIiVF~S 1103 (1560)
T PTZ00395       1027 QVIVMSDVDDPFLPLPLEDLFFGCVEEIDKINTLIDTIKSVSTTMQSYGSCGNSALKIAMDMLKERNG---LGSICMFYT 1103 (1560)
T ss_pred             eEEeecCCccCcCCCCccCeeechHHHHHHHHHHHHHHHHHhhccCCCcccHHHHHHHHHHHHHhcCC---CceEEEEEc
Confidence               10     111211        134555666666552      23578899999999999986542   234777777


Q ss_pred             CCCCCCCCCCccc---ccccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEEccCCC---ChHHHHHHHhhcCCeE
Q 043643          274 GQDTHNVLRNSYT---QDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEH---DSEAMHAIADASGGTF  347 (634)
Q Consensus       274 G~~~~g~~~~~~~---~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~~---d~~~L~~iA~~tgG~~  347 (634)
                      ..|+.|.+....+   ..+.........-|+.+        +.++.+.+|.|..|-|+..+   +-..|..|+..|||..
T Consensus      1104 SLPniGpGaLK~Re~~~KEk~Ll~pqd~FYK~L--------A~ECsk~qISVDLFLfSsqYvDVDVATLg~Lsr~TGGql 1175 (1560)
T PTZ00395       1104 TTPNCGIGAIKELKKDLQENFLEVKQKIFYDSL--------LLDLYAFNISVDIFIISSNNVRVCVPSLQYVAQNTGGKI 1175 (1560)
T ss_pred             CCCCCCCCcccccccccccccccccchHHHHHH--------HHHHHhcCCceEEEEccCcccccccccccchhcccceeE
Confidence            9999987654211   11111111112223332        22455688999999887543   3478999999999998


Q ss_pred             EEcCChhhH---HHHHHHHhhcccc-ceeeeeEEEEEecCCCeEEEEecC-CCCCcccccCCceeEEEcCCccCCcEEEE
Q 043643          348 SFIETLSIL---QDAFARCIGGLLS-VVSQDVKLTIRSKSAGVRIGSIPS-GRYNSEVLDEGQQAVIDIGNLYADEEKEF  422 (634)
Q Consensus       348 ~~i~~~~~l---~~~f~~~l~~l~s-~va~~~~l~v~~~~~~v~i~~v~~-~~~~~~~~~~~~~~~i~lg~l~~~e~r~~  422 (634)
                      +|.+++...   .+.+.++...+.. .++.+..++|+| +.|++|..++. |+....+.   ....+.|+.+..++...|
T Consensus      1176 yyYPnFna~rD~~KL~~DL~r~LTre~iGyEAVMRVRC-S~GLrVs~fyG~GnnF~s~r---StDLLaLP~Id~DqSfaV 1251 (1560)
T PTZ00395       1176 LFVENFLWQKDYKEIYMNIMDTLTSEDIAYCCELKLRY-SHHMSVKKLFCCNNNFNSII---SVDTIKIPKIRHDQTFAF 1251 (1560)
T ss_pred             EEeCCCcccccHHHHHHHHHHHhhccceeeEEEEEEEC-CCCeEEEEEeccCCcccccc---ccccccccccCCCceEEE
Confidence            888765322   2333444444444 589999999998 79999999872 12221110   124578999999999998


Q ss_pred             EEEEEcCCCCCCCCCCCCccceEEEEEEEecCCCCceeeeecceeEEe
Q 043643          423 MVYLSIPVSSAEGEQRPECTALLDVFCTHKDSASMEIHQVEGEKVEIR  470 (634)
Q Consensus       423 lv~l~~p~~~~~~~~~~~~~~l~~v~~~Y~~~~~~~~~~~~~~~~~v~  470 (634)
                      +++++-......       ...+|+.|.|++..+.+.|+|.+..+.|.
T Consensus      1252 eLk~DEkL~~~~-------~AYFQaALLYTSssGERRIRVHTLALPVT 1292 (1560)
T PTZ00395       1252 LLNYSDISESKK-------QIYFQCACIYTNLWGDRFVRLHTTHMNLT 1292 (1560)
T ss_pred             EEEeccccCCCC-------cEEEEEEEeeccCCCcEEEEEEeeeeccc
Confidence            888863322222       57899999999999999999987666554

>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]

Probab=99.42  E-value=2.5e-12  Score=150.32  Aligned_cols=175  Identities=27%  Similarity=0.376  Sum_probs=142.7

Q ss_pred             CCCCCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEc-----CcccCHHHHHHHHHHH
Q 043643          161 NDADRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFP-----LQRMTDSGRENAIRAI  234 (634)
Q Consensus       161 ~~~~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~p-----l~~~t~~~~~~~~~~I  234 (634)
                      ......|.|+++++|+||||.| +++++|..+..+++.|.++|.|.|++|++.+..+.|     +.+.|-.+++.+++.|
T Consensus       219 i~aAt~pKdiviLlD~SgSm~g~~~~lak~tv~~iLdtLs~~Dfvni~tf~~~~~~v~pc~~~~lvqAt~~nk~~~~~~i  298 (1104)
T KOG2353|consen  219 IQAATSPKDIVILLDVSGSMSGLRLDLAKQTVNEILDTLSDNDFVNILTFNSEVNPVSPCFNGTLVQATMRNKKVFKEAI  298 (1104)
T ss_pred             ccccCCccceEEEEeccccccchhhHHHHHHHHHHHHhcccCCeEEEEeeccccCcccccccCceeecchHHHHHHHHHH
Confidence            3456789999999999999999 999999999999999999999999999999987764     6677889999999999


Q ss_pred             hcCCCCCCCcHHHHHHHHHHHHHhhccCCC-------CcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhh
Q 043643          235 NTLSSNGGTNIVEGLKKGARVLEERRERSP-------VASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSS  307 (634)
Q Consensus       235 ~~l~~~GgT~i~~aL~~A~~~l~~~~~~~~-------~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~  307 (634)
                      +.+.+.|.+++..|+..|+++|........       ...|+|+|||.++.                     ..+.+.. 
T Consensus       299 ~~l~~k~~a~~~~~~e~aF~lL~~~n~s~~~~~~~~C~~~iml~tdG~~~~---------------------~~~If~~-  356 (1104)
T KOG2353|consen  299 ETLDAKGIANYTAALEYAFSLLRDYNDSRANTQRSPCNQAIMLITDGVDEN---------------------AKEIFEK-  356 (1104)
T ss_pred             hhhccccccchhhhHHHHHHHHHHhccccccccccccceeeEEeecCCccc---------------------HHHHHHh-
Confidence            999999999999999999999975432211       24699999998763                     2222221 


Q ss_pred             hhccccccCCCCeeEEEEEccCC-CChHHHHHHHhhcCCeEEEcCChhhHHHHHHH
Q 043643          308 ICLSKREAGQPTFPVHTFGFGLE-HDSEAMHAIADASGGTFSFIETLSILQDAFAR  362 (634)
Q Consensus       308 i~~~~~~~~~~~i~I~t~G~G~~-~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~  362 (634)
                      .+     .....|.|+||-+|.. .+...++.+|....|.|++|.+.+++...-..
T Consensus       357 yn-----~~~~~Vrvftflig~~~~~~~~~~wmac~n~gyy~~I~~~~~v~~~~~~  407 (1104)
T KOG2353|consen  357 YN-----WPDKKVRVFTFLIGDEVYDLDEIQWMACANKGYYVHIISIADVRENVLE  407 (1104)
T ss_pred             hc-----cCCCceEEEEEEecccccccccchhhhhhCCCceEeccchhhcChHhhh
Confidence            11     1267899999999965 35556999999999999999998877554433

>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.35  E-value=1e-10  Score=129.64  Aligned_cols=286  Identities=13%  Similarity=0.119  Sum_probs=188.1

Q ss_pred             CCCCCceEEEEEeCCCC--CCccHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEE---------------------E
Q 043643          163 ADRAPIDLVTVLDVSGS--MSSKLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARR---------------------I  216 (634)
Q Consensus       163 ~~r~p~dlv~VlD~SgS--M~gkl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~---------------------~  216 (634)
                      ....|..+||+||+|-.  |.|-...+-++++.++..|.   ++.||+||+|++..+-                     .
T Consensus       413 k~p~ppafvFmIDVSy~Ai~~G~~~a~ce~ik~~l~~lp~~~p~~~Vgivtfd~tvhFfnl~s~L~qp~mliVsdv~dvf  492 (1007)
T KOG1984|consen  413 KPPKPPAFVFMIDVSYNAISNGAVKAACEAIKSVLEDLPREEPNIRVGIVTFDKTVHFFNLSSNLAQPQMLIVSDVDDVF  492 (1007)
T ss_pred             CCCCCceEEEEEEeehhhhhcchHHHHHHHHHHHHhhcCccCCceEEEEEEecceeEeeccCccccCceEEEeecccccc
Confidence            35678899999999843  44566677778888887765   6789999999987531                     1


Q ss_pred             EcCc----ccCHHHHHHHHHHHhcC---CCC---CCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCC-cc
Q 043643          217 FPLQ----RMTDSGRENAIRAINTL---SSN---GGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRN-SY  285 (634)
Q Consensus       217 ~pl~----~~t~~~~~~~~~~I~~l---~~~---GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~-~~  285 (634)
                      +||.    -+..+.+.-+...++.+   -.+   --|-++.+|+.|...|+...    ...+++++.-.++.+.+.. ..
T Consensus       493 vPf~~g~~V~~~es~~~i~~lLd~Ip~mf~~sk~pes~~g~alqaa~lalk~~~----gGKl~vF~s~Lpt~g~g~kl~~  568 (1007)
T KOG1984|consen  493 VPFLDGLFVNPNESRKVIELLLDSIPTMFQDSKIPESVFGSALQAAKLALKAAD----GGKLFVFHSVLPTAGAGGKLSN  568 (1007)
T ss_pred             cccccCeeccchHHHHHHHHHHHHhhhhhccCCCCchhHHHHHHHHHHHHhccC----CceEEEEecccccccCcccccc
Confidence            2221    11123455555555554   222   25678999999999997653    2337888888888876632 12


Q ss_pred             cccccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEEccCC-CChHHHHHHHhhcCCeEEEcCChhhHH---HHHH
Q 043643          286 TQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLE-HDSEAMHAIADASGGTFSFIETLSILQ---DAFA  361 (634)
Q Consensus       286 ~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~-~d~~~L~~iA~~tgG~~~~i~~~~~l~---~~f~  361 (634)
                      +.+.+..+...+..+-.-..++++..+.+..+.++.|..|-+-.. .|.+.+..++..|||..|....+..+.   ..+.
T Consensus       569 r~D~~l~~t~kek~l~~pq~~~y~~LA~e~v~~g~svDlF~t~~ayvDvAtlg~v~~~TgG~vy~Y~~F~a~~D~~rl~n  648 (1007)
T KOG1984|consen  569 RDDRRLIGTDKEKNLLQPQDKTYTTLAKEFVESGCSVDLFLTPNAYVDVATLGVVPALTGGQVYKYYPFQALTDGPRLLN  648 (1007)
T ss_pred             cchhhhhcccchhhccCcchhHHHHHHHHHHHhCceEEEEEcccceeeeeeecccccccCceeEEecchhhcccHHHHHH
Confidence            222222222111111110111122222234457888888877443 577888899999999988777766554   5556


Q ss_pred             HHhhccccceeeeeEEEEEecCCCeEEEEecCCCCCcccccCCceeEEEcCCccCCcEEEEEEEEEcCCCCCCCCCCCCc
Q 043643          362 RCIGGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRPEC  441 (634)
Q Consensus       362 ~~l~~l~s~va~~~~l~v~~~~~~v~i~~v~~~~~~~~~~~~~~~~~i~lg~l~~~e~r~~lv~l~~p~~~~~~~~~~~~  441 (634)
                      ++...+...+.-++.++++| +.|+++..++ |++--     .+...+.|+.|..+...+++|..+-+...+.       
T Consensus       649 DL~~~vtk~~gf~a~mrvRt-StGirv~~f~-Gnf~~-----~~~tDiela~lD~dkt~~v~fkhDdkLq~~s-------  714 (1007)
T KOG1984|consen  649 DLVRNVTKKQGFDAVMRVRT-STGIRVQDFY-GNFLM-----RNPTDIELAALDCDKTLTVEFKHDDKLQDGS-------  714 (1007)
T ss_pred             HHHHhcccceeeeeEEEEee-cCceeeeeee-chhhh-----cCCCCccccccccCceeEEEEeccccccCCc-------
Confidence            67777888899999999998 7899998874 33322     2346788999988777777776664443333       


Q ss_pred             cceEEEEEEEecCCCCceeeeecce
Q 043643          442 TALLDVFCTHKDSASMEIHQVEGEK  466 (634)
Q Consensus       442 ~~l~~v~~~Y~~~~~~~~~~~~~~~  466 (634)
                      ...+|..+.|+...+.+.+++.+-.
T Consensus       715 ~~~fQ~AlLYTti~G~RR~Rv~Nls  739 (1007)
T KOG1984|consen  715 DVHFQTALLYTTIDGQRRLRVLNLS  739 (1007)
T ss_pred             ceeEEEEEEEeccCCceeEEEEecc
Confidence            5789999999999888888875443

>PF10138 vWA-TerF-like: vWA found in TerF C terminus ; InterPro: IPR019303 This entry represents the N-terminal domain of a family of proteins that confer resistance to the metalloid element tellurium and its salts

Probab=99.35  E-value=2.9e-11  Score=115.96  Aligned_cols=158  Identities=18%  Similarity=0.248  Sum_probs=114.0

Q ss_pred             eEEEEEeCCCCCCc-----cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHH-hc---CCC
Q 043643          169 DLVTVLDVSGSMSS-----KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAI-NT---LSS  239 (634)
Q Consensus       169 dlv~VlD~SgSM~g-----kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I-~~---l~~  239 (634)
                      -|++|||+||||.+     ..+.+-+-+.-+..+|.++-.+-++.|++....+-+++   ..+.....+.+ .+   +..
T Consensus         3 rV~LVLD~SGSM~~~yk~G~vQ~~~Er~lalA~~~DdDG~i~v~~Fs~~~~~~~~vt---~~~~~~~v~~~~~~~~~~~~   79 (200)
T PF10138_consen    3 RVYLVLDISGSMRPLYKDGTVQRVVERILALAAQFDDDGEIDVWFFSTEFDRLPDVT---LDNYEGYVDELHAGLPDWGR   79 (200)
T ss_pred             EEEEEEeCCCCCchhhhCccHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCcCCCcC---HHHHHHHHHHHhccccccCC
Confidence            48999999999997     55555555555666788888899999999988876665   23333222222 22   244


Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCC
Q 043643          240 NGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPT  319 (634)
Q Consensus       240 ~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~  319 (634)
                      .|+|+...+|+..++....+.....+..|+++|||.++.                  .....+++.        ++...+
T Consensus        80 ~G~t~y~~vm~~v~~~y~~~~~~~~P~~VlFiTDG~~~~------------------~~~~~~~i~--------~as~~p  133 (200)
T PF10138_consen   80 MGGTNYAPVMEDVLDHYFKREPSDAPALVLFITDGGPDD------------------RRAIEKLIR--------EASDEP  133 (200)
T ss_pred             CCCcchHHHHHHHHHHHhhcCCCCCCeEEEEEecCCccc------------------hHHHHHHHH--------hccCCC
Confidence            588999999999999987665555567899999999762                  345555544        345778


Q ss_pred             eeEEEEEccCCCChHHHHHHHhhc-----CCeEEEcCChhhH
Q 043643          320 FPVHTFGFGLEHDSEAMHAIADAS-----GGTFSFIETLSIL  356 (634)
Q Consensus       320 i~I~t~G~G~~~d~~~L~~iA~~t-----gG~~~~i~~~~~l  356 (634)
                      |-+-.||||.+- -..|++|.+..     +-.|+.+++...+
T Consensus       134 ifwqFVgiG~~~-f~fL~kLD~l~gR~vDNa~Ff~~~d~~~l  174 (200)
T PF10138_consen  134 IFWQFVGIGDSN-FGFLEKLDDLAGRVVDNAGFFAIDDIDEL  174 (200)
T ss_pred             eeEEEEEecCCc-chHHHHhhccCCcccCCcCeEecCCcccC
Confidence            888899999754 78999998853     3447888876554

>cd01460 vWA_midasin VWA_Midasin: Midasin is a member of the AAA ATPase family

Probab=99.34  E-value=4.7e-11  Score=120.79  Aligned_cols=186  Identities=18%  Similarity=0.217  Sum_probs=124.5

Q ss_pred             CceEEEEEEeCCCCCCCCCCCCceEEEEEeCCCCCCc------cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcC
Q 043643          146 PKFAVLLRVCAPSLPNDADRAPIDLVTVLDVSGSMSS------KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPL  219 (634)
Q Consensus       146 ~~~~v~v~~~ap~~~~~~~r~p~dlv~VlD~SgSM~g------kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl  219 (634)
                      .+-.+.++-.-|      ...+.+++++||.|.||..      +++ .|..+..++..|. .+++||+.|++++..+.|+
T Consensus        45 ~~dkIwlRRtkp------skr~~qIvlaID~S~SM~~~~~~~~ale-ak~lIs~al~~Le-~g~vgVv~Fg~~~~~v~Pl  116 (266)
T cd01460          45 RKDKIWLRRTKP------AKRDYQILIAIDDSKSMSENNSKKLALE-SLCLVSKALTLLE-VGQLGVCSFGEDVQILHPF  116 (266)
T ss_pred             cCCceEEEeccC------CccCceEEEEEecchhcccccccccHHH-HHHHHHHHHHhCc-CCcEEEEEeCCCceEeCCC
Confidence            344566666655      3357999999999999985      555 6667777777665 7999999999999999999


Q ss_pred             cccCHHHHHHHHHHHhcC-CCCCCCcHHHHHHHHHHHHHhhccC--CC--CcEEEEEeCCC--CCCCCCCCcccccccCC
Q 043643          220 QRMTDSGRENAIRAINTL-SSNGGTNIVEGLKKGARVLEERRER--SP--VASIILLSDGQ--DTHNVLRNSYTQDEASS  292 (634)
Q Consensus       220 ~~~t~~~~~~~~~~I~~l-~~~GgT~i~~aL~~A~~~l~~~~~~--~~--~~~IILlTDG~--~~~g~~~~~~~~~~~~~  292 (634)
                      +.  +.+.+...+.++.. ...++||+..+|..+.+.+......  ..  .+.|||+|||.  .+.+.            
T Consensus       117 t~--d~~~~a~~~~l~~~~f~~~~Tni~~aL~~a~~~f~~~~~~~~s~~~~qlilLISDG~~~~~e~~------------  182 (266)
T cd01460         117 DE--QFSSQSGPRILNQFTFQQDKTDIANLLKFTAQIFEDARTQSSSGSLWQLLLIISDGRGEFSEGA------------  182 (266)
T ss_pred             CC--CchhhHHHHHhCcccCCCCCCcHHHHHHHHHHHHHhhhccccccccccEEEEEECCCcccCccH------------
Confidence            93  22224555566553 3458999999999999999765321  11  26799999999  54321            


Q ss_pred             CCCCHHHHHhhchhhhhccccccCCCCeeEEEEEccCCC-ChHHH----------------HHHHhhcCCeEEEcCChhh
Q 043643          293 IPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEH-DSEAM----------------HAIADASGGTFSFIETLSI  355 (634)
Q Consensus       293 ~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~~-d~~~L----------------~~iA~~tgG~~~~i~~~~~  355 (634)
                             ....+.        .+...+|.++.|++-+.. +...+                .-+-...--.|..+.|.++
T Consensus       183 -------~~~~~r--------~a~e~~i~l~~I~ld~~~~~~SI~d~~~~~~~~~~~~~l~~Yl~~fpfpYy~~~~~~~~  247 (266)
T cd01460         183 -------QKVRLR--------EAREQNVFVVFIIIDNPDNKQSILDIKVVSFKNDKSGVITPYLDEFPFPYYVIVRDLNQ  247 (266)
T ss_pred             -------HHHHHH--------HHHHcCCeEEEEEEcCCCCCCCcccccccccCCCCccHHHHHHhcCCCCeEEEecChhH
Confidence                   111111        234578999999986541 11221                1122222233556788888


Q ss_pred             HHHHHHHHhhccc
Q 043643          356 LQDAFARCIGGLL  368 (634)
Q Consensus       356 l~~~f~~~l~~l~  368 (634)
                      |+..++.++....
T Consensus       248 lp~~l~~~lrqwf  260 (266)
T cd01460         248 LPSVLSDALRQWF  260 (266)
T ss_pred             hHHHHHHHHHHHH
Confidence            8888888776543

The proteins of this family are unified by their common archetectural organization that is based upon a conserved ATPase domain. The AAA domain of midasin contains six tandem AAA protomers. The AAA domains in midasin is followed by a D/E rich domain that is following by a VWA domain. The members of this subgroup have a conserved MIDAS motif. The function of this domain is not exactly known although it has been speculated to play a crucial role in midasin function.

>cd01458 vWA_ku Ku70/Ku80 N-terminal domain

Probab=99.25  E-value=6.7e-11  Score=117.89  Aligned_cols=143  Identities=13%  Similarity=0.176  Sum_probs=98.1

Q ss_pred             eEEEEEeCCCCCC----c----cHHHHHHHHHHHHHh---cCCCCeEEEEEeCCCc----------EEEEcCcccCHHHH
Q 043643          169 DLVTVLDVSGSMS----S----KLPLLKRAVHFIIQN---LGSADRLSIVIFSSVA----------RRIFPLQRMTDSGR  227 (634)
Q Consensus       169 dlv~VlD~SgSM~----g----kl~~~K~al~~li~~---L~~~drvsIV~Fs~~a----------~~~~pl~~~t~~~~  227 (634)
                      .++|+||+|.||.    +    +++.++.++..++.+   -.++|++|||.|++..          .++.|+...+....
T Consensus         3 ~ivf~iDvS~SM~~~~~~~~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~~~~~~i~v~~~l~~~~~~~l   82 (218)
T cd01458           3 SVVFLVDVSPSMFESKDGEYESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNPVGYENIYVLLDLDTPGAERV   82 (218)
T ss_pred             EEEEEEeCCHHHcCCCCCCCCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCcCCCCceEEeecCCCCCHHHH
Confidence            3799999999994    1    899999999999987   4789999999999974          23445543343333


Q ss_pred             HHHHHHHhcC--------CCCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHH
Q 043643          228 ENAIRAINTL--------SSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELA  299 (634)
Q Consensus       228 ~~~~~~I~~l--------~~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~  299 (634)
                      ..+.+.++.-        ...++|++..||..|.++|.....+...+.|||||||.+..+...            .....
T Consensus        83 ~~l~~~~~~~~~~~~~~~~~~~~~~l~~aL~~a~~~~~~~~~~~~~k~IvL~TDg~~p~~~~~------------~~~~~  150 (218)
T cd01458          83 EDLKELIEPGGLSFAGQVGDSGQVSLSDALWVCLDLFSKGKKKKSHKRIFLFTNNDDPHGGDS------------IKDSQ  150 (218)
T ss_pred             HHHHHHhhcchhhhcccCCCCCCccHHHHHHHHHHHHHhccccccccEEEEECCCCCCCCCCH------------HHHHH
Confidence            4444433221        134689999999999999987433445678999999987653110            01112


Q ss_pred             HHhhchhhhhccccccCCCCeeEEEEEccCCC
Q 043643          300 YLNLLPSSICLSKREAGQPTFPVHTFGFGLEH  331 (634)
Q Consensus       300 ~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~~  331 (634)
                      +...+.        +....+|.|++||+|...
T Consensus       151 ~~~~a~--------~l~~~gI~i~~i~i~~~~  174 (218)
T cd01458         151 AAVKAE--------DLKDKGIELELFPLSSPG  174 (218)
T ss_pred             HHHHHH--------HHHhCCcEEEEEecCCCC
Confidence            222211        334579999999998753

The Ku78 heterodimer (composed of Ku70 and Ku80) contributes to genomic integrity through its ability to bind DNA double-strand breaks (DSB) in a preferred orientation. DSB's are repaired by either homologues recombination or non-homologues end joining and facilitate repair by the non-homologous end-joining pathway (NHEJ). The Ku heterodimer is required for accurate process that tends to preserve the sequence at the junction. Ku78 is found in all three kingdoms of life. However, only the eukaryotic proteins have a vWA domain fused to them at their N-termini. The vWA domain is not involved in DNA binding but may very likey mediate Ku78's interactions with other proteins. Members of this subgroup lack the conserved MIDAS motif.

>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A

Probab=99.17  E-value=9.4e-12  Score=90.91  Aligned_cols=44  Identities=39%  Similarity=0.979  Sum_probs=36.7

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccc
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICR   47 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr   47 (634)
                      |+|+||++.+..  +..++.++|+|.||..||..|++. +..||+||
T Consensus         1 d~C~IC~~~~~~--~~~~~~l~C~H~fh~~Ci~~~~~~-~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFED--GEKVVKLPCGHVFHRSCIKEWLKR-NNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHT--TSCEEEETTSEEEEHHHHHHHHHH-SSB-TTTH
T ss_pred             CCCcCCChhhcC--CCeEEEccCCCeeCHHHHHHHHHh-CCcCCccC
Confidence            689999999976  445667789999999999999987 45999997

...

>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]

Probab=99.13  E-value=2.7e-08  Score=109.70  Aligned_cols=288  Identities=14%  Similarity=0.158  Sum_probs=188.6

Q ss_pred             EEEEEEeCCCCCCCCCCCCceEEEEEeCCCC--CCccHHHHHHHHHHHHHhc---CCCCeEEEEEeCCCcEEEE------
Q 043643          149 AVLLRVCAPSLPNDADRAPIDLVTVLDVSGS--MSSKLPLLKRAVHFIIQNL---GSADRLSIVIFSSVARRIF------  217 (634)
Q Consensus       149 ~v~v~~~ap~~~~~~~r~p~dlv~VlD~SgS--M~gkl~~~K~al~~li~~L---~~~drvsIV~Fs~~a~~~~------  217 (634)
                      .-++.+.+|........+|.-+||+||+|-.  |.|-...+-+++..-++.+   .+..|++||.|++...-+-      
T Consensus       258 ~~vvdf~ap~~Y~~~~p~P~~yvFlIDVS~~a~~~g~~~a~~r~Il~~l~~~~~~dpr~kIaii~fD~sl~ffk~s~d~~  337 (861)
T COG5028         258 SGVVDFLAPKEYSLRQPPPPVYVFLIDVSFEAIKNGLVKAAIRAILENLDQIPNFDPRTKIAIICFDSSLHFFKLSPDLD  337 (861)
T ss_pred             ceeeEEecccceeeccCCCCEEEEEEEeehHhhhcchHHHHHHHHHhhccCCCCCCCcceEEEEEEcceeeEEecCCCCc
Confidence            4568899998877777889999999999943  3334555555555555544   3578999999998754321      


Q ss_pred             -----------cCcccC-------H----HHHHHHHHHHhcCCCC-C--CCcHHHHHHHHHHHHHhhccCCCCcEEEEEe
Q 043643          218 -----------PLQRMT-------D----SGRENAIRAINTLSSN-G--GTNIVEGLKKGARVLEERRERSPVASIILLS  272 (634)
Q Consensus       218 -----------pl~~~t-------~----~~~~~~~~~I~~l~~~-G--gT~i~~aL~~A~~~l~~~~~~~~~~~IILlT  272 (634)
                                 |+-+..       -    .+.+.+...+..+-.+ +  ..+++.||+.|..++....+     .||.+.
T Consensus       338 ~~~~~vsdld~pFlPf~s~~fv~pl~~~k~~~etLl~~~~~If~d~~~pk~~~G~aLk~a~~l~g~~GG-----kii~~~  412 (861)
T COG5028         338 EQMLIVSDLDEPFLPFPSGLFVLPLKSCKQIIETLLDRVPRIFQDNKSPKNALGPALKAAKSLIGGTGG-----KIIVFL  412 (861)
T ss_pred             cceeeecccccccccCCcchhcccHHHHHHHHHHHHHHhhhhhcccCCCccccCHHHHHHHHHhhccCc-----eEEEEe
Confidence                       111111       0    1122345555555333 2  45789999999998865543     377777


Q ss_pred             CCCCCCCCCCCccccc-ccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEEccCC-CChHHHHHHHhhcCCeEEEc
Q 043643          273 DGQDTHNVLRNSYTQD-EASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLE-HDSEAMHAIADASGGTFSFI  350 (634)
Q Consensus       273 DG~~~~g~~~~~~~~~-~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~-~d~~~L~~iA~~tgG~~~~i  350 (634)
                      --.||.|.+....+.+ +.....-...-|+++        +.+..+.+|.|..|-+..+ .|.+.+..++..|+|.-+|.
T Consensus       413 stlPn~G~Gkl~~r~d~e~~ll~c~d~fYk~~--------a~e~~k~gIsvd~Flt~~~yidvaTls~l~~~T~G~~~~Y  484 (861)
T COG5028         413 STLPNMGIGKLQLREDKESSLLSCKDSFYKEF--------AIECSKVGISVDLFLTSEDYIDVATLSHLCRYTGGQTYFY  484 (861)
T ss_pred             ecCCCcccccccccccchhhhccccchHHHHH--------HHHHHHhcceEEEEeccccccchhhhcchhhccCcceEEc
Confidence            7789988876522222 111111111112222        1244567899999988655 47889999999999997776


Q ss_pred             CChhh----HHHHHHHHh-hccccceeeeeEEEEEecCCCeEEEEecCCCCCcccccCCceeEEEcCCccCCcEEEEEEE
Q 043643          351 ETLSI----LQDAFARCI-GGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVY  425 (634)
Q Consensus       351 ~~~~~----l~~~f~~~l-~~l~s~va~~~~l~v~~~~~~v~i~~v~~~~~~~~~~~~~~~~~i~lg~l~~~e~r~~lv~  425 (634)
                      +++..    -...|++.+ ..+...+.-++.++++| +.|+++.+++ |++..+     ......++.+..+++-.|+|.
T Consensus       485 p~f~~~~~~d~~kl~~dL~~~ls~~~gy~~~~rvR~-S~glr~s~fy-Gnf~~r-----s~dl~~F~tm~rd~Sl~~~~s  557 (861)
T COG5028         485 PNFSATRPNDATKLANDLVSHLSMEIGYEAVMRVRC-STGLRVSSFY-GNFFNR-----SSDLCAFSTMPRDTSLLVEFS  557 (861)
T ss_pred             CCcccCCchhHHHHHHHHHHhhhhhhhhheeeEeec-cCceehhhhh-cccccc-----CcccccccccCCCceEEEEEE
Confidence            65432    112244444 34444688899999998 7899998874 444332     456788999999999888888


Q ss_pred             EEcCCCCCCCCCCCCccceEEEEEEEecCCCCceeeeec
Q 043643          426 LSIPVSSAEGEQRPECTALLDVFCTHKDSASMEIHQVEG  464 (634)
Q Consensus       426 l~~p~~~~~~~~~~~~~~l~~v~~~Y~~~~~~~~~~~~~  464 (634)
                      ++-+... .       ...+||.+.|+...+.+.+++.+
T Consensus       558 id~~l~~-~-------~v~fQvAlL~T~~~GeRRiRVvn  588 (861)
T COG5028         558 IDEKLMT-S-------DVYFQVALLYTLNDGERRIRVVN  588 (861)
T ss_pred             ecccccC-C-------ceEEEEEEEeeccCCceEEEEEE
Confidence            8744332 2       56799999999998888888743

>cd01479 Sec24-like Sec24-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles

Probab=99.07  E-value=5.1e-09  Score=105.93  Aligned_cols=180  Identities=17%  Similarity=0.192  Sum_probs=121.0

Q ss_pred             CCceEEEEEeCCCCCCc--cHHHHHHHHHHHHHhcCCC---CeEEEEEeCCCcEEE-------------E--------cC
Q 043643          166 APIDLVTVLDVSGSMSS--KLPLLKRAVHFIIQNLGSA---DRLSIVIFSSVARRI-------------F--------PL  219 (634)
Q Consensus       166 ~p~dlv~VlD~SgSM~g--kl~~~K~al~~li~~L~~~---drvsIV~Fs~~a~~~-------------~--------pl  219 (634)
                      .|.-++||||+|-.-..  -++.+++++...++.++++   .+||||+|++.....             .        |+
T Consensus         2 ~pp~~~FvIDvs~~a~~~g~~~~~~~si~~~L~~lp~~~~~~~VgiITfd~~v~~y~l~~~~~~~q~~vv~dl~d~f~P~   81 (244)
T cd01479           2 QPAVYVFLIDVSYNAIKSGLLATACEALLSNLDNLPGDDPRTRVGFITFDSTLHFFNLKSSLEQPQMMVVSDLDDPFLPL   81 (244)
T ss_pred             CCCEEEEEEEccHHHHhhChHHHHHHHHHHHHHhcCCCCCCeEEEEEEECCeEEEEECCCCCCCCeEEEeeCcccccCCC
Confidence            57889999999864432  6899999999999999866   899999999865321             0        11


Q ss_pred             -----cccCHHHHHHHHHHHhcCC------CCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCccccc
Q 043643          220 -----QRMTDSGRENAIRAINTLS------SNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQD  288 (634)
Q Consensus       220 -----~~~t~~~~~~~~~~I~~l~------~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~  288 (634)
                           .++ .+.+..+.+.|+.|.      ...++.++.||+.|..+|+...     ..|++++.|.++.|.+....+..
T Consensus        82 ~~~~lv~l-~e~~~~i~~lL~~L~~~~~~~~~~~~c~G~Al~~A~~lL~~~G-----GkIi~f~s~~pt~GpG~l~~~~~  155 (244)
T cd01479          82 PDGLLVNL-KESRQVIEDLLDQIPEMFQDTKETESALGPALQAAFLLLKETG-----GKIIVFQSSLPTLGAGKLKSRED  155 (244)
T ss_pred             CcceeecH-HHHHHHHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHhcC-----CEEEEEeCCCCCcCCcccccCcc
Confidence                 011 234566666666652      2347889999999999998433     45999999999999776422222


Q ss_pred             ccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEEccCC-CChHHHHHHHhhcCCeEEEcC
Q 043643          289 EASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLE-HDSEAMHAIADASGGTFSFIE  351 (634)
Q Consensus       289 ~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~-~d~~~L~~iA~~tgG~~~~i~  351 (634)
                      ........+..+..-..+.++..+..+...+|.|+.|.+..+ .|-..|..+++.|||..++.+
T Consensus       156 ~~~~~~~~e~~~~~p~~~fY~~la~~~~~~~isvDlF~~~~~~~dla~l~~l~~~TGG~v~~y~  219 (244)
T cd01479         156 PKLLSTDKEKQLLQPQTDFYKKLALECVKSQISVDLFLFSNQYVDVATLGCLSRLTGGQVYYYP  219 (244)
T ss_pred             ccccCchhhhhhcCcchHHHHHHHHHHHHcCeEEEEEEccCcccChhhhhhhhhhcCceEEEEC
Confidence            111010001001000011222223355678999999998765 577899999999999998888

The two main classes of vesicular carriers within the endocytic and the biosynthetic pathways are COP- and clathrin-coated vesicles. Formation of COPII vesicles requires the ordered assembly of the coat built from several cytosolic components GTPase Sar1, complexes of Sec23-Sec24 and Sec13-Sec31. The process is initiated by the conversion of GDP to GTP by the GTPase Sar1 which then recruits the heterodimeric complex of Sec23 and Sec24. This heterodimeric complex generates the pre-budding complex. The final step leading to membrane deformation and budding of COPII-coated vesicles is carried by the heterodimeric complex Sec13-Sec31. The members of this CD belong to the Sec23-like family. Sec 24 is very similar to Sec23. The Sec23 and Sec24

>PRK10997 yieM hypothetical protein; Provisional

Probab=99.06  E-value=3.4e-09  Score=115.32  Aligned_cols=146  Identities=19%  Similarity=0.203  Sum_probs=102.8

Q ss_pred             CCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHH-HhcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCCCC
Q 043643          164 DRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFII-QNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNG  241 (634)
Q Consensus       164 ~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li-~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~~G  241 (634)
                      ....-.++++||+||||.| +...+|..+..+. -.+..+|+++++.|++..... +++  ...++..+...+... .+|
T Consensus       320 ~~~kGpiII~VDtSGSM~G~ke~~AkalAaAL~~iAl~q~dr~~li~Fs~~i~~~-~l~--~~~gl~~ll~fL~~~-f~G  395 (487)
T PRK10997        320 EQPRGPFIVCVDTSGSMGGFNEQCAKAFCLALMRIALAENRRCYIMLFSTEVVTY-ELT--GPDGLEQAIRFLSQS-FRG  395 (487)
T ss_pred             CCCCCcEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEEecCCceee-ccC--CccCHHHHHHHHHHh-cCC
Confidence            3456779999999999999 8888887444433 357789999999999987654 444  234567777777654 589


Q ss_pred             CCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCee
Q 043643          242 GTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFP  321 (634)
Q Consensus       242 gT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~  321 (634)
                      ||++..+|..+++.+.....++..  ||++||+.....                 ..++.+.+. .++      ...+..
T Consensus       396 GTDl~~aL~~al~~l~~~~~r~ad--IVVISDF~~~~~-----------------~eel~~~L~-~Lk------~~~~~r  449 (487)
T PRK10997        396 GTDLAPCLRAIIEKMQGREWFDAD--AVVISDFIAQRL-----------------PDELVAKVK-ELQ------RQHQHR  449 (487)
T ss_pred             CCcHHHHHHHHHHHHcccccCCce--EEEECCCCCCCC-----------------hHHHHHHHH-HHH------HhcCcE
Confidence            999999999999999765444444  999999975421                 122332222 111      247889


Q ss_pred             EEEEEccCCCChHHHHHHH
Q 043643          322 VHTFGFGLEHDSEAMHAIA  340 (634)
Q Consensus       322 I~t~G~G~~~d~~~L~~iA  340 (634)
                      +|++-+|...++..+ .|.
T Consensus       450 f~~l~i~~~~~p~l~-~if  467 (487)
T PRK10997        450 FHAVAMSAHGKPGIM-RIF  467 (487)
T ss_pred             EEEEEeCCCCCchHH-Hhc
Confidence            999999975565554 443

>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger

Probab=99.02  E-value=1.7e-10  Score=94.28  Aligned_cols=52  Identities=33%  Similarity=0.784  Sum_probs=43.6

Q ss_pred             CCccccccccc--------cCCcceeEecCCCCccchhhHHHHHhc--CCCcCccccccccc
Q 043643            1 KTCPICLGSLR--------RGQGVAIFTAECSHSFHFCCIAANVQH--GNRICPICRCEWKD   52 (634)
Q Consensus         1 ~~C~ICl~~~~--------~~~~~~~~~~~C~H~Fh~~Ci~~w~~~--~~~~CP~Cr~~~~~   52 (634)
                      |.|+||...|.        +|+..+++...|+|.||.+||.+|+..  .+..||+||++|..
T Consensus        22 d~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~   83 (85)
T PF12861_consen   22 DVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF   83 (85)
T ss_pred             CceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence            57999999885        456678888999999999999999974  35689999999864

>cd01468 trunk_domain trunk domain

Probab=99.02  E-value=7.4e-09  Score=104.63  Aligned_cols=185  Identities=17%  Similarity=0.206  Sum_probs=122.8

Q ss_pred             CCceEEEEEeCCCC-CCc-cHHHHHHHHHHHHHhcC--CCCeEEEEEeCCCcEEEE--------------cC----cccC
Q 043643          166 APIDLVTVLDVSGS-MSS-KLPLLKRAVHFIIQNLG--SADRLSIVIFSSVARRIF--------------PL----QRMT  223 (634)
Q Consensus       166 ~p~dlv~VlD~SgS-M~g-kl~~~K~al~~li~~L~--~~drvsIV~Fs~~a~~~~--------------pl----~~~t  223 (634)
                      .|.-++||||+|.. ... -++.+++++...++.|+  ++.||+||+|++.+...-              .+    .++.
T Consensus         2 ~pp~~vFvID~s~~ai~~~~l~~~~~sl~~~l~~lp~~~~~~igiITf~~~V~~~~~~~~~~~~~~~v~~dl~d~f~p~~   81 (239)
T cd01468           2 QPPVFVFVIDVSYEAIKEGLLQALKESLLASLDLLPGDPRARVGLITYDSTVHFYNLSSDLAQPKMYVVSDLKDVFLPLP   81 (239)
T ss_pred             CCCEEEEEEEcchHhccccHHHHHHHHHHHHHHhCCCCCCcEEEEEEeCCeEEEEECCCCCCCCeEEEeCCCccCcCCCc
Confidence            57789999999975 333 89999999999999998  899999999987653210              00    0110


Q ss_pred             -------HHHHHHHHHHHhcCCC--------CCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCccccc
Q 043643          224 -------DSGRENAIRAINTLSS--------NGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQD  288 (634)
Q Consensus       224 -------~~~~~~~~~~I~~l~~--------~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~  288 (634)
                             .+.+..+.+.++.|..        ..+..++.||..|..+|+...   ....|++++.|.++.|.+....+..
T Consensus        82 ~~~l~~~~e~~~~i~~~l~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~---~gGkI~~f~sg~pt~GpG~l~~~~~  158 (239)
T cd01468          82 DRFLVPLSECKKVIHDLLEQLPPMFWPVPTHRPERCLGPALQAAFLLLKGTF---AGGRIIVFQGGLPTVGPGKLKSRED  158 (239)
T ss_pred             CceeeeHHHHHHHHHHHHHhhhhhccccCCCCCcccHHHHHHHHHHHHhhcC---CCceEEEEECCCCCCCCCccccCcc
Confidence                   1334556666666533        235789999999999998762   2345999999999998776422211


Q ss_pred             ccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEEccCC-CChHHHHHHHhhcCCeEEEcCCh
Q 043643          289 EASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLE-HDSEAMHAIADASGGTFSFIETL  353 (634)
Q Consensus       289 ~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~-~d~~~L~~iA~~tgG~~~~i~~~  353 (634)
                      ........+..+..-..+.++..+..+...+|.|+.|.++.+ .|-..|..+++.|||..++.++.
T Consensus       159 ~~~~~~~~e~~~~~~a~~fY~~la~~~~~~~isvdlF~~~~~~~dl~~l~~l~~~TGG~v~~y~~f  224 (239)
T cd01468         159 KEPIRSHDEAQLLKPATKFYKSLAKECVKSGICVDLFAFSLDYVDVATLKQLAKSTGGQVYLYDSF  224 (239)
T ss_pred             cccCCCccchhcccccHHHHHHHHHHHHHcCeEEEEEeccccccCHHHhhhhhhcCCceEEEeCCC
Confidence            101000000000000011122222345568999999998876 57789999999999999999887

COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and the Sec13p/Sec31p complex. This domain is known as the trunk domain and has an alpha/beta vWA fold and forms the dimer interface. Some members of this family possess a partial MIDAS motif that is a characteristic feature of most vWA domain proteins.

>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=99.00  E-value=4.5e-10  Score=115.86  Aligned_cols=49  Identities=33%  Similarity=0.847  Sum_probs=41.4

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccc
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWK   51 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~   51 (634)
                      ++|+||+|.|..|+.  ...++|+|.||..||..|+...+..||+|+....
T Consensus       230 ~~CaIClEdY~~Gdk--lRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~  278 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDK--LRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIR  278 (348)
T ss_pred             ceEEEeecccccCCe--eeEecCCCchhhccchhhHhhcCccCCCCCCcCC
Confidence            489999999999544  4558999999999999999876667999998643

>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=98.97  E-value=3.4e-09  Score=113.07  Aligned_cols=144  Identities=21%  Similarity=0.273  Sum_probs=101.6

Q ss_pred             eEEEEEeCCCCCCc-cHHHHHHHHHHHHH-hcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCCCCCCcHH
Q 043643          169 DLVTVLDVSGSMSS-KLPLLKRAVHFIIQ-NLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNGGTNIV  246 (634)
Q Consensus       169 dlv~VlD~SgSM~g-kl~~~K~al~~li~-~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~~GgT~i~  246 (634)
                      .++++||.||||.| +...+|..+..++. .|..+-++.++.|++....+-...+  ..+...+.+.+....++| |++.
T Consensus       274 pvilllD~SGSM~G~~e~~AKAvalAl~~~alaenR~~~~~lF~s~~~~~el~~k--~~~~~e~i~fL~~~f~GG-TD~~  350 (437)
T COG2425         274 PVILLLDKSGSMSGFKEQWAKAVALALMRIALAENRDCYVILFDSEVIEYELYEK--KIDIEELIEFLSYVFGGG-TDIT  350 (437)
T ss_pred             CEEEEEeCCCCcCCcHHHHHHHHHHHHHHHHHHhccceEEEEecccceeeeecCC--ccCHHHHHHHHhhhcCCC-CChH
Confidence            48999999999999 99999975555443 5667889999999994332221111  124667777776665555 9999


Q ss_pred             HHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEE
Q 043643          247 EGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFG  326 (634)
Q Consensus       247 ~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G  326 (634)
                      .+|..|++.++++...+  .-||++|||.+...                  .++...+..       ..+..+..+|++-
T Consensus       351 ~~l~~al~~~k~~~~~~--adiv~ITDg~~~~~------------------~~~~~~v~e-------~~k~~~~rl~aV~  403 (437)
T COG2425         351 KALRSALEDLKSRELFK--ADIVVITDGEDERL------------------DDFLRKVKE-------LKKRRNARLHAVL  403 (437)
T ss_pred             HHHHHHHHHhhcccccC--CCEEEEeccHhhhh------------------hHHHHHHHH-------HHHHhhceEEEEE
Confidence            99999999999877666  45999999987631                  122222221       1235788999999


Q ss_pred             ccCCCChHHHHHHHhhc
Q 043643          327 FGLEHDSEAMHAIADAS  343 (634)
Q Consensus       327 ~G~~~d~~~L~~iA~~t  343 (634)
                      +|. ++..-|..|++..
T Consensus       404 I~~-~~~~~l~~Isd~~  419 (437)
T COG2425         404 IGG-YGKPGLMRISDHI  419 (437)
T ss_pred             ecC-CCCcccceeeeee
Confidence            995 5555666776654

>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=98.95  E-value=4.1e-10  Score=91.50  Aligned_cols=46  Identities=37%  Similarity=0.890  Sum_probs=36.4

Q ss_pred             CCccccccccccC--------CcceeEecCCCCccchhhHHHHHhcCCCcCcccc
Q 043643            1 KTCPICLGSLRRG--------QGVAIFTAECSHSFHFCCIAANVQHGNRICPICR   47 (634)
Q Consensus         1 ~~C~ICl~~~~~~--------~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr   47 (634)
                      |.|+||++.|.+.        ++..+....|||.||.+||.+|++. +.+||+||
T Consensus        20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR   73 (73)
T PF12678_consen   20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ-NNTCPLCR   73 (73)
T ss_dssp             SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT-SSB-TTSS
T ss_pred             CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc-CCcCCCCC
Confidence            5799999999422        2456677899999999999999987 44999997

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....

>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A

Probab=98.91  E-value=8.4e-10  Score=79.34  Aligned_cols=39  Identities=33%  Similarity=0.796  Sum_probs=30.4

Q ss_pred             ccccccccccCCcceeEecCCCCccchhhHHHHHhcCC---CcCccc
Q 043643            3 CPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGN---RICPIC   46 (634)
Q Consensus         3 C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~---~~CP~C   46 (634)
                      |+||++.|.+     |++++|||+||..||.+|++...   ..||.|
T Consensus         1 CpiC~~~~~~-----Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKD-----PVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SS-----EEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCC-----ccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999999     99999999999999999886322   469988

>PF04811 Sec23_trunk: Sec23/Sec24 trunk domain; InterPro: IPR006896 COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []

Probab=98.90  E-value=1.2e-08  Score=103.32  Aligned_cols=185  Identities=18%  Similarity=0.218  Sum_probs=109.9

Q ss_pred             CCceEEEEEeCCCC-CC-ccHHHHHHHHHHHHHhcC--CCCeEEEEEeCCCcEEEE---------------------c--
Q 043643          166 APIDLVTVLDVSGS-MS-SKLPLLKRAVHFIIQNLG--SADRLSIVIFSSVARRIF---------------------P--  218 (634)
Q Consensus       166 ~p~dlv~VlD~SgS-M~-gkl~~~K~al~~li~~L~--~~drvsIV~Fs~~a~~~~---------------------p--  218 (634)
                      .|.-++||||+|.. .. |-++.+++++...++.|.  ++.||+||+|++.+...-                     |  
T Consensus         2 ~pp~y~FvID~s~~av~~g~~~~~~~sl~~~l~~l~~~~~~~vgiitfd~~V~~y~l~~~~~~~~~~v~~dl~~~~~p~~   81 (243)
T PF04811_consen    2 QPPVYVFVIDVSYEAVQSGLLQSLIESLKSALDSLPGDERTRVGIITFDSSVHFYNLSSSLSQPQMIVVSDLDDPFIPLP   81 (243)
T ss_dssp             S--EEEEEEE-SHHHHHHTHHHHHHHHHHHHGCTSSTSTT-EEEEEEESSSEEEEETTTTSSSTEEEEEHHTTSHHSSTS
T ss_pred             CCCEEEEEEECchhhhhccHHHHHHHHHHHHHHhccCCCCcEEEEEEeCCEEEEEECCCCcCCCcccchHHHhhcccCCc
Confidence            57789999999954 22 389999999999999999  899999999998764331                     0  


Q ss_pred             ---CcccCHHHHHHHHHHHhcC---C-----CCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCC-CCccc
Q 043643          219 ---LQRMTDSGRENAIRAINTL---S-----SNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVL-RNSYT  286 (634)
Q Consensus       219 ---l~~~t~~~~~~~~~~I~~l---~-----~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~-~~~~~  286 (634)
                         +.++. +.+..+...|+.|   .     ......++.||+.|..+|+...   ....|++++-|.++.|.+ ....+
T Consensus        82 ~~llv~~~-e~~~~i~~ll~~L~~~~~~~~~~~~~~c~G~Al~~A~~ll~~~~---~gGkI~~F~s~~pt~G~Gg~l~~~  157 (243)
T PF04811_consen   82 DGLLVPLS-ECRDAIEELLESLPSIFPETAGKRPERCLGSALSAALSLLSSRN---TGGKILVFTSGPPTYGPGGSLKKR  157 (243)
T ss_dssp             SSSSEETT-TCHHHHHHHHHHHHHHSTT-TTB-----HHHHHHHHHHHHHHHT---S-EEEEEEESS---SSSTTSS-SB
T ss_pred             ccEEEEhH-HhHHHHHHHHHHhhhhcccccccCccccHHHHHHHHHHHHhccc---cCCEEEEEeccCCCCCCCceeccc
Confidence               11111 2344455555543   2     2346789999999999998443   235699999999999873 22111


Q ss_pred             ccccCCCCCCH-HHHHhhchhhhhccccccCCCCeeEEEEEccCC-CChHHHHHHHhhcCCeEEEcCChh
Q 043643          287 QDEASSIPSNE-LAYLNLLPSSICLSKREAGQPTFPVHTFGFGLE-HDSEAMHAIADASGGTFSFIETLS  354 (634)
Q Consensus       287 ~~~~~~~~~~~-~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~-~d~~~L~~iA~~tgG~~~~i~~~~  354 (634)
                      ......+...+ ..+..-..+.++..+..+...+|.|+.|.++.+ .+-..|..++..|||..++.++..
T Consensus       158 ~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvDlf~~~~~~~~l~tl~~l~~~TGG~l~~y~~f~  227 (243)
T PF04811_consen  158 EDSSHYDTEKEKALLLPPANEFYKKLAEECSKQGISVDLFVFSSDYVDLATLGPLARYTGGSLYYYPNFN  227 (243)
T ss_dssp             TTSCCCCHCTTHHCHSHSSSHHHHHHHHHHHHCTEEEEEEEECSS--SHHHHTHHHHCTT-EEEEETTTT
T ss_pred             ccccccccccchhhhccccchHHHHHHHHHHhcCCEEEEEeecCCCCCcHhHHHHHHhCceeEEEeCCCC
Confidence            11111110000 000000000122222244568999999999875 578899999999999999999877

COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger (IPR006895 from INTERPRO), an alpha/beta trunk domain, an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes the Sec23/24 alpha/beta trunk domain, which is formed from a single, approximately 250-residue segment plugged into the beta-barrel between strands beta-1 and beta-19. The trunk has an alpha/beta fold with a vWA topology, and it forms the dimer interface, primarily involving strand beta-14 on Sec23 and Sec24; in addition, the trunk domain of Sec23 contacts Sar1.; GO: 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EGD_A 2NUP_A 3EG9_A 3EFO_A 3EGX_A 2NUT_A 1PD0_A 1PD1_A 1M2V_B 1PCX_A ....

>cd01478 Sec23-like Sec23-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles

Probab=98.88  E-value=1.5e-07  Score=96.17  Aligned_cols=193  Identities=15%  Similarity=0.120  Sum_probs=128.2

Q ss_pred             CCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCcc-----------------------
Q 043643          166 APIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQR-----------------------  221 (634)
Q Consensus       166 ~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~~-----------------------  221 (634)
                      .|.-++||||+|-  .. .++.+|+++...++.|+++.+||||+|++.+...- |..                       
T Consensus         2 ~pp~~vFviDvs~--~~~el~~l~~sl~~~L~~lP~~a~VGlITfd~~V~~~~-L~~~~~~~~~vf~g~~~~~~~~~~~~   78 (267)
T cd01478           2 SPPVFLFVVDTCM--DEEELDALKESLIMSLSLLPPNALVGLITFGTMVQVHE-LGFEECSKSYVFRGNKDYTAKQIQDM   78 (267)
T ss_pred             CCCEEEEEEECcc--CHHHHHHHHHHHHHHHHhCCCCCEEEEEEECCEEEEEE-cCCCcCceeeeccCCccCCHHHHHHH
Confidence            4677999999975  45 89999999999999999999999999998764321 110                       


Q ss_pred             ------------------------cC--------HHHHHHHHHHHhcCCCC---------CCCcHHHHHHHHHHHHHhhc
Q 043643          222 ------------------------MT--------DSGRENAIRAINTLSSN---------GGTNIVEGLKKGARVLEERR  260 (634)
Q Consensus       222 ------------------------~t--------~~~~~~~~~~I~~l~~~---------GgT~i~~aL~~A~~~l~~~~  260 (634)
                                              +.        .+.+..+...|+.|...         ...+++.||..|..+|+.. 
T Consensus        79 l~~~~~~~~~~~~~~~~~~~~~~p~~~~~flvpl~e~~~~i~~lLe~L~~~~~~~~~~~r~~r~~G~Al~~A~~ll~~~-  157 (267)
T cd01478          79 LGLGGPAMRPSASQHPGAGNPLPSAAASRFLLPVSQCEFTLTDLLEQLQPDPWPVPAGHRPLRCTGVALSIAVGLLEAC-  157 (267)
T ss_pred             hccccccccccccCcCCccccccccccccEEEEHHHHHHHHHHHHHhCcccccccCCCCCCCCchHHHHHHHHHHHHhh-
Confidence                                    00        12345566677777442         3578999999999999843 


Q ss_pred             cCCCCcEEEEEeCCCCCCCCCCCcccccc---cCCCCCCHH--HHHhhchhhhhccccccCCCCeeEEEEEccCC-CChH
Q 043643          261 ERSPVASIILLSDGQDTHNVLRNSYTQDE---ASSIPSNEL--AYLNLLPSSICLSKREAGQPTFPVHTFGFGLE-HDSE  334 (634)
Q Consensus       261 ~~~~~~~IILlTDG~~~~g~~~~~~~~~~---~~~~~~~~~--~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~-~d~~  334 (634)
                      .++....|++++-|.+|.|.+.-..+...   +.+......  .+..-..+.++..+.++...++.|..|-++.+ .+-.
T Consensus       158 ~~~~gGki~~F~sg~pT~GpG~l~~r~~~~~~r~~~d~~~~~~~~~~~a~~fY~~la~~~~~~~vsvDlF~~s~d~vgla  237 (267)
T cd01478         158 FPNTGARIMLFAGGPCTVGPGAVVSTELKDPIRSHHDIDKDNAKYYKKAVKFYDSLAKRLAANGHAVDIFAGCLDQVGLL  237 (267)
T ss_pred             cCCCCcEEEEEECCCCCCCCceeeccccccccccccccccchhhhhhhHHHHHHHHHHHHHhCCeEEEEEeccccccCHH
Confidence            22334679999999999987754222111   011100000  01100111222223344567899988888765 5888


Q ss_pred             HHHHHHhhcCCeEEEcCChhhHHHHHHHHh
Q 043643          335 AMHAIADASGGTFSFIETLSILQDAFARCI  364 (634)
Q Consensus       335 ~L~~iA~~tgG~~~~i~~~~~l~~~f~~~l  364 (634)
                      .|..+++.|||..++.+++..  ..|.+.+
T Consensus       238 em~~l~~~TGG~v~~~~~f~~--~~f~~s~  265 (267)
T cd01478         238 EMKVLVNSTGGHVVLSDSFTT--SIFKQSF  265 (267)
T ss_pred             HHHHHHHhcCcEEEEeCCcch--HHHHHHh
Confidence            999999999999999998864  3455543

The two main classes of vesicular carriers within the endocytic and the biosynthetic pathways are COP- and clathrin-coated vesicles. Formation of COPII vesicles requires the ordered assembly of the coat built from several cytosolic components GTPase Sar1, complexes of Sec23-Sec24 and Sec13-Sec31. The process is initiated by the conversion of GDP to GTP by the GTPase Sar1 which then recruits the heterodimeric complex of Sec23 and Sec24. This heterodimeric complex generates the pre-budding complex. The final step leading to membrane deformation and budding of COPII-coated vesicles is carried by the heterodimeric complex Sec13-Sec31. The members of this CD belong to the Sec23-like family. Sec 23 is very similar to Sec24. The Sec23 and Sec24

>COG2304 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=98.83  E-value=9.1e-08  Score=103.98  Aligned_cols=177  Identities=26%  Similarity=0.388  Sum_probs=143.8

Q ss_pred             CCCCCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhc-CC
Q 043643          161 NDADRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINT-LS  238 (634)
Q Consensus       161 ~~~~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~-l~  238 (634)
                      ....+.+.++++++|.||||.+ .+..++.+...++..+.+.+.+++++|........+..  ...++..+...|+. +.
T Consensus        31 ~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~i~~~~~  108 (399)
T COG2304          31 DLDLLVPANLTLAIDTSGSMTGALLELAKSAAIELVNGLNPGDLLSIVTFAGSADVLIPPT--GATNKESITAAIDQSLQ  108 (399)
T ss_pred             ccccccCcceEEEeccCCCccchhHHHHHHHHHHHhcccCCCCceEEEEecCCcceecCcc--cccCHHHHHHHHhhhhc
Confidence            4577889999999999999999 99999999999999999999999999999777777766  33567888899988 89


Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCC
Q 043643          239 SNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQP  318 (634)
Q Consensus       239 ~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~  318 (634)
                      +.|.|.+..++..+++.+.....+.....+.+.|||..+.+...              ......+..        .....
T Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tdg~~~~~~~d--------------~~~~~~~~~--------~~~~~  166 (399)
T COG2304         109 AGGATAVEASLSLAVELAAKALPRGTLNRILLLTDGENNLGLVD--------------PSRLSALAK--------LAAGK  166 (399)
T ss_pred             cccccHHHHHHHHHHHHhhhcCCccceeeEeeeccCccccCCCC--------------HHHHHHHhc--------ccccC
Confidence            99999999999999999988777777888999999998865432              123322211        12346


Q ss_pred             CeeEEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHHH
Q 043643          319 TFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFA  361 (634)
Q Consensus       319 ~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~  361 (634)
                      ++.+.++|+|.+.+...+..++....|.+.++.........|.
T Consensus       167 ~i~~~~~g~~~~~n~~~~~~~~~~~~g~l~~~~~~~~~~~~~~  209 (399)
T COG2304         167 GIVLDTLGLGDDVNEDELTGIAAAANGNLAFIYLSSLSEAQFV  209 (399)
T ss_pred             ceEEEEEecccccchhhhhhhhhccCcccccccCccccchhhh
Confidence            9999999999999999999999999998888776644333333

>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]

Probab=98.79  E-value=2.1e-09  Score=89.27  Aligned_cols=51  Identities=27%  Similarity=0.720  Sum_probs=42.1

Q ss_pred             CCccccccccc------------cCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            1 KTCPICLGSLR------------RGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         1 ~~C~ICl~~~~------------~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      |+|+||...+.            ..+++......|+|.||++||.+|++. +..||+|.++|..
T Consensus        47 DnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlkt-r~vCPLdn~eW~~  109 (114)
T KOG2930|consen   47 DNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKT-RNVCPLDNKEWVF  109 (114)
T ss_pred             chhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhh-cCcCCCcCcceeE
Confidence            67999988662            224667788999999999999999998 5589999999864

>PF04056 Ssl1: Ssl1-like; InterPro: IPR007198 Ssl1-like proteins are 40 kDa subunits of the transcription factor II H complex

Probab=98.78  E-value=7.2e-08  Score=92.77  Aligned_cols=159  Identities=17%  Similarity=0.290  Sum_probs=115.7

Q ss_pred             EEeCCCCCCc------cHHHHHHHHHHHHHhc---CCCCeEEEEEeCCC-cEEEEcCcccCHHHHHHHHHHHh---cCCC
Q 043643          173 VLDVSGSMSS------KLPLLKRAVHFIIQNL---GSADRLSIVIFSSV-ARRIFPLQRMTDSGRENAIRAIN---TLSS  239 (634)
Q Consensus       173 VlD~SgSM~g------kl~~~K~al~~li~~L---~~~drvsIV~Fs~~-a~~~~pl~~~t~~~~~~~~~~I~---~l~~  239 (634)
                      |||.|-+|..      |+..+.+++..|+..+   +|-.++|||+..+. ++.+.+|+    .+.....+++.   .+.+
T Consensus         1 viD~S~~m~~~D~~PtRl~~~~~~l~~Fv~eff~qNPiSqlgii~~~~~~a~~ls~ls----gn~~~h~~~L~~~~~~~~   76 (193)
T PF04056_consen    1 VIDMSEAMREKDLKPTRLQCVLKALEEFVREFFDQNPISQLGIIVMRDGRAERLSELS----GNPQEHIEALKKLRKLEP   76 (193)
T ss_pred             CeechHhHHhCcCCccHHHHHHHHHHHHHHHHHhcCChhheeeeeeecceeEEeeecC----CCHHHHHHHHHHhccCCC
Confidence            6999999985      8999999888888765   46689999999875 77888887    33444444444   4568


Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCC
Q 043643          240 NGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPT  319 (634)
Q Consensus       240 ~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~  319 (634)
                      .|...+..||+.|...|...... ..+.|+++.-...+..                 ..++.+.+.        ..+..+
T Consensus        77 ~G~~SLqN~Le~A~~~L~~~p~~-~srEIlvi~gSl~t~D-----------------p~di~~ti~--------~l~~~~  130 (193)
T PF04056_consen   77 SGEPSLQNGLEMARSSLKHMPSH-GSREILVIFGSLTTCD-----------------PGDIHETIE--------SLKKEN  130 (193)
T ss_pred             CCChhHHHHHHHHHHHHhhCccc-cceEEEEEEeecccCC-----------------chhHHHHHH--------HHHHcC
Confidence            99999999999999999866432 3356777664444432                 123444333        134579


Q ss_pred             eeEEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHHHHH
Q 043643          320 FPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARC  363 (634)
Q Consensus       320 i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~  363 (634)
                      |+|++||++..  -..++.|++.|||+|.-+-|..-+.+.+...
T Consensus       131 IrvsvI~laaE--v~I~k~i~~~T~G~y~V~lde~H~~~lL~~~  172 (193)
T PF04056_consen  131 IRVSVISLAAE--VYICKKICKETGGTYGVILDEDHFKELLMEH  172 (193)
T ss_pred             CEEEEEEEhHH--HHHHHHHHHhhCCEEEEecCHHHHHHHHHhh
Confidence            99999999964  4589999999999999888887666555443

This domain is often found associated with the C2H2 type Zn-finger (IPR007087 from INTERPRO).; GO: 0008270 zinc ion binding, 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent

>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]

Probab=98.77  E-value=4.1e-09  Score=83.39  Aligned_cols=51  Identities=27%  Similarity=0.675  Sum_probs=41.5

Q ss_pred             CCcccccccc-----------ccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            1 KTCPICLGSL-----------RRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         1 ~~C~ICl~~~-----------~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      |.|+||...+           ..+++++++...|.|.||.+||.+|+.. +..||+||++|..
T Consensus        21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~T-k~~CPld~q~w~~   82 (88)
T COG5194          21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDT-KGVCPLDRQTWVL   82 (88)
T ss_pred             chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhh-CCCCCCCCceeEE
Confidence            4566666555           4667888889999999999999999987 4589999999864

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.73  E-value=5.9e-09  Score=103.21  Aligned_cols=51  Identities=25%  Similarity=0.615  Sum_probs=40.0

Q ss_pred             CCccccccccccCCc---ceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            1 KTCPICLGSLRRGQG---VAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~---~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .+|+||++.+.....   ...+..+|+|.||..||..|.+. ..+||+||..+..
T Consensus       175 ~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~-~~tCPlCR~~~~~  228 (238)
T PHA02929        175 KECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE-KNTCPVCRTPFIS  228 (238)
T ss_pred             CCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc-CCCCCCCCCEeeE
Confidence            369999998865221   12456789999999999999976 5689999998654

>PHA02926 zinc finger-like protein; Provisional

Probab=98.72  E-value=7.2e-09  Score=98.95  Aligned_cols=53  Identities=26%  Similarity=0.619  Sum_probs=39.9

Q ss_pred             CCccccccccccC----CcceeEecCCCCccchhhHHHHHhcC-----CCcCcccccccccC
Q 043643            1 KTCPICLGSLRRG----QGVAIFTAECSHSFHFCCIAANVQHG-----NRICPICRCEWKDV   53 (634)
Q Consensus         1 ~~C~ICl~~~~~~----~~~~~~~~~C~H~Fh~~Ci~~w~~~~-----~~~CP~Cr~~~~~~   53 (634)
                      ++|+||++.+...    +....+..+|+|.||..||..|.+..     ...||+||..+...
T Consensus       171 ~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I  232 (242)
T PHA02926        171 KECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNI  232 (242)
T ss_pred             CCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence            4799999987431    12235668999999999999999642     34699999987643

>PF05762 VWA_CoxE: VWA domain containing CoxE-like protein; InterPro: IPR008912 This group of proteins contains a VWA type domain and the function of this family is unknown

Probab=98.71  E-value=6.5e-08  Score=96.59  Aligned_cols=109  Identities=28%  Similarity=0.411  Sum_probs=71.8

Q ss_pred             CCCCCceEEEEEeCCCCCCccHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHh--cCCCC
Q 043643          163 ADRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAIN--TLSSN  240 (634)
Q Consensus       163 ~~r~p~dlv~VlD~SgSM~gkl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~--~l~~~  240 (634)
                      .++.|..+|+|+|+||||.+.-..+-..+..+...+.   ++.++.|++....+.+.-.  ..+...+...+.  ....+
T Consensus        53 r~~~~~~lvvl~DvSGSM~~~s~~~l~~~~~l~~~~~---~~~~f~F~~~l~~vT~~l~--~~~~~~~l~~~~~~~~~~~  127 (222)
T PF05762_consen   53 RPRKPRRLVVLCDVSGSMAGYSEFMLAFLYALQRQFR---RVRVFVFSTRLTEVTPLLR--RRDPEEALARLSALVQSFG  127 (222)
T ss_pred             ccCCCccEEEEEeCCCChHHHHHHHHHHHHHHHHhCC---CEEEEEEeeehhhhhhhhc--cCCHHHHHHHHHhhccCCC
Confidence            3556678999999999999722222233344444333   8999999998776664431  112223333333  23478


Q ss_pred             CCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCC
Q 043643          241 GGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTH  278 (634)
Q Consensus       241 GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~  278 (634)
                      |||+|+.+|..+.+.+....-  ....||++|||..+.
T Consensus       128 GgTdi~~aL~~~~~~~~~~~~--~~t~vvIiSDg~~~~  163 (222)
T PF05762_consen  128 GGTDIGQALREFLRQYARPDL--RRTTVVIISDGWDTN  163 (222)
T ss_pred             CccHHHHHHHHHHHHhhcccc--cCcEEEEEecccccC
Confidence            999999999999998864322  334599999997653

It is found as part of a CO oxidising (Cox) system operon in several bacteria [].

>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.70  E-value=4.3e-05  Score=84.39  Aligned_cols=285  Identities=14%  Similarity=0.163  Sum_probs=179.1

Q ss_pred             CceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEE------------EcCc-ccCH--------
Q 043643          167 PIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRI------------FPLQ-RMTD--------  224 (634)
Q Consensus       167 p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~------------~pl~-~~t~--------  224 (634)
                      |.-++||||+-  |.. .++.+|+++...++.|+++..||||+|++.+++.            |.-. ..+.        
T Consensus       121 ppvf~fVvDtc--~~eeeL~~LkssL~~~l~lLP~~alvGlItfg~~v~v~el~~~~~sk~~VF~G~ke~s~~q~~~~L~  198 (745)
T KOG1986|consen  121 PPVFVFVVDTC--MDEEELQALKSSLKQSLSLLPENALVGLITFGTMVQVHELGFEECSKSYVFSGNKEYSAKQLLDLLG  198 (745)
T ss_pred             CceEEEEEeec--cChHHHHHHHHHHHHHHhhCCCcceEEEEEecceEEEEEcCCCcccceeEEeccccccHHHHHHHhc
Confidence            66689999964  555 9999999999999999999999999999876432            1000 0000        


Q ss_pred             -----------------------HHHHHHHHHHhcCCC------CC---CCcHHHHHHHHHHHHHhhccCCCCcEEEEEe
Q 043643          225 -----------------------SGRENAIRAINTLSS------NG---GTNIVEGLKKGARVLEERRERSPVASIILLS  272 (634)
Q Consensus       225 -----------------------~~~~~~~~~I~~l~~------~G---gT~i~~aL~~A~~~l~~~~~~~~~~~IILlT  272 (634)
                                             .-...+.+.++.|.+      .|   --.++.||..|..+|+.- .++...+|++++
T Consensus       199 ~~~~~~~~~~~~~~~~rFL~P~~~c~~~L~~lle~L~~d~wpV~~g~Rp~RcTG~Al~iA~~Ll~~c-~p~~g~rIv~f~  277 (745)
T KOG1986|consen  199 LSGGAGKGSENQSASNRFLLPAQECEFKLTNLLEELQPDPWPVPPGHRPLRCTGVALSIASGLLEGC-FPNTGARIVLFA  277 (745)
T ss_pred             CCcccccCCcccccchhhhccHHHHHHHHHHHHHHhcCCCCCCCCCCCcccchhHHHHHHHHHhccc-CCCCcceEEEec
Confidence                                   011234444555543      22   245788888888888654 355667899999


Q ss_pred             CCCCCCCCCCC---cccccccCCC--CC-CHHHHHhhchhhhhccccccCCCCeeEEEEEccCC-CChHHHHHHHhhcCC
Q 043643          273 DGQDTHNVLRN---SYTQDEASSI--PS-NELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLE-HDSEAMHAIADASGG  345 (634)
Q Consensus       273 DG~~~~g~~~~---~~~~~~~~~~--~~-~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~-~d~~~L~~iA~~tgG  345 (634)
                      -|-.+.|.+..   .....-+++.  .. +..-++.. .+.+...+++....|..+..|.-+-| ..-..|+.+++.|||
T Consensus       278 gGPcT~GpG~vv~~el~~piRshhdi~~d~a~y~kKa-~KfY~~La~r~~~~ghvlDifa~~lDQvGi~EMk~l~~~TGG  356 (745)
T KOG1986|consen  278 GGPCTRGPGTVVSRELKEPIRSHHDIEKDNAPYYKKA-IKFYEKLAERLANQGHVLDIFAAALDQVGILEMKPLVESTGG  356 (745)
T ss_pred             cCCCCcCCceecchhhcCCCcCcccccCcchHHHHHH-HHHHHHHHHHHHhCCceEeeeeeeccccchHHHHHHhhcCCc
Confidence            99888775532   0000000000  00 11111111 11223333344556665555544322 345689999999999


Q ss_pred             eEEEcCChhhHHHHHHHHhhcccc-------ceeeeeEEEEEecCCCeEEEEecCCCCC---------cccccCCceeEE
Q 043643          346 TFSFIETLSILQDAFARCIGGLLS-------VVSQDVKLTIRSKSAGVRIGSIPSGRYN---------SEVLDEGQQAVI  409 (634)
Q Consensus       346 ~~~~i~~~~~l~~~f~~~l~~l~s-------~va~~~~l~v~~~~~~v~i~~v~~~~~~---------~~~~~~~~~~~i  409 (634)
                      ...--++++.  ++|.+.+..+..       ..+-+..++|.+ +.+++|..+-...+.         .+..+.|+...+
T Consensus       357 ~lvl~dsF~~--s~Fk~sfqR~f~~d~~~~l~~~fn~~leV~t-SkdlkI~g~IGp~~Sl~~k~~~vsdt~ig~g~t~~w  433 (745)
T KOG1986|consen  357 VLVLGDSFNT--SIFKQSFQRIFTRDGEGDLKMGFNGTLEVKT-SKDLKIQGVIGPCVSLNKKGPNVSDTEIGEGNTSAW  433 (745)
T ss_pred             EEEEecccch--HHHHHHHHHHhccccccchhhhcCceEEEEe-cCCcEEEecccccccccCCCCccccceeccccccce
Confidence            9888887762  334444444443       367788889987 688888877421111         123355677899


Q ss_pred             EcCCccCCcEEEEEEEEEcCCCCCCCCCCCCccceEEEEEEEecCCCCceeeee
Q 043643          410 DIGNLYADEEKEFMVYLSIPVSSAEGEQRPECTALLDVFCTHKDSASMEIHQVE  463 (634)
Q Consensus       410 ~lg~l~~~e~r~~lv~l~~p~~~~~~~~~~~~~~l~~v~~~Y~~~~~~~~~~~~  463 (634)
                      .++.|...+...|.|++..-......     ....+|.--+|.++.+...++|.
T Consensus       434 km~~ls~~t~~s~~fei~~~~~~~~~-----~~~~iQFiT~Yq~s~g~~riRVt  482 (745)
T KOG1986|consen  434 KMCGLSPSTTLSLFFEISNQHNIPQS-----GQGYIQFITQYQHSSGQKRIRVT  482 (745)
T ss_pred             eeeccCCCceEEEEEEeccccCCCCC-----CeeEEEEEEEEEcCCCcEEEEEE
Confidence            99999999999999999743331111     15678888999999888877764

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.70  E-value=9.4e-09  Score=97.51  Aligned_cols=46  Identities=28%  Similarity=0.702  Sum_probs=38.8

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhc---------------CCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQH---------------GNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~---------------~~~~CP~Cr~~~~~   52 (634)
                      +|+||++.+.+     ++.+.|||.||..||..|+..               ....||+||..+..
T Consensus        20 ~CpICld~~~d-----PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~   80 (193)
T PLN03208         20 DCNICLDQVRD-----PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE   80 (193)
T ss_pred             CCccCCCcCCC-----cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence            69999999977     778899999999999999741               23479999998765

>KOG3768 consensus DEAD box RNA helicase [General function prediction only]

Probab=98.68  E-value=6.3e-07  Score=96.03  Aligned_cols=201  Identities=20%  Similarity=0.252  Sum_probs=124.8

Q ss_pred             EEEEEeCCCCCCc-------cHHHHHHHHHHHHHhcC-----CCCeEEEEEeCCCcEEEE-cCcccCHHHHHHHHHHHhc
Q 043643          170 LVTVLDVSGSMSS-------KLPLLKRAVHFIIQNLG-----SADRLSIVIFSSVARRIF-PLQRMTDSGRENAIRAINT  236 (634)
Q Consensus       170 lv~VlD~SgSM~g-------kl~~~K~al~~li~~L~-----~~drvsIV~Fs~~a~~~~-pl~~~t~~~~~~~~~~I~~  236 (634)
                      +.|+||+||||..       .|+.+|.|+..|++.-.     -+||+-+++|..-.+.+- ...    .+-+.+.+.|.+
T Consensus         4 ~lFllDTS~SM~qrah~~~tylD~AKgaVEtFiK~R~r~~~~~gdryml~TfeepP~~vk~~~~----~~~a~~~~eik~   79 (888)
T KOG3768|consen    4 FLFLLDTSGSMSQRAHPQFTYLDLAKGAVETFIKQRTRVGRETGDRYMLTTFEEPPKNVKVACE----KLGAVVIEEIKK   79 (888)
T ss_pred             EEEEEecccchhhhccCCchhhHHHHHHHHHHHHHHhccccccCceEEEEecccCchhhhhHHh----hcccHHHHHHHh
Confidence            6899999999985       79999999999997542     379999999998764432 111    334667888999


Q ss_pred             CCCCCCCc-HHHHHHHHHHHHHhhc----------cCC----CCcEEEEEeCCCCC---CCCCCC----cccccccCCCC
Q 043643          237 LSSNGGTN-IVEGLKKGARVLEERR----------ERS----PVASIILLSDGQDT---HNVLRN----SYTQDEASSIP  294 (634)
Q Consensus       237 l~~~GgT~-i~~aL~~A~~~l~~~~----------~~~----~~~~IILlTDG~~~---~g~~~~----~~~~~~~~~~~  294 (634)
                      |.+.+++. +..++..|+++|.-.+          ++.    -...||+||||.--   .|+...    ....-.++..+
T Consensus        80 l~a~~~s~~~~~~~t~AFdlLnlnR~qtGID~yGqGR~pf~lEP~~iI~iTDG~r~s~~~GV~~e~~Lpl~~p~pGse~T  159 (888)
T KOG3768|consen   80 LHAPYGSCQLHHAITEAFDLLNLNRVQTGIDGYGQGRLPFNLEPVTIILITDGGRYSGVAGVPIEFRLPLDPPFPGSEMT  159 (888)
T ss_pred             hcCccchhhhhHHHHHHhhhhhhhhhhhcccccccccCccccCceEEEEEecCCccccccCCceeEEeccCCCCCccccc
Confidence            98887655 5566666999985322          111    13469999999432   222211    11122233333


Q ss_pred             CCHHHHHhhchhhhhccccccCCCC-eeEEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHHHHHhhccccceee
Q 043643          295 SNELAYLNLLPSSICLSKREAGQPT-FPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSVVSQ  373 (634)
Q Consensus       295 ~~~~~~~~lv~~~i~~~~~~~~~~~-i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~l~~l~s~va~  373 (634)
                      .+...|.+-+-.-+.+    .-... +.+.-. -+-++|...++.+++.|||+-|.|-++..|.    +||..|+..+..
T Consensus       160 kepFRWDQrlftlVlR----iPgt~~~~~~ql-t~Vp~Dds~IermCevTGGRSysV~Spr~ln----qciesLvqkvQ~  230 (888)
T KOG3768|consen  160 KEPFRWDQRLFTLVLR----IPGTPYPTISQL-TAVPIDDSVIERMCEVTGGRSYSVVSPRQLN----QCIESLVQKVQY  230 (888)
T ss_pred             cccchhhhhhheeeEe----cCCCCCccHhhh-cCCCCCchhhHHhhhhcCCceeeeeCHHHHH----HHHHHHHHhhcc
Confidence            3333333221111110    00000 111111 1345788899999999999999999987665    555556666777


Q ss_pred             eeEEEEEecC
Q 043643          374 DVKLTIRSKS  383 (634)
Q Consensus       374 ~~~l~v~~~~  383 (634)
                      .+.|+++|..
T Consensus       231 gVvv~FE~~~  240 (888)
T KOG3768|consen  231 GVVVRFECLP  240 (888)
T ss_pred             CeEEEeeecC
Confidence            7778888765

>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A

Probab=98.65  E-value=1.7e-08  Score=71.55  Aligned_cols=38  Identities=45%  Similarity=1.023  Sum_probs=32.7

Q ss_pred             ccccccccccCCccee-EecCCCCccchhhHHHHHhcCCCcCccc
Q 043643            3 CPICLGSLRRGQGVAI-FTAECSHSFHFCCIAANVQHGNRICPIC   46 (634)
Q Consensus         3 C~ICl~~~~~~~~~~~-~~~~C~H~Fh~~Ci~~w~~~~~~~CP~C   46 (634)
                      |+||++.+.+     + +..+|||.||..|+.+|.+. +..||.|
T Consensus         1 C~iC~~~~~~-----~~~~~~CGH~fC~~C~~~~~~~-~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD-----PVVVTPCGHSFCKECIEKYLEK-NPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS-----EEEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred             CCCCCCcccC-----cCEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence            8999999977     5 67999999999999999988 6799998

>PF11775 CobT_C: Cobalamin biosynthesis protein CobT VWA domain

Probab=98.64  E-value=9.1e-07  Score=85.76  Aligned_cols=178  Identities=17%  Similarity=0.185  Sum_probs=101.9

Q ss_pred             CCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC-CCCeEEEEEeCCCcEE--------------EEc-----Cc----
Q 043643          166 APIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG-SADRLSIVIFSSVARR--------------IFP-----LQ----  220 (634)
Q Consensus       166 ~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~-~~drvsIV~Fs~~a~~--------------~~p-----l~----  220 (634)
                      .-.-|-+|||.||||.| ++..+..++..+.+.|. -+-.+-|+.|.+.+-.              -.|     +.    
T Consensus        11 ~d~~VtlLID~SGSMrgr~~~vA~~~adila~aL~~~gvp~EVlGFtT~aw~gg~~~~~w~~~G~p~~pgrln~l~h~vy   90 (219)
T PF11775_consen   11 RDTVVTLLIDCSGSMRGRPIEVAALCADILARALERCGVPVEVLGFTTRAWKGGRSREAWLAAGRPRYPGRLNDLRHIVY   90 (219)
T ss_pred             CCeEEEEEEeCCcCCCCChHHHHHHHHHHHHHHHHhCCCCeEEEeeecCCcCCcchHHHHHhcCCCCCChHHHHHHHHHH
Confidence            44567799999999999 88888766666666664 3667888888876311              001     00    


Q ss_pred             -ccCHHHHHHHHHHHhcC---CCCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCC
Q 043643          221 -RMTDSGRENAIRAINTL---SSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSN  296 (634)
Q Consensus       221 -~~t~~~~~~~~~~I~~l---~~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~  296 (634)
                       ..+.. ...++..+..|   ......-=++||..|.+.|..+....  +.+|++|||.|....+..          ..+
T Consensus        91 k~a~~~-wrraR~~l~~m~~~~~~~eniDGeAl~~a~~rL~~r~e~r--kiLiViSDG~P~d~st~~----------~n~  157 (219)
T PF11775_consen   91 KDADTP-WRRARRNLGLMMREGLLKENIDGEALRWAAERLLARPEQR--KILIVISDGAPADDSTLS----------AND  157 (219)
T ss_pred             HhcCCh-hhhHHHhHHHHhhccccccCCcHHHHHHHHHHHHcCCccc--eEEEEEeCCCcCcccccc----------cCC
Confidence             00000 00111111111   11112223689999999998776544  459999999998432211          011


Q ss_pred             HHHHHhhchhhhhccccccCCCCeeEEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHHHHHhhccc
Q 043643          297 ELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLL  368 (634)
Q Consensus       297 ~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~l~~l~  368 (634)
                      ..-+...+...++.   -....+|.+.+||+|.|...         -.-++..|.+.++|..++-..+..++
T Consensus       158 ~~~L~~HLr~vi~~---ie~~~~Vel~aiGIg~D~~~---------yY~~~~~i~~~e~l~~~~~~~l~~l~  217 (219)
T PF11775_consen  158 GDYLDAHLRQVIAE---IETRSDVELIAIGIGHDVSR---------YYRRAVTIDDVEELGGALFEQLARLF  217 (219)
T ss_pred             hHHHHHHHHHHHHH---HhccCCcEEEEEEcCCCchh---------hcccceecCCHHHHHHHHHHHHHHHh
Confidence            11222222222222   11246789999999876321         12235678899999888887777664

>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)

Probab=98.57  E-value=4.7e-08  Score=71.01  Aligned_cols=45  Identities=36%  Similarity=0.901  Sum_probs=36.5

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEW   50 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~   50 (634)
                      +|+||++.+..    .....+|+|.||..|+..|...+...||.|+..+
T Consensus         1 ~C~iC~~~~~~----~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFRE----PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhC----ceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            59999999833    2444569999999999999987566899998753

>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.55  E-value=3.1e-08  Score=95.54  Aligned_cols=46  Identities=28%  Similarity=0.686  Sum_probs=39.6

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhc--CCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQH--GNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~--~~~~CP~Cr~~~~~   52 (634)
                      +|.|||+.-++     |+...|||-||..||.+|+..  ....||+|+.....
T Consensus        49 dCNICLd~akd-----PVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~   96 (230)
T KOG0823|consen   49 DCNICLDLAKD-----PVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI   96 (230)
T ss_pred             eeeeeccccCC-----CEEeecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence            59999999988     888899999999999999963  34469999998754

>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=98.55  E-value=5.1e-08  Score=69.89  Aligned_cols=39  Identities=36%  Similarity=0.888  Sum_probs=34.7

Q ss_pred             ccccccccccCCcceeE-ecCCCCccchhhHHHHHh-cCCCcCccc
Q 043643            3 CPICLGSLRRGQGVAIF-TAECSHSFHFCCIAANVQ-HGNRICPIC   46 (634)
Q Consensus         3 C~ICl~~~~~~~~~~~~-~~~C~H~Fh~~Ci~~w~~-~~~~~CP~C   46 (634)
                      |+||++.+..     +. .++|||.||..|+..|++ .+...||+|
T Consensus         1 C~iC~~~~~~-----~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFED-----PVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSS-----EEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccC-----CCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            8999999977     55 899999999999999998 566789998

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....

>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.53  E-value=9.9e-09  Score=80.53  Aligned_cols=52  Identities=31%  Similarity=0.723  Sum_probs=42.0

Q ss_pred             CCccccccccc--------cCCcceeEecCCCCccchhhHHHHHhc--CCCcCccccccccc
Q 043643            1 KTCPICLGSLR--------RGQGVAIFTAECSHSFHFCCIAANVQH--GNRICPICRCEWKD   52 (634)
Q Consensus         1 ~~C~ICl~~~~--------~~~~~~~~~~~C~H~Fh~~Ci~~w~~~--~~~~CP~Cr~~~~~   52 (634)
                      ++|.||.-.|.        +|+.++.+...|.|.||.+||.+|+..  ....||+||..|..
T Consensus        21 e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~   82 (84)
T KOG1493|consen   21 ETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF   82 (84)
T ss_pred             CccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence            36999998885        456777778889999999999999963  23469999999863

>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A

Probab=98.52  E-value=6.4e-08  Score=72.64  Aligned_cols=46  Identities=30%  Similarity=0.749  Sum_probs=38.3

Q ss_pred             CCccccccccccCCcceeEecCCCCc-cchhhHHHHHhcCCCcCccccccccc
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHS-FHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      ..|.||++....     ++..+|||. ||..|+..|.+. ...||+||+++..
T Consensus         3 ~~C~iC~~~~~~-----~~~~pCgH~~~C~~C~~~~~~~-~~~CP~Cr~~i~~   49 (50)
T PF13920_consen    3 EECPICFENPRD-----VVLLPCGHLCFCEECAERLLKR-KKKCPICRQPIES   49 (50)
T ss_dssp             SB-TTTSSSBSS-----EEEETTCEEEEEHHHHHHHHHT-TSBBTTTTBB-SE
T ss_pred             CCCccCCccCCc-----eEEeCCCChHHHHHHhHHhccc-CCCCCcCChhhcC
Confidence            469999999877     778899999 999999999984 6689999998653

...

>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=98.52  E-value=1.8e-06  Score=89.43  Aligned_cols=168  Identities=20%  Similarity=0.281  Sum_probs=114.1

Q ss_pred             CCCCCceEEEEEeCCCCCCc--cHHHHHH---HHHHHHHhcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcC
Q 043643          163 ADRAPIDLVTVLDVSGSMSS--KLPLLKR---AVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTL  237 (634)
Q Consensus       163 ~~r~p~dlv~VlD~SgSM~g--kl~~~K~---al~~li~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l  237 (634)
                      ..+.-.-+++++|+|-||.-  ++--+|+   |+..+|..--++|-+.||+|...++.+-             ...+..+
T Consensus       459 E~rt~aAvallvDtS~SM~~eGRw~PmKQtALALhHLv~TrfrGD~l~~i~Fgr~A~~v~-------------v~eLt~l  525 (652)
T COG4867         459 ETRTQAAVALLVDTSFSMVMEGRWLPMKQTALALHHLVCTRFRGDALQIIAFGRYARTVT-------------AAELTGL  525 (652)
T ss_pred             hhhcccceeeeeeccHHHHHhccCCchHHHHHHHHHHHHhcCCCcceEEEeccchhcccC-------------HHHHhcC
Confidence            44555668999999999985  6666665   6677777777899999999999987542             1234445


Q ss_pred             CCC--CCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCC-------cccccccCCCCCCHHHHHhhchhhh
Q 043643          238 SSN--GGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRN-------SYTQDEASSIPSNELAYLNLLPSSI  308 (634)
Q Consensus       238 ~~~--GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~-------~~~~~~~~~~~~~~~~~~~lv~~~i  308 (634)
                      .+-  -|||+..||..|-+.|+...  ...+.|+++|||.|+.-.-..       .|..        +...+-..+. .+
T Consensus       526 ~~v~eqgTNlhhaL~LA~r~l~Rh~--~~~~~il~vTDGePtAhle~~DG~~~~f~yp~--------DP~t~~~Tvr-~~  594 (652)
T COG4867         526 AGVYEQGTNLHHALALAGRHLRRHA--GAQPVVLVVTDGEPTAHLEDGDGTSVFFDYPP--------DPRTIAHTVR-GF  594 (652)
T ss_pred             CCccccccchHHHHHHHHHHHHhCc--ccCceEEEEeCCCccccccCCCCceEecCCCC--------ChhHHHHHHH-HH
Confidence            433  49999999999999997654  344569999999998532210       1111        1122222221 11


Q ss_pred             hccccccCCCCeeEEEEEccCCCC-hHHHHHHHhhcCCeEEEcCChhhHHHH
Q 043643          309 CLSKREAGQPTFPVHTFGFGLEHD-SEAMHAIADASGGTFSFIETLSILQDA  359 (634)
Q Consensus       309 ~~~~~~~~~~~i~I~t~G~G~~~d-~~~L~~iA~~tgG~~~~i~~~~~l~~~  359 (634)
                      .    +....|+.|.+|-+|.|.. ..++..+|+..+|+.++ ++.+.|..+
T Consensus       595 d----~~~r~G~q~t~FrLg~DpgL~~Fv~qva~rv~G~vv~-pdldglGaa  641 (652)
T COG4867         595 D----DMARLGAQVTIFRLGSDPGLARFIDQVARRVQGRVVV-PDLDGLGAA  641 (652)
T ss_pred             H----HHHhccceeeEEeecCCHhHHHHHHHHHHHhCCeEEe-cCcchhhHH
Confidence            1    2356899999999997653 34899999999999764 455555544

>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

Probab=98.52  E-value=1.6e-07  Score=95.44  Aligned_cols=48  Identities=27%  Similarity=0.750  Sum_probs=39.1

Q ss_pred             CCcccccccc-ccC-------CcceeEecCCCCccchhhHHHHHhcCCCcCcccccc
Q 043643            1 KTCPICLGSL-RRG-------QGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCE   49 (634)
Q Consensus         1 ~~C~ICl~~~-~~~-------~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~   49 (634)
                      +.|.||++.+ ..+       ....|..++|||.||.+|+..|..+ ..+||+||.+
T Consensus       288 ~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER-qQTCPICr~p  343 (491)
T COG5243         288 RTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER-QQTCPICRRP  343 (491)
T ss_pred             CeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh-ccCCCcccCc
Confidence            3699999994 332       2335677999999999999999987 6699999988

>PF06707 DUF1194: Protein of unknown function (DUF1194); InterPro: IPR010607 This family consists of several hypothetical Rhizobiales specific proteins of around 270 residues in length

Probab=98.44  E-value=2e-05  Score=76.30  Aligned_cols=172  Identities=18%  Similarity=0.170  Sum_probs=108.1

Q ss_pred             CceEEEEEeCCCCCCc-cHH----HHHHHH--HHHHHhcCC----CCeEEEEEeCC--CcEEEEcCcccCH-HHHHHHHH
Q 043643          167 PIDLVTVLDVSGSMSS-KLP----LLKRAV--HFIIQNLGS----ADRLSIVIFSS--VARRIFPLQRMTD-SGRENAIR  232 (634)
Q Consensus       167 p~dlv~VlD~SgSM~g-kl~----~~K~al--~~li~~L~~----~drvsIV~Fs~--~a~~~~pl~~~t~-~~~~~~~~  232 (634)
                      -+.||+.+|+||||.. .+.    -+-.|+  -.+++.+..    .-.|+++.|++  ....++|++.+.. .+.+.+-.
T Consensus         3 dlaLvLavDvS~SVD~~E~~lQ~~G~A~Al~dp~V~~Ai~~g~~g~Iav~~~eWsg~~~q~~~v~Wt~i~~~~da~a~A~   82 (205)
T PF06707_consen    3 DLALVLAVDVSGSVDADEYRLQREGYAAALRDPEVIAAILSGPIGRIAVAVVEWSGPGRQRVVVPWTRIDSPADAEAFAA   82 (205)
T ss_pred             cceeeeeeeccCCCCHHHHHHHHHHHHHHHCCHHHHHHHhcCCCCeEEEEEEEecCCCCceEEeCCEEeCCHHHHHHHHH
Confidence            3679999999999997 333    233333  334444432    34678888887  5788889998864 44456666


Q ss_pred             HHhcC--CCCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhc
Q 043643          233 AINTL--SSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICL  310 (634)
Q Consensus       233 ~I~~l--~~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~  310 (634)
                      .|...  ...++|.|+.||..|..+|.+.......+.|=+-.||.+|.|...              .......       
T Consensus        83 ~l~~~~r~~~~~Taig~Al~~a~~ll~~~~~~~~RrVIDvSGDG~~N~G~~p--------------~~~ard~-------  141 (205)
T PF06707_consen   83 RLRAAPRRFGGRTAIGSALDFAAALLAQNPFECWRRVIDVSGDGPNNQGPRP--------------VTSARDA-------  141 (205)
T ss_pred             HHHhCCCCCCCCchHHHHHHHHHHHHHhCCCCCceEEEEECCCCCCCCCCCc--------------cHHHHHH-------
Confidence            66665  344679999999999999988766566666788899999987432              1112111       


Q ss_pred             cccccCCCCeeEEEEEccCCCCh--HHHHH-HH---hhcCCeE-EEcCChhhHHHHHHHH
Q 043643          311 SKREAGQPTFPVHTFGFGLEHDS--EAMHA-IA---DASGGTF-SFIETLSILQDAFARC  363 (634)
Q Consensus       311 ~~~~~~~~~i~I~t~G~G~~~d~--~~L~~-iA---~~tgG~~-~~i~~~~~l~~~f~~~  363 (634)
                          +...+|+|+.+-++.....  ..|.. -.   -.+.|.| ..+.+.++..+++.+.
T Consensus       142 ----~~~~GitINgL~I~~~~~~~~~~L~~yy~~~VIgGpgAFV~~a~~~~df~~AirrK  197 (205)
T PF06707_consen  142 ----AVAAGITINGLAILDDDPFGGADLDAYYRRCVIGGPGAFVETARGFEDFAEAIRRK  197 (205)
T ss_pred             ----HHHCCeEEeeeEecCCCCCccccHHHHHhhhcccCCCceEEEcCCHHHHHHHHHHH
Confidence                1246999999998764321  11221 11   1233434 3455666665555443

The function of this family is unknown.

>smart00504 Ubox Modified RING finger domain

Probab=98.40  E-value=2.2e-07  Score=73.29  Aligned_cols=44  Identities=14%  Similarity=0.232  Sum_probs=39.4

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWK   51 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~   51 (634)
                      .|+||.+.+..     |+..+|||.||..||..|++. ...||+|+..+.
T Consensus         3 ~Cpi~~~~~~~-----Pv~~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~   46 (63)
T smart00504        3 LCPISLEVMKD-----PVILPSGQTYERRAIEKWLLS-HGTDPVTGQPLT   46 (63)
T ss_pred             CCcCCCCcCCC-----CEECCCCCEEeHHHHHHHHHH-CCCCCCCcCCCC
Confidence            59999999988     888999999999999999976 568999998764

Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.

>COG4548 NorD Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]

Probab=98.40  E-value=7e-07  Score=95.32  Aligned_cols=178  Identities=21%  Similarity=0.213  Sum_probs=116.5

Q ss_pred             ceEEEEEeCCCCCCccHHHHHHHHHHHHHhc-------C-CCCeEEEEEeCCCcEEEEc---CcccCHHHHHHHHHHHhc
Q 043643          168 IDLVTVLDVSGSMSSKLPLLKRAVHFIIQNL-------G-SADRLSIVIFSSVARRIFP---LQRMTDSGRENAIRAINT  236 (634)
Q Consensus       168 ~dlv~VlD~SgSM~gkl~~~K~al~~li~~L-------~-~~drvsIV~Fs~~a~~~~p---l~~~t~~~~~~~~~~I~~  236 (634)
                      .-+.+++|+|-||..+++..|+.+..+.+.|       . -+|...+.+|.+..+.+.-   +......-.......|..
T Consensus       447 la~TLLvD~S~St~a~mdetrRvidl~~eaL~~la~~~qa~gd~~~~~~fts~rr~~vri~tvk~FDes~~~~~~~RImA  526 (637)
T COG4548         447 LAFTLLVDVSASTDAKMDETRRVIDLFHEALLVLAHGHQALGDSEDILDFTSRRRPWVRINTVKDFDESMGETVGPRIMA  526 (637)
T ss_pred             ceeEEEeecccchHHHhhhhhhhHHHHHHHHHHhhchhhhhCCHHHhcCchhhcCcceeeeeeeccccccccccchhhee
Confidence            3455789999999876555554443333332       2 3788889999987655322   222222334566778889


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccC
Q 043643          237 LSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAG  316 (634)
Q Consensus       237 l~~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~  316 (634)
                      |.|+-.|.++.||+.|.+.|..+.  ++.+.+||||||.||.-..   |.      |.....+-.+.+.        ++.
T Consensus       527 LePg~ytR~G~AIR~As~kL~~rp--q~qklLivlSDGkPnd~d~---YE------gr~gIeDTr~AV~--------eaR  587 (637)
T COG4548         527 LEPGYYTRDGAAIRHASAKLMERP--QRQKLLIVLSDGKPNDFDH---YE------GRFGIEDTREAVI--------EAR  587 (637)
T ss_pred             cCccccccccHHHHHHHHHHhcCc--ccceEEEEecCCCcccccc---cc------cccchhhHHHHHH--------HHH
Confidence            999999999999999999997664  5567799999999985321   10      0001112222221        346


Q ss_pred             CCCeeEEEEEccCCCChHHHHHH-HhhcCCeEEEcCChhhHHHHHHHHhhccc
Q 043643          317 QPTFPVHTFGFGLEHDSEAMHAI-ADASGGTFSFIETLSILQDAFARCIGGLL  368 (634)
Q Consensus       317 ~~~i~I~t~G~G~~~d~~~L~~i-A~~tgG~~~~i~~~~~l~~~f~~~l~~l~  368 (634)
                      +.||.|+.|-+..+    ....+ +..+.+-|.+|++...|..++-.+..+|+
T Consensus       588 k~Gi~VF~Vtld~e----a~~y~p~~fgqngYa~V~~v~~LP~~L~~lyrkL~  636 (637)
T COG4548         588 KSGIEVFNVTLDRE----AISYLPALFGQNGYAFVERVAQLPGALPPLYRKLL  636 (637)
T ss_pred             hcCceEEEEEecch----hhhhhHHHhccCceEEccchhhcchhHHHHHHHhc
Confidence            78999988877653    22222 23345668999999999999888877654

>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function

Probab=98.37  E-value=2.4e-06  Score=77.28  Aligned_cols=92  Identities=20%  Similarity=0.330  Sum_probs=65.9

Q ss_pred             EEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHh--cCCCCCCCcHH
Q 043643          170 LVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAIN--TLSSNGGTNIV  246 (634)
Q Consensus       170 lv~VlD~SgSM~g-kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~--~l~~~GgT~i~  246 (634)
                      |+++||+||||.. -|...-..+..+.+..  ..++-|+.|+..++....+..        ....+.  .+..+|||++.
T Consensus         1 i~vaiDtSGSis~~~l~~fl~ev~~i~~~~--~~~v~vi~~D~~v~~~~~~~~--------~~~~~~~~~~~GgGGTdf~   70 (126)
T PF09967_consen    1 IVVAIDTSGSISDEELRRFLSEVAGILRRF--PAEVHVIQFDAEVQDVQVFRS--------LEDELRDIKLKGGGGTDFR   70 (126)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHHHhC--CCCEEEEEECCEeeeeeEEec--------ccccccccccCCCCCCcch
Confidence            5899999999988 6655555556666665  567999999999988877662        111121  35678999999


Q ss_pred             HHHHHHHHHHHhhccCCCCcEEEEEeCCCCC
Q 043643          247 EGLKKGARVLEERRERSPVASIILLSDGQDT  277 (634)
Q Consensus       247 ~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~  277 (634)
                      .++..+.+.    .  .....+|+||||...
T Consensus        71 pvf~~~~~~----~--~~~~~vi~fTDg~~~   95 (126)
T PF09967_consen   71 PVFEYLEEN----R--PRPSVVIYFTDGEGW   95 (126)
T ss_pred             HHHHHHHhc----C--CCCCEEEEEeCCCCC
Confidence            999987543    1  223458899999864

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.36  E-value=2.9e-07  Score=67.07  Aligned_cols=44  Identities=27%  Similarity=0.548  Sum_probs=36.5

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRC   48 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~   48 (634)
                      .|+||++.+..  ...++.++|||.||..|+..+. .....||+||+
T Consensus         1 ~C~~C~~~~~~--~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSE--ERRPRLTSCGHIFCEKCLKKLK-GKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccC--CCCeEEcccCCHHHHHHHHhhc-CCCCCCcCCCC
Confidence            59999999933  4558889999999999999988 44568999984

>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]

Probab=98.36  E-value=4.6e-06  Score=83.79  Aligned_cols=165  Identities=16%  Similarity=0.216  Sum_probs=115.9

Q ss_pred             CceEEEEEeCCCCCCc------cHHHHHHHHHHHHHhcC---CCCeEEEEEeCCC-cEEEEcCcccCHHHHHHHHHHHhc
Q 043643          167 PIDLVTVLDVSGSMSS------KLPLLKRAVHFIIQNLG---SADRLSIVIFSSV-ARRIFPLQRMTDSGRENAIRAINT  236 (634)
Q Consensus       167 p~dlv~VlD~SgSM~g------kl~~~K~al~~li~~L~---~~drvsIV~Fs~~-a~~~~pl~~~t~~~~~~~~~~I~~  236 (634)
                      =..+++|||.|.+|..      ++..+-+.+..|+..+-   |-.++|||+--+. +.++..++    .|-+.-+.++.+
T Consensus        60 iRhl~iviD~S~am~e~Df~P~r~a~~~K~le~Fv~eFFdQNPiSQigii~~k~g~A~~lt~lt----gnp~~hI~aL~~  135 (378)
T KOG2807|consen   60 IRHLYIVIDCSRAMEEKDFRPSRFANVIKYLEGFVPEFFDQNPISQIGIISIKDGKADRLTDLT----GNPRIHIHALKG  135 (378)
T ss_pred             heeEEEEEEhhhhhhhccCCchHHHHHHHHHHHHHHHHhccCchhheeEEEEecchhhHHHHhc----CCHHHHHHHHhc
Confidence            3679999999999986      78887777777776653   5568898887654 55555555    455666777777


Q ss_pred             CC-CCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhcccccc
Q 043643          237 LS-SNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREA  315 (634)
Q Consensus       237 l~-~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~  315 (634)
                      +. +.|.-.+..||..|.+.|+....-...-.+|+++ ...+..                 ..++.+.+.        ..
T Consensus       136 ~~~~~g~fSLqNaLe~a~~~Lk~~p~H~sREVLii~s-slsT~D-----------------Pgdi~~tI~--------~l  189 (378)
T KOG2807|consen  136 LTECSGDFSLQNALELAREVLKHMPGHVSREVLIIFS-SLSTCD-----------------PGDIYETID--------KL  189 (378)
T ss_pred             ccccCCChHHHHHHHHHHHHhcCCCcccceEEEEEEe-eecccC-----------------cccHHHHHH--------HH
Confidence            76 7788899999999999997654322222344443 222221                 123444443        12


Q ss_pred             CCCCeeEEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHHHHH
Q 043643          316 GQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARC  363 (634)
Q Consensus       316 ~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~  363 (634)
                      +..+|+|+.||+..  ....-+.|+.+|+|.|+.+-|..-+.+.|...
T Consensus       190 k~~kIRvsvIgLsa--Ev~icK~l~kaT~G~Y~V~lDe~HlkeLl~e~  235 (378)
T KOG2807|consen  190 KAYKIRVSVIGLSA--EVFICKELCKATGGRYSVALDEGHLKELLLEH  235 (378)
T ss_pred             HhhCeEEEEEeech--hHHHHHHHHHhhCCeEEEEeCHHHHHHHHHhc
Confidence            45789999999975  34688999999999999999998887777653

>smart00184 RING Ring finger

Probab=98.35  E-value=3.1e-07  Score=64.28  Aligned_cols=39  Identities=44%  Similarity=1.032  Sum_probs=33.5

Q ss_pred             ccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccc
Q 043643            3 CPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPIC   46 (634)
Q Consensus         3 C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~C   46 (634)
                      |+||++....     ++.++|+|.||..|+..|.+.+...||.|
T Consensus         1 C~iC~~~~~~-----~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKD-----PVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCC-----cEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            8999998554     77789999999999999998556679988

E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.33  E-value=3e-07  Score=97.67  Aligned_cols=46  Identities=30%  Similarity=0.680  Sum_probs=40.1

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDV   53 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~   53 (634)
                      .|+||++.|..     ++.++|||.||..||..|+.. ...||+|+..+...
T Consensus        28 ~C~IC~d~~~~-----PvitpCgH~FCs~CI~~~l~~-~~~CP~Cr~~~~~~   73 (397)
T TIGR00599        28 RCHICKDFFDV-----PVLTSCSHTFCSLCIRRCLSN-QPKCPLCRAEDQES   73 (397)
T ss_pred             CCCcCchhhhC-----ccCCCCCCchhHHHHHHHHhC-CCCCCCCCCccccc
Confidence            69999999987     788999999999999999976 44799999987654

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>TIGR01651 CobT cobaltochelatase, CobT subunit

Probab=98.30  E-value=1.7e-05  Score=87.34  Aligned_cols=181  Identities=17%  Similarity=0.179  Sum_probs=103.1

Q ss_pred             CCCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC-CCCeEEEEEeCCCcEEE--------------EcCcccCH--
Q 043643          163 ADRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG-SADRLSIVIFSSVARRI--------------FPLQRMTD--  224 (634)
Q Consensus       163 ~~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~-~~drvsIV~Fs~~a~~~--------------~pl~~~t~--  224 (634)
                      ......-|.++||.||||.+ ++..++..+-.+.+.|. -+-.+-|+.|.+.+..-              .| .+++.  
T Consensus       388 ~~~~D~~V~LLID~SGSM~~r~~~vA~~~a~iLa~aL~~~gIp~eVlGFtt~aw~gg~~re~w~~~g~p~~P-gRlN~l~  466 (600)
T TIGR01651       388 TEFRDTVVTLLIDNSGSMRGRPITVAATCADILARTLERCGVKVEILGFTTRAWKGGQSREKWLKAGKPAAP-GRLNDLR  466 (600)
T ss_pred             CCCCCcEEEEEEECCccCCCCHHHHHHHHHHHHHHHHHHCCCCeEEEeecccccccccchHHHHhcCCCCCC-cccchhh
Confidence            44556778899999999999 66666655555555554 36778899998864100              01 00000  


Q ss_pred             --------HHHHHHHHHHhcCC---CCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCC
Q 043643          225 --------SGRENAIRAINTLS---SNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSI  293 (634)
Q Consensus       225 --------~~~~~~~~~I~~l~---~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~  293 (634)
                              .........+..+-   .....-=+.||..|.+.|..+....  +.+|+||||.|....+..   .+   ++
T Consensus       467 hiiyk~ad~~wr~~r~~l~~mm~~~~~~eN~DGeAl~wa~~rL~~R~e~r--KiL~ViSDG~P~D~~Tls---vN---~~  538 (600)
T TIGR01651       467 HIIYKSADAPWRRARRNLGLMMREGLLKENIDGEALMWAHQRLIARPEQR--RILMMISDGAPVDDSTLS---VN---PG  538 (600)
T ss_pred             hhhhhccccchhhhccchhhhhhccccccCCchHHHHHHHHHHhcCcccc--eEEEEEeCCCcCCccccc---cC---ch
Confidence                    00000011111110   0111112789999999998876554  459999999998533210   00   00


Q ss_pred             CCCHHHHHhhchhhhhccccccCCCCeeEEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHHHHHhhccc
Q 043643          294 PSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLL  368 (634)
Q Consensus       294 ~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~l~~l~  368 (634)
                      ..-...++.++. .+.      ...+|.+.+||||.|        +... -..+..|.+.++|..++.+-+..|+
T Consensus       539 ~~l~~hLr~vi~-~~e------~~~~vel~aigIg~D--------v~r~-Y~~~v~i~~~~eL~~~~~~qLa~Lf  597 (600)
T TIGR01651       539 NYLERHLRAVIE-EIE------TRSPVELLAIGIGHD--------VTRY-YRRAVTIVDAEELAGAMTEQLAALF  597 (600)
T ss_pred             hHHHHHHHHHHH-HHh------ccCCceEEEeecccc--------HHHH-ccccceecCHHHHHHHHHHHHHHHh
Confidence            011223333332 121      245899999999976        2222 2455688999999888887777665

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model.

>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]

Probab=98.27  E-value=2.6e-07  Score=92.78  Aligned_cols=49  Identities=24%  Similarity=0.575  Sum_probs=42.5

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCCCC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQ   56 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p~~   56 (634)
                      +|.||++.|..     |+..+|+|.||.-||..++.. ...||.|+.++.+..+.
T Consensus        25 RC~IC~eyf~i-----p~itpCsHtfCSlCIR~~L~~-~p~CP~C~~~~~Es~Lr   73 (442)
T KOG0287|consen   25 RCGICFEYFNI-----PMITPCSHTFCSLCIRKFLSY-KPQCPTCCVTVTESDLR   73 (442)
T ss_pred             HHhHHHHHhcC-----ceeccccchHHHHHHHHHhcc-CCCCCceecccchhhhh
Confidence            59999999988     888899999999999999976 56899999998775443

>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A

Probab=98.27  E-value=4.7e-07  Score=65.13  Aligned_cols=40  Identities=25%  Similarity=0.600  Sum_probs=23.5

Q ss_pred             ccccccccccCCcceeEecCCCCccchhhHHHHHhcC---CCcCc
Q 043643            3 CPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHG---NRICP   44 (634)
Q Consensus         3 C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~---~~~CP   44 (634)
                      ||||.+ |.. +...|+.++|||.||..|+.++.+.+   ...||
T Consensus         1 CpIc~e-~~~-~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FST-EENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----T-TSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccC-CCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            999999 644 46668888999999999999988743   44677

>smart00187 INB Integrin beta subunits (N-terminal portion of extracellular region)

Probab=98.26  E-value=0.00024  Score=75.77  Aligned_cols=247  Identities=17%  Similarity=0.152  Sum_probs=133.0

Q ss_pred             CCCCCceEEEEEeCCCCCCccHHHHHHHHHHHHH---hcCCCCeEEEEEeCCCc--------------------------
Q 043643          163 ADRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQ---NLGSADRLSIVIFSSVA--------------------------  213 (634)
Q Consensus       163 ~~r~p~dlv~VlD~SgSM~gkl~~~K~al~~li~---~L~~~drvsIV~Fs~~a--------------------------  213 (634)
                      ...-|+||++++|.|+||...++.+|.....+..   .+..+-|+|+-+|-++.                          
T Consensus        95 a~~yPvDLYyLMDlS~SM~ddl~~lk~lg~~L~~~m~~it~n~rlGfGsFVDK~v~P~~~t~p~~l~~PC~~~~~~c~p~  174 (423)
T smart00187       95 AEDYPVDLYYLMDLSYSMKDDLDNLKSLGDDLAREMKGLTSNFRLGFGSFVDKTVSPFVSTRPEKLENPCPNYNLTCEPP  174 (423)
T ss_pred             cccCccceEEEEeCCccHHHHHHHHHHHHHHHHHHHHhcccCceeeEEEeecCccCCcccCCHHHhcCCCcCCCCCcCCC
Confidence            3667999999999999999977777776655555   45578899998887752                          


Q ss_pred             ---EEEEcCcccCHHHHHHHHHHHhcCCCCCCCcHHH-HHHHHHHHH---HhhccC-CCCcEEEEEeCCCCCCCCCCC--
Q 043643          214 ---RRIFPLQRMTDSGRENAIRAINTLSSNGGTNIVE-GLKKGARVL---EERRER-SPVASIILLSDGQDTHNVLRN--  283 (634)
Q Consensus       214 ---~~~~pl~~~t~~~~~~~~~~I~~l~~~GgT~i~~-aL~~A~~~l---~~~~~~-~~~~~IILlTDG~~~~g~~~~--  283 (634)
                         +.+++|+    .+...+.+.|+.....|+-+.-+ ||..-++++   +.-.++ +..+.+|+.||+.-.......  
T Consensus       175 f~f~~~L~LT----~~~~~F~~~V~~~~iSgN~D~PEgG~DAimQaaVC~~~IGWR~~a~rllv~~TDa~fH~AGDGkLa  250 (423)
T smart00187      175 YGFKHVLSLT----DDTDEFNEEVKKQRISGNLDAPEGGFDAIMQAAVCTEQIGWREDARRLLVFSTDAGFHFAGDGKLA  250 (423)
T ss_pred             cceeeeccCC----CCHHHHHHHHhhceeecCCcCCcccHHHHHHHHhhccccccCCCceEEEEEEcCCCccccCCccee
Confidence               1234555    46778888999887777655332 233222332   223333 455678899998765322111  


Q ss_pred             --------ccccccc-CCCCCCHHHHHhhchhhhhccccccCCCCe-eEEEEEccCCCChHHHHHHHhhcCCeEEEc--C
Q 043643          284 --------SYTQDEA-SSIPSNELAYLNLLPSSICLSKREAGQPTF-PVHTFGFGLEHDSEAMHAIADASGGTFSFI--E  351 (634)
Q Consensus       284 --------~~~~~~~-~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i-~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i--~  351 (634)
                              .+..+.. .+......+|-+     +....+...+.+| +|+++  -.. -....+.+++.-.|...-+  .
T Consensus       251 GIv~PNDg~CHL~~~g~Yt~s~~~DYPS-----i~ql~~kL~e~nI~~IFAV--T~~-~~~~Y~~Ls~lipgs~vg~Ls~  322 (423)
T smart00187      251 GIVQPNDGQCHLDNNGEYTMSTTQDYPS-----IGQLNQKLAENNINPIFAV--TKK-QVSLYKELSALIPGSSVGVLSE  322 (423)
T ss_pred             eEecCCCCcceeCCCCCcCccCcCCCCC-----HHHHHHHHHhcCceEEEEE--ccc-chhHHHHHHHhcCcceeeeccc
Confidence                    1111110 011011112211     1111112223444 56554  322 2346677776655655432  5


Q ss_pred             ChhhHHHHHHHHhhccccceeeeeEEEEEecCCCeEEEEecCCCCCcccccCCceeEEEcCCccCCcEEEEEEEEEcCC
Q 043643          352 TLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPV  430 (634)
Q Consensus       352 ~~~~l~~~f~~~l~~l~s~va~~~~l~v~~~~~~v~i~~v~~~~~~~~~~~~~~~~~i~lg~l~~~e~r~~lv~l~~p~  430 (634)
                      |.++|-+.+.+....+    ...++|...-.+.++.|.-.....-.....  +.   -.=.+|.-|++..|-|++.+..
T Consensus       323 DSsNIv~LI~~aY~~i----~S~V~l~~~~~p~~v~~~y~s~C~~g~~~~--~~---~~C~~v~iG~~V~F~v~vta~~  392 (423)
T smart00187      323 DSSNVVELIKDAYNKI----SSRVELEDNSLPEGVSVTYTSSCPGGVVGP--GT---RKCEGVKIGDTVSFEVTVTATK  392 (423)
T ss_pred             CcchHHHHHHHHHHhh----ceEEEEecCCCCCcEEEEEEeeCCCCCccc--CC---cccCCcccCCEEEEEEEEEeCc
Confidence            5566655555544444    445555554335677665331110000000  00   0123678888999999998644

Portion of beta integrins that lies N-terminal to their EGF-like repeats. Integrins are cell adhesion molecules that mediate cell-extracellular matrix and cell-cell interactions. They contain both alpha and beta subunits. Beta integrins are proposed to have a von Willebrand factor type-A "insert" or "I" -like domain (although this remains to be confirmed).

>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]

Probab=98.24  E-value=4.8e-05  Score=72.58  Aligned_cols=135  Identities=16%  Similarity=0.321  Sum_probs=106.6

Q ss_pred             eEEEEEeCCCCCCc------cHHHHHHHHHHHHHh-c--CCCCeEEEEEeCC-CcEEEEcCcccCHHHHHHHHHHHhcCC
Q 043643          169 DLVTVLDVSGSMSS------KLPLLKRAVHFIIQN-L--GSADRLSIVIFSS-VARRIFPLQRMTDSGRENAIRAINTLS  238 (634)
Q Consensus       169 dlv~VlD~SgSM~g------kl~~~K~al~~li~~-L--~~~drvsIV~Fs~-~a~~~~pl~~~t~~~~~~~~~~I~~l~  238 (634)
                      ..+++||.|--|..      |+..-|+++..++.. +  .|...+||++..+ .++++.-+|    .++-.++..+..+.
T Consensus         5 atmi~iDNse~mrNgDy~PtRf~aQ~daVn~v~~~K~~snpEntvGiitla~a~~~vLsT~T----~d~gkils~lh~i~   80 (259)
T KOG2884|consen    5 ATMICIDNSEYMRNGDYLPTRFQAQKDAVNLVCQAKLRSNPENTVGIITLANASVQVLSTLT----SDRGKILSKLHGIQ   80 (259)
T ss_pred             eEEEEEeChHHhhcCCCChHHHHHHHHHHHHHHHhhhcCCcccceeeEeccCCCceeeeecc----ccchHHHHHhcCCC
Confidence            36899999988874      899999999988864 3  3678999999998 788888887    55778999999999


Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCC
Q 043643          239 SNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQP  318 (634)
Q Consensus       239 ~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~  318 (634)
                      +.|+-++..||+.|.-.|+.|..++...+||++--..-.                 .++.++..+..        ..++.
T Consensus        81 ~~g~~~~~~~i~iA~lalkhRqnk~~~~riVvFvGSpi~-----------------e~ekeLv~~ak--------rlkk~  135 (259)
T KOG2884|consen   81 PHGKANFMTGIQIAQLALKHRQNKNQKQRIVVFVGSPIE-----------------ESEKELVKLAK--------RLKKN  135 (259)
T ss_pred             cCCcccHHHHHHHHHHHHHhhcCCCcceEEEEEecCcch-----------------hhHHHHHHHHH--------HHHhc
Confidence            999999999999999999999988877888887643322                 12334433322        34678


Q ss_pred             CeeEEEEEccCCCC
Q 043643          319 TFPVHTFGFGLEHD  332 (634)
Q Consensus       319 ~i~I~t~G~G~~~d  332 (634)
                      +|.|..|-||...+
T Consensus       136 ~Vaidii~FGE~~~  149 (259)
T KOG2884|consen  136 KVAIDIINFGEAEN  149 (259)
T ss_pred             CeeEEEEEeccccc
Confidence            99999999997544

>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]

Probab=98.23  E-value=3.8e-07  Score=89.78  Aligned_cols=49  Identities=24%  Similarity=0.607  Sum_probs=42.5

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCCCC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQ   56 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p~~   56 (634)
                      .|-||.+.|..     ++..+|||.||.-||..++.. ...||+||.+..+.-..
T Consensus        27 rC~IC~~~i~i-----p~~TtCgHtFCslCIR~hL~~-qp~CP~Cr~~~~esrlr   75 (391)
T COG5432          27 RCRICDCRISI-----PCETTCGHTFCSLCIRRHLGT-QPFCPVCREDPCESRLR   75 (391)
T ss_pred             Hhhhhhheeec-----ceecccccchhHHHHHHHhcC-CCCCccccccHHhhhcc
Confidence            69999999988     888999999999999999876 55899999987765544

>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.19  E-value=1.5e-07  Score=95.66  Aligned_cols=65  Identities=34%  Similarity=0.622  Sum_probs=51.2

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCCCCCCCCCCCcccCcccccccCCCC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGSVIDARRNNMARARVSPFN   78 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~   78 (634)
                      .|+|||+.++.    ...+..|.|.||+.||...++.++..||.||+.+...-.++.        .|..|+.++.+.
T Consensus        45 ~c~icl~llk~----tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~--------Dp~fdaLis~i~  109 (381)
T KOG0311|consen   45 ICPICLSLLKK----TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRI--------DPNFDALISKIY  109 (381)
T ss_pred             ccHHHHHHHHh----hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCC--------CccHHHHHHHHh
Confidence            49999999976    256688999999999988888888899999998766555543        567777665543

>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.13  E-value=1.1e-06  Score=93.93  Aligned_cols=46  Identities=35%  Similarity=0.672  Sum_probs=36.0

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHh----cCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQ----HGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~----~~~~~CP~Cr~~~~~   52 (634)
                      .|||||+...-     +....|||.||+.||-.++.    .+...||+|+..+..
T Consensus       188 ~CPICL~~~~~-----p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  188 QCPICLEPPSV-----PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             cCCcccCCCCc-----ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            59999998755     55566999999999999654    234479999987553

>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.10  E-value=1e-06  Score=99.47  Aligned_cols=50  Identities=30%  Similarity=0.704  Sum_probs=42.6

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccc
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWK   51 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~   51 (634)
                      +.|+||++.+..+....+..++|+|.||..|+..|.+. ..+||.||..+.
T Consensus       292 ~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er-~qtCP~CR~~~~  341 (543)
T KOG0802|consen  292 ELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER-QQTCPTCRTVLY  341 (543)
T ss_pred             CeeeeechhhccccccccceeecccchHHHHHHHHHHH-hCcCCcchhhhh
Confidence            47999999998865555677899999999999999987 669999999543

>cd01459 vWA_copine_like VWA Copine: Copines are phospholipid-binding proteins originally identified in paramecium

Probab=98.07  E-value=0.00013  Score=73.70  Aligned_cols=132  Identities=17%  Similarity=0.230  Sum_probs=89.9

Q ss_pred             cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEE---EEcCcccC---------HHHHHHHHHHHhcCCCCCCCcHHHHHH
Q 043643          183 KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARR---IFPLQRMT---------DSGRENAIRAINTLSSNGGTNIVEGLK  250 (634)
Q Consensus       183 kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~---~~pl~~~t---------~~~~~~~~~~I~~l~~~GgT~i~~aL~  250 (634)
                      ..+.+-+++..++..+.++.++-+..|+.....   +.++-+.+         +.-.+...+.+..+...|.|++...|+
T Consensus        63 ~Yq~aI~~vg~il~~yD~D~~ip~~GFGa~~~~~~~v~~~f~~~~~~p~~~Gi~gvl~aY~~~l~~v~lsGpT~fapvI~  142 (254)
T cd01459          63 PYQKAIRIVGEVLQPYDSDKLIPAFGFGAIVTKDQSVFSFFPGYSESPECQGFEGVLRAYREALPNVSLSGPTNFAPVIR  142 (254)
T ss_pred             HHHHHHHHHHHHHHhcCCCCceeeEeecccCCCCCccccccCCCCCCCcccCHHHHHHHHHHHhceeeecCcchHHHHHH
Confidence            556677777788888888889999999875321   22221000         111234445666778889999999999


Q ss_pred             HHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEEccCC
Q 043643          251 KGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLE  330 (634)
Q Consensus       251 ~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~  330 (634)
                      .+.+........+....+++||||..+.                  .....+.+.        ++....+.|-.||+|. 
T Consensus       143 ~a~~~a~~~~~~~~Y~VLLIiTDG~i~D------------------~~~t~~aIv--------~AS~~PlSIiiVGVGd-  195 (254)
T cd01459         143 AAANIAKASNSQSKYHILLIITDGEITD------------------MNETIKAIV--------EASKYPLSIVIVGVGD-  195 (254)
T ss_pred             HHHHHHHHhcCCCceEEEEEECCCCccc------------------HHHHHHHHH--------HHhcCCeEEEEEEeCC-
Confidence            9999887654444455688999998762                  222222222        2467889999999995 


Q ss_pred             CChHHHHHHHh
Q 043643          331 HDSEAMHAIAD  341 (634)
Q Consensus       331 ~d~~~L~~iA~  341 (634)
                      .+...|+.+-.
T Consensus       196 ~~F~~M~~LD~  206 (254)
T cd01459         196 GPFDAMERLDD  206 (254)
T ss_pred             CChHHHHHhcC
Confidence            47888888875

They are found in human and orthologues have been found in C. elegans and Arabidopsis Thaliana. None have been found in D. Melanogaster or S. Cereviciae. Phylogenetic distribution suggests that copines have been lost in some eukaryotes. No functional properties have been assigned to the VWA domains present in copines. The members of this subgroup contain a functional MIDAS motif based on their preferential binding to magnesium and manganese. However, the MIDAS motif is not totally conserved, in most cases the MIDAS consists of the sequence DxTxS instead of the motif DxSxS that is found in most cases. The C2 domains present in copines mediate phospholipid binding.

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.06  E-value=2.9e-06  Score=86.65  Aligned_cols=52  Identities=21%  Similarity=0.562  Sum_probs=37.8

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDV   53 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~   53 (634)
                      .||||...--.......+..+|||.||..|+...+..+...||.|+..+...
T Consensus         5 ~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~   56 (309)
T TIGR00570         5 GCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKN   56 (309)
T ss_pred             CCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchh
Confidence            6999999533222333344589999999999996655566899998876543

All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis

Probab=98.02  E-value=3.6e-06  Score=68.49  Aligned_cols=47  Identities=17%  Similarity=0.277  Sum_probs=37.7

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDV   53 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~   53 (634)
                      .||||.+.|.+     |+.++|||.|.+.||..|+..+...||.|+..+...
T Consensus         6 ~CpIt~~lM~d-----PVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~   52 (73)
T PF04564_consen    6 LCPITGELMRD-----PVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSES   52 (73)
T ss_dssp             B-TTTSSB-SS-----EEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred             CCcCcCcHhhC-----ceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence            59999999999     999999999999999999988677999998876543

Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=97.99  E-value=2e-06  Score=89.90  Aligned_cols=44  Identities=39%  Similarity=0.908  Sum_probs=36.6

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCE   49 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~   49 (634)
                      +|||||+.|... -.-+++..|.|+||..|+..|...   +||+||.-
T Consensus       177 TCpVCLERMD~s-~~gi~t~~c~Hsfh~~cl~~w~~~---scpvcR~~  220 (493)
T KOG0804|consen  177 TCPVCLERMDSS-TTGILTILCNHSFHCSCLMKWWDS---SCPVCRYC  220 (493)
T ss_pred             CcchhHhhcCcc-ccceeeeecccccchHHHhhcccC---cChhhhhh
Confidence            799999999763 223677889999999999999754   89999964

>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.86  E-value=3.2e-06  Score=82.73  Aligned_cols=51  Identities=22%  Similarity=0.504  Sum_probs=39.1

Q ss_pred             CccccccccccCC-----cceeEecCCCCccchhhHHHHHh-cCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQ-----GVAIFTAECSHSFHFCCIAANVQ-HGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~-----~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~~CP~Cr~~~~~   52 (634)
                      .|+||-..+....     -+...++.|+|.||..||..|.- ..+.+||.|+.+..-
T Consensus       226 vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl  282 (328)
T KOG1734|consen  226 VCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL  282 (328)
T ss_pred             hhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence            4999998875422     12467899999999999999985 345689999987543

>PRK05325 hypothetical protein; Provisional

Probab=97.85  E-value=0.0004  Score=74.07  Aligned_cols=165  Identities=16%  Similarity=0.172  Sum_probs=100.4

Q ss_pred             CCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC-CCCeEEEEEeCC--CcEEEEcCcccCHHHHHHHHHHHhcCCC
Q 043643          164 DRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG-SADRLSIVIFSS--VARRIFPLQRMTDSGRENAIRAINTLSS  239 (634)
Q Consensus       164 ~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~-~~drvsIV~Fs~--~a~~~~pl~~~t~~~~~~~~~~I~~l~~  239 (634)
                      +....=+++++|+||||.. +-+++|...-.+..-|. .-.+|-+|.-.+  .|+.+-      .       ...=....
T Consensus       219 p~s~AVmfclMDvSGSM~~~~K~lakrff~lly~fL~r~Y~~vEvvFI~H~t~AkEVd------E-------eeFF~~~e  285 (401)
T PRK05325        219 PESQAVMFCLMDVSGSMDEAEKDLAKRFFFLLYLFLRRKYENVEVVFIRHHTEAKEVD------E-------EEFFYSRE  285 (401)
T ss_pred             ccCcEEEEEEEeCCCCCchHHHHHHHHHHHHHHHHHHhccCceEEEEEeecCceeEcC------H-------HHccccCC
Confidence            3344557899999999999 88888886655554444 235555554443  344332      1       12224567


Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCC-CCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCC
Q 043643          240 NGGTNIVEGLKKGARVLEERRERS-PVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQP  318 (634)
Q Consensus       240 ~GgT~i~~aL~~A~~~l~~~~~~~-~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~  318 (634)
                      .|||-+..|++.+.++++.+-.++ ..-.++-.|||.+....               + .....++.+.|.+        
T Consensus       286 sGGT~vSSA~~l~~eIi~~rYpp~~wNIY~f~aSDGDNw~~D---------------~-~~~~~ll~~~llp--------  341 (401)
T PRK05325        286 SGGTIVSSAYKLALEIIEERYPPAEWNIYAFQASDGDNWSSD---------------N-PRCVELLREELLP--------  341 (401)
T ss_pred             CCCeEehHHHHHHHHHHHhhCCHhHCeeEEEEcccCCCcCCC---------------C-HHHHHHHHHHHHH--------
Confidence            899999999999999998765443 33347789999765321               2 2333333323322        


Q ss_pred             CeeEEEEE-ccCC--CChHHHHHHHhhcCC----eEEEcCChhhHHHHHHHHhh
Q 043643          319 TFPVHTFG-FGLE--HDSEAMHAIADASGG----TFSFIETLSILQDAFARCIG  365 (634)
Q Consensus       319 ~i~I~t~G-~G~~--~d~~~L~~iA~~tgG----~~~~i~~~~~l~~~f~~~l~  365 (634)
                      -...|+.+ ++..  ....+++........    ....|.+.++|-.+|..++.
T Consensus       342 ~~~~f~Y~Ev~~~~~~~~~l~~~y~~i~~~~~~f~~~~I~~~~dIyp~~r~lf~  395 (401)
T PRK05325        342 VCNYFAYIEVTPRAYRHQTLWREYERLQDTFPNFAMQRIRDKEDIYPVFRELFK  395 (401)
T ss_pred             HhhheEEEEecCCCCCchHHHHHHHHhhccCCCeEEEEeCCHHHHHHHHHHHhc
Confidence            11222222 2322  245666666644432    34678899999999988875

>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.84  E-value=6.1e-06  Score=82.41  Aligned_cols=53  Identities=25%  Similarity=0.567  Sum_probs=44.0

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCCCCCC
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAP   58 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p~~~~   58 (634)
                      +.|+||+....-     |+.+.|+|.||+.||..-.+.+..+|++||.++.+.-+..|
T Consensus         8 ~eC~IC~nt~n~-----Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~~p   60 (324)
T KOG0824|consen    8 KECLICYNTGNC-----PVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDFEP   60 (324)
T ss_pred             CcceeeeccCCc-----CccccccchhhhhhhcchhhcCCCCCceecCCCCcchhcch
Confidence            479999998766     78899999999999998776667789999999876555444

>TIGR00627 tfb4 transcription factor tfb4

Probab=97.77  E-value=0.00072  Score=69.17  Aligned_cols=169  Identities=16%  Similarity=0.297  Sum_probs=103.6

Q ss_pred             ceEEEEEeCCCCCCc---------cHHHHHHHHHHHHH-h--cCCCCeEEEEEeCCC-cEEEEcCcc-----cC------
Q 043643          168 IDLVTVLDVSGSMSS---------KLPLLKRAVHFIIQ-N--LGSADRLSIVIFSSV-ARRIFPLQR-----MT------  223 (634)
Q Consensus       168 ~dlv~VlD~SgSM~g---------kl~~~K~al~~li~-~--L~~~drvsIV~Fs~~-a~~~~pl~~-----~t------  223 (634)
                      -=|++|||++.--.|         .|..+-+++.-|++ .  +....+|+||+..+. .+.++|-..     .+      
T Consensus         3 slL~vvlD~np~~W~~~~~~~~~~~l~~~l~sllvF~NahL~l~~~N~vaVIAs~~~~~~~LYps~~~~~~~~~~~~~~~   82 (279)
T TIGR00627         3 SLLVVIIEANPCSWGMLALAHGKRTISKVLRAIVVFLNAHLAFNANNKLAVIASHSQDNKYLYPSTRCEDRNASELDPKR   82 (279)
T ss_pred             cEEEEEEeCCHHHHHHHhhccCCCcHHHHHHHHHHHHHHHHhcCccCCEEEEEecCCcceEEecCCcccccccccccccc
Confidence            347899998865432         33333344433333 2  457899999988654 344554320     00      


Q ss_pred             -------------HHHHHHHHHHHhcCC----CCCCCcHHHHHHHHHHHHHhhcc-----CCCCcEEEEEeCCCCCCCCC
Q 043643          224 -------------DSGRENAIRAINTLS----SNGGTNIVEGLKKGARVLEERRE-----RSPVASIILLSDGQDTHNVL  281 (634)
Q Consensus       224 -------------~~~~~~~~~~I~~l~----~~GgT~i~~aL~~A~~~l~~~~~-----~~~~~~IILlTDG~~~~g~~  281 (634)
                                   +.-.+.+.+.++...    ..+.+.+..||..|+-.+.+...     ..-..+|++++-+.+.    
T Consensus        83 ~~~~~y~~f~~v~~~v~~~l~~l~~~~~~~~~~~~~s~lagals~ALcyinr~~~~~~~~~~~~~RIlii~~s~~~----  158 (279)
T TIGR00627        83 LRELLYRDFRTVDETIVEEIKPLMAHADKHMKKDSRTVLAGALSDALGYINRSEQSETASEKLKSRILVISITPDM----  158 (279)
T ss_pred             ccchhccchhHHHHHHHHHHHHHHhhchhcccccccccchhHHHhhhhhhcccccccccCcCCcceEEEEECCCCc----
Confidence                         001122223333211    22577899999999998865321     1234578888765432    


Q ss_pred             CCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHH
Q 043643          282 RNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAF  360 (634)
Q Consensus       282 ~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f  360 (634)
                                     ...|..++. .|.    .+++.+|+|.+++++.+.+..+|+++++.|||.|..+.+...|.+.+
T Consensus       159 ---------------~~qYi~~mn-~If----aaqk~~I~Idv~~L~~e~~~~~lqQa~~~TgG~Y~~~~~~~~L~q~L  217 (279)
T TIGR00627       159 ---------------ALQYIPLMN-CIF----SAQKQNIPIDVVSIGGDFTSGFLQQAADITGGSYLHVKKPQGLLQYL  217 (279)
T ss_pred             ---------------hHHHHHHHH-HHH----HHHHcCceEEEEEeCCccccHHHHHHHHHhCCEEeccCCHhHHHHHH
Confidence                           124444432 232    25678999999999876678899999999999999999887665444

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PF03731 Ku_N: Ku70/Ku80 N-terminal alpha/beta domain; InterPro: IPR005161 The Ku heterodimer (composed of Ku70 P12956 from SWISSPROT and Ku80 P13010 from SWISSPROT) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway

Probab=97.69  E-value=0.00019  Score=71.76  Aligned_cols=106  Identities=21%  Similarity=0.306  Sum_probs=65.0

Q ss_pred             EEEEEeCCCCCCc-------cHHHHHHHHHHHHHhc---CCCCeEEEEEeCCCcE-------------EEEcCcccCHHH
Q 043643          170 LVTVLDVSGSMSS-------KLPLLKRAVHFIIQNL---GSADRLSIVIFSSVAR-------------RIFPLQRMTDSG  226 (634)
Q Consensus       170 lv~VlD~SgSM~g-------kl~~~K~al~~li~~L---~~~drvsIV~Fs~~a~-------------~~~pl~~~t~~~  226 (634)
                      ++||||+|.||..       .|+.+.+++..++...   .+.|.||||.|++...             ++.++...+   
T Consensus         2 ~vflID~s~sM~~~~~~~~~~l~~al~~i~~~~~~ki~~~~kD~vgvvl~gt~~t~n~~~~~~~~~i~~l~~l~~~~---   78 (224)
T PF03731_consen    2 TVFLIDVSPSMFEPSSESESPLEEALKAIEDLMQQKIISSPKDEVGVVLFGTDETNNPDEDSGYENIFVLQPLDPPS---   78 (224)
T ss_dssp             EEEEEE-SCGGGS-BTTCS-HHHHHHHHHHHHHHHHHHTT---EEEEEEES-SS-BST-TTT-STTEEEEEECC--B---
T ss_pred             EEEEEECCHHHCCCCCCcchhHHHHHHHHHHHHHHHHcCCCCCeEEEEEEcCCCCCCcccccCCCceEEeecCCccC---
Confidence            7999999999984       4777777776666543   4679999999987542             334555433   


Q ss_pred             HHHHHHHHhcCCC----------CCCCcHHHHHHHHHHHHHh--hccCCCCcEEEEEeCCCCCC
Q 043643          227 RENAIRAINTLSS----------NGGTNIVEGLKKGARVLEE--RRERSPVASIILLSDGQDTH  278 (634)
Q Consensus       227 ~~~~~~~I~~l~~----------~GgT~i~~aL~~A~~~l~~--~~~~~~~~~IILlTDG~~~~  278 (634)
                      .+.++...+-+..          ....++..||..|..+|..  ...+...++|||+||+....
T Consensus        79 ~~~l~~L~~~~~~~~~~~~~~~~~~~~~l~~al~v~~~~~~~~~~~~k~~~krI~l~Td~d~p~  142 (224)
T PF03731_consen   79 AERLKELEELLKPGDKFENFFSGSDEGDLSDALWVASDMFRERTCKKKKNKKRIFLFTDNDGPH  142 (224)
T ss_dssp             HHHHHHHHTTSHHHHHHHHHC-SSS---HHHHHHHHHHHHHCHCTTS-ECEEEEEEEES-SSTT
T ss_pred             HHHHHHHHHhhcccccccccCCCCCccCHHHHHHHHHHHHHHHhhcccCCCcEEEEEeCCCCCC
Confidence            3333333333332          3456899999999999976  33344567899999997665

This is the N-terminal alpha/beta domain. This domain only makes a small contribution to the dimer interface. The domain comprises a six stranded beta sheet of the Rossman fold [].; PDB: 1JEQ_A 1JEY_A.

>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.67  E-value=1.5e-05  Score=83.11  Aligned_cols=40  Identities=40%  Similarity=0.967  Sum_probs=36.0

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICR   47 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr   47 (634)
                      .|+||++.|..     +..++|+|+||..|+..++. ....||.||
T Consensus        15 ~C~iC~~~~~~-----p~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr   54 (386)
T KOG2177|consen   15 TCPICLEYFRE-----PVLLPCGHNFCRACLTRSWE-GPLSCPVCR   54 (386)
T ss_pred             cChhhHHHhhc-----CccccccchHhHHHHHHhcC-CCcCCcccC
Confidence            69999999988     67889999999999999777 566899999

>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B

Probab=97.67  E-value=1.2e-05  Score=62.04  Aligned_cols=45  Identities=27%  Similarity=0.605  Sum_probs=23.2

Q ss_pred             CccccccccccCCcceeE-ecCCCCccchhhHHHHHhcCCCcCcccccccccCC
Q 043643            2 TCPICLGSLRRGQGVAIF-TAECSHSFHFCCIAANVQHGNRICPICRCEWKDVP   54 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~-~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p   54 (634)
                      .|++|.+.++.     |+ ...|.|.||..||.....   ..||+|+.+-....
T Consensus         9 rCs~C~~~l~~-----pv~l~~CeH~fCs~Ci~~~~~---~~CPvC~~Paw~qD   54 (65)
T PF14835_consen    9 RCSICFDILKE-----PVCLGGCEHIFCSSCIRDCIG---SECPVCHTPAWIQD   54 (65)
T ss_dssp             S-SSS-S--SS------B---SSS--B-TTTGGGGTT---TB-SSS--B-S-SS
T ss_pred             CCcHHHHHhcC-----CceeccCccHHHHHHhHHhcC---CCCCCcCChHHHHH
Confidence            59999999988     65 588999999999977543   35999998754433

>PF00362 Integrin_beta: Integrin, beta chain; InterPro: IPR002369 Integrins are the major metazoan receptors for cell adhesion to extracellular matrix proteins and, in vertebrates, also play important roles in certain cell-cell adhesions, make transmembrane connections to the cytoskeleton and activate many intracellular signalling pathways [, ]

Probab=97.65  E-value=0.0021  Score=70.08  Aligned_cols=265  Identities=16%  Similarity=0.169  Sum_probs=130.6

Q ss_pred             CcceEEEeecccccccccCCCCceEEEEEEeCCCCCCCCCCCCceEEEEEeCCCCCCccHHHHHH---HHHHHHHhcCCC
Q 043643          125 AQALAVKAFPEFGAVAAAECPPKFAVLLRVCAPSLPNDADRAPIDLVTVLDVSGSMSSKLPLLKR---AVHFIIQNLGSA  201 (634)
Q Consensus       125 ~~~~~v~~~~~~~~~~~~~~~~~~~v~v~~~ap~~~~~~~r~p~dlv~VlD~SgSM~gkl~~~K~---al~~li~~L~~~  201 (634)
                      ++.+.|++-|..          ...+-|.++.+      ..-|+||.+++|.|+||...++.+|.   .+..-++.+..+
T Consensus        76 PQ~v~l~LRpG~----------~~~f~v~~~~a------~~yPvDLYyLmDlS~Sm~ddl~~l~~lg~~l~~~~~~it~~  139 (426)
T PF00362_consen   76 PQKVSLKLRPGE----------PVTFNVTVRPA------EDYPVDLYYLMDLSYSMKDDLENLKSLGQDLAEEMRNITSN  139 (426)
T ss_dssp             SSEEEEEEETTB----------EEEEEEEEEBS------SS--EEEEEEEE-SGGGHHHHHHHCCCCHHHHHHHHTT-SS
T ss_pred             cceeEEEeecce----------eEEEEEEEeec------cccceeEEEEeechhhhhhhHHHHHHHHHHHHHHHHhcCcc
Confidence            446666665542          34555666654      55799999999999999985555554   455556667788


Q ss_pred             CeEEEEEeCCCc-----------------------------EEEEcCcccCHHHHHHHHHHHhcCCCCCCCcH----HHH
Q 043643          202 DRLSIVIFSSVA-----------------------------RRIFPLQRMTDSGRENAIRAINTLSSNGGTNI----VEG  248 (634)
Q Consensus       202 drvsIV~Fs~~a-----------------------------~~~~pl~~~t~~~~~~~~~~I~~l~~~GgT~i----~~a  248 (634)
                      -|+|+-+|-++.                             +.+++|+    .+...+.+.|++..-.|+-+-    -+|
T Consensus       140 ~~~GfGsfvdK~~~P~~~~~p~~l~~pc~~~~~~c~~~~~f~~~l~Lt----~~~~~F~~~v~~~~is~n~D~PEgg~da  215 (426)
T PF00362_consen  140 FRLGFGSFVDKPVMPFVSTTPEKLKNPCPSKNPNCQPPFSFRHVLSLT----DDITEFNEEVNKQKISGNLDAPEGGLDA  215 (426)
T ss_dssp             EEEEEEEESSSSSTTTST-SSHCHHSTSCCTTS--B---SEEEEEEEE----S-HHHHHHHHHTS--B--SSSSBSHHHH
T ss_pred             ceEechhhcccccCCcccCChhhhcCcccccCCCCCCCeeeEEeeccc----chHHHHHHhhhhccccCCCCCCccccch
Confidence            999999997753                             2344565    567889999988766554332    233


Q ss_pred             HHHHHHHHHhhccCC-CCcEEEEEeCCCCCCCCCCC----------ccccccc-CCC---CCCHHHHHhhchhhhhcccc
Q 043643          249 LKKGARVLEERRERS-PVASIILLSDGQDTHNVLRN----------SYTQDEA-SSI---PSNELAYLNLLPSSICLSKR  313 (634)
Q Consensus       249 L~~A~~~l~~~~~~~-~~~~IILlTDG~~~~g~~~~----------~~~~~~~-~~~---~~~~~~~~~lv~~~i~~~~~  313 (634)
                      |..|+---+.-.+++ ..+.||+.||+.-.......          .+..+.. ...   ..+-+.+..+.. .+.    
T Consensus       216 l~Qa~vC~~~igWr~~a~~llv~~TD~~fH~agDg~l~gi~~pnd~~Chl~~~~~y~~~~~~DYPSv~ql~~-~l~----  290 (426)
T PF00362_consen  216 LMQAAVCQEEIGWRNEARRLLVFSTDAGFHFAGDGKLAGIVKPNDGKCHLDDNGMYTASTEQDYPSVGQLVR-KLS----  290 (426)
T ss_dssp             HHHHHH-HHHHT--STSEEEEEEEESS-B--TTGGGGGT--S---SS--BSTTSBBGGGGCS----HHHHHH-HHH----
T ss_pred             heeeeecccccCcccCceEEEEEEcCCccccccccccceeeecCCCceEECCCCcccccccccCCCHHHHHH-HHH----
Confidence            333321112223333 55678889998654322111          1111111 000   011112222211 111    


Q ss_pred             ccCCCCeeEEEEEccCCCChHHHHHHHhhcCCeEE-Ec-CChhhHHHHHHHHhhccccceeeeeEEEEEecCCCeEEEEe
Q 043643          314 EAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFS-FI-ETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSI  391 (634)
Q Consensus       314 ~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~-~i-~~~~~l~~~f~~~l~~l~s~va~~~~l~v~~~~~~v~i~~v  391 (634)
                        ...-++|+++.=.   -....+.|++.-.|.+. .+ .|...|.+.+.+.-..+.    ..+.|...-.+.++.+.-.
T Consensus       291 --e~~i~~IFAVt~~---~~~~Y~~L~~~i~~s~vg~L~~dSsNIv~LI~~aY~~i~----s~V~L~~~~~p~~v~v~y~  361 (426)
T PF00362_consen  291 --ENNINPIFAVTKD---VYSIYEELSNLIPGSSVGELSSDSSNIVQLIKEAYNKIS----SKVELKHDNAPDGVKVSYT  361 (426)
T ss_dssp             --HTTEEEEEEEEGG---GHHHHHHHHHHSTTEEEEEESTTSHTHHHHHHHHHHHHC----TEEEEEECS--TTEEEEEE
T ss_pred             --HcCCEEEEEEchh---hhhHHHHHhhcCCCceecccccCchhHHHHHHHHHHHHh----heEEEEecCCCCcEEEEEE
Confidence              1333467766432   23466777776666654 33 345556555555544444    3444544333456666422


Q ss_pred             cCCCCCcccccCCc--eeEEEcCCccCCcEEEEEEEEEcCC
Q 043643          392 PSGRYNSEVLDEGQ--QAVIDIGNLYADEEKEFMVYLSIPV  430 (634)
Q Consensus       392 ~~~~~~~~~~~~~~--~~~i~lg~l~~~e~r~~lv~l~~p~  430 (634)
                            +.-. ++.  ...-.-..+.-|++..|-|.+.+-.
T Consensus       362 ------s~C~-~~~~~~~~~~C~~V~iG~~V~F~VtVta~~  395 (426)
T PF00362_consen  362 ------SNCP-NGSTVPGTNECSNVKIGDTVTFNVTVTAKE  395 (426)
T ss_dssp             ------EEES-SSEEEECCEEECSE-TT-EEEEEEEEEESS
T ss_pred             ------EEcc-CCcccCcCccccCEecCCEEEEEEEEEEec
Confidence                  1111 111  0112334677888999999998754

The integrin receptors are composed of alpha and beta subunit heterodimers. Each subunit crosses the membrane once, with most of the polypeptide residing in the extracellular space, and has two short cytoplasmic domains. Some members of this family have EGF repeats at the C terminus and also have a vWA domain inserted within the integrin domain at the N terminus. Most integrins recognise relatively short peptide motifs, and in general require an acidic amino acid to be present. Ligand specificity depends upon both the alpha and beta subunits []. There are at least 18 types of alpha and 8 types of beta subunits recognised in humans []. Each alpha subunit tends to associate only with one type of beta subunit, but there are exceptions to this rule []. Each association of alpha and beta subunits has its own binding specificity and signalling properties. Many integrins require activation on the cell surface before they can bind ligands. Integrins frequently intercommunicate, and binding at one integrin receptor activate or inhibit another. The structure of unliganded alphaV beta3 showed the molecule to be folded, with the head bent over towards the C termini of the legs which would normally be inserted into the membrane []. The head comprises a beta propeller domain at the end terminus of the alphaV subunit and an I/A domain inserted into a loop on the top of the hybrid domain in the beta subunit. The I/A domain consists of a Rossman fold with a core of beta parallel sheets surrounded by amphipathic alpha helices. Integrins are important therapeutic targets in conditions such as atherosclerosis, thrombosis, cancer and asthma []. At the N terminus of the beta subunit is a cysteine-containing domain reminiscent of that found in presenillins and semaphorins, which has hence been termed the PSI domain. C-terminal to the PSI domain is an A-domain, which has been predicted to adopt a Rossmann fold similar to that of the alpha subunit, but with additional loops between the second and third beta strands []. The murine gene Pactolus shares significant similarity with the beta subunit [], but lacks either one or both of the inserted loops. The C-terminal portion of the beta subunit extracellular domain contains an internally disulphide-bonded cysteine-rich region, while the intracellular tail contains putative sites of interaction with a variety of intracellular signalling and cytoskeletal proteins, such as focal adhesion kinase and alpha-actinin respectively []. Integrin cytoplasmic domains are normally less than 50 amino acids in length, with the beta-subunit sequences exhibiting greater homology to each other than the alpha-subunit sequences. This is consistent with current evidence that the beta subunit is the principal site for binding of cytoskeletal and signalling molecules, whereas the alpha subunit has a regulatory role. The first 20 amino acids of the beta-subunit cytoplasmic domain are also alpha helical, but the final 25 residues are disordered and, apart from a turn that follows a conserved NPxY motif, appear to lack defined structure, suggesting that this is adopted on effector binding. The two membrane-proximal helices mediate the link between the subunits via a series of hydrophobic and electrostatic contacts. This entry represents the N-terminal portion of the extracellular region of integrin beta subunits.; GO: 0005488 binding, 0007155 cell adhesion, 0007160 cell-matrix adhesion; PDB: 3VI4_B 3VI3_B 2VDQ_B 3IJE_B 1M1X_B 2VDR_B 3NIF_B 3NID_D 1TYE_F 2Q6W_F ....

>PF04285 DUF444: Protein of unknown function (DUF444); InterPro: IPR006698 This entry is represented by Thermus phage phiYS40, Orf56

Probab=97.63  E-value=0.0016  Score=70.13  Aligned_cols=165  Identities=18%  Similarity=0.217  Sum_probs=98.3

Q ss_pred             CCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCCC
Q 043643          165 RAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSN  240 (634)
Q Consensus       165 r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~~  240 (634)
                      ....=+++++|+||||.. +-+++|...-.+...|.   .+..+-.|...+.|+.+-             .+..=....+
T Consensus       244 ~s~AVv~~lmDvSGSM~~~~K~lak~ff~~l~~fL~~~Y~~Ve~vfI~H~t~A~EVd-------------Ee~FF~~~es  310 (421)
T PF04285_consen  244 ESNAVVFCLMDVSGSMGEFKKDLAKRFFFWLYLFLRRKYENVEIVFIRHHTEAKEVD-------------EEEFFHSRES  310 (421)
T ss_pred             cCcEEEEEEEeCCCCCchHHHHHHHHHHHHHHHHHHhccCceEEEEEeecCceEEec-------------HHHhcccCCC
Confidence            344557899999999999 78888887665555554   233444455555555442             1122246778


Q ss_pred             CCCcHHHHHHHHHHHHHhhccCC-CCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCC
Q 043643          241 GGTNIVEGLKKGARVLEERRERS-PVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPT  319 (634)
Q Consensus       241 GgT~i~~aL~~A~~~l~~~~~~~-~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~  319 (634)
                      |||-+..|++.+.++++.+-.+. ..-.++-+|||.+-...               +. ....++.+.+.+        .
T Consensus       311 GGT~vSSA~~l~~~ii~erypp~~wNiY~~~~SDGDN~~~D---------------~~-~~~~ll~~~llp--------~  366 (421)
T PF04285_consen  311 GGTRVSSAYELALEIIEERYPPSDWNIYVFHASDGDNWSSD---------------NE-RCVELLEEELLP--------V  366 (421)
T ss_pred             CCeEehHHHHHHHHHHHhhCChhhceeeeEEcccCccccCC---------------CH-HHHHHHHHHHHH--------h
Confidence            99999999999999998765442 33357889999765321               22 233333323332        1


Q ss_pred             eeEEEEE-cc-CC-CC-hHHHHHHHhhcCC-eEEEcCChhhHHHHHHHHhhc
Q 043643          320 FPVHTFG-FG-LE-HD-SEAMHAIADASGG-TFSFIETLSILQDAFARCIGG  366 (634)
Q Consensus       320 i~I~t~G-~G-~~-~d-~~~L~~iA~~tgG-~~~~i~~~~~l~~~f~~~l~~  366 (634)
                      +..+.++ ++ .. +. ...+..+...... ....|.+.++|-.+|..+++.
T Consensus       367 ~~~f~Y~Ei~~~~~~~~~~~~~~~~~~~~~f~~~~i~~~~di~~~~r~~f~~  418 (421)
T PF04285_consen  367 CNYFGYGEITQPGRHSSWREYEELKESHDNFAMVRIREKEDIYPVFRELFKK  418 (421)
T ss_pred             cCeEEEEEeccCccchHHHHHHHHhhcCCCeEEEEeCCHHHHHHHHHHHhcc
Confidence            1222221 22 11 11 1245555443332 235688899999999888753

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches [].

>TIGR02877 spore_yhbH sporulation protein YhbH

Probab=97.57  E-value=0.0017  Score=68.14  Aligned_cols=102  Identities=21%  Similarity=0.339  Sum_probs=68.3

Q ss_pred             CCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC-CCCeEEEEEeCC--CcEEEEcCcccCHHHHHHHHHHHhcCCC
Q 043643          164 DRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG-SADRLSIVIFSS--VARRIFPLQRMTDSGRENAIRAINTLSS  239 (634)
Q Consensus       164 ~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~-~~drvsIV~Fs~--~a~~~~pl~~~t~~~~~~~~~~I~~l~~  239 (634)
                      +....=+++++|+||||.. +-+++|...-.+..-|. .-.+|-||.-.+  .|+.+-      .       +..=....
T Consensus       199 P~s~AV~fc~MDvSGSM~~~~K~lak~ff~~ly~FL~~~Y~~VeivFI~H~t~AkEVd------E-------eeFF~~~E  265 (371)
T TIGR02877       199 PESNAVVIAMMDTSGSMGQFKKYIARSFFFWMVKFLRTKYENVEICFISHHTEAKEVT------E-------EEFFHKGE  265 (371)
T ss_pred             ccCcEEEEEEEeCCCCCCHHHHHHHHHHHHHHHHHHHhccCceEEEEEeecCeeEEcC------H-------HHhcccCC
Confidence            3344557899999999999 88888886655544444 234555555444  333331      1       12224567


Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCC-CcEEEEEeCCCCCC
Q 043643          240 NGGTNIVEGLKKGARVLEERRERSP-VASIILLSDGQDTH  278 (634)
Q Consensus       240 ~GgT~i~~aL~~A~~~l~~~~~~~~-~~~IILlTDG~~~~  278 (634)
                      .|||-+..|++.+.++++.+-.+.. .-..+-+|||.+..
T Consensus       266 sGGT~vSSA~~l~~eII~~rYpp~~wNIY~f~aSDGDNw~  305 (371)
T TIGR02877       266 SGGTYCSSGYKKALEIIDERYNPARYNIYAFHFSDGDNLT  305 (371)
T ss_pred             CCCeEehHHHHHHHHHHHhhCChhhCeeEEEEcccCCCcc
Confidence            8999999999999999987654432 33467799997653

This protein family, typified by YhbH in Bacillus subtilis, is found in nearly every endospore-forming bacterium and in no other genome (but note that the trusted cutoff score is set high to exclude a single high-scoring sequence from Nitrosococcus oceani ATCC 19707, which is classified in the Gammaproteobacteria). The gene in Bacillus subtilis was shown to be in the regulon of the sporulation sigma factor, sigma-E, and its mutation was shown to create a sporulation defect.

>COG3552 CoxE Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=97.51  E-value=0.00022  Score=73.77  Aligned_cols=111  Identities=29%  Similarity=0.390  Sum_probs=68.2

Q ss_pred             CCCCceEEEEEeCCCCCCccHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcC--CCCC
Q 043643          164 DRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTL--SSNG  241 (634)
Q Consensus       164 ~r~p~dlv~VlD~SgSM~gkl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l--~~~G  241 (634)
                      .+.+..+|+++|+||||.+.-...-..+..+.+   .-.|+-+..|++.-..+.+.-+  ..+.+.+.+.+..-  ...|
T Consensus       215 r~~~~~lvvL~DVSGSm~~ys~~~L~l~hAl~q---~~~R~~~F~F~TRLt~vT~~l~--~rD~~~Al~~~~a~v~dw~g  289 (395)
T COG3552         215 RRRKPPLVVLCDVSGSMSGYSRIFLHLLHALRQ---QRSRVHVFLFGTRLTRVTHMLR--ERDLEDALRRLSAQVKDWDG  289 (395)
T ss_pred             ccCCCCeEEEEecccchhhhHHHHHHHHHHHHh---cccceeEEEeechHHHHHHHhc--cCCHHHHHHHHHhhcccccC
Confidence            446778999999999999822222222222222   2346668999987666554432  34455566555542  3469


Q ss_pred             CCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCC
Q 043643          242 GTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNV  280 (634)
Q Consensus       242 gT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~  280 (634)
                      ||.|+..+..-.+....+. =.....|+|+|||.+..+.
T Consensus       290 gTrig~tl~aF~~~~~~~~-L~~gA~VlilsDg~drd~~  327 (395)
T COG3552         290 GTRIGNTLAAFLRRWHGNV-LSGGAVVLILSDGLDRDDI  327 (395)
T ss_pred             CcchhHHHHHHHccccccc-cCCceEEEEEecccccCCc
Confidence            9999998876444322111 1233569999999997653

>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.49  E-value=1.5e-05  Score=58.67  Aligned_cols=47  Identities=28%  Similarity=0.581  Sum_probs=35.8

Q ss_pred             CCccccccccccCCcceeEecCCCC-ccchhhHHHHHhcCCCcCccccccccc
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSH-SFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H-~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      |+|.||++.-.+     .+.-.||| ..|+.|-.+.++.....||+||++++.
T Consensus         8 dECTICye~pvd-----sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d   55 (62)
T KOG4172|consen    8 DECTICYEHPVD-----SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKD   55 (62)
T ss_pred             cceeeeccCcch-----HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence            689999997544     34567999 469999888555446689999998764

>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]

Probab=97.43  E-value=0.0032  Score=59.01  Aligned_cols=139  Identities=14%  Similarity=0.235  Sum_probs=101.9

Q ss_pred             eEEEEEeCCCCCC-c-----cHHHHHHHHHHHHHhc---CCCCeEEEEEeCCC-cEEEEcCcccCHHHHHHHHHHHhcCC
Q 043643          169 DLVTVLDVSGSMS-S-----KLPLLKRAVHFIIQNL---GSADRLSIVIFSSV-ARRIFPLQRMTDSGRENAIRAINTLS  238 (634)
Q Consensus       169 dlv~VlD~SgSM~-g-----kl~~~K~al~~li~~L---~~~drvsIV~Fs~~-a~~~~pl~~~t~~~~~~~~~~I~~l~  238 (634)
                      ..|+|||.|--|. |     |++.-|+++..+++.-   .|...+||++.... ..++.-+|    ..+..++..+..+.
T Consensus         5 atvvliDNse~s~NgDy~ptRFeAQkd~ve~if~~K~ndnpEntiGli~~~~a~p~vlsT~T----~~~gkilt~lhd~~   80 (243)
T COG5148           5 ATVVLIDNSEASQNGDYLPTRFEAQKDAVESIFSKKFNDNPENTIGLIPLVQAQPNVLSTPT----KQRGKILTFLHDIR   80 (243)
T ss_pred             eEEEEEeChhhhhcCCCCcHHHHHHHHHHHHHHHHHhcCCccceeeeeecccCCcchhccch----hhhhHHHHHhcccc
Confidence            4789999986655 3     8999999999988654   25678999988764 44454455    55778999999999


Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCC
Q 043643          239 SNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQP  318 (634)
Q Consensus       239 ~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~  318 (634)
                      -.|+..+..+|..|.-.|+.|..+....+||.+--..-.                 .++.++..+..        ..+..
T Consensus        81 ~~g~a~~~~~lqiaql~lkhR~nk~q~qriVaFvgSpi~-----------------esedeLirlak--------~lkkn  135 (243)
T COG5148          81 LHGGADIMRCLQIAQLILKHRDNKGQRQRIVAFVGSPIQ-----------------ESEDELIRLAK--------QLKKN  135 (243)
T ss_pred             ccCcchHHHHHHHHHHHHhcccCCccceEEEEEecCccc-----------------ccHHHHHHHHH--------HHHhc
Confidence            999999999999999999988777666677776533222                 13345554433        34568


Q ss_pred             CeeEEEEEccCCCChHHH
Q 043643          319 TFPVHTFGFGLEHDSEAM  336 (634)
Q Consensus       319 ~i~I~t~G~G~~~d~~~L  336 (634)
                      ++-|..|-||...+.+.|
T Consensus       136 nVAidii~fGE~~n~~~l  153 (243)
T COG5148         136 NVAIDIIFFGEAANMAGL  153 (243)
T ss_pred             CeeEEEEehhhhhhhhHH
Confidence            999999999965444333

>PF12034 DUF3520: Domain of unknown function (DUF3520); InterPro: IPR021908 This presumed domain is functionally uncharacterised

Probab=97.42  E-value=0.00023  Score=67.58  Aligned_cols=93  Identities=17%  Similarity=0.219  Sum_probs=71.4

Q ss_pred             cccceeeeeEEEEEecCCCeEEEEecCCCCCcccc--cCCceeEEEcCCccCCcEEEEEEEEEcCCCCCCC---------
Q 043643          367 LLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVL--DEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEG---------  435 (634)
Q Consensus       367 l~s~va~~~~l~v~~~~~~v~i~~v~~~~~~~~~~--~~~~~~~i~lg~l~~~e~r~~lv~l~~p~~~~~~---------  435 (634)
                      .+.++|+|++++|+|++.  .|..++..+|.++..  .|.+...++-|+|-+|++.+.++||. |......         
T Consensus         2 tL~tiAkDVKiQVEFNP~--~V~~YRLIGYENR~L~~EDF~nD~vDAGEIGAGHsVTALYEi~-p~g~~~~~~~~lkY~~   78 (183)
T PF12034_consen    2 TLFTIAKDVKIQVEFNPA--QVKEYRLIGYENRLLADEDFNNDKVDAGEIGAGHSVTALYEIV-PAGSKGEVVDDLKYQD   78 (183)
T ss_pred             ccchhhhhheEEEEECHH--HhhHHhhcchhhcccccccccCccccccccCCCCEEEEEEEEE-ECCCCccccccccccc
Confidence            356899999999999753  567788889999875  46788999999999999999999997 5433210         


Q ss_pred             ---CCCCCccceEEEEEEEecCCCCceeee
Q 043643          436 ---EQRPECTALLDVFCTHKDSASMEIHQV  462 (634)
Q Consensus       436 ---~~~~~~~~l~~v~~~Y~~~~~~~~~~~  462 (634)
                         .......+++.|.++|++|.+.+...+
T Consensus        79 ~~~~~~~~~~el~tvklRYK~P~~~~s~l~  108 (183)
T PF12034_consen   79 NEAAPASNSGELATVKLRYKDPDGDKSRLI  108 (183)
T ss_pred             cccCCCCCCCceEEEEEEeeCCCCCccEEE
Confidence               001123789999999999988765543

This domain is found in bacteria. This domain is about 180 amino acids in length. This domain is found associated with PF00092 from PFAM.

>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.39  E-value=6.6e-05  Score=77.31  Aligned_cols=47  Identities=30%  Similarity=0.641  Sum_probs=32.7

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCC--CcCcccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGN--RICPICRCE   49 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~--~~CP~Cr~~   49 (634)
                      .|.||- ++.+......-...|||.||..|+..|.....  .+||.|+-.
T Consensus         6 ~C~Ic~-d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik   54 (465)
T KOG0827|consen    6 ECHICI-DGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIK   54 (465)
T ss_pred             eeeEec-cCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeec
Confidence            599994 44443222222345999999999999997433  479999833

>PF03850 Tfb4: Transcription factor Tfb4; InterPro: IPR004600 Members of this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair

Probab=97.39  E-value=0.0073  Score=62.02  Aligned_cols=167  Identities=17%  Similarity=0.275  Sum_probs=103.0

Q ss_pred             eEEEEEeCCCCCCc------cHHHHHHHHHHHHHh---cCCCCeEEEEEeCCC-cEEEEcCcc-----------cCH--H
Q 043643          169 DLVTVLDVSGSMSS------KLPLLKRAVHFIIQN---LGSADRLSIVIFSSV-ARRIFPLQR-----------MTD--S  225 (634)
Q Consensus       169 dlv~VlD~SgSM~g------kl~~~K~al~~li~~---L~~~drvsIV~Fs~~-a~~~~pl~~-----------~t~--~  225 (634)
                      =||+|||++.--.+      .|..+-+++..|++.   +....+|+||+.+.. ++.++|-..           ++.  .
T Consensus         3 LLvIILD~nP~~W~~~~~~~~l~~~l~~llvFlNahL~l~~~N~vaVIAs~~~~s~~LYP~~~~~~~~~~~~~~~~~~~~   82 (276)
T PF03850_consen    3 LLVIILDTNPLAWGQLSDQLSLSQFLDSLLVFLNAHLALNHSNQVAVIASHSNSSKFLYPSPSSSESSNSGDVEMNSSDS   82 (276)
T ss_pred             EEEEEEECCHHHHhhccccccHHHHHHHHHHHHHHHHhhCccCCEEEEEEcCCccEEEeCCCccccccCCCccccccccc
Confidence            37999999865544      444444555444442   457889999988765 455555432           000  0


Q ss_pred             H------------HHHHHHHHhcCCCC----CCCcHHHHHHHHHHHHHhhccC------CCCcEEEE-EeCCCCCCCCCC
Q 043643          226 G------------RENAIRAINTLSSN----GGTNIVEGLKKGARVLEERRER------SPVASIIL-LSDGQDTHNVLR  282 (634)
Q Consensus       226 ~------------~~~~~~~I~~l~~~----GgT~i~~aL~~A~~~l~~~~~~------~~~~~IIL-lTDG~~~~g~~~  282 (634)
                      +            .+.+.+.++.....    ..+.+..||..|+-.+.+....      .-..+|++ ++-..+.     
T Consensus        83 ~~y~~f~~v~~~v~~~l~~l~~~~~~~~~~~~~s~LagALS~ALCyINR~~~~~~~~~~~~~~RILv~~s~s~d~-----  157 (276)
T PF03850_consen   83 NKYRQFRNVDETVLEELKKLMSETSESSDSTTSSLLAGALSMALCYINRISRESPSGGTSLKSRILVIVSGSPDS-----  157 (276)
T ss_pred             chhHHHHHHHHHHHHHHHHHHhhcccccccccchhhHHHHHHHHHHHhhhhhcccCCCCCcCccEEEEEecCCCc-----
Confidence            1            12222222222211    1378999999999888765221      22345666 4443332     


Q ss_pred             CcccccccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHH
Q 043643          283 NSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAF  360 (634)
Q Consensus       283 ~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f  360 (634)
                                    ...|..++.- +-    .|.+.+|+|.++-+|. .+..+|++.++.|||.|..+.+++.|-..+
T Consensus       158 --------------~~QYi~~MN~-iF----aAqk~~v~IDv~~L~~-~~s~fLqQa~d~T~G~y~~~~~~~~l~q~L  215 (276)
T PF03850_consen  158 --------------SSQYIPLMNC-IF----AAQKQKVPIDVCKLGG-KDSTFLQQASDITGGIYLKVSKPEGLLQYL  215 (276)
T ss_pred             --------------cHHHHHHHHH-HH----HHhcCCceeEEEEecC-CchHHHHHHHHHhCceeeccCccccHHHHH
Confidence                          1345554442 22    2578999999999997 678899999999999999999977654433

The core-TFIIH basal transcription factor complex has six subunits, this is the p34 subunit.; GO: 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent, 0000439 core TFIIH complex

>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.39  E-value=9.7e-05  Score=76.70  Aligned_cols=48  Identities=33%  Similarity=0.722  Sum_probs=41.3

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHh-cCCCcCcccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQ-HGNRICPICRCE   49 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~~CP~Cr~~   49 (634)
                      +||||++.+.....+.++.+.|||-|-..||.+|+. .-...||.|..+
T Consensus         6 tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k   54 (463)
T KOG1645|consen    6 TCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK   54 (463)
T ss_pred             cCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence            799999999877788899999999999999999994 223469999765

>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins

Probab=97.36  E-value=0.00016  Score=53.82  Aligned_cols=43  Identities=26%  Similarity=0.631  Sum_probs=31.7

Q ss_pred             CccccccccccCCcceeEecCCC-----CccchhhHHHHHhc-CCCcCcccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECS-----HSFHFCCIAANVQH-GNRICPICR   47 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~-----H~Fh~~Ci~~w~~~-~~~~CP~Cr   47 (634)
                      .|-||++.. .  ...++..+|.     |.||..|+..|+.. ++..||+|+
T Consensus         1 ~CrIC~~~~-~--~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEG-D--EGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCC-C--CCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            489999822 2  2335667885     88999999999963 355899995

Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class

>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A

Probab=97.32  E-value=5.6e-05  Score=60.84  Aligned_cols=50  Identities=20%  Similarity=0.562  Sum_probs=23.2

Q ss_pred             CccccccccccCCcc-eeEe--cCCCCccchhhHHHHHhc---CC-------CcCcccccccc
Q 043643            2 TCPICLGSLRRGQGV-AIFT--AECSHSFHFCCIAANVQH---GN-------RICPICRCEWK   51 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~-~~~~--~~C~H~Fh~~Ci~~w~~~---~~-------~~CP~Cr~~~~   51 (634)
                      .|+||+..+...+.. ..+.  ..|++.||..|+..|+..   .+       ..||.|++++.
T Consensus         4 ~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    4 ECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            699999987632222 2233  479999999999999851   11       15999998753

>PF11443 DUF2828: Domain of unknown function (DUF2828); InterPro: IPR024553 This uncharacterised domain is found in eukaryotic, bacterial and viral proteins

Probab=97.28  E-value=0.002  Score=71.42  Aligned_cols=106  Identities=18%  Similarity=0.177  Sum_probs=75.0

Q ss_pred             ceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCC-CCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCCCCCCcH
Q 043643          168 IDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGS-ADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNGGTNI  245 (634)
Q Consensus       168 ~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~-~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~~GgT~i  245 (634)
                      -+.+.|.|+||||.| .++.+ -++..++..+.. .=+=.+|||+++++.+. +.   ..+..+-.+.+.+...+++||+
T Consensus       341 ~n~iav~DvSGSM~~~pm~va-iaLgll~ae~~~~pf~~~~ITFs~~P~~~~-i~---g~~l~ekv~~~~~~~wg~nTn~  415 (534)
T PF11443_consen  341 ENCIAVCDVSGSMSGPPMDVA-IALGLLIAELNKGPFKGRFITFSENPQLHK-IK---GDTLREKVRFIRRMDWGMNTNF  415 (534)
T ss_pred             cceEEEEecCCccCccHHHHH-HHHHHHHHHhcccccCCeEEeecCCceEEE-ec---CCCHHHHHHHHHhCCcccCCcH
Confidence            588999999999999 66544 456666666653 22346899999987653 22   2345555667778888999999


Q ss_pred             HHHHHHHHHHHHhhcc--CCCCcEEEEEeCCCCCC
Q 043643          246 VEGLKKGARVLEERRE--RSPVASIILLSDGQDTH  278 (634)
Q Consensus       246 ~~aL~~A~~~l~~~~~--~~~~~~IILlTDG~~~~  278 (634)
                      ...+..-+.......-  ..-++.|+++||=+-+.
T Consensus       416 ~aVFdlIL~~Av~~~l~~e~M~k~lfV~SDMeFD~  450 (534)
T PF11443_consen  416 QAVFDLILETAVKNKLKQEDMPKRLFVFSDMEFDQ  450 (534)
T ss_pred             HHHHHHHHHHHHHcCCChHHCCceEEEEecccccc
Confidence            9999887777654332  23467899999876543

>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]

Probab=97.26  E-value=0.028  Score=54.30  Aligned_cols=172  Identities=16%  Similarity=0.278  Sum_probs=102.1

Q ss_pred             CCceEEEEEeCCCCCC------ccHHHHHHHHHHHHH-hc--CCCCeEEEEE-eCCCcEEEEcCc---------------
Q 043643          166 APIDLVTVLDVSGSMS------SKLPLLKRAVHFIIQ-NL--GSADRLSIVI-FSSVARRIFPLQ---------------  220 (634)
Q Consensus       166 ~p~dlv~VlD~SgSM~------gkl~~~K~al~~li~-~L--~~~drvsIV~-Fs~~a~~~~pl~---------------  220 (634)
                      .|.=|+++||.-.--.      |....+-.++.-+++ .|  ..+.||++|+ |+...+.++|-.               
T Consensus        19 spslL~viid~~p~~W~~~~ek~~~~kvl~di~VFLNAhlaf~~~NrVaVva~~s~~~~yLypss~s~~k~se~e~tr~s   98 (296)
T COG5242          19 SPSLLFVIIDLEPENWELTTEKGSRDKVLNDIVVFLNAHLAFSRNNRVAVVAGYSQGKTYLYPSSESALKASESENTRNS   98 (296)
T ss_pred             CCceEEEEEecChhhcccccccccHHHHHHHHHHHHHHHHhhccCCeEEEEEeccCceEEeccCcchhhhhhcccCccch
Confidence            3666777777653222      234555555544443 33  4678998876 455566666522               


Q ss_pred             -------ccCHHHHHHHHHHHhcC-CCCCCCcHHHHHHHHHHHHHhhccCCCC-cEEEEEeC-CCCCCCCCCCccccccc
Q 043643          221 -------RMTDSGRENAIRAINTL-SSNGGTNIVEGLKKGARVLEERRERSPV-ASIILLSD-GQDTHNVLRNSYTQDEA  290 (634)
Q Consensus       221 -------~~t~~~~~~~~~~I~~l-~~~GgT~i~~aL~~A~~~l~~~~~~~~~-~~IILlTD-G~~~~g~~~~~~~~~~~  290 (634)
                             .+++.....+.+.++.- +...-+.++.||..|+.....+..++.. ++|+++|= |.+..            
T Consensus        99 d~yrrfr~vde~~i~eiyrl~e~~~k~sqr~~v~gams~glay~n~~~~e~slkSriliftlsG~d~~------------  166 (296)
T COG5242          99 DMYRRFRNVDETDITEIYRLIEHPHKNSQRYDVGGAMSLGLAYCNHRDEETSLKSRILIFTLSGRDRK------------  166 (296)
T ss_pred             hhhhhhcccchHHHHHHHHHHhCcccccceeehhhhhhhhHHHHhhhcccccccceEEEEEecCchhh------------
Confidence                   11111222233333221 1223588999999999998877655443 45777775 53321            


Q ss_pred             CCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHHHHH
Q 043643          291 SSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARC  363 (634)
Q Consensus       291 ~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~  363 (634)
                             ..|...+. .|-    .+.+.+++|..|.++.+  ..+|.+.++.|||.|..++|++.+-.-+...
T Consensus       167 -------~qYip~mn-CiF----~Aqk~~ipI~v~~i~g~--s~fl~Q~~daTgG~Yl~ve~~eGllqyL~~~  225 (296)
T COG5242         167 -------DQYIPYMN-CIF----AAQKFGIPISVFSIFGN--SKFLLQCCDATGGDYLTVEDTEGLLQYLLSL  225 (296)
T ss_pred             -------hhhchhhh-hee----ehhhcCCceEEEEecCc--cHHHHHHhhccCCeeEeecCchhHHHHHHHH
Confidence                   12222211 122    24578999999998754  6799999999999999999988765544443

>KOG0825 consensus PHD Zn-finger protein [General function prediction only]

Probab=97.21  E-value=8.5e-05  Score=82.35  Aligned_cols=52  Identities=25%  Similarity=0.477  Sum_probs=40.5

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCCCC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQ   56 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p~~   56 (634)
                      .|++|+..+.+  ........|+|.||.+||..|.+. -.+||+||..|..+-..
T Consensus       125 ~CP~Ci~s~~D--qL~~~~k~c~H~FC~~Ci~sWsR~-aqTCPiDR~EF~~v~V~  176 (1134)
T KOG0825|consen  125 QCPNCLKSCND--QLEESEKHTAHYFCEECVGSWSRC-AQTCPVDRGEFGEVKVL  176 (1134)
T ss_pred             hhhHHHHHHHH--HhhccccccccccHHHHhhhhhhh-cccCchhhhhhheeeee
Confidence            48888888866  233344679999999999999986 44899999998765544

>TIGR00578 ku70 ATP-dependent DNA helicase ii, 70 kDa subunit (ku70)

Probab=97.19  E-value=0.0067  Score=69.14  Aligned_cols=111  Identities=14%  Similarity=0.190  Sum_probs=74.8

Q ss_pred             eEEEEEeCCCCCCc---------cHHHHHHHHHHHHHhc---CCCCeEEEEEeCCCc----------EEEEcCcccCHHH
Q 043643          169 DLVTVLDVSGSMSS---------KLPLLKRAVHFIIQNL---GSADRLSIVIFSSVA----------RRIFPLQRMTDSG  226 (634)
Q Consensus       169 dlv~VlD~SgSM~g---------kl~~~K~al~~li~~L---~~~drvsIV~Fs~~a----------~~~~pl~~~t~~~  226 (634)
                      -|+|+||+|.||-.         .+..+..++..++.+.   .++|-||||.|++..          .++.+|...+...
T Consensus        12 ailflIDvs~sM~~~~~~~~~~s~~~~al~~i~~l~q~kIis~~~D~vGivlfgT~~t~n~~~~~~i~v~~~L~~p~a~~   91 (584)
T TIGR00578        12 SLIFLVDASKAMFEESQGEDELTPFDMSIQCIQSVYTSKIISSDKDLLAVVFYGTEKDKNSVNFKNIYVLQELDNPGAKR   91 (584)
T ss_pred             EEEEEEECCHHHcCCCcCcCcCChHHHHHHHHHHHHHhcCCCCCCCeEEEEEEeccCCCCccCCCceEEEeeCCCCCHHH
Confidence            48999999999983         4677777777777654   489999999999853          2355666544443


Q ss_pred             HHHHHHHHhc-----C--CCCCC--CcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCC
Q 043643          227 RENAIRAINT-----L--SSNGG--TNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHN  279 (634)
Q Consensus       227 ~~~~~~~I~~-----l--~~~Gg--T~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g  279 (634)
                      ...+...+..     +  ..+.+  ..+.++|..+.++|.....+-..++|+|+||-..-.+
T Consensus        92 i~~L~~l~~~~~~~~~~~~~~~~~~~~l~daL~~~~~~f~~~~~k~~~kRI~lfTd~D~P~~  153 (584)
T TIGR00578        92 ILELDQFKGDQGPKKFRDTYGHGSDYSLSEVLWVCANLFSDVQFRMSHKRIMLFTNEDNPHG  153 (584)
T ss_pred             HHHHHHHhhccCccchhhccCCCCCCcHHHHHHHHHHHHHhcchhhcCcEEEEECCCCCCCC
Confidence            3333333322     0  11111  3789999999999986433334578999999866543

Proteins in this family are involved in non-homologous end joining, a process used for the repair of double stranded DNA breaks. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Cutoff does not detect the putative ku70 homologs in yeast.

>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.19  E-value=0.00017  Score=75.43  Aligned_cols=51  Identities=29%  Similarity=0.627  Sum_probs=36.8

Q ss_pred             CCccccccccccCC---cceeEecCCCCccchhhHHHHHhcC------CCcCcccccccc
Q 043643            1 KTCPICLGSLRRGQ---GVAIFTAECSHSFHFCCIAANVQHG------NRICPICRCEWK   51 (634)
Q Consensus         1 ~~C~ICl~~~~~~~---~~~~~~~~C~H~Fh~~Ci~~w~~~~------~~~CP~Cr~~~~   51 (634)
                      +.|.||++.+....   ..--+..+|.|.||..||..|....      .+.||.||....
T Consensus       162 k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~  221 (344)
T KOG1039|consen  162 KECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS  221 (344)
T ss_pred             ccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence            47999999886521   0012236799999999999999422      357999998643

>COG4547 CobT Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]

Probab=97.16  E-value=0.0024  Score=67.58  Aligned_cols=174  Identities=18%  Similarity=0.176  Sum_probs=95.0

Q ss_pred             EEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC-CCCeEEEEEeCCCcEEEEc--------CcccCHHHHHHHHHHHhc---
Q 043643          170 LVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG-SADRLSIVIFSSVARRIFP--------LQRMTDSGRENAIRAINT---  236 (634)
Q Consensus       170 lv~VlD~SgSM~g-kl~~~K~al~~li~~L~-~~drvsIV~Fs~~a~~~~p--------l~~~t~~~~~~~~~~I~~---  236 (634)
                      |.+|||.||||.| +|..+-.....+...|. .+..+-|..|.+.+..=-+        -.+..+.-...++..|..   
T Consensus       416 VtlviDnSGSMrGRpItvAatcAdilArtLeRcgVk~eIlGFTT~awkGg~sre~wlk~Gkp~~pgrlndlrhiiyksAd  495 (620)
T COG4547         416 VTLVIDNSGSMRGRPITVAATCADILARTLERCGVKVEILGFTTKAWKGGQSRETWLKRGKPAFPGRLNDLRHIIYKSAD  495 (620)
T ss_pred             heeeeccCCCcCCcceehhHHHHHHHHHHHHHcCCceEEeeeeeccccCCccHHHHHhcCCCCCchhhhhHHHHHHhccC
Confidence            5689999999999 88888777777777775 5778888888775411000        000000001122222221   


Q ss_pred             -----------CCC-CC--CCcH-HHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHH
Q 043643          237 -----------LSS-NG--GTNI-VEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYL  301 (634)
Q Consensus       237 -----------l~~-~G--gT~i-~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~  301 (634)
                                 +.. .|  --|| +++|..|...|-.+....  +.++++|||.|-...+-.   .+   +++.-...+.
T Consensus       496 aPwrRARrnlGlmmreglLkeNiDGEal~wah~rl~gRpEqr--kIlmmiSDGAPvddstls---vn---pGnylerHLR  567 (620)
T COG4547         496 APWRRARRNLGLMMREGLLKENIDGEALMWAHQRLIGRPEQR--KILMMISDGAPVDDSTLS---VN---PGNYLERHLR  567 (620)
T ss_pred             CHHHHHHhhcchhhhcchhhccCChHHHHHHHHHHhcChhhc--eEEEEecCCCcccccccc---cC---CchHHHHHHH
Confidence                       111 11  1233 588888888887765443  458899999885431110   00   1111223333


Q ss_pred             hhchhhhhccccccCCCCeeEEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHHHHHhhcc
Q 043643          302 NLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGL  367 (634)
Q Consensus       302 ~lv~~~i~~~~~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~l~~l  367 (634)
                      .++. .|.      ....|.+.+||+|.+.-...-+        . +.|-|.++|..++...+..|
T Consensus       568 aVie-eIE------trSpveLlAIGighDvtRyYrr--------a-vtiVdaeeL~gamteqLa~l  617 (620)
T COG4547         568 AVIE-EIE------TRSPVELLAIGIGHDVTRYYRR--------A-VTIVDAEELAGAMTEQLAAL  617 (620)
T ss_pred             HHHH-HHh------cCCchhheeeecccccchhhhh--------h-eeEecHHHhchHHHHHHHHH
Confidence            3332 333      3577889999999765422222        1 23445777666655554433

>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.00  E-value=0.0003  Score=75.16  Aligned_cols=49  Identities=29%  Similarity=0.715  Sum_probs=41.5

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCCCC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQ   56 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p~~   56 (634)
                      .|.||...+..     +++++|||.||..||.+-+.+ ...||.||..+.+.+..
T Consensus        86 ~c~vc~~~l~~-----pv~tpcghs~c~~Cl~r~ld~-~~~cp~Cr~~l~e~~~~  134 (398)
T KOG4159|consen   86 ECCVCSRALYP-----PVVTPCGHSFCLECLDRSLDQ-ETECPLCRDELVELPAL  134 (398)
T ss_pred             hhhhhHhhcCC-----CccccccccccHHHHHHHhcc-CCCCcccccccccchHH
Confidence            49999999988     888899999999999986654 66799999998875544

>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.83  E-value=0.0005  Score=67.97  Aligned_cols=35  Identities=23%  Similarity=0.598  Sum_probs=28.5

Q ss_pred             eeEecCCCCccchhhHHH-HHhcCCCcCcccccccc
Q 043643           17 AIFTAECSHSFHFCCIAA-NVQHGNRICPICRCEWK   51 (634)
Q Consensus        17 ~~~~~~C~H~Fh~~Ci~~-w~~~~~~~CP~Cr~~~~   51 (634)
                      .+..++|||.||..||.. |-......||+||++..
T Consensus       227 ~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~  262 (271)
T COG5574         227 VPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVY  262 (271)
T ss_pred             CcccccccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence            456688999999999999 88765556999999743

>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]

Probab=96.74  E-value=0.00047  Score=64.71  Aligned_cols=42  Identities=29%  Similarity=0.597  Sum_probs=36.1

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCE   49 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~   49 (634)
                      .|.||-.++..     |+...|||.||..|...-.+. ...|-+|.+.
T Consensus       198 ~C~iCKkdy~s-----pvvt~CGH~FC~~Cai~~y~k-g~~C~~Cgk~  239 (259)
T COG5152         198 LCGICKKDYES-----PVVTECGHSFCSLCAIRKYQK-GDECGVCGKA  239 (259)
T ss_pred             eehhchhhccc-----hhhhhcchhHHHHHHHHHhcc-CCcceecchh
Confidence            49999999988     888999999999999886665 4479999765

>KOG1327 consensus Copine [Signal transduction mechanisms]

Probab=96.67  E-value=0.034  Score=61.08  Aligned_cols=151  Identities=16%  Similarity=0.220  Sum_probs=102.0

Q ss_pred             CCceEEEEEeCCCCCC-------------c---cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCc------EEEE--cCcc
Q 043643          166 APIDLVTVLDVSGSMS-------------S---KLPLLKRAVHFIIQNLGSADRLSIVIFSSVA------RRIF--PLQR  221 (634)
Q Consensus       166 ~p~dlv~VlD~SgSM~-------------g---kl~~~K~al~~li~~L~~~drvsIV~Fs~~a------~~~~--pl~~  221 (634)
                      .-+++.+-||.+.|-.             +   ..+.+-.++..+++...++.++.-..|+...      .-.+  .+.+
T Consensus       284 ~~lnf~vgIDfTaSNg~p~~~sSLHyi~p~~~N~Y~~Ai~~vG~~lq~ydsdk~fpa~GFGakip~~~~vs~~f~ln~~~  363 (529)
T KOG1327|consen  284 EQLNFTVGIDFTASNGDPRNPSSLHYIDPHQPNPYEQAIRSVGETLQDYDSDKLFPAFGFGAKIPPDGQVSHEFVLNFNP  363 (529)
T ss_pred             ceeeeEEEEEEeccCCCCCCCCcceecCCCCCCHHHHHHHHHhhhhcccCCCCccccccccccCCCCcccccceeecCCC
Confidence            3466777777777632             1   5667777778888888888899988888772      2222  2332


Q ss_pred             cCH--HH----HHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHhhcc-CCCCcEEEEEeCCCCCCCCCCCcccccccCCCC
Q 043643          222 MTD--SG----RENAIRAINTLSSNGGTNIVEGLKKGARVLEERRE-RSPVASIILLSDGQDTHNVLRNSYTQDEASSIP  294 (634)
Q Consensus       222 ~t~--~~----~~~~~~~I~~l~~~GgT~i~~aL~~A~~~l~~~~~-~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~  294 (634)
                      .++  .+    .....+.+-.++..|.||+..-|..+++...+... ....-.++++|||..+.                
T Consensus       364 ~~~~c~Gi~gVl~aY~~~lp~v~l~GPTnFaPII~~va~~a~~~~~~~~qY~VLlIitDG~vTd----------------  427 (529)
T KOG1327|consen  364 EDPECRGIEGVLEAYRKALPNVQLYGPTNFSPIINHVARIAQQSGNTAGQYHVLLIITDGVVTD----------------  427 (529)
T ss_pred             CCCccccHHHHHHHHHhhcccccccCCCccHHHHHHHHHHHHHhccCCcceEEEEEEeCCcccc----------------
Confidence            222  12    34555666678889999999999999999976642 22334578899999773                


Q ss_pred             CCHHHHHhhchhhhhccccccCCCCeeEEEEEccCCCChHHHHHHHhhc
Q 043643          295 SNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADAS  343 (634)
Q Consensus       295 ~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~t  343 (634)
                       .......++         .|....+.|-.+|+| +.+.+.|+.+-...
T Consensus       428 -m~~T~~AIV---------~AS~lPlSIIiVGVG-d~df~~M~~lD~d~  465 (529)
T KOG1327|consen  428 -MKETRDAIV---------SASDLPLSIIIVGVG-DADFDMMRELDGDD  465 (529)
T ss_pred             -HHHHHHHHH---------hhccCCeEEEEEEeC-CCCHHHHHHhhcCC
Confidence             122233322         256788999999999 67888888886543

>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]

Probab=96.64  E-value=0.0005  Score=68.67  Aligned_cols=50  Identities=34%  Similarity=0.755  Sum_probs=38.2

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHHh------------------c----CCCcCccccccccc
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQ------------------H----GNRICPICRCEWKD   52 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~------------------~----~~~~CP~Cr~~~~~   52 (634)
                      ..|.|||--|.+  +.+.....|-|.||+.|+.+++.                  +    -...||+||.+++.
T Consensus       116 gqCvICLygfa~--~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~  187 (368)
T KOG4445|consen  116 GQCVICLYGFAS--SPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI  187 (368)
T ss_pred             CceEEEEEeecC--CCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence            369999999977  45466689999999999988763                  1    02369999988653

>COG5047 SEC23 Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking and secretion]

Probab=96.64  E-value=0.29  Score=53.79  Aligned_cols=288  Identities=11%  Similarity=0.154  Sum_probs=155.4

Q ss_pred             CCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEE------------c-CcccC--------
Q 043643          166 APIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIF------------P-LQRMT--------  223 (634)
Q Consensus       166 ~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~------------p-l~~~t--------  223 (634)
                      -|.-..||+|+-.  .+ .+..+|+++...+..|+++.-+|+|+|++...+.-            . -..++        
T Consensus       121 ~ppvf~fvvD~~~--D~e~l~~LkdslivslsllppeaLvglItygt~i~v~el~ae~~~r~~VF~g~~eyt~~~L~~ll  198 (755)
T COG5047         121 LPPVFFFVVDACC--DEEELTALKDSLIVSLSLLPPEALVGLITYGTSIQVHELNAENHRRSYVFSGNKEYTKENLQELL  198 (755)
T ss_pred             CCceEEEEEEeec--CHHHHHHHHHHHHHHHhcCCccceeeEEEecceeEEEeccccccCcceeecchHHHHHHHHHHHh
Confidence            4566889999875  55 99999999999999999999999999998764421            0 00000        


Q ss_pred             ------------------------------HHHHHHHHHHHhcCCCC------C---CCcHHHHHHHHHHHHHhhccCCC
Q 043643          224 ------------------------------DSGRENAIRAINTLSSN------G---GTNIVEGLKKGARVLEERRERSP  264 (634)
Q Consensus       224 ------------------------------~~~~~~~~~~I~~l~~~------G---gT~i~~aL~~A~~~l~~~~~~~~  264 (634)
                                                    ..-...+.+.|.+|.++      |   --..+.||..|..+|+.. .++.
T Consensus       199 ~~~~~~~~~~~es~is~~~~~~~~rFl~p~q~ce~~L~n~le~L~pd~~~v~~~~Rp~RCTGsAl~ias~Ll~~~-~p~~  277 (755)
T COG5047         199 ALSKPTKSGGFESKISGIGQFASSRFLLPTQQCEFKLLNILEQLQPDPWPVPAGKRPLRCTGSALNIASSLLEQC-FPNA  277 (755)
T ss_pred             cccCCCCcchhhhhcccccccchhhhhccHHHHHHHHHHHHHHhCCCCccCCCCCCCccccchhHHHHHHHHHhh-ccCc
Confidence                                          01112344555555442      2   234567777777777654 3566


Q ss_pred             CcEEEEEeCCCCCCCCCCC---cccccccCCCC-C-CHHHHHhhchhhhhccccccCCCCeeEEEEEcc--CCCChHHHH
Q 043643          265 VASIILLSDGQDTHNVLRN---SYTQDEASSIP-S-NELAYLNLLPSSICLSKREAGQPTFPVHTFGFG--LEHDSEAMH  337 (634)
Q Consensus       265 ~~~IILlTDG~~~~g~~~~---~~~~~~~~~~~-~-~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G--~~~d~~~L~  337 (634)
                      ..+|+|++.|.-+.|.+.-   .....-+.+.. . +...+..-..+.+...++.....|-.+..|. |  ....--.|+
T Consensus       278 ~~~i~lF~~GPcTvGpG~Vvs~elkEpmRshH~ie~d~aqh~kka~KFY~~laeR~a~~gh~~Difa-gcldqIGI~eM~  356 (755)
T COG5047         278 GCHIVLFAGGPCTVGPGTVVSTELKEPMRSHHDIESDSAQHSKKATKFYKGLAERVANQGHALDIFA-GCLDQIGIMEME  356 (755)
T ss_pred             ceeEEEEcCCCccccCceeeehhhcccccccccccccchhhccchHHHHHHHHHHHhccchhHHHHH-HHHHhhhhhcch
Confidence            6789999999999876542   00000000000 0 0000000000011111111122222222111 1  111223688


Q ss_pred             HHHhhcCCeEEEcCChhhHHHHHHHHhhccccc-------eeeeeEEEEEecCCCeEEEEecCCC---------CCcccc
Q 043643          338 AIADASGGTFSFIETLSILQDAFARCIGGLLSV-------VSQDVKLTIRSKSAGVRIGSIPSGR---------YNSEVL  401 (634)
Q Consensus       338 ~iA~~tgG~~~~i~~~~~l~~~f~~~l~~l~s~-------va~~~~l~v~~~~~~v~i~~v~~~~---------~~~~~~  401 (634)
                      .++..+||...-.+++..  +.|.+-...++..       .+-+..+.|.. +++++|..+-..+         ....-.
T Consensus       357 ~L~~sTgg~lvlsdsF~t--~ifkqSfqrif~~d~~g~l~~gfNa~m~V~T-sKnl~~~g~ig~a~~~~k~~~ni~~~ei  433 (755)
T COG5047         357 PLTTSTGGALVLSDSFTT--SIFKQSFQRIFNRDSEGYLKMGFNANMEVKT-SKNLKIKGLIGHAVSVKKKANNISDSEI  433 (755)
T ss_pred             hhccCCcceEEEeccccH--HHHHHHHHHHhCcCcccchhhhhccceeEee-ccCceeeeeecceeeecccccccccccc
Confidence            899999999887777653  3344444444332       55667777774 5676665542111         000011


Q ss_pred             cCCceeEEEcCCccCCcEEEEEEEEEcCCCCCCCCCCCCccceEEEEEEEecCCCCceeee
Q 043643          402 DEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRPECTALLDVFCTHKDSASMEIHQV  462 (634)
Q Consensus       402 ~~~~~~~i~lg~l~~~e~r~~lv~l~~p~~~~~~~~~~~~~~l~~v~~~Y~~~~~~~~~~~  462 (634)
                      +=|...++.++.|..-..-.+.|++.........+..  ....+|..-+|.+..+.-.++|
T Consensus       434 gi~~t~swkm~slsPk~nyal~fei~~~~~~~~~~~~--~~a~iQfiT~yQhss~t~riRV  492 (755)
T COG5047         434 GIGATNSWKMASLSPKSNYALYFEIALGAASGSAQRP--AEAYIQFITTYQHSSGTYRIRV  492 (755)
T ss_pred             cccccccccccccCCCcceEEEEEeccccCCCccCCc--ccchhhhhhhhhccCCcEEEEE
Confidence            1234557888889888888888888754433221111  1455666667877644333444

>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C

Probab=96.62  E-value=0.0011  Score=51.00  Aligned_cols=39  Identities=31%  Similarity=0.733  Sum_probs=27.6

Q ss_pred             CccccccccccCCcceeEe-cCCCCccchhhHHHHHh-cCCCcCcc
Q 043643            2 TCPICLGSLRRGQGVAIFT-AECSHSFHFCCIAANVQ-HGNRICPI   45 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~-~~C~H~Fh~~Ci~~w~~-~~~~~CP~   45 (634)
                      .|||.+..|.+     |+. ..|+|.|-...|..|++ .+...||+
T Consensus        13 ~CPiT~~~~~~-----PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   13 KCPITLQPFED-----PVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             B-TTTSSB-SS-----EEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             CCCCcCChhhC-----CcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            69999999987     665 68999999999999994 33457998

>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]

Probab=96.55  E-value=0.00075  Score=72.07  Aligned_cols=44  Identities=27%  Similarity=0.718  Sum_probs=36.6

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHh----cCCCcCccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQ----HGNRICPICRCEW   50 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~----~~~~~CP~Cr~~~   50 (634)
                      .|.+|.+.-.+     .+...|.|.||+-||..++.    ..+.+||.|...+
T Consensus       538 ~C~lc~d~aed-----~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L  585 (791)
T KOG1002|consen  538 ECGLCHDPAED-----YIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGL  585 (791)
T ss_pred             eecccCChhhh-----hHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence            59999999877     77789999999999988773    4467899997653

>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B

Probab=96.52  E-value=0.0018  Score=47.36  Aligned_cols=47  Identities=23%  Similarity=0.626  Sum_probs=24.6

Q ss_pred             ccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccc
Q 043643            3 CPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEW   50 (634)
Q Consensus         3 C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~   50 (634)
                      ||+|.+.+.. .+.....-+|++..|+.|...-.......||-||.++
T Consensus         1 cp~C~e~~d~-~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDE-TDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--C-CCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCccccccc-CCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            8999999943 3444555689999999998887765566899999875

>PF11265 Med25_VWA: Mediator complex subunit 25 von Willebrand factor type A; InterPro: IPR021419 The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells

Probab=96.51  E-value=0.043  Score=54.23  Aligned_cols=111  Identities=14%  Similarity=0.253  Sum_probs=76.3

Q ss_pred             CCCCCceEEEEEeCCCCCCccHHHHHH-HHHHHHHhcC-------------CCCeEEEEEeCCCcE------EEEcCccc
Q 043643          163 ADRAPIDLVTVLDVSGSMSSKLPLLKR-AVHFIIQNLG-------------SADRLSIVIFSSVAR------RIFPLQRM  222 (634)
Q Consensus       163 ~~r~p~dlv~VlD~SgSM~gkl~~~K~-al~~li~~L~-------------~~drvsIV~Fs~~a~------~~~pl~~~  222 (634)
                      .+..-.|||||||.+..|...+..+|. -+.-+++.+.             ....++||+|.+..-      ..++++  
T Consensus         9 ~~~~~~~vVfvvEgTAalgpy~~~Lkt~Yl~P~le~f~~g~~~e~~~~~~~~~t~y~LVvf~t~d~~~~~~v~~~g~T--   86 (226)
T PF11265_consen    9 DQPPQAQVVFVVEGTAALGPYWNTLKTNYLDPILEYFNGGPIAERDFGGDYSNTEYGLVVFNTADCYPEPIVQRSGPT--   86 (226)
T ss_pred             ccCccceEEEEEecchhhhhhHHHHHHHHHHHHHHHhcCCCcccccccccCCCceEEEEEEeccCCCcccceeccCCc--
Confidence            345668999999999999875555554 3344444443             235789999987631      223444  


Q ss_pred             CHHHHHHHHHHHhcCCCCC-----CCcHHHHHHHHHHHHHhhc----c-C--CCCcEEEEEeCCCCC
Q 043643          223 TDSGRENAIRAINTLSSNG-----GTNIVEGLKKGARVLEERR----E-R--SPVASIILLSDGQDT  277 (634)
Q Consensus       223 t~~~~~~~~~~I~~l~~~G-----gT~i~~aL~~A~~~l~~~~----~-~--~~~~~IILlTDG~~~  277 (634)
                        .+...+.++|+++.-.|     .+++.+||..|++.+.+..    . .  ...++.||++--.|.
T Consensus        87 --~~~~~fl~~L~~I~f~GGG~e~~a~iaEGLa~AL~~fd~~~~~r~~~~~~~~~khcILI~nSpP~  151 (226)
T PF11265_consen   87 --SSPQKFLQWLDAIQFSGGGFESCAAIAEGLAEALQCFDDFKQMRQQQQQTDVQKHCILICNSPPY  151 (226)
T ss_pred             --CCHHHHHHHHHccCcCCCCcccchhHHHHHHHHHHHhcchhhhccccCcccccceEEEEeCCCCc
Confidence              45788999999986544     2469999999999997422    1 1  134789999988764

Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain which is this one, an SD2 domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This VWA or von Willebrand factor type A domain when bound to RAR and the histone acetyltransferase CBP is responsible for recruiting Med1 to the rest of the Mediator complex [].

>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]

Probab=96.48  E-value=0.00098  Score=68.93  Aligned_cols=47  Identities=32%  Similarity=0.739  Sum_probs=38.7

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHh-cCCCcCcccccccccC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQ-HGNRICPICRCEWKDV   53 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~~CP~Cr~~~~~~   53 (634)
                      -|-||-+.-++     +..-+|||-.|..|+..|.. .+..+||.||..++..
T Consensus       371 LCKICaendKd-----vkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt  418 (563)
T KOG1785|consen  371 LCKICAENDKD-----VKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT  418 (563)
T ss_pred             HHHHhhccCCC-----cccccccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence            48999987666     66678999999999999985 3366899999987654

>PF07002 Copine: Copine; InterPro: IPR010734 This represents a conserved region approximately 180 residues long within eukaryotic copines

Probab=96.45  E-value=0.03  Score=51.96  Aligned_cols=120  Identities=22%  Similarity=0.275  Sum_probs=83.3

Q ss_pred             cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCc------EEEEcCcccC--------HHHHHHHHHHHhcCCCCCCCcHHHH
Q 043643          183 KLPLLKRAVHFIIQNLGSADRLSIVIFSSVA------RRIFPLQRMT--------DSGRENAIRAINTLSSNGGTNIVEG  248 (634)
Q Consensus       183 kl~~~K~al~~li~~L~~~drvsIV~Fs~~a------~~~~pl~~~t--------~~~~~~~~~~I~~l~~~GgT~i~~a  248 (634)
                      ..+.+-.++..++.....+.++-+..|+...      ...|||....        +.-.+..++.+.++...|-|++..-
T Consensus        12 ~Y~~ai~~vg~il~~Yd~dk~~p~~GFGa~~~~~~~vsh~F~ln~~~~~p~~~Gi~gvl~~Y~~~~~~v~l~GPT~fapi   91 (146)
T PF07002_consen   12 PYQQAIRAVGEILQDYDSDKMIPAYGFGAKIPPDYSVSHCFPLNGNPQNPECQGIDGVLEAYRKALPKVQLSGPTNFAPI   91 (146)
T ss_pred             HHHHHHHHHHHHHHhhccCCccceeccCCcCCCCcccccceeeecCCCCCcccCHHHHHHHHHHHhhheEECCCccHHHH
Confidence            4566777788888888888899999998753      2236665211        1123556677778889999999999


Q ss_pred             HHHHHHHHHh-hccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEEc
Q 043643          249 LKKGARVLEE-RRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGF  327 (634)
Q Consensus       249 L~~A~~~l~~-~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~  327 (634)
                      |+.|.+..+. .........+++||||.-+.                 -......++.         +....++|-.+|+
T Consensus        92 I~~a~~~a~~~~~~~~~Y~iLlIlTDG~i~D-----------------~~~T~~aIv~---------AS~~PlSIIiVGV  145 (146)
T PF07002_consen   92 INHAAKIAKQSNQNGQQYFILLILTDGQITD-----------------MEETIDAIVE---------ASKLPLSIIIVGV  145 (146)
T ss_pred             HHHHHHHHhhhccCCceEEEEEEeccccccc-----------------HHHHHHHHHH---------HccCCeEEEEEEe
Confidence            9999999875 22234445688899998662                 1223333322         4678899999998


Q ss_pred             c
Q 043643          328 G  328 (634)
Q Consensus       328 G  328 (634)
                      |
T Consensus       146 G  146 (146)
T PF07002_consen  146 G  146 (146)
T ss_pred             C
Confidence            7

Copines are Ca2+-dependent phospholipid-binding proteins that are thought to be involved in membrane-trafficking, and may also be involved in cell division and growth [].

>COG2718 Uncharacterized conserved protein [Function unknown]

Probab=96.39  E-value=0.088  Score=55.14  Aligned_cols=104  Identities=23%  Similarity=0.247  Sum_probs=68.6

Q ss_pred             CCCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC-CCCeEEEEEeCC--CcEEEEcCcccCHHHHHHHHHHHhcCC
Q 043643          163 ADRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG-SADRLSIVIFSS--VARRIFPLQRMTDSGRENAIRAINTLS  238 (634)
Q Consensus       163 ~~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~-~~drvsIV~Fs~--~a~~~~pl~~~t~~~~~~~~~~I~~l~  238 (634)
                      .+....=+++++|+||||.. +-+++|+..-.+---|. .-+++-||....  .++.+-.             ...=...
T Consensus       242 ~pes~AVmfclMDvSGSM~~~~KdlAkrFF~lL~~FL~~kYenveivfIrHht~A~EVdE-------------~dFF~~~  308 (423)
T COG2718         242 KPESNAVMFCLMDVSGSMDQSEKDLAKRFFFLLYLFLRRKYENVEIVFIRHHTEAKEVDE-------------TDFFYSQ  308 (423)
T ss_pred             CCccceEEEEEEecCCCcchHHHHHHHHHHHHHHHHHhcccceeEEEEEeecCcceecch-------------hhceeec
Confidence            33445567889999999998 88899986654444443 345555555544  3443321             1111346


Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCC-CCcEEEEEeCCCCCCC
Q 043643          239 SNGGTNIVEGLKKGARVLEERRERS-PVASIILLSDGQDTHN  279 (634)
Q Consensus       239 ~~GgT~i~~aL~~A~~~l~~~~~~~-~~~~IILlTDG~~~~g  279 (634)
                      .+|||-+..||+.+.++++.+-... ..-..+-.|||..-.+
T Consensus       309 esGGTivSSAl~~m~evi~ErYp~aeWNIY~fqaSDGDN~~d  350 (423)
T COG2718         309 ESGGTIVSSALKLMLEVIKERYPPAEWNIYAFQASDGDNWAD  350 (423)
T ss_pred             CCCCeEeHHHHHHHHHHHHhhCChhheeeeeeeecCCccccC
Confidence            7899999999999999998865432 2334677999986543

>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]

Probab=96.32  E-value=0.00086  Score=68.40  Aligned_cols=50  Identities=30%  Similarity=0.612  Sum_probs=40.9

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCCCC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQ   56 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p~~   56 (634)
                      +|.+|-..|.+    +.....|-|+||..||..++.. +..||.|...+...++.
T Consensus        17 tC~LC~GYliD----ATTI~eCLHTFCkSCivk~l~~-~~~CP~C~i~ih~t~pl   66 (331)
T KOG2660|consen   17 TCRLCGGYLID----ATTITECLHTFCKSCIVKYLEE-SKYCPTCDIVIHKTHPL   66 (331)
T ss_pred             ehhhccceeec----chhHHHHHHHHHHHHHHHHHHH-hccCCccceeccCcccc
Confidence            69999999976    2344789999999999998877 66899999887765533

>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]

Probab=96.31  E-value=0.03  Score=56.42  Aligned_cols=165  Identities=15%  Similarity=0.178  Sum_probs=98.8

Q ss_pred             CceEEEEEeCCCCCCc------cHHHH-HHHHHHHHHhcC--CCCeEEEEEeCCCc-EEEEcCcccCHHHHHHHHHHHhc
Q 043643          167 PIDLVTVLDVSGSMSS------KLPLL-KRAVHFIIQNLG--SADRLSIVIFSSVA-RRIFPLQRMTDSGRENAIRAINT  236 (634)
Q Consensus       167 p~dlv~VlD~SgSM~g------kl~~~-K~al~~li~~L~--~~drvsIV~Fs~~a-~~~~pl~~~t~~~~~~~~~~I~~  236 (634)
                      -..++++||+|.+|..      +.+.+ |-|..++.+.+.  |-..++||..-+.. +.+..   |+ .|-+..+..+.+
T Consensus        87 iRhl~l~lD~Seam~e~Df~p~r~a~vikya~~Fv~eFf~qNPiSqlsii~irdg~a~~~s~---~~-gnpq~hi~~lkS  162 (421)
T COG5151          87 IRHLHLILDVSEAMDESDFLPTRRANVIKYAEGFVPEFFSQNPISQLSIISIRDGCAKYTSS---MD-GNPQAHIGQLKS  162 (421)
T ss_pred             hheeEEEEEhhhhhhhhhccchHHHHHHHHHHHHhHHHhccCCchheeeeehhhhHHHHhhh---cC-CCHHHHHHHhhc
Confidence            3579999999999986      34443 345555555443  55678888776543 22222   22 345666677777


Q ss_pred             CC-CCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhcccccc
Q 043643          237 LS-SNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREA  315 (634)
Q Consensus       237 l~-~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~  315 (634)
                      +. +.|.-.+..||+.|.-.|.....- ..+.|+++--...+..                 ..++.+.+..        .
T Consensus       163 ~rd~~gnfSLqNaLEmar~~l~~~~~H-~trEvLiifgS~st~D-----------------Pgdi~~tid~--------L  216 (421)
T COG5151         163 KRDCSGNFSLQNALEMARIELMKNTMH-GTREVLIIFGSTSTRD-----------------PGDIAETIDK--------L  216 (421)
T ss_pred             ccccCCChhHHhHHHHhhhhhcccccc-cceEEEEEEeecccCC-----------------CccHHHHHHH--------H
Confidence            64 678888888998884444322211 1222333222222211                 1133333321        1


Q ss_pred             CCCCeeEEEEEccCCCChHHHHHHHhhc----CCeEEEcCChhhHHHHHHHH
Q 043643          316 GQPTFPVHTFGFGLEHDSEAMHAIADAS----GGTFSFIETLSILQDAFARC  363 (634)
Q Consensus       316 ~~~~i~I~t~G~G~~~d~~~L~~iA~~t----gG~~~~i~~~~~l~~~f~~~  363 (634)
                      ...+|.|+.+|+..  .-++.++|..+|    .|.|+..-|..-+.+.|.+.
T Consensus       217 v~~~IrV~~igL~a--evaicKeickaTn~~~e~~y~v~vde~Hl~el~~E~  266 (421)
T COG5151         217 VAYNIRVHFIGLCA--EVAICKEICKATNSSTEGRYYVPVDEGHLSELMREL  266 (421)
T ss_pred             HhhceEEEEEeehh--HHHHHHHHHhhcCcCcCceeEeeecHHHHHHHHHhc
Confidence            24689999999974  346889998888    78888888887777666553

>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]

Probab=96.14  E-value=0.19  Score=50.11  Aligned_cols=170  Identities=18%  Similarity=0.316  Sum_probs=99.3

Q ss_pred             CCceEEEEEeCCC---CCC----c--cHHHHHHHHHHHHH-hc--CCCCeEEEEEeCCCcE-EEEc--------------
Q 043643          166 APIDLVTVLDVSG---SMS----S--KLPLLKRAVHFIIQ-NL--GSADRLSIVIFSSVAR-RIFP--------------  218 (634)
Q Consensus       166 ~p~dlv~VlD~Sg---SM~----g--kl~~~K~al~~li~-~L--~~~drvsIV~Fs~~a~-~~~p--------------  218 (634)
                      .|--|+++||.+.   -|.    +  .+..+-+|+--|++ .|  ..+.||+++++.+... .+.|              
T Consensus        22 ~~slL~vlId~~p~~Wg~~as~~~~~ti~kvl~aivVFlNAHL~~~~~NrvaViA~~~q~~~~lyp~st~~e~~n~~~~~  101 (314)
T KOG2487|consen   22 NPSLLVVLIDANPCSWGMLASAENWETISKVLNAIVVFLNAHLAFSRNNRVAVIASHSQVDNYLYPSSTRCEDRNASELD  101 (314)
T ss_pred             CceeEEEEEecCcchhhhhhhhcCceeHHHHHHHHHHHHHHHHhhccCCcEEEEEecccccceeccccccCCccCccccC
Confidence            5777899999987   332    1  44555555544443 33  4688999999965432 2223              


Q ss_pred             CcccCHHH-------HHHHHHHHhcC------CCCC-CCcHHHHHHHHHHHHHhhcc----CCCCcEEEEEeCCCCCCCC
Q 043643          219 LQRMTDSG-------RENAIRAINTL------SSNG-GTNIVEGLKKGARVLEERRE----RSPVASIILLSDGQDTHNV  280 (634)
Q Consensus       219 l~~~t~~~-------~~~~~~~I~~l------~~~G-gT~i~~aL~~A~~~l~~~~~----~~~~~~IILlTDG~~~~g~  280 (634)
                      +++.....       -+.+.+.|..+      ...| -|-+..+|..|+-.......    ..-.++|+++|=+.+..  
T Consensus       102 ~t~~~~~~y~~~~~~d~tiv~ei~~lm~~~~~~~~~~rt~lagals~~L~yi~~~~ke~~~~~lkSRilV~t~t~d~~--  179 (314)
T KOG2487|consen  102 PTRLVLFDYSEFRTVDDTIVEEIYRLMEHPDKYDVGDRTVLAGALSDALGYINRLHKEEASEKLKSRILVFTLTRDRA--  179 (314)
T ss_pred             chhhhcchhhhhcccchHHHHHHHHHHhCccccccccceeeccchhhccchHhhhhhhhhhhhhhceEEEEEechHHH--
Confidence            11100000       01222222222      1112 56667777777665533221    12245688888766542  


Q ss_pred             CCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHH
Q 043643          281 LRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAF  360 (634)
Q Consensus       281 ~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f  360 (634)
                                       ..|..++. .|-    .+.+.+|+|.++-+|.+  ..+|++-++.|||.|..++.++.|-..+
T Consensus       180 -----------------~qyi~~MN-ciF----aAqKq~I~Idv~~l~~~--s~~LqQa~D~TGG~YL~v~~~~gLLqyL  235 (314)
T KOG2487|consen  180 -----------------LQYIPYMN-CIF----AAQKQNIPIDVVSLGGD--SGFLQQACDITGGDYLHVEKPDGLLQYL  235 (314)
T ss_pred             -----------------hhhhhHHH-HHH----HHHhcCceeEEEEecCC--chHHHHHHhhcCCeeEecCCcchHHHHH
Confidence                             12332222 122    24678999999999976  7899999999999999999987765444


Q ss_pred             H
Q 043643          361 A  361 (634)
Q Consensus       361 ~  361 (634)
                      .
T Consensus       236 l  236 (314)
T KOG2487|consen  236 L  236 (314)
T ss_pred             H
Confidence            3

>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.95  E-value=0.0024  Score=64.15  Aligned_cols=42  Identities=26%  Similarity=0.566  Sum_probs=36.3

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCE   49 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~   49 (634)
                      .|-||...|..     |+...|+|.||..|-..-.+. ...|++|.+.
T Consensus       243 ~c~icr~~f~~-----pVvt~c~h~fc~~ca~~~~qk-~~~c~vC~~~  284 (313)
T KOG1813|consen  243 KCFICRKYFYR-----PVVTKCGHYFCEVCALKPYQK-GEKCYVCSQQ  284 (313)
T ss_pred             ccccccccccc-----chhhcCCceeehhhhcccccc-CCcceecccc
Confidence            59999999988     899999999999998876665 4579999765

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=95.92  E-value=0.0032  Score=71.15  Aligned_cols=36  Identities=22%  Similarity=0.588  Sum_probs=29.7

Q ss_pred             EecCCCCccchhhHHHHHhcCCCcCcccccccccCC
Q 043643           19 FTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVP   54 (634)
Q Consensus        19 ~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p   54 (634)
                      +...|+|.||..|+......+...||.|.+.|..-.
T Consensus       657 vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD  692 (698)
T KOG0978|consen  657 VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND  692 (698)
T ss_pred             HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence            446799999999999988766778999998876433

>PF08033 Sec23_BS: Sec23/Sec24 beta-sandwich domain; InterPro: IPR012990 COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []

Probab=95.89  E-value=0.071  Score=45.67  Aligned_cols=89  Identities=16%  Similarity=0.210  Sum_probs=59.9

Q ss_pred             eeeeEEEEEecCCCeEEEEecCCCCCcc-----cccCCceeEEEcCCccCCcEEEEEEEEEcCCCCCCCCCCCCccceEE
Q 043643          372 SQDVKLTIRSKSAGVRIGSIPSGRYNSE-----VLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRPECTALLD  446 (634)
Q Consensus       372 a~~~~l~v~~~~~~v~i~~v~~~~~~~~-----~~~~~~~~~i~lg~l~~~e~r~~lv~l~~p~~~~~~~~~~~~~~l~~  446 (634)
                      +.+..++|++ ++|+.|..+....+...     ..+.+....+.++.|..+..-.|.+++.-+.....       ...+|
T Consensus         1 g~~~~l~vr~-S~gl~v~~~~G~~~~~~~~s~~~~g~~~~~~~~~~~l~~~~s~~~~~~~~~~~~~~~-------~~~iQ   72 (96)
T PF08033_consen    1 GFNAVLRVRC-SKGLKVSGVIGPCFNRSSVSDNEIGEGDTTRWKLPSLDPDTSFAFEFEIDEDLPNGS-------QAYIQ   72 (96)
T ss_dssp             EEEEEEEEEE--TTEEEEEEESSSEESSTBESSECSBSSCSEEEEEEEETT--EEEEEEESSBTBTTS-------EEEEE
T ss_pred             CceEEEEEEE-CCCeEEEEEEcCccccccccceeeccCCccEEEecccCCCCEEEEEEEECCCCCCCC-------eEEEE
Confidence            3578899997 79999999863332221     11112334599999999998888888853322222       78899


Q ss_pred             EEEEEecCCCCceeeeecceeE
Q 043643          447 VFCTHKDSASMEIHQVEGEKVE  468 (634)
Q Consensus       447 v~~~Y~~~~~~~~~~~~~~~~~  468 (634)
                      +.+.|+++.+.+.++|.+..+.
T Consensus        73 ~~~~Yt~~~G~r~iRV~T~~l~   94 (96)
T PF08033_consen   73 FALLYTDSNGERRIRVTTLSLP   94 (96)
T ss_dssp             EEEEEEETTSEEEEEEEEEEEE
T ss_pred             EEEEEECCCCCEEEEEEeeccc
Confidence            9999999988888888755443

COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger (IPR006895 from INTERPRO), an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes part of the Sec23/24 beta-barrel domain, which is formed from approximately 180 residues from three segments of the polypeptide. The strands of the barrel are oriented roughly parallel to the membrane such that one end of the barrel forms part of the inner surface of the coat and the other end part of the membrane-distal surface. The barrel is constructed from two opposed sheets: a six-stranded beta sheet facing partly towards the zinc finger domain and partly towards the solvent, and a five-stranded beta sheet facing the helical domain.; PDB: 3EFO_B 3EG9_B 1PD0_A 1PD1_A 1M2V_B 1PCX_A 3EH2_C 3EGD_A 2NUP_A 3EGX_A ....

>COG3864 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.87  E-value=0.016  Score=58.71  Aligned_cols=91  Identities=24%  Similarity=0.495  Sum_probs=61.5

Q ss_pred             eEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHh-cCCCCCCCcHH
Q 043643          169 DLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAIN-TLSSNGGTNIV  246 (634)
Q Consensus       169 dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~-~l~~~GgT~i~  246 (634)
                      -+++++|+||||.. .++.+-.-+..++.  .++-++.||.-+..+..-..+++    ++.     ++ .+..+|||++.
T Consensus       263 ~i~vaVDtSGS~~d~ei~a~~~Ei~~Il~--~~~~eltli~~D~~v~~~~~~r~----g~~-----~~~~~~ggG~Tdf~  331 (396)
T COG3864         263 KIVVAVDTSGSMTDAEIDAAMTEIFDILK--NKNYELTLIECDNIVRRMYRVRK----GRD-----MKKKLDGGGGTDFS  331 (396)
T ss_pred             heEEEEecCCCccHHHHHHHHHHHHHHHh--CCCcEEEEEEecchhhhhhccCC----ccc-----CCcccCCCCCcccc
Confidence            48999999999987 66655555555542  36889999999988876655552    111     11 24566789998


Q ss_pred             HHHHHHHHHHHhhccCCCCcEEEEEeCCCCC
Q 043643          247 EGLKKGARVLEERRERSPVASIILLSDGQDT  277 (634)
Q Consensus       247 ~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~  277 (634)
                      .++..    +++..   +....|.+|||.-.
T Consensus       332 Pvfey----lek~~---~~~~lIyfTDG~gd  355 (396)
T COG3864         332 PVFEY----LEKNR---MECFLIYFTDGMGD  355 (396)
T ss_pred             HHHHH----HHhhc---ccceEEEEccCCCC
Confidence            87765    33322   12568999999855

>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]

Probab=95.80  E-value=0.0036  Score=67.74  Aligned_cols=44  Identities=34%  Similarity=0.892  Sum_probs=38.5

Q ss_pred             CccccccccccCCcceeEe-cCCCCccchhhHHHHHhcCCCcCcccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFT-AECSHSFHFCCIAANVQHGNRICPICRCEWK   51 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~-~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~   51 (634)
                      .|+||...+.+     ++. ..|||.||..|+..|... ...||.|+....
T Consensus        23 ~C~~C~~vl~~-----p~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~   67 (391)
T KOG0297|consen   23 LCPICMSVLRD-----PVQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELT   67 (391)
T ss_pred             cCccccccccC-----CCCCCCCCCcccccccchhhcc-CcCCcccccccc
Confidence            59999999988     676 599999999999999987 778999987643

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.47  E-value=0.0053  Score=63.57  Aligned_cols=47  Identities=32%  Similarity=0.691  Sum_probs=34.6

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHH-hcCCCcCcccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANV-QHGNRICPICRCE   49 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~-~~~~~~CP~Cr~~   49 (634)
                      -|..|-+.+...++. .--++|.|.||..|+...+ +.+..+||.||+-
T Consensus       367 ~Cg~CGe~~Glk~e~-LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crkl  414 (518)
T KOG1941|consen  367 YCGLCGESIGLKNER-LQALPCSHIFHLRCLQEILENNGTRSCPNCRKL  414 (518)
T ss_pred             hhhhhhhhhcCCccc-ccccchhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence            388888887542222 3347899999999999876 4556789999943

>KOG1226 consensus Integrin beta subunit (N-terminal portion of extracellular region) [Signal transduction mechanisms; Extracellular structures]

Probab=95.30  E-value=0.087  Score=59.75  Aligned_cols=110  Identities=19%  Similarity=0.236  Sum_probs=68.4

Q ss_pred             CCCCceEEEEEeCCCCCCc---cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCc---------------------------
Q 043643          164 DRAPIDLVTVLDVSGSMSS---KLPLLKRAVHFIIQNLGSADRLSIVIFSSVA---------------------------  213 (634)
Q Consensus       164 ~r~p~dlv~VlD~SgSM~g---kl~~~K~al~~li~~L~~~drvsIV~Fs~~a---------------------------  213 (634)
                      .--|+||++++|.|.||..   +|..+=..+..-+..|..+-|+|.-.|-+.+                           
T Consensus       129 ~~yPVDLYyLMDlS~SM~DDl~~l~~LG~~L~~~m~~lT~nfrlGFGSFVDK~v~P~i~~~pekl~npc~~~~~C~ppfg  208 (783)
T KOG1226|consen  129 EDYPVDLYYLMDLSYSMKDDLENLKSLGTDLAREMRKLTSNFRLGFGSFVDKTVSPYISTTPEKLRNPCPNYKNCAPPFG  208 (783)
T ss_pred             cCCCeeEEEEeecchhhhhhHHHHHHHHHHHHHHHHHHhccCCccccchhccccccccccCcHHhcCCCCCcccCCCCcc
Confidence            4569999999999999998   5555555666777777888888877776543                           


Q ss_pred             -EEEEcCcccCHHHHHHHHHHHhcCCCCCCCcHH-HHHHHHHHHH---HhhccCC-CCcEEEEEeCCCCC
Q 043643          214 -RRIFPLQRMTDSGRENAIRAINTLSSNGGTNIV-EGLKKGARVL---EERRERS-PVASIILLSDGQDT  277 (634)
Q Consensus       214 -~~~~pl~~~t~~~~~~~~~~I~~l~~~GgT~i~-~aL~~A~~~l---~~~~~~~-~~~~IILlTDG~~~  277 (634)
                       +.+++||    .+.+.+.+.|.+-+-.|.-+-- .|+.+-++.+   +.-.+++ ..+.+||.||....
T Consensus       209 fkhvLsLT----~~~~~F~~~V~~q~ISgNlDaPEGGfDAimQaavC~~~IGWR~~a~~lLVF~td~~~H  274 (783)
T KOG1226|consen  209 FKHVLSLT----NDAEEFNEEVGKQRISGNLDAPEGGFDAIMQAAVCTEKIGWRNDATRLLVFSTDAGFH  274 (783)
T ss_pred             cceeeecC----CChHHHHHHHhhceeccCCCCCCchHHHHHhhhhccccccccccceeEEEEEcCccee
Confidence             2233455    4567777788765444432221 1233333322   2333455 34557777887644

>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=95.11  E-value=0.011  Score=59.16  Aligned_cols=43  Identities=33%  Similarity=0.726  Sum_probs=34.6

Q ss_pred             CccccccccccCCcceeE-ecCCCCccchhhHHHHHhcCCCcCcccccc
Q 043643            2 TCPICLGSLRRGQGVAIF-TAECSHSFHFCCIAANVQHGNRICPICRCE   49 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~-~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~   49 (634)
                      .|+.|...+..     ++ +..|+|.||..||...+-.....||.|..+
T Consensus       276 kCplc~~Llrn-----p~kT~cC~~~fc~eci~~al~dsDf~CpnC~rk  319 (427)
T COG5222         276 KCPLCHCLLRN-----PMKTPCCGHTFCDECIGTALLDSDFKCPNCSRK  319 (427)
T ss_pred             cCcchhhhhhC-----cccCccccchHHHHHHhhhhhhccccCCCcccc
Confidence            59999999876     44 357999999999998665546789999764

>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]

Probab=94.79  E-value=0.016  Score=68.47  Aligned_cols=54  Identities=26%  Similarity=0.661  Sum_probs=36.6

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHHhc---------CCCcCcccccccccCCCC
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQH---------GNRICPICRCEWKDVPFQ   56 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~---------~~~~CP~Cr~~~~~~p~~   56 (634)
                      |.|-||+..--.  ..+.+.+.|+|.||++|...-+..         +-..||+|..++...-+.
T Consensus      3487 DmCmICFTE~L~--AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~Lk 3549 (3738)
T KOG1428|consen 3487 DMCMICFTEALS--AAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIVLK 3549 (3738)
T ss_pred             ceEEEEehhhhC--CCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHHHH
Confidence            568888865432  233566899999999998764421         122699999887655433

>PHA03096 p28-like protein; Provisional

Probab=94.57  E-value=0.017  Score=59.42  Aligned_cols=49  Identities=24%  Similarity=0.379  Sum_probs=33.3

Q ss_pred             CCccccccccccC---CcceeEecCCCCccchhhHHHHHhc--CCCcCcccccc
Q 043643            1 KTCPICLGSLRRG---QGVAIFTAECSHSFHFCCIAANVQH--GNRICPICRCE   49 (634)
Q Consensus         1 ~~C~ICl~~~~~~---~~~~~~~~~C~H~Fh~~Ci~~w~~~--~~~~CP~Cr~~   49 (634)
                      ..|.||++.....   +..--....|.|.||..|+..|...  ....||.||.-
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~  232 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRL  232 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccch
Confidence            3699999987642   1122334689999999999999852  23356666543

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=94.18  E-value=0.024  Score=57.70  Aligned_cols=53  Identities=25%  Similarity=0.582  Sum_probs=37.8

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCC
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVP   54 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p   54 (634)
                      |-||.|++.+...+. --+..+||...|..|...-.+.-+..||-||..+.+..
T Consensus        15 d~cplcie~mditdk-nf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den   67 (480)
T COG5175          15 DYCPLCIEPMDITDK-NFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN   67 (480)
T ss_pred             ccCcccccccccccC-CcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence            569999999865322 24456899988888876544433557999999876644

>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=94.14  E-value=0.03  Score=58.43  Aligned_cols=49  Identities=20%  Similarity=0.478  Sum_probs=41.3

Q ss_pred             CccccccccccCC-cceeEecCCCCccchhhHHHHHhcCCCcCccccccc
Q 043643            2 TCPICLGSLRRGQ-GVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEW   50 (634)
Q Consensus         2 ~C~ICl~~~~~~~-~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~   50 (634)
                      .|-||-++|..+. ...|..+.|||.||..|+..........||.||..+
T Consensus         5 ~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    5 ECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             ceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            6999999998763 345777889999999999988777677899999986

>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length

Probab=93.90  E-value=0.025  Score=50.78  Aligned_cols=34  Identities=24%  Similarity=0.431  Sum_probs=26.5

Q ss_pred             CccccccccccCCcceeEecCCC------CccchhhHHHHHh
Q 043643            2 TCPICLGSLRRGQGVAIFTAECS------HSFHFCCIAANVQ   37 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~------H~Fh~~Ci~~w~~   37 (634)
                      +|.||++.+..++|..+++  |+      |.||..|+.+|.+
T Consensus        28 EC~IC~~~I~~~~GvV~vt--~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   28 ECQICFDRIDNNDGVVYVT--DGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             eehhhhhhhhcCCCEEEEe--cCCeehHHHHHHHHHHHHHHh
Confidence            5999999998755554443  54      7899999999953

The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.

>PF04641 Rtf2: Rtf2 RING-finger

Probab=93.80  E-value=0.056  Score=55.30  Aligned_cols=51  Identities=16%  Similarity=0.453  Sum_probs=39.4

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCCC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPF   55 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p~   55 (634)
                      .|||+...|. +.....+..+|||.|+..|+....  ....||+|-.+|.....
T Consensus       115 ~CPvt~~~~~-~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~~~Di  165 (260)
T PF04641_consen  115 ICPVTGKEFN-GKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFTEEDI  165 (260)
T ss_pred             ECCCCCcccC-CceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCccccCCE
Confidence            4999999993 344556668999999999998863  24479999999876543

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.62  E-value=0.028  Score=64.07  Aligned_cols=40  Identities=33%  Similarity=0.764  Sum_probs=31.2

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCE   49 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~   49 (634)
                      .|..|--.+.-    +.+--.|||.||.+|+.    .+...||.|+..
T Consensus       842 kCs~C~~~Ldl----P~VhF~CgHsyHqhC~e----~~~~~CP~C~~e  881 (933)
T KOG2114|consen  842 KCSACEGTLDL----PFVHFLCGHSYHQHCLE----DKEDKCPKCLPE  881 (933)
T ss_pred             eecccCCcccc----ceeeeecccHHHHHhhc----cCcccCCccchh
Confidence            59999888854    34557899999999997    335579999863

>PHA02862 5L protein; Provisional

Probab=93.48  E-value=0.044  Score=49.42  Aligned_cols=50  Identities=16%  Similarity=0.409  Sum_probs=35.1

Q ss_pred             CCccccccccccCCcceeEecCCC-----CccchhhHHHHHhc-CCCcCcccccccccCCCC
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECS-----HSFHFCCIAANVQH-GNRICPICRCEWKDVPFQ   56 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~-----H~Fh~~Ci~~w~~~-~~~~CP~Cr~~~~~~p~~   56 (634)
                      +.|=||++.-.+  .    ..+|.     ..-|..|+.+|.+. ++..||+|+.++.-.+..
T Consensus         3 diCWIC~~~~~e--~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~~y   58 (156)
T PHA02862          3 DICWICNDVCDE--R----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKKTY   58 (156)
T ss_pred             CEEEEecCcCCC--C----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEEcc
Confidence            468999997433  1    23453     35799999999973 455799999987654433

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.47  E-value=0.068  Score=52.39  Aligned_cols=53  Identities=17%  Similarity=0.303  Sum_probs=42.4

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCCCC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQ   56 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p~~   56 (634)
                      .||||.+.+.+.-.++ +..+|||.||..|..+.... ...||+|-.++++..+.
T Consensus       223 iCpvtrd~LtNt~~ca-~Lr~sg~Vv~~ecvEklir~-D~v~pv~d~plkdrdiI  275 (303)
T KOG3039|consen  223 ICPVTRDTLTNTTPCA-VLRPSGHVVTKECVEKLIRK-DMVDPVTDKPLKDRDII  275 (303)
T ss_pred             ecccchhhhcCccceE-EeccCCcEeeHHHHHHhccc-cccccCCCCcCcccceE
Confidence            4999999998754453 44789999999999998876 55899999988775544

>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]

Probab=93.41  E-value=0.035  Score=63.25  Aligned_cols=52  Identities=31%  Similarity=0.728  Sum_probs=38.3

Q ss_pred             CccccccccccCCcceeEe-cCCCCccchhhHHHHHhc------CCCcCcccccccccCCC
Q 043643            2 TCPICLGSLRRGQGVAIFT-AECSHSFHFCCIAANVQH------GNRICPICRCEWKDVPF   55 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~-~~C~H~Fh~~Ci~~w~~~------~~~~CP~Cr~~~~~~p~   55 (634)
                      .|.||.+.+..  ...++. ..|-|.||..||..|...      ..-.||.|+......|.
T Consensus       193 eCmIC~e~I~~--t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~~~~~  251 (950)
T KOG1952|consen  193 ECMICTERIKR--TAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSKTVPK  251 (950)
T ss_pred             EEEEeeeeccc--cCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhccCCc
Confidence            59999999976  333432 558899999999999952      12269999976655554

>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=93.20  E-value=0.058  Score=52.01  Aligned_cols=46  Identities=28%  Similarity=0.684  Sum_probs=35.2

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhc-------CCCcCccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQH-------GNRICPICRCEW   50 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~-------~~~~CP~Cr~~~   50 (634)
                      .|..|--.+..|+.   +.+.|-|.||..|+..|...       ....||.|..++
T Consensus        52 NC~LC~t~La~gdt---~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei  104 (299)
T KOG3970|consen   52 NCRLCNTPLASGDT---TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI  104 (299)
T ss_pred             CCceeCCccccCcc---eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence            48889888877543   44679999999999999841       234799998764

>COG1721 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]

Probab=93.12  E-value=0.59  Score=51.31  Aligned_cols=75  Identities=25%  Similarity=0.294  Sum_probs=53.6

Q ss_pred             CceEEEEEeCCCCCCc------cHHHHHHHHH-HHHHhcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCC
Q 043643          167 PIDLVTVLDVSGSMSS------KLPLLKRAVH-FIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSS  239 (634)
Q Consensus       167 p~dlv~VlD~SgSM~g------kl~~~K~al~-~li~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~  239 (634)
                      ..++++++|.|.||..      +++.+-.++. .....+..+|++++..|+......++... .......++..+..+.+
T Consensus       224 ~~~v~l~lD~~~~m~~~~~~~~~~e~av~~a~~la~~~l~~gd~vg~~~~~~~~~~~~~p~~-G~~~l~~~l~~l~~~~~  302 (416)
T COG1721         224 GRTVVLVLDASRSMLFGSGVASKFEEAVRAAASLAYAALKNGDRVGLLIFGGGGPKWIPPSR-GRRHLARILKALALLRP  302 (416)
T ss_pred             CceEEEEEeCCccccCCCCCccHHHHHHHHHHHHHHHHHhCCCeeEEEEECCCcceeeCCCc-chHHHHHHHHHhhccCC
Confidence            7899999999999993      7777766554 44456678999999999988777776652 22234455555555665


Q ss_pred             CCC
Q 043643          240 NGG  242 (634)
Q Consensus       240 ~Gg  242 (634)
                      .+.
T Consensus       303 ~~~  305 (416)
T COG1721         303 APE  305 (416)
T ss_pred             CCc
Confidence            554

>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.92  E-value=0.045  Score=62.91  Aligned_cols=33  Identities=27%  Similarity=0.611  Sum_probs=26.8

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHH
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANV   36 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~   36 (634)
                      |+|.+|...+..   .+-+..+|||.||..|+.+..
T Consensus       818 d~C~~C~~~ll~---~pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  818 DSCDHCGRPLLI---KPFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             cchHHhcchhhc---CcceeeeccchHHHHHHHHHH
Confidence            579999998865   234568999999999998865

>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A

Probab=92.91  E-value=0.08  Score=38.96  Aligned_cols=41  Identities=32%  Similarity=0.764  Sum_probs=26.6

Q ss_pred             ccccccccccCCcceeEecCCCC-----ccchhhHHHHHh-cCCCcCccc
Q 043643            3 CPICLGSLRRGQGVAIFTAECSH-----SFHFCCIAANVQ-HGNRICPIC   46 (634)
Q Consensus         3 C~ICl~~~~~~~~~~~~~~~C~H-----~Fh~~Ci~~w~~-~~~~~CP~C   46 (634)
                      |-||++.-....   ++..+|.-     ..|..|+..|+. .++..|++|
T Consensus         1 CrIC~~~~~~~~---~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE---PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS----EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC---ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            679999876522   56677753     569999999996 445679988

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=92.81  E-value=0.078  Score=48.90  Aligned_cols=50  Identities=22%  Similarity=0.433  Sum_probs=33.7

Q ss_pred             CCccccccccccCCcceeEecCCCC---ccchhhHHHHHh-cCCCcCcccccccccCC
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSH---SFHFCCIAANVQ-HGNRICPICRCEWKDVP   54 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H---~Fh~~Ci~~w~~-~~~~~CP~Cr~~~~~~p   54 (634)
                      +.|=||.+.-..  .  ...-.|..   .-|..|+.+|.. .+...|+.|+.++.-..
T Consensus         9 ~~CRIC~~~~~~--~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~~   62 (162)
T PHA02825          9 KCCWICKDEYDV--V--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIKK   62 (162)
T ss_pred             CeeEecCCCCCC--c--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEEE
Confidence            368899887432  1  11123444   449999999996 44667999999876543

>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]

Probab=92.75  E-value=0.095  Score=52.86  Aligned_cols=56  Identities=21%  Similarity=0.530  Sum_probs=42.0

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCCCC
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQ   56 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p~~   56 (634)
                      +.||+|....--.........+|+|..|-.|+..-...+...||.|...++...|.
T Consensus         1 ~~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr   56 (300)
T KOG3800|consen    1 QACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFR   56 (300)
T ss_pred             CCCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccc
Confidence            46999988654333444555699999999999998877777899998766554444

>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=92.57  E-value=0.065  Score=55.02  Aligned_cols=46  Identities=28%  Similarity=0.638  Sum_probs=36.4

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      +.||||.-.--.     .+-.+|+|.-|..||.+++-. .+.|=.|+.....
T Consensus       423 ~lCpICyA~pi~-----Avf~PC~H~SC~~CI~qHlmN-~k~CFfCktTv~~  468 (489)
T KOG4692|consen  423 NLCPICYAGPIN-----AVFAPCSHRSCYGCITQHLMN-CKRCFFCKTTVID  468 (489)
T ss_pred             ccCcceecccch-----hhccCCCCchHHHHHHHHHhc-CCeeeEecceeee
Confidence            469999875433     355799999999999998876 5689999987554

>KOG1940 consensus Zn-finger protein [General function prediction only]

Probab=92.13  E-value=0.082  Score=53.72  Aligned_cols=45  Identities=31%  Similarity=0.614  Sum_probs=37.3

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRC   48 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~   48 (634)
                      .||||.+.+..+... +..++|||.-|..|+......+ .+||+|.+
T Consensus       160 ncPic~e~l~~s~~~-~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~  204 (276)
T KOG1940|consen  160 NCPICKEYLFLSFED-AGVLKCGHYMHSRCFEEMICEG-YTCPICSK  204 (276)
T ss_pred             CCchhHHHhcccccc-CCccCcccchHHHHHHHHhccC-CCCCcccc
Confidence            489999988775444 4458999999999999988776 89999987

>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]

Probab=92.01  E-value=0.053  Score=62.43  Aligned_cols=49  Identities=33%  Similarity=0.759  Sum_probs=37.8

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHh-cCCCcCcccccccccCCCC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQ-HGNRICPICRCEWKDVPFQ   56 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~~CP~Cr~~~~~~p~~   56 (634)
                      .|.||++ ...     ++...|+|.||..|+..... .....||.||....+..+.
T Consensus       456 ~c~ic~~-~~~-----~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~  505 (674)
T KOG1001|consen  456 WCHICCD-LDS-----FFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLL  505 (674)
T ss_pred             ccccccc-ccc-----ceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHh
Confidence            6999999 433     66678999999999998654 3344699999887765544

>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function

Probab=91.88  E-value=0.14  Score=47.20  Aligned_cols=34  Identities=29%  Similarity=0.768  Sum_probs=23.2

Q ss_pred             CccccccccccC---------CcceeEecCCCCcc-chhhHHHHHh
Q 043643            2 TCPICLGSLRRG---------QGVAIFTAECSHSF-HFCCIAANVQ   37 (634)
Q Consensus         2 ~C~ICl~~~~~~---------~~~~~~~~~C~H~F-h~~Ci~~w~~   37 (634)
                      +|||||+.=-++         .|+.|+.  |+-+| |..|+.++.+
T Consensus         4 ~CpICme~PHNAVLLlCSS~~kgcRpym--c~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    4 TCPICMEHPHNAVLLLCSSHEKGCRPYM--CDTSYRHSNCLDQFKK   47 (162)
T ss_pred             cCceeccCCCceEEEEeccccCCccccc--cCCccchhHHHHHHHH
Confidence            699999965331         3455554  77655 7789998764

The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.

>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=91.87  E-value=0.1  Score=53.46  Aligned_cols=51  Identities=31%  Similarity=0.593  Sum_probs=38.4

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHh-cCCCcCcccccccccCCCCC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQ-HGNRICPICRCEWKDVPFQA   57 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~~CP~Cr~~~~~~p~~~   57 (634)
                      .|-||-+.+.-     ....+|+|..|..|-.+.-. -..+.||+||..|..+-+-.
T Consensus        63 ~C~ICA~~~TY-----s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V~fT~  114 (493)
T COG5236          63 NCQICAGSTTY-----SARYPCGHQICHACAVRLRALYMQKGCPLCRTETEAVVFTA  114 (493)
T ss_pred             eeEEecCCceE-----EEeccCCchHHHHHHHHHHHHHhccCCCccccccceEEEec
Confidence            48899887754     55689999999999876432 22457999999998876653

>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=91.72  E-value=0.065  Score=52.92  Aligned_cols=48  Identities=23%  Similarity=0.616  Sum_probs=32.3

Q ss_pred             ccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCCCC
Q 043643            3 CPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQ   56 (634)
Q Consensus         3 C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p~~   56 (634)
                      |..|...-.   ...-+.+.|.|.||..|...-.   ...||+|++.++-.-+.
T Consensus         6 Cn~C~~~~~---~~~f~LTaC~HvfC~~C~k~~~---~~~C~lCkk~ir~i~l~   53 (233)
T KOG4739|consen    6 CNKCFRFPS---QDPFFLTACRHVFCEPCLKASS---PDVCPLCKKSIRIIQLN   53 (233)
T ss_pred             eccccccCC---CCceeeeechhhhhhhhcccCC---ccccccccceeeeeecc
Confidence            555554322   3446678899999999986422   22899999986654444

>KOG4465 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.15  E-value=0.5  Score=48.96  Aligned_cols=112  Identities=20%  Similarity=0.237  Sum_probs=68.7

Q ss_pred             CCCCCCCceEEEEEeCCCCCCc-----cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHh
Q 043643          161 NDADRAPIDLVTVLDVSGSMSS-----KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAIN  235 (634)
Q Consensus       161 ~~~~r~p~dlv~VlD~SgSM~g-----kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~  235 (634)
                      ...++.+..+++.+|+|+||..     .|..-..|...-+-.+.....+-.|+|.+.-. .+|++  .+-....+..+++
T Consensus       421 ~na~ptgkr~~laldvs~sm~~rv~~s~ln~reaaa~m~linlhnead~~~vaf~d~lt-e~pft--kd~kigqv~~~~n  497 (598)
T KOG4465|consen  421 KNAEPTGKRFCLALDVSASMNQRVLGSILNAREAAAAMCLINLHNEADSRCVAFCDELT-ECPFT--KDMKIGQVLDAMN  497 (598)
T ss_pred             ccCCCCCceEEEEEecchhhhhhhhccccchHHHHhhhheeeeccccceeEEEeccccc-cCCCc--ccccHHHHHHHHh
Confidence            3456677889999999999996     33322222222223455556677899998753 34666  2333456777777


Q ss_pred             cCCCCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCC
Q 043643          236 TLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLR  282 (634)
Q Consensus       236 ~l~~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~  282 (634)
                      ++. -|||+-+-.+..|.+    ..  -+....|++||...-.|.-.
T Consensus       498 ni~-~g~tdcglpm~wa~e----nn--lk~dvfii~tdndt~ageih  537 (598)
T KOG4465|consen  498 NID-AGGTDCGLPMIWAQE----NN--LKADVFIIFTDNDTFAGEIH  537 (598)
T ss_pred             cCC-CCCCccCCceeehhh----cC--CCccEEEEEecCcccccccC
Confidence            774 466776666555433    11  12345889999887666443

>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=90.09  E-value=0.21  Score=52.76  Aligned_cols=46  Identities=26%  Similarity=0.525  Sum_probs=33.3

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHh----cC---CCcCcccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQ----HG---NRICPICRCE   49 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~----~~---~~~CP~Cr~~   49 (634)
                      .|.||++....  .+....++|+|.||..|...+..    .+   ...||-|.-+
T Consensus       186 ~C~ICf~e~~G--~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~  238 (445)
T KOG1814|consen  186 DCCICFEEQMG--QHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG  238 (445)
T ss_pred             cceeeehhhcC--cceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence            49999998753  34466689999999999998763    22   2357776544

>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO)

Probab=89.88  E-value=0.18  Score=36.32  Aligned_cols=42  Identities=26%  Similarity=0.655  Sum_probs=22.7

Q ss_pred             ccccccccccCCcceeEecCCCCccchhhHHHHHhcCCC-cCccc
Q 043643            3 CPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNR-ICPIC   46 (634)
Q Consensus         3 C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~-~CP~C   46 (634)
                      |.+|.+....|...  -...|+=.+|..|+..++++... .||.|
T Consensus         1 C~~C~~iv~~G~~C--~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRC--SNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE---SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccC--CCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            77888888764221  12369889999999998865333 69988

; PDB: 3NW0_A 2CT0_A.

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=89.71  E-value=0.15  Score=38.37  Aligned_cols=31  Identities=19%  Similarity=0.450  Sum_probs=24.3

Q ss_pred             eEecCCCCccchhhHHHHHhcCCCcCcccccccc
Q 043643           18 IFTAECSHSFHFCCIAANVQHGNRICPICRCEWK   51 (634)
Q Consensus        18 ~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~   51 (634)
                      ...++|+|..|..|...+-   -..||.|.+++.
T Consensus        20 ~~~~pCgH~I~~~~f~~~r---YngCPfC~~~~~   50 (55)
T PF14447_consen   20 GTVLPCGHLICDNCFPGER---YNGCPFCGTPFE   50 (55)
T ss_pred             cccccccceeeccccChhh---ccCCCCCCCccc
Confidence            5678999999999986653   336999988764

>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]

Probab=88.92  E-value=0.15  Score=49.80  Aligned_cols=57  Identities=23%  Similarity=0.559  Sum_probs=42.6

Q ss_pred             CccccccccccCCcceeE-ecCCCCccchhhHHHHHhcCCCcCc--ccccccccCCCCCC
Q 043643            2 TCPICLGSLRRGQGVAIF-TAECSHSFHFCCIAANVQHGNRICP--ICRCEWKDVPFQAP   58 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~-~~~C~H~Fh~~Ci~~w~~~~~~~CP--~Cr~~~~~~p~~~~   58 (634)
                      .||||..+---.....++ ..+|-|..|-.|+.+-...+...||  -|.+-++...|..+
T Consensus        12 ~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~kf~~q   71 (314)
T COG5220          12 RCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKIKFIKQ   71 (314)
T ss_pred             cCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHhccccc
Confidence            799999865432233344 4559999999999998888888999  89887776666543

>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=88.62  E-value=0.29  Score=51.68  Aligned_cols=46  Identities=20%  Similarity=0.396  Sum_probs=38.0

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCC--CcCcccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGN--RICPICRCE   49 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~--~~CP~Cr~~   49 (634)
                      .|||=.+.-.+  +.+|+.+.|||..+..-+.+..+.+.  ..||.|-..
T Consensus       336 ~CPVlKeqtsd--eNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e  383 (394)
T KOG2817|consen  336 ICPVLKEQTSD--ENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE  383 (394)
T ss_pred             ecccchhhccC--CCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence            48887776655  77899999999999999999888776  689999654

>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]

Probab=87.86  E-value=0.14  Score=57.91  Aligned_cols=43  Identities=28%  Similarity=0.826  Sum_probs=35.4

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHH--HHhcCCCcCcccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAA--NVQHGNRICPICRCE   49 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~--w~~~~~~~CP~Cr~~   49 (634)
                      +|+||+..+..     +..+.|.|.||..|+..  |.+.....||+|+..
T Consensus        23 Ec~ic~~~~~~-----p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~   67 (684)
T KOG4362|consen   23 ECPICLEHVKE-----PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSD   67 (684)
T ss_pred             cCCceeEEeec-----cchhhhhHHHHhhhhhceeeccCccccchhhhhh
Confidence            69999999988     78889999999999987  333435679999854

>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]

Probab=86.84  E-value=1.2  Score=46.05  Aligned_cols=63  Identities=22%  Similarity=0.237  Sum_probs=53.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhhhhhcchHHHHHHHHHHHHHHHHhh
Q 043643          489 QRSRLLVAETIADAQRMAEVGDLESAQALLAERRSGLLSSAAAQAGDVLCNWLEAELREIRERMA  553 (634)
Q Consensus       489 ~~~r~~a~~~i~~a~~~a~~g~~~~A~~~L~~~~~~l~~s~~~~~~d~~~~~L~~eL~e~~~~~~  553 (634)
                      .++|.....+|..|..-|..||+..|.+.|-.+++.|++|..  ..|+-|+.|..-|+.+..-..
T Consensus       367 ~RNraiSSSAIsrAvsdASaGDy~~AiETllTAI~lIKqSrv--~~DdRCrvLissL~dcLhgie  429 (498)
T KOG4849|consen  367 TRNRAISSSAISRAVSDASAGDYKGAIETLLTAIQLIKQSRV--GHDDRCRVLISSLEDCLHGIE  429 (498)
T ss_pred             hhcchhhHHHHHHHhcccccccchhHHHHHHHHHHHHHhhcc--ccchHHHHHHHHHHHHHhhhh
Confidence            456667778999999999999999999999999999998765  578999999999988875544

>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=86.84  E-value=0.25  Score=54.72  Aligned_cols=48  Identities=25%  Similarity=0.457  Sum_probs=34.4

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDV   53 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~   53 (634)
                      .|+||+..|... .-.|+.+.|||..|.+|...-.   +.+||.=+-.|..+
T Consensus        13 ~c~ic~n~f~~~-~~~Pvsl~cghtic~~c~~~ly---n~scp~~~De~~~~   60 (861)
T KOG3161|consen   13 LCDICLNLFVVQ-RLEPVSLQCGHTICGHCVQLLY---NASCPTKRDEDSSL   60 (861)
T ss_pred             hchHHHHHHHHH-hcCcccccccchHHHHHHHhHh---hccCCCCccccchh
Confidence            599999888652 3347789999999999998755   34799334444443

>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]

Probab=86.71  E-value=0.24  Score=59.32  Aligned_cols=43  Identities=33%  Similarity=0.578  Sum_probs=34.6

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCE   49 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~   49 (634)
                      .|.||++.+..  ..  ....|||.+|..|+..|... ...||.|+..
T Consensus      1155 ~c~ic~dil~~--~~--~I~~cgh~~c~~c~~~~l~~-~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1155 VCEICLDILRN--QG--GIAGCGHEPCCRCDELWLYA-SSRCPICKSI 1197 (1394)
T ss_pred             chHHHHHHHHh--cC--CeeeechhHhhhHHHHHHHH-hccCcchhhh
Confidence            49999999974  22  23469999999999999987 5689999843

>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A

Probab=86.03  E-value=0.77  Score=37.07  Aligned_cols=51  Identities=25%  Similarity=0.652  Sum_probs=23.0

Q ss_pred             CccccccccccCCcceeEe--cCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFT--AECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~--~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|-||-+.+.......+|.  -.|+--.|+.|..-=.+.+++.||.|+.+++.
T Consensus        11 iCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr   63 (80)
T PF14569_consen   11 ICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKR   63 (80)
T ss_dssp             B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B---
T ss_pred             ccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccc
Confidence            5999999885433223443  56887889999987667778899999987653

>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=84.79  E-value=0.6  Score=46.85  Aligned_cols=30  Identities=27%  Similarity=0.752  Sum_probs=23.2

Q ss_pred             cCCCCccchhhHHHHHh-cCCCcCccccccc
Q 043643           21 AECSHSFHFCCIAANVQ-HGNRICPICRCEW   50 (634)
Q Consensus        21 ~~C~H~Fh~~Ci~~w~~-~~~~~CP~Cr~~~   50 (634)
                      .+|+|.||..||..-.. ....+||.|....
T Consensus       256 ~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~  286 (298)
T KOG2879|consen  256 GKCGHIYCYYCIATSRLWDASFTCPLCGENV  286 (298)
T ss_pred             ccccceeehhhhhhhhcchhhcccCccCCCC
Confidence            55999999999988543 2345899998763

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=84.51  E-value=0.33  Score=48.09  Aligned_cols=49  Identities=24%  Similarity=0.647  Sum_probs=33.9

Q ss_pred             CccccccccccCCcceeEecCC-----CCccchhhHHHHHhc---C----CCcCcccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAEC-----SHSFHFCCIAANVQH---G----NRICPICRCEWK   51 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C-----~H~Fh~~Ci~~w~~~---~----~~~CP~Cr~~~~   51 (634)
                      .|-||+..=++ ...+.+.-+|     .|..|..|+..|...   +    ...||.|+.++-
T Consensus        22 ~CWiCF~TdeD-n~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi   82 (293)
T KOG3053|consen   22 CCWICFATDED-NRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI   82 (293)
T ss_pred             eEEEEeccCcc-cchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence            47899887554 2334455566     367899999999942   1    226999999864

>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0

Probab=82.50  E-value=0.95  Score=40.53  Aligned_cols=51  Identities=22%  Similarity=0.423  Sum_probs=35.0

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHH-HHh-cCCCcCcccccccccC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAA-NVQ-HGNRICPICRCEWKDV   53 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~-w~~-~~~~~CP~Cr~~~~~~   53 (634)
                      .|.||.|...+..--.|- --||-..|.-|-.. |.- .-...||+|+..|+..
T Consensus        82 eCnIC~etS~ee~FLKPn-eCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   82 ECNICKETSAEERFLKPN-ECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS  134 (140)
T ss_pred             eccCcccccchhhcCCcc-cccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence            599999987652111221 23899999999988 543 2345799999987753

>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=82.00  E-value=0.91  Score=33.00  Aligned_cols=40  Identities=25%  Similarity=0.668  Sum_probs=23.0

Q ss_pred             ccccccccccCCcceeEecCCC-CccchhhHHHHHhcCCCcCccccccc
Q 043643            3 CPICLGSLRRGQGVAIFTAECS-HSFHFCCIAANVQHGNRICPICRCEW   50 (634)
Q Consensus         3 C~ICl~~~~~~~~~~~~~~~C~-H~Fh~~Ci~~w~~~~~~~CP~Cr~~~   50 (634)
                      |--|+-..+.     .+  .|+ |..|..|+...+.. ...||+|..++
T Consensus         5 CKsCWf~~k~-----Li--~C~dHYLCl~CLt~ml~~-s~~C~iC~~~L   45 (50)
T PF03854_consen    5 CKSCWFANKG-----LI--KCSDHYLCLNCLTLMLSR-SDRCPICGKPL   45 (50)
T ss_dssp             --SS-S--SS-----EE--E-SS-EEEHHHHHHT-SS-SSEETTTTEE-
T ss_pred             ChhhhhcCCC-----ee--eecchhHHHHHHHHHhcc-ccCCCcccCcC
Confidence            5667766554     33  365 88999999987765 45799997653

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.

>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=81.82  E-value=0.89  Score=47.51  Aligned_cols=35  Identities=23%  Similarity=0.527  Sum_probs=26.5

Q ss_pred             eEecCCCC-ccchhhHHHHHhcCCCcCcccccccccC
Q 043643           18 IFTAECSH-SFHFCCIAANVQHGNRICPICRCEWKDV   53 (634)
Q Consensus        18 ~~~~~C~H-~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~   53 (634)
                      .+.++|.| ..|..|-....-. ...||+||.++.++
T Consensus       303 t~vLPCRHLCLCs~Ca~~Lr~q-~n~CPICRqpi~~l  338 (349)
T KOG4265|consen  303 TVVLPCRHLCLCSGCAKSLRYQ-TNNCPICRQPIEEL  338 (349)
T ss_pred             eEEecchhhehhHhHHHHHHHh-hcCCCccccchHhh
Confidence            78899999 5699998775422 22699999987653

>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=80.74  E-value=0.67  Score=46.53  Aligned_cols=31  Identities=32%  Similarity=0.820  Sum_probs=23.9

Q ss_pred             CccccccccccCCcceeEecCC----CCccchhhHHHHHh
Q 043643            2 TCPICLGSLRRGQGVAIFTAEC----SHSFHFCCIAANVQ   37 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C----~H~Fh~~Ci~~w~~   37 (634)
                      .|.+|.|.+++  .+  | ..|    +|.|||.|-....+
T Consensus       270 cCTLC~ERLED--TH--F-VQCPSVp~HKFCFPCSResIK  304 (352)
T KOG3579|consen  270 CCTLCHERLED--TH--F-VQCPSVPSHKFCFPCSRESIK  304 (352)
T ss_pred             eehhhhhhhcc--Cc--e-eecCCCcccceecccCHHHHH
Confidence            59999999977  22  1 234    79999999988775

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=80.50  E-value=0.87  Score=45.89  Aligned_cols=30  Identities=27%  Similarity=0.607  Sum_probs=22.8

Q ss_pred             CCCccchhhHHHHHh------------cCCCcCccccccccc
Q 043643           23 CSHSFHFCCIAANVQ------------HGNRICPICRCEWKD   52 (634)
Q Consensus        23 C~H~Fh~~Ci~~w~~------------~~~~~CP~Cr~~~~~   52 (634)
                      |.-.+|..|+.+|..            .++.+||.||+++.-
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci  366 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI  366 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence            455678899999973            345689999998764

>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=80.23  E-value=0.92  Score=49.07  Aligned_cols=45  Identities=29%  Similarity=0.651  Sum_probs=35.7

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccc
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPIC   46 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~C   46 (634)
                      ..||+|.-.+..++|+--++-.|||.||..|...|..+ +..|..|
T Consensus       307 r~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~-~~~~~~~  351 (384)
T KOG1812|consen  307 RQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTH-NGECYEC  351 (384)
T ss_pred             CcCcccceeeeecCCcceEEeeccccchhhcCcchhhC-CccccCc
Confidence            36999999887777777777669999999999999876 4356544

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	634
2ecl_A	81	Solution Structure Of The Ring Domain Of The Human		3e-04

>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring-Box Protein 2 Length = 81

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 21/59 (35%), Positives = 31/59 (52%), Gaps = 11/59 (18%)
Query: 2  TCPICL-----GSLR-----RGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEW 50
          TC IC        LR     + +   +   EC+HSFH CC++  V+  NR CP+C+ +W
Sbjct: 17 TCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNR-CPLCQQDW 74

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	634
4fx5_A	464	VON willebrand factor type A; structural genomics,	7e-79
1shu_X	182	Anthrax toxin receptor 2; alpha/beta rossmann fold	5e-28
2x31_A	189	Magnesium-chelatase 60 kDa subunit; ligase, bacter	3e-21
3n2n_F	185	Anthrax toxin receptor 1; rossmann fold; 1.80A {Ho	1e-14
3rag_A	242	Uncharacterized protein; structural genomics, PSI-	1e-13
3ibs_A	218	Conserved hypothetical protein BATB; structural ge	2e-12
1q0p_A	223	Complement factor B; VON willebrand factor, MAC-1,	2e-11
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	1e-10
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	1e-08
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-08
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	1e-08
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	2e-08
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	3e-08
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	6e-08
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	8e-08
1mf7_A	194	Integrin alpha M; cell adhesion; 1.25A {Homo sapie	9e-08
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	1e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	2e-07
1n3y_A	198	Integrin alpha-X; alpha/beta rossmann fold, cell a	3e-07
1ijb_A	202	VON willebrand factor; dinucleotide-binding fold,	3e-07
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	7e-07
1mjn_A	179	Integrin alpha-L; rossmann fold, immune system; 1.	1e-06
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	1e-06
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	1e-06
2xgg_A	178	Microneme protein 2; A/I domain, cell adhesion, hy	2e-06
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	2e-06
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	2e-06
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	3e-06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	3e-06
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	5e-06
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	6e-06
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	9e-06
1pt6_A	213	Integrin alpha-1; cell adhesion; 1.87A {Homo sapie	9e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	1e-05
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	1e-05
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	1e-05
3nw0_A	238	Non-structural maintenance of chromosomes element	1e-05
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-05
2b2x_A	223	Integrin alpha-1; computational design, antibody-a	2e-05
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	2e-05
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-05
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	2e-05
1v7p_C	200	Integrin alpha-2; snake venom, C-type lectin, anta	3e-05
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	3e-05
1atz_A	189	VON willebrand factor; collagen-binding, hemostasi	3e-05
2ect_A	78	Ring finger protein 126; metal binding protein, st	4e-05
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	4e-05
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	5e-05
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	6e-05
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	6e-05
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	7e-05
3zqk_A	199	VON willebrand factor; blood clotting, adamts-13,	7e-05
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	9e-05
2x5n_A	192	SPRPN10, 26S proteasome regulatory subunit RPN10;	9e-05
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	1e-04
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	1e-04
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	1e-04
1z6u_A	150	NP95-like ring finger protein isoform B; structura	2e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	2e-04
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	3e-04
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	3e-04
3k6s_A	1095	Integrin alpha-X; cell receptor, adhesion molecule	3e-04
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	4e-04
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	4e-04
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	5e-04
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	5e-04
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	6e-04
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	7e-04
2nvo_A	535	RO sixty-related protein, RSR; alpha helical repea	8e-04

>4fx5_A VON willebrand factor type A; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, blood clotting; HET: MSE; 1.73A {Catenulispora acidiphila} Length = 464

 Score =  256 bits (656), Expect = 7e-79
 Identities = 80/411 (19%), Positives = 134/411 (32%), Gaps = 51/411 (12%)

Query: 156 APSLPNDADRAPIDLVTVLDVSGSMS---SKLPLLKRAVHFIIQNLGSADRLSIVIFSSV 212
           A S    A  +    V ++D SGSM    +K+   K A    I  L      ++V  +  
Sbjct: 66  AASYGAPASGSENVEVIIIDCSGSMDYPRTKMMAAKEATKVAIDTLTDGAFFAVVAGTEG 125

Query: 213 ARRIFP----LQRMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASI 268
           AR ++P    L R     R  A  A+  L +NGGT +   L +  R+ +       +   
Sbjct: 126 ARVVYPTGGQLLRADYQSRAAAKEAVGRLHANGGTAMGRWLAQAGRIFDTAPSA--IKHA 183

Query: 269 ILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFG 328
           ILL+DG+D                              +      ++    F     G G
Sbjct: 184 ILLTDGKDESE-------------------------TPADLARAIQSSIGNFTADCRGIG 218

Query: 329 LEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRI 388
            + + + +  IADA  GT   I   + L + F       +     DV L + +   G  I
Sbjct: 219 EDWEPKELRKIADALLGTVGIIRDPATLAEDFREMTAKSMGKEVADVALRLWA-PKGATI 277

Query: 389 GSIPSGRYNSEVL-------DEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRPEC 441
             +     N   L       D         G  +  E +E+ + + +   +   E+    
Sbjct: 278 RYVKQVSPNLADLSGMRVPGDNPLTGDYPTGA-WGAESREYHICVEVEPGNIGQEKL--- 333

Query: 442 TALLDVFCTHKDSASMEIHQVEGEKVEIRRPEVLSTADKKVNLQVDRQRSRLLVAETIAD 501
                V    KD+    +      +        LST    +N +V     +  +A  I +
Sbjct: 334 --AGRVQLVAKDAGGATLLGEGKIRAVWTEDTDLSTR---INGRVAHYTGQAEMAAAIQE 388

Query: 502 AQRMAEVGDLESAQALLAERRSGLLSSAAAQAGDVLCNWLEAELREIRERM 552
                  GDL++A A L       + S       +L    E +    + R 
Sbjct: 389 GLDAQAAGDLDTATARLGRAMDLAVESGHEDTVKMLRKVTEVDPATSKVRA 439

>1shu_X Anthrax toxin receptor 2; alpha/beta rossmann fold, membrane protein; 1.50A {Homo sapiens} SCOP: c.62.1.1 PDB: 1tzn_a 1sht_X 1t6b_Y* Length = 182

 Score =  110 bits (276), Expect = 5e-28
 Identities = 47/195 (24%), Positives = 74/195 (37%), Gaps = 27/195 (13%)

Query: 165 RAPIDLVTVLDVSGSMSSKLPLLKRAV-HFIIQNLGSADRLSIVIFSSVARRIFPLQRMT 223
           R   DL  VLD SGS+++    +   V     + +    RLS ++FSS A  I PL    
Sbjct: 4   RRAFDLYFVLDKSGSVANNWIEIYNFVQQLAERFVSPEMRLSFIVFSSQATIILPLTGDR 63

Query: 224 DSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRN 283
                  +  +  +S  G T I EGLK     +++       + II L+DG+    V   
Sbjct: 64  GK-ISKGLEDLKRVSPVGETYIHEGLKLANEQIQKAGGLKTSSIIIALTDGKLDGLVP-- 120

Query: 284 SYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADAS 343
           SY + EA      +++             R  G     V+  G   + +   +  IAD+ 
Sbjct: 121 SYAEKEA------KIS-------------RSLG---ASVYCVGVL-DFEQAQLERIADSK 157

Query: 344 GGTFSFIETLSILQD 358
              F        L+ 
Sbjct: 158 EQVFPVKGGFQALKG 172

>2x31_A Magnesium-chelatase 60 kDa subunit; ligase, bacteriochlorophyll biosynthesis, photosynthesis; 7.50A {Rhodobacter capsulatus} Length = 189

 Score = 90.8 bits (225), Expect = 3e-21
 Identities = 32/193 (16%), Positives = 70/193 (36%), Gaps = 21/193 (10%)

Query: 164 DRAPIDLVTVLDVSGSMSS-KLPLLKRAV-HFIIQNLGSADRLSIVIFSSVARRIFPLQR 221
           + +   L+  +D SGS +  +L   K AV   + +   + D +S++ F   A ++  L +
Sbjct: 2   EMSDRVLIFAVDASGSAAVARLSEAKGAVELLLGRAYAARDHVSLITFRGTAAQV--LLQ 59

Query: 222 MTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVL 281
            + S      R +  L   GGT +  G++      ++ R R    +I LL+DG+      
Sbjct: 60  PSRS-LTQTKRQLQGLPGGGGTPLASGMEMAMVTAKQARSRGMTPTIALLTDGRGNI--- 115

Query: 282 RNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIAD 341
             +        +   +          +  + R +G    P       +  +   +  +A 
Sbjct: 116 --ALDGTANRELAGEQAT-------KVARAIRASG---MPAVIIDTAMRPNPALV-DLAR 162

Query: 342 ASGGTFSFIETLS 354
                +  +   +
Sbjct: 163 TMDAHYIALPRAT 175

>3n2n_F Anthrax toxin receptor 1; rossmann fold; 1.80A {Homo sapiens} Length = 185

 Score = 71.7 bits (176), Expect = 1e-14
 Identities = 39/198 (19%), Positives = 75/198 (37%), Gaps = 31/198 (15%)

Query: 165 RAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGSAD-RLSIVIFSSVARRIFPLQRMT 223
               DL  +LD SGS+      +   V  +     S   R+S ++FS+    +  L    
Sbjct: 5   YGGFDLYFILDKSGSVLHHWNEIYYFVEQLAHKFISPQLRMSFIVFSTRGTTLMKLTEDR 64

Query: 224 DSGRENAIRAINTLSSNGGTNIVEGLKKGAR-VLEERRERSPVASI-ILLSDGQDTHNVL 281
           +  R+  +  +  +   G T + EG ++ +  +  E R+    AS+ I L+DG+   ++ 
Sbjct: 65  EQIRQ-GLEELQKVLPGGDTYMHEGFERASEQIYYENRQGYRTASVIIALTDGELHEDLF 123

Query: 282 RNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGL-EHDSEAMHAIA 340
              Y++ EA+                     R+ G        +  G+ + +   +  IA
Sbjct: 124 --FYSEREANRS-------------------RDLG-----AIVYAVGVKDFNETQLARIA 157

Query: 341 DASGGTFSFIETLSILQD 358
           D+    F   +    LQ 
Sbjct: 158 DSKDHVFPVNDGFQALQG 175

>3rag_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tructural genomics; 1.80A {Alicyclobacillus acidocaldarius subsp} Length = 242

 Score = 70.2 bits (171), Expect = 1e-13
 Identities = 24/105 (22%), Positives = 37/105 (35%), Gaps = 4/105 (3%)

Query: 163 ADRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGS---ADRLSIVIFSSVARRIFPL 219
            D   + LV  LD S SM  K+P ++ AV  +  +L        +S++ F         L
Sbjct: 130 EDEVALHLVVCLDTSASMRDKIPTVREAVRDLALSLKVRSGPLAVSVIAFPGKGEEATRL 189

Query: 220 QRMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSP 264
            +   S   N       L + GGT     +   A +L        
Sbjct: 190 VQPFSS-EVNVAALEAELVARGGTPTGPAIDHAADLLLSHARNVD 233

>3ibs_A Conserved hypothetical protein BATB; structural genomics, protein structure, midwest center for S genomics, MCSG, PSI-2; HET: MSE; 2.10A {Bacteroides thetaiotaomicron} Length = 218

 Score = 65.8 bits (161), Expect = 2e-12
 Identities = 27/118 (22%), Positives = 56/118 (47%), Gaps = 13/118 (11%)

Query: 168 IDLVTVLDVSGSMS------SKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQR 221
           ++++  LD+S SM       S+L   KR +  ++  L + D++ +++F+  A    P+  
Sbjct: 12  VEVIIALDISNSMLAQDVQPSRLEKAKRLISRLVDELDN-DKVGMIVFAGDAFTQLPIT- 69

Query: 222 MTDSGR-ENAIRAINT-LSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDT 277
            +D    +  + +I+  L S  GT I E +    R    +        II+++DG++ 
Sbjct: 70  -SDYISAKMFLESISPSLISKQGTAIGEAINLATRSFTPQEGVGRA--IIVITDGENH 124

>1q0p_A Complement factor B; VON willebrand factor, MAC-1, I domain, A domain, hydrolase; 1.80A {Homo sapiens} SCOP: c.62.1.1 Length = 223

 Score = 63.4 bits (154), Expect = 2e-11
 Identities = 36/212 (16%), Positives = 76/212 (35%), Gaps = 30/212 (14%)

Query: 166 APIDLVTVLDVSGSMSSK-LPLLKRAVHFIIQNLGSAD---RLSIVIFSSVARRIFPLQR 221
             +++  VLD S S+ +      K+++  +I+ + S     R  +V +++  +    +  
Sbjct: 14  GSMNIYLVLDGSDSIGASNFTGAKKSLVNLIEKVASYGVKPRYGLVTYATYPKIWVKVSE 73

Query: 222 MTDSGRENAIRAINTLS-----SNGGTNIVEGLKKGARVLEERRERSPVAS------IIL 270
              S  +   + +N ++        GTN  + L+    ++    +  P         IIL
Sbjct: 74  ADSSNADWVTKQLNEINYEDHKLKSGTNTKKALQAVYSMMSWPDDVPPEGWNRTRHVIIL 133

Query: 271 LSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLE 330
           ++DG                  I   +     L       + RE       V+ FG G  
Sbjct: 134 MTDGL----------HNMGGDPITVIDEIRDLLYIGKDRKNPREDY---LDVYVFGVGPL 180

Query: 331 HDSEAMHAIA-DASGGTFSF-IETLSILQDAF 360
            +   ++A+A         F ++ +  L+D F
Sbjct: 181 VNQVNINALASKKDNEQHVFKVKDMENLEDVF 212

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 74

 Score = 56.9 bits (137), Expect = 1e-10
 Identities = 19/62 (30%), Positives = 24/62 (38%), Gaps = 6/62 (9%)

Query: 1  KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQ-HGNRICPICRCEW-KDVPFQAP 58
          K C IC   L +GQ        C    H  C+A   Q +    CP C   W  ++P   P
Sbjct: 16 KICNICHSLLIQGQSCE----TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIPKSGP 71

Query: 59 GS 60
           S
Sbjct: 72 SS 73

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 69

 Score = 51.1 bits (122), Expect = 1e-08
 Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 3/48 (6%)

Query: 2  TCPICLGSLR--RGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICR 47
          +CPIC+         G  I + EC H F   C+  ++++ N  CP CR
Sbjct: 17 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT-CPTCR 63

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens} Length = 100

 Score = 52.2 bits (125), Expect = 1e-08
 Identities = 15/48 (31%), Positives = 17/48 (35%), Gaps = 4/48 (8%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCE 49
           C IC+  LR     A     CS    F CI   +      CP CR  
Sbjct: 24 RCFICMEKLRD----ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAP 67

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus} Length = 71

 Score = 51.0 bits (122), Expect = 1e-08
 Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 3/48 (6%)

Query: 2  TCPICLGSLRR--GQGVAIFTAECSHSFHFCCIAANVQHGNRICPICR 47
          +CPIC+         G  I + EC H F   C+  ++++ N  CP CR
Sbjct: 12 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT-CPTCR 58

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens} Length = 64

 Score = 49.8 bits (119), Expect = 2e-08
 Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 3/48 (6%)

Query: 2  TCPICLGSLRRGQGVA--IFTAECSHSFHFCCIAANVQHGNRICPICR 47
          +CPIC+            I + EC H F   C+  ++++ N  CP CR
Sbjct: 5  SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT-CPTCR 51

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1 Length = 68

 Score = 49.7 bits (119), Expect = 3e-08
 Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 5/53 (9%)

Query: 1  KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDV 53
          + CPICL               C H+F + CI   ++  N  CP+C+   + V
Sbjct: 6  ERCPICLEDPSN----YSMALPCLHAFCYVCITRWIRQ-NPTCPLCKVPVESV 53

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 72

 Score = 49.0 bits (117), Expect = 6e-08
 Identities = 20/60 (33%), Positives = 24/60 (40%), Gaps = 6/60 (10%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCE-WKDVPFQAPGS 60
           C IC G L      A    EC H+F   CI  +  + NR CP C     +  P   P S
Sbjct: 17 LCSICKGYLID----ATTITECLHTFCKSCIVRHFYYSNR-CPKCNIVVHQTQPLSGPSS 71

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 81

 Score = 49.1 bits (117), Expect = 8e-08
 Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 4/51 (7%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAA-NVQHGNRICPICRCEWK 51
           C  C    ++   V ++  EC+HSFH CC++    Q+    CP+C+ +W 
Sbjct: 28 ACLRCQAENKQEDCVVVWG-ECNHSFHNCCMSLWVKQNNR--CPLCQQDWV 75

>1mf7_A Integrin alpha M; cell adhesion; 1.25A {Homo sapiens} SCOP: c.62.1.1 PDB: 1na5_A 1jlm_A 1ido_A 1m1u_A 3q3g_G 1n9z_A 1bhq_1 1bho_1 1idn_1 3qa3_G Length = 194

 Score = 51.6 bits (124), Expect = 9e-08
 Identities = 25/124 (20%), Positives = 51/124 (41%), Gaps = 8/124 (6%)

Query: 165 RAPIDLVTVLDVSGSMSSK-LPLLKRAVHFIIQNLG-SADRLSIVIFSSVARRIFPLQRM 222
           +   D+  ++D SGS+       +K  V  +++ L  S    S++ +S   R  F  +  
Sbjct: 3   QEDSDIAFLIDGSGSIIPHDFRRMKEFVSTVMEQLKKSKTLFSLMQYSEEFRIHFTFKEF 62

Query: 223 TDSGRENAIRAINTLS-SNGGTNIVEGLKKGARVL--EERRERSPVASI-ILLSDGQDTH 278
            +    N    +  ++   G T+   G++K  R L       R     I ++++DG+   
Sbjct: 63  QN--NPNPRSLVKPITQLLGRTHTATGIRKVVRELFNITNGARKNAFKILVVITDGEKFG 120

Query: 279 NVLR 282
           + L 
Sbjct: 121 DPLG 124

>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A Length = 108

 Score = 49.4 bits (118), Expect = 1e-07
 Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 5/48 (10%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCE 49
           C +C G        A    EC HSF   CI   ++  ++ CPIC  +
Sbjct: 17 MCVLCGGYFID----ATTIIECLHSFCKTCIVRYLET-SKYCPICDVQ 59

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 54.5 bits (130), Expect = 1e-07
 Identities = 89/658 (13%), Positives = 186/658 (28%), Gaps = 186/658 (28%)

Query: 25  HSFHFCCIAANVQHGNR-ICPICRCEW-KDVPFQAPGSVIDARRNNMARARVSPFNAAPE 82
           H  H        Q+  + I  +    +  +   +    V D  ++ +++  +     + +
Sbjct: 3   HHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCK---DVQDMPKSILSKEEIDHIIMSKD 59

Query: 83  DASAPGARRNVPTTFQLPAEP-EQFTDD----------EQLSVNSIGPASPSRAQALAVK 131
             S  G  R   T      E  ++F ++            +      P+  +R       
Sbjct: 60  AVS--GTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD 117

Query: 132 AF----PEFGAVAAAECPPKFAVL-------LRVCAPSLPNDADRAPIDLV--------T 172
                   F          K+ V        LR     L      A   L+        T
Sbjct: 118 RLYNDNQVF---------AKYNVSRLQPYLKLRQALLEL----RPAKNVLIDGVLGSGKT 164

Query: 173 VLDVSGSMSSKL-PLLKRAVHFIIQNLGSADRLSIVI-------------FSSVARRIFP 218
            + +   +S K+   +   + ++  NL + +    V+             ++S +     
Sbjct: 165 WVALDVCLSYKVQCKMDFKIFWL--NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSN 222

Query: 219 LQRMTDSGRENAIRAI------NTL-------SSNGGTNIVEGLKKGARVLEERRERSPV 265
           ++    S +    R +      N L       ++              ++L   R +  V
Sbjct: 223 IKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAK----AWNAFNLSCKILLTTRFKQ-V 277

Query: 266 ASIILLSDGQDTHNVL---RNSYTQDEASSIPSNELA-YLNL----LPSSICL------- 310
                LS    TH  L     + T DE  S+    L  YL+     LP  +         
Sbjct: 278 TDF--LSAATTTHISLDHHSMTLTPDEVKSL----LLKYLDCRPQDLPREVLTTNPRRLS 331

Query: 311 ----SKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLS--ILQDAFARCI 364
               S R+       + T+      + + +  I ++S      +  L     +  F R  
Sbjct: 332 IIAESIRD------GLATWDNWKHVNCDKLTTIIESS------LNVLEPAEYRKMFDR-- 377

Query: 365 GGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYAD---EEKE 421
              LSV                    IP+              ++ +  ++ D    +  
Sbjct: 378 ---LSVFPPSAH--------------IPT-------------ILLSL--IWFDVIKSDVM 405

Query: 422 FMVYLSIPVSSAEGEQRPECTALLDVFC--THKDSASMEIHQVEGEKVEIRRPEVLSTAD 479
            +V      S  E + +    ++  ++     K      +H+   +   I +      +D
Sbjct: 406 VVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKT---FDSD 462

Query: 480 KKVNLQVDRQRSRLLV--AETIADAQRMAEVG----DLESAQALLAERRSGLLSSAAAQA 533
             +   +D+     +    + I   +RM        D    +  +  R      +A+   
Sbjct: 463 DLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKI--RHDSTAWNASGSI 520

Query: 534 GDVLCNWLEAELREIRERMASMD-LYERTGRAYL--LSGLSSHSWQRATTRGDTTQIL 588
            + L      +L+  +  +   D  YER   A L  L  +  +           T +L
Sbjct: 521 LNTL-----QQLKFYKPYICDNDPKYERLVNAILDFLPKIEENL-----ICSKYTDLL 568

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 46.0 bits (108), Expect = 4e-05
 Identities = 88/590 (14%), Positives = 159/590 (26%), Gaps = 212/590 (35%)

Query: 151 LLRVCAPSLPNDADRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGSADRLSIVIFS 210
           +L V   +  ++ D          DV     S L   K  +  II    S D +S     
Sbjct: 21  ILSVFEDAFVDNFD--------CKDVQDMPKSILS--KEEIDHIIM---SKDAVSGT--- 64

Query: 211 SVARRIFPLQRMTDSGRENAIRAINT-LSSNGGTNIVEGLKKGAR-------VLEERRER 262
               R+F    +     E   + +   L  N    ++  +K   R       +  E+R+R
Sbjct: 65  ---LRLFWT--LLSKQEEMVQKFVEEVLRINYKF-LMSPIKTEQRQPSMMTRMYIEQRDR 118

Query: 263 SPVASIILLSDGQ--DTHNV--------LRNSYTQDEASSIPSNELAYLNL--------- 303
                  L +D Q    +NV        LR +  +      P+     + +         
Sbjct: 119 -------LYNDNQVFAKYNVSRLQPYLKLRQALLELR----PAK---NVLIDGVLGSGKT 164

Query: 304 -LPSSICLSKREAGQPTFPVHTFGFGLEHDSEAM---------------HAIADASGGTF 347
            +   +CLS +   +  F +        +  E +                + +D S    
Sbjct: 165 WVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK 224

Query: 348 SFIETLS------ILQDAFARCIGGLLSVVSQDVK---------------LTIRSKSAGV 386
             I ++       +    +  C   LL  V  +V+               LT R K    
Sbjct: 225 LRIHSIQAELRRLLKSKPYENC---LL--VLLNVQNAKAWNAFNLSCKILLTTRFKQV-- 277

Query: 387 RIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKE-FMVYLSIPVSSAEGEQRPE-CTA- 443
               + +       LD           L  DE K   + YL         +   E  T  
Sbjct: 278 -TDFLSAATTTHISLDHHSMT------LTPDEVKSLLLKYLDCRPQ----DLPREVLTTN 326

Query: 444 --LLDVFCTHKDSASMEIH--------QVEGEKVE--IRRP-EVLSTADKK--------- 481
              L +      + S+            V  +K+   I     VL  A+ +         
Sbjct: 327 PRRLSII-----AESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF 381

Query: 482 ---VNL--QVDRQRSRLLVAETIADAQRMAEVGDLESAQALLAERRS--------GLLSS 528
               ++   +    S +      +D   +      +  +  L E++          +   
Sbjct: 382 PPSAHIPTIL---LSLIWFDVIKSDVMVVVN----KLHKYSLVEKQPKESTISIPSIYLE 434

Query: 529 AAAQAGDVLCNWLEAEL-REIRERMASMDLYERTGRA------YLLSGLSSH-------- 573
              +  +      E  L R I +       ++           Y  S +  H        
Sbjct: 435 LKVKLEN------EYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPE 488

Query: 574 ------------SWQRATTRGDTTQILATNGDRGHSGSIDST----RSYE 607
                        +     R D+T   A N     SGSI +T    + Y+
Sbjct: 489 RMTLFRMVFLDFRFLEQKIRHDST---AWNA----SGSILNTLQQLKFYK 531

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 43.7 bits (102), Expect = 2e-04
 Identities = 77/523 (14%), Positives = 129/523 (24%), Gaps = 198/523 (37%)

Query: 6   CLGSLRRGQGVAIF----------TAE--------CSHSFH-F------CCIAANV-QHG 39
            L  LR  + V I             +        C   F  F      C     V +  
Sbjct: 143 ALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML 202

Query: 40  NRICPICRCEWKDVPFQAPG------SVIDARRNNMARAR----------------VSPF 77
            ++       W      +        S+    R  +                     + F
Sbjct: 203 QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAF 262

Query: 78  NAAPEDASAPGAR-----RNVPTTFQLPA----------EPEQFTDDEQLSVNSIGPASP 122
           N           +     R    T  L A               T DE  S+        
Sbjct: 263 N--------LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL-------- 306

Query: 123 SRAQALAVKAF--PEFGAVAAAECPPKFAVLLRVCAPSLPNDADRAPID---------LV 171
              + L  +    P           P     L + A S+ +       D         L 
Sbjct: 307 -LLKYLDCRPQDLPR----EVLTTNP---RRLSIIAESIRDGLAT--WDNWKHVNCDKLT 356

Query: 172 TVLDVSGSMSSKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAI 231
           T+++ S                 +  L  A+     +F  ++  +FP          +A 
Sbjct: 357 TIIESS-----------------LNVLEPAEYRK--MFDRLS--VFP---------PSAH 386

Query: 232 RAINTLS---SNGGTN----IVEGLKKGARVLEERRERSPVASI--ILL------SDGQD 276
                LS    +   +    +V  L K    L E++ +    SI  I L       +   
Sbjct: 387 IPTILLSLIWFDVIKSDVMVVVNKLHK--YSLVEKQPKESTISIPSIYLELKVKLENEYA 444

Query: 277 THNVLRNSYTQ----DEASSIPSNELAYLNLLPSSIC------LSKREAGQ--PTFPVHT 324
            H  + + Y      D    IP     Y               L   E  +    F +  
Sbjct: 445 LHRSIVDHYNIPKTFDSDDLIPPYLDQY-------FYSHIGHHLKNIEHPERMTLFRMVF 497

Query: 325 FGFG-----LEHDSEAMHAIADASGGTFSFIETLSILQD-------------AFARCIGG 366
             F      + HDS A +A              L+ LQ               + R +  
Sbjct: 498 LDFRFLEQKIRHDSTAWNASGS----------ILNTLQQLKFYKPYICDNDPKYERLVNA 547

Query: 367 LLSVVSQDVKLTIRSKSAG-VRIGSIPSGRYNSEVLDEGQQAV 408
           +L  + +  +  I SK    +RI  +     +  + +E  + V
Sbjct: 548 ILDFLPKIEENLICSKYTDLLRIALMAE---DEAIFEEAHKQV 587

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A Length = 55

 Score = 47.3 bits (113), Expect = 2e-07
 Identities = 14/45 (31%), Positives = 19/45 (42%), Gaps = 2/45 (4%)

Query: 3  CPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICR 47
          CPICL  +   + VA     C H  H  C    ++     CP+C 
Sbjct: 8  CPICLEDIHTSRVVAHVLP-CGHLLHRTCYEEMLKE-GYRCPLCS 50

>1n3y_A Integrin alpha-X; alpha/beta rossmann fold, cell adhesion; 1.65A {Homo sapiens} SCOP: c.62.1.1 Length = 198

 Score = 50.5 bits (121), Expect = 3e-07
 Identities = 25/117 (21%), Positives = 48/117 (41%), Gaps = 8/117 (6%)

Query: 165 RAPIDLVTVLDVSGSMSSK-LPLLKRAVHFIIQNLGSAD-RLSIVIFSSVARRIFPLQRM 222
           R   D+V ++D SGS+SS+    +   V  +I        + S++ FS+  +  F  +  
Sbjct: 7   RQEQDIVFLIDGSGSISSRNFATMMNFVRAVISQFQRPSTQFSLMQFSNKFQTHFTFEEF 66

Query: 223 TDSGRENAIRAINTLS-SNGGTNIVEGLKKGARVL--EERRERSPVASI-ILLSDGQ 275
                 N +  + ++    G T     ++     L       R   A I I+++DG+
Sbjct: 67  RR--SSNPLSLLASVHQLQGFTYTATAIQNVVHRLFHASYGARRDAAKILIVITDGK 121

>1ijb_A VON willebrand factor; dinucleotide-binding fold, blood clotting; 1.80A {Homo sapiens} SCOP: c.62.1.1 PDB: 1ijk_A 1auq_A 1u0n_A 3hxo_A 1uex_C 3hxq_A 1sq0_A 1m10_A 1fns_A 1oak_A 1u0o_C Length = 202

 Score = 50.4 bits (121), Expect = 3e-07
 Identities = 28/134 (20%), Positives = 52/134 (38%), Gaps = 9/134 (6%)

Query: 157 PSLPNDADRAPIDLVTVLDVSGSMSSK-LPLLKRAVHFIIQNLG---SADRLSIVIFSSV 212
           P L +      +DLV +LD S  +S     +LK  V  +++ L       R+++V +   
Sbjct: 3   PPLHDFYCSRLLDLVFLLDGSSRLSEAEFEVLKAFVVDMMERLRVSQKWVRVAVVEYHDG 62

Query: 213 ARRIFPLQRMTDSGRENAIRAINTLSSNGG--TNIVEGLKKGARVLEERRERSPVASI-I 269
           +     L+           R  + +   G    +  E LK     +  + +R   + I +
Sbjct: 63  SHAYIGLKDRKR--PSELRRIASQVKYAGSQVASTSEVLKYTLFQIFSKIDRPEASRIAL 120

Query: 270 LLSDGQDTHNVLRN 283
           LL   Q+   + RN
Sbjct: 121 LLMASQEPQRMSRN 134

>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B Length = 165

 Score = 48.8 bits (116), Expect = 7e-07
 Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 4/46 (8%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICR 47
           CPICL  L+      + T EC H F   CI   ++ GN+ CP CR
Sbjct: 56 MCPICLDMLKN----TMTTKECLHRFCADCIITALRSGNKECPTCR 97

>1mjn_A Integrin alpha-L; rossmann fold, immune system; 1.30A {Homo sapiens} SCOP: c.62.1.1 PDB: 3hi6_A 1mq8_B* 3eoa_I 3eob_I 1rd4_A* 1lfa_A 1zon_A 1zoo_A 1zop_A 1dgq_A 1xdd_A* 1xdg_A* 1xuo_A* 3e2m_A* 3bqn_B* 1cqp_A* 3bqm_B* 2ica_A* 2o7n_A* 3m6f_A* ... Length = 179

 Score = 48.1 bits (115), Expect = 1e-06
 Identities = 20/116 (17%), Positives = 45/116 (38%), Gaps = 8/116 (6%)

Query: 166 APIDLVTVLDVSGSMSSK-LPLLKRAVHFIIQNLG-SADRLSIVIFSSVARRIFPLQRMT 223
             +DLV + D S S+       +   +  +++    ++ + + V FS+  +  F      
Sbjct: 1   GNVDLVFLFDGSMSLQPDEFQKILDFMKDVMKKCSNTSYQFAAVQFSTSYKTEFDFSDYV 60

Query: 224 DSGRENAIRAINTLS-SNGGTNIVEGLKKGARVL--EERRERSPVASI-ILLSDGQ 275
              R++    +  +      TN    +   A  +  EE   R     + I+++DG+
Sbjct: 61  K--RKDPDALLKHVKHMLLLTNTFGAINYVATEVFREELGARPDATKVLIIITDGE 114

>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch signaling, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.44.1.1 Length = 114

 Score = 46.8 bits (110), Expect = 1e-06
 Identities = 20/77 (25%), Positives = 29/77 (37%), Gaps = 18/77 (23%)

Query: 2   TCPICLGSLRRGQGVAIFTAE-------------CSHSFHFCCIAANVQHGNR----ICP 44
            C IC+  L    G +  T               CSH+FH  C+ A   +GN+     CP
Sbjct: 27  DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP 86

Query: 45  ICRCEW-KDVPFQAPGS 60
            C+  + +    Q  G 
Sbjct: 87  SCKTIYGEKTGTQPWGK 103

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 71

 Score = 45.2 bits (107), Expect = 1e-06
 Identities = 14/57 (24%), Positives = 21/57 (36%), Gaps = 6/57 (10%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAP 58
           C ICL +          +  C H F + C+      G R C +CR E  +    + 
Sbjct: 17 ECAICLQTCVHP-----VSLPCKHVFCYLCVKGASWLGKR-CALCRQEIPEDFLDSG 67

>2xgg_A Microneme protein 2; A/I domain, cell adhesion, hydrolase; 2.05A {Toxoplasma gondii} Length = 178

 Score = 47.7 bits (114), Expect = 2e-06
 Identities = 29/129 (22%), Positives = 55/129 (42%), Gaps = 9/129 (6%)

Query: 155 CAPSLPNDADRAPIDLVTVLDVSGSMSSK-LPLLKRAVHFIIQNLG---SADRLSIVIFS 210
             P          +D+  ++D SGS+  +   L+K+ +H  +  L         ++V +S
Sbjct: 6   LVPRGS-AMGTNQLDICFLIDSSGSIGIQNFRLVKQFLHTFLMVLPIGPEEVNNAVVTYS 64

Query: 211 SVARRIFPLQRMTDSGRENAIRAINTLS-SNGGTNIVEGLKKGARVL--EERRERSPVAS 267
           +     + LQ      ++ A  A+  +    G TN  +GLK   ++L    R  R  V  
Sbjct: 65  TDVHLQWDLQSPNAVDKQLAAHAVLDMPYKKGSTNTSDGLKACKQILFTGSRPGREHVPK 124

Query: 268 I-ILLSDGQ 275
           + I ++DG+
Sbjct: 125 LVIGMTDGE 133

>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B Length = 78

 Score = 45.1 bits (106), Expect = 2e-06
 Identities = 13/55 (23%), Positives = 20/55 (36%), Gaps = 1/55 (1%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQ 56
           CP+C+  L     +  F   C +     C        N +CP CR  + + P  
Sbjct: 13 ECPLCMEPLE-IDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAV 66

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens} Length = 124

 Score = 46.1 bits (109), Expect = 2e-06
 Identities = 11/53 (20%), Positives = 17/53 (32%), Gaps = 5/53 (9%)

Query: 2   TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVP 54
            C  C   + R       T  C H+    C+  + +     CP CR +     
Sbjct: 54  QCICCQELVFRP-----ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSY 101

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 66

 Score = 44.4 bits (105), Expect = 3e-06
 Identities = 12/46 (26%), Positives = 16/46 (34%), Gaps = 5/46 (10%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICR 47
           C  C   L           EC H F   C+AA +   +  C  C+
Sbjct: 17 KCEKCHLVLCS-----PKQTECGHRFCESCMAALLSSSSPKCTACQ 57

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus} Length = 133

 Score = 46.3 bits (109), Expect = 3e-06
 Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 3/49 (6%)

Query: 2  TCPICLGSLR--RGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRC 48
          +CPIC+         G  I + EC H F   C+  ++++ N  CP CR 
Sbjct: 9  SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT-CPTCRK 56

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 74

 Score = 43.6 bits (103), Expect = 5e-06
 Identities = 12/51 (23%), Positives = 23/51 (45%), Gaps = 7/51 (13%)

Query: 1  KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQ--HGNRICPICRCE 49
          + C +CL   +    + I    C H+FH  C+   ++     ++CP+C   
Sbjct: 16 ELCAVCLEDFKPRDELGICP--CKHAFHRKCL---IKWLEVRKVCPLCNMP 61

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens} Length = 69

 Score = 43.5 bits (103), Expect = 6e-06
 Identities = 19/50 (38%), Positives = 23/50 (46%), Gaps = 7/50 (14%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQ--HGNRICPICRCE 49
           C ICL  L  G+ V      C H FH  C+    Q    N+ CPICR +
Sbjct: 16 KCTICLSILEEGEDVRRLP--CMHLFHQVCV---DQWLITNKKCPICRVD 60

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A Length = 118

 Score = 44.4 bits (105), Expect = 9e-06
 Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 5/46 (10%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICR 47
           CPICL +LR           C H F   CI  +++     CP+  
Sbjct: 20 ECPICLMALREA-----VQTPCGHRFCKACIIKSIRDAGHKCPVDN 60

>1pt6_A Integrin alpha-1; cell adhesion; 1.87A {Homo sapiens} SCOP: c.62.1.1 PDB: 4a0q_A 1qcy_A 1qc5_A 1qc5_B 1ck4_A 1mhp_A Length = 213

 Score = 46.3 bits (110), Expect = 9e-06
 Identities = 28/131 (21%), Positives = 47/131 (35%), Gaps = 19/131 (14%)

Query: 165 RAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGSAD------RLSIVIFSSVARRIFP 218
              +D+V VLD S S+            F+   L   D      ++ IV +       F 
Sbjct: 5   STQLDIVIVLDGSNSIYPW----DSVTAFLNDLLKRMDIGPKQTQVGIVQYGENVTHEFN 60

Query: 219 LQRMTDSGRENAIRAINTLSSNGG--TNIVEGLKKGARVL--EERRERSPVASI-ILLSD 273
           L + +    E  + A   +   GG  T    G     +    E R  R  V  + ++++D
Sbjct: 61  LNKYSS--TEEVLVAAKKIVQRGGRQTMTALGTDTARKEAFTEARGARRGVKKVMVIVTD 118

Query: 274 G--QDTHNVLR 282
           G   D H + +
Sbjct: 119 GESHDNHRLKK 129

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens} Length = 74

 Score = 42.8 bits (101), Expect = 1e-05
 Identities = 12/49 (24%), Positives = 18/49 (36%), Gaps = 9/49 (18%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFC--CIAAN-VQHGNRICPICR 47
           C IC   +      A+    C +S+  C  CI    ++     CP C 
Sbjct: 17 LCLICKDIMTD----AVVIPCCGNSY--CDECIRTALLESDEHTCPTCH 59

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens} Length = 170

 Score = 45.1 bits (106), Expect = 1e-05
 Identities = 14/47 (29%), Positives = 19/47 (40%), Gaps = 5/47 (10%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRC 48
           CPICL +LR           C H F   CI  +++     CP+   
Sbjct: 20 ECPICLMALRE-----AVQTPCGHRFCKACIIKSIRDAGHKCPVDNE 61

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A Length = 106

 Score = 43.7 bits (102), Expect = 1e-05
 Identities = 14/63 (22%), Positives = 26/63 (41%), Gaps = 14/63 (22%)

Query: 2   TCPICL-------------GSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRC 48
            C IC               +    +   +    C+H+FHF CI+  ++   ++CP+   
Sbjct: 39  NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNR 97

Query: 49  EWK 51
           EW+
Sbjct: 98  EWE 100

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens} Length = 238

 Score = 45.9 bits (108), Expect = 1e-05
 Identities = 15/52 (28%), Positives = 18/52 (34%), Gaps = 5/52 (9%)

Query: 2   TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQ-HGNRICPICRCEWKD 52
            C IC   L +GQ        C    H  C+A   Q +    CP C   W  
Sbjct: 182 ICNICHSLLIQGQS----CETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH 229

>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase, protein binding complex; 4.80A {Homo sapiens} Length = 149

 Score = 44.3 bits (104), Expect = 2e-05
 Identities = 16/54 (29%), Positives = 21/54 (38%), Gaps = 6/54 (11%)

Query: 2   TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPF 55
            C IC             T  C+HSF   CI   ++     CPICR + K   +
Sbjct: 66  QCIICSEYFIEA-----VTLNCAHSFCSYCINEWMKRKIE-CPICRKDIKSKTY 113

>2b2x_A Integrin alpha-1; computational design, antibody-antigen complex, immune syste; 2.20A {Rattus norvegicus} SCOP: c.62.1.1 Length = 223

 Score = 45.5 bits (108), Expect = 2e-05
 Identities = 29/135 (21%), Positives = 51/135 (37%), Gaps = 17/135 (12%)

Query: 152 LRVCAPSLPNDADRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGSAD------RLS 205
            +V     P       +D+V VLD S S+       +  + F+   L   D      ++ 
Sbjct: 7   FQVVNSFAPVQECSTQLDIVIVLDGSNSIYP----WESVIAFLNDLLKRMDIGPKQTQVG 62

Query: 206 IVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNGG--TNIVEGLKKGARVL--EERRE 261
           IV +       F L + +    E  + A N +   GG  T    G+    +    E R  
Sbjct: 63  IVQYGENVTHEFNLNKYSS--TEEVLVAANKIVQRGGRQTMTALGIDTARKEAFTEARGA 120

Query: 262 RSPVASI-ILLSDGQ 275
           R  V  + ++++DG+
Sbjct: 121 RRGVKKVMVIVTDGE 135

>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA complex, DNA-binding protein- complex; HET: DNA 3DR; 5.93A {Mus musculus} Length = 117

 Score = 43.3 bits (101), Expect = 2e-05
 Identities = 14/64 (21%), Positives = 26/64 (40%), Gaps = 14/64 (21%)

Query: 1   KTCPICL-------------GSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICR 47
             C IC               +    +   +    C+H+FHF CI+  ++   ++CP+  
Sbjct: 49  DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDN 107

Query: 48  CEWK 51
            EW+
Sbjct: 108 REWE 111

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 70

 Score = 42.0 bits (99), Expect = 2e-05
 Identities = 18/49 (36%), Positives = 23/49 (46%), Gaps = 9/49 (18%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAA-NVQHGNRICPICRCE 49
           C IC+       G A     C+HSF   CI   + +H N  CPICR +
Sbjct: 17 ECCICM------DGRADLILPCAHSFCQKCIDKWSDRHRN--CPICRLQ 57

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1 Length = 55

 Score = 41.4 bits (98), Expect = 2e-05
 Identities = 15/47 (31%), Positives = 19/47 (40%), Gaps = 4/47 (8%)

Query: 3  CPICLGSLRRGQGVAIFTAECSHSFHFCCIAA-NVQHGNRICPICRC 48
          C +CL  L  G+        C H FH  C+      H    CP+CR 
Sbjct: 8  CAVCLAELEDGEEARFLPR-CGHGFHAECVDMWLGSHST--CPLCRL 51

>1v7p_C Integrin alpha-2; snake venom, C-type lectin, antagonist, cell adhes glycoprotein, toxin-cell adhesion complex; HET: NAG; 1.90A {Homo sapiens} SCOP: c.62.1.1 PDB: 1aox_A 1dzi_A Length = 200

 Score = 44.3 bits (105), Expect = 3e-05
 Identities = 23/133 (17%), Positives = 51/133 (38%), Gaps = 17/133 (12%)

Query: 166 APIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGSAD------RLSIVIFSSVARRIFPL 219
           + ID+V V D S S+           +F+ + +   D      ++ ++ +++  R +F L
Sbjct: 5   SLIDVVVVCDESNSIYP----WDAVKNFLEKFVQGLDIGPTKTQVGLIQYANNPRVVFNL 60

Query: 220 QRMTDSGRENAIRAINTLSSNGG--TNIVEGLKKGARVL--EERRERSPVASI-ILLSDG 274
                  +E  I A +  S  GG  TN    ++   +         R     + ++++DG
Sbjct: 61  NTYKT--KEEMIVATSQTSQYGGDLTNTFGAIQYARKYAYSAASGGRRSATKVMVVVTDG 118

Query: 275 QDTHNVLRNSYTQ 287
           +     +  +   
Sbjct: 119 ESHDGSMLKAVID 131

>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA damage, chromatin regulator, chromosomal protein, DNA repair, metal-binding; 2.12A {Homo sapiens} Length = 115

 Score = 42.6 bits (100), Expect = 3e-05
 Identities = 14/59 (23%), Positives = 21/59 (35%), Gaps = 9/59 (15%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFC--CIAANVQHGNRICPICRCEWKDVPFQAP 58
           C IC+  L       + T  C+H+   C  C  + V+  +  CP CR           
Sbjct: 17 QCGICMEILVE----PV-TLPCNHTL--CKPCFQSTVEKASLCCPFCRRRVSSWTRYHT 68

>1atz_A VON willebrand factor; collagen-binding, hemostasis, dinucleotide binding fold; 1.80A {Homo sapiens} SCOP: c.62.1.1 PDB: 4dmu_B 2adf_A 1fe8_A 1ao3_A Length = 189

 Score = 44.2 bits (105), Expect = 3e-05
 Identities = 20/125 (16%), Positives = 46/125 (36%), Gaps = 10/125 (8%)

Query: 166 APIDLVTVLDVSGSMSSK-LPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQR 221
            P+D++ +LD S S  +     +K      I          ++S++ + S+     P   
Sbjct: 4   QPLDVILLLDGSSSFPASYFDEMKSFAKAFISKANIGPRLTQVSVLQYGSITTIDVPWNV 63

Query: 222 MTDSGRENAIRAINTLS-SNGGTNIVEGLKKGARVL--EERRERSPVASI-ILLSDGQDT 277
           + +  + + +  ++ +    G + I + L    R L  E    R   +   ++L      
Sbjct: 64  VPE--KAHLLSLVDVMQREGGPSQIGDALGFAVRYLTSEMHGARPGASKAVVILVTDVSV 121

Query: 278 HNVLR 282
            +V  
Sbjct: 122 DSVDA 126

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 78

 Score = 41.3 bits (97), Expect = 4e-05
 Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 5/49 (10%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAA-NVQHGNRICPICRCE 49
           CP+C      G+ V      C+H FH  CI     QH +  CP+CR  
Sbjct: 17 ECPVCKEDYALGESVRQLP--CNHLFHDSCIVPWLEQHDS--CPVCRKS 61

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens} Length = 99

 Score = 42.1 bits (99), Expect = 4e-05
 Identities = 12/48 (25%), Positives = 19/48 (39%), Gaps = 5/48 (10%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCE 49
           C IC          A+   +CSH++   CI   + +  + CP C   
Sbjct: 24 RCGICFEYFNI----AMIIPQCSHNYCSLCIRKFLSYKTQ-CPTCCVT 66

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 75

 Score = 40.8 bits (96), Expect = 5e-05
 Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 7/50 (14%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQ--HGNRICPICRCE 49
           C +C+      Q + +    C+H FH  C+    +    NR CPICR +
Sbjct: 25 LCVVCMCDFESRQLLRVLP--CNHEFHAKCV---DKWLKANRTCPICRAD 69

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 65

 Score = 40.3 bits (94), Expect = 6e-05
 Identities = 12/48 (25%), Positives = 17/48 (35%), Gaps = 4/48 (8%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFC--CIAANVQHGNRICPICR 47
           CP C  +  R   + +    C H+   C  C+      G   CP C 
Sbjct: 5  GCPRCKTTKYRNPSLKLMVNVCGHTL--CESCVDLLFVRGAGNCPECG 50

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens} Length = 91

 Score = 41.2 bits (97), Expect = 6e-05
 Identities = 16/48 (33%), Positives = 21/48 (43%), Gaps = 5/48 (10%)

Query: 3  CPICLGSLRRGQGVAIFTAECSHSFHFCCIAA-NVQHGNRICPICRCE 49
          CPIC     +G         C H FH  C++    + G   CP+CRC 
Sbjct: 43 CPICCSEYVKGDVATELP--CHHYFHKPCVSIWLQKSGT--CPVCRCM 86

>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein 4, UIP4, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 94

 Score = 41.0 bits (96), Expect = 7e-05
 Identities = 14/54 (25%), Positives = 19/54 (35%), Gaps = 9/54 (16%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCC----IAANVQHGNR---ICPICRC 48
           C +CLG     Q   I  A+C   F   C    +   ++ G      CP   C
Sbjct: 7  GCKLCLGEYPVEQMTTI--AQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC 58

>3zqk_A VON willebrand factor; blood clotting, adamts-13, force sensor, VON willebrand DISE domain, haemostasis; HET: NAG; 1.70A {Homo sapiens} PDB: 3ppv_A 3ppx_A 3ppw_A 3ppy_A 3gxb_A* Length = 199

 Score = 43.1 bits (102), Expect = 7e-05
 Identities = 17/135 (12%), Positives = 51/135 (37%), Gaps = 11/135 (8%)

Query: 157 PSLPNDADRAPIDLVTVLDVSGSMSSK-LPLLKRAVHFIIQNLG---SADRLSIVIFSSV 212
            +L    +   +D+  VL+ S  +        K  +  +IQ +     +  ++++ +S +
Sbjct: 11  STLGPKRNSMVLDVAFVLEGSDKIGEADFNRSKEFMEEVIQRMDVGQDSIHVTVLQYSYM 70

Query: 213 ARRIFPLQRMTDSGRENAIRAINTLSSNGG--TNIVEGLKKGARVL--EERRERSPVASI 268
               +P        + + ++ +  +   GG  TN    L+  +       + +R    ++
Sbjct: 71  VTVEYPFSEAQS--KGDILQRLREIRYQGGNRTNTGLALRYLSDHSFLVSQGDREQAPNL 128

Query: 269 -ILLSDGQDTHNVLR 282
             +++    +  + R
Sbjct: 129 VYMVTGNPASDEIKR 143

>3knv_A TNF receptor-associated factor 2; cross-brace, alternative splicing, apoptosis, cytoplasm, metal-binding, UBL conjugation, zinc, zinc-finger; 1.90A {Homo sapiens} Length = 141

 Score = 42.0 bits (98), Expect = 9e-05
 Identities = 19/70 (27%), Positives = 27/70 (38%), Gaps = 5/70 (7%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAPGSV 61
           C  C   LRR      F A+C H +   C+A+ +  G + C  C  E       +    
Sbjct: 33 LCSACRNVLRRP-----FQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILES 87

Query: 62 IDARRNNMAR 71
            A  +N AR
Sbjct: 88 SSAFPDNAAR 97

>2x5n_A SPRPN10, 26S proteasome regulatory subunit RPN10; nuclear protein, nucleus, ubiquitin; 1.30A {Schizosaccharomyces pombe} Length = 192

 Score = 42.7 bits (100), Expect = 9e-05
 Identities = 14/115 (12%), Positives = 36/115 (31%), Gaps = 6/115 (5%)

Query: 171 VTVLDVSGSMS------SKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTD 224
           + ++D S  M       ++    K  VH I     + +  ++    ++      +     
Sbjct: 6   MILIDNSEWMINGDYIPTRFEAQKDTVHMIFNQKINDNPENMCGLMTIGDNSPQVLSTLT 65

Query: 225 SGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHN 279
                 + A++ L   G     +G++     L+ R  +     I+         +
Sbjct: 66  RDYGKFLSAMHDLPVRGNAKFGDGIQIAQLALKHRENKIQRQRIVAFVGSPIVED 120

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A* Length = 389

 Score = 44.0 bits (103), Expect = 1e-04
 Identities = 13/51 (25%), Positives = 19/51 (37%), Gaps = 5/51 (9%)

Query: 2   TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD 52
            C IC  + +           C H     C+ +  +   + CP CRCE K 
Sbjct: 334 LCKICAENDKD----VKIE-PCGHLMCTSCLTSWQESEGQGCPFCRCEIKG 379

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 56

 Score = 39.3 bits (92), Expect = 1e-04
 Identities = 9/48 (18%), Positives = 15/48 (31%), Gaps = 9/48 (18%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCE 49
           C  C    +  +        C H+    C+    +     CPIC+  
Sbjct: 8  RCQQCQAEAKCPK-----LLPCLHTLCSGCL----EASGMQCPICQAP 46

>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc binuclear cluster, zinc finger, DNA-binding protein; 2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1 Length = 116

 Score = 41.1 bits (96), Expect = 1e-04
 Identities = 13/47 (27%), Positives = 16/47 (34%), Gaps = 5/47 (10%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRC 48
          +C IC   L            C H F   CI   ++     CP CR 
Sbjct: 25 SCQICEHILAD-----PVETSCKHLFCRICILRCLKVMGSYCPSCRY 66

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens} Length = 150

 Score = 41.1 bits (96), Expect = 2e-04
 Identities = 13/46 (28%), Positives = 18/46 (39%), Gaps = 5/46 (10%)

Query: 2   TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICR 47
            C  C   +   Q V   T EC H+    C+  + +     CP CR
Sbjct: 80  MCVCCQELVY--QPV---TTECFHNVCKDCLQRSFKAQVFSCPACR 120

>1jm7_B BARD1, BRCA1-associated ring domain protein 1; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 117

 Score = 40.3 bits (94), Expect = 2e-04
 Identities = 11/48 (22%), Positives = 15/48 (31%), Gaps = 7/48 (14%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCE 49
           C  C   LR      +    C H F   C++         CP+C   
Sbjct: 24 RCSRCTNILRE----PVCLGGCEHIFCSNCVS---DCIGTGCPVCYTP 64

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens} Length = 92

 Score = 39.4 bits (92), Expect = 3e-04
 Identities = 11/47 (23%), Positives = 17/47 (36%), Gaps = 5/47 (10%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAAN-VQHGNRICPICR 47
           C IC   +      A+    C +S+   CI    ++     CP C 
Sbjct: 15 LCLICKDIMTD----AVVIPCCGNSYCDECIRTALLESDEHTCPTCH 57

>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_B* Length = 63

 Score = 38.3 bits (89), Expect = 3e-04
 Identities = 14/55 (25%), Positives = 19/55 (34%), Gaps = 7/55 (12%)

Query: 1  KTCPICLGSLRRGQGVAIFTAECSHSFHFCCI--AANVQHGNRICPICRCEWKDV 53
          K C +C    R      I      H     C   A  ++     CPIC+ E + V
Sbjct: 8  KPCSLCEKRPRD---GNIIHGRTGHLV--TCFHCARRLKKAGASCPICKKEIQLV 57

>3k6s_A Integrin alpha-X; cell receptor, adhesion molecule, cell adhesion, pyrrolidone carboxylic acid; HET: NAG MAN; 3.50A {Homo sapiens} PDB: 3k71_A* 3k72_A* Length = 1095

 Score = 43.0 bits (100), Expect = 3e-04
 Identities = 40/212 (18%), Positives = 65/212 (30%), Gaps = 23/212 (10%)

Query: 85  SAPGARRNVPTT---------------FQLPAEPEQFTDDEQLSVNSIGPASPSRAQALA 129
            AP        T                 L   PE       LS+ S    S   A    
Sbjct: 33  GAPQKITAANQTGGLYQCGYSTGACEPIGLQVPPEAVNMSLGLSLASTTSPSQLLACGPT 92

Query: 130 VKAFPEFGAVAAAECPPKFAVLLRVCAPSLPNDADRAPIDLVTVLDVSGSMS-SKLPLLK 188
           V             C       L    P    +  R   D+V ++D SGS+S      + 
Sbjct: 93  VHHECGRNMYLTGLCFLLGPTQLTQRLPVSRQECPRQEQDIVFLIDGSGSISSRNFATMM 152

Query: 189 RAVHFIIQNLGSAD-RLSIVIFSSVARRIFPL-QRMTDSGRENAIRAINTLSSNGGTNIV 246
             V  +I        + S++ FS+  +  F   +    S   + + +++ L   G T   
Sbjct: 153 NFVRAVISQFQRPSTQFSLMQFSNKFQTHFTFEEFRRSSNPLSLLASVHQL--QGFTYTA 210

Query: 247 EGLKKGARVL--EERRERSPVASI-ILLSDGQ 275
             ++     L       R   A I I+++DG+
Sbjct: 211 TAIQNVVHRLFHASYGARRDAAKILIVITDGK 242

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 73

 Score = 38.1 bits (89), Expect = 4e-04
 Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 7/48 (14%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAAN--VQHGNRICPICR 47
           CPICL  L++       T +C H+F   CI        G   CP+C+
Sbjct: 22 ICPICLDILQKP-----VTIDCGHNFCLKCITQIGETSCGFFKCPLCK 64

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 81

 Score = 38.7 bits (90), Expect = 4e-04
 Identities = 10/46 (21%), Positives = 15/46 (32%), Gaps = 6/46 (13%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICR 47
           C IC  + +          +C H F   C   + +     C IC 
Sbjct: 17 RCFICRQAFQNP-----VVTKCRHYFCESCALEHFRA-TPRCYICD 56

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 85

 Score = 38.4 bits (90), Expect = 5e-04
 Identities = 19/57 (33%), Positives = 25/57 (43%), Gaps = 22/57 (38%)

Query: 2  TCPICLGSLRRGQGVAIF----TAECSHSFHFC--CIAAN-----VQHGNRICPICR 47
          TCPICL          +     + +C HS  FC  C+ AN     +  G   CP+CR
Sbjct: 21 TCPICLE---------LLTQPLSLDCGHS--FCQACLTANHKKSMLDKGESSCPVCR 66

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens} Length = 79

 Score = 38.0 bits (89), Expect = 5e-04
 Identities = 17/58 (29%), Positives = 21/58 (36%), Gaps = 23/58 (39%)

Query: 2  TCPICLGSLRRGQGVAIF----TAECSHSFHFC--CI------AANVQHGNRICPICR 47
          TCPICL          +     + +C HS   C  CI      A     G   CP+C 
Sbjct: 14 TCPICLE---------LLTEPLSLDCGHS--LCRACITVSNKEAVTSMGGKSSCPVCG 60

>2ecw_A Tripartite motif-containing protein 30; metal binding protein, structural genomics, NPPSFA; NMR {Mus musculus} Length = 85

 Score = 38.1 bits (89), Expect = 6e-04
 Identities = 20/51 (39%), Positives = 26/51 (50%), Gaps = 10/51 (19%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAAN-----VQHGNRICPICR 47
          TCPICL  L+  + V+    +C+HSF   CI  N        G   CP+CR
Sbjct: 21 TCPICLELLK--EPVSA---DCNHSFCRACITLNYESNRNTDGKGNCPVCR 66

>1jm7_A BRCA1, breast cancer type 1 susceptibility protein; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 112

 Score = 38.5 bits (90), Expect = 7e-04
 Identities = 16/63 (25%), Positives = 24/63 (38%), Gaps = 19/63 (30%)

Query: 2  TCPICLGSLRRGQGVAIF----TAECSHSFHFC--CIAA--NVQHGNRICPICRCEWKDV 53
           CPICL          +     + +C H   FC  C+    N + G   CP+C+ +    
Sbjct: 23 ECPICLE---------LIKEPVSTKCDHI--FCKFCMLKLLNQKKGPSQCPLCKNDITKR 71

Query: 54 PFQ 56
            Q
Sbjct: 72 SLQ 74

>2nvo_A RO sixty-related protein, RSR; alpha helical repeats, VON willebrand factor A domain, beta- RNA binding protein; 1.89A {Deinococcus radiodurans} Length = 535

 Score = 41.4 bits (96), Expect = 8e-04
 Identities = 35/179 (19%), Positives = 60/179 (33%), Gaps = 18/179 (10%)

Query: 104 EQFTDDEQLSVNSIGPASPSRAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAPSLPNDA 163
           E+ TD   L    I P    +A+ L                 P+    L         + 
Sbjct: 300 ERLTDPAALKRGRIHPLDALKAR-LVYAQGQGVRGKGTWLPVPRVVDALEEAFTLAFGNV 358

Query: 164 DRAPIDLVTVLDVSGSMSSK-------LPLLKRAVHFIIQNLGSADRLSIVIFSSVARRI 216
             A    +  LDVSGSM+         L     A    +  L +      + F+    + 
Sbjct: 359 QPANTRHLLALDVSGSMTCGDVAGVPGLTPNMAAAAMSLIALRTEPDALTMGFAE---QF 415

Query: 217 FPLQRMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQ 275
            PL        E+A++   ++S  GGT+          +L   +ER  V + ++ +D +
Sbjct: 416 RPLGITPRDTLESAMQKAQSVSF-GGTDC------AQPILWAAQERLDVDTFVVYTDNE 467

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	634
4fx5_A	464	VON willebrand factor type A; structural genomics,	100.0
1ijb_A	202	VON willebrand factor; dinucleotide-binding fold,	99.91
1q0p_A	223	Complement factor B; VON willebrand factor, MAC-1,	99.91
4hqo_A	266	Sporozoite surface protein 2; malaria, gliding mot	99.9
3zqk_A	199	VON willebrand factor; blood clotting, adamts-13,	99.89
3ibs_A	218	Conserved hypothetical protein BATB; structural ge	99.88
1shu_X	182	Anthrax toxin receptor 2; alpha/beta rossmann fold	99.88
1mf7_A	194	Integrin alpha M; cell adhesion; 1.25A {Homo sapie	99.88
4hqf_A	281	Thrombospondin-related anonymous protein, trap; ma	99.87
2x31_A	189	Magnesium-chelatase 60 kDa subunit; ligase, bacter	99.87
2b2x_A	223	Integrin alpha-1; computational design, antibody-a	99.87
3n2n_F	185	Anthrax toxin receptor 1; rossmann fold; 1.80A {Ho	99.87
1n3y_A	198	Integrin alpha-X; alpha/beta rossmann fold, cell a	99.86
1v7p_C	200	Integrin alpha-2; snake venom, C-type lectin, anta	99.86
1pt6_A	213	Integrin alpha-1; cell adhesion; 1.87A {Homo sapie	99.86
3hrz_D	741	Complement factor B; serine protease, glycosilated	99.86
2odp_A	509	Complement C2; C3/C5 convertase, complement serin	99.86
1mjn_A	179	Integrin alpha-L; rossmann fold, immune system; 1.	99.85
1atz_A	189	VON willebrand factor; collagen-binding, hemostasi	99.84
1rrk_A	497	Complement factor B; BB, hydrolase; 2.00A {Homo sa	99.84
2xgg_A	178	Microneme protein 2; A/I domain, cell adhesion, hy	99.83
4b4t_W	268	RPN10, 26S proteasome regulatory subunit RPN10; hy	99.76
2x5n_A	192	SPRPN10, 26S proteasome regulatory subunit RPN10;	99.72
3k6s_A	1095	Integrin alpha-X; cell receptor, adhesion molecule	99.71
1pcx_A	810	Protein transport protein SEC24; 2.50A {Saccharomy	99.7
1m2v_B	926	SEC24, protein transport protein SEC24, SEC24P, SE	99.67
2nut_A	769	Protein transport protein SEC23A; human copii SEC2	99.66
2ww8_A	893	RRGA, cell WALL surface anchor family protein; IGG	99.65
3eh1_A	751	Protein transport protein SEC24B; copii coat prote	99.64
1m2o_A	768	SEC23, protein transport protein SEC23, SEC23P; zi	99.63
3efo_B	770	SEC24 related gene family, member D; copii, coat p	99.57
3eh2_A	766	Protein transport protein SEC24C; copii-coat prote	99.57
1jey_B	565	KU80; double-strand DNA break repair, non-homologo	99.47
1yvr_A	538	RO autoantigen, 60-kDa SS-A/RO ribonucleoprotein,	99.39
3rag_A	242	Uncharacterized protein; structural genomics, PSI-	99.22
1jey_A	609	KU70; double-strand DNA break repair, non-homologo	99.14
2nvo_A	535	RO sixty-related protein, RSR; alpha helical repea	99.13
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.1
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.09
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.08
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.08
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.08
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.05
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.03
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.03
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.02
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.02
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.01
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.01
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.01
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	98.99
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	98.99
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.98
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	98.98
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	98.98
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	98.97
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	98.95
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	98.95
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	98.95
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	98.95
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	98.9
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	98.9
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	98.89
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.89
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.88
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.85
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	98.84
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	98.84
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.84
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	98.84
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.84
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	98.82
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.81
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	98.81
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	98.81
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.8
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.78
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.77
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.77
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.77
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.76
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.74
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.74
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.72
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.71
2iue_A	212	Pactolus I-domain; membrane protein, CD, ITC, limb	98.7
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.68
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.68
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.64
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.63
3fcs_B	690	Integrin beta-3; beta propeller, rossmann fold, EG	98.62
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.61
3t3p_B	472	Integrin beta-3; integrin, cell adhesion, blood cl	98.59
3v4v_B	503	Integrin beta-7; cell adhesion, madcam-1, membrane	98.54
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.54
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.53
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.53
3vi3_B	454	Integrin beta-1; beta propeller fold, rossman fold	98.49
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.45
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.42
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.41
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.39
3k6s_B	687	Integrin beta-2; cell receptor, adhesion molecule,	98.38
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.38
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.33
3rag_A	242	Uncharacterized protein; structural genomics, PSI-	98.31
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.19
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.11
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.08
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.06
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.05
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	97.98
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.69
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	97.5
3nw0_A	238	Non-structural maintenance of chromosomes element	96.31
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	94.28
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	89.89
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	89.25
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	87.72

>4fx5_A VON willebrand factor type A; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, blood clotting; HET: MSE; 1.73A {Catenulispora acidiphila}

Probab=100.00  E-value=3.6e-41  Score=369.08  Aligned_cols=328  Identities=22%  Similarity=0.270  Sum_probs=273.6

Q ss_pred             CCCCCceEEEEEeCCCCCC--c-cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcC----cccCHHHHHHHHHHHh
Q 043643          163 ADRAPIDLVTVLDVSGSMS--S-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPL----QRMTDSGRENAIRAIN  235 (634)
Q Consensus       163 ~~r~p~dlv~VlD~SgSM~--g-kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl----~~~t~~~~~~~~~~I~  235 (634)
                      ..++++|++||||+||||.  + ||+.+|+++..+++.|.++||++||+|++.+..++|+    .+++..++..++..|+
T Consensus        73 ~~~~~~dvv~VLD~SGSM~~~~~rl~~ak~a~~~ll~~L~~~drv~lV~Fs~~a~~~~p~t~~l~~~~~~~~~~l~~~I~  152 (464)
T 4fx5_A           73 ASGSENVEVIIIDCSGSMDYPRTKMMAAKEATKVAIDTLTDGAFFAVVAGTEGARVVYPTGGQLLRADYQSRAAAKEAVG  152 (464)
T ss_dssp             ---CCEEEEEEEECCGGGGTTTHHHHHHHHHHHHHHHHSCTTCEEEEEEESSSEEEEESSSSSCEECSHHHHHHHHHHHH
T ss_pred             CCCCCceEEEEEEcCcccCCCCchHHHHHHHHHHHHHhCCCCCEEEEEEEcCceEEEecCCcccccCCHHHHHHHHHHHH
Confidence            3468899999999999999  8 9999999999999999999999999999999999995    4567889999999999


Q ss_pred             cCCCCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhcccccc
Q 043643          236 TLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREA  315 (634)
Q Consensus       236 ~l~~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~  315 (634)
                      .|.++|||+++.||..|++.|..+  ++..+.|||||||.++.+.                ...+...+.         +
T Consensus       153 ~L~~~GgT~l~~aL~~A~~~l~~~--~~~~~~IILLTDG~~~~~~----------------~~~l~~~~~---------a  205 (464)
T 4fx5_A          153 RLHANGGTAMGRWLAQAGRIFDTA--PSAIKHAILLTDGKDESET----------------PADLARAIQ---------S  205 (464)
T ss_dssp             TCCCCSCCCHHHHHHHHHHHHTTC--TTSEEEEEEEESSCCTTSC----------------HHHHHHHHH---------H
T ss_pred             cCCCCCCCcHHHHHHHHHHHHhcC--CCCCCEEEEEcCCCCCCCC----------------hHHHHHHHH---------H
Confidence            999999999999999999999753  3566889999999988531                122332221         1


Q ss_pred             CCCCeeEEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHHHHHhhccccceeeeeEEEEEecCCCeEEEEecCCC
Q 043643          316 GQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSIPSGR  395 (634)
Q Consensus       316 ~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~l~~l~s~va~~~~l~v~~~~~~v~i~~v~~~~  395 (634)
                      ...++.||+||||.++|...|+.||+.++|.|+++.+.++|.++|.+++..++++++++++|.+++ ++|+++..++...
T Consensus       206 ~~~~i~i~tiGiG~~~d~~~L~~IA~~tgG~~~~v~d~~~L~~~f~~i~~~~~s~~~~dv~l~l~~-~~g~~v~~v~~v~  284 (464)
T 4fx5_A          206 SIGNFTADCRGIGEDWEPKELRKIADALLGTVGIIRDPATLAEDFREMTAKSMGKEVADVALRLWA-PKGATIRYVKQVS  284 (464)
T ss_dssp             HTTTCEEEEEEESSSSCHHHHHHHHHHTTCCEEEESSGGGHHHHHHHHHHHHHTCCEEEEEEEEEC-CTTCEEEEEEEEE
T ss_pred             hcCCCeEEEEEeCCccCHHHHHHHHHhCCCEEEEcCCHHHHHHHHHHHHHHhhchheeeeEEEEEe-CCCcEEEEEEeec
Confidence            246899999999999999999999999999999999999999999999999999999999999995 7899988875432


Q ss_pred             ------CCcccc-cCCceeEEEcCCccCCcEEEEEEEEEcCCCCCCCCCCCCccceEEEEEEEecCCCCceeeeecceeE
Q 043643          396 ------YNSEVL-DEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRPECTALLDVFCTHKDSASMEIHQVEGEKVE  468 (634)
Q Consensus       396 ------~~~~~~-~~~~~~~i~lg~l~~~e~r~~lv~l~~p~~~~~~~~~~~~~~l~~v~~~Y~~~~~~~~~~~~~~~~~  468 (634)
                            +..... .+++.+.|.+|+| +||+|+|+|+|.+|+...+.     ...+++|+|+|.+|.+. . ......+.
T Consensus       285 P~~~~l~~~~~~~~~~~~~~v~lG~l-~~e~r~~lv~l~v~~~~~g~-----~~~~~~v~~~y~~~~~~-~-~~~~~~v~  356 (464)
T 4fx5_A          285 PNLADLSGMRVPGDNPLTGDYPTGAW-GAESREYHICVEVEPGNIGQ-----EKLAGRVQLVAKDAGGA-T-LLGEGKIR  356 (464)
T ss_dssp             SBCEECGGGCEECSSTTEEEEEEEEE-SSEEEEEEEEEECCCCCTTC-----EEEEEEEEEEEEETTEE-E-EEEEEEEE
T ss_pred             ccccccCcccccCCCCcEEEEECCcC-CCCeEEEEEEEEcCCCCCCc-----eeEEEEEEEEEcCCCcc-c-cccccceE
Confidence                  112222 3567899999999 99999999999999866541     13348999999999865 2 23444566


Q ss_pred             EeCCCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhh
Q 043643          469 IRRPEVLSTADKKVNLQVDRQRSRLLVAETIADAQRMAEVGDLESAQALLAERRSGLLS  527 (634)
Q Consensus       469 v~rp~~~~~~~~~~~~~V~~~~~r~~a~~~i~~a~~~a~~g~~~~A~~~L~~~~~~l~~  527 (634)
                      +.++..... ...++++|+++..+..+++++++|+.++++||+++|.++|+.+.+.+.+
T Consensus       357 ~~~~~~~~~-~~~~~~~V~~~~~~~~~a~~~~~a~~~~~~gd~~~A~~~L~~A~~~~~~  414 (464)
T 4fx5_A          357 AVWTEDTDL-STRINGRVAHYTGQAEMAAAIQEGLDAQAAGDLDTATARLGRAMDLAVE  414 (464)
T ss_dssp             EEECSCHHH-HSCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             EEEEccccc-cCCCCHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            666554221 1347899999999999999999999999999999999999999988865

>1ijb_A VON willebrand factor; dinucleotide-binding fold, blood clotting; 1.80A {Homo sapiens} SCOP: c.62.1.1 PDB: 1ijk_A 1auq_A 1u0n_A 3hxo_A 1uex_C 3hxq_A 1sq0_A 1m10_A 1fns_A 1oak_A 1u0o_C

Probab=99.91  E-value=8.5e-24  Score=206.69  Aligned_cols=182  Identities=15%  Similarity=0.158  Sum_probs=145.6

Q ss_pred             CCCCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcC
Q 043643          162 DADRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTL  237 (634)
Q Consensus       162 ~~~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l  237 (634)
                      ...+.++||+||||.||||.+ +++.+|+++..+++.|.   +++||+||+|++.+...++|+...  ++..+.+.|+.+
T Consensus         8 ~~C~~~~divfvlD~SgSm~~~~~~~~k~~~~~~v~~l~~~~~~~rv~vv~fs~~~~~~~~l~~~~--~~~~~~~~i~~l   85 (202)
T 1ijb_A            8 FYCSRLLDLVFLLDGSSRLSEAEFEVLKAFVVDMMERLRVSQKWVRVAVVEYHDGSHAYIGLKDRK--RPSELRRIASQV   85 (202)
T ss_dssp             CCBCSCEEEEEEEECBTTSCHHHHHHHHHHHHHHHHTBCBSTTSEEEEEEEESSSEEEEECTTCCC--CHHHHHHHHHTC
T ss_pred             cCCCCcccEEEEEECCCCCCHHHHHHHHHHHHHHHHhcccCCCceEEEEEEECCCceEEEecCCCC--CHHHHHHHHHhC
Confidence            345568999999999999998 99999999999999997   578999999999999999998543  478899999999


Q ss_pred             CCCCC--CcHHHHHHHHHHHH-HhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccc
Q 043643          238 SSNGG--TNIVEGLKKGARVL-EERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKRE  314 (634)
Q Consensus       238 ~~~Gg--T~i~~aL~~A~~~l-~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~  314 (634)
                      ...||  |+++.||..|++.+ .....++..+.|||||||.++.+..                .++.....        .
T Consensus        86 ~~~gg~~T~~~~aL~~a~~~~~~~~~r~~~~~~iillTDG~~~~~~~----------------~~~~~~a~--------~  141 (202)
T 1ijb_A           86 KYAGSQVASTSEVLKYTLFQIFSKIDRPEASRIALLLMASQEPQRMS----------------RNFVRYVQ--------G  141 (202)
T ss_dssp             CCCCBSCCCHHHHHHHHHHHTSSSCSCTTSEEEEEEEECCCCCGGGC----------------TTHHHHHH--------H
T ss_pred             cCCCCCcCcHHHHHHHHHHHHhccCCCCCCCeEEEEEccCCCCccch----------------HHHHHHHH--------H
Confidence            87543  99999999998654 3222235667899999999874311                01211111        1


Q ss_pred             cCCCCeeEEEEEccCCCChHHHHHHHhhc-CCeEEEcCChhhHHHHHHHHhhcccc
Q 043643          315 AGQPTFPVHTFGFGLEHDSEAMHAIADAS-GGTFSFIETLSILQDAFARCIGGLLS  369 (634)
Q Consensus       315 ~~~~~i~I~t~G~G~~~d~~~L~~iA~~t-gG~~~~i~~~~~l~~~f~~~l~~l~s  369 (634)
                      ++..+|.||+||+|.+.|...|+.||..+ +|.+|++.++++|.+.|.+++..+..
T Consensus       142 l~~~gi~i~~igvG~~~~~~~L~~iA~~~~~~~~~~~~~~~~L~~~~~~i~~~iC~  197 (202)
T 1ijb_A          142 LKKKKVIVIPVGIGPHANLKQIRLIEKQAPENKAFVLSSVDELEQQRDEIVSYLCD  197 (202)
T ss_dssp             HHHTTEEEEEEEESTTSCHHHHHHHHHHCTTCCCEEESSGGGHHHHHHHHHHHHHH
T ss_pred             HHHCCCEEEEEecCCcCCHHHHHHHhCCCCcccEEEeCCHHHHHHHHHHHHHHhhc
Confidence            23479999999999999999999999864 78899999999999999988776543

>1q0p_A Complement factor B; VON willebrand factor, MAC-1, I domain, A domain, hydrolase; 1.80A {Homo sapiens} SCOP: c.62.1.1

Probab=99.91  E-value=1.3e-23  Score=207.77  Aligned_cols=189  Identities=16%  Similarity=0.257  Sum_probs=136.3

Q ss_pred             CCCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCC
Q 043643          163 ADRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLS  238 (634)
Q Consensus       163 ~~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~  238 (634)
                      .++.|+||+||||.||||.+ +++.+|+++..+++.|.   +++||+||+|++.+..++++......++..+...|+.+.
T Consensus        11 ~~~~~~div~vlD~SgSM~~~~~~~~k~~~~~~i~~l~~~~~~~~v~lv~f~~~~~~~~~~~~~~~~~~~~~~~~i~~l~   90 (223)
T 1q0p_A           11 DPSGSMNIYLVLDGSDSIGASNFTGAKKSLVNLIEKVASYGVKPRYGLVTYATYPKIWVKVSEADSSNADWVTKQLNEIN   90 (223)
T ss_dssp             ----CEEEEEEEECSTTTCHHHHHHHHHHHHHHHHHHHTTTCCCEEEEEEESSSEEEEECTTSGGGGCHHHHHHHHHTCC
T ss_pred             cCCCceeEEEEEeCCCCCchHHHHHHHHHHHHHHHHHhcCCCCceEEEEEecCccceeeccccCCCCCHHHHHHHHHhcc
Confidence            34579999999999999999 99999999999987764   579999999999999999877555566788999999997


Q ss_pred             C-----CCCCcHHHHHHHHHHHHHhhcc------CCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhh
Q 043643          239 S-----NGGTNIVEGLKKGARVLEERRE------RSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSS  307 (634)
Q Consensus       239 ~-----~GgT~i~~aL~~A~~~l~~~~~------~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~  307 (634)
                      +     +|+|+++.||..|++.|.....      ++..+.|||||||.++.+...               ......+...
T Consensus        91 ~~~~~~~g~T~~~~aL~~a~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~~~---------------~~~~~~~~~~  155 (223)
T 1q0p_A           91 YEDHKLKSGTNTKKALQAVYSMMSWPDDVPPEGWNRTRHVIILMTDGLHNMGGDP---------------ITVIDEIRDL  155 (223)
T ss_dssp             TTSCSCTTCCCHHHHHHHHHHHHCCTTSSCCTTGGGCEEEEEEEECSCCCSSSCT---------------HHHHHHHHHH
T ss_pred             cccccCCCCccHHHHHHHHHHHhhccccccccccccCCeEEEEECCCCCCCCCCh---------------HHHHHHHHHH
Confidence            5     6999999999999999974322      245577999999999865321               1222222110


Q ss_pred             h--hccccccCCCCeeEEEEEccCCCChHHHHHHHhhcCC--eEEEcCChhhHHHHHHHHhhc
Q 043643          308 I--CLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGG--TFSFIETLSILQDAFARCIGG  366 (634)
Q Consensus       308 i--~~~~~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG--~~~~i~~~~~l~~~f~~~l~~  366 (634)
                      .  ...+...+..++.||+||||.+.+...|+.||..++|  .||++.+.++|.++|.+++..
T Consensus       156 ~~~~~~~~~~~~~~i~i~~igvG~~~~~~~L~~iA~~~~G~~~~~~~~~~~~L~~~~~~i~~~  218 (223)
T 1q0p_A          156 LYIGKDRKNPREDYLDVYVFGVGPLVNQVNINALASKKDNEQHVFKVKDMENLEDVFYQMIDE  218 (223)
T ss_dssp             TTCSCBTTBCCGGGEEEEEEECSSCCCHHHHHHHSCCCTTCCCEEETTC--------------
T ss_pred             HhhhhhhhhcccCCcEEEEEEecCcCCHHHHHHHhcCCCCCceEEEcCCHHHHHHHHHHHhcc
Confidence            0  0000124567899999999999999999999999999  899999999999999988753

>4hqo_A Sporozoite surface protein 2; malaria, gliding motility, VWA domain, TSR domain, extensibl ribbon, receptor on sporozoite, vaccine target; HET: FUC BGC; 2.19A {Plasmodium vivax} PDB: 4hql_A* 4hqn_A*

Probab=99.90  E-value=6.3e-23  Score=209.25  Aligned_cols=182  Identities=18%  Similarity=0.243  Sum_probs=149.1

Q ss_pred             CCCCceEEEEEeCCCCCCc-cH-HHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcC-
Q 043643          164 DRAPIDLVTVLDVSGSMSS-KL-PLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTL-  237 (634)
Q Consensus       164 ~r~p~dlv~VlD~SgSM~g-kl-~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l-  237 (634)
                      ...++||+||||.||||.+ .+ +.+|.++..+++.|.   +++||+||+|++.++.++||+.....++..+...|+.| 
T Consensus        15 c~~~~DivfvlD~SgSM~~~~~~~~~k~~~~~lv~~l~~~~~~~rvglv~Fs~~~~~~~~l~~~~~~~~~~~~~~i~~l~   94 (266)
T 4hqo_A           15 CNEQVDLYLLVDGSGSIGYPNWITKVIPMLNGLINSLSLSRDTINLYMNLFGSYTTELIRLGSGQSIDKRQALSKVTELR   94 (266)
T ss_dssp             ECCCEEEEEEEECSTTTCHHHHHHTHHHHHHHHHHTCCBCTTSEEEEEEEESSSEEEEECTTSHHHHCHHHHHHHHHHHH
T ss_pred             cCCceeEEEEEECCCCcChhHHHHHHHHHHHHHHHHcccCCCCcEEEEEEecCCcceEEecCCCCccCHHHHHHHHHHhh
Confidence            4578999999999999998 77 589999999999997   78999999999999999999865444578899999988 


Q ss_pred             ---CCCCCCcHHHHHHHHHHHHHhh-ccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhcccc
Q 043643          238 ---SSNGGTNIVEGLKKGARVLEER-RERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKR  313 (634)
Q Consensus       238 ---~~~GgT~i~~aL~~A~~~l~~~-~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~  313 (634)
                         .++|+|+++.||..|.++|... ..++..+.|||||||.++..                  .++...+.        
T Consensus        95 ~~~~~~G~T~~~~AL~~a~~~l~~~~~r~~~~~~iIllTDG~~~d~------------------~~~~~~a~--------  148 (266)
T 4hqo_A           95 KTYTPYGTTSMTAALDEVQKHLNDRVNREKAIQLVILMTDGVPNSK------------------YRALEVAN--------  148 (266)
T ss_dssp             HHCCCCSCCCHHHHHHHHHHHHHTTCSCTTSEEEEEEEECSCCSCH------------------HHHHHHHH--------
T ss_pred             hccCCCCCCCHHHHHHHHHHHHhhccccCCCCeEEEEEccCCCCCc------------------hHHHHHHH--------
Confidence               6899999999999999988764 23456678999999998721                  12332222        


Q ss_pred             ccCCCCeeEEEEEccCCCChHHHHHHHhhc--C--CeEEEcCChhhHHHHHHHHhhccccce
Q 043643          314 EAGQPTFPVHTFGFGLEHDSEAMHAIADAS--G--GTFSFIETLSILQDAFARCIGGLLSVV  371 (634)
Q Consensus       314 ~~~~~~i~I~t~G~G~~~d~~~L~~iA~~t--g--G~~~~i~~~~~l~~~f~~~l~~l~s~v  371 (634)
                      .++..+|.||+||||.+.+..+|+.||..+  +  +.||++.++++|.+.+..++..+...+
T Consensus       149 ~l~~~gi~i~~iGiG~~~~~~~L~~iA~~~~~~g~~~~~~~~d~~~L~~i~~~l~~~iC~~~  210 (266)
T 4hqo_A          149 KLKQRNVRLAVIGIGQGINHQFNRLIAGCRPREPNCKFYSYADWNEAVALIKPFIAKVCTEV  210 (266)
T ss_dssp             HHHHTTCEEEEEECSSSCCHHHHHHHHTCCTTCSSCTTEECSCHHHHHHHHHHHHCCCEEEE
T ss_pred             HHHHCCCEEEEEecCcccCHHHHHHhhCCCCCCCCCCeEEecCHHHHHHHHHHHHhhhcccc
Confidence            123578999999999999999999999875  3  388999999999988888776665433

>3zqk_A VON willebrand factor; blood clotting, adamts-13, force sensor, VON willebrand DISE domain, haemostasis; HET: NAG; 1.70A {Homo sapiens} PDB: 3ppv_A 3ppx_A 3ppw_A 3ppy_A 3gxb_A*

Probab=99.89  E-value=1.7e-22  Score=196.90  Aligned_cols=171  Identities=11%  Similarity=0.157  Sum_probs=139.4

Q ss_pred             CCCCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhc---CCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcC
Q 043643          162 DADRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNL---GSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTL  237 (634)
Q Consensus       162 ~~~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L---~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l  237 (634)
                      .....++||+||||.||||.+ +++.+|+++..+++.|   .+++||+||+|++.++.++|++..  .+++.+.+.|+.+
T Consensus        16 ~~~~~~~DivfvlD~S~Sm~~~~~~~~k~~~~~~~~~l~~~~~~~rv~vv~fs~~~~~~~~l~~~--~~~~~~~~~i~~l   93 (199)
T 3zqk_A           16 KRNSMVLDVAFVLEGSDKIGEADFNRSKEFMEEVIQRMDVGQDSIHVTVLQYSYMVTVEYPFSEA--QSKGDILQRLREI   93 (199)
T ss_dssp             ---CCCCEEEEEEECCTTTCHHHHHHHHHHHHHHHHHSCBSTTSBEEEEEEESSSEEEEECTTSC--CCHHHHHHHHHHC
T ss_pred             CCCCCCcCEEEEEECCCCCCHHHHHHHHHHHHHHHHhcCCCCCceEEEEEEECCcccEEEecCCc--CCHHHHHHHHHhC
Confidence            456688999999999999998 9999999999999999   478999999999999999999843  4578899999999


Q ss_pred             CCCC--CCcHHHHHHHHHHHHH-hhc--cCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccc
Q 043643          238 SSNG--GTNIVEGLKKGARVLE-ERR--ERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSK  312 (634)
Q Consensus       238 ~~~G--gT~i~~aL~~A~~~l~-~~~--~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~  312 (634)
                      ...|  +|+++.||..|.+.+. ...  .++..+.|||||||.++...                        .    .  
T Consensus        94 ~~~gg~~T~~~~aL~~a~~~l~~~~~g~r~~~~~~iillTDG~~~d~v------------------------~----~--  143 (199)
T 3zqk_A           94 RYQGGNRTNTGLALRYLSDHSFLVSQGDREQAPNLVYMVTGNPASDEI------------------------K----R--  143 (199)
T ss_dssp             CCCCCSCCCHHHHHHHCCCCCTCGGGTCCTTSCEEEEEEECSCCSSCC------------------------C----C--
T ss_pred             cCCCCCcChHHHHHHHHHHHhhCcccCCCCCCCeEEEEEeCCCCchHH------------------------H----H--
Confidence            7655  4999999999998542 211  23456789999999865311                        0    0  


Q ss_pred             cccCCCCeeEEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHHHHHhhcccc
Q 043643          313 REAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLS  369 (634)
Q Consensus       313 ~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~l~~l~s  369 (634)
                         ...++.||+||+|.+.|...|+.||. . +.+|++.++++|.+.|.+++..+..
T Consensus       144 ---~~~~v~v~~iGiG~~~~~~~L~~iA~-~-~~~~~~~~~~~L~~~~~~l~~~~c~  195 (199)
T 3zqk_A          144 ---LPGDIQVVPIGVGPNANVQELERIGW-P-NAPILIQDFETLPREAPDLVLQRCC  195 (199)
T ss_dssp             ---CCTTEEEEEEEESTTCCHHHHHHHHT-T-SCCEEESCTTTHHHHHHHHHHHHHH
T ss_pred             ---HhCCCEEEEEEcCCCCCHHHHHHHhC-C-CceEEeCCHHHHHHHHHHHHHhhcc
Confidence               12689999999999999999999998 4 4456999999999999998887654

>3ibs_A Conserved hypothetical protein BATB; structural genomics, protein structure, midwest center for S genomics, MCSG, PSI-2; HET: MSE; 2.10A {Bacteroides thetaiotaomicron}

Probab=99.88  E-value=2.6e-22  Score=197.87  Aligned_cols=172  Identities=21%  Similarity=0.368  Sum_probs=137.6

Q ss_pred             CCCCCCceEEEEEeCCCCCCc------cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHh
Q 043643          162 DADRAPIDLVTVLDVSGSMSS------KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAIN  235 (634)
Q Consensus       162 ~~~r~p~dlv~VlD~SgSM~g------kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~  235 (634)
                      ...+.+.|++||||+||||.+      +|+.+|+++..+++.+. +++++||+|++.+..++|++    .++..+...|+
T Consensus         6 ~~~~~~~~iv~vlD~SgSM~~~d~~~~r~~~ak~~~~~~~~~~~-~~~v~lv~F~~~~~~~~~~~----~~~~~~~~~l~   80 (218)
T 3ibs_A            6 AVKRKGVEVIIALDISNSMLAQDVQPSRLEKAKRLISRLVDELD-NDKVGMIVFAGDAFTQLPIT----SDYISAKMFLE   80 (218)
T ss_dssp             ----CCCEEEEEEECSGGGGCCSSSSCHHHHHHHHHHHHHHTCS-SCEEEEEEESSSEEEEEEEE----SCHHHHHHHHH
T ss_pred             ccccCCCcEEEEEECCcCcccccCCcCHHHHHHHHHHHHHHhCC-CCeEEEEEECCCceEeCCCC----CCHHHHHHHHH
Confidence            456789999999999999985      89999999999999986 89999999999999999988    35677888888


Q ss_pred             cCCC----CCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhcc
Q 043643          236 TLSS----NGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLS  311 (634)
Q Consensus       236 ~l~~----~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~  311 (634)
                      .+.+    +|+|+++.||..|.+.+...  ++..+.|||||||.++.+.                ......         
T Consensus        81 ~l~~~~~~~g~T~l~~al~~a~~~l~~~--~~~~~~ivllTDG~~~~~~----------------~~~~~~---------  133 (218)
T 3ibs_A           81 SISPSLISKQGTAIGEAINLATRSFTPQ--EGVGRAIIVITDGENHEGG----------------AVEAAK---------  133 (218)
T ss_dssp             TCCGGGCCSCSCCHHHHHHHHHTTSCSC--SSCCEEEEEEECCTTCCSC----------------HHHHHH---------
T ss_pred             hcCcccCCCCCCcHHHHHHHHHHHHhhC--CCCCcEEEEEcCCCCCCCc----------------HHHHHH---------
Confidence            8866    69999999999999988654  3456789999999988541                112211         


Q ss_pred             ccccCCCCeeEEEEEccC-------------------------CCChHHHHHHHhhcCCeEEEcCChhhHHHHHHHHhhc
Q 043643          312 KREAGQPTFPVHTFGFGL-------------------------EHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGG  366 (634)
Q Consensus       312 ~~~~~~~~i~I~t~G~G~-------------------------~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~l~~  366 (634)
                        .++..++.||+||||.                         +.+...|+.||+.+||.|+++.+..+..+.|.+.+..
T Consensus       134 --~~~~~~i~v~~igig~~~~~~~~~~g~~~~~~~~~g~~~~~~~~~~~L~~iA~~~gG~~~~~~~~~~~~~~~~~~i~~  211 (218)
T 3ibs_A          134 --AAAEKGIQVSVLGVGMPEGAPIPVEGTNDYRRDREGNVIVTRLNEGMCQEIAKDGKGIYVRVDNSNSAQKAISQEISK  211 (218)
T ss_dssp             --HHHTTTEEEEEEEESCTTCEECBCTTSSCBCBCTTSCBCEECCCHHHHHHHHHHTEEEEEEECSSSHHHHHHHHHHHH
T ss_pred             --HHHhcCCEEEEEEecCCCCCcccccCCCceeEcCCCCEeEecCCHHHHHHHHHhcCCEEEECCCChHHHHHHHHHHHH
Confidence              1235799999999998                         6788999999999999999999855554555555554


Q ss_pred             c
Q 043643          367 L  367 (634)
Q Consensus       367 l  367 (634)
                      +
T Consensus       212 l  212 (218)
T 3ibs_A          212 M  212 (218)
T ss_dssp             H
T ss_pred             h
Confidence            4

>1shu_X Anthrax toxin receptor 2; alpha/beta rossmann fold, membrane protein; 1.50A {Homo sapiens} SCOP: c.62.1.1 PDB: 1tzn_a 1sht_X 1t6b_Y*

Probab=99.88  E-value=5.3e-22  Score=189.95  Aligned_cols=178  Identities=23%  Similarity=0.264  Sum_probs=131.6

Q ss_pred             CCCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHh-cCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCCC
Q 043643          163 ADRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQN-LGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSN  240 (634)
Q Consensus       163 ~~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~-L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~~  240 (634)
                      ..+.|+||+||||.||||.+ ++. .+..+..++.. +.+++|++||+|++.+..++|++. +......+...+..+.++
T Consensus         2 ~c~~~~dvv~vlD~SgSM~~~~~~-~~~~~~~~~~~~~~~~~~v~lv~f~~~~~~~~~~~~-~~~~~~~~l~~l~~~~~~   79 (182)
T 1shu_X            2 SCRRAFDLYFVLDKSGSVANNWIE-IYNFVQQLAERFVSPEMRLSFIVFSSQATIILPLTG-DRGKISKGLEDLKRVSPV   79 (182)
T ss_dssp             CCBSCEEEEEEEECSGGGGGGHHH-HHHHHHHHHHHCCCTTEEEEEEEESSSEEEEEEEEC-CHHHHHHHHHHHHTCCCC
T ss_pred             CCCCceeEEEEEECCCCcccCHHH-HHHHHHHHHHHhcCCCceEEEEEeCCCceEEECCCC-CHHHHHHHHHhcccCCCC
Confidence            35679999999999999998 432 33333333333 457999999999999999999882 222233344444455689


Q ss_pred             CCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCe
Q 043643          241 GGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTF  320 (634)
Q Consensus       241 GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i  320 (634)
                      |+|+++.||..|.+.+.....++..+.|||+|||.++.+.                .........        ..+..++
T Consensus        80 g~T~~~~al~~a~~~l~~~~~~~~~~~iiliTDG~~~~~~----------------~~~~~~~~~--------~~~~~~i  135 (182)
T 1shu_X           80 GETYIHEGLKLANEQIQKAGGLKTSSIIIALTDGKLDGLV----------------PSYAEKEAK--------ISRSLGA  135 (182)
T ss_dssp             SCCCHHHHHHHHHHHHHHHTGGGSCEEEEEEECCCCCTTH----------------HHHHHHHHH--------HHHHTTC
T ss_pred             CCchHHHHHHHHHHHHHhccCCCCCeEEEEECCCCcCCCC----------------chhHHHHHH--------HHHhCCC
Confidence            9999999999999999876444566789999999987421                111121111        1235789


Q ss_pred             eEEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHHHHHhhcc
Q 043643          321 PVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGL  367 (634)
Q Consensus       321 ~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~l~~l  367 (634)
                      .||+||+| +.+...|+.||..++|.|+...+.++|.++|.++...+
T Consensus       136 ~i~~igvg-~~~~~~L~~ia~~~~~~~~~~~~~~~L~~~~~~i~~~i  181 (182)
T 1shu_X          136 SVYCVGVL-DFEQAQLERIADSKEQVFPVKGGFQALKGIINSILAQS  181 (182)
T ss_dssp             EEEEEECS-SCCHHHHHHHSSSGGGEEESSSTTHHHHHHHHHHHHTB
T ss_pred             EEEEEeCC-cCCHHHHHHHhCCCCceEEccCCHHHHHHHHHHHHhcc
Confidence            99999999 67899999999999887776668999999998887654

>1mf7_A Integrin alpha M; cell adhesion; 1.25A {Homo sapiens} SCOP: c.62.1.1 PDB: 1na5_A 1jlm_A 1ido_A 1m1u_A 3q3g_G 1n9z_A 1bhq_1 1bho_1 1idn_1 3qa3_G

Probab=99.88  E-value=1.1e-22  Score=197.19  Aligned_cols=179  Identities=18%  Similarity=0.312  Sum_probs=143.1

Q ss_pred             CCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC-CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCC-CC
Q 043643          165 RAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG-SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSS-NG  241 (634)
Q Consensus       165 r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~-~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~-~G  241 (634)
                      ..|+||+||||.||||.+ +++.+|+++..+++.|. +++|++||+|++.++.++|++..  .++..+...|+.+.. +|
T Consensus         3 ~~~~div~vlD~SgSm~~~~~~~~k~~~~~~~~~l~~~~~~v~vv~f~~~~~~~~~l~~~--~~~~~~~~~i~~l~~~~g   80 (194)
T 1mf7_A            3 QEDSDIAFLIDGSGSIIPHDFRRMKEFVSTVMEQLKKSKTLFSLMQYSEEFRIHFTFKEF--QNNPNPRSLVKPITQLLG   80 (194)
T ss_dssp             CCCEEEEEEEECCTTSCHHHHHHHHHHHHHHHHHHCCTTEEEEEEEESSSEEEEECHHHH--HHSCCHHHHHTTCCCCCS
T ss_pred             CCCeeEEEEEeCCCCCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEEecCCceEEEecCCc--CCHHHHHHHHHhCcCCCC
Confidence            368999999999999999 99999999999999996 57899999999999999998732  345678889999975 89


Q ss_pred             CCcHHHHHHHHHHHHHh-hc--cCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCC
Q 043643          242 GTNIVEGLKKGARVLEE-RR--ERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQP  318 (634)
Q Consensus       242 gT~i~~aL~~A~~~l~~-~~--~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~  318 (634)
                      +|+++.||..|.+.+.. ..  .++..+.|||||||.++....                 .+...+.        .++..
T Consensus        81 ~T~~~~aL~~a~~~l~~~~~~~r~~~~~~iillTDG~~~~d~~-----------------~~~~~~~--------~~~~~  135 (194)
T 1mf7_A           81 RTHTATGIRKVVRELFNITNGARKNAFKILVVITDGEKFGDPL-----------------GYEDVIP--------EADRE  135 (194)
T ss_dssp             CBCHHHHHHHHHHTTTSGGGTCCTTSEEEEEEEESSCCBSCSS-----------------CGGGTHH--------HHHHT
T ss_pred             CchHHHHHHHHHHHhcCcccCCCCCCCeEEEEEcCCCCCCCch-----------------hhHHHHH--------HHHHC
Confidence            99999999999975532 11  234567899999999872110                 0111111        12347


Q ss_pred             CeeEEEEEccCCCC----hHHHHHHHhhc-CCeEEEcCChhhHHHHHHHHhhccccc
Q 043643          319 TFPVHTFGFGLEHD----SEAMHAIADAS-GGTFSFIETLSILQDAFARCIGGLLSV  370 (634)
Q Consensus       319 ~i~I~t~G~G~~~d----~~~L~~iA~~t-gG~~~~i~~~~~l~~~f~~~l~~l~s~  370 (634)
                      +|.||+||+|.+.+    ...|+.||..+ +|.||++.+.++|...|.++...+..+
T Consensus       136 gi~v~~igvG~~~~~~~~~~~L~~iA~~~~~~~~~~~~~~~~l~~~~~~i~~~ic~i  192 (194)
T 1mf7_A          136 GVIRYVIGVGDAFRSEKSRQELNTIASKPPRDHVFQVNNFEALKTIQNQLREKIFCI  192 (194)
T ss_dssp             TEEEEEEEESGGGCSHHHHHHHHHHSCSSHHHHEEEESSGGGGGGGHHHHHHHHHTT
T ss_pred             CCEEEEEEecccccccccHHHHHHHhCCCCcccEEEeCCHHHHHHHHHHHHHHHhhc
Confidence            89999999999876    78999999986 588999999999999999888777654

>4hqf_A Thrombospondin-related anonymous protein, trap; malaria, parasite motility, I domain, TSR domain, receptor O sporozoite, vaccine target; 2.20A {Plasmodium falciparum} PDB: 4hqk_A 2bbx_A

Probab=99.87  E-value=4e-22  Score=204.95  Aligned_cols=183  Identities=19%  Similarity=0.235  Sum_probs=148.2

Q ss_pred             CCCCCceEEEEEeCCCCCCc-cH-HHHHHHHHHHHHhcCC---CCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcC
Q 043643          163 ADRAPIDLVTVLDVSGSMSS-KL-PLLKRAVHFIIQNLGS---ADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTL  237 (634)
Q Consensus       163 ~~r~p~dlv~VlD~SgSM~g-kl-~~~K~al~~li~~L~~---~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l  237 (634)
                      ....++|||||||.||||.+ .+ +.+|+++..+++.|..   ++||+||+|++.++.+++++.....++..+...|+.|
T Consensus        17 ~C~~~~div~vlD~SgSM~~~~~~~~~k~~~~~~v~~l~~~~~~~rvglv~Fs~~~~~~~~l~~~~~~~~~~l~~~i~~l   96 (281)
T 4hqf_A           17 VCNDEVDLYLLMDGSGSIRRHNWVNHAVPLAMKLIQQLNLNDNAIHLYASVFSNNAREIIRLHSDASKNKEKALIIIKSL   96 (281)
T ss_dssp             CSCSCEEEEEEEECCCCSSTHHHHHHHHHHHHHHHTTCCCCTTSEEEEEEEEETTEEEEEEECSSCSSCHHHHHHHHHHH
T ss_pred             hCCCceeEEEEEeCCCCcCHHHHHHHHHHHHHHHHHHhccCCCCcEEEEEEcCCCceEEEEccccCccCHHHHHHHHHHH
Confidence            44579999999999999998 55 9999999999999986   7899999999999999999976555678888888887


Q ss_pred             C----CCCCCcHHHHHHHHHHHHHhhc-cCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccc
Q 043643          238 S----SNGGTNIVEGLKKGARVLEERR-ERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSK  312 (634)
Q Consensus       238 ~----~~GgT~i~~aL~~A~~~l~~~~-~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~  312 (634)
                      .    ++|+|+++.||..|.+.|.... .++..+.|||||||.++.+                  .+....+.       
T Consensus        97 ~~~~~~~G~T~~~~aL~~a~~~l~~~~~r~~~~~~iillTDG~~~d~------------------~~~~~~~~-------  151 (281)
T 4hqf_A           97 LSTNLPYGKTSLTDALLQVRKHLNDRINRENANQLVVILTDGIPDSI------------------QDSLKESR-------  151 (281)
T ss_dssp             HHTTGGGCSCCHHHHHHHHHHHHHTSCCCTTCEEEEEEEESSCCSCH------------------HHHHHHHH-------
T ss_pred             hhccCCCCCccHHHHHHHHHHHHHhccCCCCCCEEEEEEecCCCCCc------------------HHHHHHHH-------
Confidence            5    5899999999999999887542 2345678999999998731                  12222222       


Q ss_pred             cccCCCCeeEEEEEccCCCChHHHHHHHhhc--CC--eEEEcCChhhHHHHHHHHhhccccce
Q 043643          313 REAGQPTFPVHTFGFGLEHDSEAMHAIADAS--GG--TFSFIETLSILQDAFARCIGGLLSVV  371 (634)
Q Consensus       313 ~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~t--gG--~~~~i~~~~~l~~~f~~~l~~l~s~v  371 (634)
                       .++..+|.||+||+|.+.+..+|+.||...  +|  .||++.+.++|...+..++..+...+
T Consensus       152 -~l~~~gv~i~~igiG~~~~~~~L~~iA~~~~~~g~~~~~~~~~~~~L~~~~~~l~~~iC~~v  213 (281)
T 4hqf_A          152 -KLSDRGVKIAVFGIGQGINVAFNRFLVGCHPSDGKCNLYADSAWENVKNVIGPFMKAVCVEV  213 (281)
T ss_dssp             -HHHHTTCEEEEEEESSSCCHHHHHHHTTSCSSSSCCTTEEEECGGGHHHHHHHHHHHHHHHH
T ss_pred             -HHHHCCCEEEEEeCCCccCHHHHHhhhCCCCCCCCCceEEecchhhhhcccCCcccccCCCc
Confidence             123578999999999999999999999873  54  78999999999988888776665543

>2x31_A Magnesium-chelatase 60 kDa subunit; ligase, bacteriochlorophyll biosynthesis, photosynthesis; 7.50A {Rhodobacter capsulatus}

Probab=99.87  E-value=1.3e-23  Score=202.73  Aligned_cols=181  Identities=18%  Similarity=0.272  Sum_probs=138.4

Q ss_pred             CCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhc-CCCCeEEEEEeCC-CcEEEEcCcccCHHHHHHHHHHHhcCCCC
Q 043643          164 DRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNL-GSADRLSIVIFSS-VARRIFPLQRMTDSGRENAIRAINTLSSN  240 (634)
Q Consensus       164 ~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L-~~~drvsIV~Fs~-~a~~~~pl~~~t~~~~~~~~~~I~~l~~~  240 (634)
                      .+.|.+++||||+||||.+ +++.+|+++..+++.+ .++++++||+|++ .+..++|++    .++..+...|+.+.++
T Consensus         2 ~~~~~~vv~vlD~SgSM~~~~~~~~k~~~~~~~~~~~~~~~~v~lv~f~~~~~~~~~~~~----~~~~~~~~~i~~l~~~   77 (189)
T 2x31_A            2 EMSDRVLIFAVDASGSAAVARLSEAKGAVELLLGRAYAARDHVSLITFRGTAAQVLLQPS----RSLTQTKRQLQGLPGG   77 (189)
T ss_dssp             CSSCCEEEEEEECCTTSCC--CHHHHHHHHHHHHHSCTTTSCCCEEEESBSCCCBCTTTC----SCHHHHHHHHHHCCCC
T ss_pred             CCCCeEEEEEEECCCCCCchHHHHHHHHHHHHHHHhcCCCcEEEEEEECCCCceEecCCC----CCHHHHHHHHhcCCCC
Confidence            5789999999999999988 9999999999999888 8899999999996 677788877    3678889999999999


Q ss_pred             CCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCe
Q 043643          241 GGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTF  320 (634)
Q Consensus       241 GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i  320 (634)
                      |+|+++.||..|++.+.....++..+.|||||||.++.+....              ...... ...+.......+..+|
T Consensus        78 g~T~~~~al~~a~~~l~~~~~~~~~~~ivliTDG~~~~~~~~~--------------~~~~~~-~~~~~~~~~~~~~~gi  142 (189)
T 2x31_A           78 GGTPLASGMEMAMVTAKQARSRGMTPTIALLTDGRGNIALDGT--------------ANRELA-GEQATKVARAIRASGM  142 (189)
T ss_dssp             BCCCCHHHHHHHHHHHHTCTTTCSSEEEEECCBSCCSSCCTHH--------------HHHGGG-TCCCEEEEECTGGGGS
T ss_pred             CCCCHHHHHHHHHHHHHhccCCCCceEEEEECCCCCCCCCCcc--------------ccccch-hHHHHHHHHHHHHcCC
Confidence            9999999999999999875545567789999999998653210              000000 0001111112345679


Q ss_pred             eEEEEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHHHHHhhc
Q 043643          321 PVHTFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGG  366 (634)
Q Consensus       321 ~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~l~~  366 (634)
                      .|++||+|.+ +...|+.||..++|.|+++++..  .+.|.+++..
T Consensus       143 ~v~~ig~g~~-~~~~L~~iA~~~~G~~~~~~~~~--~~~~~~~~~~  185 (189)
T 2x31_A          143 PAVIIDTAMR-PNPALVDLARTMDAHYIALPRAT--AHKMADVLGA  185 (189)
T ss_dssp             CCTHHHHHHS-SCSSSCSTTTEEEESSTTTHHHH--HHHHHHHHHH
T ss_pred             eEEEEecCCC-CHHHHHHHHHhcCCeEEECCCcc--hHHHHHHHHH
Confidence            9999999976 77899999999999999986543  3344444443

>2b2x_A Integrin alpha-1; computational design, antibody-antigen complex, immune syste; 2.20A {Rattus norvegicus} SCOP: c.62.1.1

Probab=99.87  E-value=5.5e-22  Score=196.79  Aligned_cols=178  Identities=16%  Similarity=0.239  Sum_probs=140.9

Q ss_pred             CCCCCceEEEEEeCCCCCCccHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCC
Q 043643          163 ADRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSS  239 (634)
Q Consensus       163 ~~r~p~dlv~VlD~SgSM~gkl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~  239 (634)
                      ....++||+||||.||||. .++.+|+++..+++.|.   +++|++||+|++.+..++|+...  .++..+.+.|+.+.+
T Consensus        18 ~c~~~~div~vlD~SgSM~-~~~~~k~~~~~~~~~l~~~~~~~rv~lv~F~~~~~~~~~l~~~--~~~~~~~~~i~~l~~   94 (223)
T 2b2x_A           18 ECSTQLDIVIVLDGSNSIY-PWESVIAFLNDLLKRMDIGPKQTQVGIVQYGENVTHEFNLNKY--SSTEEVLVAANKIVQ   94 (223)
T ss_dssp             ----CEEEEEEEECSTTCC-CHHHHHHHHHHHHTTSCCSTTSCCEEEEEESSSEEEEECTTTC--CSHHHHHHHHTTCCC
T ss_pred             cCCCcceEEEEEECCCChh-hHHHHHHHHHHHHHhcccCCCCeEEEEEEeCCCccEEEecCCC--CCHHHHHHHHHhhhc
Confidence            4456899999999999998 68999999999999885   68999999999999999999643  457888999999876


Q ss_pred             CCC--CcHHHHHHHHHHHH-Hhh--ccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccc
Q 043643          240 NGG--TNIVEGLKKGARVL-EER--RERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKRE  314 (634)
Q Consensus       240 ~Gg--T~i~~aL~~A~~~l-~~~--~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~  314 (634)
                      .||  |+++.||..|.+.+ ...  ..++..+.|||||||.++.+.                  .+...+.        .
T Consensus        95 ~gG~~T~~~~aL~~a~~~l~~~~~~~~~~~~~~iillTDG~~~~~~------------------~~~~~~~--------~  148 (223)
T 2b2x_A           95 RGGRQTMTALGIDTARKEAFTEARGARRGVKKVMVIVTDGESHDNY------------------RLKQVIQ--------D  148 (223)
T ss_dssp             CCCSSCCHHHHHHHHHHTTSSGGGTCCTTSEEEEEEEESSCCTTGG------------------GHHHHHH--------H
T ss_pred             cCCCCccHHHHHHHHHHHhcCcccCCCCCCCeEEEEEcCCCCCCCc------------------cHHHHHH--------H
Confidence            554  99999999999874 321  123556789999999988532                  1111111        1


Q ss_pred             cCCCCeeEEEEEccCCCC---------hHHHHHHHhh-cCCeEEEcCChhhHHHHHHHHhhcccc
Q 043643          315 AGQPTFPVHTFGFGLEHD---------SEAMHAIADA-SGGTFSFIETLSILQDAFARCIGGLLS  369 (634)
Q Consensus       315 ~~~~~i~I~t~G~G~~~d---------~~~L~~iA~~-tgG~~~~i~~~~~l~~~f~~~l~~l~s  369 (634)
                      ++..+|.||+||+|.+.+         ...|+.||.. ++|.||++.+.++|.++|..+...+.+
T Consensus       149 ~~~~gi~v~~igvG~~~~~~~~~~~~~~~~L~~iA~~p~~g~~~~~~~~~~L~~i~~~i~~~ic~  213 (223)
T 2b2x_A          149 CEDENIQRFSIAILGHYNRGNLSTEKFVEEIKSIASEPTEKHFFNVSDELALVTIVKALGERIFA  213 (223)
T ss_dssp             HHTTTEEEEEEEECGGGC---CCCHHHHHHHHTTSCSSGGGTEEEESSTTGGGGGHHHHHTTTC-
T ss_pred             HHHCCCEEEEEEecCccccccccchhHHHHHHHHhCCCchhcEEEeCCHHHHHHHHHHHHHhhcC
Confidence            235799999999998776         4799999998 899999999999999999888776654

>3n2n_F Anthrax toxin receptor 1; rossmann fold; 1.80A {Homo sapiens} SCOP: c.62.1.1

Probab=99.87  E-value=7.6e-22  Score=189.35  Aligned_cols=175  Identities=19%  Similarity=0.246  Sum_probs=133.6

Q ss_pred             CCCCCceEEEEEeCCCCCCccHHHHHHHHHHHHHh-cCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcC---C
Q 043643          163 ADRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQN-LGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTL---S  238 (634)
Q Consensus       163 ~~r~p~dlv~VlD~SgSM~gkl~~~K~al~~li~~-L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l---~  238 (634)
                      ..+.|+||+||||.||||.+.+..+++++..++.. +.+++|++||+|++.++.++|++.    +++.+...|+.+   .
T Consensus         3 ~c~~~~div~vlD~SgSM~~~~~~~~~~~~~~~~~~~~~~~~v~lv~f~~~~~~~~~l~~----~~~~~~~~i~~l~~~~   78 (185)
T 3n2n_F            3 ACYGGFDLYFILDKSGSVLHHWNEIYYFVEQLAHKFISPQLRMSFIVFSTRGTTLMKLTE----DREQIRQGLEELQKVL   78 (185)
T ss_dssp             CCBSEEEEEEEEECSGGGGGGHHHHHHHHHHHHHHCCCTTEEEEEEEESSSEEEEEEEEC----CHHHHHHHHHHHHTCC
T ss_pred             CCCCCeeEEEEEeCCCChhhhHHHHHHHHHHHHHHhCCCCcEEEEEEEecCceEEeccCC----CHHHHHHHHHHHhhhc
Confidence            46789999999999999987666666766666665 457899999999999999999983    556666666554   5


Q ss_pred             CCCCCcHHHHHHHHHHHHHhh--ccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccC
Q 043643          239 SNGGTNIVEGLKKGARVLEER--RERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAG  316 (634)
Q Consensus       239 ~~GgT~i~~aL~~A~~~l~~~--~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~  316 (634)
                      ++|+|+++.||..|.+.+...  ...+..+.|||||||.++.+..                ........        .++
T Consensus        79 ~~g~T~~~~al~~a~~~l~~~~~~~~~~~~~iillTDG~~~~~~~----------------~~~~~~~~--------~~~  134 (185)
T 3n2n_F           79 PGGDTYMHEGFERASEQIYYENRQGYRTASVIIALTDGELHEDLF----------------FYSEREAN--------RSR  134 (185)
T ss_dssp             CCSCCCHHHHHHHHHHHHHHHHTTCBCEEEEEEEEECCCCCHHHH----------------HHHHHHHH--------HHH
T ss_pred             CCCCccHHHHHHHHHHHHhhccccCCCCCcEEEEEcCCCCCCCcc----------------cchHHHHH--------HHH
Confidence            789999999999999987432  2224567899999999873210                01111111        123


Q ss_pred             CCCeeEEEEEccCCCChHHHHHHHhhcCCeEEEcCC-hhhHHHHHHHHhhcc
Q 043643          317 QPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFIET-LSILQDAFARCIGGL  367 (634)
Q Consensus       317 ~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i~~-~~~l~~~f~~~l~~l  367 (634)
                      ..++.||+||+| +.+...|+.||.. +|.+|++.+ .++|...|.+++..+
T Consensus       135 ~~gi~i~~igvg-~~~~~~L~~iA~~-~~~~~~~~~~~~~L~~~~~~i~~~i  184 (185)
T 3n2n_F          135 DLGAIVYAVGVK-DFNETQLARIADS-KDHVFPVNDGFQALQGIIHSILKKS  184 (185)
T ss_dssp             HTTEEEEEEECS-SCCHHHHTTTSSS-GGGEEEHHHHHHHHHHHHHHHHHTB
T ss_pred             HCCCEEEEEEec-cCCHHHHHHHhCC-CCCeEEeccHHHHHHHHHHHHHHhc
Confidence            578999999999 8899999999975 577888887 899999888877654

>1n3y_A Integrin alpha-X; alpha/beta rossmann fold, cell adhesion; 1.65A {Homo sapiens} SCOP: c.62.1.1

Probab=99.86  E-value=3.1e-22  Score=194.37  Aligned_cols=179  Identities=18%  Similarity=0.281  Sum_probs=141.2

Q ss_pred             CCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhc-CCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCC-CC
Q 043643          164 DRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNL-GSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLS-SN  240 (634)
Q Consensus       164 ~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L-~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~-~~  240 (634)
                      .+.++||+||||.||||.+ .+..+|.++..+++.| .+++|++||+|++.+..++|++.  ..++..+.+.|+.+. ++
T Consensus         6 ~~~~~div~vlD~SgSM~~~~~~~~~~~~~~~~~~l~~~~~~v~lv~f~~~~~~~~~~~~--~~~~~~~~~~i~~l~~~~   83 (198)
T 1n3y_A            6 SRQEQDIVFLIDGSGSISSRNFATMMNFVRAVISQFQRPSTQFSLMQFSNKFQTHFTFEE--FRRSSNPLSLLASVHQLQ   83 (198)
T ss_dssp             --CCEEEEEEEECCTTSCHHHHHHHHHHHHHHHTTSCTTTEEEEEEEESSSEEEEECHHH--HHHCSSGGGGGTTCCCCC
T ss_pred             CCCCeeEEEEEECCCCCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEEeCCCccEEEecCc--cCCHHHHHHHHhcCcCCC
Confidence            4578999999999999999 8999999999999999 68999999999999999999863  233456777888875 68


Q ss_pred             CCCcHHHHHHHHHHHH-Hhhc--cCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCC
Q 043643          241 GGTNIVEGLKKGARVL-EERR--ERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQ  317 (634)
Q Consensus       241 GgT~i~~aL~~A~~~l-~~~~--~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~  317 (634)
                      |+|+++.||..|.+.+ ....  .++..+.|||||||.++.+..              ........           ++.
T Consensus        84 g~T~~~~al~~a~~~l~~~~~~~r~~~~~~iillTDG~~~~~~~--------------~~~~~~~~-----------~~~  138 (198)
T 1n3y_A           84 GFTYTATAIQNVVHRLFHASYGARRDAAKILIVITDGKKEGDSL--------------DYKDVIPM-----------ADA  138 (198)
T ss_dssp             SCBCHHHHHHHHHTTTTSGGGTCCTTSEEEEEEEESSCCBSCSS--------------CHHHHHHH-----------HHH
T ss_pred             CCchHHHHHHHHHHHHhCcccCCCCCCceEEEEECCCCCCCCcc--------------cHHHHHHH-----------HHH
Confidence            9999999999999544 4321  234567899999999884321              11121111           234


Q ss_pred             CCeeEEEEEccCCC----ChHHHHHHHhhcCCeE-EEcCChhhHHHHHHHHhhcccc
Q 043643          318 PTFPVHTFGFGLEH----DSEAMHAIADASGGTF-SFIETLSILQDAFARCIGGLLS  369 (634)
Q Consensus       318 ~~i~I~t~G~G~~~----d~~~L~~iA~~tgG~~-~~i~~~~~l~~~f~~~l~~l~s  369 (634)
                      .++.||+||+|.+.    +...|+.||..++|.| |.+.+.++|..+|.++...+..
T Consensus       139 ~gi~i~~igvG~~~~~~~~~~~L~~iA~~~~g~~~~~~~~~~~l~~~~~~i~~~ic~  195 (198)
T 1n3y_A          139 AGIIRYAIGVGLAFQNRNSWKELNDIASKPSQEHIFKVEDFDALKDIQNQLKEKIFA  195 (198)
T ss_dssp             TTCEEEEEEESGGGGSSTTHHHHHHHSCSSSGGGEEEESSGGGGGGGHHHHHHHHHT
T ss_pred             CCCEEEEEEccccccccccHHHHHHHHcCCCcccEEEeCCHHHHHHHHHHHHhheec
Confidence            78999999999877    6899999999999987 8889999999999888776643

>1v7p_C Integrin alpha-2; snake venom, C-type lectin, antagonist, cell adhes glycoprotein, toxin-cell adhesion complex; HET: NAG; 1.90A {Homo sapiens} SCOP: c.62.1.1 PDB: 1aox_A 1dzi_A

Probab=99.86  E-value=1.7e-21  Score=189.93  Aligned_cols=176  Identities=17%  Similarity=0.229  Sum_probs=138.3

Q ss_pred             CCCceEEEEEeCCCCCCccHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCCC-
Q 043643          165 RAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSN-  240 (634)
Q Consensus       165 r~p~dlv~VlD~SgSM~gkl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~~-  240 (634)
                      ..++|||||||.||||. .++.+|+++..+++.|.   +++|++||+|++.++.++||+..  .++..+.+.|+.+.+. 
T Consensus         4 ~~~~div~vlD~SgSm~-~~~~~k~~~~~~~~~l~~~~~~~rvglv~f~~~~~~~~~l~~~--~~~~~~~~~i~~l~~~~   80 (200)
T 1v7p_C            4 PSLIDVVVVCDESNSIY-PWDAVKNFLEKFVQGLDIGPTKTQVGLIQYANNPRVVFNLNTY--KTKEEMIVATSQTSQYG   80 (200)
T ss_dssp             --CEEEEEEEECCTTCC-CHHHHHHHHHHHHHTSCBSTTSEEEEEEEESSSEEEEECTTTC--SSHHHHHHHHHHCCCCC
T ss_pred             CCcccEEEEEECCCCcc-cHHHHHHHHHHHHHhcCCCCCceEEEEEEECCCceEEEeCCCc--CCHHHHHHHHHhhhccC
Confidence            35899999999999998 68999999999999986   68999999999999999999843  4578899999999865 


Q ss_pred             C-CCcHHHHHHHHHHH-HHhh--ccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccC
Q 043643          241 G-GTNIVEGLKKGARV-LEER--RERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAG  316 (634)
Q Consensus       241 G-gT~i~~aL~~A~~~-l~~~--~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~  316 (634)
                      | +|+++.||..|.+. +...  ..++..+.|||||||.++.+.                  .+.....        .++
T Consensus        81 G~~T~~~~al~~a~~~~~~~~~g~r~~~~~~ivllTDG~~~~~~------------------~~~~~~~--------~~~  134 (200)
T 1v7p_C           81 GDLTNTFGAIQYARKYAYSAASGGRRSATKVMVVVTDGESHDGS------------------MLKAVID--------QCN  134 (200)
T ss_dssp             CSCCCHHHHHHHHHHHTTSGGGTCCTTSEEEEEEEESSCCSCGG------------------GHHHHHH--------HHH
T ss_pred             CCCCcHHHHHHHHHHhhcccccCCCCCCCeEEEEEccCCCCCcc------------------cHHHHHH--------HHH
Confidence            4 59999999999996 4332  123556789999999987431                  1111111        123


Q ss_pred             CCCeeEEEEEcc-----CCCC----hHHHHHHHhhcCCeE-EEcCChhhHHHHHHHHhhcccc
Q 043643          317 QPTFPVHTFGFG-----LEHD----SEAMHAIADASGGTF-SFIETLSILQDAFARCIGGLLS  369 (634)
Q Consensus       317 ~~~i~I~t~G~G-----~~~d----~~~L~~iA~~tgG~~-~~i~~~~~l~~~f~~~l~~l~s  369 (634)
                      ..+|.||+||+|     .+.+    ...|+.||..++|.| |.+.+.++|...|..+...+..
T Consensus       135 ~~gi~i~~igvg~~~~~~~~~~~~~~~~L~~iA~~~~g~~~~~~~~~~~l~~i~~~i~~~ic~  197 (200)
T 1v7p_C          135 HDNILRFGIAVLGYLNRNALDTKNLIKEIKAIASIPTERYFFNVSDEAALLEKAGTLGEQIFS  197 (200)
T ss_dssp             HTTEEEEEEEECHHHHHTTCCCHHHHHHHHHHSCSSHHHHEEEESSSGGGHHHHHHHHHHHHT
T ss_pred             HCCCEEEEEEecccccccccchhhHHHHHHHHhCCccHhcEEEcCCHHHHHHHHHHHHhhhcC
Confidence            479999999994     4555    567999999998875 6789999999999888776643

>1pt6_A Integrin alpha-1; cell adhesion; 1.87A {Homo sapiens} SCOP: c.62.1.1 PDB: 4a0q_A 1qcy_A 1qc5_A 1qc5_B 1ck4_A 1mhp_A

Probab=99.86  E-value=8.6e-22  Score=193.90  Aligned_cols=177  Identities=15%  Similarity=0.215  Sum_probs=139.1

Q ss_pred             CCCCceEEEEEeCCCCCCccHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCCC
Q 043643          164 DRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSN  240 (634)
Q Consensus       164 ~r~p~dlv~VlD~SgSM~gkl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~~  240 (634)
                      .+.++||+||||.||||. .++.+|+++..+++.|.   +++|++||+|++.+..++|+...  .++..+.+.|+.+.+.
T Consensus         4 C~~~~div~vlD~SgSm~-~~~~~k~~~~~~~~~l~~~~~~~~v~lv~F~~~~~~~~~l~~~--~~~~~~~~~i~~l~~~   80 (213)
T 1pt6_A            4 CSTQLDIVIVLDGSNSIY-PWDSVTAFLNDLLKRMDIGPKQTQVGIVQYGENVTHEFNLNKY--SSTEEVLVAAKKIVQR   80 (213)
T ss_dssp             ---CEEEEEEEECCTTCC-CHHHHHHHHHHHHTTSCBSTTSBEEEEEEESSSEEEEECTTTC--SSHHHHHHHHHTCCCC
T ss_pred             CCCCccEEEEEECCCChh-hHHHHHHHHHHHHHhcCCCCCCeEEEEEEeCCCccEEEecccc--CCHHHHHHHHHhccCC
Confidence            446899999999999998 68999999999999885   78999999999999999999643  4577889999998765


Q ss_pred             C--CCcHHHHHHHHHHHH-Hhh--ccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhcccccc
Q 043643          241 G--GTNIVEGLKKGARVL-EER--RERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREA  315 (634)
Q Consensus       241 G--gT~i~~aL~~A~~~l-~~~--~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~  315 (634)
                      |  +|+++.||..|.+.+ ...  ..++..+.|||||||.++.+.                  .+...+.        .+
T Consensus        81 ~G~~T~~~~aL~~a~~~l~~~~~~~r~~~~~~iillTDG~~~~~~------------------~~~~~~~--------~~  134 (213)
T 1pt6_A           81 GGRQTMTALGTDTARKEAFTEARGARRGVKKVMVIVTDGESHDNH------------------RLKKVIQ--------DC  134 (213)
T ss_dssp             CCSSCCHHHHHHHHHHTTTSGGGTCCTTCEEEEEEEESSCCSCSH------------------HHHHHHH--------HH
T ss_pred             CCCcccHHHHHHHHHHHhcCcccCCCCCCCeEEEEEcCCCCCCCc------------------cHHHHHH--------HH
Confidence            4  489999999999874 321  124566789999999988531                  1222211        12


Q ss_pred             CCCCeeEEEEEccCCCC---------hHHHHHHHhh-cCCeEEEcCChhhHHHHHHHHhhcccc
Q 043643          316 GQPTFPVHTFGFGLEHD---------SEAMHAIADA-SGGTFSFIETLSILQDAFARCIGGLLS  369 (634)
Q Consensus       316 ~~~~i~I~t~G~G~~~d---------~~~L~~iA~~-tgG~~~~i~~~~~l~~~f~~~l~~l~s  369 (634)
                      +..++.||+||+|.+.+         ...|+.||.. ++|.||++.+.++|.+.|..+...+..
T Consensus       135 ~~~gi~i~~igig~~~~~~~~~~~~~~~~L~~iA~~~~~g~~~~~~~~~~l~~i~~~l~~~i~~  198 (213)
T 1pt6_A          135 EDENIQRFSIAILGSYNRGNLSTEKFVEEIKSIASEPTEKHFFNVSDELALVTIVKTLGERIFA  198 (213)
T ss_dssp             HHTTEEEEEEEECHHHHHTTCCCHHHHHHHHHHSCSSHHHHEEEESSGGGGGGGHHHHHHHHTC
T ss_pred             HHCCCEEEEEEeccccccccccchhhHHHHHHHhCCCchhcEEEeCCHHHHHHHHHHHHHhhee
Confidence            34789999999997654         3789999998 689999999999999888887665543

>3hrz_D Complement factor B; serine protease, glycosilated, multi-domain, complement SYST convertase, complement alternate pathway; HET: NAG P6G; 2.20A {Homo sapiens} PDB: 2xwj_I* 3hs0_D* 2ok5_A* 2xwb_F*

Probab=99.86  E-value=2.3e-21  Score=225.43  Aligned_cols=191  Identities=17%  Similarity=0.247  Sum_probs=154.4

Q ss_pred             CCCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCC
Q 043643          163 ADRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLS  238 (634)
Q Consensus       163 ~~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~  238 (634)
                      ..+.++|||||||.||||.+ +++.+|+++..+++.|.   ..+||+||+|++.+..++|++..+..+++.++++|+.|.
T Consensus       239 ~~~~~~div~vlD~SgSM~~~~~~~~k~~~~~~i~~l~~~~~~~rv~lv~f~~~~~~~~~l~~~~~~~~~~~~~~i~~l~  318 (741)
T 3hrz_D          239 DPSGSMNIYLVLDGSGSIGASDFTGAKKCLVNLIEKVASYGVKPRYGLVTYATYPKIWVKVSEADSSNADWVTKQLNEIN  318 (741)
T ss_dssp             CTTCEEEEEEEEECSTTTCHHHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESSSEEEEECTTSGGGGCHHHHHHHHTTCC
T ss_pred             CCCCceeEEEEeccCCcccccchHHHHHHHHHHHHhhhccCCCceEEEEEeccCCceeEeecccCCcCHHHHHHHHHhcc
Confidence            35668999999999999999 99999999999999886   469999999999999999999776678899999999998


Q ss_pred             -----CCCCCcHHHHHHHHHHHHHhh------ccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchh-
Q 043643          239 -----SNGGTNIVEGLKKGARVLEER------RERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPS-  306 (634)
Q Consensus       239 -----~~GgT~i~~aL~~A~~~l~~~------~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~-  306 (634)
                           .+|+|+++.||..|++.|...      ...+..+.|||||||.+|.|...               ......+.. 
T Consensus       319 ~~~~~~~ggT~~~~aL~~a~~~l~~~~~~~~~~~~~~~~~iillTDG~~n~g~~p---------------~~~~~~i~~~  383 (741)
T 3hrz_D          319 YEDHKLKSGTNTKKALQAVYSMMSWPDDVPPEGWNRTRHVIILMTDGLHNMGGDP---------------ITVIDEIRDL  383 (741)
T ss_dssp             GGGGSSSCCCCHHHHHHHHHHHHCCC--CCCTTGGGEEEEEEEEECSCCCSSSCT---------------HHHHHHHHHH
T ss_pred             cccccCCCChHHHHHHHHHHHHHhhhhhccccchhccCeEEEEECCCccccCCCc---------------hHHHHHHHHH
Confidence                 799999999999999999321      11234567999999999976421               111111110 


Q ss_pred             -hhhccccccCCCCeeEEEEEccCCCChHHHHHHHhhcCCe--EEEcCChhhHHHHHHHHhhccc
Q 043643          307 -SICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGT--FSFIETLSILQDAFARCIGGLL  368 (634)
Q Consensus       307 -~i~~~~~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~--~~~i~~~~~l~~~f~~~l~~l~  368 (634)
                       .+...++.++..+|.||+||||.+.+...|+.||..++|.  ||++.+.++|.++|.+++..+.
T Consensus       384 ~~~~~~a~~~~~~gi~i~~igvG~~~~~~~L~~ia~~~~g~~~~~~~~~~~~L~~~~~~l~~~~~  448 (741)
T 3hrz_D          384 LYIGKDRKNPREDYLDVYVFGVGPLVNQVNINALASKKDNEQHVFKVKDMENLEDVFYQMIDESQ  448 (741)
T ss_dssp             TTCSSCTTCCCGGGEEEEEEECSSSCCHHHHHHHSCCCTTCCCEECBSSHHHHHHHHHHHHHHHS
T ss_pred             hhcccccccccccCeeEEEEeCCCcCCHHHHHHHhcCCCCcceEEEeCCHHHHHHHHHHhhcccc
Confidence             1112222456789999999999999999999999999985  8999999999999999887654

>2odp_A Complement C2; C3/C5 convertase, complement serin protease, human complement system, glycoprotein, SP, VWFA,; HET: NAG; 1.90A {Homo sapiens} PDB: 2odq_A* 2i6q_A* 2i6s_A*

Probab=99.86  E-value=3.4e-21  Score=214.40  Aligned_cols=186  Identities=15%  Similarity=0.249  Sum_probs=150.7

Q ss_pred             CCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhc---CCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCC
Q 043643          164 DRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNL---GSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSS  239 (634)
Q Consensus       164 ~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L---~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~  239 (634)
                      +..++|||||||.||||.+ +++.+|+++..+++.|   .+++|++||+|++.++.++|++.....+++.+.++|+.|.+
T Consensus         6 ~~~~~divfvlD~SgSM~~~~~~~~k~~~~~l~~~l~~~~~~~rv~lv~f~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~   85 (509)
T 2odp_A            6 RSGHLNLYLLLDASQSVSENDFLIFKESASLMVDRIFSFEINVSVAIITFASEPKVLMSVLNDNSRDMTEVISSLENANY   85 (509)
T ss_dssp             SSSEEEEEEEEECSTTSCHHHHHHHHHHHHHHHHHHHTTCCCEEEEEEEESSSEEEEECTTSGGGGCHHHHHHHHHTCCG
T ss_pred             CCCCeeEEEEEeCCCccchhhHHHHHHHHHHHHHHhhccCCCceEEEEEccCCCceeEeccCCCCCCHHHHHHHHHhccc
Confidence            4578999999999999999 9999999999999998   78999999999999999999986555678999999999977


Q ss_pred             C-----CCCcHHHHHHHHHHHHHhhccC---------CCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhch
Q 043643          240 N-----GGTNIVEGLKKGARVLEERRER---------SPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLP  305 (634)
Q Consensus       240 ~-----GgT~i~~aL~~A~~~l~~~~~~---------~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~  305 (634)
                      .     |||+++.||..|.+.|.....+         +..+.|||||||.++.+...               ......+.
T Consensus        86 ~~~~~~ggT~~~~aL~~a~~~l~~~~~~~~~~~~~~~~~~~~iillTDG~~~~~~~~---------------~~~~~~~~  150 (509)
T 2odp_A           86 KDHENGTGTNTYAALNSVYLMMNNQMRLLGMETMAWQEIRHAIILLTDGKSNMGGSP---------------KTAVDHIR  150 (509)
T ss_dssp             GGGTTCCSCCHHHHHHHHHHHHHHHHHHHCTTSHHHHTEEEEEEEESCSCCCSSSCT---------------HHHHHHHH
T ss_pred             ccCCCCCCccHHHHHHHHHHHHhhcccccccccccccccceEEEEECCCCccCCCCh---------------hHHHHHHH
Confidence            5     8999999999999999553221         23467999999999865221               12222222


Q ss_pred             hhhhccccccCCCCeeEEEEEccCC-CChHHHHHHHhhcCCe--EEEcCChhhHHHHHHHHhhc
Q 043643          306 SSICLSKREAGQPTFPVHTFGFGLE-HDSEAMHAIADASGGT--FSFIETLSILQDAFARCIGG  366 (634)
Q Consensus       306 ~~i~~~~~~~~~~~i~I~t~G~G~~-~d~~~L~~iA~~tgG~--~~~i~~~~~l~~~f~~~l~~  366 (634)
                      ..+..  ..++..++.||+||+|.+ .+...|+.||..++|.  ||+++|.++|...|.+++..
T Consensus       151 ~~~~~--~~~~~~~i~i~~iGvG~~~~~~~~L~~iA~~~~G~~~~~~~~~~~~l~~~~~~i~~~  212 (509)
T 2odp_A          151 EILNI--NQKRNDYLDIYAIGVGKLDVDWRELNELGSKKDGERHAFILQDTKALHQVFEHMLDV  212 (509)
T ss_dssp             HHTTC--CSTTGGGEEEEEEEESSSCCCHHHHHHHSCCCTTCCCEEEESSHHHHHHHHHHHEEC
T ss_pred             HHhhc--cccccCceEEEEEEcCCCcccHHHHHhhccCCCCceeeEEecCHHHHHHHHHhhhcc
Confidence            11110  012357899999999998 9999999999999998  99999999999999988653

>1mjn_A Integrin alpha-L; rossmann fold, immune system; 1.30A {Homo sapiens} SCOP: c.62.1.1 PDB: 3hi6_A 1mq8_B* 3eoa_I 3eob_I 1rd4_A* 1lfa_A 1zon_A 1zoo_A 1zop_A 1dgq_A 1xdd_A* 1xdg_A* 1xuo_A* 3e2m_A* 3bqn_B* 1cqp_A* 3bqm_B* 2ica_A* 2o7n_A* 3m6f_A* ...

Probab=99.85  E-value=8.8e-22  Score=188.57  Aligned_cols=165  Identities=16%  Similarity=0.222  Sum_probs=131.2

Q ss_pred             CceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCC-CCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCC-CCCC
Q 043643          167 PIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGS-ADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSS-NGGT  243 (634)
Q Consensus       167 p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~-~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~-~GgT  243 (634)
                      |+||+||||.||||.+ +++.+|+++..+++.|.+ ++|++||+|++.++.++||+..  .++..+...++.+.. +|+|
T Consensus         2 ~~divfvlD~S~Sm~~~~~~~~k~~~~~~~~~l~~~~~rv~vv~fs~~~~~~~~l~~~--~~~~~~~~~~~~i~~~~g~T   79 (179)
T 1mjn_A            2 NVDLVFLFDGSMSLQPDEFQKILDFMKDVMKKCSNTSYQFAAVQFSTSYKTEFDFSDY--VKRKDPDALLKHVKHMLLLT   79 (179)
T ss_dssp             CEEEEEEEECBTTCCHHHHHHHHHHHHHHHHHTTTSSEEEEEEEESSSEEEEECHHHH--HHHCCHHHHHTTCCCCCBCC
T ss_pred             CccEEEEEeCCCCCCHHHHHHHHHHHHHHHHHhCCCCeEEEEEEECCceeEEEcCccc--CCHHHHHHHHHhcccCCCCC
Confidence            7899999999999999 999999999999999965 4699999999999999998843  233455666777654 6899


Q ss_pred             cHHHHHHHHHHH-HHhh--ccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCe
Q 043643          244 NIVEGLKKGARV-LEER--RERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTF  320 (634)
Q Consensus       244 ~i~~aL~~A~~~-l~~~--~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i  320 (634)
                      +++.||..|.+. +...  ..++..+.|||||||.++.+...                      .          +..++
T Consensus        80 ~~~~aL~~a~~~~~~~~~g~r~~~~~~iillTDG~~~~~~~~----------------------~----------~~~~i  127 (179)
T 1mjn_A           80 NTFGAINYVATEVFREELGARPDATKVLIIITDGEATDSGNI----------------------D----------AAKDI  127 (179)
T ss_dssp             CHHHHHHHHHHHTSSGGGTCCTTSEEEEEEEESSCCSSCSCC----------------------G----------GGTTS
T ss_pred             hHHHHHHHHHHHhcccccCCCCCCCeEEEEEcCCCCCCCcch----------------------H----------HHCCC
Confidence            999999999964 4322  12345678999999998854210                      0          13589


Q ss_pred             eEEEEEccCCCCh----HHHHHHHhhcCCe-EEEcCChhhHHHHHHHHhh
Q 043643          321 PVHTFGFGLEHDS----EAMHAIADASGGT-FSFIETLSILQDAFARCIG  365 (634)
Q Consensus       321 ~I~t~G~G~~~d~----~~L~~iA~~tgG~-~~~i~~~~~l~~~f~~~l~  365 (634)
                      .||+||+|.+.+.    ..|+.||..++|. +|++.++++|...|.++..
T Consensus       128 ~i~~igvG~~~~~~~~~~~L~~iA~~~~~~~~~~~~~~~~L~~i~~~i~~  177 (179)
T 1mjn_A          128 IRYIIGIGKHFQTKESQETLHKFASKPASEFVKILDTFEKLKDLCTELQK  177 (179)
T ss_dssp             EEEEEEESGGGCSHHHHHTTGGGSCSCHHHHEEEESSGGGSCCHHHHHHH
T ss_pred             EEEEEEccccccccccHHHHHHHhCCccHhcEEEeCCHHHHHHHHHHHHh
Confidence            9999999988773    7899999988774 6889999999888877654

>1atz_A VON willebrand factor; collagen-binding, hemostasis, dinucleotide binding fold; 1.80A {Homo sapiens} SCOP: c.62.1.1 PDB: 4dmu_B 2adf_A 1fe8_A 1ao3_A

Probab=99.84  E-value=2.8e-20  Score=179.44  Aligned_cols=164  Identities=16%  Similarity=0.275  Sum_probs=132.1

Q ss_pred             CCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCC---CCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCC-C
Q 043643          166 APIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGS---ADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSS-N  240 (634)
Q Consensus       166 ~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~---~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~-~  240 (634)
                      .|+||+||||.||||.+ +++.+|+++..+++.+..   .+|++||+|++.+..++|+...  .+++.+.++|+.+.. +
T Consensus         4 ~~~div~vlD~SgSm~~~~~~~~k~~~~~~~~~l~~~~~~~rv~lv~f~~~~~~~~~l~~~--~~~~~~~~~i~~l~~~~   81 (189)
T 1atz_A            4 QPLDVILLLDGSSSFPASYFDEMKSFAKAFISKANIGPRLTQVSVLQYGSITTIDVPWNVV--PEKAHLLSLVDVMQREG   81 (189)
T ss_dssp             CCEEEEEEEECSSSSCHHHHHHHHHHHHHHHHHSCBSTTSEEEEEEEESSSEEEEECTTCC--CCHHHHHHHHHTCCCCC
T ss_pred             CceeEEEEEeCCCCCChhhHHHHHHHHHHHHHhcCcCCCCeEEEEEEECCcceEEEecCCC--CCHHHHHHHHHhCcCCC
Confidence            68999999999999998 999999999999999863   4799999999999999999633  457889999999975 7


Q ss_pred             CCCcHHHHHHHHHHHHHhhc---cCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCC
Q 043643          241 GGTNIVEGLKKGARVLEERR---ERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQ  317 (634)
Q Consensus       241 GgT~i~~aL~~A~~~l~~~~---~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~  317 (634)
                      |+|+++.||..|.+.+....   .++..+.|||||||.++...                 ......           ++.
T Consensus        82 g~T~~~~aL~~a~~~l~~~~~g~r~~~~~~vivltdg~~~~~~-----------------~~~~~~-----------~~~  133 (189)
T 1atz_A           82 GPSQIGDALGFAVRYLTSEMHGARPGASKAVVILVTDVSVDSV-----------------DAAADA-----------ARS  133 (189)
T ss_dssp             CCCCHHHHHHHHHHHHHSCCTTCCTTSEEEEEEEECSCCSSCC-----------------HHHHHH-----------HHH
T ss_pred             CcchHHHHHHHHHHHHhccccCCCCCCCcEEEEEeCCCCCchH-----------------HHHHHH-----------HHH
Confidence            89999999999999986532   12334568999999775321                 111111           224


Q ss_pred             CCeeEEEEEccCCCChHHHHHHHhhcCC-eEEEcCChhhHHHH
Q 043643          318 PTFPVHTFGFGLEHDSEAMHAIADASGG-TFSFIETLSILQDA  359 (634)
Q Consensus       318 ~~i~I~t~G~G~~~d~~~L~~iA~~tgG-~~~~i~~~~~l~~~  359 (634)
                      .++.||+||+|.+.+...|+.||..+++ .++.+.+.+++...
T Consensus       134 ~gi~v~~igvG~~~~~~~L~~iA~~~~~~~~~~~~~~~~~~~l  176 (189)
T 1atz_A          134 NRVTVFPIGIGDRYDAAQLRILAGPAGDSNVVKLQRIEDLPTM  176 (189)
T ss_dssp             TTEEEEEEEESSSSCHHHHHHHTGGGGGGGCEEESSTTHHHHH
T ss_pred             CCCEEEEEEcCCcCCHHHHHHHHCCCcccCEEEecChhhHHHH
Confidence            7899999999999999999999998875 46778887777654

>1rrk_A Complement factor B; BB, hydrolase; 2.00A {Homo sapiens} SCOP: b.47.1.2 c.62.1.1 PDB: 1rs0_A* 1rtk_A* 2win_I* 1dle_A

Probab=99.84  E-value=1.2e-20  Score=209.20  Aligned_cols=187  Identities=17%  Similarity=0.262  Sum_probs=147.1

Q ss_pred             CceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCC----
Q 043643          167 PIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLS----  238 (634)
Q Consensus       167 p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~----  238 (634)
                      |+|||||||.||||.+ +++.+|+++..+++.|.   ..+|++||+|++.+..++++......+++.+.+.|+.+.    
T Consensus         1 ~~div~vlD~SgSM~~~~~~~~k~~~~~~~~~l~~~~~~~~v~lv~f~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~   80 (497)
T 1rrk_A            1 SMNIYLVLDGSDSIGASNFTGAKKVLVNLIEKVASYGVKPRYGLVTYATYPKIWVKVSEADSSNADWVTKQLNEINYEDH   80 (497)
T ss_dssp             CEEEEEEEECSTTTCHHHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESSSEEEEECTTSGGGGCHHHHHHHHHHCCGGGS
T ss_pred             CeeEEEEEECCCCcchhhHHHHHHHHHHHHHHhhccCCCceEEEEEecCCceEeeccccccccCHHHHHHHHHhCcCccc
Confidence            6899999999999998 99999999999998754   479999999999999999776444467888999999987    


Q ss_pred             -CCCCCcHHHHHHHHHHHHHhhcc------CCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhh--hh
Q 043643          239 -SNGGTNIVEGLKKGARVLEERRE------RSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSS--IC  309 (634)
Q Consensus       239 -~~GgT~i~~aL~~A~~~l~~~~~------~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~--i~  309 (634)
                       .+|+|+++.||..|.+.+.....      ++..+.|||||||.++.+...               ....+.+...  +.
T Consensus        81 ~~~g~T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~~~---------------~~~~~~~~~~~~~~  145 (497)
T 1rrk_A           81 KLKSGTNTKKALQAVYSMMSWPDDVPPEGWNRTRHVIILMTDGLHNMGGDP---------------ITVIDEIRDLLYIG  145 (497)
T ss_dssp             CCTTCCCHHHHHHHHHHHHCCC------CGGGCEEEEEEEECSCCCSSSCT---------------HHHHHHHHHHTTCS
T ss_pred             cccCccCHHHHHHHHHHHhhhhhccccccccccceEEEEEeCCCcccCCCh---------------hHHHHHHHHHhhhh
Confidence             46799999999999999943211      234567999999999875421               1221111111  11


Q ss_pred             ccccccCCCCeeEEEEEccCCCChHHHHHHHhhcCC--eEEEcCChhhHHHHHHHHhhccc
Q 043643          310 LSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGG--TFSFIETLSILQDAFARCIGGLL  368 (634)
Q Consensus       310 ~~~~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG--~~~~i~~~~~l~~~f~~~l~~l~  368 (634)
                      ......+..++.|++||+|.+.+...|+.||..++|  .||++++.++|.++|.+++....
T Consensus       146 ~~~~~~~~~~i~v~~igvG~~~~~~~L~~iA~~~~g~~~~~~~~~~~~l~~~~~~~i~~~~  206 (497)
T 1rrk_A          146 KDRKNPREDYLDVYVFGVGPLVNQVNINALASKKDNEQHVCKVKDMECLEDVFYQMIDESQ  206 (497)
T ss_dssp             SCC-CCCGGGEEEEEEECSSSCCHHHHHHHSCCCTTCCCEEETTCHHHHHHHHHHHSCGGG
T ss_pred             cccccchhcCeeEEEecCCCccCHHHHHHHhcCCCCcceEEEeCCHHHHhhhhhhcccCCC
Confidence            111123455899999999999999999999999999  99999999999999999887654

>2xgg_A Microneme protein 2; A/I domain, cell adhesion, hydrolase; 2.05A {Toxoplasma gondii}

Probab=99.83  E-value=3.2e-20  Score=177.50  Aligned_cols=151  Identities=19%  Similarity=0.239  Sum_probs=112.4

Q ss_pred             CCCCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcC
Q 043643          162 DADRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTL  237 (634)
Q Consensus       162 ~~~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l  237 (634)
                      +....++|||||||.||||.+ +++.+|+++..+++.|.   +.+|++||+|++.+..++|++.....+++.+.+.|+.+
T Consensus        12 ~~c~~~~divfvlD~SgSm~~~~~~~~k~~~~~~i~~l~~~~~~~rv~vv~F~~~~~~~~~l~~~~~~~~~~~~~~i~~l   91 (178)
T 2xgg_A           12 AMGTNQLDICFLIDSSGSIGIQNFRLVKQFLHTFLMVLPIGPEEVNNAVVTYSTDVHLQWDLQSPNAVDKQLAAHAVLDM   91 (178)
T ss_dssp             --CTTCEEEEEEEECCTTTCHHHHHHHHHHHHHHHHHSCBSTTSEEEEEEEESSSEEEEECTTSGGGSCHHHHHHHHHHC
T ss_pred             ccCCCCeeEEEEEECCCCCCHHHHHHHHHHHHHHHHhcCCCCCCeEEEEEEeCCceEEEEeCCCCCccCHHHHHHHHHhC
Confidence            345568999999999999998 99999999999999986   35899999999999999999865433688999999999


Q ss_pred             C-CCCCCcHHHHHHHHHHHHHhh---ccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhcccc
Q 043643          238 S-SNGGTNIVEGLKKGARVLEER---RERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKR  313 (634)
Q Consensus       238 ~-~~GgT~i~~aL~~A~~~l~~~---~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~  313 (634)
                      . .+|+|+++.||..|.+.+...   ..++..+.|||||||.++.+                  .++...+.        
T Consensus        92 ~~~~g~T~~~~aL~~a~~~l~~~~~g~r~~~~~~iillTDG~~~~~------------------~~~~~~~~--------  145 (178)
T 2xgg_A           92 PYKKGSTNTSDGLKACKQILFTGSRPGREHVPKLVIGMTDGESDSD------------------FRTVRAAK--------  145 (178)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHHCCCTTCTTSCEEEEEEESSCCCHH------------------HHHSHHHH--------
T ss_pred             CCCCCCccHHHHHHHHHHHhcCcccCCCCCCCEEEEEEcCCCCCCC------------------ccHHHHHH--------
Confidence            7 689999999999999987432   12355678999999998742                  11222211        


Q ss_pred             ccCCCCeeEEEEEccCCCChHHHHH
Q 043643          314 EAGQPTFPVHTFGFGLEHDSEAMHA  338 (634)
Q Consensus       314 ~~~~~~i~I~t~G~G~~~d~~~L~~  338 (634)
                      ..+..+|.|++||+|.+.|..+|+.
T Consensus       146 ~l~~~gi~v~~igvG~~~~~~~l~~  170 (178)
T 2xgg_A          146 EIRELGGIVTVLAVGHYVAAALVPR  170 (178)
T ss_dssp             HHHHTTCEEEEEECC----------
T ss_pred             HHHHCCCEEEEEEcCCcCCHHHHhc
Confidence            1234689999999999999888764

>4b4t_W RPN10, 26S proteasome regulatory subunit RPN10; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.76  E-value=6.5e-18  Score=169.94  Aligned_cols=147  Identities=14%  Similarity=0.213  Sum_probs=123.6

Q ss_pred             EEEEEeCCCCCCc------cHHHHHHHHHHHHHh---cCCCCeEEEEEeCCC-cEEEEcCcccCHHHHHHHHHHHhcCCC
Q 043643          170 LVTVLDVSGSMSS------KLPLLKRAVHFIIQN---LGSADRLSIVIFSSV-ARRIFPLQRMTDSGRENAIRAINTLSS  239 (634)
Q Consensus       170 lv~VlD~SgSM~g------kl~~~K~al~~li~~---L~~~drvsIV~Fs~~-a~~~~pl~~~t~~~~~~~~~~I~~l~~  239 (634)
                      +|||||+|+||..      ||+.+|.|+..+++.   ++|.|+|+||+|.+. +.++.|++    .++..++..|+.|.+
T Consensus         6 tViviD~S~SM~~~D~~PsRl~a~k~Av~~li~~~~~~nPed~VGLVtfag~~~~vl~plT----~D~~~il~aL~~l~~   81 (268)
T 4b4t_W            6 TVLVIDNSEYSRNGDFPRTRFEAQIDSVEFIFQAKRNSNPENTVGLISGAGANPRVLSTFT----AEFGKILAGLHDTQI   81 (268)
T ss_dssp             EEEEECCSSTTSSTTSSSCHHHHHHHHHHHHHHHHHHHCTTCEEEEEECCTTSCEEEEEEE----SCHHHHHHHHTTCCC
T ss_pred             EEEEEECCHHHhCCCCCCcHHHHHHHHHHHHHHHHhhCCCcceEEEEEecCCcceeccCCc----chHHHHHHHhhhcCc
Confidence            7999999999974      899999999999874   578999999999876 46677887    568889999999999


Q ss_pred             CCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCC
Q 043643          240 NGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPT  319 (634)
Q Consensus       240 ~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~  319 (634)
                      +|+|++..||..|+..|+.+..++...+|||++||..+.                 +..++..++.        .+++.+
T Consensus        82 ~G~T~l~~gL~~A~~aLk~~~~k~~~~rIIlf~ds~~~~-----------------~~~~l~~lak--------~lkk~g  136 (268)
T 4b4t_W           82 EGKLHMATALQIAQLTLKHRQNKVQHQRIVAFVCSPISD-----------------SRDELIRLAK--------TLKKNN  136 (268)
T ss_dssp             CSCCCHHHHHHHHHHHHHTCSCTTSEEEEEEEECSCCSS-----------------CHHHHHHHHH--------HHHHHT
T ss_pred             CCCCChHHHHHHHHHHHHhcccCCCceEEEEEECCCCCC-----------------CHHHHHHHHH--------HHHHcC
Confidence            999999999999999999888888888999999997552                 2345555544        234679


Q ss_pred             eeEEEEEccC-CCChHHHHHHHhhcCC
Q 043643          320 FPVHTFGFGL-EHDSEAMHAIADASGG  345 (634)
Q Consensus       320 i~I~t~G~G~-~~d~~~L~~iA~~tgG  345 (634)
                      |.|++||||. +++...|+.+++..+|
T Consensus       137 I~v~vIgFG~~~~n~~kLe~l~~~~Ng  163 (268)
T 4b4t_W          137 VAVDIINFGEIEQNTELLDEFIAAVNN  163 (268)
T ss_dssp             EEEEEEEESSCCSSCCHHHHHHHHHCS
T ss_pred             CEEEEEEeCCCccchHHHHHHHHHhcC
Confidence            9999999996 5788899999887755

>2x5n_A SPRPN10, 26S proteasome regulatory subunit RPN10; nuclear protein, nucleus, ubiquitin; 1.30A {Schizosaccharomyces pombe}

Probab=99.72  E-value=8.7e-17  Score=155.30  Aligned_cols=161  Identities=15%  Similarity=0.238  Sum_probs=119.5

Q ss_pred             eEEEEEeCCCCCCc------cHHHHHHHHHHHHHh---cCCCCeEEEEEeCC-CcEEEEcCcccCHHHHHHHHHHHhcCC
Q 043643          169 DLVTVLDVSGSMSS------KLPLLKRAVHFIIQN---LGSADRLSIVIFSS-VARRIFPLQRMTDSGRENAIRAINTLS  238 (634)
Q Consensus       169 dlv~VlD~SgSM~g------kl~~~K~al~~li~~---L~~~drvsIV~Fs~-~a~~~~pl~~~t~~~~~~~~~~I~~l~  238 (634)
                      .++||||+|+||..      ||+.+|.++..|+..   ..+.||+|||+|++ .+.++.|++    .+...+...|+.+.
T Consensus         4 ~lvlvlD~S~SM~~~D~~psRl~~ak~~~~~~~~~~~~~~~~d~vGLV~fa~~~a~~~~plT----~d~~~i~~~L~~l~   79 (192)
T 2x5n_A            4 ATMILIDNSEWMINGDYIPTRFEAQKDTVHMIFNQKINDNPENMCGLMTIGDNSPQVLSTLT----RDYGKFLSAMHDLP   79 (192)
T ss_dssp             EEEEEECCSGGGGCTTSSSCHHHHHHHHHHHHHHHHHHHCTTCEEEEEECCTTSCCEEEEEE----SCHHHHHHHHTTCC
T ss_pred             EEEEEEECCHhhccCCCCCCHHHHHHHHHHHHHHHHHhcCCCCeEEEEEEcCCCcEEecCCC----CCHHHHHHHHHcCC
Confidence            58999999999973      899999999887764   36899999999999 499999999    56889999999999


Q ss_pred             CCCCCcHHHHHHHHHHHHHhhccCCCCcEEEE-EeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCC
Q 043643          239 SNGGTNIVEGLKKGARVLEERRERSPVASIIL-LSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQ  317 (634)
Q Consensus       239 ~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IIL-lTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~  317 (634)
                      ++|+|+++.||..|.+.|+....++..+.||| ++|+. +.                 +..++..+..        .++.
T Consensus        80 ~~g~t~l~~aL~~A~~~l~~~~~~~~~~riiil~~~~~-~~-----------------~~~~~~~~a~--------~lk~  133 (192)
T 2x5n_A           80 VRGNAKFGDGIQIAQLALKHRENKIQRQRIVAFVGSPI-VE-----------------DEKNLIRLAK--------RMKK  133 (192)
T ss_dssp             CCSCCCHHHHHHHHHHHHHTCSCTTSEEEEEEEECSCC-SS-----------------CHHHHHHHHH--------HHHH
T ss_pred             CCCCchHHHHHHHHHHHHHhccccCCCceEEEEEECCC-CC-----------------CchhHHHHHH--------HHHH
Confidence            99999999999999999987654444444554 44443 21                 1233433322        2346


Q ss_pred             CCeeEEEEEccCCC-ChHHHHHHHhhc----CCeEEEcCChh-hHHHHH
Q 043643          318 PTFPVHTFGFGLEH-DSEAMHAIADAS----GGTFSFIETLS-ILQDAF  360 (634)
Q Consensus       318 ~~i~I~t~G~G~~~-d~~~L~~iA~~t----gG~~~~i~~~~-~l~~~f  360 (634)
                      .+|.|++||||.+. +.. |+.+|+.+    ++.|..++... -|.+.+
T Consensus       134 ~gi~v~~Ig~G~~~~~~~-l~~la~~~n~~~~s~~~~~~~~~~~l~d~~  181 (192)
T 2x5n_A          134 NNVAIDIIHIGELQNESA-LQHFIDAANSSDSCHLVSIPPSPQLLSDLV  181 (192)
T ss_dssp             TTEEEEEEEESCC---CH-HHHHHHHHCSTTCCEEEEECCCSSCHHHHH
T ss_pred             CCCEEEEEEeCCCCccHH-HHHHHHhccCCCceEEEEecCcchhHHHHH
Confidence            89999999999764 556 99999984    34565565544 344443

>3k6s_A Integrin alpha-X; cell receptor, adhesion molecule, cell adhesion, pyrrolidone carboxylic acid; HET: NAG MAN; 3.50A {Homo sapiens} PDB: 3k71_A* 3k72_A*

Probab=99.71  E-value=1.7e-18  Score=207.05  Aligned_cols=182  Identities=19%  Similarity=0.325  Sum_probs=142.0

Q ss_pred             CCCCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCCC-CeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcC-C
Q 043643          162 DADRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSA-DRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTL-S  238 (634)
Q Consensus       162 ~~~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~~-drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l-~  238 (634)
                      ...+.++||+||||.||||.+ +++.+|+++..+++.|.+. +||+||+|++.++.++||+..  .++..+..+|+.+ .
T Consensus       125 ~C~~~~~DIvfvlD~SgSm~~~~f~~~k~fv~~lv~~~~~~~~rVglV~Fs~~~~~~~~lt~~--~~~~~l~~ai~~i~~  202 (1095)
T 3k6s_A          125 ECPRQEQDIVFLIDGSGSISSRNFATMMNFVRAVISQFQRPSTQFSLMQFSNKFQTHFTFEEF--RRSSNPLSLLASVHQ  202 (1095)
T ss_dssp             CCCCCCEEEEEEEECCTTSCSHHHHHHHHHHHHHHHSSCSSSEEEEEEEESSSEEEEECSHHH--HSCSCGGGGTTTCCC
T ss_pred             cCCCCCccEEEEEcCCCCCChhHHHHHHHHHHHHHHhccccccEEEEEEECCeEEEEecCccc--CCHHHHHHHHhhhhc
Confidence            344668999999999999999 9999999999999999865 899999999999999999832  2345667778887 5


Q ss_pred             CCCCCcHHHHHHHHHHHHHhh---ccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhcccccc
Q 043643          239 SNGGTNIVEGLKKGARVLEER---RERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREA  315 (634)
Q Consensus       239 ~~GgT~i~~aL~~A~~~l~~~---~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~  315 (634)
                      .+|+|+++.||..|++.+...   ..++..+.|||||||.++....                 .+...+.        .+
T Consensus       203 ~gG~T~~g~AL~~a~~~lf~~~~g~R~~~~kviIllTDG~~~~d~~-----------------~~~~~a~--------~~  257 (1095)
T 3k6s_A          203 LQGFTYTATAIQNVVHRLFHASYGARRDAAKILIVITDGKKEGDSL-----------------DYKDVIP--------MA  257 (1095)
T ss_dssp             CCSCBCHHHHHHHHHTTTTSTTTTCCSSSEEEEEEEESSCCBSCSS-----------------CHHHHHH--------HH
T ss_pred             ccCCChHHHHHHHHHHhhccccccCCCCCCeEEEEEeCCCcCCCch-----------------hHHHHHH--------HH
Confidence            678999999999998866321   1234567899999999863211                 1111111        12


Q ss_pred             CCCCeeEEEEEccCC----CChHHHHHHHhhcCC-eEEEcCChhhHHHHHHHHhhccccc
Q 043643          316 GQPTFPVHTFGFGLE----HDSEAMHAIADASGG-TFSFIETLSILQDAFARCIGGLLSV  370 (634)
Q Consensus       316 ~~~~i~I~t~G~G~~----~d~~~L~~iA~~tgG-~~~~i~~~~~l~~~f~~~l~~l~s~  370 (634)
                      +..+|.||+||+|.+    .+...|+.||..++| .+|.+++.++|.++|.++...+..+
T Consensus       258 r~~GI~i~aIGVG~~~~~~~d~~eL~~IAs~p~g~~vf~v~d~~~L~~i~~~L~~~Ic~i  317 (1095)
T 3k6s_A          258 DAAGIIRYAIGVGLAFQNRNSWKELNDIASKPSQEHIFKVEDFDALKDIQNQLKEKIFAI  317 (1095)
T ss_dssp             HHHCEEECCEEBSSGGGSTTSSHHHHTTSCSSTTTSCCCBSCSGGGGSSTTTHHHHHHTC
T ss_pred             HHCCCEEEEEecccccccccCHHHHHHHHcCCCCceEEEcCCHHHHHHHHHHhhhhhhcc
Confidence            346999999999987    588999999998876 7788899998888887777666554

>1pcx_A Protein transport protein SEC24; 2.50A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 PDB: 1pd0_A 1pd1_A

Probab=99.70  E-value=4.1e-15  Score=172.34  Aligned_cols=340  Identities=14%  Similarity=0.091  Sum_probs=217.1

Q ss_pred             EEEeCCCCCCCCCCCCceEEEEEeCCCCCCc--cHHHHHHHHHHHHHhcCC---CCeEEEEEeCCCcEEEEcCc------
Q 043643          152 LRVCAPSLPNDADRAPIDLVTVLDVSGSMSS--KLPLLKRAVHFIIQNLGS---ADRLSIVIFSSVARRIFPLQ------  220 (634)
Q Consensus       152 v~~~ap~~~~~~~r~p~dlv~VlD~SgSM~g--kl~~~K~al~~li~~L~~---~drvsIV~Fs~~a~~~~pl~------  220 (634)
                      +++.+|.........|.-++||||+|.++..  .++.+++++...++.|++   +.+||||+|++.+...- +.      
T Consensus       172 vEy~~p~~y~~~~p~pp~yvFvIDvs~~av~~g~l~~~~~si~~~L~~Lp~~~~~~~VGlITfd~~V~~~~-l~~~~~g~  250 (810)
T 1pcx_A          172 MEYMAPKEYTLRQPPPATYCFLIDVSQSSIKSGLLATTINTLLQNLDSIPNHDERTRISILCVDNAIHYFK-IPLDSENN  250 (810)
T ss_dssp             EEEECCGGGCSSCCCCCEEEEEEECSHHHHHHTHHHHHHHHHHHHTTTSCCTTSCCEEEEEEESSSEEEEE-CCCGGGC-
T ss_pred             EEEEcCchhccCCCCCcEEEEEEECChHHHhhhHHHHHHHHHHHHHHhCCCCCCCcEEEEEEECCEEEEEe-cCccccCc
Confidence            4555554333344567889999999988743  688999999999999976   57999999998765431 11      


Q ss_pred             ----------------------------ccCHHHHHHHHHHHhcCC------CCCCCcHHHHHHHHHHHHHhhccCCCCc
Q 043643          221 ----------------------------RMTDSGRENAIRAINTLS------SNGGTNIVEGLKKGARVLEERRERSPVA  266 (634)
Q Consensus       221 ----------------------------~~t~~~~~~~~~~I~~l~------~~GgT~i~~aL~~A~~~l~~~~~~~~~~  266 (634)
                                                  ++. +.+..+...|+.|.      ..+.+.++.||..|..+|+..     ..
T Consensus       251 k~~~~q~~mlvv~dl~d~f~P~~~~~Lv~l~-e~~~~i~~lL~~L~~~~~~~~~~~~a~G~AL~~A~~lL~~~-----GG  324 (810)
T 1pcx_A          251 EESADQINMMDIADLEEPFLPRPNSMVVSLK-ACRQNIETLLTKIPQIFQSNLITNFALGPALKSAYHLIGGV-----GG  324 (810)
T ss_dssp             ------CEEECCCCTTCC-----TTTSEETT-TTHHHHHHHHHHHHHHTTTCCCCCCCHHHHHHHHHHHHTTT-----CE
T ss_pred             cccccchhhccccccccccCCCcccccccHH-HHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHHhc-----CC
Confidence                                        011 22444444454432      256899999999999999743     25


Q ss_pred             EEEEEeCCCCCCCCCCCcccccccCCCCCCHHH-HHhhchhhhhccccccCCCCeeEEEEEccCC-CChHHHHHHHhhcC
Q 043643          267 SIILLSDGQDTHNVLRNSYTQDEASSIPSNELA-YLNLLPSSICLSKREAGQPTFPVHTFGFGLE-HDSEAMHAIADASG  344 (634)
Q Consensus       267 ~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~-~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~-~d~~~L~~iA~~tg  344 (634)
                      .|++++.|.++.|.+....+.+....+...+.. +..-..+.++..+.++...++.|+.|.++.+ .|-..|..++..||
T Consensus       325 rI~~F~sg~pt~GpG~l~~r~~~~~~~~~ke~~~l~~~a~~fY~~la~~~~~~gi~VDlF~~s~~~~dla~l~~l~~~TG  404 (810)
T 1pcx_A          325 KIIVVSGTLPNLGIGKLQRRNESGVVNTSKETAQLLSCQDSFYKNFTIDCSKVQITVDLFLASEDYMDVASLSNLSRFTA  404 (810)
T ss_dssp             EEEEEESSCCCSSTTCCCC--------------------CCHHHHHHHHHHHTTEEEEEEEEESSCCCHHHHHHHHHTTT
T ss_pred             EEEEEecCCCCCCCCcccccccccccCcccchhhhcccchHHHHHHHHHHHHCCeEEEEEEccCCccChHHHHHHHhcCC
Confidence            699999999999876542222211111110000 1100011122223345567899999988765 57889999999999


Q ss_pred             CeEEEcCChhh--H--HHHHHHHhhcc-ccceeeeeEEEEEecCCCeEEEEecCCCCCcccccCCceeEEEcCCccCCcE
Q 043643          345 GTFSFIETLSI--L--QDAFARCIGGL-LSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEE  419 (634)
Q Consensus       345 G~~~~i~~~~~--l--~~~f~~~l~~l-~s~va~~~~l~v~~~~~~v~i~~v~~~~~~~~~~~~~~~~~i~lg~l~~~e~  419 (634)
                      |..++.+++..  .  ...|.+.+.+. ....+.++.++|++ ++|++|..+. |.+..+     ....+.++.+..+..
T Consensus       405 G~v~~y~~F~~~~~~d~~~f~~dl~~~l~~~~gf~a~mrVR~-S~gl~v~~~~-G~~~~~-----~~~~~~l~~~~~d~s  477 (810)
T 1pcx_A          405 GQTHFYPGFSGKNPNDIVKFSTEFAKHISMDFCMETVMRARG-STGLRMSRFY-GHFFNR-----SSDLCAFSTMPRDQS  477 (810)
T ss_dssp             CCEEEEETCCTTSHHHHHHHHHHHHHHHHCCCCEEEEEEEEE-CTTEEEEEEE-SSSBCS-----SSSEEEESSCCSSCC
T ss_pred             cEEEEcCCCcchhhHHHHHHHHHHHHHhhhhcceeEEEEEEc-CCCeEEEEee-cCcccc-----CcCceEeecCCCCCE
Confidence            99988876642  1  12355555543 34689999999998 7999999985 444332     235799999999988


Q ss_pred             EEEEEEEEcCCCCCCCCCCCCccceEEEEEEEecCCCCceeeeecceeEEeCCCccccccccccHHHHHHHHHHHHHHHH
Q 043643          420 KEFMVYLSIPVSSAEGEQRPECTALLDVFCTHKDSASMEIHQVEGEKVEIRRPEVLSTADKKVNLQVDRQRSRLLVAETI  499 (634)
Q Consensus       420 r~~lv~l~~p~~~~~~~~~~~~~~l~~v~~~Y~~~~~~~~~~~~~~~~~v~rp~~~~~~~~~~~~~V~~~~~r~~a~~~i  499 (634)
                      ..|.+++.-.. ..       ....+|+.+.|++..+.+.++|.+..+.+........  ...+.++....       ..
T Consensus       478 ~~v~f~~~~~l-~~-------~~~~~Q~allYt~~~G~RRiRV~T~~~~vt~~~~~v~--~~~Dqea~~~l-------la  540 (810)
T 1pcx_A          478 YLFEVNVDESI-MA-------DYCYVQVAVLLSLNNSQRRIRIITLAMPTTESLAEVY--ASADQLAIASF-------YN  540 (810)
T ss_dssp             EEEEEEECSCC-CS-------SEEEEEEEEEEECTTSCEEEEEEEEEEEEESCHHHHH--HTBCHHHHHHH-------HH
T ss_pred             EEEEEEeccCC-CC-------CcEEEEEEEEEEcCCCCEEEEEEecCccccCCHHHHH--HhcCHHHHHHH-------HH
Confidence            88877775321 11       2678999999999999999999876666643211111  12334433221       22


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHH
Q 043643          500 ADAQRMAEVGDLESAQALLAERR  522 (634)
Q Consensus       500 ~~a~~~a~~g~~~~A~~~L~~~~  522 (634)
                      +.|...+..+...+|++.|.++.
T Consensus       541 r~av~~~~~~~~~d~r~~l~~~l  563 (810)
T 1pcx_A          541 SKAVEKALNSSLDDARVLINKSV  563 (810)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHhhcCCHHHHHHHHHHHH
Confidence            33444445567777777776654

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1

Probab=99.67  E-value=9.6e-15  Score=170.26  Aligned_cols=342  Identities=14%  Similarity=0.102  Sum_probs=220.1

Q ss_pred             EEEEeCCCCCCCCCCCCceEEEEEeCCCCCC--ccHHHHHHHHHHHHHhcCC---CCeEEEEEeCCCcEEEE--------
Q 043643          151 LLRVCAPSLPNDADRAPIDLVTVLDVSGSMS--SKLPLLKRAVHFIIQNLGS---ADRLSIVIFSSVARRIF--------  217 (634)
Q Consensus       151 ~v~~~ap~~~~~~~r~p~dlv~VlD~SgSM~--gkl~~~K~al~~li~~L~~---~drvsIV~Fs~~a~~~~--------  217 (634)
                      .+++.+|.........|.-++||||+|.+..  |-++.+++++...++.|.+   +.+||||+|++.+...-        
T Consensus       287 tvEyi~p~ey~~r~p~ppvyvFvIDvS~~av~~g~l~~l~~sI~~~L~~LP~~~~~~~VGlITFds~Vh~y~l~~~~~g~  366 (926)
T 1m2v_B          287 VMEYMAPKEYTLRQPPPATYCFLIDVSQSSIKSGLLATTINTLLQNLDSIPNHDERTRISILCVDNAIHYFKIPLDSENN  366 (926)
T ss_dssp             EEEEECCGGGCSSCCCCCBEEEEEECSHHHHHSCHHHHHHHHHHHTTTTSCCTTSCCEECEEEESSSEEEEECCCC----
T ss_pred             eEEEEcChhhccCCCCCcEEEEEEECCHHHHhhhHHHHHHHHHHHHHHhCCCCCCCcEEEEEEECCEEEEEecCCcccCC
Confidence            4566666543334456788999999998763  3688999999999999976   57999999998764321        


Q ss_pred             --------------------c-----CcccCHHHHHHHHHHHhcCC------CCCCCcHHHHHHHHHHHHHhhccCCCCc
Q 043643          218 --------------------P-----LQRMTDSGRENAIRAINTLS------SNGGTNIVEGLKKGARVLEERRERSPVA  266 (634)
Q Consensus       218 --------------------p-----l~~~t~~~~~~~~~~I~~l~------~~GgT~i~~aL~~A~~~l~~~~~~~~~~  266 (634)
                                          |     |.++. +.+..+...|+.|.      ....+.++.||..|..+|+..     ..
T Consensus       367 k~~~~q~qmlvvsdl~d~f~P~~~~~Lv~l~-e~~~~I~~lLe~L~~~~~~~~~~~~~~G~AL~aA~~lL~~~-----GG  440 (926)
T 1m2v_B          367 EESADQINMMDIADLEEPFLPRPNSMVVSLK-ACRQNIETLLTKIPQIFQSNLITNFALGPALKSAYHLIGGV-----GG  440 (926)
T ss_dssp             -----CCEEEEECCCSSCCCSCSSSSSEETT-TTHHHHHHHHHHHHHHTSSCCCCCCCHHHHHHHHHHHHTTT-----CE
T ss_pred             cccccchhhccccccccccCCCcccccccHH-HHHHHHHHHHHhhhhhhcCCCCCCccHHHHHHHHHHHHHhh-----CC
Confidence                                0     00111 23444555555442      346889999999999999753     35


Q ss_pred             EEEEEeCCCCCCCCCCCcccccccCCCCCCHHH-HHhhchhhhhccccccCCCCeeEEEEEccCC-CChHHHHHHHhhcC
Q 043643          267 SIILLSDGQDTHNVLRNSYTQDEASSIPSNELA-YLNLLPSSICLSKREAGQPTFPVHTFGFGLE-HDSEAMHAIADASG  344 (634)
Q Consensus       267 ~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~-~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~-~d~~~L~~iA~~tg  344 (634)
                      .|++++.|.++.|.+....+.+....+...+.. +..-..+.++..+.++...++.|+.|.++.+ .|-..|..+++.||
T Consensus       441 rI~~F~sg~Pt~GpG~l~~re~~~~~~~~ke~~~ll~~a~~FYk~LA~~~~~~gisVDlF~~s~~~vdla~l~~l~~~TG  520 (926)
T 1m2v_B          441 KIIVVSGTLPNLGIGKLQRRNESGVVNTSKETAQLLSCQDSFYKNFTIDCSKVQITVDLFLASEDYMDVASLSNLSRFTA  520 (926)
T ss_dssp             EEEEEESSCCCSSTTCCCCCCC----CCTTHHHHHTSCSSTHHHHHHHHHHHHTEEEEEEEEESSCCCHHHHHHHHHTTT
T ss_pred             EEEEEecCCCCCCCCcccccccccccCcccchhhhccchHHHHHHHHHHHHHcCeEEEEEEccCCCcChHHHHHHHhcCC
Confidence            699999999999877543332222112111111 1111111222223344567888888888755 58889999999999


Q ss_pred             CeEEEcCChhh--H--HHHHHHHhhc-cccceeeeeEEEEEecCCCeEEEEecCCCCCcccccCCceeEEEcCCccCCcE
Q 043643          345 GTFSFIETLSI--L--QDAFARCIGG-LLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEE  419 (634)
Q Consensus       345 G~~~~i~~~~~--l--~~~f~~~l~~-l~s~va~~~~l~v~~~~~~v~i~~v~~~~~~~~~~~~~~~~~i~lg~l~~~e~  419 (634)
                      |..++.+++..  .  ...|.+.+.+ +....+.++.++|+| ++|++|..+. |.+..+     ....+.++.+..+..
T Consensus       521 G~v~~y~~F~~~~~~d~~kf~~dl~~~Lt~~~gf~a~mrVR~-S~glkv~~~~-G~~~~~-----~s~~~~l~~l~~d~s  593 (926)
T 1m2v_B          521 GQTHFYPGFSGKNPNDIVKFSTEFAKHISMDFCMETVMRARG-STGLRMSRFY-GHFFNR-----SSDLCAFSTMPRDQS  593 (926)
T ss_dssp             CCEEEEESCCTTSHHHHHHHHHHHHHHHHSCCEEEEEEEEEE-CTTEEEEEEE-SSSBCS-----STTEEEEEEECSSCC
T ss_pred             ceEEEcCCCcchhhhHHHHHHHHHHHHhhhhhceeEEEEEEe-CCCcEEEEee-cCcccc-----CcCceEeeccCCCCE
Confidence            99888876542  1  1235555554 344689999999998 7999999986 333322     234789999999988


Q ss_pred             EEEEEEEEcCCCCCCCCCCCCccceEEEEEEEecCCCCceeeeecceeEEeCCCccccccccccHHHHHHHHHHHHHHHH
Q 043643          420 KEFMVYLSIPVSSAEGEQRPECTALLDVFCTHKDSASMEIHQVEGEKVEIRRPEVLSTADKKVNLQVDRQRSRLLVAETI  499 (634)
Q Consensus       420 r~~lv~l~~p~~~~~~~~~~~~~~l~~v~~~Y~~~~~~~~~~~~~~~~~v~rp~~~~~~~~~~~~~V~~~~~r~~a~~~i  499 (634)
                      ..|.++++-.. ..       ....+|+.+.|++..+.+.++|.+..+.+........  ...+.++....       ..
T Consensus       594 ~av~f~~~~~l-~~-------~~~~~Q~allYT~~~G~RRiRV~T~~l~vt~~l~~v~--~s~Dqea~~~l-------la  656 (926)
T 1m2v_B          594 YLFEVNVDESI-MA-------DYCYVQVAVLLSLNNSQRRIRIITLAMPTTESLAEVY--ASADQLAIASF-------YN  656 (926)
T ss_dssp             EEEEEEECSBC-CS-------SEEEEEEEEEEEETTTEEEEEEEEEEEEEESCHHHHH--HTBCHHHHHHH-------HH
T ss_pred             EEEEEEeccCC-CC-------CcEEEEEEEEEEcCCCCEEEEEEeecccccCCHHHHH--HhcCHHHHHHH-------HH
Confidence            88777775321 11       2678999999999999999999876666643211111  12334433221       22


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHH
Q 043643          500 ADAQRMAEVGDLESAQALLAERR  522 (634)
Q Consensus       500 ~~a~~~a~~g~~~~A~~~L~~~~  522 (634)
                      +.|...+..+.+.+|++.|.++.
T Consensus       657 r~av~~~~~~~~~d~r~~L~~~l  679 (926)
T 1m2v_B          657 SKAVEKALNSSLDDARVLINKSV  679 (926)
T ss_dssp             HHHHHHHHHSCSHHHHHHHHHHH
T ss_pred             HHHHHHhhcCCHHHHHHHHHHHH
Confidence            33444445567777777776654

>2nut_A Protein transport protein SEC23A; human copii SEC23/24 complexed with SEC22, protein transport; 2.30A {Homo sapiens} PDB: 2nup_A 3egd_A 3eg9_A 3egx_A 3efo_A

Probab=99.66  E-value=4.2e-14  Score=163.24  Aligned_cols=295  Identities=13%  Similarity=0.102  Sum_probs=197.3

Q ss_pred             CCCceEEEEEeCCCCCCccHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCcc-----------------------
Q 043643          165 RAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQR-----------------------  221 (634)
Q Consensus       165 r~p~dlv~VlD~SgSM~gkl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~~-----------------------  221 (634)
                      ..|.-++||||+|.+.. +++.+|+++...++.|+++.+||||+|++.+...- +..                       
T Consensus       130 p~pp~~vFvIDvS~~a~-~l~~l~~si~~~L~~Lp~~~~VGlITf~~~v~~y~-l~~~~~~~~~vf~G~k~~~~~q~~~m  207 (769)
T 2nut_A          130 QMPLIFLYVVDTCMEDE-DLQALKESMQMSLSLLPPTALVGLITFGRMVQVHE-LGCEGISKSYVFRGTKDLSAKQLQEM  207 (769)
T ss_dssp             CCCCEEEEEEECCSCHH-HHHHHHHHHHHHHTTSCTTCEEEEEEESSEEEEEE-SSCCSSCEEEEEETTSCCCSHHHHHH
T ss_pred             CCCCEEEEEEECCccHH-HHHHHHHHHHHHHHhCCCCceEEEEEeCCEEEEEe-CCCCCCccceeecCCccccHHHHHHH
Confidence            45778999999998622 89999999999999999999999999998765421 000                       


Q ss_pred             --cC--------------------------HHHHHHHHHHHhcCCC---------CCCCcHHHHHHHHHHHHHhhccCCC
Q 043643          222 --MT--------------------------DSGRENAIRAINTLSS---------NGGTNIVEGLKKGARVLEERRERSP  264 (634)
Q Consensus       222 --~t--------------------------~~~~~~~~~~I~~l~~---------~GgT~i~~aL~~A~~~l~~~~~~~~  264 (634)
                        ++                          .+.+..+.+.|+.|..         .+.+.++.||..|..+|+... ++.
T Consensus       208 l~v~d~~~~~~~~~~~~~f~~p~~~~lv~~~e~~~~i~~lLe~L~~~~~~~~~~~~~~~a~G~Al~~A~~lL~~~~-~~~  286 (769)
T 2nut_A          208 LGLSKVPVTQATRGPQVQQPPPSNRFLQPVQKIDMNLTDLLGELQRDPWPVPQGKRPLRSSGVALSIAVGLLECTF-PNT  286 (769)
T ss_dssp             HC-------------------CCCSSSEEHHHHHHHHHHHHHHCCCCSSCCCTTBCCCCCHHHHHHHHHHHHHHHS-CSS
T ss_pred             hCCCCcccccccccccccCCCcccceeeeHHHHHHHHHHHHHhcccccccccCCCCCccchHHHHHHHHHHHhhcc-cCC
Confidence              10                          1234456677777755         467899999999999998532 233


Q ss_pred             CcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHH----hhc---hhhhhccccccCCCCeeEEEEEccCC-CChHHH
Q 043643          265 VASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYL----NLL---PSSICLSKREAGQPTFPVHTFGFGLE-HDSEAM  336 (634)
Q Consensus       265 ~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~----~lv---~~~i~~~~~~~~~~~i~I~t~G~G~~-~d~~~L  336 (634)
                      ...|++++.|.++.|.+....+.+... .. ...+..    .++   .+.++..+.++...++.|+.|.++.+ .|-..|
T Consensus       287 GGrI~~F~sg~pt~GpG~l~~r~~~~~-~r-s~~d~~ke~~~~~~~a~~fY~~la~~~~~~gi~VDlF~~~~~~vdla~l  364 (769)
T 2nut_A          287 GARIMMFIGGPATQGPGMVVGDELKTP-IR-SWHDIDKDNAKYVKKGTKHFEALANRAATTGHVIDIYACALDQTGLLEM  364 (769)
T ss_dssp             CCEEEEEESSCCCSSSSCCSCSBTTSC-CC-CHHHHHTTCCTTHHHHHHHHHHHHHHHHHHTCEEEEEEECSSCCCHHHH
T ss_pred             CcEEEEEeCCCCCCCCCCCcCcccccc-cc-cccccccchhhhccchHHHHHHHHHHHHHCCeEEEEEeccCCccChHHH
Confidence            466999999999998765422211100 00 000000    000   01122222344567899999998865 478899


Q ss_pred             HHHHhhcCCeEEEcCChhh--HHHHHHHHhhcccc---ceeeeeEEEEEecCCCeEEEEecCCCCCc------cc----c
Q 043643          337 HAIADASGGTFSFIETLSI--LQDAFARCIGGLLS---VVSQDVKLTIRSKSAGVRIGSIPSGRYNS------EV----L  401 (634)
Q Consensus       337 ~~iA~~tgG~~~~i~~~~~--l~~~f~~~l~~l~s---~va~~~~l~v~~~~~~v~i~~v~~~~~~~------~~----~  401 (634)
                      ..+++.|||..++.+++..  +.+.|.+.+..-.+   ..+.+..++|++ ++|++|..+.. .+.+      .+    .
T Consensus       365 ~~l~~~TGG~~~~~~~F~~~~~~~~l~~~~~~~~~~~l~~gf~a~mrVr~-S~gl~v~~~~G-~~~~~~~~~~~vsd~~~  442 (769)
T 2nut_A          365 KCCPNLTGGYMVMGDSFNTSLFKQTFQRVFTKDMHGQFKMGFGGTLEIKT-SREIKISGAIG-PCVSLNSKGPCVSENEI  442 (769)
T ss_dssp             THHHHHSSCCEEEESCSSSHHHHHHHHHTTCBCTTSCBSCEEEEEEEEEE-CTTEEEEEEES-SCEECCCCCTTBCSSCC
T ss_pred             HHHhhcCCceEEEcCCCchhhHHHHHHHHHhhhcccccceEEEEEEEEEe-cCCeEEEeeec-cccccccccCcccccee
Confidence            9999999999999987653  44455555543322   589999999998 79999999863 3221      11    1


Q ss_pred             cCCceeEEEcCCccCCcEEEEEEEEEcCCCCCCCCCCCCccceEEEEEEEecCCCCceeeeecceeEE
Q 043643          402 DEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRPECTALLDVFCTHKDSASMEIHQVEGEKVEI  469 (634)
Q Consensus       402 ~~~~~~~i~lg~l~~~e~r~~lv~l~~p~~~~~~~~~~~~~~l~~v~~~Y~~~~~~~~~~~~~~~~~v  469 (634)
                      +.++...+.++.+..+....|.+++.-+....-.   ......+|+.+.|++..+.+.++|.+..+.+
T Consensus       443 g~~~t~~~~l~~~~~d~s~~v~f~~~~~~~~~l~---~~~~~~~Q~a~lYt~~~G~rRiRV~T~~~~~  507 (769)
T 2nut_A          443 GTGGTCQWKICGLSPTTTLAIYFEVVNQHNAPIP---QGGRGAIQFVTQYQHSSGQRRIRVTTIARNW  507 (769)
T ss_dssp             SBCSCSEEEEEEECTTCCEEEEEEEC-------------CCEEEEEEEEEEETTSCEEEEEEEEEECB
T ss_pred             ccCCCceEEeecCCCCCEEEEEEEecCccccccC---CCCeEEEEEEEEEECCCCCEEEEEEeecccc
Confidence            1234568999999999988888887644211000   0126789999999999999999987554444

>2ww8_A RRGA, cell WALL surface anchor family protein; IGG, pilus, CNA_B, adhesin, integrin, cell adhesion; HET: EPE; 1.90A {Streptococcus pneumoniae}

Probab=99.65  E-value=1.8e-15  Score=176.13  Aligned_cols=136  Identities=21%  Similarity=0.298  Sum_probs=103.2

Q ss_pred             CCCceEEEEEEeCCCCCC-CCCCCCceEEEEEeCCCCCCc-c------HHHHHHHHHHHHHhcC--CCCeEEEEEeCCCc
Q 043643          144 CPPKFAVLLRVCAPSLPN-DADRAPIDLVTVLDVSGSMSS-K------LPLLKRAVHFIIQNLG--SADRLSIVIFSSVA  213 (634)
Q Consensus       144 ~~~~~~v~v~~~ap~~~~-~~~r~p~dlv~VlD~SgSM~g-k------l~~~K~al~~li~~L~--~~drvsIV~Fs~~a  213 (634)
                      ..+.|.|.|.+.++.... ...+.|+|||||||+||||.+ +      |+.+|+++..+++.|.  ++|||+||+|++.+
T Consensus       200 ~~~~~~v~L~v~g~~~~~~~~~~~~~DIVfVLD~SGSM~~~~~~~~~Rl~~~K~a~~~~ld~L~~~~~drVgLV~Fs~~a  279 (893)
T 2ww8_A          200 DDNQYGIELTVSGKTVYEQKDKSVPLDVVILLDNSNSMSNIRNKNARRAERAGEATRSLIDKITSDSENRVALVTYASTI  279 (893)
T ss_dssp             TTTEEEEEEEEEBCEEEEESSTTCCEEEEEEEECCGGGCTTHHHHCCHHHHHHHHHHHHHHHHHTSTTCEEEEEEESSSB
T ss_pred             CCCeeEEEEEecccccccccccCCCccEEEEEeCCCCCCCcCccchhHHHHHHHHHHHHHHHhhcCCCcEEEEEEecCcc
Confidence            467889999998874211 146789999999999999997 3      7889999999999885  58999999999876


Q ss_pred             EE------E---------------------------------EcCcccCHHHHHHHHHHHhc----------CCCCCCCc
Q 043643          214 RR------I---------------------------------FPLQRMTDSGRENAIRAINT----------LSSNGGTN  244 (634)
Q Consensus       214 ~~------~---------------------------------~pl~~~t~~~~~~~~~~I~~----------l~~~GgT~  244 (634)
                      ..      .                                 .||+. +......++..|..          +.++|||+
T Consensus       280 ~~~~~~~v~~~~~~~~g~~~n~~~~w~~~~t~~t~~~~~~~~lpLT~-d~~~i~~lk~~I~~~~~~~~G~~~l~~~GGT~  358 (893)
T 2ww8_A          280 FDGTEFTVEKGVADKNGKRLNDSLFWNYDQTSFTTNTKDYSYLKLTN-DKNDIVELKNKVPTEAEDHDGNRLMYQFGATF  358 (893)
T ss_dssp             CBSCEEEEECCEECTTCCEECCCTTSCTTCCEEEEECCBCCEEEEEC-CHHHHHHHHHHSCSCCCCSCTTSGGGGGCSCC
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccC-CHHHHHHHHHHHhhhccccccccccccCCCCh
Confidence            32      1                                 12331 12233556677764          45689999


Q ss_pred             HHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCC
Q 043643          245 IVEGLKKGARVLEERRERSPVASIILLSDGQDTHNV  280 (634)
Q Consensus       245 i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~  280 (634)
                      ++.||..|+++|.....++..+.|||||||.++.+.
T Consensus       359 i~~AL~~A~~lL~~~~~~~~~kvIILLTDG~pt~~~  394 (893)
T 2ww8_A          359 TQKALMKADEILTQQARQNSQKVIFHITDGVPTMSY  394 (893)
T ss_dssp             HHHHHHHHHHHHHHHSCSSSEEEEEEEESSCCSEEC
T ss_pred             HHHHHHHHHHHHHhhcccCCCeEEEEEcCCCCCccc
Confidence            999999999999754434566789999999998654

>3eh1_A Protein transport protein SEC24B; copii coat protein, vesicle transport, transport signal sequence, cytoplasm, endoplasmic reticulum; 1.80A {Homo sapiens} PDB: 2nut_B 2nup_B 3egd_B 3egx_B

Probab=99.64  E-value=5.3e-14  Score=161.49  Aligned_cols=333  Identities=13%  Similarity=0.140  Sum_probs=214.3

Q ss_pred             EEEeCCCCCCCCCCCCceEEEEEeCCCC-CC-ccHHHHHHHHHHHHHhcCCCC--eEEEEEeCCCcEEE-----------
Q 043643          152 LRVCAPSLPNDADRAPIDLVTVLDVSGS-MS-SKLPLLKRAVHFIIQNLGSAD--RLSIVIFSSVARRI-----------  216 (634)
Q Consensus       152 v~~~ap~~~~~~~r~p~dlv~VlD~SgS-M~-gkl~~~K~al~~li~~L~~~d--rvsIV~Fs~~a~~~-----------  216 (634)
                      |++.+|......+..|.-++||||+|-. +. |-++.+++++...++.|+++.  +||||+|++.+...           
T Consensus       145 vEy~~p~~y~~r~p~pp~yvFvIDvs~~a~~~g~l~~~~~sl~~~L~~lp~~~~~~VG~ITfd~~vh~y~l~~~~~~~qm  224 (751)
T 3eh1_A          145 VEFIASSDYMLRPPQPAVYLFVLDVSHNAVEAGYLTILCQSLLENLDKLPGDSRTRIGFMTFDSTIHFYNLQEGLSQPQM  224 (751)
T ss_dssp             EEEEECGGGCSSSCCCCEEEEEEECSHHHHHHTHHHHHHHHHHHHTTTSSCCTTCEEEEEEESSSEEEEECCTTCSSCEE
T ss_pred             EEEEcChhhhcCCCCCcEEEEEEEccHhhhhhhHHHHHHHHHHHHHHhcCCCcCcEEEEEEeCCEEEEEECCCCccccee
Confidence            3444443222234568889999999853 22 268899999999999998765  89999999875421           


Q ss_pred             --E--------cC-----cccCHHHHHHHHHHHhcCC---CC---CCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCC
Q 043643          217 --F--------PL-----QRMTDSGRENAIRAINTLS---SN---GGTNIVEGLKKGARVLEERRERSPVASIILLSDGQ  275 (634)
Q Consensus       217 --~--------pl-----~~~t~~~~~~~~~~I~~l~---~~---GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~  275 (634)
                        +        |+     .++. +.+..+...++.|.   ..   ..+.++.||..|..+|+..     ...|++++.|.
T Consensus       225 lvv~dl~d~f~P~~~~~lv~l~-e~~~~i~~lL~~Lp~~~~~~~~~~~~~G~AL~aA~~ll~~~-----GGrI~~F~sg~  298 (751)
T 3eh1_A          225 LIVSDIDDVFLPTPDSLLVNLY-ESKELIKDLLNALPNMFTNTRETHSALGPALQAAFKLMSPT-----GGRVSVFQTQL  298 (751)
T ss_dssp             EEESCTTCTTSCCGGGTSEETT-TTHHHHHHHHHHGGGTSTTCSCCCCCHHHHHHHHHHHHTTT-----CEEEEEEECSC
T ss_pred             eccccccccCCCChhhhcccHH-HHHHHHHHHHHhhhHhhcCCCCCccchHHHHHHHHHHhhcC-----CCEEEEEecCC
Confidence              1        10     0111 23555555555542   22   3678999999999999643     35699999999


Q ss_pred             CCCCCCCCccccc--------ccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEEccCC-CChHHHHHHHhhcCCe
Q 043643          276 DTHNVLRNSYTQD--------EASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLE-HDSEAMHAIADASGGT  346 (634)
Q Consensus       276 ~~~g~~~~~~~~~--------~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~-~d~~~L~~iA~~tgG~  346 (634)
                      ++.|.+....+.+        ++........-|+++        +.++...++.|..|.++.+ .|-..|..+++.|||.
T Consensus       299 pt~GpG~l~~r~~~~~~~~~ke~~~~~~a~~fY~~l--------a~~~~~~~i~VDlF~~s~~~~dlatl~~l~~~TGG~  370 (751)
T 3eh1_A          299 PSLGAGLLQSREDPNQRSSTKVVQHLGPATDFYKKL--------ALDCSGQQTAVDLFLLSSQYSDLASLACMSKYSAGC  370 (751)
T ss_dssp             CCSSTTCCCCCCCSCGGGGSSSCTTCSCSCSHHHHH--------HHHHHHTTEEEEEEECCSSCCCHHHHTHHHHTTTCC
T ss_pred             CCCCCCccccccccccCCCchhhhhhcchHHHHHHH--------HHHHHhcCceEEEEEccCcccChHhHHHHHhhcCce
Confidence            9998765422211        111111111223332        2234567899999998765 4888999999999999


Q ss_pred             EEEcCChhh-----HHHHHHHHhhccc-cceeeeeEEEEEecCCCeEEEEecCCCCCcccccCCceeEEEcCCccCCcEE
Q 043643          347 FSFIETLSI-----LQDAFARCIGGLL-SVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEK  420 (634)
Q Consensus       347 ~~~i~~~~~-----l~~~f~~~l~~l~-s~va~~~~l~v~~~~~~v~i~~v~~~~~~~~~~~~~~~~~i~lg~l~~~e~r  420 (634)
                      .++.+++..     -...|.+.+...+ ...+.+..++|++ ++|++|..+. |.+..     +....+.++.+..+...
T Consensus       371 v~~y~~F~~~~~~~~~~~f~~dl~r~l~~~~gf~a~mrVR~-S~glkv~~~~-G~~~~-----~~t~~~~l~~i~~d~s~  443 (751)
T 3eh1_A          371 IYYYPSFHYTHNPSQAEKLQKDLKRYLTRKIGFEAVMRIRC-TKGLSMHTFH-GNFFV-----RSTDLLSLANINPDAGF  443 (751)
T ss_dssp             EEECTTCBTTTBHHHHHHHHHHHHHHHHSCCEEEEEEEEEE-CTTEEEEEEE-SSSEE-----CSSSEEEEEEECTTCCE
T ss_pred             EEEeCCcccccchhHHHHHHHHHHHHHhhhhccceEEEEEe-cCCeEEEEee-CCeEe-----CCCCceEeccCCCCCEE
Confidence            999887642     1234555444443 4689999999998 7999999875 44432     13456889999998887


Q ss_pred             EEEEEEEcCCCCCCCCCCCCccceEEEEEEEecCCCCceeeeecceeEEeCCCccccccccccHHHHHHHHHHHHHHHHH
Q 043643          421 EFMVYLSIPVSSAEGEQRPECTALLDVFCTHKDSASMEIHQVEGEKVEIRRPEVLSTADKKVNLQVDRQRSRLLVAETIA  500 (634)
Q Consensus       421 ~~lv~l~~p~~~~~~~~~~~~~~l~~v~~~Y~~~~~~~~~~~~~~~~~v~rp~~~~~~~~~~~~~V~~~~~r~~a~~~i~  500 (634)
                      .|.++++-......       ...+|+.+.|++..+.+.++|.+..+.+........  ...+.+...       +-..+
T Consensus       444 ~v~~~~~~~l~~~~-------~~~~Q~allYT~~~G~RRiRV~T~~l~vt~~~~~v~--~~~DqeA~~-------~llar  507 (751)
T 3eh1_A          444 AVQLSIEESLTDTS-------LVCFQTALLYTSSKGERRIRVHTLCLPVVSSLADVY--AGVDVQAAI-------CLLAN  507 (751)
T ss_dssp             EEEEEESSCCCSCS-------EEEEEEEEEEECTTSCEEEEEEEEEEEEECSHHHHH--HTBCHHHHH-------HHHHH
T ss_pred             EEEEEEcCCCCCCC-------ceEEEEEEeeecCCCCEEEEEEEecccccCCHHHHH--HhcCHHHHH-------HHHHH
Confidence            77777753222112       678999999999999999999876655543211111  123333321       11223


Q ss_pred             HHHHHHHcCCHHHHHHHHHHH
Q 043643          501 DAQRMAEVGDLESAQALLAER  521 (634)
Q Consensus       501 ~a~~~a~~g~~~~A~~~L~~~  521 (634)
                      .|...+..+.+.++++.|.+.
T Consensus       508 ~av~~~~~~~l~d~r~~l~~~  528 (751)
T 3eh1_A          508 MAVDRSVSSSLSDARDALVNA  528 (751)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHH
Confidence            444445567777777776654

>1m2o_A SEC23, protein transport protein SEC23, SEC23P; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 PDB: 1m2v_A 2qtv_A*

Probab=99.63  E-value=2e-13  Score=157.65  Aligned_cols=353  Identities=12%  Similarity=0.089  Sum_probs=222.8

Q ss_pred             EEEeCCCCCCCCCCCCceEEEEEeCCCCCCccHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCc-----------
Q 043643          152 LRVCAPSLPNDADRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQ-----------  220 (634)
Q Consensus       152 v~~~ap~~~~~~~r~p~dlv~VlD~SgSM~gkl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~-----------  220 (634)
                      |+..+|.    ....|.-++||||+|.+.. .++.+|+++...++.|+++.+||||+|++.+... .+.           
T Consensus       110 vEy~~p~----~~~~pp~~vFvIDvs~~~~-~l~~l~~sl~~~L~~Lp~~~~VGlITf~~~V~~y-~l~~~~~~~~~V~~  183 (768)
T 1m2o_A          110 IEYITNK----PVTVPPIFFFVVDLTSETE-NLDSLKESIITSLSLLPPNALIGLITYGNVVQLH-DLSSETIDRCNVFR  183 (768)
T ss_dssp             EEEECSC----CCCSCCEEEEEEECCSCHH-HHHHHHHHHHHHHHTSCTTCEEEEEEESSEEEEC-CCSSSSSEEEEEEE
T ss_pred             EEEECCC----CCCCCCEEEEEEECCcCHH-HHHHHHHHHHHHHHhCCCCCEEEEEEECCEEEEE-ECCCCCCcceeeec
Confidence            4455553    2346788999999997743 7899999999999999999999999999865331 100           


Q ss_pred             ---------------ccC------------------------------HHHHHHHHHHHhcCCC---------CCCCcHH
Q 043643          221 ---------------RMT------------------------------DSGRENAIRAINTLSS---------NGGTNIV  246 (634)
Q Consensus       221 ---------------~~t------------------------------~~~~~~~~~~I~~l~~---------~GgT~i~  246 (634)
                                     .++                              .+.+..+.+.|+.|..         ...+.++
T Consensus       184 g~k~~~~~q~~~~l~~l~~~~~~~~~~~~~~~~f~p~~~~~~~~lv~l~e~~~~i~~lL~~L~~~~~~~~~~~~~~~~~G  263 (768)
T 1m2o_A          184 GDREYQLEALTEMLTGQKPTGPGGAASHLPNAMNKVTPFSLNRFFLPLEQVEFKLNQLLENLSPDQWSVPAGHRPLRATG  263 (768)
T ss_dssp             TTSCCCHHHHHHHHHSCCCC---------------CCSSSGGGGSEEHHHHHHHHHHHHHTCCCSCSCCCTTBCCCCCHH
T ss_pred             CCccccHHHHHHHHhhccccccCCccccccccccccccCCccceeeeHHHHHHHHHHHHHhccccccccCCCCCCcccHH
Confidence                           000                              1124456677777754         3467899


Q ss_pred             HHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHh----hc---hhhhhccccccCCCC
Q 043643          247 EGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLN----LL---PSSICLSKREAGQPT  319 (634)
Q Consensus       247 ~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~----lv---~~~i~~~~~~~~~~~  319 (634)
                      .||..|..+|+... ++....|++++.|.++.|.+....+.+... . ....++.+    ++   .+.++..+.++...+
T Consensus       264 ~Al~~A~~ll~~~~-~~~GGrI~~F~sg~pt~GpG~l~~r~~~~~-~-rs~~d~~k~~~~~~~~a~~fY~~la~~~~~~g  340 (768)
T 1m2o_A          264 SALNIASLLLQGCY-KNIPARIILFASGPGTVAPGLIVNSELKDP-L-RSHHDIDSDHAQHYKKACKFYNQIAQRVAANG  340 (768)
T ss_dssp             HHHHHHHHHHHHHC-TTSCCEEEEEESSCCCSSSSCCSCSBTTSC-C-CCHHHHHHTCCTTHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhcc-CCCCcEEEEEeCCCCCCCCccccccccccc-c-ccccccccchhhhcCchHHHHHHHHHHHHHCC
Confidence            99999999998532 233467999999999998765422221100 0 00000000    00   011222233445678


Q ss_pred             eeEEEEEccCC-CChHHHHHHHhhcCCeEEEcCChhhHHHHHHHHhhcccc-------ceeeeeEEEEEecCCCeEEEEe
Q 043643          320 FPVHTFGFGLE-HDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGLLS-------VVSQDVKLTIRSKSAGVRIGSI  391 (634)
Q Consensus       320 i~I~t~G~G~~-~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~l~~l~s-------~va~~~~l~v~~~~~~v~i~~v  391 (634)
                      +.|+.|.++.+ .|-..|..++..|||..++.+++..-  .|.+.+..+++       ..+.+..++|++ ++|++|..+
T Consensus       341 i~VDlF~~~~~~~dla~l~~l~~~TGG~v~~y~~f~~~--~~~~~l~r~l~~~~~~~~~~gf~a~mrVr~-S~gl~v~~~  417 (768)
T 1m2o_A          341 HTVDIFAGCYDQIGMSEMKQLTDSTGGVLLLTDAFSTA--IFKQSYLRLFAKDEEGYLKMAFNGNMAVKT-SKDLKVQGL  417 (768)
T ss_dssp             CEEEEEEECSSCCSHHHHHHHHHHHTCCEEEESCTTSH--HHHHHHHHTTCBCTTSSBSCEEEEEEEEEE-CTTEEEEEE
T ss_pred             eEEEEEEccCCccChHHHhhHhhcCCceEEEcCCCchH--HHHHHHHHHHhhccccccceEEEEEEEEEe-cCCceEEEe
Confidence            99999988765 57889999999999999998887542  34444444444       489999999998 799999998


Q ss_pred             cCCCCCcc------cc----cCCceeEEEcCCccCCcEEEEEEEEEcCCCCCCCCC----C--CCccceEEEEEEEecCC
Q 043643          392 PSGRYNSE------VL----DEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQ----R--PECTALLDVFCTHKDSA  455 (634)
Q Consensus       392 ~~~~~~~~------~~----~~~~~~~i~lg~l~~~e~r~~lv~l~~p~~~~~~~~----~--~~~~~l~~v~~~Y~~~~  455 (634)
                      ....+...      +.    +-++...+.++.+..+....|.+++.-+........    .  ......+|+.+.|+++.
T Consensus       418 ~G~~~~~~~~~~~~vsd~~ig~~~t~~~~l~~~~~d~t~~v~f~~~~~~~~~~~~~~~~l~~~~~~~~~iQ~a~lYt~~~  497 (768)
T 1m2o_A          418 IGHASAVKKTDANNISESEIGIGATSTWKMASLSPYHSYAIFFEIANTAANSNPMMSAPGSADRPHLAYTQFITTYQHSS  497 (768)
T ss_dssp             ESSCEECCSCCCSCBCSSCSSBCSCSEEEEEEECTTCCEEEEEEECCC-----------------CEEEEEEEEEEEETT
T ss_pred             ecCccccccccccccCcceeccCCCceEEeecCCCCCEEEEEEEeccccccccccccccccccCCCcEEEEEEEEEEcCC
Confidence            63322111      11    123456899999999998888888764432100000    0  01267899999999999


Q ss_pred             CCceeeeecceeEEeCC-CccccccccccHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Q 043643          456 SMEIHQVEGEKVEIRRP-EVLSTADKKVNLQVDRQRSRLLVAETIADAQRMAEVGDLESAQALLAERRSGL  525 (634)
Q Consensus       456 ~~~~~~~~~~~~~v~rp-~~~~~~~~~~~~~V~~~~~r~~a~~~i~~a~~~a~~g~~~~A~~~L~~~~~~l  525 (634)
                      +.+.++|.+..+.+... .....  ...+.++..       .-..+.|...++..+..+|++.|.+....+
T Consensus       498 G~rriRV~T~~~~~t~~~~~~v~--~~~Dqea~~-------~llar~av~~~~~~~~~d~r~~l~~~li~l  559 (768)
T 1m2o_A          498 GTNRIRVTTVANQLLPFGTPAIA--ASFDQEAAA-------VLMARIAVHKAETDDGADVIRWLDRTLIKL  559 (768)
T ss_dssp             TEEEEEEEEEEEEEECTTCHHHH--HTBCHHHHH-------HHHHHHHHHHTTSSCHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEEeecccccCccHHHHH--HhcCHHHHH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Confidence            99999998766666521 11111  123333322       112234444455667788888777654333

>3efo_B SEC24 related gene family, member D; copii, coat protein, transport signal, disease mutation, endoplasmic reticulum, ER-golgi transport, golgi apparatus, membrane; 2.70A {Homo sapiens} PDB: 3eg9_B

Probab=99.57  E-value=9.9e-13  Score=151.53  Aligned_cols=289  Identities=12%  Similarity=0.153  Sum_probs=193.2

Q ss_pred             CCCCceEEEEEeCCCC-CC-ccHHHHHHHHHHHHHhcCCC-------CeEEEEEeCCCcEEE------------------
Q 043643          164 DRAPIDLVTVLDVSGS-MS-SKLPLLKRAVHFIIQNLGSA-------DRLSIVIFSSVARRI------------------  216 (634)
Q Consensus       164 ~r~p~dlv~VlD~SgS-M~-gkl~~~K~al~~li~~L~~~-------drvsIV~Fs~~a~~~------------------  216 (634)
                      ...|.-++||||+|-. .. |-++.+++++...++.|+++       .+||||+|++.+...                  
T Consensus       174 ~p~pp~y~FvIDvs~~av~sg~l~~~~~sl~~~L~~lP~~~~~~~~~~~VG~ITfd~~vh~y~l~~~~~q~q~~vv~d~~  253 (770)
T 3efo_B          174 PPNPPAFIFMIDVSYSNIKNGLVKLICEELKTMLEKIPKEEQEETSAIRVGFITYNKVLHFFNVKSNLAQPQMMVVTDVG  253 (770)
T ss_dssp             CCCCCEEEEEEECSHHHHHTTHHHHHHHHHHHHGGGCCCCTTSSSCSCEEEEEEESSSEEEEECCTTCSSCEEEEECCTT
T ss_pred             CCCCcEEEEEEEcchhhccchHHHHHHHHHHHHHHhCCccccccCccceEEEEEeCCEEEEEeCCCcccCceEEEecccc
Confidence            4467889999999854 32 38899999999999999865       599999999865321                  


Q ss_pred             ---EcC-----cccCHHHHHHHHHHHhcC------CCCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCC-CCCC
Q 043643          217 ---FPL-----QRMTDSGRENAIRAINTL------SSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDT-HNVL  281 (634)
Q Consensus       217 ---~pl-----~~~t~~~~~~~~~~I~~l------~~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~-~g~~  281 (634)
                         .|+     .++. +.+..+...|+.|      ....+|.++.||+.|+..+....   ....|++++.|.|+ .|.+
T Consensus       254 d~f~P~~~~~Lv~l~-e~~~~i~~lL~~L~~~~~~~~~~~t~~g~al~aa~~~l~~~~---~GGkI~~F~s~lP~t~GpG  329 (770)
T 3efo_B          254 EVFVPLLDGFLVNYQ-ESQSVIHNLLDQIPDMFADSNENETVFAPVIQAGMEALKAAD---CPGKLFIFHSSLPTAEAPG  329 (770)
T ss_dssp             SCCCCCSSSSSBCTT-TTHHHHHHHHHHHHHHHHTCCCCCCCCHHHHHHHHHHHHHHT---CCEEEEEEECSCCCSSSTT
T ss_pred             cccCCCccceeeeHH-HHHHHHHHHHHhhHhhccCCCCCcchHHHHHHHHHHHhccCC---CCcEEEEEecCCCCcCCCc
Confidence               121     1121 2344444445444      33468889999999999997532   23569999999888 5665


Q ss_pred             CCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEEccCC-CChHHHHHHHhhcCCeEEEcCChhh--HHH
Q 043643          282 RNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLE-HDSEAMHAIADASGGTFSFIETLSI--LQD  358 (634)
Q Consensus       282 ~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~-~d~~~L~~iA~~tgG~~~~i~~~~~--l~~  358 (634)
                      ....+.+....+...+..+..-..+.++..+.++...++.|..|.++.+ .|-..|..++..|||..++.+++..  -.+
T Consensus       330 ~l~~r~~~~~~~t~ke~~~~~~a~~fY~~lA~~~~~~~i~VDlF~~s~~~vdlatl~~l~~~TGG~v~~y~~F~~~~~~~  409 (770)
T 3efo_B          330 KLKNRDDKKLVNTDKEKILFQPQTNVYDSLAKDCVAHGCSVTLFLFPSQYVDVASLGLVPQLTGGTLYKYNNFQMHLDRQ  409 (770)
T ss_dssp             CCCCCCCCCCSSCSCGGGGGSCSSSHHHHHHHHHHHTTEEEEEEECCSSCCCHHHHTHHHHHTTCCEEECTTCCHHHHHH
T ss_pred             cccccccccccCCcchhhhhcchHHHHHHHHHHHHHcCeEEEEEEecCCccChHHHHHHHhhcCceEEEecCCcchhHHH
Confidence            4322222111111111111100111222223345567899999988765 5888999999999999999988642  234


Q ss_pred             HHHHHhhcc-ccceeeeeEEEEEecCCCeEEEEecCCCCCcccccCCceeEEEcCCccCCcEEEEEEEEEcCCCCCCCCC
Q 043643          359 AFARCIGGL-LSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQ  437 (634)
Q Consensus       359 ~f~~~l~~l-~s~va~~~~l~v~~~~~~v~i~~v~~~~~~~~~~~~~~~~~i~lg~l~~~e~r~~lv~l~~p~~~~~~~~  437 (634)
                      .|.+.+... ....+.+..++|++ ++|++|..+. |.+..     ++...+.++.+..+....|.++++-+.....   
T Consensus       410 ~f~~dl~~~l~~~~gf~a~mrVR~-S~gl~v~~~~-G~~~~-----~~t~~~~l~~~~~d~s~~v~f~~~~~l~~~~---  479 (770)
T 3efo_B          410 QFLNDLRNDIEKKIGFDAIMRVRT-STGFRATDFF-GGILM-----NNTTDVEMAAIDCDKAVTVEFKHDDKLSEDS---  479 (770)
T ss_dssp             HHHHHHHHHHHSCEEEEEEEEEEE-CTTEEEEEEE-SSCBC-----SSSSCEEEEEEESSCCEEEEEEESSCCBTTT---
T ss_pred             HHHHHHHHhhhhceeeeEEEEEEe-cCCeEEEEeE-CCeeC-----CCCCceEecccCcCceEEEEEEecCCCCCCC---
Confidence            454444433 34689999999998 7999999986 33321     2334678999999988888887753222221   


Q ss_pred             CCCccceEEEEEEEecCCCCceeeeecceeEEe
Q 043643          438 RPECTALLDVFCTHKDSASMEIHQVEGEKVEIR  470 (634)
Q Consensus       438 ~~~~~~l~~v~~~Y~~~~~~~~~~~~~~~~~v~  470 (634)
                          ...+|+.+.|++..+.+.++|.+..+.+.
T Consensus       480 ----~~~~Q~allYt~~~G~RRiRV~T~~l~vt  508 (770)
T 3efo_B          480 ----GALIQCAVLYTTISGQRRLRIHNLGLNCS  508 (770)
T ss_dssp             ----BEEEEEEEEEECTTCCEEEEEEEEEEEEE
T ss_pred             ----cEEEEEEEEEEcCCCCEEEEEEEechhhc
Confidence                57899999999999999999987666554

>3eh2_A Protein transport protein SEC24C; copii-coat protein, vesicle transport, cytoplasm, endoplasmic reticulum, ER-golgi transport, golgi apparatus; 2.35A {Homo sapiens}

Probab=99.57  E-value=9.5e-13  Score=151.57  Aligned_cols=289  Identities=15%  Similarity=0.179  Sum_probs=192.4

Q ss_pred             CCCCceEEEEEeCCCC-CC-ccHHHHHHHHHHHHHhcCCC-------CeEEEEEeCCCcEEE------------------
Q 043643          164 DRAPIDLVTVLDVSGS-MS-SKLPLLKRAVHFIIQNLGSA-------DRLSIVIFSSVARRI------------------  216 (634)
Q Consensus       164 ~r~p~dlv~VlD~SgS-M~-gkl~~~K~al~~li~~L~~~-------drvsIV~Fs~~a~~~------------------  216 (634)
                      ...|.-++||||+|-. .. |-++.+++++...++.|+++       .+||||+|++.+...                  
T Consensus       170 ~p~pp~y~FvIDvs~~av~sg~l~~~~~si~~~L~~lp~~~~~~~~~~~VG~ITfd~~vh~y~l~~~~~~~q~~vv~dl~  249 (766)
T 3eh2_A          170 FPSPPAFIFMIDVSYNAIRTGLVRLLCEELKSLLDFLPREGGAEESAIRVGFVTYNKVLHFYNVKSSLAQPQMMVVSDVA  249 (766)
T ss_dssp             CCCCCEEEEEEECSHHHHHTTHHHHHHHHHHHHGGGCCCCSSCSSCCCEEEEEEESSSEEEEECCTTCSSCEEEEECCTT
T ss_pred             CCCCCEEEEEEECchhhccchHHHHHHHHHHHHHHhCCcccccCCccceEEEEEeCCEEEEEECCCCCCCceEEEecChh
Confidence            3457789999999854 22 37899999999999999865       689999999865321                  


Q ss_pred             ---Ec-----CcccCHHHHHHHHHHHhcC------CCCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCC-CCCC
Q 043643          217 ---FP-----LQRMTDSGRENAIRAINTL------SSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDT-HNVL  281 (634)
Q Consensus       217 ---~p-----l~~~t~~~~~~~~~~I~~l------~~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~-~g~~  281 (634)
                         .|     |.++. +.+..+...|+.|      ....+|.++.||+.|+..+...   +....|++++.|.|+ .|.+
T Consensus       250 d~f~P~~~~~lv~l~-e~~~~i~~lL~~L~~~~~~~~~~~t~~g~al~aa~~~l~~~---~~GGkI~~F~s~lP~t~GpG  325 (766)
T 3eh2_A          250 DMFVPLLDGFLVNVN-ESRAVITSLLDQIPEMFADTRETETVFVPVIQAGMEALKAA---ECAGKLFLFHTSLPIAEAPG  325 (766)
T ss_dssp             TCCCCCCTTSSBCTT-TTHHHHHHHHHHHHHHHTTCCCCCCCSHHHHHHHHHHHHHT---TCCEEEEEEECSCCCSSSTT
T ss_pred             hhccccccceeEeHH-HHHHHHHHHHHhhhhhccCCCCCcchHHHHHHHHHHHhccC---CCCcEEEEEecCCCCcCCCc
Confidence               12     11112 2344455555444      3446889999999999998653   234569999999888 5665


Q ss_pred             CCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEEccCC-CChHHHHHHHhhcCCeEEEcCChhhH--HH
Q 043643          282 RNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLE-HDSEAMHAIADASGGTFSFIETLSIL--QD  358 (634)
Q Consensus       282 ~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~-~d~~~L~~iA~~tgG~~~~i~~~~~l--~~  358 (634)
                      ....+.+....+...+..+..-..+.++..+.++...++.|..|.++.+ .|-..|..++..|||..++.+++..-  ..
T Consensus       326 ~l~~r~~~~~~~sdke~~~~~~a~~fY~~la~~~~~~~i~VDlF~~s~~~vdlatl~~l~~~TGG~v~~y~~F~~~~d~~  405 (766)
T 3eh2_A          326 KLKNRDDRKLINTDKEKTLFQPQTGAYQTLAKECVAQGCCVDLFLFPNQYVDVATLSVVPQLTGGSVYKYASFQVENDQE  405 (766)
T ss_dssp             CCCCCCCGGGTTSTTGGGGTSCSSTHHHHHHHHHHHHTEEEEEEECCSSCCCHHHHTHHHHHTTCCEEECTTCCHHHHHH
T ss_pred             ccccccccccCCCcchhhhccchHHHHHHHHHHHHhCCeEEEEEEecCCCcChHHHHHHHhhcCceEEEeCCCcchhHHH
Confidence            4322222111111111000000011122222344567899999988765 48889999999999999999886431  23


Q ss_pred             HHHHHhhccc-cceeeeeEEEEEecCCCeEEEEecCCCCCcccccCCceeEEEcCCccCCcEEEEEEEEEcCCCCCCCCC
Q 043643          359 AFARCIGGLL-SVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQ  437 (634)
Q Consensus       359 ~f~~~l~~l~-s~va~~~~l~v~~~~~~v~i~~v~~~~~~~~~~~~~~~~~i~lg~l~~~e~r~~lv~l~~p~~~~~~~~  437 (634)
                      .|.+.+...+ ...+.+..++|++ ++|++|..+. |.+..     ++...+.++.+..+....|.++++-+.....   
T Consensus       406 ~f~~dl~~~l~~~~gf~a~mrVR~-S~glkv~~~~-G~~~~-----~~t~~~~l~~i~~d~s~~v~f~~~~~l~~~~---  475 (766)
T 3eh2_A          406 RFLSDLRRDVQKVVGFDAVMRVRT-STGIRAVDFF-GAFYM-----SNTTDVELAGLDGDKTVTVEFKHDDRLNEES---  475 (766)
T ss_dssp             HHHHHHHHHHHSCEEEEEEEEEEE-CTTEEEEEEE-ESCBC-----SSSSCEEEEEEETTCCEEEEEEESSCCCTTT---
T ss_pred             HHHHHHHHHhhhcceeeEEEEEEe-cCCeEEEEeE-CCeec-----CCCCceeeccCCCCceEEEEEEecCCCCCCC---
Confidence            4555544433 4689999999998 7999999986 33322     2345678999999888888777753322222   


Q ss_pred             CCCccceEEEEEEEecCCCCceeeeecceeEEe
Q 043643          438 RPECTALLDVFCTHKDSASMEIHQVEGEKVEIR  470 (634)
Q Consensus       438 ~~~~~~l~~v~~~Y~~~~~~~~~~~~~~~~~v~  470 (634)
                          ...+|+.+.|++..+.+.++|.+..+.+.
T Consensus       476 ----~~~~Q~allYt~~~G~RRiRV~T~~l~vt  504 (766)
T 3eh2_A          476 ----GALLQCALLYTSCAGQRRLRIHNLALNCC  504 (766)
T ss_dssp             ----CEEEEEEEEEECTTSCEEEEEEEEEEEEE
T ss_pred             ----cEEEEEEEEeEcCCCCEEEEEEEEeeEec
Confidence                67899999999999999999987666554

>1jey_B KU80; double-strand DNA break repair, non-homologous END-joining, protein/nucleic acid complex, alpha/beta domain, beta barrel; HET: DNA; 2.50A {Homo sapiens} SCOP: b.131.1.2 c.62.1.4 PDB: 1jeq_B*

Probab=99.47  E-value=1.7e-13  Score=153.73  Aligned_cols=158  Identities=13%  Similarity=0.166  Sum_probs=116.2

Q ss_pred             ceEEEEEeCCCCCC-----c--cHHHHHHHHHHHHHh---cCCCCeEEEEEeCCCcE--------------EEEcCcccC
Q 043643          168 IDLVTVLDVSGSMS-----S--KLPLLKRAVHFIIQN---LGSADRLSIVIFSSVAR--------------RIFPLQRMT  223 (634)
Q Consensus       168 ~dlv~VlD~SgSM~-----g--kl~~~K~al~~li~~---L~~~drvsIV~Fs~~a~--------------~~~pl~~~t  223 (634)
                      -++|||||+|+||.     +  +|+.+|+++..++++   .+++|+||||.|++.+.              ++.+|+..+
T Consensus         8 e~iv~~iDvS~SM~~~d~~~~srl~~ak~~i~~~i~~ki~~~~~D~vGlv~f~~~~~~~plt~d~~y~~i~vl~~l~~~~   87 (565)
T 1jey_B            8 AAVVLCMDVGFTMSNSIPGIESPFEQAKKVITMFVQRQVFAENKDEIALVLFGTDGTDNPLSGGDQYQNITVHRHLMLPD   87 (565)
T ss_dssp             EEEEEEEECCGGGGCCBTTBCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCTTTCSTTEEEEEEEECCC
T ss_pred             eEEEEEEECChHhcccCCCCCCcHHHHHHHHHHHHHHHhcCCCCCEEEEEEEccCCCCCccccccCCCceEEeecCCCCC
Confidence            68999999999996     2  899999999999984   68999999999998762              334444322


Q ss_pred             HHHHHHHHHHHhc-CCCC-CCCcHHHHHHHHHHHHHhhc--cCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHH
Q 043643          224 DSGRENAIRAINT-LSSN-GGTNIVEGLKKGARVLEERR--ERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELA  299 (634)
Q Consensus       224 ~~~~~~~~~~I~~-l~~~-GgT~i~~aL~~A~~~l~~~~--~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~  299 (634)
                      .    .....|+. +.++ ++|+++.||..|.+.|....  .+...++|||||||..+.+..                 .
T Consensus        88 ~----~~l~~l~~~l~~~~~~t~i~~al~~A~~~l~~~~~~~k~~~krIiLlTDg~~~~~~~-----------------~  146 (565)
T 1jey_B           88 F----DLLEDIESKIQPGSQQADFLDALIVSMDVIQHETIGKKFEKRHIEIFTDLSSRFSKS-----------------Q  146 (565)
T ss_dssp             H----HHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHHSSSSCCSEEEEEEECCCCSCCCCT-----------------T
T ss_pred             H----HHHHHHHhhccCCCccccHHHHHHHHHHHHHHHhhcccccccEEEEEeCCCCCCCHH-----------------H
Confidence            2    23345665 7665 79999999999999998762  222457899999999886421                 1


Q ss_pred             HHhhchhhhhccccccCCCCeeEE-EEEccCCC--------------------------------ChHHHHHHHhhcCC-
Q 043643          300 YLNLLPSSICLSKREAGQPTFPVH-TFGFGLEH--------------------------------DSEAMHAIADASGG-  345 (634)
Q Consensus       300 ~~~lv~~~i~~~~~~~~~~~i~I~-t~G~G~~~--------------------------------d~~~L~~iA~~tgG-  345 (634)
                      +..++.        .++..+|.|+ +||||.+.                                |+.+|+.||+.++| 
T Consensus       147 ~~~~a~--------~l~~~gI~i~~vig~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~e~~L~~ia~~~~G~  218 (565)
T 1jey_B          147 LDIIIH--------SLKKCDISLQFFLPFSLGKEDGSGDRGDGPFRLGGHGPSFPLKGITEQQKEGLEIVKMVMISLEGE  218 (565)
T ss_dssp             HHHHHH--------HHHHTTEEEEEEESSCCC----------CCCCTTCSSCCCCTTTSCHHHHHHHHHHHHHHHHHHCG
T ss_pred             HHHHHH--------HHHhcCcEEEEEeccCCCcCCcccccccccccccccccccchhccccchhhhHHHHHHHHHhcCCC
Confidence            222222        2346899999 99988541                                23468999999999 


Q ss_pred             ----eEEEcCChh
Q 043643          346 ----TFSFIETLS  354 (634)
Q Consensus       346 ----~~~~i~~~~  354 (634)
                          .|+.+.+.-
T Consensus       219 ~~~s~~~~~~~~~  231 (565)
T 1jey_B          219 DGLDEIYSFSESL  231 (565)
T ss_dssp             GGGGGEEEHHHHT
T ss_pred             cccceeecHHHHH
Confidence                898886543

>1yvr_A RO autoantigen, 60-kDa SS-A/RO ribonucleoprotein, 60 kDa; heat repeat, VON willebrand factor A, rossmann fold, midas motif', RNA binding protein; 1.95A {Xenopus laevis} SCOP: a.118.25.1 c.62.1.5 PDB: 1yvp_A 2i91_A

Probab=99.39  E-value=1.2e-12  Score=146.20  Aligned_cols=108  Identities=14%  Similarity=0.144  Sum_probs=77.9

Q ss_pred             CCCCCceEEEEEeCCCCCCc-----cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcC
Q 043643          163 ADRAPIDLVTVLDVSGSMSS-----KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTL  237 (634)
Q Consensus       163 ~~r~p~dlv~VlD~SgSM~g-----kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l  237 (634)
                      .+..+.+++||||+||||.+     ++...+.|+...+..+.++|+++||+|++. ...+|++.-  .+...+.+.|..+
T Consensus       364 ~~~~~~~v~lvvD~SgSM~~~~~~~~l~~~~~Aa~l~~~~~~~~d~vglv~Fs~~-~~~~~~t~~--~~l~~~l~~l~~~  440 (538)
T 1yvr_A          364 VEPTGKRFLLAIDVSASMNQRVLGSILNASVVAAAMCMLVARTEKDSHMVAFSDE-MLPCPITVN--MLLHEVVEKMSDI  440 (538)
T ss_dssp             CCCCCCCEEEEEECSGGGGSBSTTSSCBHHHHHHHHHHHHHHHCSSEEEEEESSS-EECCSCCTT--SCHHHHHHHHTTC
T ss_pred             cCCCCceEEEEEECccccCCCCCCCcHHHHHHHHHHHHHHhccCCceEEEEECCC-ceEcCCCCc--ccHHHHHHHHhcC
Confidence            34678999999999999985     466644334333444567999999999984 344566632  2355666666655


Q ss_pred             CCCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCC
Q 043643          238 SSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNV  280 (634)
Q Consensus       238 ~~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~  280 (634)
                       ++|||+++.||..|++.      ....+.|||||||.++.|.
T Consensus       441 -~~GgT~i~~aL~~a~~~------~~~~~~iIliTDg~~~~g~  476 (538)
T 1yvr_A          441 -TMGSTDCALPMLWAQKT------NTAADIFIVFTDCETNVED  476 (538)
T ss_dssp             -CCSCCCTTHHHHHHHHT------TCCCSEEEEEECCCCCSSS
T ss_pred             -CCCCCcHHHHHHHHHhc------cCCCCEEEEEcCCCCCCCC
Confidence             68999999999999875      2345679999999988653

>3rag_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tructural genomics; 1.80A {Alicyclobacillus acidocaldarius subsp}

Probab=99.22  E-value=1.9e-11  Score=120.02  Aligned_cols=89  Identities=26%  Similarity=0.375  Sum_probs=76.3

Q ss_pred             CCceEEEEEeCCCCCCccHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCc---EEE-EcCcccCHHHHHHHHHHHhcCC
Q 043643          166 APIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLG---SADRLSIVIFSSVA---RRI-FPLQRMTDSGRENAIRAINTLS  238 (634)
Q Consensus       166 ~p~dlv~VlD~SgSM~gkl~~~K~al~~li~~L~---~~drvsIV~Fs~~a---~~~-~pl~~~t~~~~~~~~~~I~~l~  238 (634)
                      .|.|++||||+||||.+||..+|.++..++..+.   ..++|+||+|++..   ..+ .|++.    .. .+...+..|.
T Consensus       133 ~~~~vvfLVDtSgSM~~kl~~vk~al~~Ll~sl~~~~~~~~VavV~F~~~~~~~~~ll~pfT~----~~-~~~~~l~~L~  207 (242)
T 3rag_A          133 VALHLVVCLDTSASMRDKIPTVREAVRDLALSLKVRSGPLAVSVIAFPGKGEEATRLVQPFSS----EV-NVAALEAELV  207 (242)
T ss_dssp             SCEEEEEEEECSGGGTTTHHHHHHHHHHHHHHHTTSSSCEEEEEEEESCSTTCSCEEEEEEES----SC-CHHHHHHHCC
T ss_pred             CCCCEEEEEECcccHHHHHHHHHHHHHHHHHHHhccCCCcEEEEEEECCCCccceeecCCCCC----hH-HHHHHHhhCC
Confidence            7899999999999998899999999999998875   47999999999975   344 48873    22 5667788899


Q ss_pred             CCCCCcHHHHHHHHHHHHHhh
Q 043643          239 SNGGTNIVEGLKKGARVLEER  259 (634)
Q Consensus       239 ~~GgT~i~~aL~~A~~~l~~~  259 (634)
                      ++|+|+++.||..|+++++..
T Consensus       208 agG~Tplg~AL~~A~~~~~~~  228 (242)
T 3rag_A          208 ARGGTPTGPAIDHAADLLLSH  228 (242)
T ss_dssp             CCSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCcHHHHHHHHHHHHHHH
Confidence            999999999999999999643

>1jey_A KU70; double-strand DNA break repair, non-homologous END-joining, protein/nucleic acid complex, alpha/beta domain, beta barrel; HET: DNA; 2.50A {Homo sapiens} SCOP: b.131.1.1 c.62.1.3 PDB: 1jeq_A* 3rzx_B

Probab=99.14  E-value=1.1e-10  Score=131.76  Aligned_cols=142  Identities=10%  Similarity=0.086  Sum_probs=99.8

Q ss_pred             eEEEEEeCCCCCCc--------cHHHHHHHHHHHHHhc---CCCCeEEEEEeCCCc----------EEEEcCcccCHHHH
Q 043643          169 DLVTVLDVSGSMSS--------KLPLLKRAVHFIIQNL---GSADRLSIVIFSSVA----------RRIFPLQRMTDSGR  227 (634)
Q Consensus       169 dlv~VlD~SgSM~g--------kl~~~K~al~~li~~L---~~~drvsIV~Fs~~a----------~~~~pl~~~t~~~~  227 (634)
                      +++|+||+|+||..        +|+.+++.+..++++.   .++|+||||.|++.+          .++.||...+....
T Consensus        37 ~ivf~IDvS~SM~~~d~~~~~srl~~a~~~v~~~i~~kii~~~~D~vGlVlfgt~~t~n~l~~d~i~v~~~L~~~~~~~i  116 (609)
T 1jey_A           37 SLIFLVDASKAMFESQSEDELTPFDMSIQCIQSVYISKIISSDRDLLAVVFYGTEKDKNSVNFKNIYVLQELDNPGAKRI  116 (609)
T ss_dssp             EEEEEEECSGGGGCCCSSSSCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCCTTEEEEEEEECCCHHHH
T ss_pred             EEEEEEECCHHHcCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCCeEEEEEEccCCCCCcCCCCCeEEEecCCCCCHHHH
Confidence            39999999999963        7999999999999863   689999999999987          46677776655433


Q ss_pred             HHHHHHHh--------c-CCCCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHH
Q 043643          228 ENAIRAIN--------T-LSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNEL  298 (634)
Q Consensus       228 ~~~~~~I~--------~-l~~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~  298 (634)
                      ..+...++        . +..+++|+++.||..|.++|.....+...+.|||||||.++.+....            ...
T Consensus       117 k~l~~l~~~~~~~~~~~~~g~~~~t~l~daL~~a~~~f~~~~~k~~~k~IiL~TDg~~p~~~~~~------------~~~  184 (609)
T 1jey_A          117 LELDQFKGQQGQKRFQDMMGHGSDYSLSEVLWVCANLFSDVQFKMSHKRIMLFTNEDNPHGNDSA------------KAS  184 (609)
T ss_dssp             HHHHTTSHHHHHHHHHHHHCCSCCCCHHHHHHHHHHHHHTCSSCEEEEEEEEEESCSCTTTTCHH------------HHH
T ss_pred             HHHHHHhhcccchhhhhhcCCCCCCCHHHHHHHHHHHHHhhchhhcCCEEEEEcCCCCCCCCchH------------HHH
Confidence            33333222        0 11246899999999999999765322235789999999987643110            001


Q ss_pred             HHHhhchhhhhccccccCCCCeeEEEEEccCC
Q 043643          299 AYLNLLPSSICLSKREAGQPTFPVHTFGFGLE  330 (634)
Q Consensus       299 ~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~  330 (634)
                      ......        ..+...||.|++||+|..
T Consensus       185 ~~~~~a--------~~l~~~gI~i~~igig~~  208 (609)
T 1jey_A          185 RARTKA--------GDLRDTGIFLDLMHLKKP  208 (609)
T ss_dssp             HHHHHH--------HHHHHHTEEEEEEEBCCT
T ss_pred             HHHHHH--------HHHHhcCcEEEEEecCCC
Confidence            122111        134567999999999975

>2nvo_A RO sixty-related protein, RSR; alpha helical repeats, VON willebrand factor A domain, beta- RNA binding protein; 1.89A {Deinococcus radiodurans}

Probab=99.13  E-value=1.6e-10  Score=128.58  Aligned_cols=153  Identities=18%  Similarity=0.180  Sum_probs=96.9

Q ss_pred             CCCCceEEEEEeCCCCCCc-------cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhc
Q 043643          164 DRAPIDLVTVLDVSGSMSS-------KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINT  236 (634)
Q Consensus       164 ~r~p~dlv~VlD~SgSM~g-------kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~  236 (634)
                      +..+.+++++||+||||.+       ++..+..|+...+-.+..+|+++||+|++... ..|++.  ......+.+.|..
T Consensus       359 ~~~~~~~lv~vDvSgSM~~~~~~~~~k~~~~e~Aa~la~~~~r~~d~v~lv~Fs~~~~-~~~~~~--~~~l~~~l~~l~~  435 (535)
T 2nvo_A          359 QPANTRHLLALDVSGSMTCGDVAGVPGLTPNMAAAAMSLIALRTEPDALTMGFAEQFR-PLGITP--RDTLESAMQKAQS  435 (535)
T ss_dssp             CCCCSEEEEEECCSGGGGSCCGGGCTTCCHHHHHHHHHHHHHHHSSEEEEEEEBSSEE-ECCCCT--TCCHHHHHHHTCC
T ss_pred             CCCCceEEEEEECCccccCCCCCCCCcccHHHHHHHHHHHHcCcCCceEEEEECCcce-EcCCCc--chhHHHHHHHHhh
Confidence            3467999999999999975       24544444444344456789999999998533 345552  1222333334433


Q ss_pred             CCCCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccC
Q 043643          237 LSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAG  316 (634)
Q Consensus       237 l~~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~  316 (634)
                      . .+|||+++.+|..+.+.      ......|||+|||+.+.+...+              ...   +. .++.    ..
T Consensus       436 ~-~~ggTdi~~~l~~a~~~------~~~~~~vIliTD~~~~~g~~~~--------------~~a---l~-~~r~----~~  486 (535)
T 2nvo_A          436 V-SFGGTDCAQPILWAAQE------RLDVDTFVVYTDNETWAGQVHP--------------TVA---LD-QYAQ----KM  486 (535)
T ss_dssp             S-SBCCCCTTHHHHHHHHT------TCCCSEEEEEESSCCCCCSSCH--------------HHH---HH-HHHH----HH
T ss_pred             C-CCCCccHHHHHHHHHHh------cCCCCEEEEEeCCCccCCCCCH--------------HHH---HH-HHHH----hh
Confidence            2 26999999998776432      2345679999999988764321              111   11 1111    11


Q ss_pred             CCCeeEEEEEccCC-----------------CChHHHHHHHhhcCCeEE
Q 043643          317 QPTFPVHTFGFGLE-----------------HDSEAMHAIADASGGTFS  348 (634)
Q Consensus       317 ~~~i~I~t~G~G~~-----------------~d~~~L~~iA~~tgG~~~  348 (634)
                      ..++.|++||+|..                 +++..|+.||+.++|.|+
T Consensus       487 ~~~~klv~i~l~~~~~~~~~~~~~~~~~i~g~se~~l~~Ia~~~~G~~~  535 (535)
T 2nvo_A          487 GRAPKLIVVGLTATEFSIADPQRRDMLDVVGFDAAAPNVMTAFARGEVL  535 (535)
T ss_dssp             SCCCEEEEEETTCSCCCCSCTTCSSEEEEEECCTTHHHHHHHHHTTCC-
T ss_pred             CCCCeEEEEeccCCCcccCCCCCCCceeeeCCCHHHHHHHHHHhCCCcC
Confidence            34799999999862                 255678888888888764

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.10  E-value=5e-11  Score=96.29  Aligned_cols=53  Identities=21%  Similarity=0.605  Sum_probs=42.5

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCCCC
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQ   56 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p~~   56 (634)
                      +.|+||++.+...  .....++|+|.||..||..|++. ...||+||+.+......
T Consensus        16 ~~C~IC~~~~~~~--~~~~~~~C~H~f~~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~   68 (74)
T 2ep4_A           16 ELCAVCLEDFKPR--DELGICPCKHAFHRKCLIKWLEV-RKVCPLCNMPVLQLAQL   68 (74)
T ss_dssp             CBCSSSCCBCCSS--SCEEEETTTEEEEHHHHHHHHHH-CSBCTTTCCBCSSCCSC
T ss_pred             CCCcCCCcccCCC--CcEEEcCCCCEecHHHHHHHHHc-CCcCCCcCccccccccc
Confidence            3699999999763  33455689999999999999986 44899999987765443

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.09  E-value=4.6e-11  Score=98.37  Aligned_cols=51  Identities=35%  Similarity=0.878  Sum_probs=39.9

Q ss_pred             CCcccccccccc----------CCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            1 KTCPICLGSLRR----------GQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         1 ~~C~ICl~~~~~----------~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      ++|+||++.|..          ++....+...|+|.||..||..|+.. +.+||+||++|..
T Consensus        16 ~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~~~   76 (81)
T 2ecl_A           16 DTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQ-NNRCPLCQQDWVV   76 (81)
T ss_dssp             SCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTT-CCBCTTTCCBCCE
T ss_pred             CCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHh-CCCCCCcCCCcch
Confidence            468888888854          23334555679999999999999987 4589999998754

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens}

Probab=99.08  E-value=7.8e-11  Score=93.74  Aligned_cols=50  Identities=34%  Similarity=0.778  Sum_probs=41.3

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccC
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDV   53 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~   53 (634)
                      ..|+||++.+..  +..++.++|+|.||..||..|+.. ...||+||+.+...
T Consensus        15 ~~C~IC~~~~~~--~~~~~~~~C~H~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           15 EKCTICLSILEE--GEDVRRLPCMHLFHQVCVDQWLIT-NKKCPICRVDIEAQ   64 (69)
T ss_dssp             CSBTTTTBCCCS--SSCEEECTTSCEEEHHHHHHHHHH-CSBCTTTCSBSCSC
T ss_pred             CCCeeCCccccC--CCcEEEeCCCCHHHHHHHHHHHHc-CCCCcCcCccccCc
Confidence            369999999965  344677899999999999999986 45799999987653

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.08  E-value=7.4e-11  Score=96.30  Aligned_cols=53  Identities=26%  Similarity=0.641  Sum_probs=43.1

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCCCC
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQ   56 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p~~   56 (634)
                      ..|+||++.|..  ...+..++|+|.||..||..|++. ...||+||+.+......
T Consensus        16 ~~C~IC~~~~~~--~~~~~~~~C~H~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~   68 (78)
T 2ect_A           16 LECPVCKEDYAL--GESVRQLPCNHLFHDSCIVPWLEQ-HDSCPVCRKSLTGQNTA   68 (78)
T ss_dssp             CCCTTTTSCCCT--TSCEEECTTSCEEETTTTHHHHTT-TCSCTTTCCCCCCSCSC
T ss_pred             CCCeeCCccccC--CCCEEEeCCCCeecHHHHHHHHHc-CCcCcCcCCccCCcccC
Confidence            369999999976  334566789999999999999976 46899999998765444

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 4f52_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A

Probab=99.08  E-value=5.5e-11  Score=102.80  Aligned_cols=51  Identities=27%  Similarity=0.718  Sum_probs=42.0

Q ss_pred             CCccccccccccC-------------CcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            1 KTCPICLGSLRRG-------------QGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         1 ~~C~ICl~~~~~~-------------~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      +.|+||++.|...             ++..++.++|+|.||.+||..|+.. +.+||+||+.|..
T Consensus        38 d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~~~~  101 (106)
T 3dpl_R           38 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWEF  101 (106)
T ss_dssp             CCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT-CSBCSSSCSBCCE
T ss_pred             CCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHc-CCcCcCCCCccee
Confidence            5799999998742             2345677899999999999999987 6689999999853

>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch signaling, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.44.1.1

Probab=99.05  E-value=8e-11  Score=103.53  Aligned_cols=56  Identities=29%  Similarity=0.582  Sum_probs=42.6

Q ss_pred             CCccccccccccCC-------------cceeEecCCCCccchhhHHHHHh----cCCCcCcccccccccCCCC
Q 043643            1 KTCPICLGSLRRGQ-------------GVAIFTAECSHSFHFCCIAANVQ----HGNRICPICRCEWKDVPFQ   56 (634)
Q Consensus         1 ~~C~ICl~~~~~~~-------------~~~~~~~~C~H~Fh~~Ci~~w~~----~~~~~CP~Cr~~~~~~p~~   56 (634)
                      +.|+||++.|....             ......++|+|.||..||..|+.    .....||+||+.|....-.
T Consensus        26 ~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~~g~   98 (114)
T 1v87_A           26 EDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTGT   98 (114)
T ss_dssp             CEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSSS
T ss_pred             CcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCCCCC
Confidence            46999999996532             12334689999999999999995    2356899999998765433

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1

Probab=99.03  E-value=9.5e-11  Score=88.77  Aligned_cols=47  Identities=30%  Similarity=0.717  Sum_probs=38.6

Q ss_pred             CCccccccccccCCcceeEecC-CCCccchhhHHHHHhcCCCcCccccccc
Q 043643            1 KTCPICLGSLRRGQGVAIFTAE-CSHSFHFCCIAANVQHGNRICPICRCEW   50 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~   50 (634)
                      ..|+||++.+..+  ..+..++ |+|.||..||..|++. +..||+||+.+
T Consensus         6 ~~C~IC~~~~~~~--~~~~~~~~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~   53 (55)
T 1iym_A            6 VECAVCLAELEDG--EEARFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTV   53 (55)
T ss_dssp             CCCTTTCCCCCTT--SCCEECSSSCCEECTTHHHHTTTT-CCSCSSSCCCS
T ss_pred             CcCccCCccccCC--CceEECCCCCCcccHHHHHHHHHc-CCcCcCCCCEe
Confidence            3799999999773  3345555 9999999999999976 56899999875

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens}

Probab=99.03  E-value=9.3e-11  Score=98.79  Aligned_cols=47  Identities=34%  Similarity=0.861  Sum_probs=39.9

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWK   51 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~   51 (634)
                      .|+||++.|..  +..+..++|+|.||..||..|++. +..||+||+.+.
T Consensus        42 ~C~IC~~~~~~--~~~~~~l~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~   88 (91)
T 2l0b_A           42 CCPICCSEYVK--GDVATELPCHHYFHKPCVSIWLQK-SGTCPVCRCMFP   88 (91)
T ss_dssp             EETTTTEECCT--TCEEEEETTTEEEEHHHHHHHHTT-TCBCTTTCCBSS
T ss_pred             CCcccChhhcC--CCcEEecCCCChHHHHHHHHHHHc-CCcCcCcCccCC
Confidence            59999999977  345666789999999999999986 558999998764

>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA complex, DNA-binding protein- complex; HET: DNA 3DR; 5.93A {Mus musculus}

Probab=99.02  E-value=2.7e-11  Score=106.23  Aligned_cols=51  Identities=27%  Similarity=0.750  Sum_probs=0.0

Q ss_pred             CCcccccccccc-------------CCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            1 KTCPICLGSLRR-------------GQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         1 ~~C~ICl~~~~~-------------~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      +.|+||++.|..             +++..++.++|+|.||.+||..|+.. +.+||+||++|..
T Consensus        49 d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~-~~~CP~Cr~~~~~  112 (117)
T 4a0k_B           49 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWEF  112 (117)
T ss_dssp             -----------------------------------------------------------------
T ss_pred             CcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHc-CCcCCCCCCeeee
Confidence            579999999975             33445566799999999999999987 5689999999864

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.02  E-value=9.5e-11  Score=94.94  Aligned_cols=47  Identities=30%  Similarity=0.752  Sum_probs=39.7

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWK   51 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~   51 (634)
                      .|+||++.+..  ...+..++|+|.||..||..|++. +..||+||+.+.
T Consensus        25 ~C~IC~~~~~~--~~~~~~l~C~H~fh~~Ci~~w~~~-~~~CP~Cr~~~~   71 (75)
T 1x4j_A           25 LCVVCMCDFES--RQLLRVLPCNHEFHAKCVDKWLKA-NRTCPICRADSG   71 (75)
T ss_dssp             EETTTTEECCB--TCEEEEETTTEEEETTHHHHHHHH-CSSCTTTCCCCC
T ss_pred             CCeECCcccCC--CCeEEEECCCCHhHHHHHHHHHHc-CCcCcCcCCcCC
Confidence            69999999977  334566789999999999999986 458999998754

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.01  E-value=7.1e-11  Score=94.60  Aligned_cols=51  Identities=24%  Similarity=0.585  Sum_probs=43.2

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCCCCCC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAP   58 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p~~~~   58 (634)
                      .|+||++.+..     ++.++|+|.||..||..|+.. ...||+||..+....+.+|
T Consensus        17 ~C~IC~~~~~~-----~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~p   67 (71)
T 2d8t_A           17 ECAICLQTCVH-----PVSLPCKHVFCYLCVKGASWL-GKRCALCRQEIPEDFLDSG   67 (71)
T ss_dssp             BCSSSSSBCSS-----EEEETTTEEEEHHHHHHCTTC-SSBCSSSCCBCCHHHHSCS
T ss_pred             CCccCCcccCC-----CEEccCCCHHHHHHHHHHHHC-CCcCcCcCchhCHhhccCC
Confidence            69999999977     777899999999999999976 4689999999876555443

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A

Probab=99.01  E-value=1.8e-10  Score=87.12  Aligned_cols=48  Identities=29%  Similarity=0.715  Sum_probs=40.2

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccc
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEW   50 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~   50 (634)
                      ..|+||++.+..+ +..++.++|+|.||..||..|++.. ..||+||+.+
T Consensus         6 ~~C~IC~~~~~~~-~~~~~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~   53 (55)
T 2ecm_A            6 SGCPICLEDIHTS-RVVAHVLPCGHLLHRTCYEEMLKEG-YRCPLCSGPS   53 (55)
T ss_dssp             CSCTTTCCCCCTT-TSCEEECTTSCEEETTHHHHHHHHT-CCCTTSCCSS
T ss_pred             CcCcccChhhcCC-CcCeEecCCCCcccHHHHHHHHHcC-CcCCCCCCcC
Confidence            4799999999653 3446778999999999999999874 6899999875

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.01  E-value=2.5e-10  Score=91.71  Aligned_cols=49  Identities=31%  Similarity=0.558  Sum_probs=41.2

Q ss_pred             CccccccccccCCcceeEec-CCCCccchhhHHHHHhcCCCcCcccccccccCCCC
Q 043643            2 TCPICLGSLRRGQGVAIFTA-ECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQ   56 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~-~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p~~   56 (634)
                      .|+||++.+.+     ++.+ +|||.||..||..|++. ...||+||+.+....+.
T Consensus        17 ~C~IC~~~~~~-----p~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~   66 (72)
T 2djb_A           17 LCSICKGYLID-----ATTITECLHTFCKSCIVRHFYY-SNRCPKCNIVVHQTQPL   66 (72)
T ss_dssp             SCTTTSSCCSS-----CEECSSSCCEECHHHHHHHHHH-CSSCTTTCCCCCSSCSC
T ss_pred             CCCCCChHHHC-----cCEECCCCCHHHHHHHHHHHHc-CCcCCCcCcccCccccc
Confidence            69999999987     6665 99999999999999976 56899999987654443

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2

Probab=98.99  E-value=2.2e-10  Score=93.50  Aligned_cols=46  Identities=17%  Similarity=0.409  Sum_probs=41.4

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.|.+     +++++|||.||..||..|+..+...||+||..+..
T Consensus        10 ~C~IC~~~~~~-----Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~   55 (78)
T 1t1h_A           10 RCPISLELMKD-----PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SCTTTSCCCSS-----EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             CCCCccccccC-----CEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCCh
Confidence            69999999988     88889999999999999998767789999998654

>4ayc_A E3 ubiquitin-protein ligase RNF8; DNA damage, K63 chains; HET: CPQ; 1.90A {Homo sapiens} PDB: 4epo_C

Probab=98.99  E-value=1.4e-10  Score=105.60  Aligned_cols=47  Identities=34%  Similarity=0.673  Sum_probs=41.1

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVP   54 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p   54 (634)
                      +|+||++.|..     +++++|||.||..||..|+.. ...||+||+++...+
T Consensus        55 ~C~iC~~~~~~-----~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~  101 (138)
T 4ayc_A           55 QCIICSEYFIE-----AVTLNCAHSFCSYCINEWMKR-KIECPICRKDIKSKT  101 (138)
T ss_dssp             BCTTTCSBCSS-----EEEETTSCEEEHHHHHHHTTT-CSBCTTTCCBCCCEE
T ss_pred             CCcccCcccCC-----ceECCCCCCccHHHHHHHHHc-CCcCCCCCCcCCCCC
Confidence            59999999987     888999999999999999976 568999999875443

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens}

Probab=98.98  E-value=3e-10  Score=101.46  Aligned_cols=46  Identities=24%  Similarity=0.509  Sum_probs=41.4

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.|..     +++++|||.||..||..|+......||+||..+..
T Consensus        54 ~C~IC~~~~~~-----p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           54 QCICCQELVFR-----PITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             BCTTTSSBCSS-----EEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             CCCcCChHHcC-----cEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            59999999988     88899999999999999998656689999998755

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens}

Probab=98.98  E-value=2.3e-10  Score=98.22  Aligned_cols=46  Identities=30%  Similarity=0.621  Sum_probs=41.0

Q ss_pred             CccccccccccCCcceeEe-cCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFT-AECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~-~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.|..     ++. ++|||.||..||..|+......||+||..+..
T Consensus        24 ~C~IC~~~~~~-----p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (100)
T 3lrq_A           24 RCFICMEKLRD-----ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQL   70 (100)
T ss_dssp             BCTTTCSBCSS-----EEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             CCccCCccccC-----ccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCH
Confidence            69999999987     787 99999999999999998755689999998754

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.98  E-value=2.1e-10  Score=90.44  Aligned_cols=46  Identities=26%  Similarity=0.483  Sum_probs=40.2

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.+..     ++.++|||.||..||..|+......||+||+.+..
T Consensus        17 ~C~IC~~~~~~-----p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (66)
T 2ecy_A           17 KCEKCHLVLCS-----PKQTECGHRFCESCMAALLSSSSPKCTACQESIVK   62 (66)
T ss_dssp             ECTTTCCEESS-----CCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCT
T ss_pred             CCCCCChHhcC-----eeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCCh
Confidence            59999999987     67789999999999999997556789999998654

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus}

Probab=98.97  E-value=2.5e-10  Score=91.25  Aligned_cols=52  Identities=29%  Similarity=0.734  Sum_probs=42.0

Q ss_pred             CccccccccccC--CcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCC
Q 043643            2 TCPICLGSLRRG--QGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVP   54 (634)
Q Consensus         2 ~C~ICl~~~~~~--~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p   54 (634)
                      .|+||++.+...  .+..++.++|||.||..||..|++. ...||+||+.+....
T Consensus        12 ~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~   65 (71)
T 3ng2_A           12 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHKR   65 (71)
T ss_dssp             BCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHH-CSBCTTTCCBCCCCS
T ss_pred             CCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHc-CCCCCCCCCccChhh
Confidence            699999999762  2334578999999999999999986 458999999876433

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.95  E-value=4e-10  Score=90.22  Aligned_cols=50  Identities=32%  Similarity=0.676  Sum_probs=40.6

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHHhcC-CCcCcccccccccCC
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHG-NRICPICRCEWKDVP   54 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~-~~~CP~Cr~~~~~~p   54 (634)
                      +.|+||.+.+..+..    ...|+|.||.+||.+|++.. ..+||+||+.|....
T Consensus        16 ~~C~IC~~~i~~g~~----C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~   66 (74)
T 2ct0_A           16 KICNICHSLLIQGQS----CETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI   66 (74)
T ss_dssp             CBCSSSCCBCSSSEE----CSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCC
T ss_pred             CcCcchhhHcccCCc----cCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCC
Confidence            479999999987433    33899999999999999753 368999999987533

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.95  E-value=4.2e-10  Score=90.46  Aligned_cols=46  Identities=35%  Similarity=0.832  Sum_probs=40.0

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHh--cCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQ--HGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~--~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.+..     ++.++|||.||..||..|++  .....||+||+.+..
T Consensus        22 ~C~IC~~~~~~-----~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   69 (73)
T 2ysl_A           22 ICPICLDILQK-----PVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRK   69 (73)
T ss_dssp             BCTTTCSBCSS-----EEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCC
T ss_pred             EeccCCcccCC-----eEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCc
Confidence            69999999987     78889999999999999996  345689999998654

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.95  E-value=2.6e-10  Score=90.50  Aligned_cols=49  Identities=31%  Similarity=0.794  Sum_probs=40.3

Q ss_pred             CccccccccccC--CcceeEecCCCCccchhhHHHHHhcCCCcCcccccccc
Q 043643            2 TCPICLGSLRRG--QGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWK   51 (634)
Q Consensus         2 ~C~ICl~~~~~~--~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~   51 (634)
                      .|+||++.+...  .+..++.++|||.||..||..|+.. ...||+||..+.
T Consensus        17 ~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~   67 (69)
T 2ea6_A           17 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKIN   67 (69)
T ss_dssp             CCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHH-CSSCTTTCCCCC
T ss_pred             CCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHc-CCCCCCCCCccC
Confidence            699999999762  1233477899999999999999986 568999998764

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens}

Probab=98.95  E-value=5.3e-10  Score=90.27  Aligned_cols=45  Identities=22%  Similarity=0.523  Sum_probs=38.8

Q ss_pred             CccccccccccCCcceeEecC-CCCccchhhHHHHHhc-CCCcCcccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAE-CSHSFHFCCIAANVQH-GNRICPICRCEWK   51 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~w~~~-~~~~CP~Cr~~~~   51 (634)
                      .|+||++.|..     +++++ |||.||..||..|+.. +...||+||+++.
T Consensus        17 ~C~IC~~~~~~-----p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   63 (74)
T 2yur_A           17 LCLICKDIMTD-----AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   63 (74)
T ss_dssp             SCSSSCCCCTT-----CEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSC
T ss_pred             CCcCCChHHhC-----CeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCC
Confidence            69999999987     78888 9999999999999974 3368999999643

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.90  E-value=6.5e-10  Score=91.39  Aligned_cols=44  Identities=23%  Similarity=0.502  Sum_probs=39.6

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWK   51 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~   51 (634)
                      .|+||++.+..     ++.++|||.||..||..|+.. ...||+||..+.
T Consensus        17 ~C~IC~~~~~~-----p~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~   60 (81)
T 2csy_A           17 RCFICRQAFQN-----PVVTKCRHYFCESCALEHFRA-TPRCYICDQPTG   60 (81)
T ss_dssp             BCSSSCSBCCS-----EEECTTSCEEEHHHHHHHHHH-CSBCSSSCCBCC
T ss_pred             CCcCCCchhcC-----eeEccCCCHhHHHHHHHHHHC-CCcCCCcCcccc
Confidence            59999999987     788999999999999999976 568999999864

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1

Probab=98.90  E-value=5.3e-10  Score=88.55  Aligned_cols=47  Identities=30%  Similarity=0.820  Sum_probs=39.6

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      +.|+||++.+..    +++.++|||.||..|+..|+.. ...||+||+.+..
T Consensus         6 ~~C~IC~~~~~~----~~~~~~C~H~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   52 (68)
T 1chc_A            6 ERCPICLEDPSN----YSMALPCLHAFCYVCITRWIRQ-NPTCPLCKVPVES   52 (68)
T ss_dssp             CCCSSCCSCCCS----CEEETTTTEEESTTHHHHHHHH-SCSTTTTCCCCCC
T ss_pred             CCCeeCCccccC----CcEecCCCCeeHHHHHHHHHhC-cCcCcCCChhhHh
Confidence            479999999865    2477899999999999999976 4689999988653

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens}

Probab=98.89  E-value=5.2e-10  Score=87.31  Aligned_cols=51  Identities=29%  Similarity=0.754  Sum_probs=41.5

Q ss_pred             CccccccccccC--CcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccC
Q 043643            2 TCPICLGSLRRG--QGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDV   53 (634)
Q Consensus         2 ~C~ICl~~~~~~--~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~   53 (634)
                      .|+||++.+...  .+..++.++|||.||..|+..|++. +..||+||+.+...
T Consensus         5 ~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~   57 (64)
T 2xeu_A            5 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHK   57 (64)
T ss_dssp             BCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHH-CSBCTTTCCBCTTT
T ss_pred             CCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHc-CCCCCCCCccCCcc
Confidence            699999999762  1233477899999999999999987 56899999987643

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens}

Probab=98.89  E-value=9.6e-10  Score=101.43  Aligned_cols=47  Identities=23%  Similarity=0.486  Sum_probs=42.3

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDV   53 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~   53 (634)
                      .|+||++.|..     +++++|||.||..||..|+......||+||..+...
T Consensus        80 ~C~IC~~~~~~-----pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           80 MCVCCQELVYQ-----PVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             BCTTTSSBCSS-----EEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             EeecCChhhcC-----CEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            69999999988     888999999999999999987666899999987654

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.88  E-value=1e-09  Score=86.17  Aligned_cols=50  Identities=22%  Similarity=0.587  Sum_probs=39.7

Q ss_pred             Ccccccc-ccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLG-SLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~-~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++ .+... ....+.++|||.||..||..|+..+...||+||+.+..
T Consensus         5 ~C~IC~~~~~~~~-~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   55 (65)
T 1g25_A            5 GCPRCKTTKYRNP-SLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             CCSTTTTHHHHCS-SCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             cCCcCCCCccCCC-ccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcccc
Confidence            6999999 77651 22235689999999999999987656689999998654

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens}

Probab=98.85  E-value=9.9e-10  Score=92.58  Aligned_cols=45  Identities=22%  Similarity=0.523  Sum_probs=39.0

Q ss_pred             CccccccccccCCcceeEecC-CCCccchhhHHHHHhc-CCCcCcccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAE-CSHSFHFCCIAANVQH-GNRICPICRCEWK   51 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~w~~~-~~~~CP~Cr~~~~   51 (634)
                      .|+||++.|..     +++++ |||.||..||..|+.. +...||+||..+.
T Consensus        15 ~C~IC~~~~~~-----p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           15 LCLICKDIMTD-----AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             EETTTTEECSS-----CEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CCCCCChhhcC-----ceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            59999999987     88888 9999999999999863 4468999998863

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.84  E-value=1.3e-09  Score=85.03  Aligned_cols=40  Identities=40%  Similarity=0.940  Sum_probs=35.6

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhc--CCCcCccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQH--GNRICPIC   46 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~--~~~~CP~C   46 (634)
                      .|+||++.+..     ++.++|||.||..||..|++.  ....||+|
T Consensus        22 ~C~IC~~~~~~-----p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           22 ICPICLDILQK-----PVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             BCTTTCSBCSS-----CEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CCCcCCchhCC-----eEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            69999999987     788899999999999999973  45689998

>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT- interacting protein, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.84  E-value=1.9e-09  Score=89.85  Aligned_cols=50  Identities=22%  Similarity=0.506  Sum_probs=41.0

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcC--CCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHG--NRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~--~~~CP~Cr~~~~~   52 (634)
                      .|+||++.+... ...++.++|||.||..||..|+...  ...||+||..+..
T Consensus        17 ~C~IC~~~~~~~-~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A           17 ECPICMESFTEE-QLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRI   68 (88)
T ss_dssp             BCTTTCCBCCTT-SSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCC
T ss_pred             CCccCCcccccc-CCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccc
Confidence            699999999763 3336778999999999999999753  4689999998654

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens}

Probab=98.84  E-value=1.6e-09  Score=92.58  Aligned_cols=45  Identities=24%  Similarity=0.618  Sum_probs=39.5

Q ss_pred             CccccccccccCCcceeEec-CCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTA-ECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~-~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.+..     ++.+ +|||.||..||..|+.. ...||+||..+..
T Consensus        24 ~C~IC~~~~~~-----p~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~   69 (99)
T 2y43_A           24 RCGICFEYFNI-----AMIIPQCSHNYCSLCIRKFLSY-KTQCPTCCVTVTE   69 (99)
T ss_dssp             BCTTTCSBCSS-----EEECTTTCCEEEHHHHHHHHTT-CCBCTTTCCBCCG
T ss_pred             CcccCChhhCC-----cCEECCCCCHhhHHHHHHHHHC-CCCCCCCCCcCCh
Confidence            69999999987     7666 89999999999999986 5689999998664

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.84  E-value=1.9e-09  Score=88.10  Aligned_cols=55  Identities=20%  Similarity=0.453  Sum_probs=42.1

Q ss_pred             CCccccccccccCCcceeEecCCC-----CccchhhHHHHHhcC-CCcCcccccccccCCCCCC
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECS-----HSFHFCCIAANVQHG-NRICPICRCEWKDVPFQAP   58 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~-----H~Fh~~Ci~~w~~~~-~~~CP~Cr~~~~~~p~~~~   58 (634)
                      +.|.||++.+..+  . ++.++|+     |.||..||..|+... ...||+||..|......+|
T Consensus        16 ~~C~IC~~~~~~~--~-~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~~~~P   76 (80)
T 2d8s_A           16 DICRICHCEGDDE--S-PLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMETKLSG   76 (80)
T ss_dssp             CCCSSSCCCCCSS--S-CEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCCCSCC
T ss_pred             CCCeEcCccccCC--C-eeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCcccCC
Confidence            4799999998753  2 2357896     999999999999753 4689999999865544443

>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B

Probab=98.84  E-value=1.4e-09  Score=102.10  Aligned_cols=46  Identities=41%  Similarity=0.916  Sum_probs=40.4

Q ss_pred             CccccccccccCCcceeEec-CCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTA-ECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~-~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.|..     ++++ +|||.||..||..|+..+...||+||..+..
T Consensus        56 ~C~IC~~~~~~-----p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           56 MCPICLDMLKN-----TMTTKECLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             BCTTTSSBCSS-----EEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCcccChHhhC-----cCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            69999999987     6665 9999999999999998767789999998754

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens}

Probab=98.82  E-value=4.9e-10  Score=91.51  Aligned_cols=46  Identities=33%  Similarity=0.800  Sum_probs=39.7

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcC------CCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHG------NRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~------~~~CP~Cr~~~~~   52 (634)
                      .|+||++.+..     ++.++|||.||..||..|+...      ...||+||..+..
T Consensus        14 ~C~IC~~~~~~-----p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A           14 TCPICLELLTE-----PLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             EETTTTEECSS-----CCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             CCcCCCcccCC-----eeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            59999999987     7778999999999999998752      5689999998654

>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA damage, chromatin regulator, CHR protein, DNA repair, metal-binding, nucleus; 2.12A {Homo sapiens}

Probab=98.81  E-value=6.8e-10  Score=97.73  Aligned_cols=46  Identities=28%  Similarity=0.657  Sum_probs=41.2

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.+..     +++++|||.||..||..|+..+...||+||..+..
T Consensus        17 ~C~iC~~~~~~-----p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           17 QCGICMEILVE-----PVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             BCTTTCSBCSS-----CEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCccCCcccCc-----eeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            59999999987     88889999999999999997767789999998754

>2ecw_A Tripartite motif-containing protein 30; metal binding protein, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=98.81  E-value=1.8e-09  Score=89.20  Aligned_cols=46  Identities=43%  Similarity=0.960  Sum_probs=39.8

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhc-----CCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQH-----GNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~-----~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.+..     ++.++|+|.||..||..|+..     +...||+||..+..
T Consensus        21 ~C~IC~~~~~~-----p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecw_A           21 TCPICLELLKE-----PVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF   71 (85)
T ss_dssp             SCTTTCSCCSS-----CEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT
T ss_pred             CCcCCChhhCc-----ceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH
Confidence            69999999987     778899999999999999975     25689999998654

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.81  E-value=2.1e-09  Score=88.84  Aligned_cols=46  Identities=41%  Similarity=1.004  Sum_probs=39.8

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhc-----CCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQH-----GNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~-----~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.+..     ++.++|||.||..|+..|+..     +...||+||..+..
T Consensus        21 ~C~IC~~~~~~-----p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecv_A           21 TCPICLELLTQ-----PLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP   71 (85)
T ss_dssp             CCTTTCSCCSS-----CBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS
T ss_pred             CCCCCCcccCC-----ceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH
Confidence            69999999977     677899999999999999864     35689999998764

>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A

Probab=98.80  E-value=2.2e-09  Score=93.29  Aligned_cols=45  Identities=33%  Similarity=0.733  Sum_probs=39.6

Q ss_pred             CccccccccccCCcceeEec-CCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTA-ECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~-~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.+..     ++++ +|||.||..||..|+.. ...||+||..+..
T Consensus        17 ~C~IC~~~~~~-----p~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~   62 (108)
T 2ckl_A           17 MCVLCGGYFID-----ATTIIECLHSFCKTCIVRYLET-SKYCPICDVQVHK   62 (108)
T ss_dssp             BCTTTSSBCSS-----EEEETTTCCEEEHHHHHHHHTS-CSBCTTTCCBSCS
T ss_pred             CCccCChHHhC-----cCEeCCCCChhhHHHHHHHHHh-CCcCcCCCccccc
Confidence            69999999987     7775 99999999999999986 4689999998654

>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B

Probab=98.78  E-value=2.4e-09  Score=87.16  Aligned_cols=54  Identities=24%  Similarity=0.629  Sum_probs=40.4

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCCCC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQ   56 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p~~   56 (634)
                      +|+||++.+... ....+..+|||.||..|+..|+......||.||+.+...++.
T Consensus        13 ~CpICle~~~~~-d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~~   66 (78)
T 1e4u_A           13 ECPLCMEPLEID-DINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAV   66 (78)
T ss_dssp             BCTTTCCBCCTT-TTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSSC
T ss_pred             cCCccCccCccc-cccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCchh
Confidence            699999988531 111222359999999999998765567899999998765543

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus}

Probab=98.77  E-value=3.2e-09  Score=88.05  Aligned_cols=45  Identities=9%  Similarity=0.032  Sum_probs=40.6

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .||||++.|.+     |++++|||+||+.||..|+.. ..+||+|+..+..
T Consensus        16 ~CpI~~~~m~d-----PV~~~cGhtf~r~~I~~~l~~-~~~cP~~~~~l~~   60 (85)
T 2kr4_A           16 RDPLMDTLMTD-----PVRLPSGTVMDRSIILRHLLN-SPTDPFNRQMLTE   60 (85)
T ss_dssp             BCTTTCSBCSS-----EEECTTSCEEEHHHHHHHHHH-CSBCTTTCCBCCG
T ss_pred             ECcccCchhcC-----CeECCCCCEECHHHHHHHHhc-CCCCCCCcCCCCh
Confidence            59999999999     999999999999999999985 5689999987654

>1jm7_A BRCA1, breast cancer type 1 susceptibility protein; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.77  E-value=3.3e-09  Score=92.68  Aligned_cols=47  Identities=26%  Similarity=0.730  Sum_probs=40.0

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcC--CCcCcccccccccC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHG--NRICPICRCEWKDV   53 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~--~~~CP~Cr~~~~~~   53 (634)
                      .|+||++.+..     ++.++|||.||..||..|+...  ...||+||..+...
T Consensus        23 ~C~IC~~~~~~-----p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (112)
T 1jm7_A           23 ECPICLELIKE-----PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (112)
T ss_dssp             SCSSSCCCCSS-----CCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             CCcccChhhcC-----eEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHh
Confidence            69999999987     7778999999999999999743  35799999986643

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.77  E-value=2.4e-09  Score=81.76  Aligned_cols=40  Identities=33%  Similarity=0.819  Sum_probs=34.9

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhc--CCCcCccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQH--GNRICPIC   46 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~--~~~~CP~C   46 (634)
                      .|+||++.+..     ++.++|||.||..||..|+..  ....||+|
T Consensus        17 ~C~IC~~~~~~-----p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           17 SCSVCLEYLKE-----PVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             BCSSSCCBCSS-----CCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             CCccCCcccCc-----cEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            69999999987     677899999999999999753  46689998

>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc binuclear cluster, zinc finger, DNA-binding protein; 2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1

Probab=98.76  E-value=4.4e-09  Score=92.68  Aligned_cols=48  Identities=27%  Similarity=0.532  Sum_probs=42.1

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVP   54 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p   54 (634)
                      .|+||++.+..     ++.++|||.||..||..|+......||+||..+....
T Consensus        25 ~C~IC~~~~~~-----p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (116)
T 1rmd_A           25 SCQICEHILAD-----PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (116)
T ss_dssp             BCTTTCSBCSS-----EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCCcHhcC-----cEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhh
Confidence            69999999987     8889999999999999999865668999999876543

>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin ligase, E4 polyubiquitin chain EL factor, phosphoprotein, UBL conjugation pathway; NMR {Homo sapiens} PDB: 3l1x_A 3l1z_B

Probab=98.74  E-value=3.6e-09  Score=90.52  Aligned_cols=45  Identities=9%  Similarity=0.040  Sum_probs=40.7

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .||||++.|.+     |++++|||+||+.||..|+.. ..+||+|+.++..
T Consensus        31 ~CpI~~~~m~d-----PV~~~cGhtf~r~~I~~~l~~-~~~cP~~~~~l~~   75 (100)
T 2kre_A           31 RDPLMDTLMTD-----PVRLPSGTIMDRSIILRHLLN-SPTDPFNRQTLTE   75 (100)
T ss_dssp             BCTTTCSBCSS-----EEEETTTEEEEHHHHHHHTTS-CSBCSSSCCBCCT
T ss_pred             CCcCccCcccC-----CeECCCCCEEchHHHHHHHHc-CCCCCCCCCCCCh
Confidence            59999999999     999999999999999999985 6789999988654

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.74  E-value=2.2e-09  Score=85.44  Aligned_cols=44  Identities=34%  Similarity=0.745  Sum_probs=37.9

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.+..      +.++|+|.||..||..|+.. ...||+||+.+..
T Consensus        17 ~C~IC~~~~~~------~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   60 (70)
T 2ecn_A           17 ECCICMDGRAD------LILPCAHSFCQKCIDKWSDR-HRNCPICRLQMTG   60 (70)
T ss_dssp             CCSSSCCSCCS------EEETTTEEECHHHHHHSSCC-CSSCHHHHHCTTC
T ss_pred             CCeeCCcCccC------cccCCCCcccHHHHHHHHHC-cCcCCCcCCcccC
Confidence            69999999865      55789999999999999985 6689999988654

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A

Probab=98.72  E-value=4.4e-09  Score=92.98  Aligned_cols=46  Identities=30%  Similarity=0.712  Sum_probs=40.8

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.+..     ++.++|||.||..||..|+......||+||..+..
T Consensus        20 ~C~IC~~~~~~-----p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (118)
T 3hct_A           20 ECPICLMALRE-----AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (118)
T ss_dssp             BCTTTCSBCSS-----EEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCcCChhhcC-----eEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCH
Confidence            69999999987     78889999999999999998655589999998765

>1wgm_A Ubiquitin conjugation factor E4A; ubiquitinating enzyme, KIAA0126, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.2

Probab=98.71  E-value=6.5e-09  Score=88.55  Aligned_cols=45  Identities=16%  Similarity=0.077  Sum_probs=40.8

Q ss_pred             CccccccccccCCcceeEecCCC-CccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECS-HSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~-H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .||||++.|.+     |++++|| |+||+.||..|+.. ..+||+|+.++..
T Consensus        24 ~CpI~~~~m~d-----PV~~~cG~htf~r~cI~~~l~~-~~~cP~~~~~l~~   69 (98)
T 1wgm_A           24 LDPIMSTLMCD-----PVVLPSSRVTVDRSTIARHLLS-DQTDPFNRSPLTM   69 (98)
T ss_dssp             BCTTTCSBCSS-----EEECTTTCCEEEHHHHHHHTTT-SCBCTTTCSBCCT
T ss_pred             CCcCccccccC-----CeECCCCCeEECHHHHHHHHHh-CCCCCCCCCCCCh
Confidence            59999999999     9999999 99999999999976 5689999988654

>2iue_A Pactolus I-domain; membrane protein, CD, ITC, limbs, midas, admidas, membrane, integrin, titration, rossman fold, cell adhesion, transmembrane; NMR {Mus musculus}

Probab=98.70  E-value=6.7e-08  Score=93.54  Aligned_cols=110  Identities=16%  Similarity=0.222  Sum_probs=82.2

Q ss_pred             CCceEEEEEeCCCCCCccHHHHHHHHHHHHHhc---CCCCeEEEEEeCCCc-EEEEcCcccCHHHHHHHHHHHhcCCCCC
Q 043643          166 APIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNL---GSADRLSIVIFSSVA-RRIFPLQRMTDSGRENAIRAINTLSSNG  241 (634)
Q Consensus       166 ~p~dlv~VlD~SgSM~gkl~~~K~al~~li~~L---~~~drvsIV~Fs~~a-~~~~pl~~~t~~~~~~~~~~I~~l~~~G  241 (634)
                      -|+||+||+|.||||...++.+|+.+..+++.|   ..+-|++++.|-+.. +..++|+    .+...+.+.|+++...|
T Consensus         2 ~pvDl~fl~D~S~SM~~di~~lk~~~~~l~~~l~~~~~~~r~Gfg~f~Dk~~~~~l~lT----~d~~~F~~~v~~~~vsg   77 (212)
T 2iue_A            2 NSVDLYFLMGLSGSAQGHLSNVQTLGSDLLKALNEISRSGRIGFGSIVNMTFQHILKLT----ADSSQFQRELRKQLVSG   77 (212)
T ss_dssp             CCEEEEEEEECCGGGTTTHHHHHHHHHHHHHHHHHHCSCEEEEEEEESSSCEEEEEEEE----SCHHHHHHHHHTCCCCC
T ss_pred             CceEEEEEEeCCCcchhHHHHHHHHHHHHHHHHHhhCcCceEEEEEEEcCcceecCCcC----CCHHHHHHHHhhccccC
Confidence            489999999999999998999999888777655   567899999998873 4556777    66788999999998877


Q ss_pred             CCcH----HHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCC
Q 043643          242 GTNI----VEGLKKGARVLEERRERSPVASIILLSDGQDTHN  279 (634)
Q Consensus       242 gT~i----~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g  279 (634)
                      |-+.    .+||..|+.-...-.+++..+.|||+||+.+...
T Consensus        78 ~~D~PE~g~dal~qa~~c~~~i~Wr~a~rllvl~TDa~~H~~  119 (212)
T 2iue_A           78 KLATPKGQLDAVVQVAICLGEIGWRNGTRFLVLVTDNDFHLA  119 (212)
T ss_dssp             CSSSSBCHHHHHHHHHHCHHHHTCCSSEEEEEEECSSCBCCT
T ss_pred             CCCCCchHHHHHHHHHHhhhhcccCCccEEEEEECcCCcccc
Confidence            6433    3455555432222234446677999999987653

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.68  E-value=6.3e-09  Score=105.95  Aligned_cols=46  Identities=13%  Similarity=0.163  Sum_probs=40.9

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .||||++.|.+     |++++|||+||+.||..|+..+..+||+||.++..
T Consensus       210 ~c~i~~~~~~d-----Pv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          210 CGKISFELMRE-----PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             BCTTTCSBCSS-----EEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CCcCcCCHhcC-----CeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            59999999999     99999999999999999998655569999988754

>3knv_A TNF receptor-associated factor 2; cross-brace, alternative splicing, apoptosis, cytoplasm, metal-binding, UBL conjugation, zinc, zinc-finger; 1.90A {Homo sapiens}

Probab=98.68  E-value=4e-09  Score=96.14  Aligned_cols=44  Identities=34%  Similarity=0.745  Sum_probs=39.9

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEW   50 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~   50 (634)
                      .|+||++.+..     +++++|||.||..||..|+..+...||+||.++
T Consensus        33 ~C~IC~~~~~~-----pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~   76 (141)
T 3knv_A           33 LCSACRNVLRR-----PFQAQCGHRYCSFCLASILSSGPQNCAACVHEG   76 (141)
T ss_dssp             BCTTTCSBCSS-----EEECTTSCEEEHHHHHHHGGGSCEECHHHHHTT
T ss_pred             CCCCCChhhcC-----cEECCCCCccCHHHHHHHHhcCCCCCCCCCCcc
Confidence            69999999988     888999999999999999987666899999874

>1jm7_B BARD1, BRCA1-associated ring domain protein 1; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.64  E-value=6.8e-09  Score=91.62  Aligned_cols=42  Identities=26%  Similarity=0.588  Sum_probs=37.8

Q ss_pred             CccccccccccCCcceeEec-CCCCccchhhHHHHHhcCCCcCcccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTA-ECSHSFHFCCIAANVQHGNRICPICRCEWK   51 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~-~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~   51 (634)
                      .|+||++.|..     ++++ +|||.||..||..|+.   ..||+||..+.
T Consensus        24 ~C~IC~~~~~~-----pv~~~~CgH~fC~~Ci~~~~~---~~CP~Cr~~~~   66 (117)
T 1jm7_B           24 RCSRCTNILRE-----PVCLGGCEHIFCSNCVSDCIG---TGCPVCYTPAW   66 (117)
T ss_dssp             SCSSSCSCCSS-----CBCCCSSSCCBCTTTGGGGTT---TBCSSSCCBCS
T ss_pred             CCCCCChHhhC-----ccEeCCCCCHHHHHHHHHHhc---CCCcCCCCcCc
Confidence            69999999987     7777 9999999999999987   57999999874

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.63  E-value=1.1e-08  Score=92.09  Aligned_cols=53  Identities=28%  Similarity=0.752  Sum_probs=42.3

Q ss_pred             CccccccccccC--CcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCCC
Q 043643            2 TCPICLGSLRRG--QGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPF   55 (634)
Q Consensus         2 ~C~ICl~~~~~~--~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p~   55 (634)
                      +|+||++.+...  .+..++.++|||.||..||..|++. ...||+||+.+.....
T Consensus         9 ~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~l   63 (133)
T 4ap4_A            9 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHKRY   63 (133)
T ss_dssp             BCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTT-CSBCTTTCCBCTTTCE
T ss_pred             CCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHh-CCCCCCCCCcCccccc
Confidence            699999999762  1233478899999999999999986 4589999998765443

>3fcs_B Integrin beta-3; beta propeller, rossmann fold, EGF domain, cell adhesion, DI mutation, glycoprotein, HOST-virus interaction, M phosphoprotein; HET: NAG MAN; 2.55A {Homo sapiens} PDB: 4g1e_B* 3ije_B* 4g1m_B* 1jv2_B* 1l5g_B* 1m1x_B* 1u8c_B*

Probab=98.62  E-value=1.6e-06  Score=98.39  Aligned_cols=265  Identities=12%  Similarity=0.108  Sum_probs=144.1

Q ss_pred             CCcceEEEeecccccccccCCCCceEEEEEEeCCCCCCCCCCCCceEEEEEeCCCCCCccHHHHHHHHHHHHHh---cCC
Q 043643          124 RAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAPSLPNDADRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQN---LGS  200 (634)
Q Consensus       124 ~~~~~~v~~~~~~~~~~~~~~~~~~~v~v~~~ap~~~~~~~r~p~dlv~VlD~SgSM~gkl~~~K~al~~li~~---L~~  200 (634)
                      .+..|.|++-|.          +...+.|.++.+      ..-|+||+||+|.|+||...|+.+|..+..|++.   +..
T Consensus        84 ~Pq~~~~~Lr~g----------~~~~f~~~~~~~------~~~pvDly~LmD~S~SM~ddi~~lk~l~~~l~~~l~~~t~  147 (690)
T 3fcs_B           84 SPQRIALRLRPD----------DSKNFSIQVRQV------EDYPVDIYYLMDLSYSMKDDLWSIQNLGTKLATQMRKLTS  147 (690)
T ss_dssp             ESCEEEEEECTT----------CEEEEEEEEECC------BTCCEEEEEEEECSGGGHHHHHHTTTTTHHHHHHHHHHCS
T ss_pred             cCceEEEEeccC----------CcEEEEEEEecc------CCCCccEEEEecCCcchHHHHHHHHHHHHHHHHHHHhhCc
Confidence            344666665543          234555666654      4468999999999999998777777766655544   467


Q ss_pred             CCeEEEEEeCCCc------------------------------EEEEcCcccCHHHHHHHHHHHhcCCCCCCCcH----H
Q 043643          201 ADRLSIVIFSSVA------------------------------RRIFPLQRMTDSGRENAIRAINTLSSNGGTNI----V  246 (634)
Q Consensus       201 ~drvsIV~Fs~~a------------------------------~~~~pl~~~t~~~~~~~~~~I~~l~~~GgT~i----~  246 (634)
                      +-|++++.|.+..                              +.+++|+    .+...+.+.|+.+...|+-+.    .
T Consensus       148 ~~r~Gfgsf~Dk~~~P~~~~~p~~~~~~pc~~~~~~c~~~f~f~~~l~lt----~~~~~f~~~v~~~~isgn~D~PE~g~  223 (690)
T 3fcs_B          148 NLRIGFGAFVDKPVSPYMYISPPEALENPCYDMKTTCLPMFGYKHVLTLT----DQVTRFNEEVKKQSVSRNRDAPEGGF  223 (690)
T ss_dssp             CEEEEEEEECCCSSTTTSCCCSTTTTTCTTSSSSSCCCCCCSEEEEEEEE----SCHHHHHHHHTTCCCCCCSSSSBCHH
T ss_pred             CceEEeEEeeccccCCccccChhhhccCCCcCCCCCCCCCccceeecccC----CCHHHHHHHhhceeccCCCCCCchHH
Confidence            8899999998843                              1234565    567889999999888776543    4


Q ss_pred             HHHHHHHHHHHhhccC-CCCcEEEEEeCCCCCCCCCCC----------cccccc-cCC---CCCCHHHHHhhchhhhhcc
Q 043643          247 EGLKKGARVLEERRER-SPVASIILLSDGQDTHNVLRN----------SYTQDE-ASS---IPSNELAYLNLLPSSICLS  311 (634)
Q Consensus       247 ~aL~~A~~~l~~~~~~-~~~~~IILlTDG~~~~g~~~~----------~~~~~~-~~~---~~~~~~~~~~lv~~~i~~~  311 (634)
                      +||..|+---+...++ +..+.|||+||..........          ....+. +..   ...+-+.+.++.. .+   
T Consensus       224 dAl~qa~~c~~~igWr~~a~rllv~~TDa~~H~agDg~l~gi~~pnd~~chl~~~~~y~~s~~~DypSi~ql~~-~l---  299 (690)
T 3fcs_B          224 DAIMQATVCDEKIGWRNDASHLLVFTTDAKTHIALDGRLAGIVQPNDGQCHVGSDNHYSASTTMDYPSLGLMTE-KL---  299 (690)
T ss_dssp             HHHHHHHHCHHHHTCCSSSEEEEEEEESSCBCCTTGGGGGTCCSCCCCCCCBCTTCBBGGGGTSCCCCHHHHHH-HH---
T ss_pred             HHHHHHhhcccccCCCCCceEEEEEECCCccccCCCccccceecCCCcceeecCCCccccccccCCCCHHHHHH-HH---
Confidence            4554444111222333 456779999998765322110          000000 000   0000001121111 11   


Q ss_pred             ccccCCCCe-eEEEEEccCCCChHHHHHHHhhcCCe-EEEc-CChhhHHHHHHHHhhccccceeeeeEEEEEecCCCeEE
Q 043643          312 KREAGQPTF-PVHTFGFGLEHDSEAMHAIADASGGT-FSFI-ETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRI  388 (634)
Q Consensus       312 ~~~~~~~~i-~I~t~G~G~~~d~~~L~~iA~~tgG~-~~~i-~~~~~l~~~f~~~l~~l~s~va~~~~l~v~~~~~~v~i  388 (634)
                          ...+| +|+++--+   .....+.+++.-.|. .-.+ .|..++.+.+......|.+    .+.|+..-.+.++.|
T Consensus       300 ----~~~~i~~ifavt~~---~~~~y~~l~~~i~~s~v~~l~~dSsni~~li~~~y~~i~s----~v~l~~~~~p~~~~v  368 (690)
T 3fcs_B          300 ----SQKNINLIFAVTEN---VVNLYQNYSELIPGTTVGVLSMDSSNVLQLIVDAYGKIRS----KVELEVRDLPEELSL  368 (690)
T ss_dssp             ----HHTTCEEEEEEEGG---GHHHHHHHHHHSTTCEEEEECTTCTTHHHHHHHHHHHHTT----CEEEEEESCCTTEEE
T ss_pred             ----HHcCCeEEEEEeCC---chhhHHHHHhhcCCceeeeeccccHHHHHHHHHHHHhhhc----ceeeeccCCCCcceE
Confidence                12344 45555322   234556666554444 3333 4555666666666655544    444554434566665


Q ss_pred             EEecCCCCCcccccCCceeE--EEcCCccCCcEEEEEEEEEcCC
Q 043643          389 GSIPSGRYNSEVLDEGQQAV--IDIGNLYADEEKEFMVYLSIPV  430 (634)
Q Consensus       389 ~~v~~~~~~~~~~~~~~~~~--i~lg~l~~~e~r~~lv~l~~p~  430 (634)
                      .-..      .- .++....  -.=..|..|++..|-|+|.+..
T Consensus       369 ~~~s------~C-~~~~~~~~~~~C~~v~~g~~v~F~v~v~~~~  405 (690)
T 3fcs_B          369 SFNA------TC-LNNEVIPGLKSCMGLKIGDTVSFSIEAKVRG  405 (690)
T ss_dssp             EEEE------EC-STTCEEETCCEECSCCTTCEEEEEEEEEECS
T ss_pred             EEEe------ec-CCCCcccCCCcccccccCCeEEEEEEEEeec
Confidence            4221      00 0110000  0123577788889999888753

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=98.61  E-value=1.5e-08  Score=95.44  Aligned_cols=46  Identities=13%  Similarity=0.153  Sum_probs=40.4

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .||||++.|.+     |++++|||+||+.||..|+..+..+||+|+.++..
T Consensus       108 ~CPI~~elm~D-----PV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~  153 (179)
T 2f42_A          108 CGKISFELMRE-----PCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQ  153 (179)
T ss_dssp             BCTTTCSBCSS-----EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             cccCccccCCC-----CeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCCh
Confidence            59999999998     99999999999999999997534479999987654

>3t3p_B Integrin beta-3; integrin, cell adhesion, blood clotting, fibrinogen, platele; HET: NAG BMA MAN; 2.20A {Homo sapiens} PDB: 3t3m_B* 3nig_B* 3nif_B* 3nid_B* 2vdr_B* 2vc2_B* 2vdk_B* 2vdm_B* 2vdn_B* 2vdl_B* 2vdp_B* 2vdq_B* 2vdo_B* 3fcu_B* 1txv_B* 1ty3_B* 1ty5_B* 1ty6_B* 1ty7_B* 1tye_B*

Probab=98.59  E-value=5.4e-06  Score=88.85  Aligned_cols=266  Identities=11%  Similarity=0.113  Sum_probs=147.4

Q ss_pred             CCcceEEEeecccccccccCCCCceEEEEEEeCCCCCCCCCCCCceEEEEEeCCCCCCccHHHHHHHHHHHHHhc---CC
Q 043643          124 RAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAPSLPNDADRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNL---GS  200 (634)
Q Consensus       124 ~~~~~~v~~~~~~~~~~~~~~~~~~~v~v~~~ap~~~~~~~r~p~dlv~VlD~SgSM~gkl~~~K~al~~li~~L---~~  200 (634)
                      .+..+.|++-|.          +...+.|.++.+      ..-|+||+||+|.|+||...|+.+|.....+.+.|   ..
T Consensus        84 ~Pq~v~l~LRpG----------~~~~f~v~~~~~------~~ypvDLy~LmDlS~SM~ddl~~lk~lg~~L~~~l~~~t~  147 (472)
T 3t3p_B           84 SPQRIALRLRPD----------DSKNFSIQVRQV------EDYPVDIYYLMDLSYSMKDDLWSIQNLGTKLATQMRKLTS  147 (472)
T ss_dssp             ECCEEEEEECTT----------CEEEEEEEEECC------SSCCEEEEEEEECSGGGHHHHHHTTTHHHHHHHHHTTTCS
T ss_pred             cCcEEEEEecCC----------CcEEEEEEeecC------CCCCceEEEEEccCcchHHHHHHHHHHHHHHHHHHHhcCc
Confidence            345666666553          233445555543      45799999999999999997788888777776655   46


Q ss_pred             CCeEEEEEeCCCc------------------------------EEEEcCcccCHHHHHHHHHHHhcCCCCCCCcH----H
Q 043643          201 ADRLSIVIFSSVA------------------------------RRIFPLQRMTDSGRENAIRAINTLSSNGGTNI----V  246 (634)
Q Consensus       201 ~drvsIV~Fs~~a------------------------------~~~~pl~~~t~~~~~~~~~~I~~l~~~GgT~i----~  246 (634)
                      +-|+|+..|-+..                              +.+++|+    .+...+.+.|+++...|+-+.    .
T Consensus       148 ~~riGfgsFvDk~v~P~~~~~p~~~l~nPc~~~~~~c~p~f~fr~~l~LT----~d~~~F~~~V~~~~iSGn~D~PEgg~  223 (472)
T 3t3p_B          148 NLRIGFGAFVDKPVSPYMYISPPEALENPCYDMKTTCLPMFGYKHVLTLT----DQVTRFNEEVKKQSVSRNRDAPEGGF  223 (472)
T ss_dssp             CEEEEEEEECCCSSTTTSCCCSHHHHHCTTTTTTSCCCCCCSEEEEEEEE----SCHHHHHHHHHHCCCCCCSSSSBCHH
T ss_pred             CcEEEEEEeeccccCccccCChhhhhcCCCcccccCCCCCcceeEeeccC----CCHHHHHHHHhhccccCCCCCCchHH
Confidence            7899999997742                              1245666    567889999999888877543    3


Q ss_pred             HHHHHHHHHHHhhccC-CCCcEEEEEeCCCCCCCCCC-------C---cccccc-cCCCC---CCHHHHHhhchhhhhcc
Q 043643          247 EGLKKGARVLEERRER-SPVASIILLSDGQDTHNVLR-------N---SYTQDE-ASSIP---SNELAYLNLLPSSICLS  311 (634)
Q Consensus       247 ~aL~~A~~~l~~~~~~-~~~~~IILlTDG~~~~g~~~-------~---~~~~~~-~~~~~---~~~~~~~~lv~~~i~~~  311 (634)
                      +||..|+---+...++ +..+.|||+||.........       +   .+..+. +....   .+-+.+..+.. .+.  
T Consensus       224 dAl~qaavC~~~igWR~~a~rllV~~TDa~~H~agDgkL~GIv~pnDg~CHL~~~~~Y~~s~~~DYPSv~ql~~-~l~--  300 (472)
T 3t3p_B          224 DAIMQATVCDEKIGWRNDASHLLVFTTDAKTHIALDGRLAGIVQPNDGQCHVGSDNHYSASTTMDYPSLGLMTE-KLS--  300 (472)
T ss_dssp             HHHHHHHHCHHHHTCCSSSEEEEEEEESSCBCCTTGGGGGTCCCCCCCCCCBCTTCBBTTTTTSCCCCHHHHHH-HHH--
T ss_pred             HHHHHHhcchhhcCCCCCceEEEEEECCCCcCcCCCccccceecCCCCceEECCCCcccccccCCCCCHHHHHH-HHH--
Confidence            4444443111223344 45567899999876542221       1   111111 00000   01111111111 111  


Q ss_pred             ccccCCCCeeEEEEEccCCCChHHHHHHHhhcCCe-EEEc-CChhhHHHHHHHHhhccccceeeeeEEEEEecCCCeEEE
Q 043643          312 KREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGT-FSFI-ETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIG  389 (634)
Q Consensus       312 ~~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~-~~~i-~~~~~l~~~f~~~l~~l~s~va~~~~l~v~~~~~~v~i~  389 (634)
                          ...-.+|+++--   ......+.+++.-.|. .-.+ .|..+|-+.+......|.+    .+.|...-.+.++.|.
T Consensus       301 ----e~nI~~IFAVt~---~~~~~Y~~L~~~ip~s~vg~L~~dSsNiv~LI~~aY~~i~s----~V~l~~~~~p~~l~v~  369 (472)
T 3t3p_B          301 ----QKNINLIFAVTE---NVVNLYQNYSELIPGTTVGVLSMDSSNVLQLIVDAYGKIRS----KVELEVRDLPEELSLS  369 (472)
T ss_dssp             ----HTTCEEEEEECG---GGHHHHHHHHHTSTTCEEEECCTTSTTHHHHHHHHHHHHTT----CEEEEEESCCTTEEEE
T ss_pred             ----hcCccEEEEEec---cchhHHHHHHHhCCCceeeeccccchhHHHHHHHHHHHhhe----EEEEeeCCCCCcEEEE
Confidence                123445766632   2334667777665444 3343 4555666666655555544    4445544345667665


Q ss_pred             EecCCCCCcccccCCc--eeEEEcCCccCCcEEEEEEEEEcCC
Q 043643          390 SIPSGRYNSEVLDEGQ--QAVIDIGNLYADEEKEFMVYLSIPV  430 (634)
Q Consensus       390 ~v~~~~~~~~~~~~~~--~~~i~lg~l~~~e~r~~lv~l~~p~  430 (634)
                      -.      +.-. ++.  .+.-.=..+.-|++..|-|++.+..
T Consensus       370 y~------s~C~-~~~~~~~~~~C~~v~ig~~v~F~v~v~~~~  405 (472)
T 3t3p_B          370 FN------ATCL-NNEVIPGLKSCMGLKIGDTVSFSIEAKVRG  405 (472)
T ss_dssp             EE------EEET-TTEEEETCCEECSCCTTCEEEEEEEEEECS
T ss_pred             EE------eECC-CCCccCCCccCCCcccCCEEEEEEEEEecc
Confidence            22      1100 010  0000123577788899999988753

>3v4v_B Integrin beta-7; cell adhesion, madcam-1, membrane; HET: NAG BMA MAN 0DU; 3.10A {Homo sapiens} PDB: 3v4p_B*

Probab=98.54  E-value=1.2e-05  Score=86.44  Aligned_cols=260  Identities=16%  Similarity=0.156  Sum_probs=138.9

Q ss_pred             EEEEEEeCCCCCCCCCCCCceEEEEEeCCCCCCccHHHHHHHHHHHHHhc---CCCCeEEEEEeCCCc------------
Q 043643          149 AVLLRVCAPSLPNDADRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNL---GSADRLSIVIFSSVA------------  213 (634)
Q Consensus       149 ~v~v~~~ap~~~~~~~r~p~dlv~VlD~SgSM~gkl~~~K~al~~li~~L---~~~drvsIV~Fs~~a------------  213 (634)
                      .+.|.++.+      ..-|+||+||+|.|+||...|+.+|.....+.+.|   ..+-|+|+..|-+..            
T Consensus       120 ~f~v~~~~~------~~yPVDLyyLmDlS~SM~ddl~~lk~lg~~L~~~l~~~t~~~RiGfGsFvDK~v~P~~~~~p~~l  193 (503)
T 3v4v_B          120 QLQVRFLRA------EGYPVDLYYLMDLSYSMKDDLERVRQLGHALLVRLQEVTHSVRIGFGSFVDKTVLPFVSTVPSKL  193 (503)
T ss_dssp             EEEEEEECC------SSCCEEEEEEEECSGGGHHHHHHHHHSSHHHHHHHTTTCSCEEEEEEEECCCSSTTTSCCCHHHH
T ss_pred             EEEEEEEcc------CCCceeEEEEEecCcchhhHHHHHHHHHHHHHHHHHhhCcCcEEeeeeecccccCCcccCCHHHh
Confidence            344555543      56799999999999999998888888776666655   467899999997742            


Q ss_pred             -----------------EEEEcCcccCHHHHHHHHHHHhcCCCCCCCcH----HHHHHHHHHHHHhhccCCCCcEEEEEe
Q 043643          214 -----------------RRIFPLQRMTDSGRENAIRAINTLSSNGGTNI----VEGLKKGARVLEERRERSPVASIILLS  272 (634)
Q Consensus       214 -----------------~~~~pl~~~t~~~~~~~~~~I~~l~~~GgT~i----~~aL~~A~~~l~~~~~~~~~~~IILlT  272 (634)
                                       +.+++|+    .+...+.+.|+++...|+-+.    .+||..|+---+...+++..+.|||+|
T Consensus       194 ~~PC~~~~~~c~p~f~fr~~l~LT----~d~~~F~~~V~~~~iSGnlD~PEggfDAlmQaavC~~~IgWR~a~rllV~~T  269 (503)
T 3v4v_B          194 RHPCPTRLERCQSPFSFHHVLSLT----GDAQAFEREVGRQSVSGNLDSPEGGFDAILQAALCQEQIGWRNVSRLLVFTS  269 (503)
T ss_dssp             HCCSSCSSSCCCCCCSEEEEEEEE----SCSHHHHHHHTTCCCCCCSSSSBCHHHHHHHHHHCHHHHTCCSSEEEEEEEE
T ss_pred             cCCCcCCCCCCCCCcceEEEEEec----CCHHHHHHHHhhcCccCCCCCCchHHHHHHHHhhcccccCCCcceEEEEEEC
Confidence                             2245666    457789999999888876543    344444431112333444556789999


Q ss_pred             CCCCCCCCCC-------C---cccccc-cCCCCCCHHHHHhhchhhhhccccccCCCCe-eEEEEEccCCCChHHHHHHH
Q 043643          273 DGQDTHNVLR-------N---SYTQDE-ASSIPSNELAYLNLLPSSICLSKREAGQPTF-PVHTFGFGLEHDSEAMHAIA  340 (634)
Q Consensus       273 DG~~~~g~~~-------~---~~~~~~-~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i-~I~t~G~G~~~d~~~L~~iA  340 (634)
                      |.........       +   .+..+. +........+|-     ++....+.....+| +|+++  -. ......+.++
T Consensus       270 DA~fH~agDgkLaGIv~pNDg~CHL~~~~~Yt~s~~~DYP-----Sv~ql~~kL~ennI~~IFAV--t~-~~~~~Y~~L~  341 (503)
T 3v4v_B          270 DDTFHTAGDGKLGGIFMPSDGHCHLDSNGLYSRSTEFDYP-----SVGQVAQALSAANIQPIFAV--TS-AALPVYQELS  341 (503)
T ss_dssp             SSCBCCTTGGGTTTCCSCCCSSCCBCTTSBBGGGGGSCCC-----CHHHHHHHHHHHTEEEEEEE--CS-SSHHHHHHHH
T ss_pred             CCCcCcCCCccccceecCCCCCeEECCCCccccccccCCC-----CHHHHHHHHHhcCCeEEEEE--cc-cchhHHHHHH
Confidence            9876542221       1   111110 000000000110     01111111112344 45554  32 3345677777


Q ss_pred             hhcCCe-EEEc-CChhhHHHHHHHHhhccccceeeeeEEEEEecCCCeEEEEecCCCCCcccccCCceeEEEcCCccCCc
Q 043643          341 DASGGT-FSFI-ETLSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADE  418 (634)
Q Consensus       341 ~~tgG~-~~~i-~~~~~l~~~f~~~l~~l~s~va~~~~l~v~~~~~~v~i~~v~~~~~~~~~~~~~~~~~i~lg~l~~~e  418 (634)
                      +.-.|. .-.+ .|..+|-+.+......|.+    .+.|...-.+.++.|.-...-.-........ ...-.=..+.-|+
T Consensus       342 ~~ip~s~vg~Ls~dSsNiv~LI~~aY~~i~S----~V~l~~~~~p~~l~v~y~s~C~~~~~~~~~~-~~~~~C~~v~ig~  416 (503)
T 3v4v_B          342 KLIPKSAVGELSEDSSNVVQLIMDAYNSLSS----TVTLEHSSLPPGVHISYESQCEGPEKREGKA-EDRGQCNHVRINQ  416 (503)
T ss_dssp             TTSTTCEEEECCTTSCTHHHHHHHHHHHHHT----CEEEECCCCCTTEEEEBCEECSSSCCCCCCC-BSSEEECSCCTTC
T ss_pred             HhCCCceeeEccccchhHHHHHHHHHHHhhe----EEEEecCCCCCceEEEEEEecCCCCccCccc-ccCCcccCcccCC
Confidence            665444 4444 3445565555555555544    3344443335667665221100000000000 0011234577888


Q ss_pred             EEEEEEEEEcCCC
Q 043643          419 EKEFMVYLSIPVS  431 (634)
Q Consensus       419 ~r~~lv~l~~p~~  431 (634)
                      +..|-|.+.+..-
T Consensus       417 ~v~F~v~v~~~~C  429 (503)
T 3v4v_B          417 TVTFWVSLQATHC  429 (503)
T ss_dssp             EEEEEEEEEECSC
T ss_pred             EEEEEEEEEeecC
Confidence            9999999987543

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.54  E-value=2.7e-08  Score=84.13  Aligned_cols=43  Identities=23%  Similarity=0.612  Sum_probs=37.2

Q ss_pred             CccccccccccCCcceeEecC-CCCccchhhHHHHHhcC-----CCcCcc--cccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAE-CSHSFHFCCIAANVQHG-----NRICPI--CRCE   49 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~w~~~~-----~~~CP~--Cr~~   49 (634)
                      .||||++.|.+     |++++ |||+||+.||..|+...     ...||+  |+..
T Consensus         9 ~CPI~~~~~~d-----PV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            9 TCPITKEEMKK-----PVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             BCTTTCSBCSS-----EEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             ECcCcCchhcC-----CEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            59999999998     88885 99999999999999642     458999  9865

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.53  E-value=1.4e-08  Score=77.19  Aligned_cols=42  Identities=26%  Similarity=0.660  Sum_probs=35.8

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.+..     ++.++|||.||..|+..|    ...||+||+.+..
T Consensus         8 ~C~IC~~~~~~-----p~~l~CgH~fC~~Ci~~~----~~~CP~Cr~~~~~   49 (56)
T 1bor_A            8 RCQQCQAEAKC-----PKLLPCLHTLCSGCLEAS----GMQCPICQAPWPL   49 (56)
T ss_dssp             SCSSSCSSCBC-----CSCSTTSCCSBTTTCSSS----SSSCSSCCSSSSC
T ss_pred             CceEeCCccCC-----eEEcCCCCcccHHHHccC----CCCCCcCCcEeec
Confidence            69999999987     788999999999999774    4579999987543

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=98.53  E-value=2.3e-08  Score=80.52  Aligned_cols=41  Identities=27%  Similarity=0.497  Sum_probs=36.5

Q ss_pred             CccccccccccCCcceeEecCCCCc-cchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHS-FHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.+.+     ++.++|||. ||..|+..|     ..||+||+.+..
T Consensus        26 ~C~iC~~~~~~-----~~~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           26 LCKICMDRNIA-----IVFVPCGHLVTCKQCAEAV-----DKCPMCYTVITF   67 (74)
T ss_dssp             BCTTTSSSBCC-----EEEETTCCBCCCHHHHTTC-----SBCTTTCCBCSE
T ss_pred             CCCCCCCCCCC-----EEEcCCCChhHHHHhhhcC-----ccCCCcCcCccC
Confidence            69999999987     788899999 999999988     579999998654

>3vi3_B Integrin beta-1; beta propeller fold, rossman fold, beta sandwich, fibronecti receptor, cell adhesion-immune system complex; HET: NAG BMA MAN; 2.90A {Homo sapiens} PDB: 3vi4_B*

Probab=98.49  E-value=1.6e-05  Score=84.62  Aligned_cols=245  Identities=13%  Similarity=0.101  Sum_probs=135.0

Q ss_pred             CCCCceEEEEEeCCCCCCccHHHHHHHHHHHHHhc---CCCCeEEEEEeCCCc---------------------------
Q 043643          164 DRAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNL---GSADRLSIVIFSSVA---------------------------  213 (634)
Q Consensus       164 ~r~p~dlv~VlD~SgSM~gkl~~~K~al~~li~~L---~~~drvsIV~Fs~~a---------------------------  213 (634)
                      ..-|+||++|+|.|+||...|+.+|.-...+++.|   ..+-|+|+..|-+..                           
T Consensus       119 ~~yPVDLyyLmDlS~SM~ddl~~lk~lg~~L~~~l~~~t~~~riGfGsFvDK~v~P~~~t~p~~~~nPC~~~~~c~~~f~  198 (454)
T 3vi3_B          119 EDYPIDLYYLMDLSYSMKDDLENVKSLGTDLMNEMRRITSDFRIGFGSFVEKTVMPYISTTPAKLRNPCTSEQNCTTPFS  198 (454)
T ss_dssp             SCCCEEEEEEEECSGGGHHHHHHHTTHHHHHHHHHTTTCSSEEEEEEEECCCSSTTTSCCSTTTTTCCSCSSSCCCCCCS
T ss_pred             CCCceeEEEEecCCcchhhHHHHHHHHHHHHHHHHHhcCCCeEEEEEEEeccccCCcccCChHHhcCCCcCccCCCCCcc
Confidence            55799999999999999998888888777766655   467899999998742                           


Q ss_pred             -EEEEcCcccCHHHHHHHHHHHhcCCCCCCCcH----HHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCC-----
Q 043643          214 -RRIFPLQRMTDSGRENAIRAINTLSSNGGTNI----VEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRN-----  283 (634)
Q Consensus       214 -~~~~pl~~~t~~~~~~~~~~I~~l~~~GgT~i----~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~-----  283 (634)
                       +.+++|+    .+...+.+.|+++...|+-+.    .+||..|+---+...+++..+.|||+||..........     
T Consensus       199 fr~~l~LT----~d~~~F~~~V~~~~isGn~D~PEgg~DAl~Qaavc~~~igWR~a~rllV~~TDa~fH~agDgkL~GIv  274 (454)
T 3vi3_B          199 YKNVLSLT----NKGEVFNELVGKQRISGNLDSPEGGFDAIMQVAVCGSLIGWRNVTRLLVFSTDAGFHFAGDGKLGGIV  274 (454)
T ss_dssp             EEEEEEEE----SCHHHHHHHHTTCCCCCCSSSSBCHHHHHHHHHHCHHHHTCCSSEEEEEEEESSCBCCTTTTGGGTCC
T ss_pred             eeeeeecC----CCHHHHHHHHhhccccCCCcCCchhHHHHHHHhccccccCCccceEEEEEECCCCcCcCCCcccccee
Confidence             2356677    568889999999988887554    34444433211233445556678899998765422211     


Q ss_pred             -----cccccccCCCC---CCHHHHHhhchhhhhccccccCCCCe-eEEEEEccCCCChHHHHHHHhhcCCeEE-Ec-CC
Q 043643          284 -----SYTQDEASSIP---SNELAYLNLLPSSICLSKREAGQPTF-PVHTFGFGLEHDSEAMHAIADASGGTFS-FI-ET  352 (634)
Q Consensus       284 -----~~~~~~~~~~~---~~~~~~~~lv~~~i~~~~~~~~~~~i-~I~t~G~G~~~d~~~L~~iA~~tgG~~~-~i-~~  352 (634)
                           .+..+.+.+..   .+-+.+..+..        .....+| +|+++--   .-....+.+++.-.|... .+ .|
T Consensus       275 ~PNDg~CHL~~~~Yt~s~~~DYPSv~ql~~--------~l~e~nI~~IFAVt~---~~~~~Y~~L~~~ip~s~vg~Ls~d  343 (454)
T 3vi3_B          275 LPNDGQCHLENNMYTMSHYYDYPSIAHLVQ--------KLSENNIQTIFAVTE---EFQPVYKELKNLIPKSAVGTLSAN  343 (454)
T ss_dssp             SCCCCCCCEETTEECCTTTSCCCCHHHHHH--------HHHHTTEEEEEEEEG---GGHHHHHHHHHHSTTEEEEEECTT
T ss_pred             cCCCCccEeCCCcccccccCCCCCHHHHHH--------HHHhcCCcEEEEEcC---ccchHHHHHHHhCCCceeeEcccc
Confidence                 11111100000   01111111111        1122344 5766632   123456677766555433 33 45


Q ss_pred             hhhHHHHHHHHhhccccceeeeeEEEEEecCCCeEEEEecCCCCCcccccCCceeEEEcCCccCCcEEEEEEEEEcCC
Q 043643          353 LSILQDAFARCIGGLLSVVSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPV  430 (634)
Q Consensus       353 ~~~l~~~f~~~l~~l~s~va~~~~l~v~~~~~~v~i~~v~~~~~~~~~~~~~~~~~i~lg~l~~~e~r~~lv~l~~p~  430 (634)
                      ..++-+.+......|.+    .+.|...-.+.++.|.-.....-.....  +... -.=..+.-|++..|-|++.+..
T Consensus       344 SsNiv~LI~~aY~~i~S----~V~l~~~~~p~~l~v~y~s~C~~~~~~~--~~~~-~~C~~v~ig~~v~F~v~v~~~~  414 (454)
T 3vi3_B          344 SSNVIQLIIDAYNSLSS----EVILENGKLSEGVTISYKSYCKNGVNGT--GENG-RKCSNISIGDEVQFEISITSNK  414 (454)
T ss_dssp             CTTHHHHHHHHHHHHHT----CEEEEECCCCTTEEEEEEEECGGGCEEE--GGGG-GEECCCCTTCEEEEEEEEEESS
T ss_pred             chhHHHHHHHHHHHhhe----EEEEecCCCCCceEEEEEeecCCCCccC--CccC-CCCCCccCCCEEEEEEEEEeec
Confidence            55665555555555544    3445444335567654221000000000  0000 0123477788899999998654

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.45  E-value=5.4e-08  Score=87.39  Aligned_cols=51  Identities=29%  Similarity=0.754  Sum_probs=40.8

Q ss_pred             CccccccccccC--CcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccC
Q 043643            2 TCPICLGSLRRG--QGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDV   53 (634)
Q Consensus         2 ~C~ICl~~~~~~--~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~   53 (634)
                      .|+||++.+...  ....++..+|||.||..||..|++. ...||+||+.+...
T Consensus        74 ~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~  126 (133)
T 4ap4_A           74 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHK  126 (133)
T ss_dssp             BCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHH-CSBCTTTCCBCCGG
T ss_pred             CCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHc-CCCCCCCCCcCChh
Confidence            699999998752  1233477899999999999999986 45899999987643

>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A

Probab=98.42  E-value=7.5e-08  Score=75.19  Aligned_cols=46  Identities=26%  Similarity=0.562  Sum_probs=37.9

Q ss_pred             CCccccccccccCCcceeEec--CCCCc-cchhhHHHHHhcCCCcCccccccccc
Q 043643            1 KTCPICLGSLRRGQGVAIFTA--ECSHS-FHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~--~C~H~-Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      +.|+||++...+     ++..  +|||. ||..|+..|... +..||+||+++..
T Consensus         9 ~~C~IC~~~~~~-----~~~~~~pCgH~~~C~~C~~~~~~~-~~~CPiCR~~i~~   57 (64)
T 2vje_A            9 EPCVICQGRPKN-----GCIVHGKTGHLMACFTCAKKLKKR-NKPCPVCRQPIQM   57 (64)
T ss_dssp             SCCTTTSSSCSC-----EEEEETTEEEEEECHHHHHHHHHT-TCCCTTTCCCCCE
T ss_pred             CCCCcCCCCCCC-----EEEECCCCCChhhHHHHHHHHHHc-CCcCCCcCcchhc
Confidence            469999999876     5544  99999 899999999875 4589999998653

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens}

Probab=98.41  E-value=1e-07  Score=89.83  Aligned_cols=46  Identities=30%  Similarity=0.712  Sum_probs=40.7

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.|..     |+.++|||.||..||..|+......||+||..+..
T Consensus        20 ~C~IC~~~~~~-----pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           20 ECPICLMALRE-----AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (170)
T ss_dssp             BCTTTCSBCSS-----EEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCChhhcC-----cEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcch
Confidence            59999999988     88899999999999999997655589999988654

>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_B*

Probab=98.39  E-value=1.1e-07  Score=74.01  Aligned_cols=46  Identities=26%  Similarity=0.452  Sum_probs=37.6

Q ss_pred             CCccccccccccCCcceeEec--CCCCc-cchhhHHHHHhcCCCcCccccccccc
Q 043643            1 KTCPICLGSLRRGQGVAIFTA--ECSHS-FHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~--~C~H~-Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      +.|+||++...+     ++..  +|||. ||..|+..|.+. ...||+||+++..
T Consensus         8 ~~C~IC~~~~~~-----~~~~~~pCgH~~~C~~C~~~~~~~-~~~CPiCR~~i~~   56 (63)
T 2vje_B            8 KPCSLCEKRPRD-----GNIIHGRTGHLVTCFHCARRLKKA-GASCPICKKEIQL   56 (63)
T ss_dssp             SBCTTTSSSBSC-----EEEEETTEEEEEECHHHHHHHHHT-TCBCTTTCCBCCE
T ss_pred             CCCcccCCcCCC-----eEEEecCCCCHhHHHHHHHHHHHh-CCcCCCcCchhhc
Confidence            479999998766     4444  99998 999999998876 4689999998653

>3k6s_B Integrin beta-2; cell receptor, adhesion molecule, cell adhesion, pyrrolidone carboxylic acid; HET: NAG MAN; 3.50A {Homo sapiens} PDB: 3k71_B* 3k72_B*

Probab=98.38  E-value=1.7e-06  Score=97.82  Aligned_cols=135  Identities=17%  Similarity=0.197  Sum_probs=88.9

Q ss_pred             CCcceEEEeecccccccccCCCCceEEEEEEeCCCCCCCCCCCCceEEEEEeCCCCCCccHHHHHHHHHHHH---HhcCC
Q 043643          124 RAQALAVKAFPEFGAVAAAECPPKFAVLLRVCAPSLPNDADRAPIDLVTVLDVSGSMSSKLPLLKRAVHFII---QNLGS  200 (634)
Q Consensus       124 ~~~~~~v~~~~~~~~~~~~~~~~~~~v~v~~~ap~~~~~~~r~p~dlv~VlD~SgSM~gkl~~~K~al~~li---~~L~~  200 (634)
                      .+..+.|++-|.          +...+.|.++.+      ..-|+||+||+|.|+||...|+.+|..+..|+   ..+..
T Consensus        77 ~Pq~~~~~Lr~g----------~~~~f~~~~~~~------~~ypvDly~LmD~S~SM~ddi~~lk~l~~~l~~~l~~~t~  140 (687)
T 3k6s_B           77 SPQKVTLYLRPG----------QAAAFNVTFRRA------KGYPIDLYYLMDLSYSMLDDLRNVKKLGGDLLRALNEITE  140 (687)
T ss_dssp             BCSCBEEEECTT----------SCEEEEEEECCC------CCCCCEEEEEEECSSTTHHHHHTTTTCCTTHHHHHHSSCC
T ss_pred             cCcEEEEEEecC----------CeeEEEEEEecc------CCCceeEEEEEcCCcchHHHHHHHHHHHHHHHHHHHhhCc
Confidence            445677766553          223455555544      45689999999999999987777776554444   44567


Q ss_pred             CCeEEEEEeCCCc-----------------------------EEEEcCcccCHHHHHHHHHHHhcCCCCCCCcH----HH
Q 043643          201 ADRLSIVIFSSVA-----------------------------RRIFPLQRMTDSGRENAIRAINTLSSNGGTNI----VE  247 (634)
Q Consensus       201 ~drvsIV~Fs~~a-----------------------------~~~~pl~~~t~~~~~~~~~~I~~l~~~GgT~i----~~  247 (634)
                      +-|++++.|.+..                             +.+++|+    .+...+.+.|+.+...|+-+.    .+
T Consensus       141 ~~r~GfgsFvDk~~~P~~~~~p~~~~~Pc~~~~~~c~~~f~f~~~l~lt----~~~~~F~~~v~~~~isgn~D~PE~g~d  216 (687)
T 3k6s_B          141 SGRIGFGSFVDKTVLPFVNTHPDKLRNPCPNKEKECQPPFAFRHVLKLT----NNSNQFQTEVGKQLISGNLDAPEGGLD  216 (687)
T ss_dssp             SCEEEEEEECCCSSTTSSCCSSTTTTCCCCSCCCCCCCCCSCEEEEEEE----SCSHHHHHHHHTSCCCCCSSSSCCHHH
T ss_pred             CcEEeeEEeeccccCCccccCchhccCCCCCCCCCcCCcccceeecccC----CCHHHHHHHHhhccccCCCCCCchHHH
Confidence            8999999998732                             2345666    456788999999888776543    34


Q ss_pred             HHHHHHHHHHhhccCCCCcEEEEEeCCCCCC
Q 043643          248 GLKKGARVLEERRERSPVASIILLSDGQDTH  278 (634)
Q Consensus       248 aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~  278 (634)
                      ||..|+---+...+++..+.|||+||.....
T Consensus       217 Al~qa~vc~~~igWr~a~rllV~~TDa~~H~  247 (687)
T 3k6s_B          217 AMMQVAACPEEIGWRNVTRLLVFATDDGFHF  247 (687)
T ss_dssp             HHHHHTTCHHHHCCCSSCCEEEEECSSCCCC
T ss_pred             HHHHHhhcccccCCccceEEEEEECCCcccc
Confidence            4444431002233344667799999987653

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=98.38  E-value=9.3e-08  Score=94.31  Aligned_cols=46  Identities=28%  Similarity=0.455  Sum_probs=39.5

Q ss_pred             CccccccccccCCcceeEe-cCCCCccchhhHHHHHhc-CCCcCcc--ccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFT-AECSHSFHFCCIAANVQH-GNRICPI--CRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~-~~C~H~Fh~~Ci~~w~~~-~~~~CP~--Cr~~~~~   52 (634)
                      +||||++.|..     |++ ..|||+||+.||..|+.. +...||+  |+..+..
T Consensus       183 ~CPIcl~~f~D-----PVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~  232 (267)
T 3htk_C          183 TCPITCKPYEA-----PLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSM  232 (267)
T ss_dssp             BCTTTSSBCSS-----EEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECG
T ss_pred             ECcCccCcccC-----CeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCch
Confidence            69999999988     887 499999999999999864 3457999  9987654

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.33  E-value=1.6e-07  Score=75.71  Aligned_cols=41  Identities=27%  Similarity=0.497  Sum_probs=35.2

Q ss_pred             CccccccccccCCcceeEecCCCCc-cchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHS-FHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.+..     ++.++|||. ||..|+..     ...||+||.++..
T Consensus        27 ~C~IC~~~~~~-----~~~~pCgH~~~C~~C~~~-----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           27 LCKICMDRNIA-----IVFVPCGHLVTCKQCAEA-----VDKCPMCYTVITF   68 (75)
T ss_dssp             SCSSSCSSCCC-----BCCSSSCCCCBCHHHHHH-----CSBCTTTCCBCCC
T ss_pred             CCCcCCCCCCC-----EEEecCCCHHHHHHHhhC-----CCCCccCCceecC
Confidence            69999999887     788899999 99999964     3579999998654

>3rag_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tructural genomics; 1.80A {Alicyclobacillus acidocaldarius subsp}

Probab=98.31  E-value=1.3e-06  Score=85.68  Aligned_cols=70  Identities=19%  Similarity=0.303  Sum_probs=50.2

Q ss_pred             CCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCeeEEEEEccCC-----CChHHHH
Q 043643          263 SPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLE-----HDSEAMH  337 (634)
Q Consensus       263 ~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~-----~d~~~L~  337 (634)
                      ...+.|||||||.+|.|. .|              ....++           ++..||.|||||||..     .+...|+
T Consensus         8 ~~~k~iillTDG~~~~g~-~p--------------~~aa~~-----------a~~~gi~v~tIGig~~~~~~~~~~~~L~   61 (242)
T 3rag_A            8 ATIRQILVITDGCSNIGP-DP--------------VEAARR-----------AHRHGIVVNVIGIVGRGDAGEQGYQEAH   61 (242)
T ss_dssp             CCEEEEEEEESSCCCSSS-CH--------------HHHHHH-----------HHHTTCEEEEEEECCSSSCTTCCCHHHH
T ss_pred             CCccEEEEEccCCCCCCC-CH--------------HHHHHH-----------HHHCCCEEEEEEecCCccccchhHHHHH
Confidence            345779999999999764 21              222221           2357899999999742     3458999


Q ss_pred             HHHhhcCCeEEEcCChhhHHHH
Q 043643          338 AIADASGGTFSFIETLSILQDA  359 (634)
Q Consensus       338 ~iA~~tgG~~~~i~~~~~l~~~  359 (634)
                      .||+.+||.||++.. .+|.+.
T Consensus        62 ~IA~~tGG~yf~a~~-~~l~~~   82 (242)
T 3rag_A           62 SIADAGGGMCRIVQP-ADISAT   82 (242)
T ss_dssp             HHHHHTTSCEEEECG-GGHHHH
T ss_pred             HHHHhcCCeEEEeeH-HHHHHH
Confidence            999999999999844 555444

>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase complex, ring zinc-finger, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 2yhn_A

Probab=98.19  E-value=3.7e-07  Score=74.40  Aligned_cols=41  Identities=24%  Similarity=0.571  Sum_probs=35.9

Q ss_pred             CccccccccccCCcceeEecCCCCc-cchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHS-FHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.+..     ++.++|||. ||..|+..|     ..||+||..+..
T Consensus        20 ~C~IC~~~~~~-----~v~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~   61 (79)
T 2yho_A           20 LCMVCCEEEIN-----STFCPCGHTVCCESCAAQL-----QSCPVCRSRVEH   61 (79)
T ss_dssp             BCTTTSSSBCC-----EEEETTCBCCBCHHHHTTC-----SBCTTTCCBCCE
T ss_pred             EeEEeCcccCc-----EEEECCCCHHHHHHHHHhc-----CcCCCCCchhhC
Confidence            69999999887     788899999 999999876     279999998765

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.11  E-value=1.7e-06  Score=68.20  Aligned_cols=42  Identities=21%  Similarity=0.551  Sum_probs=36.0

Q ss_pred             CccccccccccCCcceeEecCCCCc-cchhhHHHHHhcCCCcCcccccccccC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHS-FHFCCIAANVQHGNRICPICRCEWKDV   53 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~-Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~   53 (634)
                      .|.||++....     ++.++|+|. ||..|+..     ...||+||+.+...
T Consensus        17 ~C~IC~~~~~~-----~v~~pCgH~~~C~~C~~~-----~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           17 DCVVCQNGTVN-----WVLLPCRHTCLCDGCVKY-----FQQCPMCRQFVQES   59 (68)
T ss_dssp             CCSSSSSSCCC-----CEETTTTBCCSCTTHHHH-----CSSCTTTCCCCCCE
T ss_pred             CCCCcCcCCCC-----EEEECCCChhhhHHHHhc-----CCCCCCCCcchhce
Confidence            69999999877     888999999 99999984     35799999987653

>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB: 1n87_A

Probab=98.08  E-value=1.2e-06  Score=67.49  Aligned_cols=47  Identities=17%  Similarity=0.111  Sum_probs=40.4

Q ss_pred             CccccccccccCCcceeEec-CCCCccchhhHHHHHhcCCCcCcccccccccCC
Q 043643            2 TCPICLGSLRRGQGVAIFTA-ECSHSFHFCCIAANVQHGNRICPICRCEWKDVP   54 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~-~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p   54 (634)
                      .||||++.|.+     |+.. .|||.|++.||.+|+.. +.+||+++.++....
T Consensus         5 ~CpIs~~~m~d-----PV~~~~sG~~yer~~I~~~l~~-~~~cP~t~~~L~~~~   52 (61)
T 2bay_A            5 LCAISGKVPRR-----PVLSPKSRTIFEKSLLEQYVKD-TGNDPITNEPLSIEE   52 (61)
T ss_dssp             CCTTTCSCCSS-----EEEETTTTEEEEHHHHHHHHHH-HSBCTTTCCBCCGGG
T ss_pred             EecCCCCCCCC-----CEEeCCCCcEEcHHHHHHHHHh-CCCCcCCcCCCChhh
Confidence            59999999988     8887 99999999999999975 346999998876543

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster}

Probab=98.06  E-value=6.1e-07  Score=91.23  Aligned_cols=50  Identities=24%  Similarity=0.579  Sum_probs=36.9

Q ss_pred             CccccccccccCCcceeE---ecCCCCccchhhHHHHHhcCC----------CcCcccccccc
Q 043643            2 TCPICLGSLRRGQGVAIF---TAECSHSFHFCCIAANVQHGN----------RICPICRCEWK   51 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~---~~~C~H~Fh~~Ci~~w~~~~~----------~~CP~Cr~~~~   51 (634)
                      .|+||++.+..++..+-.   ...|+|.||..|+.+|++...          ..||.||+++.
T Consensus       310 ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          310 RCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             SCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             cCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            699999998763322212   247999999999999996311          26999999754

>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein 4, UIP4, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.05  E-value=1.8e-06  Score=72.72  Aligned_cols=46  Identities=28%  Similarity=0.616  Sum_probs=34.7

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHh----cC---CCcCcc--cccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQ----HG---NRICPI--CRCE   49 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~----~~---~~~CP~--Cr~~   49 (634)
                      +|+||++.+..  .......+|||.||..|+..++.    .+   ...||.  |+..
T Consensus         7 ~C~IC~~~~~~--~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            7 GCKLCLGEYPV--EQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             CCSSSCCCCBG--GGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcccCccccc--ccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            69999999865  23233357999999999999774    22   347999  9876

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=97.98  E-value=2.9e-06  Score=65.07  Aligned_cols=46  Identities=24%  Similarity=0.504  Sum_probs=34.8

Q ss_pred             CCccccccccccCCcceeEecCCC--C---ccchhhHHHHHhc-CCCcCcccccccc
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECS--H---SFHFCCIAANVQH-GNRICPICRCEWK   51 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~--H---~Fh~~Ci~~w~~~-~~~~CP~Cr~~~~   51 (634)
                      +.|.||++....     ++..+|.  |   .||..|+.+|+.. ++..||+|+..|.
T Consensus         7 ~~CrIC~~~~~~-----~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            7 PVCWICNEELGN-----ERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CEETTTTEECSC-----CCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CEeEEeecCCCC-----ceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            369999987322     2346755  4   8999999999963 4678999998864

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=97.69  E-value=2.6e-05  Score=64.80  Aligned_cols=48  Identities=21%  Similarity=0.523  Sum_probs=39.2

Q ss_pred             ccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCC
Q 043643            3 CPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVP   54 (634)
Q Consensus         3 C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p   54 (634)
                      |++|--.+..    .....+|.|.||..|+..|.+.+...||.|+.++..+-
T Consensus         4 C~~C~~Pi~i----ygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe   51 (101)
T 3vk6_A            4 CDKCGLPIKV----YGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIE   51 (101)
T ss_dssp             CTTTCSBCSE----EEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEEE
T ss_pred             cCccCCCeEE----EeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeeeE
Confidence            7888888754    24457999999999999999877789999999876543

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A*

Probab=97.50  E-value=4.4e-05  Score=80.08  Aligned_cols=37  Identities=27%  Similarity=0.668  Sum_probs=31.8

Q ss_pred             eEecCCCCccchhhHHHHHhcCCCcCcccccccccCC
Q 043643           18 IFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVP   54 (634)
Q Consensus        18 ~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p   54 (634)
                      ++..+|||.||..|+..|.......||+||+++....
T Consensus       345 pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~  381 (389)
T 2y1n_A          345 VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE  381 (389)
T ss_dssp             EEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEEE
T ss_pred             eEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCce
Confidence            8889999999999999999844668999999876543

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}

Probab=96.31  E-value=0.0027  Score=62.51  Aligned_cols=34  Identities=26%  Similarity=0.649  Sum_probs=28.0

Q ss_pred             ecCCCCccchhhHHHHHhc-CCCcCcccccccccC
Q 043643           20 TAECSHSFHFCCIAANVQH-GNRICPICRCEWKDV   53 (634)
Q Consensus        20 ~~~C~H~Fh~~Ci~~w~~~-~~~~CP~Cr~~~~~~   53 (634)
                      +..|+|.||.+|+..|++. +...||.|+..|...
T Consensus       196 C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          196 CETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE  230 (238)
T ss_dssp             CSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSC
T ss_pred             cCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCC
Confidence            4459999999999999864 355899999998654

>1weo_A Cellulose synthase, catalytic subunit (IRX3); structure genomics, ring-finger, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: g.44.1.1

Probab=89.89  E-value=0.31  Score=39.27  Aligned_cols=51  Identities=24%  Similarity=0.531  Sum_probs=38.3

Q ss_pred             CccccccccccCCcceeE--ecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIF--TAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~--~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|.||-+.+.....-.+|  .-.|+-..|+.|..--.+.++..||.|+.+++.
T Consensus        18 iCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCktrYkr   70 (93)
T 1weo_A           18 FCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKR   70 (93)
T ss_dssp             BCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCC
T ss_pred             ccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCccccccCCcccc
Confidence            699999987533222234  356888889999987677778899999998764

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=89.25  E-value=0.19  Score=38.75  Aligned_cols=43  Identities=19%  Similarity=0.488  Sum_probs=31.7

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhc---CCCcCcccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQH---GNRICPICRCE   49 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~---~~~~CP~Cr~~   49 (634)
                      .|.||.+.     +..+....|...||..|+...+..   +.-.||.|.+.
T Consensus        14 ~C~vC~~~-----~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C           14 RCGVCGDG-----TDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             CCTTTSCC-----TTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CcCCCCCC-----CeEEECCCCCCceecccCCCccCcCCCCCEECccccCC
Confidence            58999753     344667889999999999766542   33479999765

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=87.72  E-value=0.14  Score=42.87  Aligned_cols=31  Identities=19%  Similarity=0.402  Sum_probs=23.1

Q ss_pred             Ccccccccc-ccCCcceeEecCCCCccchhhHHHH
Q 043643            2 TCPICLGSL-RRGQGVAIFTAECSHSFHFCCIAAN   35 (634)
Q Consensus         2 ~C~ICl~~~-~~~~~~~~~~~~C~H~Fh~~Ci~~w   35 (634)
                      .|+||.+.+ ..   .....+.|+|+||..|+..+
T Consensus         5 ~C~~C~~~~~~~---av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            5 LCQFCDQDPAQD---AVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             BCTTCCSSSCCB---CCEEETTTTEEECHHHHHHH
T ss_pred             CCcCCCCCCCCC---ceEECCcCChHHhHHHCHHH
Confidence            599999764 33   11233899999999999984

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	634
d1q0pa_	209	c.62.1.1 (A:) Complement factor B domain {Human (H	2e-16
d1shux_	181	c.62.1.1 (X:) Capillary morphogenesis protein 2 do	3e-15
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	1e-10
d1mf7a_	194	c.62.1.1 (A:) Integrin alpha M (CR3, CD11b/CD18, M	5e-10
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	2e-09
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	4e-09
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	1e-08
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	2e-08
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	2e-08
d1mjna_	179	c.62.1.1 (A:) Integrin CD11a/CD18 (Leukocyte funct	2e-08
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-07
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	1e-07
d1jeya2	220	c.62.1.3 (A:34-253) Ku70 subunit N-terminal domain	3e-07
d1yvra2	174	c.62.1.5 (A:364-537) 60-kda SS-A/Ro ribonucleoprot	8e-07
d1atza_	184	c.62.1.1 (A:) von Willebrand factor A3 domain, vWA	1e-06
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	2e-06
d1ijba_	202	c.62.1.1 (A:) von Willebrand factor A1 domain, vWA	3e-06
d1jeyb2	236	c.62.1.4 (B:6-241) Ku80 subunit N-terminal domain	1e-05
d1n3ya_	189	c.62.1.1 (A:) Integrin alpha-x beta2 {Human (Homo	4e-05
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	4e-05
d2c2la2	80	g.44.1.2 (A:225-304) STIP1 homology and U box-cont	2e-04
d1tyeb2	248	c.62.1.1 (B:107-354) Integrin beta A domain {Human	6e-04
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	0.001
d1pt6a_	192	c.62.1.1 (A:) Integrin alpha1-beta1 {Human (Homo s	0.001
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	0.002
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	0.003

>d1q0pa_ c.62.1.1 (A:) Complement factor B domain {Human (Homo sapiens) [TaxId: 9606]} Length = 209

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Complement factor B domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 76.6 bits (187), Expect = 2e-16
 Identities = 33/214 (15%), Positives = 77/214 (35%), Gaps = 30/214 (14%)

Query: 168 IDLVTVLDVSGSMS-SKLPLLKRAVHFIIQNLGSAD---RLSIVIFSSVARRIFPLQRMT 223
           +++  VLD S S+  S     K+++  +I+ + S     R  +V +++  +    +    
Sbjct: 2   MNIYLVLDGSDSIGASNFTGAKKSLVNLIEKVASYGVKPRYGLVTYATYPKIWVKVSEAD 61

Query: 224 DSGRENAIRAINTLSSN-----GGTNIVEGLKKGARVLEERRERSPVAS------IILLS 272
            S  +   + +N ++        GTN  + L+    ++    +  P         IIL++
Sbjct: 62  SSNADWVTKQLNEINYEDHKLKSGTNTKKALQAVYSMMSWPDDVPPEGWNRTRHVIILMT 121

Query: 273 DGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHD 332
           DG         +   +    +   +               +   +    V+ FG G   +
Sbjct: 122 DGLHNMGGDPITVIDEIRDLLYIGKDR-------------KNPREDYLDVYVFGVGPLVN 168

Query: 333 SEAMHAIADASGGT--FSFIETLSILQDAFARCI 364
              ++A+A           ++ +  L+D F + I
Sbjct: 169 QVNINALASKKDNEQHVFKVKDMENLEDVFYQMI 202

>d1shux_ c.62.1.1 (X:) Capillary morphogenesis protein 2 domain {Human (Homo sapiens) [TaxId: 9606]} Length = 181

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Capillary morphogenesis protein 2 domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 72.3 bits (176), Expect = 3e-15
 Identities = 43/197 (21%), Positives = 67/197 (34%), Gaps = 27/197 (13%)

Query: 165 RAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNL-GSADRLSIVIFSSVARRIFPLQRMT 223
           R   DL  VLD SGS+++    +   V  + +       RLS ++FSS A  I PL    
Sbjct: 3   RRAFDLYFVLDKSGSVANNWIEIYNFVQQLAERFVSPEMRLSFIVFSSQATIILPLTGDR 62

Query: 224 DSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRN 283
                  +  +  +S  G T I EGLK     +++       + II L+DG+    V   
Sbjct: 63  GK-ISKGLEDLKRVSPVGETYIHEGLKLANEQIQKAGGLKTSSIIIALTDGKLDGLVPSY 121

Query: 284 SYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADAS 343
           +                            R  G     V+  G   + +   +  IAD+ 
Sbjct: 122 A---------------------EKEAKISRSLG---ASVYCVGVL-DFEQAQLERIADSK 156

Query: 344 GGTFSFIETLSILQDAF 360
              F        L+   
Sbjct: 157 EQVFPVKGGFQALKGII 173

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.6 bits (133), Expect = 1e-10
 Identities = 12/57 (21%), Positives = 19/57 (33%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQAP 58
           CP C  +  R   + +    C H+    C+      G   CP C    +   F+  
Sbjct: 5  GCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRVQ 61

>d1mf7a_ c.62.1.1 (A:) Integrin alpha M (CR3, CD11b/CD18, Mac-1 alpha subunit) {Human (Homo sapiens) [TaxId: 9606]} Length = 194

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Integrin alpha M (CR3, CD11b/CD18, Mac-1 alpha subunit)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.9 bits (136), Expect = 5e-10
 Identities = 35/213 (16%), Positives = 68/213 (31%), Gaps = 34/213 (15%)

Query: 165 RAPIDLVTVLDVSGSMS-SKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMT 223
           +   D+  ++D SGS+       +K  V  +++ L  +  L  ++  S   RI    +  
Sbjct: 3   QEDSDIAFLIDGSGSIIPHDFRRMKEFVSTVMEQLKKSKTLFSLMQYSEEFRIHFTFKEF 62

Query: 224 DSGRENAIRAINTLSSNGGTNIVEGLKKGARVL---EERRERSPVASIILLSDGQDTHNV 280
            +               G T+   G++K  R L        ++    +++++DG+   + 
Sbjct: 63  QNNPNPRSLVKPITQLLGRTHTATGIRKVVRELFNITNGARKNAFKILVVITDGEKFGDP 122

Query: 281 LRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPV-HTFGFGLEHDSEAMHAI 339
           L       EA                         G   + +     F  E   + ++ I
Sbjct: 123 LGYEDVIPEA----------------------DREGVIRYVIGVGDAFRSEKSRQELNTI 160

Query: 340 ADASGGTFSFI----ETLSILQDAFAR---CIG 365
           A        F     E L  +Q+       CIG
Sbjct: 161 ASKPPRDHVFQVNNFEALKTIQNQLREKIFCIG 193

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.3 bits (122), Expect = 2e-09
 Identities = 12/50 (24%), Positives = 18/50 (36%), Gaps = 1/50 (2%)

Query: 3  CPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD 52
          CP+C+  L        F   C +     C        N +CP CR  + +
Sbjct: 3  CPLCMEPLEIDDIN-FFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE 51

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.2 bits (122), Expect = 4e-09
 Identities = 13/53 (24%), Positives = 21/53 (39%), Gaps = 5/53 (9%)

Query: 1  KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDV 53
          + C IC  + +      +    C H     C+ +  +   + CP CRCE K  
Sbjct: 24 QLCKICAENDKD-----VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT 71

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 49.1 bits (117), Expect = 1e-08
 Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 2/48 (4%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCE 49
           C +CL  L  G+        C H FH  C+   +   +  CP+CR  
Sbjct: 7  ECAVCLAELEDGEEARFLP-RCGHGFHAECVDMWLGS-HSTCPLCRLT 52

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.7 bits (118), Expect = 2e-08
 Identities = 14/64 (21%), Positives = 26/64 (40%), Gaps = 14/64 (21%)

Query: 1  KTCPICLGSLR-------------RGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICR 47
            C IC   +                +   +    C+H+FHF CI+  ++   ++CP+  
Sbjct: 22 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDN 80

Query: 48 CEWK 51
           EW+
Sbjct: 81 REWE 84

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 48.8 bits (116), Expect = 2e-08
 Identities = 15/51 (29%), Positives = 22/51 (43%), Gaps = 5/51 (9%)

Query: 3  CPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDV 53
          CPICL               C H+F + CI   ++  N  CP+C+   + V
Sbjct: 8  CPICLEDPSNY----SMALPCLHAFCYVCITRWIRQ-NPTCPLCKVPVESV 53

>d1mjna_ c.62.1.1 (A:) Integrin CD11a/CD18 (Leukocyte function associated antigen-1, LFA-1) {Human (Homo sapiens) [TaxId: 9606]} Length = 179

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Integrin CD11a/CD18 (Leukocyte function associated antigen-1, LFA-1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.8 bits (123), Expect = 2e-08
 Identities = 21/120 (17%), Positives = 47/120 (39%), Gaps = 8/120 (6%)

Query: 167 PIDLVTVLDVSGSMS-SKLPLLKRAVHFIIQNLGSAD-RLSIVIFSSVARRIFPLQRMTD 224
            +DLV + D S S+   +   +   +  +++   +   + + V FS+  +  F       
Sbjct: 2   NVDLVFLFDGSMSLQPDEFQKILDFMKDVMKKCSNTSYQFAAVQFSTSYKTEFDFSDYVK 61

Query: 225 SGRENAIRAINTLS-SNGGTNIVEGLKKGARVL--EERRERSPVAS-IILLSDGQDTHNV 280
             R++    +  +      TN    +   A  +  EE   R      +I+++DG+ T + 
Sbjct: 62  --RKDPDALLKHVKHMLLLTNTFGAINYVATEVFREELGARPDATKVLIIITDGEATDSG 119

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 47.6 bits (113), Expect = 1e-07
 Identities = 13/47 (27%), Positives = 16/47 (34%), Gaps = 5/47 (10%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRC 48
          +C IC   L            C H F   CI   ++     CP CR 
Sbjct: 25 SCQICEHILAD-----PVETSCKHLFCRICILRCLKVMGSYCPSCRY 66

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

 Score = 46.8 bits (110), Expect = 1e-07
 Identities = 10/51 (19%), Positives = 16/51 (31%), Gaps = 1/51 (1%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRI-CPICRCEWK 51
           C IC   L   +  A        + H  C++  +       C IC   + 
Sbjct: 8  VCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN 58

>d1jeya2 c.62.1.3 (A:34-253) Ku70 subunit N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 220

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Ku70 subunit N-terminal domain
domain: Ku70 subunit N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.6 bits (117), Expect = 3e-07
 Identities = 23/230 (10%), Positives = 63/230 (27%), Gaps = 59/230 (25%)

Query: 170 LVTVLDVSGSMS--------SKLPLLKRAVHFIIQNLGSA---DRLSIVIFSSVAR---- 214
           L+ ++D S +M         +   +  + +  +  +   +   D L++V + +       
Sbjct: 5   LIFLVDASKAMFESQSEDELTPFDMSIQCIQSVYISKIISSDRDLLAVVFYGTEKDKNSV 64

Query: 215 ---RIFPLQRMTDSGRE------------NAIRAINTLSSNGGTNIVEGLKKGARVLEER 259
               I+ LQ + + G +               R  + +      ++ E L   A +  + 
Sbjct: 65  NFKNIYVLQELDNPGAKRILELDQFKGQQGQKRFQDMMGHGSDYSLSEVLWVCANLFSDV 124

Query: 260 RERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPT 319
           + +     I+L ++  + H       ++    +    +                      
Sbjct: 125 QFKMSHKRIMLFTNEDNPHGNDSAKASRARTKAGDLRDT--------------------G 164

Query: 320 FPVHTFGFGLEHD-------SEAMHAIADASGGTFSFIETLSILQDAFAR 362
             +                  + +    D         E  S L+D   +
Sbjct: 165 IFLDLMHLKKPGGFDISLFYRDIISIAEDEDLRV--HFEESSKLEDLLRK 212

>d1yvra2 c.62.1.5 (A:364-537) 60-kda SS-A/Ro ribonucleoprotein, RoRNP {African clawed frog (Xenopus laevis) [TaxId: 8355]} Length = 174

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: RoRNP C-terminal domain-like
domain: 60-kda SS-A/Ro ribonucleoprotein, RoRNP
species: African clawed frog (Xenopus laevis) [TaxId: 8355]

 Score = 47.5 bits (112), Expect = 8e-07
 Identities = 22/197 (11%), Positives = 49/197 (24%), Gaps = 43/197 (21%)

Query: 169 DLVTVLDVSGSMS-----SKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMT 223
             +  +DVS SM+     S L     A    +    +     +V FS     + P     
Sbjct: 7   RFLLAIDVSASMNQRVLGSILNASVVAAAMCMLVARTEKDSHMVAFSD---EMLPCPITV 63

Query: 224 DSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRN 283
           +      +  ++ ++    T+    +         ++  +     I+ +D +     +  
Sbjct: 64  NMLLHEVVEKMSDITMG-STDCALPML------WAQKTNTAADIFIVFTDCETNVEDVHP 116

Query: 284 SYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFG------LEHDSEAMH 337
           +    +                       RE       +             + D   M 
Sbjct: 117 ATALKQY----------------------REKMGIPAKLIVCAMTSNGFSIADPDDRGML 154

Query: 338 AIADASGGTFSFIETLS 354
            I     G    I   +
Sbjct: 155 DICGFDSGALDVIRNFT 171

>d1atza_ c.62.1.1 (A:) von Willebrand factor A3 domain, vWA3 {Human (Homo sapiens) [TaxId: 9606]} Length = 184

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: von Willebrand factor A3 domain, vWA3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.2 bits (111), Expect = 1e-06
 Identities = 26/207 (12%), Positives = 58/207 (28%), Gaps = 41/207 (19%)

Query: 167 PIDLVTVLDVSGSMS-SKLPLLKRAVHFIIQNL---GSADRLSIVIFSSVARRIFPLQRM 222
           P+D++ +LD S S   S    +K      I          ++S++ + S+     P   +
Sbjct: 2   PLDVILLLDGSSSFPASYFDEMKSFAKAFISKANIGPRLTQVSVLQYGSITTIDVPWNVV 61

Query: 223 TDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSP--VASIILLSDGQDTHNV 280
            +     ++  +                    +  E     P    ++++L       +V
Sbjct: 62  PEKAHLLSLVDVMQREGGPSQIGDALGFAVRYLTSEMHGARPGASKAVVILVTDVSVDSV 121

Query: 281 LRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIA 340
                                             A      V   G G  +D+  +  +A
Sbjct: 122 DAA----------------------------ADAARSNRVTVFPIGIGDRYDAAQLRILA 153

Query: 341 DASGGTFSF-------IETLSILQDAF 360
             +G +          + T+  L ++F
Sbjct: 154 GPAGDSNVVKLQRIEDLPTMVTLGNSF 180

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.3 bits (102), Expect = 2e-06
 Identities = 9/48 (18%), Positives = 14/48 (29%), Gaps = 9/48 (18%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCE 49
           C  C    +           C H+    C+    +     CPIC+  
Sbjct: 8  RCQQCQAEAKCP-----KLLPCLHTLCSGCL----EASGMQCPICQAP 46

>d1ijba_ c.62.1.1 (A:) von Willebrand factor A1 domain, vWA1 {Human (Homo sapiens) [TaxId: 9606]} Length = 202

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: von Willebrand factor A1 domain, vWA1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.4 bits (109), Expect = 3e-06
 Identities = 29/198 (14%), Positives = 64/198 (32%), Gaps = 27/198 (13%)

Query: 157 PSLPNDADRAPIDLVTVLDVSGSMS-SKLPLLKRAVHFIIQNLG-SADRLSIVIFSSVAR 214
           P L +      +DLV +LD S  +S ++  +LK  V  +++ L  S   + + +      
Sbjct: 3   PPLHDFYCSRLLDLVFLLDGSSRLSEAEFEVLKAFVVDMMERLRVSQKWVRVAVVEYHDG 62

Query: 215 RIFPLQRMTDSGRENAIRAINTL--SSNGGTNIVEGLKKGARVLEERRERSPVASIILLS 272
               +            R  + +  + +   +  E LK     +  + +R   + I LL 
Sbjct: 63  SHAYIGLKDRKRPSELRRIASQVKYAGSQVASTSEVLKYTLFQIFSKIDRPEASRIALLL 122

Query: 273 DGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHD 332
                   +  ++ +          L              ++      PV   G G   +
Sbjct: 123 MASQEPQRMSRNFVR------YVQGL--------------KKKKVIVIPV---GIGPHAN 159

Query: 333 SEAMHAIADASGGTFSFI 350
            + +  I   +    +F+
Sbjct: 160 LKQIRLIEKQAPENKAFV 177

>d1jeyb2 c.62.1.4 (B:6-241) Ku80 subunit N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 236

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Ku80 subunit N-terminal domain
domain: Ku80 subunit N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.0 bits (105), Expect = 1e-05
 Identities = 17/134 (12%), Positives = 36/134 (26%), Gaps = 24/134 (17%)

Query: 170 LVTVLDVSGSMS-------SKLPLLKRAVHFIIQNL---GSADRLSIVIFSSVARRIFPL 219
           +V  +DV  +MS       S     K+ +   +Q      + D +++V+F +        
Sbjct: 5   VVLCMDVGFTMSNSIPGIESPFEQAKKVITMFVQRQVFAENKDEIALVLFGTDGTDNPLS 64

Query: 220 --------------QRMTDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPV 265
                                 E+    I   S          +       E   ++   
Sbjct: 65  GGDQYQNITVHRHLMLPDFDLLEDIESKIQPGSQQADFLDALIVSMDVIQHETIGKKFEK 124

Query: 266 ASIILLSDGQDTHN 279
             I + +D     +
Sbjct: 125 RHIEIFTDLSSRFS 138

>d1n3ya_ c.62.1.1 (A:) Integrin alpha-x beta2 {Human (Homo sapiens) [TaxId: 9606]} Length = 189

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Integrin alpha-x beta2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.7 bits (99), Expect = 4e-05
 Identities = 27/210 (12%), Positives = 58/210 (27%), Gaps = 28/210 (13%)

Query: 167 PIDLVTVLDVSGSMS-SKLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDS 225
             D+V ++D SGS+S      +   V  +I           ++  S   +          
Sbjct: 2   EQDIVFLIDGSGSISSRNFATMMNFVRAVISQFQRPSTQFSLMQFSNKFQTHFTFEEFRR 61

Query: 226 GRENAIRAINTLSSNGGTNIVEGLKKGARVL---EERRERSPVASIILLSDGQDTHNVLR 282
                    +     G T     ++     L        R     +I+++DG+   + L 
Sbjct: 62  SSNPLSLLASVHQLQGFTYTATAIQNVVHRLFHASYGARRDAAKILIVITDGKKEGDSLD 121

Query: 283 NSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPV-HTFGFGLEHDSEAMHAIAD 341
                                    +      AG   + +     F   +  + ++ IA 
Sbjct: 122 ----------------------YKDVIPMADAAGIIRYAIGVGLAFQNRNSWKELNDIAS 159

Query: 342 ASGGTFSF-IETLSILQDAFARCIGGLLSV 370
                  F +E    L+D   +    + ++
Sbjct: 160 KPSQEHIFKVEDFDALKDIQNQLKEKIFAI 189

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.8 bits (95), Expect = 4e-05
 Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 7/50 (14%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAA--NVQHGNRICPICRCE 49
           CPICL  ++        + +C H F   C+    N + G   CP+C+ +
Sbjct: 23 ECPICLELIKE-----PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKND 67

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 80

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.3 bits (88), Expect = 2e-04
 Identities = 12/66 (18%), Positives = 21/66 (31%), Gaps = 8/66 (12%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRC---EWKDVPFQAP 58
             I    +R              ++    I  ++Q      P+ R    + + +P  A 
Sbjct: 9  CGKISFELMRE-----PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAM 63

Query: 59 GSVIDA 64
            VIDA
Sbjct: 64 KEVIDA 69

>d1tyeb2 c.62.1.1 (B:107-354) Integrin beta A domain {Human (Homo sapiens) [TaxId: 9606]} Length = 248

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Integrin beta A domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.7 bits (92), Expect = 6e-04
 Identities = 11/46 (23%), Positives = 22/46 (47%), Gaps = 3/46 (6%)

Query: 167 PIDLVTVLDVSGSMSSKLPLLKRAVHFI---IQNLGSADRLSIVIF 209
           P+D+  ++D+S SM   L  ++     +   ++ L S  R+    F
Sbjct: 5   PVDIYYLMDLSYSMKDDLWSIQNLGTKLATQMRKLTSNLRIGFGAF 50

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.6 bits (84), Expect = 0.001
 Identities = 14/55 (25%), Positives = 19/55 (34%), Gaps = 9/55 (16%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCC----IAANVQHGNRI---CPICRCE 49
           C +CLG     Q   I  A+C   F   C    +   ++ G      CP   C 
Sbjct: 7  GCKLCLGEYPVEQMTTI--AQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACP 59

>d1pt6a_ c.62.1.1 (A:) Integrin alpha1-beta1 {Human (Homo sapiens) [TaxId: 9606]} Length = 192

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Integrin alpha1-beta1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.4 bits (88), Expect = 0.001
 Identities = 28/188 (14%), Positives = 59/188 (31%), Gaps = 24/188 (12%)

Query: 168 IDLVTVLDVSGSMSSKLPLLKRAVHFIIQNL---GSADRLSIVIFSSVARRIFPLQ--RM 222
           +D+V VLD S S+      +   ++ +++ +       ++ IV +       F L     
Sbjct: 2   LDIVIVLDGSNSIYP-WDSVTAFLNDLLKRMDIGPKQTQVGIVQYGENVTHEFNLNKYSS 60

Query: 223 TDSGRENAIRAINTLSSNGGTNIVEGLKKGARVLEERRERSPV-ASIILLSDGQDTHNVL 281
           T+     A + +        T +     +     E R  R  V   +++++DG+      
Sbjct: 61  TEEVLVAAKKIVQRGGRQTMTALGTDTARKEAFTEARGARRGVKKVMVIVTDGES----- 115

Query: 282 RNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIAD 341
                 +        +    N+   SI +            +      E   E + +IA 
Sbjct: 116 ----HDNHRLKKVIQDCEDENIQRFSIAILG--------SYNRGNLSTEKFVEEIKSIAS 163

Query: 342 ASGGTFSF 349
                  F
Sbjct: 164 EPTEKHFF 171

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.2 bits (82), Expect = 0.002
 Identities = 20/77 (25%), Positives = 29/77 (37%), Gaps = 18/77 (23%)

Query: 2   TCPICLGSLRRGQGVAIFTAE-------------CSHSFHFCCIAANVQHGNRI----CP 44
            C IC+  L    G +  T               CSH+FH  C+ A   +GN+     CP
Sbjct: 27  DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP 86

Query: 45  ICRCEW-KDVPFQAPGS 60
            C+  + +    Q  G 
Sbjct: 87  SCKTIYGEKTGTQPWGK 103

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.5 bits (81), Expect = 0.003
 Identities = 10/42 (23%), Positives = 14/42 (33%), Gaps = 4/42 (9%)

Query: 2  TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRIC 43
           C  C   LR           C H F   C++  +  G  +C
Sbjct: 24 RCSRCTNILREPV----CLGGCEHIFCSNCVSDCIGTGCPVC 61

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	634
d1q0pa_	209	Complement factor B domain {Human (Homo sapiens) [	99.87
d1shux_	181	Capillary morphogenesis protein 2 domain {Human (H	99.86
d1atza_	184	von Willebrand factor A3 domain, vWA3 {Human (Homo	99.79
d1ijba_	202	von Willebrand factor A1 domain, vWA1 {Human (Homo	99.78
d1mf7a_	194	Integrin alpha M (CR3, CD11b/CD18, Mac-1 alpha sub	99.77
d1n3ya_	189	Integrin alpha-x beta2 {Human (Homo sapiens) [TaxI	99.76
d1mjna_	179	Integrin CD11a/CD18 (Leukocyte function associated	99.75
d1v7pc_	193	Integrin alpha2-beta1 {Human (Homo sapiens) [TaxId	99.73
d1pt6a_	192	Integrin alpha1-beta1 {Human (Homo sapiens) [TaxId	99.71
d1jeya2	220	Ku70 subunit N-terminal domain {Human (Homo sapien	99.58
d1jeyb2	236	Ku80 subunit N-terminal domain {Human (Homo sapien	99.42
d1yvra2	174	60-kda SS-A/Ro ribonucleoprotein, RoRNP {African c	99.36
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.21
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.19
d1tyeb2	248	Integrin beta A domain {Human (Homo sapiens) [TaxI	99.17
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.17
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.15
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.14
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.11
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.08
d2qtva3	271	Sec23 {Baker's yeast (Saccharomyces cerevisiae) [T	99.05
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.04
d1pd0a3	252	Sec24 {Baker's yeast (Saccharomyces cerevisiae) [T	99.01
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.97
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	98.88
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.87
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.85
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.83
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.73
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	98.71
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.39
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	97.99
d1pd0a2	177	Sec24 {Baker's yeast (Saccharomyces cerevisiae) [T	93.74
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	90.37
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	85.68
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	84.52
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	82.4

>d1q0pa_ c.62.1.1 (A:) Complement factor B domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Complement factor B domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.87  E-value=9.3e-22  Score=190.41  Aligned_cols=188  Identities=18%  Similarity=0.235  Sum_probs=133.0

Q ss_pred             ceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCC-----
Q 043643          168 IDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLS-----  238 (634)
Q Consensus       168 ~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~-----  238 (634)
                      +||+||||.||||.+ +++.+|+++..+++.|.   .++||+||+|++.+..+++++......+..+...|+.+.     
T Consensus         2 lDivfvlD~SgSm~~~~~~~~k~~~~~li~~l~~~~~~~rv~lv~f~~~~~~~~~l~~~~~~~~~~l~~~i~~i~~~~~~   81 (209)
T d1q0pa_           2 MNIYLVLDGSDSIGASNFTGAKKSLVNLIEKVASYGVKPRYGLVTYATYPKIWVKVSEADSSNADWVTKQLNEINYEDHK   81 (209)
T ss_dssp             EEEEEEEECSTTTCHHHHHHHHHHHHHHHHHHHTTTCCCEEEEEEESSSEEEEECTTSGGGGCHHHHHHHHHTCCTTSCS
T ss_pred             cCEEEEEeCCCCCChHHHHHHHHHHHHHHHhcccCCCCcEEEEEEecCceeEEecCccchhhHHHHHHHHHHHhhhcccc
Confidence            799999999999998 99999999999999884   578999999999999999998766667888888998874     


Q ss_pred             CCCCCcHHHHHHHHHHHHHhhcc------CCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccc
Q 043643          239 SNGGTNIVEGLKKGARVLEERRE------RSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSK  312 (634)
Q Consensus       239 ~~GgT~i~~aL~~A~~~l~~~~~------~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~  312 (634)
                      .+|+|+++.||+.+.+.+.....      ++..+.|||+|||.++.+....           ...........  ....+
T Consensus        82 ~~g~t~~~~al~~a~~~~~~~~~~~~~~~~~~~kvvvl~TDG~~~~~~~~~-----------~~~~~~~~~~~--~~~~~  148 (209)
T d1q0pa_          82 LKSGTNTKKALQAVYSMMSWPDDVPPEGWNRTRHVIILMTDGLHNMGGDPI-----------TVIDEIRDLLY--IGKDR  148 (209)
T ss_dssp             CTTCCCHHHHHHHHHHHHCCTTSSCCTTGGGCEEEEEEEECSCCCSSSCTH-----------HHHHHHHHHTT--CSCBT
T ss_pred             CCCCchHHHHHHHHHHHHHhhhccCccccCCCceEEEEEcCCCccCCCChH-----------HHHHHHHHhhh--hHHHH
Confidence            57899999999999999964322      1233579999999998764321           00111111110  11112


Q ss_pred             cccCCCCeeEEEEEccCCCChHHHHHHHhhcCCe--EEEcCChhhHHHHHHHHhhccc
Q 043643          313 REAGQPTFPVHTFGFGLEHDSEAMHAIADASGGT--FSFIETLSILQDAFARCIGGLL  368 (634)
Q Consensus       313 ~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~--~~~i~~~~~l~~~f~~~l~~l~  368 (634)
                      ...+..++.|++||+|.+.+...|+.||..++|.  ||.+.+.++|.++|.+++....
T Consensus       149 ~~~~~~gi~i~~vgvg~~~~~~~L~~iAs~~~~~~~~f~~~~~~~L~~~~~~ii~~~~  206 (209)
T d1q0pa_         149 KNPREDYLDVYVFGVGPLVNQVNINALASKKDNEQHVFKVKDMENLEDVFYQMIDESQ  206 (209)
T ss_dssp             TBCCGGGEEEEEEECSSCCCHHHHHHHSCCCTTCCCEEETTC----------------
T ss_pred             HHHHhcCCceEEecCCccCCHHHHHHHHcCCCCCeeEEEeCCHHHHHHHHHHHHHhhc
Confidence            2345678999999999999999999999887664  8889999999999998876543

>d1shux_ c.62.1.1 (X:) Capillary morphogenesis protein 2 domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Capillary morphogenesis protein 2 domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.86  E-value=4.3e-21  Score=181.68  Aligned_cols=177  Identities=23%  Similarity=0.240  Sum_probs=138.3

Q ss_pred             CCCceEEEEEeCCCCCCccHHHHHHHHHHHHHhcC-CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCCCCCC
Q 043643          165 RAPIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLG-SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNGGT  243 (634)
Q Consensus       165 r~p~dlv~VlD~SgSM~gkl~~~K~al~~li~~L~-~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~~GgT  243 (634)
                      ..|+||+||||.||||.+.+..+|+++..+++.+. +++|+|||+|++.++.+++++. ...........+..+.++|+|
T Consensus         3 ~~~~Div~llD~S~Sm~~~~~~~k~~~~~~~~~~~~~~~rvglv~fs~~~~~~~~l~~-~~~~~~~~l~~l~~~~~~g~t   81 (181)
T d1shux_           3 RRAFDLYFVLDKSGSVANNWIEIYNFVQQLAERFVSPEMRLSFIVFSSQATIILPLTG-DRGKISKGLEDLKRVSPVGET   81 (181)
T ss_dssp             BSCEEEEEEEECSGGGGGGHHHHHHHHHHHHHHCCCTTEEEEEEEESSSEEEEEEEEC-CHHHHHHHHHHHHTCCCCSCC
T ss_pred             CCceEEEEEEeCCCCcccCHHHHHHHHHHHHHHhcCCCCEEEEEEeecceEEEEEecC-CHHHHHHHhhhcccccCCCcc
Confidence            46899999999999999866678999998888875 5789999999999999999973 223345556667777889999


Q ss_pred             cHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCeeEE
Q 043643          244 NIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTFPVH  323 (634)
Q Consensus       244 ~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i~I~  323 (634)
                      +++.||+.+.+.+..+...+..+.|||+|||.++.+..                ........        .++..++.|+
T Consensus        82 ~~~~al~~~~~~~~~~~~~~~~~~ivliTDG~~~~~~~----------------~~~~~~~~--------~~k~~gv~v~  137 (181)
T d1shux_          82 YIHEGLKLANEQIQKAGGLKTSSIIIALTDGKLDGLVP----------------SYAEKEAK--------ISRSLGASVY  137 (181)
T ss_dssp             CHHHHHHHHHHHHHHHTGGGSCEEEEEEECCCCCTTHH----------------HHHHHHHH--------HHHHTTCEEE
T ss_pred             hHHHHHHHHHHHhhhcccCCCceEEEEecCCCCCCCcc----------------HHHHHHHH--------HHHHCCCEEE
Confidence            99999999999998766667778899999999874321                11121111        1235789999


Q ss_pred             EEEccCCCChHHHHHHHhhcCCeEEEcCChhhHHHHHHHHhhcc
Q 043643          324 TFGFGLEHDSEAMHAIADASGGTFSFIETLSILQDAFARCIGGL  367 (634)
Q Consensus       324 t~G~G~~~d~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~l~~l  367 (634)
                      +||+|. .+...|+.||...++.|+...+.+.|...+..++..+
T Consensus       138 ~vgig~-~~~~~L~~ia~~~~~~~~~~~~~~~L~~~~~~i~~~i  180 (181)
T d1shux_         138 CVGVLD-FEQAQLERIADSKEQVFPVKGGFQALKGIINSILAQS  180 (181)
T ss_dssp             EEECSS-CCHHHHHHHSSSGGGEEESSSTTHHHHHHHHHHHHTB
T ss_pred             EEEeCc-cCHHHHHHHhCCCCceEEecCCHHHHHHHHHHHHhhh
Confidence            999994 7899999999877666555556788888888876643

>d1atza_ c.62.1.1 (A:) von Willebrand factor A3 domain, vWA3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: von Willebrand factor A3 domain, vWA3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=8.5e-19  Score=166.32  Aligned_cols=163  Identities=17%  Similarity=0.282  Sum_probs=131.4

Q ss_pred             CCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCC-CC
Q 043643          166 APIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLS-SN  240 (634)
Q Consensus       166 ~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~-~~  240 (634)
                      .|+||+||||.||||.. .++.+|.++..+++.+.   ...|++||+|++.+...++|...  .++..+++.|+.+. .+
T Consensus         1 ~PlDivfliD~S~s~~~~~f~~~k~~v~~~i~~~~i~~~~~rv~vv~f~~~~~~~~~l~~~--~~~~~l~~~i~~l~~~g   78 (184)
T d1atza_           1 QPLDVILLLDGSSSFPASYFDEMKSFAKAFISKANIGPRLTQVSVLQYGSITTIDVPWNVV--PEKAHLLSLVDVMQREG   78 (184)
T ss_dssp             CCEEEEEEEECSSSSCHHHHHHHHHHHHHHHHHSCBSTTSEEEEEEEESSSEEEEECTTCC--CCHHHHHHHHHTCCCCC
T ss_pred             CceEEEEEEeCCCCCCHHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEEeccceeecccccc--ccHHHHHHHHHhhhhcc
Confidence            48999999999999999 99999999999999984   35599999999999999999743  35789999999986 45


Q ss_pred             CCCcHHHHHHHHHHHHHhhc---cCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCC
Q 043643          241 GGTNIVEGLKKGARVLEERR---ERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQ  317 (634)
Q Consensus       241 GgT~i~~aL~~A~~~l~~~~---~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~  317 (634)
                      |+|+++.||..+.+.+....   .++..+.+||||||.++...                 ....+.           .+.
T Consensus        79 g~t~~~~al~~~~~~~~~~~~g~R~~~~kvvvlltdg~~~d~~-----------------~~~a~~-----------lk~  130 (184)
T d1atza_          79 GPSQIGDALGFAVRYLTSEMHGARPGASKAVVILVTDVSVDSV-----------------DAAADA-----------ARS  130 (184)
T ss_dssp             CCCCHHHHHHHHHHHHHSCCTTCCTTSEEEEEEEECSCCSSCC-----------------HHHHHH-----------HHH
T ss_pred             cccchhhhhhHHHHHhhhhhcCCCCCCceEEEEEEecCccchh-----------------hHHHHH-----------HHH
Confidence            68999999999999886432   23456789999999876321                 111111           234


Q ss_pred             CCeeEEEEEccCCCChHHHHHHHhhcCC-eEEEcCChhhHHH
Q 043643          318 PTFPVHTFGFGLEHDSEAMHAIADASGG-TFSFIETLSILQD  358 (634)
Q Consensus       318 ~~i~I~t~G~G~~~d~~~L~~iA~~tgG-~~~~i~~~~~l~~  358 (634)
                      .+|.|++||+|.+.|...|+.||..+++ .++.+.+.++|..
T Consensus       131 ~gi~v~~igiG~~~~~~~L~~ias~~~~~~~~~~~~~~~L~~  172 (184)
T d1atza_         131 NRVTVFPIGIGDRYDAAQLRILAGPAGDSNVVKLQRIEDLPT  172 (184)
T ss_dssp             TTEEEEEEEESSSSCHHHHHHHTGGGGGGGCEEESSTTHHHH
T ss_pred             cCcEEEEEEeCCcCCHHHHHHHhCCCCcccEEEeCCHHHHHH
Confidence            6999999999999999999999986654 4577888888864

>d1ijba_ c.62.1.1 (A:) von Willebrand factor A1 domain, vWA1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: von Willebrand factor A1 domain, vWA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=2.1e-18  Score=166.06  Aligned_cols=179  Identities=16%  Similarity=0.171  Sum_probs=140.8

Q ss_pred             CCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCCC
Q 043643          165 RAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSN  240 (634)
Q Consensus       165 r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~~  240 (634)
                      ..|+||+||||.|+||.. .++.+|+++..+++.|.   .+.|++||+|++.++..++|...  .+++.+.+.|+.+...
T Consensus        11 ~~~~Dl~fvlD~S~S~~~~~f~~~k~fv~~~i~~l~~~~~~~rvavv~y~~~~~~~~~l~~~--~~~~~l~~~i~~l~~~   88 (202)
T d1ijba_          11 SRLLDLVFLLDGSSRLSEAEFEVLKAFVVDMMERLRVSQKWVRVAVVEYHDGSHAYIGLKDR--KRPSELRRIASQVKYA   88 (202)
T ss_dssp             CSCEEEEEEEECBTTSCHHHHHHHHHHHHHHHHTBCBSTTSEEEEEEEESSSEEEEECTTCC--CCHHHHHHHHHTCCCC
T ss_pred             CCCeeEEEEEeCCCCCCHHHHHHHHHHHHHHHHHhccCCCCcEEEEEEEecceeeecCCccc--chHHHHHHHHHhhhhh
Confidence            468999999999999988 89999999999999994   46799999999999999999843  4577899999998765


Q ss_pred             C--CCcHHHHHHHHHHHHHhhcc-CCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCC
Q 043643          241 G--GTNIVEGLKKGARVLEERRE-RSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQ  317 (634)
Q Consensus       241 G--gT~i~~aL~~A~~~l~~~~~-~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~  317 (634)
                      |  +|+++.||+.+.+.+..... ++..+.+||+|||.......                ..+...+.        ..+.
T Consensus        89 ~g~~~~~~~al~~~~~~~~~~~~r~~~~k~vivitdg~~~~~~~----------------~~~~~~~~--------~l~~  144 (202)
T d1ijba_          89 GSQVASTSEVLKYTLFQIFSKIDRPEASRIALLLMASQEPQRMS----------------RNFVRYVQ--------GLKK  144 (202)
T ss_dssp             CBSCCCHHHHHHHHHHHTSSSCSCTTSEEEEEEEECCCCCGGGC----------------TTHHHHHH--------HHHH
T ss_pred             hhccccHHHHHHHHHHHhhhhccCCCCcceEEEecccCCCcccc----------------hHHHHHHH--------HHHH
Confidence            4  48999999999877654332 35567789999998653211                11221111        1235


Q ss_pred             CCeeEEEEEccCCCChHHHHHHHhhcC-CeEEEcCChhhHHHHHHHHhhcccc
Q 043643          318 PTFPVHTFGFGLEHDSEAMHAIADASG-GTFSFIETLSILQDAFARCIGGLLS  369 (634)
Q Consensus       318 ~~i~I~t~G~G~~~d~~~L~~iA~~tg-G~~~~i~~~~~l~~~f~~~l~~l~s  369 (634)
                      .||.|+++|+|...+...|+.||..+. +.+|.+.+.++|.+.+.+++..+..
T Consensus       145 ~gv~i~~Vgig~~~~~~~L~~ia~~~~~~~~~~~~~~~~L~~~~~~i~~~iC~  197 (202)
T d1ijba_         145 KKVIVIPVGIGPHANLKQIRLIEKQAPENKAFVLSSVDELEQQRDEIVSYLCD  197 (202)
T ss_dssp             TTEEEEEEEESTTSCHHHHHHHHHHCTTCCCEEESSGGGHHHHHHHHHHHHHH
T ss_pred             cCCeEEEEEeCCcCCHHHHHHHhcCCCcCcEEEeCCHHHHHHHHHHHHHHHcC
Confidence            799999999999999999999998765 4567789999999988888776644

>d1mf7a_ c.62.1.1 (A:) Integrin alpha M (CR3, CD11b/CD18, Mac-1 alpha subunit) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Integrin alpha M (CR3, CD11b/CD18, Mac-1 alpha subunit)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=6.2e-19  Score=168.60  Aligned_cols=178  Identities=17%  Similarity=0.284  Sum_probs=134.6

Q ss_pred             CCCCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCCCC-eEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCC-C
Q 043643          164 DRAPIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSAD-RLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSS-N  240 (634)
Q Consensus       164 ~r~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~~d-rvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~-~  240 (634)
                      ++.|+|||||||.|+||.+ .++.+|+++..+++.|.+++ ||+||.|++.++..++|..  ..++..+++.|+.+.. +
T Consensus         2 ~~~~~DivfvlD~S~s~~~~~~~~~k~f~~~iv~~l~~~~~rv~vv~fs~~~~~~~~l~~--~~~~~~~~~~i~~i~~~~   79 (194)
T d1mf7a_           2 PQEDSDIAFLIDGSGSIIPHDFRRMKEFVSTVMEQLKKSKTLFSLMQYSEEFRIHFTFKE--FQNNPNPRSLVKPITQLL   79 (194)
T ss_dssp             CCCCEEEEEEEECCTTSCHHHHHHHHHHHHHHHHHHCCTTEEEEEEEESSSEEEEECHHH--HHHSCCHHHHHTTCCCCC
T ss_pred             CCCCeeEEEEEECCCCCCHHHHHHHHHHHHHHHHHcCcCCceEEEEEEeccceeEEeccc--cCCHHHHHHHHhhhhhhh
Confidence            3568999999999999998 99999999999999998754 9999999999999999873  3456789999999875 6


Q ss_pred             CCCcHHHHHHHHHHHHHhh---ccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCC
Q 043643          241 GGTNIVEGLKKGARVLEER---RERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQ  317 (634)
Q Consensus       241 GgT~i~~aL~~A~~~l~~~---~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~  317 (634)
                      |+|+++.||..+.+.+...   ..++..+.+||+|||.++.+...                 +...+.        .++.
T Consensus        80 ~~t~~~~al~~~~~~~~~~~~~~~~~~~kvvvliTDG~~~~~~~~-----------------~~~~~~--------~~~~  134 (194)
T d1mf7a_          80 GRTHTATGIRKVVRELFNITNGARKNAFKILVVITDGEKFGDPLG-----------------YEDVIP--------EADR  134 (194)
T ss_dssp             SCBCHHHHHHHHHHTTTSGGGTCCTTSEEEEEEEESSCCBSCSSC-----------------GGGTHH--------HHHH
T ss_pred             ccchHHHHHHHHHHHHHhhhccCCCCCceEEEEEecCCCCCCchh-----------------HHHHHH--------HHHH
Confidence            7899999999999876422   22344567999999987743221                 111111        1235


Q ss_pred             CCeeEEEEEccCCC----ChHHHHHHHhhcCC-eEEEcCChhhHHHHHHHHhhccc
Q 043643          318 PTFPVHTFGFGLEH----DSEAMHAIADASGG-TFSFIETLSILQDAFARCIGGLL  368 (634)
Q Consensus       318 ~~i~I~t~G~G~~~----d~~~L~~iA~~tgG-~~~~i~~~~~l~~~f~~~l~~l~  368 (634)
                      .+|.|++||+|...    +...|+.||....+ .+|.+++.+.|...+.++...+.
T Consensus       135 ~gv~i~~VGi~~~~~~~~~~~~L~~ias~~~~~~~~~~~~~~~L~~~~~~l~~~i~  190 (194)
T d1mf7a_         135 EGVIRYVIGVGDAFRSEKSRQELNTIASKPPRDHVFQVNNFEALKTIQNQLREKIF  190 (194)
T ss_dssp             TTEEEEEEEESGGGCSHHHHHHHHHHSCSSHHHHEEEESSGGGGGGGHHHHHHHHH
T ss_pred             cCCeeEEEecCCcccccccHHHHHHHhcCCCCCeEEEeCCHHHHHHHHHHHHHHhc
Confidence            78999999999654    34468888876544 46778998888776666655443

>d1n3ya_ c.62.1.1 (A:) Integrin alpha-x beta2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Integrin alpha-x beta2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.76  E-value=6.3e-19  Score=167.81  Aligned_cols=177  Identities=19%  Similarity=0.300  Sum_probs=134.1

Q ss_pred             CCceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCC-CCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCC-CCCC
Q 043643          166 APIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGS-ADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLS-SNGG  242 (634)
Q Consensus       166 ~p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~-~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~-~~Gg  242 (634)
                      ++.||+||||.|+||.. ++..+|+++..+++.|.+ +.||+||+|++.+...++|+.  ..+...+.+.|+.+. .+|+
T Consensus         1 qe~DivfvlD~S~Sm~~~~~~~~k~~~~~~i~~l~~~~~rv~vv~fs~~~~~~~~l~~--~~~~~~~~~~i~~~~~~~g~   78 (189)
T d1n3ya_           1 QEQDIVFLIDGSGSISSRNFATMMNFVRAVISQFQRPSTQFSLMQFSNKFQTHFTFEE--FRRSSNPLSLLASVHQLQGF   78 (189)
T ss_dssp             CCEEEEEEEECCTTSCHHHHHHHHHHHHHHHTTSCTTTEEEEEEEESSSEEEEECHHH--HHHCSSGGGGGTTCCCCCSC
T ss_pred             CCccEEEEEeCCCCCChHHHHHHHHHHHHHHHHhCCCCCEEEEEEeeccceeeccccc--cccHHHHHHHHHhhhhhhhh
Confidence            36799999999999998 899999999999999975 569999999999999999873  234556777788875 5789


Q ss_pred             CcHHHHHHHHHHHHHh-hc--cCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCC
Q 043643          243 TNIVEGLKKGARVLEE-RR--ERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPT  319 (634)
Q Consensus       243 T~i~~aL~~A~~~l~~-~~--~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~  319 (634)
                      |+++.||..+.+.+.. ..  .++..+.|||+|||.++.+...                 +...+.        .++..+
T Consensus        79 t~~~~al~~a~~~~f~~~~~~r~~~~kvivllTDG~~~~~~~~-----------------~~~~~~--------~~~~~g  133 (189)
T d1n3ya_          79 TYTATAIQNVVHRLFHASYGARRDAAKILIVITDGKKEGDSLD-----------------YKDVIP--------MADAAG  133 (189)
T ss_dssp             BCHHHHHHHHHTTTTSGGGTCCTTSEEEEEEEESSCCBSCSSC-----------------HHHHHH--------HHHHTT
T ss_pred             chHHHHHHHHHHHHhhhhcCCCCCCceEEEEEecCCCCCCccc-----------------HHHHHH--------HHHHCC
Confidence            9999999999876532 21  2344568999999988743221                 122111        123579


Q ss_pred             eeEEEEEccCC----CChHHHHHHHhhc-CCeEEEcCChhhHHHHHHHHhhcccc
Q 043643          320 FPVHTFGFGLE----HDSEAMHAIADAS-GGTFSFIETLSILQDAFARCIGGLLS  369 (634)
Q Consensus       320 i~I~t~G~G~~----~d~~~L~~iA~~t-gG~~~~i~~~~~l~~~f~~~l~~l~s  369 (634)
                      |.|++||+|..    .+...|+.||..+ ++.+|.+++.+.|.+.+.++...+.+
T Consensus       134 v~i~~Vgig~~~~~~~~~~~L~~ias~~~~~~~~~~~~~~~l~~i~~~i~~~ic~  188 (189)
T d1n3ya_         134 IIRYAIGVGLAFQNRNSWKELNDIASKPSQEHIFKVEDFDALKDIQNQLKEKIFA  188 (189)
T ss_dssp             CEEEEEEESGGGGSSTTHHHHHHHSCSSSGGGEEEESSGGGGGGGHHHHHHHHHT
T ss_pred             CceEEEeccccccccccHHHHHHHhcCCCcceEEEeCCHHHHHHHHHHHHHhccc
Confidence            99999999864    3455699999775 45677899999888877777666543

>d1mjna_ c.62.1.1 (A:) Integrin CD11a/CD18 (Leukocyte function associated antigen-1, LFA-1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Integrin CD11a/CD18 (Leukocyte function associated antigen-1, LFA-1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=1.3e-18  Score=164.17  Aligned_cols=165  Identities=16%  Similarity=0.205  Sum_probs=128.9

Q ss_pred             CceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCCCC-eEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCC-CCCC
Q 043643          167 PIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSAD-RLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSS-NGGT  243 (634)
Q Consensus       167 p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~~d-rvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~-~GgT  243 (634)
                      |+||+||||.|+||.. .++.+|+++..+++.+.+++ |+|||+|++.++..++|..  ..++..+++.|+.+.. +|+|
T Consensus         2 ~~DivfllD~S~Si~~~~f~~~k~f~~~~i~~i~~~~~rvgvv~fs~~~~~~~~l~~--~~~~~~~~~~i~~i~~~~g~t   79 (179)
T d1mjna_           2 NVDLVFLFDGSMSLQPDEFQKILDFMKDVMKKCSNTSYQFAAVQFSTSYKTEFDFSD--YVKRKDPDALLKHVKHMLLLT   79 (179)
T ss_dssp             CEEEEEEEECBTTCCHHHHHHHHHHHHHHHHHTTTSSEEEEEEEESSSEEEEECHHH--HHHHCCHHHHHTTCCCCCBCC
T ss_pred             CeEEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCceEEEEEEEeeeeeEEechhh--ccchHHHHHHHhhhhcccCcc
Confidence            7999999999999998 89999999999999998655 9999999999999999873  3567789999999864 7899


Q ss_pred             cHHHHHHHHHHHHH-hh--ccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCCe
Q 043643          244 NIVEGLKKGARVLE-ER--RERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPTF  320 (634)
Q Consensus       244 ~i~~aL~~A~~~l~-~~--~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~i  320 (634)
                      +++.||+.+.+.+- ..  ..++..+.|||||||.++.....                                +...++
T Consensus        80 ~~~~AL~~~~~~~f~~~~g~R~~~~kvvvllTDG~s~d~~~~--------------------------------~~~~~i  127 (179)
T d1mjna_          80 NTFGAINYVATEVFREELGARPDATKVLIIITDGEATDSGNI--------------------------------DAAKDI  127 (179)
T ss_dssp             CHHHHHHHHHHHTSSGGGTCCTTSEEEEEEEESSCCSSCSCC--------------------------------GGGTTS
T ss_pred             hHHHHHHHHHHHHhchhcCCCCCCCeEEEEEECCCCcccchH--------------------------------HHHhcC
Confidence            99999999987652 22  12345677899999987643210                                123688


Q ss_pred             eEEEEEccCCCC----hHHHHHHHhhcC-CeEEEcCChhhHHHHHHHHhh
Q 043643          321 PVHTFGFGLEHD----SEAMHAIADASG-GTFSFIETLSILQDAFARCIG  365 (634)
Q Consensus       321 ~I~t~G~G~~~d----~~~L~~iA~~tg-G~~~~i~~~~~l~~~f~~~l~  365 (634)
                      .++++|+|...+    ...|+.||..+. ..+|.+++.+.|.+.+.++..
T Consensus       128 ~~~~igvg~~~~~~~~~~~L~~ias~p~~~~~~~~~~~~~L~~i~~~l~~  177 (179)
T d1mjna_         128 IRYIIGIGKHFQTKESQETLHKFASKPASEFVKILDTFEKLKDLCTELQK  177 (179)
T ss_dssp             EEEEEEESGGGCSHHHHHTTGGGSCSCHHHHEEEESSGGGSCCHHHHHHH
T ss_pred             ccceEEecccccchhhHHHHHHHhCCCccceEEEcCCHHHHHHHHHHHHh
Confidence            999999997654    345888887653 456778998888766666543

>d1v7pc_ c.62.1.1 (C:) Integrin alpha2-beta1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Integrin alpha2-beta1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=5.8e-18  Score=161.61  Aligned_cols=173  Identities=17%  Similarity=0.213  Sum_probs=130.1

Q ss_pred             ceEEEEEeCCCCCCccHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCC--CCC
Q 043643          168 IDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSS--NGG  242 (634)
Q Consensus       168 ~dlv~VlD~SgSM~gkl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~--~Gg  242 (634)
                      +||+||||.|+||. .++.+|+++..+++.+.   .+.|++||.|++.++..++|...  .++..+.+.|+.+..  +|+
T Consensus         2 ~DivfvlD~S~Sv~-~f~~~k~f~~~ii~~~~i~~~~~rv~vv~fs~~~~~~~~l~~~--~~~~~~~~~i~~~~~~~g~~   78 (193)
T d1v7pc_           2 IDVVVVCDESNSIY-PWDAVKNFLEKFVQGLDIGPTKTQVGLIQYANNPRVVFNLNTY--KTKEEMIVATSQTSQYGGDL   78 (193)
T ss_dssp             EEEEEEEECCTTCC-CHHHHHHHHHHHHHTSCBSTTSEEEEEEEESSSEEEEECTTTC--SSHHHHHHHHHHCCCCCCSC
T ss_pred             EEEEEEEECCCCCc-cHHHHHHHHHHHHHHcccCCCccEEEEEEeecceeeeecccch--hhHHHHHHHHHhhhhhccCc
Confidence            69999999999996 78999999999999984   46799999999999999999843  346788888988743  457


Q ss_pred             CcHHHHHHHHHHHHHhhc---cCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCC
Q 043643          243 TNIVEGLKKGARVLEERR---ERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPT  319 (634)
Q Consensus       243 T~i~~aL~~A~~~l~~~~---~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~  319 (634)
                      |+++.||..|.+.+-...   .++..+.+||||||.++.+..               .....   .        .++..+
T Consensus        79 t~~~~AL~~a~~~~f~~~~~~R~~~~kvvVllTDG~s~d~~~---------------~~~~~---~--------~~~~~g  132 (193)
T d1v7pc_          79 TNTFGAIQYARKYAYSAASGGRRSATKVMVVVTDGESHDGSM---------------LKAVI---D--------QCNHDN  132 (193)
T ss_dssp             CCHHHHHHHHHHHTTSGGGTCCTTSEEEEEEEESSCCSCGGG---------------HHHHH---H--------HHHHTT
T ss_pred             cchHHHHHHHHHhccccccCCCCCCceEEEEEecCCcCCCcc---------------HHHHH---H--------HHHhCC
Confidence            999999999999874322   234457899999998764321               11111   1        123579


Q ss_pred             eeEEEEEccCCCC---------hHHHHHHHhhcCCe-EEEcCChhhHHHHHHHHhhcccc
Q 043643          320 FPVHTFGFGLEHD---------SEAMHAIADASGGT-FSFIETLSILQDAFARCIGGLLS  369 (634)
Q Consensus       320 i~I~t~G~G~~~d---------~~~L~~iA~~tgG~-~~~i~~~~~l~~~f~~~l~~l~s  369 (634)
                      |.+++||+|...+         ...|+.||..+.+. +|.+.|...|.+.+.++...+.+
T Consensus       133 v~v~~Igvg~~~~~~~~~~~~~~~~L~~Ias~p~~~~~f~v~d~~~L~~i~~~l~~~Ic~  192 (193)
T d1v7pc_         133 ILRFGIAVLGYLNRNALDTKNLIKEIKAIASIPTERYFFNVSDEAALLEKAGTLGEQIFS  192 (193)
T ss_dssp             EEEEEEEECHHHHHTTCCCHHHHHHHHHHSCSSHHHHEEEESSSGGGHHHHHHHHHHHHT
T ss_pred             CEEEEEEeCCccccccccccccHHHHHHHhcCCCcceEEEcCCHHHHHHHHHHHHhhccc
Confidence            9999999985432         34588898876555 56689998888777776655543

>d1pt6a_ c.62.1.1 (A:) Integrin alpha1-beta1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Integrin alpha1-beta1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=1.2e-17  Score=159.23  Aligned_cols=171  Identities=15%  Similarity=0.207  Sum_probs=128.7

Q ss_pred             ceEEEEEeCCCCCCccHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCCCC--C
Q 043643          168 IDLVTVLDVSGSMSSKLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSNG--G  242 (634)
Q Consensus       168 ~dlv~VlD~SgSM~gkl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~~G--g  242 (634)
                      +||+||||.|+||. .++.+|+++..+++.+.   .+.|++||.|++.+...++|...  .++..+...|+.+...|  +
T Consensus         2 ~DivfvlD~S~S~~-~~~~~k~f~~~~i~~~~i~~~~~rv~vv~fs~~~~~~~~l~~~--~~~~~~~~~i~~~~~~~g~~   78 (192)
T d1pt6a_           2 LDIVIVLDGSNSIY-PWDSVTAFLNDLLKRMDIGPKQTQVGIVQYGENVTHEFNLNKY--SSTEEVLVAAKKIVQRGGRQ   78 (192)
T ss_dssp             EEEEEEEECCTTCC-CHHHHHHHHHHHHTTSCBSTTSBEEEEEEESSSEEEEECTTTC--SSHHHHHHHHHTCCCCCCSS
T ss_pred             eEEEEEEECCCCCC-CHHHHHHHHHHHHHHhccCCCCcEEEEEEEeccEEEEEeCCcc--hhhHHHHHHHhhhhhhhhhc
Confidence            79999999999997 68899999999999885   35699999999999999999854  35788999999986543  5


Q ss_pred             CcHHHHHHHHHHHHHhhc---cCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHhhchhhhhccccccCCCC
Q 043643          243 TNIVEGLKKGARVLEERR---ERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLNLLPSSICLSKREAGQPT  319 (634)
Q Consensus       243 T~i~~aL~~A~~~l~~~~---~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~lv~~~i~~~~~~~~~~~  319 (634)
                      |+++.||..+.+.+....   .++..+.|||||||.++..                  ..+.....        .++..+
T Consensus        79 ~~~~~al~~~~~~~~~~~~g~R~~~~kviillTDG~~~d~------------------~~~~~~a~--------~lk~~g  132 (192)
T d1pt6a_          79 TMTALGTDTARKEAFTEARGARRGVKKVMVIVTDGESHDN------------------HRLKKVIQ--------DCEDEN  132 (192)
T ss_dssp             CCHHHHHHHHHHTTTSGGGTCCTTCEEEEEEEESSCCSCS------------------HHHHHHHH--------HHHHTT
T ss_pred             cchHHHHHHHHHhhhccccCCCCCcceEEEEEecCCCCcc------------------hhhHHHHH--------HHHHCC
Confidence            789999999987654322   2345578999999987632                  12222221        234579


Q ss_pred             eeEEEEEccCCCC---------hHHHHHHHhhcC-CeEEEcCChhhHHHHHHHHhhcc
Q 043643          320 FPVHTFGFGLEHD---------SEAMHAIADASG-GTFSFIETLSILQDAFARCIGGL  367 (634)
Q Consensus       320 i~I~t~G~G~~~d---------~~~L~~iA~~tg-G~~~~i~~~~~l~~~f~~~l~~l  367 (634)
                      |.|++||+|...+         ...|+.||..+. ..+|.+.|...|...+..+...+
T Consensus       133 i~v~~igvg~~~~~~~~~~~~~~~~L~~IAs~p~~~~~f~v~d~~~L~~i~~~i~~~I  190 (192)
T d1pt6a_         133 IQRFSIAILGSYNRGNLSTEKFVEEIKSIASEPTEKHFFNVSDELALVTIVKTLGERI  190 (192)
T ss_dssp             EEEEEEEECHHHHHTTCCCHHHHHHHHHHSCSSHHHHEEEESSGGGGGGGHHHHHHHH
T ss_pred             CeEEEEEEecccccccccccccHHHHHHHhcCCCcccEEEcCCHHHHHHHHHHHHHHh
Confidence            9999999996543         345899987654 44678999988877776665543

>d1jeya2 c.62.1.3 (A:34-253) Ku70 subunit N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Ku70 subunit N-terminal domain
domain: Ku70 subunit N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.58  E-value=1.8e-15  Score=146.62  Aligned_cols=172  Identities=12%  Similarity=0.117  Sum_probs=109.4

Q ss_pred             EEEEEeCCCCCCc--------cHHHHHHHHHHHHHhc---CCCCeEEEEEeCCCcE----------EEEcCcccCHHHHH
Q 043643          170 LVTVLDVSGSMSS--------KLPLLKRAVHFIIQNL---GSADRLSIVIFSSVAR----------RIFPLQRMTDSGRE  228 (634)
Q Consensus       170 lv~VlD~SgSM~g--------kl~~~K~al~~li~~L---~~~drvsIV~Fs~~a~----------~~~pl~~~t~~~~~  228 (634)
                      ||||||+||||..        +++.+++++..++..+   .++|+|+||.|++.+.          .+.++.........
T Consensus         5 ivf~ID~S~SM~~~d~~~~~s~~~~~~~~~~~~~~~~i~~~~~d~vglv~f~t~~~~~~~~~~~~~~~~~l~~~~~~~~~   84 (220)
T d1jeya2           5 LIFLVDASKAMFESQSEDELTPFDMSIQCIQSVYISKIISSDRDLLAVVFYGTEKDKNSVNFKNIYVLQELDNPGAKRIL   84 (220)
T ss_dssp             EEEEEECSGGGGCCCSSSSCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCCTTEEEEEEEECCCHHHHH
T ss_pred             EEEEEECCcccCccccCCCCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEEeccccccCCCcccchhhhhcccCchHHHHH
Confidence            9999999999942        7888899888888776   7899999999998763          44555544433222


Q ss_pred             HH---------HHHHhcCCCCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHH
Q 043643          229 NA---------IRAINTLSSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELA  299 (634)
Q Consensus       229 ~~---------~~~I~~l~~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~  299 (634)
                      .+         ..........|+|++..||..|.++|.....+...+.|||||||.++.+...               ..
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~t~l~~al~~a~~~~~~~~~~~~~k~IiliTDg~~~~~~~~---------------~~  149 (220)
T d1jeya2          85 ELDQFKGQQGQKRFQDMMGHGSDYSLSEVLWVCANLFSDVQFKMSHKRIMLFTNEDNPHGNDS---------------AK  149 (220)
T ss_dssp             HHHTTSHHHHHHHHHHHHCCSCCCCHHHHHHHHHHHHHTCSSCEEEEEEEEEESCSCTTTTCH---------------HH
T ss_pred             hhhhhhhhhhhhhhhhcccCCCCccHHHHHHHHHHHHHhcccccCCcEEEEEecCCCCCCCcc---------------hh
Confidence            11         1222223567999999999999999987654545578999999998765332               12


Q ss_pred             HHhhchhhhhccccccCCCCeeEEEEEccCCCC-------hHHHHHHHhhcCCeEEEcCChhhHHHHHHHH
Q 043643          300 YLNLLPSSICLSKREAGQPTFPVHTFGFGLEHD-------SEAMHAIADASGGTFSFIETLSILQDAFARC  363 (634)
Q Consensus       300 ~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~~d-------~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~  363 (634)
                      ...++. ..    ......++.|++||+|...+       ..++........+.|  +++...|.+.+.++
T Consensus       150 ~~~~~~-~a----~~~~~~gv~i~~i~ig~~~~~d~~~f~~~~l~~~~~~~~~~~--~~~~~~l~~l~~~i  213 (220)
T d1jeya2         150 ASRART-KA----GDLRDTGIFLDLMHLKKPGGFDISLFYRDIISIAEDEDLRVH--FEESSKLEDLLRKV  213 (220)
T ss_dssp             HHHHHH-HH----HHHHHHTEEEEEEEBCCTTCCCTTTTGGGTCC--------CC--CCCBCSHHHHHHHH
T ss_pred             hHHHHH-HH----HHHhhhcceEEEEEeCCCCCcchhhhHHHHHhhcccccCccc--cCchhhHHHHHHHH
Confidence            222211 01    12345799999999986432       223333333333433  45556676655554

>d1jeyb2 c.62.1.4 (B:6-241) Ku80 subunit N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Ku80 subunit N-terminal domain
domain: Ku80 subunit N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.42  E-value=8.8e-13  Score=128.58  Aligned_cols=133  Identities=13%  Similarity=0.135  Sum_probs=95.0

Q ss_pred             eEEEEEeCCCCCCc-------cHHHHHHHHHHHHHhc---CCCCeEEEEEeCCCcE--------------EEEcCcccCH
Q 043643          169 DLVTVLDVSGSMSS-------KLPLLKRAVHFIIQNL---GSADRLSIVIFSSVAR--------------RIFPLQRMTD  224 (634)
Q Consensus       169 dlv~VlD~SgSM~g-------kl~~~K~al~~li~~L---~~~drvsIV~Fs~~a~--------------~~~pl~~~t~  224 (634)
                      .||||||+|+||..       ||+.+|+++..+++.+   .++|+||||.|++.+.              .+.++...  
T Consensus         4 aiv~~lD~S~SM~~~~~~~~srl~~ak~~~~~~v~~~~~~~~~d~vglV~f~~~~t~~~~~~~~~~~~i~~~~~~~~~--   81 (236)
T d1jeyb2           4 AVVLCMDVGFTMSNSIPGIESPFEQAKKVITMFVQRQVFAENKDEIALVLFGTDGTDNPLSGGDQYQNITVHRHLMLP--   81 (236)
T ss_dssp             EEEEEEECCGGGGCCBTTBCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCTTTCSTTEEEEEEEECC--
T ss_pred             eEEEEEECChhhccCCCCCCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEcCCCcccccccccccceEEEEeccccc--
Confidence            48999999999974       7999999999999887   6899999999998864              33344321  


Q ss_pred             HHHHHHHHHHhcC--CCCCCCcHHHHHHHHHHHHHhhcc--CCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHH
Q 043643          225 SGRENAIRAINTL--SSNGGTNIVEGLKKGARVLEERRE--RSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAY  300 (634)
Q Consensus       225 ~~~~~~~~~I~~l--~~~GgT~i~~aL~~A~~~l~~~~~--~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~  300 (634)
                       ... ....+..+  ..++.|+++.||..|++.+.....  +...+.|||||||.++.+..                 .+
T Consensus        82 -~~~-~~~~~~~~~~~~~~~~~~~~al~~a~~~~~~~~~~~~~~~r~IiL~TDG~~~~~~~-----------------~~  142 (236)
T d1jeyb2          82 -DFD-LLEDIESKIQPGSQQADFLDALIVSMDVIQHETIGKKFEKRHIEIFTDLSSRFSKS-----------------QL  142 (236)
T ss_dssp             -CHH-HHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHHSSSSCCSEEEEEEECCCCSCCCCT-----------------TH
T ss_pred             -hhh-HHHHHhhhccccccccchhHHHHHHHHHHHHhhhcccccccEEEEEecCCCCcChH-----------------HH
Confidence             122 33333332  344579999999999999976543  33457899999998876432                 12


Q ss_pred             HhhchhhhhccccccCCCCeeEEEEEccCC
Q 043643          301 LNLLPSSICLSKREAGQPTFPVHTFGFGLE  330 (634)
Q Consensus       301 ~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~  330 (634)
                      ..++.        .++..+|.|++||+|..
T Consensus       143 ~~~a~--------~l~~~~I~i~~ig~g~~  164 (236)
T d1jeyb2         143 DIIIH--------SLKKCDISLQFFLPFSL  164 (236)
T ss_dssp             HHHHH--------HHHHTTEEEEEEESSCC
T ss_pred             HHHHH--------HHHHcCCEEEEEecCCc
Confidence            22222        12357899999999864

>d1yvra2 c.62.1.5 (A:364-537) 60-kda SS-A/Ro ribonucleoprotein, RoRNP {African clawed frog (Xenopus laevis) [TaxId: 8355]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: RoRNP C-terminal domain-like
domain: 60-kda SS-A/Ro ribonucleoprotein, RoRNP
species: African clawed frog (Xenopus laevis) [TaxId: 8355]

Probab=99.36  E-value=1.9e-12  Score=120.60  Aligned_cols=106  Identities=14%  Similarity=0.175  Sum_probs=78.2

Q ss_pred             CCceEEEEEeCCCCCCc-----cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCcccCHHHHHHHHHHHhcCCCC
Q 043643          166 APIDLVTVLDVSGSMSS-----KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQRMTDSGRENAIRAINTLSSN  240 (634)
Q Consensus       166 ~p~dlv~VlD~SgSM~g-----kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~~~t~~~~~~~~~~I~~l~~~  240 (634)
                      .+.+++|+||+||||.+     ++..++.++...+..+.++++++||+|++.+.. ++++  .......+.+.+... .+
T Consensus         4 ~g~~~vl~iD~SGSM~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~vv~F~~~~~~-~~~~--~~~~~~~~~~~~~~~-~~   79 (174)
T d1yvra2           4 TGKRFLLAIDVSASMNQRVLGSILNASVVAAAMCMLVARTEKDSHMVAFSDEMLP-CPIT--VNMLLHEVVEKMSDI-TM   79 (174)
T ss_dssp             CCCCEEEEEECSGGGGSBSTTSSCBHHHHHHHHHHHHHHHCSSEEEEEESSSEEC-CSCC--TTSCHHHHHHHHTTC-CC
T ss_pred             CCCeEEEEEECccccCCcccCccHHHHHHHHHHHHHhhccCCcEEEEEecCCccc-cccC--ccchHHHHHHHhhcc-cc
Confidence            46789999999999963     677777777777777888999999999998643 3444  223345555556544 57


Q ss_pred             CCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCC
Q 043643          241 GGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVL  281 (634)
Q Consensus       241 GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~  281 (634)
                      |||+++.+|..+.+.      ......|||||||+.+.+..
T Consensus        80 ggT~i~~al~~a~~~------~~~~~~ivllTDg~~~~g~~  114 (174)
T d1yvra2          80 GSTDCALPMLWAQKT------NTAADIFIVFTDCETNVEDV  114 (174)
T ss_dssp             SCCCTTHHHHHHHHT------TCCCSEEEEEECCCCCSSSC
T ss_pred             ccccHHHHHHHHHhh------hccCCEEEEEeCCCccCCCC
Confidence            899999999887542      22345699999999887654

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.21  E-value=1.6e-12  Score=95.59  Aligned_cols=50  Identities=24%  Similarity=0.678  Sum_probs=41.3

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.|..++ ..++..+|||.||..|+..|++..+..||+||++|.+
T Consensus         2 eCpICl~~~~~~~-~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDD-INFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGG-TTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCC-ceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            5999999997632 3345568999999999999998767789999998764

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.19  E-value=5.2e-12  Score=97.39  Aligned_cols=53  Identities=21%  Similarity=0.550  Sum_probs=43.0

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccC
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDV   53 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~   53 (634)
                      .+||||++.+..+.....+..+|||.||..||..|+..+...||+||++++..
T Consensus         4 ~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~   56 (65)
T d1g25a_           4 QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKS   56 (65)
T ss_dssp             TCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSC
T ss_pred             CCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCcccc
Confidence            37999999876544555667899999999999999976666899999986543

>d1tyeb2 c.62.1.1 (B:107-354) Integrin beta A domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Integrin beta A domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.17  E-value=2.5e-10  Score=112.11  Aligned_cols=186  Identities=12%  Similarity=0.092  Sum_probs=116.4

Q ss_pred             CCceEEEEEeCCCCCCccHHHHHHHHHHHHHhc---CCCCeEEEEEeCCCc-----------------------------
Q 043643          166 APIDLVTVLDVSGSMSSKLPLLKRAVHFIIQNL---GSADRLSIVIFSSVA-----------------------------  213 (634)
Q Consensus       166 ~p~dlv~VlD~SgSM~gkl~~~K~al~~li~~L---~~~drvsIV~Fs~~a-----------------------------  213 (634)
                      -|+||+||+|.||||...|+.+|.++..+++.|   .++.|++++.|.+..                             
T Consensus         4 yPvDl~Fv~D~TgSM~~~i~~vk~~i~~i~~~l~~~~~~~r~g~~~f~D~~~~p~~~~~~~~~~~~p~~~~~~~~~~~f~   83 (248)
T d1tyeb2           4 YPVDIYYLMDLSYSMKDDLWSIQNLGTKLATQMRKLTSNLRIGFGAFVDKPVSPYMYISPPEALENPCYDMKTTCLPMFG   83 (248)
T ss_dssp             CCEEEEEEEECSGGGGGGHHHHHHHHHHHHHHHHHHCSCEEEEEEEECCCSSTTTSCCCSGGGGTCGGGGGTSCCCCCCS
T ss_pred             CCeeEEEEEECCcCHHHHHHHHHHHHHHHHHHHHhhCcCceEEEEEEEecccCccccccchhhccCcccccccccccccc
Confidence            499999999999999999999999998887765   578899999998752                             


Q ss_pred             -EEEEcCcccCHHHHHHHHHHHhcCCCCCCCcH----HHHHHHHHHHHHhhcc-CCCCcEEEEEeCCCCCCCCCCC----
Q 043643          214 -RRIFPLQRMTDSGRENAIRAINTLSSNGGTNI----VEGLKKGARVLEERRE-RSPVASIILLSDGQDTHNVLRN----  283 (634)
Q Consensus       214 -~~~~pl~~~t~~~~~~~~~~I~~l~~~GgT~i----~~aL~~A~~~l~~~~~-~~~~~~IILlTDG~~~~g~~~~----  283 (634)
                       +.+++++    .+...+.+.|+.+.+.||.+.    ..||..++.-.....+ ++..+.|||+||+.+.......    
T Consensus        84 ~~~~~~~t----~d~~~f~~~l~~~~~~GggD~pE~~~~Al~~a~~~~~~i~Wr~~a~r~viliTDA~~H~~~d~~l~g~  159 (248)
T d1tyeb2          84 YKHVLTLT----DQVTRFNEEVKKQSVSRNRDAPEGGFDAIMQATVCDEKIGWRNDASHLLVFTTDAKTHIALDGRLAGI  159 (248)
T ss_dssp             EEEEEEEE----SCHHHHHHHHTTCCCCCCSSSSBCHHHHHHHHHHCHHHHTCCTTSEEEEEEEESSCBCCTTGGGGGTC
T ss_pred             ceecCCCC----CCHHHHHHHHhheecccCCCCcchHHHHHHHHHHHhhhCCCCCCccEEEEEECCCCcccccccccccc
Confidence             1234555    467889999999999988875    4555544432222222 3455779999999776422110    


Q ss_pred             ---ccccccc-CCCC---------CCHHHHHhhchhhhhccccccCCCCeeEEEEEccCCCChHHHHHHHhhcCCeEEEc
Q 043643          284 ---SYTQDEA-SSIP---------SNELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLEHDSEAMHAIADASGGTFSFI  350 (634)
Q Consensus       284 ---~~~~~~~-~~~~---------~~~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~~d~~~L~~iA~~tgG~~~~i  350 (634)
                         ....... ..+.         .....+.+.           ....+|.++ |.+- .......+.|++..+|.+..+
T Consensus       160 ~~~~d~~~~~~~~~~~~~~~~~dyps~~ql~~~-----------l~~~~i~~i-favt-~~~~~~Y~~l~~~~~g~~~~~  226 (248)
T d1tyeb2         160 VQPNDGQCHVGSDNHYSASTTMDYPSLGLMTEK-----------LSQKNINLI-FAVT-ENVVNLYQNYSELIPGTTVGV  226 (248)
T ss_dssp             CSCCCCCCCBCTTSBBGGGGTSCCCCHHHHHHH-----------HHHTTEEEE-EEEC-GGGHHHHHHHHHTSTTCEEEE
T ss_pred             cccCCCccccCCCCcccccccccCCCHHHHHHH-----------HHHhCcEEE-EEEC-chhhHHHHHHHHhcCCcEEEE
Confidence               0000000 0000         001112211           123466543 3343 233568899999998887765


Q ss_pred             --CChhhHHHHHHHHhhccc
Q 043643          351 --ETLSILQDAFARCIGGLL  368 (634)
Q Consensus       351 --~~~~~l~~~f~~~l~~l~  368 (634)
                        .+..++.+.+.+....|.
T Consensus       227 l~~dssNi~~lI~~~y~~i~  246 (248)
T d1tyeb2         227 LSMDSSNVLQLIVDAYGKIR  246 (248)
T ss_dssp             CSSCCHHHHHHHHHHHHTCC
T ss_pred             ecccchhHHHHHHHHHHHHh
Confidence              345666666665555544

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=99.17  E-value=5.2e-12  Score=93.77  Aligned_cols=48  Identities=33%  Similarity=0.821  Sum_probs=38.7

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccc
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEW   50 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~   50 (634)
                      ..|+||++.|..++. ......|+|.||..||..|++. +.+||+||+++
T Consensus         6 ~~C~ICl~~~~~~~~-~~~l~~C~H~Fh~~Ci~~Wl~~-~~~CP~CR~~i   53 (55)
T d1iyma_           6 VECAVCLAELEDGEE-ARFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTV   53 (55)
T ss_dssp             CCCTTTCCCCCTTSC-CEECSSSCCEECTTHHHHTTTT-CCSCSSSCCCS
T ss_pred             CCCeEECccccCCCE-EEEeCCCCCcccHHHHHHHHHh-CCcCCCCCCEe
Confidence            369999999987433 2333579999999999999987 56899999874

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.15  E-value=9.7e-12  Score=100.88  Aligned_cols=50  Identities=26%  Similarity=0.535  Sum_probs=43.4

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccCCCC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDVPFQ   56 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p~~   56 (634)
                      +|+||++.+.+     +++++|||.||..||..|++.+...||.||.++....+.
T Consensus        25 ~C~IC~~~~~~-----pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~   74 (86)
T d1rmda2          25 SCQICEHILAD-----PVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLE   74 (86)
T ss_dssp             BCTTTCSBCSS-----EEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCB
T ss_pred             CCccCCcchhc-----ceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhcc
Confidence            69999999988     889999999999999999976567899999987655443

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=99.14  E-value=7.8e-12  Score=97.38  Aligned_cols=47  Identities=30%  Similarity=0.820  Sum_probs=39.8

Q ss_pred             CCccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            1 KTCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         1 ~~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      +.|+||++.+..    .++.++|||.||..||..|++. +..||+||+++..
T Consensus         6 d~C~IC~~~~~~----~~~~~~C~H~Fc~~Ci~~w~~~-~~~CP~CR~~i~~   52 (68)
T d1chca_           6 ERCPICLEDPSN----YSMALPCLHAFCYVCITRWIRQ-NPTCPLCKVPVES   52 (68)
T ss_dssp             CCCSSCCSCCCS----CEEETTTTEEESTTHHHHHHHH-SCSTTTTCCCCCC
T ss_pred             CCCccCCcCccC----CcEEeCCCCcCcHHHHHHHHHh-CCcCCCCCcchHh
Confidence            579999999865    2566899999999999999987 5589999987653

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.11  E-value=1.9e-11  Score=97.94  Aligned_cols=47  Identities=28%  Similarity=0.688  Sum_probs=41.5

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCcccccccccC
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKDV   53 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~   53 (634)
                      .|+||++.+..     ++.++|||.||..||..|+..+...||+||..+...
T Consensus        25 ~C~IC~~~~~~-----~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~   71 (79)
T d1fbva4          25 LCKICAENDKD-----VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT   71 (79)
T ss_dssp             BCTTTSSSBCC-----EECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCC
T ss_pred             CCccCCCcCCC-----eEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCC
Confidence            59999999987     888999999999999999986566899999987643

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.08  E-value=5.7e-11  Score=102.45  Aligned_cols=55  Identities=29%  Similarity=0.595  Sum_probs=42.1

Q ss_pred             CCccccccccccC-------------CcceeEecCCCCccchhhHHHHHhcC----CCcCcccccccccCCC
Q 043643            1 KTCPICLGSLRRG-------------QGVAIFTAECSHSFHFCCIAANVQHG----NRICPICRCEWKDVPF   55 (634)
Q Consensus         1 ~~C~ICl~~~~~~-------------~~~~~~~~~C~H~Fh~~Ci~~w~~~~----~~~CP~Cr~~~~~~p~   55 (634)
                      +.|+||++.|...             .......++|+|.||..||..|+...    +.+||+||+.|.....
T Consensus        26 ~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~~~   97 (114)
T d1v87a_          26 EDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTG   97 (114)
T ss_dssp             CEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSS
T ss_pred             ccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccCcC
Confidence            4699999998532             12345668999999999999999742    3479999999866543

>d2qtva3 c.62.1.2 (A:120-390) Sec23 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Trunk domain of Sec23/24
domain: Sec23
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.05  E-value=1.7e-09  Score=107.50  Aligned_cols=194  Identities=14%  Similarity=0.135  Sum_probs=130.6

Q ss_pred             CceEEEEEeCCCCCCc-cHHHHHHHHHHHHHhcCCCCeEEEEEeCCCcEEEEcCc--------------cc---------
Q 043643          167 PIDLVTVLDVSGSMSS-KLPLLKRAVHFIIQNLGSADRLSIVIFSSVARRIFPLQ--------------RM---------  222 (634)
Q Consensus       167 p~dlv~VlD~SgSM~g-kl~~~K~al~~li~~L~~~drvsIV~Fs~~a~~~~pl~--------------~~---------  222 (634)
                      |.-+|||||+|.  .. .+..+|+++...++.|+++.|||||+|++.+...- +.              ..         
T Consensus         2 Pp~yvFvIDvs~--~a~~~~~l~~~l~~~l~~lp~~~~VgiITfd~~v~~y~-l~~~~~~~~~v~~g~~~~~~~~~~~~~   78 (271)
T d2qtva3           2 PPIFFFVVDLTS--ETENLDSLKESIITSLSLLPPNALIGLITYGNVVQLHD-LSSETIDRCNVFRGDREYQLEALTEML   78 (271)
T ss_dssp             CCEEEEEEECCS--CHHHHHHHHHHHHHHHTTSCTTCEEEEEEESSEEEEEE-CSCSSCCEEEEEESSSCCCHHHHHHHH
T ss_pred             CCEEEEEEECCc--cHHHHHHHHHHHHHHHHhCCCCCEEEEEEECCEEEEEE-CCCCcCccceeccCccccCHHHHHHHh
Confidence            677999999974  45 89999999999999999999999999988654321 10              00         


Q ss_pred             ---------------------------------CHHHHHHHHHHHhcCCCC---------CCCcHHHHHHHHHHHHHhhc
Q 043643          223 ---------------------------------TDSGRENAIRAINTLSSN---------GGTNIVEGLKKGARVLEERR  260 (634)
Q Consensus       223 ---------------------------------t~~~~~~~~~~I~~l~~~---------GgT~i~~aL~~A~~~l~~~~  260 (634)
                                                       -...+..+...|+.|...         .+..++.||..|..+|+.. 
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~l~~~~e~~~~i~~lL~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~-  157 (271)
T d2qtva3          79 TGQKPTGPGGAASHLPNAMNKVTPFSLNRFFLPLEQVEFKLNQLLENLSPDQWSVPAGHRPLRATGSALNIASLLLQGC-  157 (271)
T ss_dssp             HCCC-----------------CCTTCGGGGSEEHHHHHHHHHHHHHHCCCCCCCCCTTBCCCCCHHHHHHHHHHHHHHH-
T ss_pred             hccccccccccccccccccccccCCccccccccHHHHHHHHHHHHHHhccCcccCCCCCCcccchHHHHHHHHHHHHhh-
Confidence                                             013456777778777432         3568999999999999754 


Q ss_pred             cCCCCcEEEEEeCCCCCCCCCCCcccccccCCCCCCHHHHHh----h---chhhhhccccccCCCCeeEEEEEccCCC-C
Q 043643          261 ERSPVASIILLSDGQDTHNVLRNSYTQDEASSIPSNELAYLN----L---LPSSICLSKREAGQPTFPVHTFGFGLEH-D  332 (634)
Q Consensus       261 ~~~~~~~IILlTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~----l---v~~~i~~~~~~~~~~~i~I~t~G~G~~~-d  332 (634)
                      ..+....|++++.|.+|.|.+.-..+......  ....++.+    +   ..+.++..+.++...+|.|+.|.+..+. +
T Consensus       158 ~~~~gGkI~~F~sg~pt~GpG~l~~r~~~~~~--rs~~d~~k~~~~~~~~a~~fY~~la~~~~~~~isvDlF~~s~~~~d  235 (271)
T d2qtva3         158 YKNIPARIILFASGPGTVAPGLIVNSELKDPL--RSHHDIDSDHAQHYKKACKFYNQIAQRVAANGHTVDIFAGCYDQIG  235 (271)
T ss_dssp             CTTSCEEEEEEESSCCCSSSSCSSCSBTTSCC--CCHHHHHTTCCTTHHHHHHHHHHHHHHHHHHTEEEEEEEECSSCCS
T ss_pred             ccCCCcEEEEEeCCCCCCCCcccccccccccc--CCccchhhhhhhhhhhHHHHHHHHHHHHHHCCeEEEEEEecCccCC
Confidence            23445679999999999988754222111000  00011100    0   0011222223445678999999887654 7


Q ss_pred             hHHHHHHHhhcCCeEEEcCChhhHHHHHHHHhhccc
Q 043643          333 SEAMHAIADASGGTFSFIETLSILQDAFARCIGGLL  368 (634)
Q Consensus       333 ~~~L~~iA~~tgG~~~~i~~~~~l~~~f~~~l~~l~  368 (634)
                      -..|..++..|||..++.++++.  +.|.+.+..++
T Consensus       236 l~~l~~l~~~TGG~v~~~~~F~~--~~f~~~l~r~~  269 (271)
T d2qtva3         236 MSEMKQLTDSTGGVLLLTDAFST--AIFKQSYLRLF  269 (271)
T ss_dssp             HHHHTHHHHTTTCCEEEESCTTS--HHHHHHHHHTT
T ss_pred             hHHHHhHHhhCCceEEEeCCcCH--HHHHHHHHHHh
Confidence            88999999999999999998864  34666655443

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.04  E-value=5.4e-11  Score=97.46  Aligned_cols=51  Identities=27%  Similarity=0.718  Sum_probs=41.2

Q ss_pred             CCccccccccccC-------------CcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            1 KTCPICLGSLRRG-------------QGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         1 ~~C~ICl~~~~~~-------------~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      +.|+||++.+...             ....++.++|+|.||..||..|++. +.+||+||++|..
T Consensus        22 d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~~~   85 (88)
T d3dplr1          22 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWEF   85 (88)
T ss_dssp             CCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT-CSBCSSSCSBCCE
T ss_pred             CcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHH-CCcCCCCCCcccc
Confidence            5799999988542             1224667899999999999999987 5689999999864

>d1pd0a3 c.62.1.2 (A:301-552) Sec24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Trunk domain of Sec23/24
domain: Sec24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.01  E-value=7.5e-10  Score=108.93  Aligned_cols=184  Identities=15%  Similarity=0.124  Sum_probs=118.4

Q ss_pred             CCceEEEEEeCCCC-CCc-cHHHHHHHHHHHHHhcC---CCCeEEEEEeCCCcEEEE---------------------cC
Q 043643          166 APIDLVTVLDVSGS-MSS-KLPLLKRAVHFIIQNLG---SADRLSIVIFSSVARRIF---------------------PL  219 (634)
Q Consensus       166 ~p~dlv~VlD~SgS-M~g-kl~~~K~al~~li~~L~---~~drvsIV~Fs~~a~~~~---------------------pl  219 (634)
                      .|.-++||||+|.. ... -++.+++++...++.+.   ++.|||||+|++.+...-                     .+
T Consensus         2 ~Pp~~vFvID~s~~a~~~g~l~~~~~si~~~l~~l~~~~~~~~VgiItf~~~V~~y~l~~~~~~~~~~~~~~~~~~~~dl   81 (252)
T d1pd0a3           2 PPATYCFLIDVSQSSIKSGLLATTINTLLQNLDSIPNHDERTRISILCVDNAIHYFKIPLDSENNEESADQINMMDIADL   81 (252)
T ss_dssp             CCCBEEEEEECSHHHHHHTHHHHHHHHHHTTTTTSCCTTSCCEECEEEESSSEEEEECCCGGGC-------CEEECCCCT
T ss_pred             CCCEEEEEEECCHHHhhhhHHHHHHHHHHHHHHhCcCCCCCcEEEEEEECCEEEEEEccCCccccccccccccccchhhh
Confidence            57889999999832 222 68889999988888876   678999999998764320                     01


Q ss_pred             ----ccc-------CHHHHHHHHHHHhcC------CCCCCCcHHHHHHHHHHHHHhhccCCCCcEEEEEeCCCCCCCCCC
Q 043643          220 ----QRM-------TDSGRENAIRAINTL------SSNGGTNIVEGLKKGARVLEERRERSPVASIILLSDGQDTHNVLR  282 (634)
Q Consensus       220 ----~~~-------t~~~~~~~~~~I~~l------~~~GgT~i~~aL~~A~~~l~~~~~~~~~~~IILlTDG~~~~g~~~  282 (634)
                          .++       -.+.+..+.+.|+.|      ...+++.++.||..|..+|+..     ...|+++++|.+|.|.+.
T Consensus        82 ~~~~~p~~~~~lv~~~e~~~~i~~~L~~l~~~~~~~~~~~~~~G~Al~~a~~~l~~~-----gGkI~~f~sg~pt~GpG~  156 (252)
T d1pd0a3          82 EEPFLPRPNSMVVSLKACRQNIETLLTKIPQIFQSNLITNFALGPALKSAYHLIGGV-----GGKIIVVSGTLPNLGIGK  156 (252)
T ss_dssp             TCC-----TTTSEETTTTHHHHHHHHHHHHHHTTTCCCCCCCHHHHHHHHHHHHTTT-----CEEEEEEESSCCCSSTTC
T ss_pred             hhccCCCCccceeeHHHHHHHHHHHHHhChhhcccCCCCcccHHHHHHHHHHHHhcC-----CCEEEEEecCCCCCCCcc
Confidence                000       123455666666665      2346889999999999999643     356999999999998775


Q ss_pred             CcccccccCCCCCC-HHHHHhhchhhhhccccccCCCCeeEEEEEccCC-CChHHHHHHHhhcCCeEEEcCChh
Q 043643          283 NSYTQDEASSIPSN-ELAYLNLLPSSICLSKREAGQPTFPVHTFGFGLE-HDSEAMHAIADASGGTFSFIETLS  354 (634)
Q Consensus       283 ~~~~~~~~~~~~~~-~~~~~~lv~~~i~~~~~~~~~~~i~I~t~G~G~~-~d~~~L~~iA~~tgG~~~~i~~~~  354 (634)
                      ...+.........+ ...+..-..+.++..+..+...+|.|+.|.++.+ .|-..|..+++.|||..++.++.+
T Consensus       157 l~~r~~~~~~~~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlF~~~~~~~dl~~l~~l~~~TGG~~~~y~~f~  230 (252)
T d1pd0a3         157 LQRRNESGVVNTSKETAQLLSCQDSFYKNFTIDCSKVQITVDLFLASEDYMDVASLSNLSRFTAGQTHFYPGFS  230 (252)
T ss_dssp             CCC--------------------CCHHHHHHHHHTTTTEEEEEEEEESBCCCHHHHHHHHHTTTCCEEEEETCC
T ss_pred             cccccccccccCcccchhcccchHHHHHHHHHHHHHCCEEEEEEeccccccCcHHHhhHhhcCCceEEEeCCCC
Confidence            42221111100000 0000000011222333356778999999988765 477889999999999988887753

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.97  E-value=1.2e-10  Score=98.31  Aligned_cols=46  Identities=26%  Similarity=0.760  Sum_probs=39.5

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcC--CCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHG--NRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~--~~~CP~Cr~~~~~   52 (634)
                      .|+||++.|..     |++++|||.||..||..|++..  ...||.||.++..
T Consensus        23 ~CpIC~~~~~~-----pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (103)
T d1jm7a_          23 ECPICLELIKE-----PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (103)
T ss_dssp             SCSSSCCCCSS-----CCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             CCCccCchhCC-----eEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCCh
Confidence            59999999987     8889999999999999999643  3479999987643

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.88  E-value=2.6e-10  Score=84.85  Aligned_cols=47  Identities=17%  Similarity=0.105  Sum_probs=39.8

Q ss_pred             CccccccccccCCcceeEe-cCCCCccchhhHHHHHhcCCCcCcccccccccCC
Q 043643            2 TCPICLGSLRRGQGVAIFT-AECSHSFHFCCIAANVQHGNRICPICRCEWKDVP   54 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~-~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~~p   54 (634)
                      .|+||++.+.+     ++. ..|||.||+.||.+|++. +..||+||.++....
T Consensus         2 ~C~Ic~~~~~~-----Pv~~~~cGh~fc~~cI~~~l~~-~~~CP~c~~~l~~~d   49 (56)
T d2baya1           2 LCAISGKVPRR-----PVLSPKSRTIFEKSLLEQYVKD-TGNDPITNEPLSIEE   49 (56)
T ss_dssp             CCTTTCSCCSS-----EEEETTTTEEEEHHHHHHHHHH-HSBCTTTCCBCCGGG
T ss_pred             CCccCCchHHh-----cCccCCCCCcccHHHHHHHHhh-ccCCCccCCcCCHHh
Confidence            59999999987     765 479999999999999986 458999999876543

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.87  E-value=4.5e-10  Score=90.13  Aligned_cols=46  Identities=13%  Similarity=0.163  Sum_probs=41.3

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .||||++.|.+     |++++|||+||..||..|+..+...||.|+.++..
T Consensus         9 ~CpIc~~l~~d-----Pv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~   54 (80)
T d2c2la2           9 CGKISFELMRE-----PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ   54 (80)
T ss_dssp             BCTTTCSBCSS-----EEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             cCcCcCchhhh-----hcccCCcCeecHHHHHHHHhcCCccCCCccccccc
Confidence            59999999998     99999999999999999998667789999987643

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.85  E-value=6.1e-10  Score=88.89  Aligned_cols=46  Identities=17%  Similarity=0.409  Sum_probs=41.4

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.|.+     |++++|||+||+.||..|+..+...||.|+.++..
T Consensus        10 ~CpIc~~~m~d-----PV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~   55 (78)
T d1t1ha_          10 RCPISLELMKD-----PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SCTTTSCCCSS-----EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             CCcCcCchhhC-----ceEccCCCcchHHHHHHHHHHCCCCCCcccccCCc
Confidence            59999999998     88999999999999999998766789999988654

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.83  E-value=2.4e-10  Score=84.79  Aligned_cols=42  Identities=26%  Similarity=0.660  Sum_probs=35.8

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|+||++.+.+     ++.++|||.||..||.+|    +..||+||+++..
T Consensus         8 ~C~IC~~~~~~-----p~~lpCgH~fC~~Ci~~~----~~~CP~Cr~~~~~   49 (56)
T d1bora_           8 RCQQCQAEAKC-----PKLLPCLHTLCSGCLEAS----GMQCPICQAPWPL   49 (56)
T ss_dssp             SCSSSCSSCBC-----CSCSTTSCCSBTTTCSSS----SSSCSSCCSSSSC
T ss_pred             CCcccCcccCC-----CEEecCCCHHhHHHHHcC----CCcCcCCCCcccC
Confidence            69999999987     777899999999999765    4479999988653

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.73  E-value=1.1e-09  Score=91.28  Aligned_cols=43  Identities=26%  Similarity=0.557  Sum_probs=36.6

Q ss_pred             CccccccccccCCcceeEe-cCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFT-AECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~-~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      +|+||++.|..     |++ .+|||.||..||..|+..   .||.||..+..
T Consensus        24 ~C~IC~~~~~~-----pv~~~~CgH~fC~~Ci~~~~~~---~CP~Cr~~~~~   67 (97)
T d1jm7b_          24 RCSRCTNILRE-----PVCLGGCEHIFCSNCVSDCIGT---GCPVCYTPAWI   67 (97)
T ss_dssp             SCSSSCSCCSS-----CBCCCSSSCCBCTTTGGGGTTT---BCSSSCCBCSC
T ss_pred             CCccCCchhhc-----CceeCCCCCchhHHHHHHHHhc---cccccCCcCch
Confidence            69999999987     665 489999999999999853   59999987543

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=98.71  E-value=1.7e-09  Score=81.62  Aligned_cols=50  Identities=22%  Similarity=0.364  Sum_probs=36.2

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHh-cCCCcCcccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQ-HGNRICPICRCEWK   51 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~-~~~~~CP~Cr~~~~   51 (634)
                      .|+||++.+......+-....|+|.||..||..|+. .++.+||+||++|.
T Consensus         8 ~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           8 VCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             EETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            699999987652111111233569999999999995 34668999999875

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.39  E-value=9.2e-08  Score=79.27  Aligned_cols=45  Identities=16%  Similarity=0.077  Sum_probs=38.8

Q ss_pred             CccccccccccCCcceeEecCCC-CccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECS-HSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~-H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .||||++.|.+     |++++|+ |+||+.||..|+.. +..||+|+.++..
T Consensus        24 ~CPI~~~lm~d-----PV~~~~~~~ty~r~~I~~~l~~-~~~~P~~~~~l~~   69 (98)
T d1wgma_          24 LDPIMSTLMCD-----PVVLPSSRVTVDRSTIARHLLS-DQTDPFNRSPLTM   69 (98)
T ss_dssp             BCTTTCSBCSS-----EEECTTTCCEEEHHHHHHHTTT-SCBCTTTCSBCCT
T ss_pred             CCcCchhHHHH-----HHhcccccchhhHHHHHHHHHh-cCCcccccccccc
Confidence            59999999999     8888776 58999999999976 5589999987654

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.99  E-value=1.5e-06  Score=71.25  Aligned_cols=46  Identities=28%  Similarity=0.626  Sum_probs=34.9

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHh----cC---CCcCcccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQ----HG---NRICPICRCE   49 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~----~~---~~~CP~Cr~~   49 (634)
                      .|+||++.+..  ...+....|+|.||..|+..|+.    .+   ...||.|+-+
T Consensus         7 ~C~IC~~~~~~--~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~   59 (94)
T d1wima_           7 GCKLCLGEYPV--EQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACP   59 (94)
T ss_dssp             CCSSSCCCCBG--GGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCS
T ss_pred             cCccCCCcccC--CceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCCC
Confidence            69999999865  44455678999999999999984    11   2269987543

>d1pd0a2 b.2.8.1 (A:133-215,A:553-646) Sec24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All beta proteins
fold: Common fold of diphtheria toxin/transcription factors/cytochrome f
superfamily: beta-sandwich domain of Sec23/24
family: beta-sandwich domain of Sec23/24
domain: Sec24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.74  E-value=0.18  Score=44.65  Aligned_cols=85  Identities=13%  Similarity=0.155  Sum_probs=64.0

Q ss_pred             eeeeeEEEEEecCCCeEEEEecCCCCCcccccCCceeEEEcCCccCCcEEEEEEEEEcCCCCCCCCCCCCccceEEEEEE
Q 043643          371 VSQDVKLTIRSKSAGVRIGSIPSGRYNSEVLDEGQQAVIDIGNLYADEEKEFMVYLSIPVSSAEGEQRPECTALLDVFCT  450 (634)
Q Consensus       371 va~~~~l~v~~~~~~v~i~~v~~~~~~~~~~~~~~~~~i~lg~l~~~e~r~~lv~l~~p~~~~~~~~~~~~~~l~~v~~~  450 (634)
                      -+.+..++|+| +.|++|..++ |++..+     ....+.++.+..+....|.++++-.. ...       ...+|+.+.
T Consensus        83 ~a~~~vmRvR~-S~Gl~v~~~y-Gnf~~~-----s~d~~~lp~id~d~s~a~el~~d~~l-~~~-------~~~~Q~AlL  147 (177)
T d1pd0a2          83 DCMETVMRARG-STGLRMSRFY-GHFFNR-----SSDLCAFSTMPRDQSYLFEVNVDESI-MAD-------YCYVQVAVL  147 (177)
T ss_dssp             TEEEEEEEEEE-CTTEEEEEEE-SSSBCS-----SSSCEEEEEECSSCCEEEEEEECSCC-CSS-------EEEEEEEEE
T ss_pred             hhhheeEEEec-CCCeEEEEEE-cceEcC-----CCCcEEEeecCCCcEEEEEEEecCcc-CCC-------cEEEEEEEE
Confidence            47788999998 7999999985 455432     23468889999998888888775332 111       578999999


Q ss_pred             EecCCCCceeeeecceeEEe
Q 043643          451 HKDSASMEIHQVEGEKVEIR  470 (634)
Q Consensus       451 Y~~~~~~~~~~~~~~~~~v~  470 (634)
                      |++..+.+.+++.+-.+.+.
T Consensus       148 YTs~~GeRRIRV~T~~lpvt  167 (177)
T d1pd0a2         148 LSLNNSQRRIRIITLAMPTT  167 (177)
T ss_dssp             EEETTTEEEEEEEEEEEEEE
T ss_pred             EEcCCCCEEEEEEeeccccc
Confidence            99999989999876665553

>d1weoa_ g.44.1.1 (A:) Cellulose synthase A catalytic subunit 7, IRX3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Cellulose synthase A catalytic subunit 7, IRX3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=90.37  E-value=0.14  Score=38.87  Aligned_cols=51  Identities=24%  Similarity=0.535  Sum_probs=38.3

Q ss_pred             CccccccccccCCcceeEe--cCCCCccchhhHHHHHhcCCCcCccccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFT--AECSHSFHFCCIAANVQHGNRICPICRCEWKD   52 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~--~~C~H~Fh~~Ci~~w~~~~~~~CP~Cr~~~~~   52 (634)
                      .|.||-+.+.....-.+|.  -.|+--.|+.|..-=.+.++..||.|+.+++.
T Consensus        18 ~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Ykr   70 (93)
T d1weoa_          18 FCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKR   70 (93)
T ss_dssp             BCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCC
T ss_pred             hhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhhh
Confidence            6999999885432222443  56888889999987667778899999998765

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.68  E-value=0.14  Score=35.33  Aligned_cols=45  Identities=27%  Similarity=0.738  Sum_probs=31.6

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHHh---cCCCcCccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANVQ---HGNRICPICRC   48 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~~---~~~~~CP~Cr~   48 (634)
                      .|.||...-.  .+..++...|...||..|+..-+.   .+.-.||.|+.
T Consensus         2 ~C~vC~~~~~--~~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGE--DDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSC--CSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCC--CCCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            6889976532  244566788999999999976543   22336999974

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.52  E-value=0.18  Score=39.23  Aligned_cols=50  Identities=20%  Similarity=0.397  Sum_probs=33.3

Q ss_pred             CccccccccccCCcceeEecCCCCccchhhHHHHH-----h--cCCCcCcccccccc
Q 043643            2 TCPICLGSLRRGQGVAIFTAECSHSFHFCCIAANV-----Q--HGNRICPICRCEWK   51 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~~~C~H~Fh~~Ci~~w~-----~--~~~~~CP~Cr~~~~   51 (634)
                      .|.||...........+..-.|...||..|+...+     .  ...-.||.|.....
T Consensus        18 ~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~~   74 (88)
T d1weva_          18 ACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMK   74 (88)
T ss_dssp             SCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHHC
T ss_pred             CccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchHh
Confidence            59999876544334445567899999999975321     1  22347999976533

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.40  E-value=0.23  Score=36.24  Aligned_cols=34  Identities=26%  Similarity=0.501  Sum_probs=23.9

Q ss_pred             CccccccccccCCcceeEe-cCCCCccchhhHHHHHh
Q 043643            2 TCPICLGSLRRGQGVAIFT-AECSHSFHFCCIAANVQ   37 (634)
Q Consensus         2 ~C~ICl~~~~~~~~~~~~~-~~C~H~Fh~~Ci~~w~~   37 (634)
                      .|.+|.+.+.+  .+-+-. .-=+|.||+.|-....+
T Consensus        10 ~CtlC~erLEd--tHFVQCPsv~~HkFCFpCsr~sik   44 (80)
T d2cs3a1          10 CCTICHERLED--THFVQCPSVPSHKFCFPCSRESIK   44 (80)
T ss_dssp             CCSSSCSCCSS--TTSEECSSCSSCEECHHHHHHHHH
T ss_pred             eeeeehhhhcC--CceEeCCCCcCCceeccccHHHHH
Confidence            59999999976  332211 11379999999988775