Citrus Sinensis ID: 019939

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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---
Protein Sequence
MSGLVGPCARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYGAASQNTPKTSRSSSFRPSAPSGHERVVGTAPPASSTSDNHVCPICLTDPKDMAFGCGHQTCCGCGQDLDLCPICRSFIQTRIKLY
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccHHHHHHHHHHccccccccccccccccccccccccccEEEEcccccccccHHHHHHHHHHHcccEEEcccccHHHHHHHHHHHHHHccccEEEEEEEEccccccccccccccccHHHHHHHHHHHHccccccEEEEEccccccccccccccccccccccccEEEEEcHHHHccccccccHHHHHHHHHHHHcHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccHHHHHHHHHHHHHHccccccccccccccccccccccEEccccccccccHHHHHHHHHHHHcccEEEcccccHHHHHHHHHHHHHcccccEEEEEEEEccEEEEccccccccccccHHHHHHHHHHHcccccEEEEEEcccccHHHHHHHcccccHHHHcEEEEEcHHHHHccccccccHHHHHHHHHHHHcHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEcccccccccccccccHHHcccccccccccccccEEEEEEc
Coil and Loop (DISEMBL)
msglvgpcarsfqrrslhhigddqnpYEQAISIIGKtlssfdednlipcfgfgdasthdqevfsfypdekfcnGFEEVLRRYRELVPhlrlagptsfaPIIEMAITIVEHSGGQYHVLVIIAdgqvtrsvdtehgqlssqEKKTVEAIVKASEYPLSIILVgvgdgpwdmmrefddniparafdnfqfvNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGaqrgkavdrvslpppqygaasqntpktsrsssfrpsapsghervvgtappasstsdnhvcpicltdpkdmafgcghqtccgcgqdldlcpiCRSFIQTRIKLY
Flexible Loop (DISEMBL)
MSGLVGPCARSFQRRSLHhigddqnpYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTRSVDTehgqlssqekkTVEAIvkaseyplsIILVGVGDGPWDMMREFDDNIPARAFDNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPpqygaasqntpktsrssSFRPSAPSGHERVVGTappasstsdnhVCPICLTDPKDMAFGCGHQTCCGCGQDLDLCPICRSFIQTRIKLY
Low Complexity Region (SEG)
MSGLVGPCARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYGAASQNTPKTsrsssfrpsapsGHERVVGTAPPASSTSDNHVCPICLTDPKDMAFgcghqtccgcgqDLDLCPICRSFIQTRIKLY
Disordered region (IsUnstruct)
*************************PYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTR****************VEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQR******************************************************HVCPICLTDPKDMAFGCGHQTCCGCGQDLDLCPICRSFIQTRI***
Disordered Region (DISOPRED)
MSGLV**CARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTR**************KTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQFVNFTEIMSKNVD*SRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYGAASQNT*********************************HVCPICLTDPKDMAFGCGHQTCCGCGQDLDLCPICRSFIQTRIKLY
Disordered Region (DISEMBL)
MSGLVGPCARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTRS**************TVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPP*****************************************NHVCPICLTDPKDMAFGCGHQTCCGCGQDLDLCPICRSFIQTRIKLY
Disordered Region (DISPRO)
**************RSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILG********************************************************NHVCPICLTDPKDMAFGCGHQTCCGCGQDLDLCPICRSFIQTRIKLY
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSGLVGPCARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYGAASQNTPKTSRSSSFRPSAPSGHERVVGTAPPASSTSDNHVCPICLTDPKDMAFGCGHQTCCGCGQDLDLCPICRSFIQTRIKLY
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	333	2.2.26 [Sep-21-2011]
Q9LY87	468	E3 ubiquitin-protein liga	yes	no	0.975	0.694	0.725	1e-139
Q9SS90	489	E3 ubiquitin-protein liga	no	no	0.954	0.650	0.710	1e-135
Q09221	7705	Copine family protein 2 O	yes	no	0.618	0.026	0.521	9e-59
Q99829	537	Copine-1 OS=Homo sapiens	yes	no	0.558	0.346	0.336	2e-21
Q96FN4	548	Copine-2 OS=Homo sapiens	no	no	0.552	0.335	0.32	4e-21
Q86YQ8	564	Copine-8 OS=Homo sapiens	no	no	0.600	0.354	0.308	5e-21
Q9DC53	564	Copine-8 OS=Mus musculus	yes	no	0.600	0.354	0.308	5e-21
Q0VE82	557	Copine-7 OS=Mus musculus	no	no	0.609	0.364	0.334	4e-20
Q8C166	536	Copine-1 OS=Mus musculus	no	no	0.558	0.347	0.336	4e-20
Q9HCH3	593	Copine-5 OS=Homo sapiens	no	no	0.603	0.338	0.311	6e-20

>sp|Q9LY87|RGLG2_ARATH E3 ubiquitin-protein ligase RGLG2 OS=Arabidopsis thaliana GN=RGLG2 PE=1 SV=1

 Score =  493 bits (1270), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 240/331 (72%), Positives = 276/331 (83%), Gaps = 6/331 (1%)

Query: 9   ARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD 68
           ARSF R+SLH IG   NPYEQAI+IIG+TL++FDEDNLIPC+GFGDASTHDQ+VFSF  +
Sbjct: 138 ARSFNRKSLHFIGSSPNPYEQAITIIGRTLAAFDEDNLIPCYGFGDASTHDQDVFSFNSE 197

Query: 69  EKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTR 128
           ++FCNGFEEVL RY+E+VP L+LAGPTSFAPII+MA+TIVE SGGQYHVLVIIADGQVTR
Sbjct: 198 DRFCNGFEEVLSRYKEIVPQLKLAGPTSFAPIIDMAMTIVEQSGGQYHVLVIIADGQVTR 257

Query: 129 SVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF 188
           SVDTE+GQLS QE+KTV+AIV+AS+ PLSI+LVGVGDGPWDMMREFDDNIPARAFDNFQF
Sbjct: 258 SVDTENGQLSPQEQKTVDAIVQASKLPLSIVLVGVGDGPWDMMREFDDNIPARAFDNFQF 317

Query: 189 VNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYG 248
           VNFTEIM+KN  +S KE EFAL+ALMEIP QYKA +E N+LG + G   +R  LPPP  G
Sbjct: 318 VNFTEIMAKNKAQSLKETEFALSALMEIPQQYKATIELNLLGRRNGYIPERFPLPPPMRG 377

Query: 249 AASQ-NTPKTSRSSSFRPSAP-----SGHERVVGTAPPASSTSDNHVCPICLTDPKDMAF 302
            +S  N+PK SR  SF+PS P       H R     PP SS SDN +CPICL++PKDMAF
Sbjct: 378 GSSSYNSPKPSRLPSFKPSVPPHPTEGYHVRSSPVPPPTSSASDNQLCPICLSNPKDMAF 437

Query: 303 GCGHQTCCGCGQDLDLCPICRSFIQTRIKLY 333
           GCGHQTCC CG DL +CPICR+ IQTRIKLY
Sbjct: 438 GCGHQTCCECGPDLQMCPICRAPIQTRIKLY 468

E3 ubiquitin-protein ligase that mediates the formation of 'Lys-63'-linked multiubiquitin chains. Regulates apical dominance by acting on the auxin transport proteins abundance.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q9SS90|RGLG1_ARATH E3 ubiquitin-protein ligase RGLG1 OS=Arabidopsis thaliana GN=RGLG1 PE=1 SV=1

 Score =  481 bits (1238), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 231/325 (71%), Positives = 269/325 (82%), Gaps = 7/325 (2%)

Query: 9   ARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD 68
           A+SF R+SLHH+ +  NPYEQAI+IIG+TL++FDEDNLIPC+GFGDASTHDQ+VFSFYP+
Sbjct: 172 AKSFNRKSLHHLSNTPNPYEQAITIIGRTLAAFDEDNLIPCYGFGDASTHDQDVFSFYPE 231

Query: 69  EKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTR 128
            +FCNGFEEVL RYRE+VP L+LAGPTSFAPIIEMA+T+VE S GQYHVLVIIADGQVTR
Sbjct: 232 GRFCNGFEEVLARYREIVPQLKLAGPTSFAPIIEMAMTVVEQSSGQYHVLVIIADGQVTR 291

Query: 129 SVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF 188
           SVDTEHG+LS QE+KTV+AIVKAS  PLSI+LVGVGDGPWDMM+EFDDNIPARAFDNFQF
Sbjct: 292 SVDTEHGRLSPQEQKTVDAIVKASTLPLSIVLVGVGDGPWDMMQEFDDNIPARAFDNFQF 351

Query: 189 VNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYG 248
           VNFTEIMSKN D+SRKE EFAL+ALMEIP QYKA +E N+LG + G    R+ LPPP   
Sbjct: 352 VNFTEIMSKNKDQSRKETEFALSALMEIPPQYKATIELNLLGVRNGNIPQRIPLPPP--- 408

Query: 249 AASQNTPKTSRSSSFRPSAPSGHERVVGTAPPASSTSDNHVCPICLTDPKDMAFGCGHQT 308
             S ++  +SR  +F PS P         +   SS  D  +CPICL++PK+MAFGCGHQT
Sbjct: 409 VQSGSSFSSSRIPNFEPSVPP----YPFESKQMSSADDIQLCPICLSNPKNMAFGCGHQT 464

Query: 309 CCGCGQDLDLCPICRSFIQTRIKLY 333
           CC CG DL +CPICR+ IQTRIKLY
Sbjct: 465 CCECGPDLKVCPICRAPIQTRIKLY 489

E3 ubiquitin-protein ligase that mediates the formation of 'Lys-63'-linked multiubiquitin chains. Regulates apical dominance by acting on the auxin transport proteins abundance.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q09221|CPNA2_CAEEL Copine family protein 2 OS=Caenorhabditis elegans GN=cpna-2 PE=2 SV=4

 Score =  227 bits (579), Expect = 9e-59,   Method: Compositional matrix adjust.
 Identities = 120/230 (52%), Positives = 146/230 (63%), Gaps = 24/230 (10%)

Query: 10   RSFQRRSLHHIG-DDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSF--- 65
            R+F +R LH I   + NPY+Q I I+GKTLSSFD D  IP +GFGD    D  +F+    
Sbjct: 7492 RTFDKRPLHTIDPAEMNPYQQVIQIVGKTLSSFDADGQIPAYGFGDEEFTDHGIFNIAER 7551

Query: 66   YPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQ 125
            Y  EK CNGFEEVLR Y E+ P + ++GPT+F P+I+ AI I +     YH+LVI+ADGQ
Sbjct: 7552 YDLEKDCNGFEEVLRVYNEVTPTIEMSGPTNFVPLIDRAIEICKEKHS-YHILVIVADGQ 7610

Query: 126  VTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDN 185
            VT             EK   +AI  AS YPLSII+VGVGDGPW+MM  FDDNIP R FDN
Sbjct: 7611 VT------------NEKINQKAIAAASHYPLSIIMVGVGDGPWNMMGRFDDNIPKRLFDN 7658

Query: 186  FQFVNFTEIM--SKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQR 233
            F FV+F ++M  + N D     A FAL ALMEIP QYKA  E  +L   R
Sbjct: 7659 FHFVDFHKVMFNAPNAD-----ASFALNALMEIPDQYKAIKELGLLKHSR 7703

Caenorhabditis elegans (taxid: 6239)

>sp|Q99829|CPNE1_HUMAN Copine-1 OS=Homo sapiens GN=CPNE1 PE=1 SV=1

 Score =  103 bits (257), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 75/223 (33%), Positives = 109/223 (48%), Gaps = 37/223 (16%)

Query: 16  SLHHIG-DDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEV-----FSFYPDE 69
           SLH++     N Y  A+  +G  +  +D D L P FGFG     D +V      +F P  
Sbjct: 304 SLHYLSPTGVNEYLMALWSVGSVVQDYDSDKLFPAFGFGAQVPPDWQVSHEFALNFNPSN 363

Query: 70  KFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITI---VEHSG--GQYHVLVIIADG 124
            +C G + ++  YR+ +P +RL GPT+FAPII           H G   QY +L+++ DG
Sbjct: 364 PYCAGIQGIVDAYRQALPQVRLYGPTNFAPIINHVARFAAQAAHQGTASQYFMLLLLTDG 423

Query: 125 QVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFD-DNIP---- 179
            VT   D E          T EA+V+AS  P+S+I+VGVG   ++ M + D D  P    
Sbjct: 424 AVT---DVE---------ATREAVVRASNLPMSVIIVGVGGADFEAMEQLDADGGPLHTR 471

Query: 180 ---ARAFDNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQ 219
              A A D  QFV +     +    + +EA  A   L E+P+Q
Sbjct: 472 SGQAAARDIVQFVPY-----RRFQNAPREA-LAQTVLAEVPTQ 508

May function in membrane trafficking. Exhibits calcium-dependent phospholipid binding properties.

Homo sapiens (taxid: 9606)

>sp|Q96FN4|CPNE2_HUMAN Copine-2 OS=Homo sapiens GN=CPNE2 PE=1 SV=3

 Score =  102 bits (254), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 72/225 (32%), Positives = 105/225 (46%), Gaps = 41/225 (18%)

Query: 16  SLHHIGD-DQNPYEQAISIIGKTLSSFDEDNLIPCFGFG-----DASTHDQEVFSFYPDE 69
           SLH+I     N Y  AI  +G+ +  +D D + P  GFG     D     +   +F P  
Sbjct: 326 SLHYINPMGTNEYLSAIWAVGQIIQDYDSDKMFPALGFGAQLPPDWKVSHEFAINFNPTN 385

Query: 70  KFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIE-----MAITIVEHSGGQYHVLVIIADG 124
            FC+G + + + Y   +PH+R  GPT+F+PI+       A    + +  QY +L+II DG
Sbjct: 386 PFCSGVDGIAQAYSACLPHIRFYGPTNFSPIVNHVARFAAQATQQRTATQYFILLIITDG 445

Query: 125 QVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVG----------DGPWDMMREF 174
            ++   +T H            A+V+AS+ P+SII+VGVG          DG   M+R  
Sbjct: 446 VISDMEETRH------------AVVQASKLPMSIIIVGVGNADFAAMEFLDGDSRMLRSH 493

Query: 175 DDNIPARAFDNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQ 219
                AR  D  QFV F E       R+  +   A A L E+P Q
Sbjct: 494 TGEEAAR--DIVQFVPFREF------RNAAKETLAKAVLAELPQQ 530

Homo sapiens (taxid: 9606)

>sp|Q86YQ8|CPNE8_HUMAN Copine-8 OS=Homo sapiens GN=CPNE8 PE=1 SV=2

 Score =  102 bits (253), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 70/227 (30%), Positives = 108/227 (47%), Gaps = 27/227 (11%)

Query: 13  QRRSLHHIGDDQ-NPYEQAISIIGKTLSSFDEDNLIPCFGFG-----DASTHDQEVFSFY 66
           Q  SLH++   Q N Y  A+  +G+ +  +D D + P  GFG     D     +   +  
Sbjct: 325 QPTSLHYMNPYQLNAYGMALKAVGEIVQDYDSDKMFPALGFGAKLPPDGRISHEFALNGN 384

Query: 67  PDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVE--HSGGQYHVLVIIADG 124
           P   +C+G E V+  Y   +  ++L GPT+FAP+I            G QY VL+I+ DG
Sbjct: 385 PQNPYCDGIEGVMEAYYRSLKSVQLYGPTNFAPVINHVARYASSVKDGSQYFVLLIVTDG 444

Query: 125 QVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDN---IPAR 181
            +            S   +T E+IV AS+ P+SII+VGVG   +D M E D +   + +R
Sbjct: 445 VI------------SDMAQTKESIVNASKLPMSIIIVGVGPAEFDAMVELDGDDVRVSSR 492

Query: 182 A----FDNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAAL 224
                 D  QFV F + + ++ +     A  A   L EIP Q+ + +
Sbjct: 493 GKYAERDIVQFVPFRDYIDRSGNHILSMARLAKDVLAEIPEQFLSYM 539

May function in membrane trafficking. Exhibits calcium-dependent phospholipid binding properties.

Homo sapiens (taxid: 9606)

>sp|Q9DC53|CPNE8_MOUSE Copine-8 OS=Mus musculus GN=Cpne8 PE=2 SV=2

 Score =  102 bits (253), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 70/227 (30%), Positives = 108/227 (47%), Gaps = 27/227 (11%)

Query: 13  QRRSLHHIGDDQ-NPYEQAISIIGKTLSSFDEDNLIPCFGFG-----DASTHDQEVFSFY 66
           Q  SLH++   Q N Y  A+  +G+ +  +D D + P  GFG     D     +   +  
Sbjct: 325 QPTSLHYMNPYQLNAYGMALKAVGEIVQDYDSDKMFPALGFGAKLPPDGRISHEFALNGN 384

Query: 67  PDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVE--HSGGQYHVLVIIADG 124
           P   +C+G E V+  Y   +  ++L GPT+FAP+I            G QY VL+I+ DG
Sbjct: 385 PQNPYCDGIEGVMEAYYRSLKSVQLYGPTNFAPVINHVARYASSVKDGSQYFVLLIVTDG 444

Query: 125 QVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDN---IPAR 181
            +            S   +T E+IV AS+ P+SII+VGVG   +D M E D +   + +R
Sbjct: 445 VI------------SDMAQTKESIVNASKLPMSIIIVGVGPAEFDAMVELDGDDVRVSSR 492

Query: 182 A----FDNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAAL 224
                 D  QFV F + + ++ +     A  A   L EIP Q+ + +
Sbjct: 493 GKYAERDIVQFVPFRDYIDRSGNHILSMARLAKDVLAEIPEQFLSYM 539

May function in membrane trafficking. Exhibits calcium-dependent phospholipid binding properties.

Mus musculus (taxid: 10090)

>sp|Q0VE82|CPNE7_MOUSE Copine-7 OS=Mus musculus GN=Cpne7 PE=2 SV=1

 Score = 99.4 bits (246), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 82/245 (33%), Positives = 117/245 (47%), Gaps = 42/245 (17%)

Query: 16  SLHHIGDDQ-NPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEV-----FSFYPDE 69
           SLHHI   Q N Y +A+  +G+    +D D      GFG       EV      +F P++
Sbjct: 325 SLHHINPYQPNEYLRALVAVGEVCQDYDSDKRFSALGFGARIPPKYEVSHDFAINFNPED 384

Query: 70  KFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMA--ITIVEHSGG---QYHVLVIIADG 124
             C G + V+  Y+  +P ++L GPT+ APII     +   E S G   QY++L+I+ DG
Sbjct: 385 DECEGIQGVVEAYQNCLPKVQLYGPTNVAPIISKVARMAAAEESTGEASQYYILLILTDG 444

Query: 125 QVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFD-DNIPARA- 182
            VT   DT             EAIV+AS  P+S+I+VGVG+  +  M+  D D+   R+ 
Sbjct: 445 VVTDMSDTR------------EAIVRASHLPMSVIIVGVGNADFTDMQILDGDDGVLRSP 492

Query: 183 ------FDNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQ---YKAALEF--NILGA 231
                  D  QFV F E+      ++   A  A   L E+P Q   Y +  E     LGA
Sbjct: 493 RGEPALRDIVQFVPFREL------KNASPAALAKCVLAEVPKQVVEYYSHKELPPRSLGA 546

Query: 232 QRGKA 236
           Q G+A
Sbjct: 547 QTGEA 551

May function in membrane trafficking. Exhibits calcium-dependent phospholipid binding properties.

Mus musculus (taxid: 10090)

>sp|Q8C166|CPNE1_MOUSE Copine-1 OS=Mus musculus GN=Cpne1 PE=1 SV=1

 Score = 99.0 bits (245), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 75/223 (33%), Positives = 109/223 (48%), Gaps = 37/223 (16%)

Query: 16  SLHHIG-DDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEV-----FSFYPDE 69
           SLH++     N Y  A+  +G  +  +D D L P FGFG     D +V      +F P  
Sbjct: 303 SLHYLSPTGVNEYLTALWSVGSVVQDYDSDKLFPAFGFGAQVPPDWQVSHEFALNFNPSN 362

Query: 70  KFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIE-----MAITIVEHSGGQYHVLVIIADG 124
            +C G + ++  YR+ +P +RL GPT+FAPII       A    + S  QY VL+++ DG
Sbjct: 363 PYCAGIQGIVDAYRQALPQVRLYGPTNFAPIINHVARFAAQAAQQRSASQYFVLLLLTDG 422

Query: 125 QVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFD-DNIPAR-- 181
            VT   D E          T +A+V AS+ P+S+I+VGVG   +++M + D D  P R  
Sbjct: 423 AVT---DVE---------ATCKAVVDASKLPMSVIIVGVGGADFEVMEQLDADGGPLRTR 470

Query: 182 -----AFDNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQ 219
                A D  QFV +     +N  R       A   L E+P+Q
Sbjct: 471 SGEAAARDIVQFVPYRRF--QNAPRE----TLAQTVLAEVPTQ 507

May function in membrane trafficking. Exhibits calcium-dependent phospholipid binding properties.

Mus musculus (taxid: 10090)

>sp|Q9HCH3|CPNE5_HUMAN Copine-5 OS=Homo sapiens GN=CPNE5 PE=1 SV=2

 Score = 98.6 bits (244), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 71/228 (31%), Positives = 107/228 (46%), Gaps = 27/228 (11%)

Query: 13  QRRSLHHIGDDQ-NPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYP---- 67
           Q  SLH++   Q N Y  A++ +G+ +  +D D + P  GFG     D  V   +P    
Sbjct: 344 QSTSLHYMSPYQLNAYALALTAVGEIIQHYDSDKMFPALGFGAKLPPDGRVSHEFPLNGN 403

Query: 68  -DEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAI--TIVEHSGGQYHVLVIIADG 124
            +   C G + +L  Y   +  ++L GPT+FAP++            G QY VL+II DG
Sbjct: 404 QENPSCCGIDGILEAYHRSLRTVQLYGPTNFAPVVTHVARNAAAVQDGSQYSVLLIITDG 463

Query: 125 QVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDN---IPAR 181
            +            S   +T EAIV A++ P+SII+VGVG   +D M E D +   I +R
Sbjct: 464 VI------------SDMAQTKEAIVNAAKLPMSIIIVGVGQAEFDAMVELDGDDVRISSR 511

Query: 182 A----FDNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALE 225
                 D  QFV F + + +  +     A  A   L EIP Q  + ++
Sbjct: 512 GKLAERDIVQFVPFRDYVDRTGNHVLSMARLARDVLAEIPDQLVSYMK 559

May function in membrane trafficking. Exhibits calcium-dependent phospholipid binding properties.

Homo sapiens (taxid: 9606)

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	333
356516613	428	PREDICTED: E3 ubiquitin-protein ligase R	0.972	0.757	0.861	1e-165
225456844	433	PREDICTED: E3 ubiquitin-protein ligase R	0.975	0.750	0.834	1e-161
359807369	427	uncharacterized protein LOC100809850 [Gl	0.969	0.756	0.855	1e-160
224119510	442	predicted protein [Populus trichocarpa]	0.975	0.735	0.844	1e-159
255540451	433	copine, putative [Ricinus communis] gi|2	0.975	0.750	0.860	1e-159
449440616	432	PREDICTED: E3 ubiquitin-protein ligase R	0.969	0.747	0.809	1e-151
225452296	461	PREDICTED: E3 ubiquitin-protein ligase R	0.975	0.704	0.790	1e-149
224055595	376	predicted protein [Populus trichocarpa]	0.975	0.864	0.780	1e-149
359473120	442	PREDICTED: E3 ubiquitin-protein ligase R	0.975	0.735	0.780	1e-147
255548002	478	copine, putative [Ricinus communis] gi|2	0.975	0.679	0.729	1e-147

>gi|356516613|ref|XP_003526988.1| PREDICTED: E3 ubiquitin-protein ligase RGLG2-like [Glycine max]

 Score =  587 bits (1512), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 280/325 (86%), Positives = 298/325 (91%), Gaps = 1/325 (0%)

Query: 9   ARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD 68
           ARSFQRR LHHIG +QNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVF FYPD
Sbjct: 105 ARSFQRRCLHHIGHEQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFCFYPD 164

Query: 69  EKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTR 128
           E+FC+GFEEVL RYRELVP L+LAGPTSFAP+IEMAITIVE SGGQYHVLVIIADGQVTR
Sbjct: 165 ERFCHGFEEVLERYRELVPQLKLAGPTSFAPVIEMAITIVEQSGGQYHVLVIIADGQVTR 224

Query: 129 SVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF 188
           SVDTEHGQLS+QEKKTVEAIVKASEYPLSI+LVGVGDGPWDMM++FDDNIPARAFDNFQF
Sbjct: 225 SVDTEHGQLSAQEKKTVEAIVKASEYPLSIVLVGVGDGPWDMMKKFDDNIPARAFDNFQF 284

Query: 189 VNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYG 248
           VNFTEIMSKN+D+SRKE EFAL+ALMEIPSQYKA LE NILGA+RGK +DR  LPPP YG
Sbjct: 285 VNFTEIMSKNMDQSRKETEFALSALMEIPSQYKATLELNILGARRGKDIDRTPLPPPLYG 344

Query: 249 AASQNTPKTSRSSSFRPSAPSGHERVVGTAPPASSTSDNHVCPICLTDPKDMAFGCGHQT 308
           AAS N+PKTSR +SFRPSAPS     V T PPA+S SDN VCPICLTDPKDMAFGCGHQT
Sbjct: 345 AASFNSPKTSRQNSFRPSAPSSRHD-VSTNPPATSASDNQVCPICLTDPKDMAFGCGHQT 403

Query: 309 CCGCGQDLDLCPICRSFIQTRIKLY 333
           CC CGQDL+LCPICRS I TRIKLY
Sbjct: 404 CCECGQDLELCPICRSTIDTRIKLY 428

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225456844|ref|XP_002279018.1| PREDICTED: E3 ubiquitin-protein ligase RGLG2 [Vitis vinifera] gi|297733667|emb|CBI14914.3| unnamed protein product [Vitis vinifera]

 Score =  573 bits (1477), Expect = e-161,   Method: Compositional matrix adjust.
 Identities = 273/327 (83%), Positives = 297/327 (90%), Gaps = 2/327 (0%)

Query: 9   ARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD 68
           ARSF RRSLHH+GDDQNPYEQAISIIGKTLS FD+DNLIPCFGFGDASTHD++VFSFY D
Sbjct: 107 ARSFYRRSLHHVGDDQNPYEQAISIIGKTLSKFDDDNLIPCFGFGDASTHDRDVFSFYSD 166

Query: 69  EKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTR 128
           E+FCNGFEEVL+RYRELVPHLRLAGPTSFAPI+EMAITIVE SGGQYHVL+IIADGQVTR
Sbjct: 167 ERFCNGFEEVLKRYRELVPHLRLAGPTSFAPIVEMAITIVEQSGGQYHVLLIIADGQVTR 226

Query: 129 SVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF 188
           SVDTEHGQLS QEK+TVEAIVKASEYPLSIILVGVGDGPWDMM+EFDDN+PARAFDNFQF
Sbjct: 227 SVDTEHGQLSPQEKRTVEAIVKASEYPLSIILVGVGDGPWDMMKEFDDNMPARAFDNFQF 286

Query: 189 VNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYG 248
           VNFTEIMSKN+DRSRKE EFAL+ALMEIPSQYKA +E NILG+ RGKA+DRV LPPP YG
Sbjct: 287 VNFTEIMSKNMDRSRKETEFALSALMEIPSQYKATMELNILGSHRGKAIDRVPLPPPLYG 346

Query: 249 AASQNTPKTSRSSSFRPSAPSG--HERVVGTAPPASSTSDNHVCPICLTDPKDMAFGCGH 306
           A S +  K  +SSSF+PSAPS   H   + T+ PASS +DN+VCPICLT+ KDMAFGCGH
Sbjct: 347 ANSFSYSKPPQSSSFQPSAPSSDQHSASIHTSAPASSLADNNVCPICLTNKKDMAFGCGH 406

Query: 307 QTCCGCGQDLDLCPICRSFIQTRIKLY 333
           QTCC CG DLDLCPICRS IQTRIKLY
Sbjct: 407 QTCCECGPDLDLCPICRSPIQTRIKLY 433

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359807369|ref|NP_001240870.1| uncharacterized protein LOC100809850 [Glycine max] gi|255644673|gb|ACU22839.1| unknown [Glycine max]

 Score =  570 bits (1469), Expect = e-160,   Method: Compositional matrix adjust.
 Identities = 279/326 (85%), Positives = 294/326 (90%), Gaps = 3/326 (0%)

Query: 9   ARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD 68
            RSFQRR LHHIG +QNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD
Sbjct: 104 GRSFQRRCLHHIGHEQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD 163

Query: 69  EKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTR 128
           E+FC GFEEVL RYRELVP L+LAGPTSFAP+IEMAITIVE SGGQYHVLVIIADGQVTR
Sbjct: 164 ERFCRGFEEVLERYRELVPQLKLAGPTSFAPVIEMAITIVEQSGGQYHVLVIIADGQVTR 223

Query: 129 SVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF 188
           SVDTEHGQLS+QEKKTVEAIVKASEYPLSIILVGVGDGPWDMM++FDDNIPARAFDNFQF
Sbjct: 224 SVDTEHGQLSAQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMKQFDDNIPARAFDNFQF 283

Query: 189 VNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYG 248
           VNFTEIMSKN+DRSRKE EFALAALMEIPSQYKA LE NILGA RGK +DR+ LPPP YG
Sbjct: 284 VNFTEIMSKNMDRSRKETEFALAALMEIPSQYKATLELNILGACRGKDIDRIPLPPPLYG 343

Query: 249 AASQNTPKTSRS-SSFRPSAPSGHERVVGTAPPASSTSDNHVCPICLTDPKDMAFGCGHQ 307
           AAS N+PKTSR  SS   +  S H+  V T PPA+S SDN VCPICLTDPKDMAFGCGHQ
Sbjct: 344 AASFNSPKTSRQYSSRPSAPSSRHD--VSTNPPATSASDNQVCPICLTDPKDMAFGCGHQ 401

Query: 308 TCCGCGQDLDLCPICRSFIQTRIKLY 333
           TCC CGQDL+LCPICRS I TRIKLY
Sbjct: 402 TCCDCGQDLELCPICRSTIDTRIKLY 427

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224119510|ref|XP_002318092.1| predicted protein [Populus trichocarpa] gi|222858765|gb|EEE96312.1| predicted protein [Populus trichocarpa]

 Score =  567 bits (1462), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 277/328 (84%), Positives = 292/328 (89%), Gaps = 3/328 (0%)

Query: 9   ARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD 68
           ARSF  RSLHHIGDDQNPYEQAI IIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD
Sbjct: 115 ARSFSHRSLHHIGDDQNPYEQAIYIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD 174

Query: 69  EKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTR 128
           E+FCNGFEEVLRRYRELVP LRLAGPTSFAP+IEMAITIVE SGGQYHVL+IIADGQVTR
Sbjct: 175 ERFCNGFEEVLRRYRELVPCLRLAGPTSFAPVIEMAITIVEQSGGQYHVLLIIADGQVTR 234

Query: 129 SVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF 188
           SVDTEHG LS QEK+TVEAIVKASEYPLSIILVGVGDGPWDMM+EFDDNIPARAFDNFQF
Sbjct: 235 SVDTEHGHLSPQEKRTVEAIVKASEYPLSIILVGVGDGPWDMMKEFDDNIPARAFDNFQF 294

Query: 189 VNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYG 248
           VNFTEIMSKN+DR RKEAEF+LAALMEIPSQYKA LE NI+GA +GKA+DRV LPPPQYG
Sbjct: 295 VNFTEIMSKNMDRPRKEAEFSLAALMEIPSQYKATLELNIMGATKGKAIDRVPLPPPQYG 354

Query: 249 AAS---QNTPKTSRSSSFRPSAPSGHERVVGTAPPASSTSDNHVCPICLTDPKDMAFGCG 305
           A S   +N      S+S   ++ SG   VVGTA PASS SDNH+CPICLTDPKDMAFGCG
Sbjct: 355 AGSTSFRNPKPAQSSNSRPSASSSGRHDVVGTALPASSASDNHLCPICLTDPKDMAFGCG 414

Query: 306 HQTCCGCGQDLDLCPICRSFIQTRIKLY 333
           HQTCC CGQDL  CPICRS I TRIKLY
Sbjct: 415 HQTCCDCGQDLQSCPICRSTIHTRIKLY 442

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255540451|ref|XP_002511290.1| copine, putative [Ricinus communis] gi|223550405|gb|EEF51892.1| copine, putative [Ricinus communis]

 Score =  567 bits (1460), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 284/330 (86%), Positives = 297/330 (90%), Gaps = 5/330 (1%)

Query: 9   ARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD 68
           ARSF RRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSF  D
Sbjct: 104 ARSFNRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFNSD 163

Query: 69  EKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTR 128
           E FCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVE SGGQYHVLVIIADGQVTR
Sbjct: 164 ESFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEQSGGQYHVLVIIADGQVTR 223

Query: 129 SVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF 188
           SVDT+HGQLS QEK+TVEAIVKASEYPLSIILVGVGDGPWDMM+EFDDNIPARAFDNFQF
Sbjct: 224 SVDTQHGQLSPQEKRTVEAIVKASEYPLSIILVGVGDGPWDMMKEFDDNIPARAFDNFQF 283

Query: 189 VNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYG 248
           VNFTEIMSKNVDRS+KEAEFALAALMEIPSQY+A LE +ILG+ RGKA+DR+ LPPPQYG
Sbjct: 284 VNFTEIMSKNVDRSKKEAEFALAALMEIPSQYRATLELSILGSTRGKAIDRIPLPPPQYG 343

Query: 249 AASQNTPKTSRSSSFRPSAPSG-----HERVVGTAPPASSTSDNHVCPICLTDPKDMAFG 303
           AA+ +  K SRSSSF PSAPS             APPASSTSDNH+CPICLT+ KDMAFG
Sbjct: 344 AATLSNSKPSRSSSFHPSAPSSGRYNAQAAGTAPAPPASSTSDNHLCPICLTNAKDMAFG 403

Query: 304 CGHQTCCGCGQDLDLCPICRSFIQTRIKLY 333
           CGHQTCC CGQDL LCPICRS I TRIKLY
Sbjct: 404 CGHQTCCDCGQDLQLCPICRSSINTRIKLY 433

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449440616|ref|XP_004138080.1| PREDICTED: E3 ubiquitin-protein ligase RGLG2-like [Cucumis sativus] gi|449525732|ref|XP_004169870.1| PREDICTED: E3 ubiquitin-protein ligase RGLG2-like [Cucumis sativus]

 Score =  540 bits (1391), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 263/325 (80%), Positives = 282/325 (86%), Gaps = 2/325 (0%)

Query: 9   ARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD 68
           ARSF RRSLHHIG++QNPYEQAI+IIG+TLSSFDEDN+IPCFGFGDASTHDQEVFSFY D
Sbjct: 110 ARSFNRRSLHHIGEEQNPYEQAIAIIGQTLSSFDEDNMIPCFGFGDASTHDQEVFSFYSD 169

Query: 69  EKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTR 128
           E+FCNGFEEVL RY+ELVPHLRLAGPTSFAPIIEMAITIVE SGGQYHVLVIIADGQVTR
Sbjct: 170 ERFCNGFEEVLGRYKELVPHLRLAGPTSFAPIIEMAITIVEQSGGQYHVLVIIADGQVTR 229

Query: 129 SVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF 188
           SVDTE GQ S QEKKT+EAIVKAS+YPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF
Sbjct: 230 SVDTERGQFSPQEKKTIEAIVKASKYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF 289

Query: 189 VNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYG 248
           VNFT IM KN+DRSRKEAEFALAALMEIPSQYKA LE  +LG  RGKA+DR+ LPPP YG
Sbjct: 290 VNFTNIMLKNIDRSRKEAEFALAALMEIPSQYKATLELGLLGVSRGKAIDRIPLPPPFYG 349

Query: 249 AASQNTPKTSRSSSFRPSAPSGHERVVGTAPPASSTSDNHVCPICLTDPKDMAFGCGHQT 308
            + + T  +S S    PS   G      TAPP SS SD H CPIC+++ KDMAFGCGHQT
Sbjct: 350 PSVRKTSNSSSSRPTPPSFSGGAPGR--TAPPLSSVSDAHACPICISNAKDMAFGCGHQT 407

Query: 309 CCGCGQDLDLCPICRSFIQTRIKLY 333
           CC CGQDL LCPICRSFI TRIKLY
Sbjct: 408 CCECGQDLQLCPICRSFIDTRIKLY 432

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225452296|ref|XP_002271885.1| PREDICTED: E3 ubiquitin-protein ligase RGLG2 [Vitis vinifera] gi|296087586|emb|CBI34842.3| unnamed protein product [Vitis vinifera]

 Score =  534 bits (1375), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 261/330 (79%), Positives = 287/330 (86%), Gaps = 5/330 (1%)

Query: 9   ARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD 68
           ARSF R+SLHH+GD  NPY+QAISIIGKTL++FDEDN+IPCFGFGDASTHDQ+VFSFY D
Sbjct: 132 ARSFNRQSLHHVGDGLNPYQQAISIIGKTLAAFDEDNMIPCFGFGDASTHDQDVFSFYED 191

Query: 69  EKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTR 128
           E+FCNGFEEVL RYRE+VP LRLAGPTSFAPIIEMA+TIV HSGGQYHVLVIIADGQVTR
Sbjct: 192 ERFCNGFEEVLSRYREIVPRLRLAGPTSFAPIIEMAMTIVNHSGGQYHVLVIIADGQVTR 251

Query: 129 SVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF 188
           SVDT HGQLS QE+KTVEAIV+AS+ PLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF
Sbjct: 252 SVDTAHGQLSPQEQKTVEAIVEASKLPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF 311

Query: 189 VNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYG 248
           VNFTEIMSKNVD SRKE EFALAALMEIPSQYKA +E NILG ++G A +RV LP P Y 
Sbjct: 312 VNFTEIMSKNVDLSRKETEFALAALMEIPSQYKATIELNILGGRKGDAPERVPLPTPMYY 371

Query: 249 AASQ--NTPKTSRSSSFRPSAPSGHE--RVVGTAPPA-SSTSDNHVCPICLTDPKDMAFG 303
            A+   N+ K SR++SF+PS P   E    VGTAPPA SST DN +CPICLT+ K+MAFG
Sbjct: 372 GATSFFNSSKPSRTTSFQPSVPPYPEDSSPVGTAPPATSSTFDNQLCPICLTNVKNMAFG 431

Query: 304 CGHQTCCGCGQDLDLCPICRSFIQTRIKLY 333
           CGHQTCC CG DL+ CPICRS IQTRIKLY
Sbjct: 432 CGHQTCCECGPDLETCPICRSPIQTRIKLY 461

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224055595|ref|XP_002298557.1| predicted protein [Populus trichocarpa] gi|222845815|gb|EEE83362.1| predicted protein [Populus trichocarpa]

 Score =  533 bits (1374), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 256/328 (78%), Positives = 287/328 (87%), Gaps = 3/328 (0%)

Query: 9   ARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD 68
           ARS+ RR LHHIGD  NPYEQAISIIGKTL++FDEDNLIPCFGFGDASTHDQ+VFSFYPD
Sbjct: 49  ARSYNRRCLHHIGDGFNPYEQAISIIGKTLAAFDEDNLIPCFGFGDASTHDQDVFSFYPD 108

Query: 69  EKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTR 128
           E+FCNGFEEVL RYRE+VP+LRLAGPTSFAPIIEMA+TIVE S GQYHVL+IIADGQVTR
Sbjct: 109 ERFCNGFEEVLSRYREIVPNLRLAGPTSFAPIIEMAMTIVEQSAGQYHVLLIIADGQVTR 168

Query: 129 SVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF 188
           SVDTEHGQLS QE+KTVEAIV+AS+ PLSIILVGVGDGPWDMMREFDDNIPAR FDNFQF
Sbjct: 169 SVDTEHGQLSPQEQKTVEAIVQASKLPLSIILVGVGDGPWDMMREFDDNIPARDFDNFQF 228

Query: 189 VNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYG 248
           VNFTEIMSKNVD SRKE EFAL+ALMEIPSQYKA +E +ILG  +G   +RV+LPPP YG
Sbjct: 229 VNFTEIMSKNVDTSRKETEFALSALMEIPSQYKATIELSILGQSKGIVSERVALPPPLYG 288

Query: 249 AASQNTPKTSRSSSFRPSAPSGHE--RVVGTAPPAS-STSDNHVCPICLTDPKDMAFGCG 305
           AAS ++ K SR +SF+PS PS     +   +APPA+ ST DN +CPICL++ KDMAFGCG
Sbjct: 289 AASFSSSKPSRPASFKPSVPSYQRDSQPFSSAPPATCSTYDNQLCPICLSNSKDMAFGCG 348

Query: 306 HQTCCGCGQDLDLCPICRSFIQTRIKLY 333
           HQTCC CG+ L LCPICRS I+TRIKL+
Sbjct: 349 HQTCCECGETLQLCPICRSTIETRIKLF 376

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359473120|ref|XP_002282202.2| PREDICTED: E3 ubiquitin-protein ligase RGLG2-like [Vitis vinifera] gi|296081383|emb|CBI16816.3| unnamed protein product [Vitis vinifera]

 Score =  528 bits (1360), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 256/328 (78%), Positives = 284/328 (86%), Gaps = 3/328 (0%)

Query: 9   ARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD 68
           +RSF R+SLHHIG  QNPYEQAISIIGKTLS+FDEDNLIPCFGFGDASTHDQ++FSFY D
Sbjct: 114 SRSFNRKSLHHIGRGQNPYEQAISIIGKTLSAFDEDNLIPCFGFGDASTHDQDIFSFYQD 173

Query: 69  EKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTR 128
           E+ CNGFEEVL RYRELVP LRLAGPTSFAPIIEMA TIVE SGGQYHVL+IIADGQVTR
Sbjct: 174 ERPCNGFEEVLMRYRELVPSLRLAGPTSFAPIIEMASTIVEKSGGQYHVLLIIADGQVTR 233

Query: 129 SVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF 188
           SVDT+HGQLSSQE+KT++AIVKAS+YPLSIILVGVGDGPWD+MREFDDNIPARAFDNFQF
Sbjct: 234 SVDTQHGQLSSQEQKTIDAIVKASKYPLSIILVGVGDGPWDVMREFDDNIPARAFDNFQF 293

Query: 189 VNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYG 248
           VNFTEIMSKNVD SR + EFALAALMEIPSQYKA ++ N LG +RG A  RV+LPPPQYG
Sbjct: 294 VNFTEIMSKNVDSSRTQTEFALAALMEIPSQYKATIDLNTLGVRRGNAPTRVALPPPQYG 353

Query: 249 AAS-QNTPKTSRSSSFRPSAPS--GHERVVGTAPPASSTSDNHVCPICLTDPKDMAFGCG 305
             S  ++ K   S+SF+ SA S   +E  V T P ++S  DN VCPICL++PKDMAFGCG
Sbjct: 354 TPSFSSSSKPYHSNSFQKSAESYPEYEAAVSTGPSSNSLYDNKVCPICLSNPKDMAFGCG 413

Query: 306 HQTCCGCGQDLDLCPICRSFIQTRIKLY 333
           HQTCC CG DL+ CPICRS IQTRIKLY
Sbjct: 414 HQTCCECGVDLNSCPICRSPIQTRIKLY 441

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255548002|ref|XP_002515058.1| copine, putative [Ricinus communis] gi|223546109|gb|EEF47612.1| copine, putative [Ricinus communis]

 Score =  528 bits (1360), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 259/355 (72%), Positives = 290/355 (81%), Gaps = 30/355 (8%)

Query: 9   ARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD 68
           ARS+ RRSLHHIG+ QNPYEQAISIIG+TLS+FDEDNLIPCFGFGDASTHDQ+VFSF+ D
Sbjct: 124 ARSYNRRSLHHIGNGQNPYEQAISIIGRTLSAFDEDNLIPCFGFGDASTHDQDVFSFHQD 183

Query: 69  EKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTR 128
           E+FCNGFEEVL RYRE+VP LRLAGPTSFAPII+MAITIVE SGGQYHVL+IIADGQVTR
Sbjct: 184 ERFCNGFEEVLTRYREIVPQLRLAGPTSFAPIIDMAITIVEQSGGQYHVLLIIADGQVTR 243

Query: 129 SVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF 188
           S+DT+HGQLS QE++T++AIVKASEYPLSIILVGVGDGPWDMMREFDDNIPAR FDNFQF
Sbjct: 244 SIDTQHGQLSPQEQRTIDAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARVFDNFQF 303

Query: 189 VNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYG 248
           VNFTEIMSKNV++SRKE EFALAALMEIP+QYKA +E  ILG + G   +RV LPPP  G
Sbjct: 304 VNFTEIMSKNVNQSRKETEFALAALMEIPAQYKATIELGILGQRTGNCPERVPLPPPIRG 363

Query: 249 AAS-QNTPKTSRSSSFRPSAPS-----------------------------GHERVVGTA 278
           A+S  N+PK S+SSSF+  APS                             G++  V T 
Sbjct: 364 ASSFSNSPKPSQSSSFQQRAPSYSGYDASGPSYSGYDGSVPSYSGQDTVVAGYDTPVNTN 423

Query: 279 PPASSTSDNHVCPICLTDPKDMAFGCGHQTCCGCGQDLDLCPICRSFIQTRIKLY 333
           P ASST DN VCPICLT+ KDMAFGCGHQTCC CG+DL LCPICRS IQTRI+LY
Sbjct: 424 PHASSTYDNQVCPICLTNRKDMAFGCGHQTCCECGEDLQLCPICRSPIQTRIRLY 478

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

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	333
TAIR|locus:2145643	468	RGLG2 "RING domain ligase2" [A	0.975	0.694	0.676	7.1e-116
TAIR|locus:2084218	489	RGLG1 "RING domain ligase1" [A	0.954	0.650	0.661	1.4e-112
TAIR|locus:2008570	453	AT1G67800 [Arabidopsis thalian	0.966	0.710	0.649	5.9e-112
TAIR|locus:2160821	367	RGLG3 "RING DOMAIN LIGASE 3" [	0.936	0.850	0.563	6.5e-90
TAIR|locus:2206395	401	RGLG4 "RING DOMAIN LIGASE 4" [	0.705	0.586	0.629	5e-89
DICTYBASE|DDB_G0272196	284	DDB_G0272196 "copine family pr	0.609	0.714	0.511	2.8e-50
WB|WBGene00006495	1107	cpna-1 [Caenorhabditis elegans	0.666	0.200	0.439	9.9e-44
ZFIN|ZDB-GENE-040426-1398	574	cpne5 "copine V" [Danio rerio	0.588	0.341	0.327	1.4e-22
UNIPROTKB|F1S4V8	537	CPNE1 "Uncharacterized protein	0.630	0.391	0.342	1.1e-21
UNIPROTKB|E1BQA5	539	CPNE3 "Uncharacterized protein	0.573	0.354	0.348	1.2e-21

TAIR|locus:2145643 RGLG2 "RING domain ligase2" [Arabidopsis thaliana (taxid:3702)]

 Score = 1142 (407.1 bits), Expect = 7.1e-116, P = 7.1e-116
 Identities = 224/331 (67%), Positives = 259/331 (78%)

Query:     9 ARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD 68
             ARSF R+SLH IG   NPYEQAI+IIG+TL++FDEDNLIPC+GFGDASTHDQ+VFSF  +
Sbjct:   138 ARSFNRKSLHFIGSSPNPYEQAITIIGRTLAAFDEDNLIPCYGFGDASTHDQDVFSFNSE 197

Query:    69 EKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTR 128
             ++FCNGFEEVL RY+E+VP L+LAGPTSFAPII+MA+TIVE SGGQYHVLVIIADGQVTR
Sbjct:   198 DRFCNGFEEVLSRYKEIVPQLKLAGPTSFAPIIDMAMTIVEQSGGQYHVLVIIADGQVTR 257

Query:   129 SVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF 188
             SVDTE+GQLS QE+KTV+AIV+AS+ PLSI+LVGVGDGPWDMMREFDDNIPARAFDNFQF
Sbjct:   258 SVDTENGQLSPQEQKTVDAIVQASKLPLSIVLVGVGDGPWDMMREFDDNIPARAFDNFQF 317

Query:   189 VNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYG 248
             VNFTEIM+KN  +S KE EFAL+ALMEIP QYKA +E N+LG + G   +R  LPPP  G
Sbjct:   318 VNFTEIMAKNKAQSLKETEFALSALMEIPQQYKATIELNLLGRRNGYIPERFPLPPPMRG 377

Query:   249 AASQ-NTPKTXXXXXXXXXX----XXG-HERVVGTAPPASSTSDNHVCPICLTDPKDMAF 302
              +S  N+PK                 G H R     PP SS SDN +CPICL++PKDMAF
Sbjct:   378 GSSSYNSPKPSRLPSFKPSVPPHPTEGYHVRSSPVPPPTSSASDNQLCPICLSNPKDMAF 437

Query:   303 XXXXXXXXXXXXDLDLCPICRSFIQTRIKLY 333
                         DL +CPICR+ IQTRIKLY
Sbjct:   438 GCGHQTCCECGPDLQMCPICRAPIQTRIKLY 468

GO:0005886 "plasma membrane" evidence=ISM;IDA

GO:0008270 "zinc ion binding" evidence=IEA

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

GO:0009690 "cytokinin metabolic process" evidence=IGI;RCA

GO:0009850 "auxin metabolic process" evidence=IGI

GO:0005634 "nucleus" evidence=IDA

GO:0080148 "negative regulation of response to water deprivation" evidence=IGI

TAIR|locus:2084218 RGLG1 "RING domain ligase1" [Arabidopsis thaliana (taxid:3702)]

 Score = 1111 (396.2 bits), Expect = 1.4e-112, P = 1.4e-112
 Identities = 215/325 (66%), Positives = 255/325 (78%)

Query:     9 ARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD 68
             A+SF R+SLHH+ +  NPYEQAI+IIG+TL++FDEDNLIPC+GFGDASTHDQ+VFSFYP+
Sbjct:   172 AKSFNRKSLHHLSNTPNPYEQAITIIGRTLAAFDEDNLIPCYGFGDASTHDQDVFSFYPE 231

Query:    69 EKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTR 128
              +FCNGFEEVL RYRE+VP L+LAGPTSFAPIIEMA+T+VE S GQYHVLVIIADGQVTR
Sbjct:   232 GRFCNGFEEVLARYREIVPQLKLAGPTSFAPIIEMAMTVVEQSSGQYHVLVIIADGQVTR 291

Query:   129 SVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF 188
             SVDTEHG+LS QE+KTV+AIVKAS  PLSI+LVGVGDGPWDMM+EFDDNIPARAFDNFQF
Sbjct:   292 SVDTEHGRLSPQEQKTVDAIVKASTLPLSIVLVGVGDGPWDMMQEFDDNIPARAFDNFQF 351

Query:   189 VNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYG 248
             VNFTEIMSKN D+SRKE EFAL+ALMEIP QYKA +E N+LG + G    R+ LPPP   
Sbjct:   352 VNFTEIMSKNKDQSRKETEFALSALMEIPPQYKATIELNLLGVRNGNIPQRIPLPPPVQS 411

Query:   249 AASQNTPKTXXXXXXXXXXXXGHERVVGTAPPASSTSDNHVCPICLTDPKDMAFXXXXXX 308
              +S ++ +               +++       SS  D  +CPICL++PK+MAF      
Sbjct:   412 GSSFSSSRIPNFEPSVPPYPFESKQM-------SSADDIQLCPICLSNPKNMAFGCGHQT 464

Query:   309 XXXXXXDLDLCPICRSFIQTRIKLY 333
                   DL +CPICR+ IQTRIKLY
Sbjct:   465 CCECGPDLKVCPICRAPIQTRIKLY 489

GO:0005886 "plasma membrane" evidence=ISM;IDA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0009690 "cytokinin metabolic process" evidence=IGI;RCA

GO:0009850 "auxin metabolic process" evidence=IGI

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

GO:0080148 "negative regulation of response to water deprivation" evidence=IGI

TAIR|locus:2008570 AT1G67800 [Arabidopsis thaliana (taxid:3702)]

 Score = 1105 (394.0 bits), Expect = 5.9e-112, P = 5.9e-112
 Identities = 213/328 (64%), Positives = 254/328 (77%)

Query:     9 ARSFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD 68
             ARSF R+SLH IG   NPY+QAISIIGKTLS FDEDNLIPC+GFGDA+THDQ+VFSF P+
Sbjct:   129 ARSFGRKSLHFIGTTPNPYQQAISIIGKTLSVFDEDNLIPCYGFGDATTHDQDVFSFNPN 188

Query:    69 EKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTR 128
             + +CNGFEEVL  YRE+VP LRL+GPTSFAPIIE A+TIVE SGGQYHVL+IIADGQVTR
Sbjct:   189 DTYCNGFEEVLMCYREIVPQLRLSGPTSFAPIIERAMTIVEESGGQYHVLLIIADGQVTR 248

Query:   129 SVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF 188
             SVDT++G  S QE++T++AIV+ASEYPLSI+LVGVGDGPWD MR+FDDNIPARAFDNFQF
Sbjct:   249 SVDTDNGGFSPQEQQTIDAIVRASEYPLSIVLVGVGDGPWDTMRQFDDNIPARAFDNFQF 308

Query:   189 VNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYG 248
             VNFT+IMSKN+D +RKEAEFAL+ALMEIPSQYKA LE  +LG + G   DR++LPPP Y 
Sbjct:   309 VNFTDIMSKNIDPARKEAEFALSALMEIPSQYKATLELGLLGQRTGHCPDRIALPPPTYA 368

Query:   249 AAS-QNTPKTXXXXXXXXXXXXGHERVVGTAPPASS--TSDNHVCPICLTDPKDMAFXXX 305
               S +N+P+T             ++  V + PP+++   S    CP+CL   K+MAF   
Sbjct:   369 TQSMRNSPRTSRSTSFQNKP---YDNGVSSTPPSTTHNESQQQFCPVCLVSAKNMAFNCG 425

Query:   306 XXXXXXXXXDLDLCPICRSFIQTRIKLY 333
                      DL +CPICRS I  RIKLY
Sbjct:   426 HQTCAGCGEDLHVCPICRSSISVRIKLY 453

GO:0005886 "plasma membrane" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

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

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

GO:0009863 "salicylic acid mediated signaling pathway" evidence=RCA

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

GO:0045087 "innate immune response" evidence=RCA

TAIR|locus:2160821 RGLG3 "RING DOMAIN LIGASE 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 897 (320.8 bits), Expect = 6.5e-90, P = 6.5e-90
 Identities = 182/323 (56%), Positives = 220/323 (68%)

Query:    11 SFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEK 70
             SF R+SLH IG  QNPYE+AISIIG+TLS FDED+LIPCFGFGD +T DQ VFSFYP+ K
Sbjct:    55 SFNRKSLHAIGKRQNPYEKAISIIGRTLSPFDEDDLIPCFGFGDVTTRDQYVFSFYPENK 114

Query:    71 FCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTRSV 130
              C+G E  ++RYRE+VPHL+L+GPTSFAP+I+ AI IVE +  QYHVLVIIADGQVTR+ 
Sbjct:   115 SCDGLENAVKRYREIVPHLKLSGPTSFAPVIDAAINIVEQNNMQYHVLVIIADGQVTRNP 174

Query:   131 DTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQFVN 190
             D   G+LS QE+ T+ +I+ AS YPLSI+LVGVGDGPWD M++FDDNIP R FDNFQFVN
Sbjct:   175 DVPLGRLSPQEEATMNSIMAASHYPLSIVLVGVGDGPWDTMKQFDDNIPHREFDNFQFVN 234

Query:   191 FTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYGAA 250
             FT+IMS++ D ++KEA FALAALMEIP QYKA L  N     R        LPPP     
Sbjct:   235 FTKIMSEHKDAAKKEAAFALAALMEIPFQYKATLSLNRKPV-RSSHQHHKPLPPPPEVIE 293

Query:   251 SQNTPKTXXXXXXXXXXXXGHERVVGTAPPASSTSDNHVCPICLTDPKDMAFXXXXXXXX 310
               N  ++              +R+  +  P        VCPICLT+PKDMAF        
Sbjct:   294 RDNAVRSVPNQMTETAEKS--DRLAPSTVP--------VCPICLTNPKDMAFSCGHTTCK 343

Query:   311 XXXXDLDLCPICRSFIQTRIKLY 333
                  +  CP+CR  I TRI+LY
Sbjct:   344 ECGVVITTCPLCRQPITTRIRLY 366

GO:0005886 "plasma membrane" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0009690 "cytokinin metabolic process" evidence=RCA

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

GO:0009611 "response to wounding" evidence=IMP

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

GO:0042742 "defense response to bacterium" evidence=IMP

TAIR|locus:2206395 RGLG4 "RING DOMAIN LIGASE 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 797 (285.6 bits), Expect = 5.0e-89, Sum P(2) = 5.0e-89
 Identities = 148/235 (62%), Positives = 182/235 (77%)

Query:    11 SFQRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEK 70
             SF  + LH +G+  NPYE+AI +IG+TL+ FDEDNLIPCFGFGD++THD+EVF F+ D  
Sbjct:    97 SFDGKCLHALGETSNPYEKAIFVIGQTLAPFDEDNLIPCFGFGDSTTHDEEVFGFHSDNS 156

Query:    71 FCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTRSV 130
              C+GFEEVL  Y+ + P+LRL+GPTS+ P+I+ A+ IVE + GQ+HVLVI+ADGQVTR  
Sbjct:   157 PCHGFEEVLACYKRIAPNLRLSGPTSYGPLIDAAVDIVEKNNGQFHVLVIVADGQVTRGT 216

Query:   131 DTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQFVN 190
             D   G+LS QEK T++AIV AS Y LSI+LVGVGDGPW+ MR+FDD IP R FDNFQFVN
Sbjct:   217 DMAEGELSQQEKTTIDAIVNASSYALSIVLVGVGDGPWEDMRKFDDKIPKREFDNFQFVN 276

Query:   191 FTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPP 245
             FTEIM++N   S KE  FALAALMEIP QY+AA+E  +LG Q G A   V  PPP
Sbjct:   277 FTEIMTRNSPESAKETAFALAALMEIPFQYQAAIELRLLGKQTGLAKTIVPRPPP 331

GO:0005886 "plasma membrane" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006487 "protein N-linked glycosylation" evidence=RCA

GO:0006816 "calcium ion transport" evidence=RCA

GO:0009690 "cytokinin metabolic process" evidence=RCA

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

GO:0009611 "response to wounding" evidence=IMP

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

GO:0042742 "defense response to bacterium" evidence=IMP

DICTYBASE|DDB_G0272196 DDB_G0272196 "copine family protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 523 (189.2 bits), Expect = 2.8e-50, P = 2.8e-50
 Identities = 113/221 (51%), Positives = 149/221 (67%)

Query:    10 RSFQRRSLHHIGDDQ-NPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD 68
             ++F  + LH I     NPY++AI IIGKTLS FD+DNL+P +GFGD+ T D+ VFSF   
Sbjct:    81 KTFGGKCLHDIQPGMLNPYQEAIEIIGKTLSVFDDDNLLPTYGFGDSRTTDKSVFSF-TT 139

Query:    69 EKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTR 128
             E+ C GF EVL++Y E+ P + L+GPTSFAPII   I I   +   YH+LVIIADG+V  
Sbjct:   140 ERPCFGFNEVLQKYNEITPLVSLSGPTSFAPIIRETINITA-AAKAYHILVIIADGEV-- 196

Query:   129 SVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQF 188
             SV  E          T++AI +AS+YP+SII +GVGDGPWD M +FDD++P R FDNFQF
Sbjct:   197 SVVNE----------TIKAIEEASKYPISIICIGVGDGPWDTMEKFDDDLPERQFDNFQF 246

Query:   189 VNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNIL 229
             V F   M+K  +R   E +FA+AAL EIP Q++   +  +L
Sbjct:   247 VPFHTTMAKAENR---EVDFAVAALQEIPEQFQYIKQLGLL 284

GO:0044351 "macropinocytosis" evidence=RCA

WB|WBGene00006495 cpna-1 [Caenorhabditis elegans (taxid:6239)]

 Score = 472 (171.2 bits), Expect = 9.9e-44, P = 9.9e-44
 Identities = 105/239 (43%), Positives = 143/239 (59%)

Query:    11 SFQRRSLHHIGDD-QNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDE 69
             SF  RSLH I     NPY+Q ISI+G+TL+ F     +  +GFGDA T D  VF+   + 
Sbjct:   881 SFGGRSLHTIHPHVTNPYQQVISILGRTLAPFAGQGRLGVYGFGDAKTGDWSVFNLKGEG 940

Query:    70 KFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTRS 129
               C   +EVL  Y  + P + L+GPT+FAP+I  A+ I + S   YH+LVIIADGQVT  
Sbjct:   941 GDCRSLDEVLNVYNTVTPTVALSGPTNFAPLIYQAMEICQKSR-DYHILVIIADGQVTN- 998

Query:   130 VDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQFV 189
                        E+ T  AIV+A ++PLSII+VGVGDGPWDMMR FD+++P R +DNF FV
Sbjct:   999 -----------ERATRRAIVQACQHPLSIIVVGVGDGPWDMMRIFDESLPKRPWDNFHFV 1047

Query:   190 NFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQ---RGKAVDRVSLPPP 245
              F EI+ K+ +    + + A+ +L+EIP QY+   E  +L      RG  + R  +  P
Sbjct:  1048 EFHEIVKKSTNMEDGDVKLAVQSLLEIPDQYRCICELGLLDRSIPPRGSEIRREMMHNP 1106

GO:0016021 "integral to membrane" evidence=IEA

GO:0061199 "striated muscle contraction involved in embryonic body morphogenesis" evidence=IMP

ZFIN|ZDB-GENE-040426-1398 cpne5 "copine V" [Danio rerio (taxid:7955)]

 Score = 269 (99.8 bits), Expect = 1.4e-22, P = 1.4e-22
 Identities = 73/223 (32%), Positives = 107/223 (47%)

Query:    13 QRRSLHHIGDDQ-NPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYP---- 67
             Q  SLH++   Q N Y  A+  +G+ +  +D D + P  GFG     D  V   +P    
Sbjct:   335 QSTSLHYMNPYQMNAYALALKAVGEIIQDYDSDKMFPALGFGAKLPPDGRVSHEFPLNGN 394

Query:    68 -DEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVE--HSGGQYHVLVIIADG 124
              +  +CNG E +L  Y + +  ++L GPT+FAP++            G QY +L+II DG
Sbjct:   395 IENPYCNGIEGILEAYHQSLKTVQLYGPTNFAPVVNHVARYAAAVQDGSQYFILLIITDG 454

Query:   125 QVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDN---IPAR 181
              +            S   +T EAIV A++ P+SII+VGVG   +D M E D +   I +R
Sbjct:   455 VI------------SDMSQTKEAIVNAAKLPMSIIIVGVGQAEFDAMVELDGDDIRISSR 502

Query:   182 AF----DNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQY 220
                   D  QFV F + M +  +     A  A   L EIP Q+
Sbjct:   503 GKLAERDIVQFVPFRDYMDRTGNHVLSMARLAKDVLAEIPDQF 545

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

UNIPROTKB|F1S4V8 CPNE1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 260 (96.6 bits), Expect = 1.1e-21, P = 1.1e-21
 Identities = 87/254 (34%), Positives = 122/254 (48%)

Query:    16 SLHHIGDDQ-NPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEV-----FSFYPDE 69
             SLH++     N Y  A+  +G  +  +D D L P FGFG     D +V      +F P  
Sbjct:   304 SLHYLSPTGVNEYLTALWSVGSVVQDYDSDKLFPAFGFGAQVPPDWQVSHEFALNFNPSN 363

Query:    70 KFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIV-----EHSGGQYHVLVIIADG 124
              +C G + ++  YR+ +P +RL GPT+FAPII            + S  QY VL+++ DG
Sbjct:   364 PYCAGIQGIVDAYRQALPQVRLYGPTNFAPIINHVARFAAQAAHQKSASQYFVLLLLTDG 423

Query:   125 QVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFD-DNIP---- 179
              VT   D E          T EA+V+AS  P+S+I+VGVG   ++ M + D D  P    
Sbjct:   424 AVT---DVE---------ATREAVVRASYLPMSVIIVGVGGADFEAMEQLDADGGPLHTR 471

Query:   180 ---ARAFDNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKA 236
                A A D  QFV +     +N  R   EA  A   L E+P+Q  +  +     AQ G A
Sbjct:   472 SGEAAARDIVQFVPYRRF--QNAPR---EA-LAQTVLAEVPTQLVSYFK-----AQ-GWA 519

Query:   237 VDRVSLPPPQYGAA 250
               +  LPPP  G A
Sbjct:   520 PFK-PLPPPTKGPA 532

GO:0005634 "nucleus" evidence=IEA

GO:0001786 "phosphatidylserine binding" evidence=IEA

UNIPROTKB|E1BQA5 CPNE3 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 260 (96.6 bits), Expect = 1.2e-21, P = 1.2e-21
 Identities = 76/218 (34%), Positives = 107/218 (49%)

Query:    16 SLHHIGDDQ-NPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEV-----FSFYPDE 69
             SLH++  D  N Y  AI  +G  +  +D D + P FGFG       +V      +F P  
Sbjct:   310 SLHYLSPDGVNEYLTAIWSVGMVIQDYDTDKMFPVFGFGAQIPPSYQVSHEFPINFNPSN 369

Query:    70 KFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIE-----MAITIVEHSGGQYHVLVIIADG 124
              FCNG + ++  YR  +P +RL GPT+F+PII       A    + +  QY +L+II DG
Sbjct:   370 PFCNGIQGIVDAYRACLPQVRLYGPTNFSPIINHVARFAAAATQQQTASQYFILLIITDG 429

Query:   125 QVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFD-DNIPARAF 183
              +T   D +         +T  AIV AS+ P+SII+VGVG   +D M   D DN   R+ 
Sbjct:   430 VIT---DLD---------QTRTAIVNASKLPMSIIIVGVGGADFDAMEFLDGDNGVLRSS 477

Query:   184 DNFQFV-NFTEIMS-KNVDRSRKEAEFALAALMEIPSQ 219
                  V +  + +  +    S KEA  A   L EIP Q
Sbjct:   478 SGEPAVRDIVQFVPFRKFQNSPKEA-LAQCVLAEIPQQ 514

GO:0004674 "protein serine/threonine kinase activity" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9LY87	RGLG2_ARATH	6, ., 3, ., 2, ., -	0.7250	0.9759	0.6944	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.2	LOW CONFIDENCE prediction!

---

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	333
cd01459	254	cd01459, vWA_copine_like, VWA Copine: Copines are	1e-92
pfam07002	146	pfam07002, Copine, Copine	5e-71
smart00327	175	smart00327, VWA, von Willebrand factor (vWF) type	4e-10
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	2e-09
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	3e-06
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	8e-05
smart00184	40	smart00184, RING, Ring finger	0.004

>gnl|CDD|238736 cd01459, vWA_copine_like, VWA Copine: Copines are phospholipid-binding proteins originally identified in paramecium

 Score =  276 bits (707), Expect = 1e-92
 Identities = 102/221 (46%), Positives = 135/221 (61%), Gaps = 28/221 (12%)

Query: 13  QRRSLHHIGDDQ-NPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYP---D 68
           ++RSLH+I   + NPY++AI I+G+ L  +D D LIP FGFG   T DQ VFSF+P   +
Sbjct: 49  EKRSLHYISPGRLNPYQKAIRIVGEVLQPYDSDKLIPAFGFGAIVTKDQSVFSFFPGYSE 108

Query: 69  EKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVE--HSGGQYHVLVIIADGQV 126
              C GFE VLR YRE +P++ L+GPT+FAP+I  A  I +  +S  +YH+L+II DG++
Sbjct: 109 SPECQGFEGVLRAYREALPNVSLSGPTNFAPVIRAAANIAKASNSQSKYHILLIITDGEI 168

Query: 127 TRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDD-------NIP 179
           T   +            T++AIV+AS+YPLSI++VGVGDGP+D M   DD       +  
Sbjct: 169 TDMNE------------TIKAIVEASKYPLSIVIVGVGDGPFDAMERLDDDDGLESSDGR 216

Query: 180 ARAFDNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQY 220
               D  QFV FTE MS        EA  A AAL EIPSQ 
Sbjct: 217 IATRDIVQFVPFTEFMSNA---GNPEAALATAALAEIPSQL 254

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. Length = 254

>gnl|CDD|219263 pfam07002, Copine, Copine

 Score =  216 bits (553), Expect = 5e-71
 Identities = 79/158 (50%), Positives = 96/158 (60%), Gaps = 21/158 (13%)

Query: 16  SLHHIGDDQ-NPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEV-----FSFYPDE 69
           SLH+I   Q NPYEQAI I+G+ L  +D D   P FGFG     D EV      +F P+ 
Sbjct: 1   SLHYISPHQPNPYEQAIRIVGEILQPYDSDKRFPAFGFGARLPPDYEVSHDFPLNFNPEN 60

Query: 70  KFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVE---HSGGQYHVLVIIADGQV 126
             CNG E VL  YRE +P+L+L+GPT+FAPII+ A  I E      GQYHVL+II DGQV
Sbjct: 61  PECNGIEGVLNAYREALPNLQLSGPTNFAPIIDAAARIAEASTQKSGQYHVLLIITDGQV 120

Query: 127 TRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVG 164
           T              K T++AIV+AS  PLSII+VGVG
Sbjct: 121 T------------DMKATIDAIVRASHLPLSIIIVGVG 146

This family represents a conserved region approximately 180 residues long within eukaryotic copines. Copines are Ca(2+)-dependent phospholipid-binding proteins that are thought to be involved in membrane-trafficking, and may also be involved in cell division and growth. Length = 146

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

 Score = 57.5 bits (139), Expect = 4e-10
 Identities = 27/179 (15%), Positives = 57/179 (31%), Gaps = 24/179 (13%)

Query: 24  QNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYR 83
            N +E A   + K +   D        G    S   + +F            + +L    
Sbjct: 14  GNRFELAKEFVLKLVEQLDIGPDGDRVGLVTFSDDARVLFPL----NDSRSKDALLEALA 69

Query: 84  ELVPHLRLAGPTSFAPIIEMAITIVEHS-----GGQYHVLVIIADGQVTRSVDTEHGQLS 138
            L    +L G T+    ++ A+  +         G   V+++I DG+             
Sbjct: 70  SLSY--KLGGGTNLGAALQYALENLFSKSAGSRRGAPKVVILITDGESNDG--------- 118

Query: 139 SQEKKTVEAIVKASEYPLSIILVGVG-DGPWDMMREFDD-NIPARAFDNFQFVNFTEIM 195
              K  ++A  +     + + +VGVG D   + +++          F         +++
Sbjct: 119 --PKDLLKAAKELKRSGVKVFVVGVGNDVDEEELKKLASAPGGVYVFLPELLDLLIDLL 175

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|222454 pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RING finger)

 Score = 52.8 bits (127), Expect = 2e-09
 Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 5/49 (10%)

Query: 286 DNHVCPICLTDPKDMAF-GCGHQTCC-GCGQDL---DLCPICRSFIQTR 329
           ++ +C ICL  P+++ F  CGH   C  C + L     CPICR  I++ 
Sbjct: 1   EDDLCVICLERPRNVVFLPCGHLCLCEECAKRLRSKKKCPICRQPIESV 49

Length = 49

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

 Score = 43.3 bits (102), Expect = 3e-06
 Identities = 16/45 (35%), Positives = 19/45 (42%), Gaps = 6/45 (13%)

Query: 286 DNHVCPICLTDPKDMA--FGCGHQTCCGCGQDL----DLCPICRS 324
           +   CPICL   +D      CGH  C  C          CPICR+
Sbjct: 1   EELECPICLDLLRDPVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

>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 = 39.4 bits (92), Expect = 8e-05
 Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 7/44 (15%)

Query: 290 CPICLTDPKD--MAFGCGHQTCCGCGQDLDL-----CPICRSFI 326
           CPICL + ++  +   CGH  C  C           CP+CR+ I
Sbjct: 2   CPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 34.4 bits (79), Expect = 0.004
 Identities = 14/40 (35%), Positives = 16/40 (40%), Gaps = 7/40 (17%)

Query: 290 CPICLTDPKDMAF--GCGHQTCCGC-----GQDLDLCPIC 322
           CPICL +         CGH  C  C         + CPIC
Sbjct: 1   CPICLEEYLKDPVILPCGHTFCRSCIRKWLESGNNTCPIC 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	333
KOG1327	529	consensus Copine [Signal transduction mechanisms]	100.0
cd01459	254	vWA_copine_like VWA Copine: Copines are phospholip	100.0
PF07002	146	Copine: Copine; InterPro: IPR010734 This represent	100.0
PF10138	200	vWA-TerF-like: vWA found in TerF C terminus ; Inte	100.0
cd01457	199	vWA_ORF176_type VWA ORF176 type: Von Willebrand fa	99.73
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.77
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.64
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.52
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.5
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.49
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.44
cd01461	171	vWA_interalpha_trypsin_inhibitor vWA_interalpha tr	98.41
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	98.4
smart00327	177	VWA von Willebrand factor (vWF) type A domain. VWA	98.39
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	98.36
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.32
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.3
PHA02929	238	N1R/p28-like protein; Provisional	98.26
cd01471	186	vWA_micronemal_protein Micronemal proteins: The To	98.22
cd01463	190	vWA_VGCC_like VWA Voltage gated Calcium channel li	98.15
cd01464	176	vWA_subfamily VWA subfamily: Von Willebrand factor	98.13
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.11
PHA02926	242	zinc finger-like protein; Provisional	98.11
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.08
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.06
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.06
cd00198	161	vWFA Von Willebrand factor type A (vWA) domain was	98.03
PF14634	44	zf-RING_5: zinc-RING finger domain	98.02
cd01450	161	vWFA_subfamily_ECM Von Willebrand factor type A (v	97.97
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	97.93
cd01466	155	vWA_C3HC4_type VWA C3HC4-type: Von Willebrand fact	97.92
cd01454	174	vWA_norD_type norD type: Denitrifying bacteria con	97.91
PF13519	172	VWA_2: von Willebrand factor type A domain; PDB: 3	97.9
cd01473	192	vWA_CTRP CTRP for CS protein-TRAP-related protein:	97.9
cd01482	164	vWA_collagen_alphaI-XII-like Collagen: The extrace	97.8
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	97.77
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	97.77
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	97.76
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.75
cd01456	206	vWA_ywmD_type VWA ywmD type:Von Willebrand factor	97.74
cd01465	170	vWA_subgroup VWA subgroup: Von Willebrand factor t	97.72
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	97.65
cd01472	164	vWA_collagen von Willebrand factor (vWF) type A do	97.62
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.58
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	97.58
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	97.53
TIGR03788	596	marine_srt_targ marine proteobacterial sortase tar	97.52
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	97.49
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.47
cd01476	163	VWA_integrin_invertebrates VWA_integrin (invertebr	97.43
cd01470	198	vWA_complement_factors Complement factors B and C2	97.41
cd01453	183	vWA_transcription_factor_IIH_type Transcription fa	97.37
PF13768	155	VWA_3: von Willebrand factor type A domain	97.36
cd01462	152	VWA_YIEM_type VWA YIEM type: Von Willebrand factor	97.29
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	97.22
cd01480	186	vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI	97.2
cd01467	180	vWA_BatA_type VWA BatA type: Von Willebrand factor	97.15
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.14
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	97.13
cd01474	185	vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxi	97.08
cd01475	224	vWA_Matrilin VWA_Matrilin: In cartilaginous plate,	97.06
PF00092	178	VWA: von Willebrand factor type A domain; InterPro	97.0
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	96.99
PTZ00441	576	sporozoite surface protein 2 (SSP2); Provisional	96.98
COG5236	493	Uncharacterized conserved protein, contains RING Z	96.96
cd01469	177	vWA_integrins_alpha_subunit Integrins are a class	96.95
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	96.94
cd01460	266	vWA_midasin VWA_Midasin: Midasin is a member of th	96.91
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.86
PRK13685	326	hypothetical protein; Provisional	96.86
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	96.78
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	96.77
cd01477	193	vWA_F09G8-8_type VWA F09G8.8 type: Von Willebrand	96.72
cd01481	165	vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(V	96.71
cd01451	178	vWA_Magnesium_chelatase Magnesium chelatase: Mg-ch	96.66
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	96.64
PF09967	126	DUF2201: VWA-like domain (DUF2201); InterPro: IPR0	96.6
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	96.54
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.44
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.43
cd01458	218	vWA_ku Ku70/Ku80 N-terminal domain. The Ku78 heter	96.06
cd01452	187	VWA_26S_proteasome_subunit 26S proteasome plays a	96.04
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	95.92
KOG3002	299	consensus Zn finger protein [General function pred	95.61
COG5152	259	Uncharacterized conserved protein, contains RING a	95.52
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	95.5
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	95.41
KOG2660	331	consensus Locus-specific chromosome binding protei	95.27
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	95.23
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	95.08
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	95.07
PF05762	222	VWA_CoxE: VWA domain containing CoxE-like protein;	94.64
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	94.58
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	94.48
KOG0825	1134	consensus PHD Zn-finger protein [General function	94.37
TIGR03436	296	acidobact_VWFA VWFA-related Acidobacterial domain.	94.34
cd01455	191	vWA_F11C1-5a_type Von Willebrand factor type A (vW	94.04
KOG3039	303	consensus Uncharacterized conserved protein [Funct	93.98
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	93.82
KOG0297	391	consensus TNF receptor-associated factor [Signal t	93.74
PF04641	260	Rtf2: Rtf2 RING-finger	93.46
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	93.35
KOG1002	791	consensus Nucleotide excision repair protein RAD16	93.26
COG5175	480	MOT2 Transcriptional repressor [Transcription]	93.07
PRK10997	487	yieM hypothetical protein; Provisional	93.03
TIGR00868	863	hCaCC calcium-activated chloride channel protein 1	91.85
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	91.36
KOG1001	674	consensus Helicase-like transcription factor HLTF/	90.91
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	90.35
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	90.08
COG4245	207	TerY Uncharacterized protein encoded in toxicity p	88.52
COG5222	427	Uncharacterized conserved protein, contains RING Z	88.32
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	88.18
COG2425	437	Uncharacterized protein containing a von Willebran	86.39
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	85.54
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	85.47
COG1240	261	ChlD Mg-chelatase subunit ChlD [Coenzyme metabolis	85.22
COG5219	1525	Uncharacterized conserved protein, contains RING Z	84.99
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	83.49
PF11775	219	CobT_C: Cobalamin biosynthesis protein CobT VWA do	82.85
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	82.74
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	80.76

>KOG1327 consensus Copine [Signal transduction mechanisms]

Probab=100.00  E-value=2.4e-66  Score=515.61  Aligned_cols=214  Identities=48%  Similarity=0.770  Sum_probs=196.3

Q ss_pred             CCCCCCCCCCccccCC-CCCHHHHHHHHHHhhhhccCCCCccceEEeCCCCCC---CCcc--cccCCCCCCCCCHHHHHH
Q 019939            7 PCARSFQRRSLHHIGD-DQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTH---DQEV--FSFYPDEKFCNGFEEVLR   80 (333)
Q Consensus         7 ~~~~~~~~~sLH~~~~-~~N~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~---~~~v--f~~~~~~~~~~G~~gvl~   80 (333)
                      +++.+=++.|||||++ .+|+||+||++||++|+.||.|++||+|||||+.+.   .+++  ++|+|.|++|.|++|||+
T Consensus       297 SNg~p~~~sSLHyi~p~~~N~Y~~Ai~~vG~~lq~ydsdk~fpa~GFGakip~~~~vs~~f~ln~~~~~~~c~Gi~gVl~  376 (529)
T KOG1327|consen  297 SNGDPRNPSSLHYIDPHQPNPYEQAIRSVGETLQDYDSDKLFPAFGFGAKIPPDGQVSHEFVLNFNPEDPECRGIEGVLE  376 (529)
T ss_pred             cCCCCCCCCcceecCCCCCCHHHHHHHHHhhhhcccCCCCccccccccccCCCCcccccceeecCCCCCCccccHHHHHH
Confidence            4455557789999997 789999999999999999999999999999999765   4554  456788999999999999


Q ss_pred             HHHHhCCceeecCCCChHHHHHHHHHHHHhcC---CceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeE
Q 019939           81 RYRELVPHLRLAGPTSFAPIIEMAITIVEHSG---GQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLS  157 (333)
Q Consensus        81 ~Y~~~~~~v~l~gpt~fapvI~~~~~~~~~~~---~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlS  157 (333)
                      +|++++|+|+|+|||+|+|||++|+++|+++.   .+||||||||||+|+|            |++|++||+.||++|||
T Consensus       377 aY~~~lp~v~l~GPTnFaPII~~va~~a~~~~~~~~qY~VLlIitDG~vTd------------m~~T~~AIV~AS~lPlS  444 (529)
T KOG1327|consen  377 AYRKALPNVQLYGPTNFSPIINHVARIAQQSGNTAGQYHVLLIITDGVVTD------------MKETRDAIVSASDLPLS  444 (529)
T ss_pred             HHHhhcccccccCCCccHHHHHHHHHHHHHhccCCcceEEEEEEeCCcccc------------HHHHHHHHHhhccCCeE
Confidence            99999999999999999999999999999875   7899999999999998            99999999999999999


Q ss_pred             EEEEecccCCCCcccccCCCCCC-------cccceeeeeecccccccccccchhHHHHHHHHHHHhHHHHHHHHHh-ccc
Q 019939          158 IILVGVGDGPWDMMREFDDNIPA-------RAFDNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEF-NIL  229 (333)
Q Consensus       158 ii~VGvGd~~f~~m~~ld~~~~~-------r~~DnvqFv~~~~~~~~~~~~~~~~~~la~~~L~EiP~q~~~~~~~-~~l  229 (333)
                      ||||||||+||+.|++||++.+.       |.|||||||+|+|++.++.+.+.++++||+.+|+|||+||++||++ |++
T Consensus       445 IIiVGVGd~df~~M~~lD~d~~~l~~~gr~~~rD~vQFV~f~~~~~~~~~~~~~~~~lA~~vL~EIP~Q~~~y~~~~~~~  524 (529)
T KOG1327|consen  445 IIIVGVGDADFDMMRELDGDDPKLRSPGRIAERDNVQFVPFRDIMNGAENPSDKEAALALAVLAEIPQQYVQYMRLRGIL  524 (529)
T ss_pred             EEEEEeCCCCHHHHHHhhcCCcccccccccccccceEeecHHHHhhcCCcccchhHHHHHHHHHHhhHHHHHHHHhcCCC
Confidence            99999999999999999988765       7899999999999998877777889999999999999999999999 555


Q ss_pred             ccC
Q 019939          230 GAQ  232 (333)
Q Consensus       230 ~~~  232 (333)
                      .++
T Consensus       525 p~~  527 (529)
T KOG1327|consen  525 PKP  527 (529)
T ss_pred             CCC
Confidence            543

>cd01459 vWA_copine_like VWA Copine: Copines are phospholipid-binding proteins originally identified in paramecium

Probab=100.00  E-value=1.3e-61  Score=451.40  Aligned_cols=201  Identities=51%  Similarity=0.849  Sum_probs=180.9

Q ss_pred             CCCCCCCCCCCCccccCC-CCCHHHHHHHHHHhhhhccCCCCccceEEeCCCCCCCCccccc---CCCCCCCCCHHHHHH
Q 019939            5 VGPCARSFQRRSLHHIGD-DQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSF---YPDEKFCNGFEEVLR   80 (333)
Q Consensus         5 ~~~~~~~~~~~sLH~~~~-~~N~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~---~~~~~~~~G~~gvl~   80 (333)
                      ..+++.+-+++||||+++ ..|+||+||++||+||+.||+|++||+||||++.++...++++   ++++|+|.|++||++
T Consensus        41 T~SNg~p~~~~SLHy~~~~~~N~Yq~aI~~vg~il~~yD~D~~ip~~GFGa~~~~~~~v~~~f~~~~~~p~~~Gi~gvl~  120 (254)
T cd01459          41 TKSNGWPGEKRSLHYISPGRLNPYQKAIRIVGEVLQPYDSDKLIPAFGFGAIVTKDQSVFSFFPGYSESPECQGFEGVLR  120 (254)
T ss_pred             CCCCCCCCCCCCcccCCCCCccHHHHHHHHHHHHHHhcCCCCceeeEeecccCCCCCccccccCCCCCCCcccCHHHHHH
Confidence            356667778999999987 6899999999999999999999999999999998765555444   578999999999999


Q ss_pred             HHHHhCCceeecCCCChHHHHHHHHHHHHhcCC--ceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEE
Q 019939           81 RYRELVPHLRLAGPTSFAPIIEMAITIVEHSGG--QYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSI  158 (333)
Q Consensus        81 ~Y~~~~~~v~l~gpt~fapvI~~~~~~~~~~~~--~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSi  158 (333)
                      +|++++++++|+|||+|+|||++|+++++++..  +|+||||||||+|+|            +++|+++|++||++||||
T Consensus       121 aY~~~l~~v~lsGpT~fapvI~~a~~~a~~~~~~~~Y~VLLIiTDG~i~D------------~~~t~~aIv~AS~~PlSI  188 (254)
T cd01459         121 AYREALPNVSLSGPTNFAPVIRAAANIAKASNSQSKYHILLIITDGEITD------------MNETIKAIVEASKYPLSI  188 (254)
T ss_pred             HHHHHhceeeecCcchHHHHHHHHHHHHHHhcCCCceEEEEEECCCCccc------------HHHHHHHHHHHhcCCeEE
Confidence            999999999999999999999999999986643  499999999999997            999999999999999999


Q ss_pred             EEEecccCCCCcccccCC-------CCCCcccceeeeeecccccccccccchhHHHHHHHHHHHhHHHH
Q 019939          159 ILVGVGDGPWDMMREFDD-------NIPARAFDNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQY  220 (333)
Q Consensus       159 i~VGvGd~~f~~m~~ld~-------~~~~r~~DnvqFv~~~~~~~~~~~~~~~~~~la~~~L~EiP~q~  220 (333)
                      ||||||+++|+.|++||+       +++.|.|||||||+|++++...   ..++++||+++|+|||+||
T Consensus       189 iiVGVGd~~F~~M~~LD~d~~l~~~~~~~~~rDnvqFV~f~~~~~~~---~~~~~~La~~~L~EiP~Q~  254 (254)
T cd01459         189 VIVGVGDGPFDAMERLDDDDGLESSDGRIATRDIVQFVPFTEFMSNA---GNPEAALATAALAEIPSQL  254 (254)
T ss_pred             EEEEeCCCChHHHHHhcCccccccccCCcceecceeeecchhhcccc---cccHHHHHHHHHHhccccC
Confidence            999999999999999997       3677899999999999997421   1357899999999999996

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.

>PF07002 Copine: Copine; InterPro: IPR010734 This represents a conserved region approximately 180 residues long within eukaryotic copines

Probab=100.00  E-value=1e-48  Score=337.13  Aligned_cols=137  Identities=47%  Similarity=0.879  Sum_probs=128.9

Q ss_pred             CccccCC-CCCHHHHHHHHHHhhhhccCCCCccceEEeCCCCCCC---CcccccC--CCCCCCCCHHHHHHHHHHhCCce
Q 019939           16 SLHHIGD-DQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHD---QEVFSFY--PDEKFCNGFEEVLRRYRELVPHL   89 (333)
Q Consensus        16 sLH~~~~-~~N~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~---~~vf~~~--~~~~~~~G~~gvl~~Y~~~~~~v   89 (333)
                      ||||+++ .+|+||+||++||++|+.||+|++||+|||||+.+++   +++|+|+  +++++|.|++||+++|++++++|
T Consensus         1 SLH~~~~~~~N~Y~~ai~~vg~il~~Yd~dk~~p~~GFGa~~~~~~~vsh~F~ln~~~~~p~~~Gi~gvl~~Y~~~~~~v   80 (146)
T PF07002_consen    1 SLHYISPNQPNPYQQAIRAVGEILQDYDSDKMIPAYGFGAKIPPDYSVSHCFPLNGNPQNPECQGIDGVLEAYRKALPKV   80 (146)
T ss_pred             CcccCCCCCCCHHHHHHHHHHHHHHhhccCCccceeccCCcCCCCcccccceeeecCCCCCcccCHHHHHHHHHHHhhhe
Confidence            8999998 5999999999999999999999999999999998755   5568876  56899999999999999999999


Q ss_pred             eecCCCChHHHHHHHHHHHHh---cCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecc
Q 019939           90 RLAGPTSFAPIIEMAITIVEH---SGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVG  164 (333)
Q Consensus        90 ~l~gpt~fapvI~~~~~~~~~---~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvG  164 (333)
                      +|+|||+|+|||++|++++++   .+.+|+||||||||+|+|            +++|++||++||++||||||||||
T Consensus        81 ~l~GPT~fapiI~~a~~~a~~~~~~~~~Y~iLlIlTDG~i~D------------~~~T~~aIv~AS~~PlSIIiVGVG  146 (146)
T PF07002_consen   81 QLSGPTNFAPIINHAAKIAKQSNQNGQQYFILLILTDGQITD------------MEETIDAIVEASKLPLSIIIVGVG  146 (146)
T ss_pred             EECCCccHHHHHHHHHHHHhhhccCCceEEEEEEeccccccc------------HHHHHHHHHHHccCCeEEEEEEeC
Confidence            999999999999999999984   567899999999999997            999999999999999999999998

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 [].

>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=100.00  E-value=4.1e-37  Score=275.64  Aligned_cols=187  Identities=22%  Similarity=0.328  Sum_probs=160.7

Q ss_pred             CCccccCCCCCHHHHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCC
Q 019939           15 RSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGP   94 (333)
Q Consensus        15 ~sLH~~~~~~N~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gp   94 (333)
                      .|++... +....|++++++..++.+||+|+.+++|.||.+..+..++.        ...+++.++.....++.+...|.
T Consensus        12 GSM~~~y-k~G~vQ~~~Er~lalA~~~DdDG~i~v~~Fs~~~~~~~~vt--------~~~~~~~v~~~~~~~~~~~~~G~   82 (200)
T PF10138_consen   12 GSMRPLY-KDGTVQRVVERILALAAQFDDDGEIDVWFFSTEFDRLPDVT--------LDNYEGYVDELHAGLPDWGRMGG   82 (200)
T ss_pred             CCCchhh-hCccHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCcCCCcC--------HHHHHHHHHHHhccccccCCCCC
Confidence            4555443 45689999999999999999999999999999877655542        34666767655555555566688


Q ss_pred             CChHHHHHHHHHHHHhc-C-CceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCCCccc
Q 019939           95 TSFAPIIEMAITIVEHS-G-GQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMR  172 (333)
Q Consensus        95 t~fapvI~~~~~~~~~~-~-~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f~~m~  172 (333)
                      |+|+|||++|++++.+. + ..+.++||||||+++|            .+++.++|++||++||+|+|||||+.+|++|+
T Consensus        83 t~y~~vm~~v~~~y~~~~~~~~P~~VlFiTDG~~~~------------~~~~~~~i~~as~~pifwqFVgiG~~~f~fL~  150 (200)
T PF10138_consen   83 TNYAPVMEDVLDHYFKREPSDAPALVLFITDGGPDD------------RRAIEKLIREASDEPIFWQFVGIGDSNFGFLE  150 (200)
T ss_pred             cchHHHHHHHHHHHhhcCCCCCCeEEEEEecCCccc------------hHHHHHHHHhccCCCeeEEEEEecCCcchHHH
Confidence            99999999999999743 2 3488899999999997            89999999999999999999999999999999


Q ss_pred             ccCCCCCCcccceeeeeecccccccccccchhHHHHHHHHHHHhHHHHHHHHHhccc
Q 019939          173 EFDDNIPARAFDNFQFVNFTEIMSKNVDRSRKEAEFALAALMEIPSQYKAALEFNIL  229 (333)
Q Consensus       173 ~ld~~~~~r~~DnvqFv~~~~~~~~~~~~~~~~~~la~~~L~EiP~q~~~~~~~~~l  229 (333)
                      +|| +|.+|.+||++||.+.++.      .++|++||+++|.|+|.|+++++++|||
T Consensus       151 kLD-~l~gR~vDNa~Ff~~~d~~------~lsD~eLy~~LL~Efp~Wl~~ar~~gi~  200 (200)
T PF10138_consen  151 KLD-DLAGRVVDNAGFFAIDDID------ELSDEELYDRLLAEFPDWLKAARAKGIL  200 (200)
T ss_pred             Hhh-ccCCcccCCcCeEecCCcc------cCCHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence            999 5999999999999999984      3789999999999999999999999986

>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=99.73  E-value=1.4e-17  Score=149.80  Aligned_cols=146  Identities=17%  Similarity=0.283  Sum_probs=111.3

Q ss_pred             CCCHHHHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHH
Q 019939           23 DQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIE  102 (333)
Q Consensus        23 ~~N~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~  102 (333)
                      +.+.+++++.+++.++..||.|+...+|+|+....    .+.       . ..+++.+.|.+    +...|+|++.+.|+
T Consensus        26 k~~~ak~~~~~l~~~~~~~D~d~i~l~~f~~~~~~----~~~-------~-~~~~v~~~~~~----~~p~G~T~l~~~l~   89 (199)
T cd01457          26 RWEEAQESTRALARKCEEYDSDGITVYLFSGDFRR----YDN-------V-NSSKVDQLFAE----NSPDGGTNLAAVLQ   89 (199)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCeEEEEecCCccc----cCC-------c-CHHHHHHHHhc----CCCCCcCcHHHHHH
Confidence            45899999999999999999999666666655311    111       1 15566666643    44569999999999


Q ss_pred             HHHHHH-Hhc-C---C-ceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCC-----CeEEEEEecccC--CCC
Q 019939          103 MAITIV-EHS-G---G-QYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEY-----PLSIILVGVGDG--PWD  169 (333)
Q Consensus       103 ~~~~~~-~~~-~---~-~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~-----PlSii~VGvGd~--~f~  169 (333)
                      .+++.+ +.. .   . ++.+++|||||..++            .+++.++|++|++.     +|.|.|||||++  .|.
T Consensus        90 ~a~~~~~~~~~~~~~~p~~~~vIiiTDG~~~d------------~~~~~~~i~~a~~~l~~~~~i~i~~v~vG~~~~~~~  157 (199)
T cd01457          90 DALNNYFQRKENGATCPEGETFLVITDGAPDD------------KDAVERVIIKASDELDADNELAISFLQIGRDPAATA  157 (199)
T ss_pred             HHHHHHHHHHhhccCCCCceEEEEEcCCCCCc------------HHHHHHHHHHHHHhhccccCceEEEEEeCCcHHHHH
Confidence            998543 221 1   1 278999999999886            77889999999863     899999999985  799


Q ss_pred             cccccCCCC--CCcccceeeeeecccccc
Q 019939          170 MMREFDDNI--PARAFDNFQFVNFTEIMS  196 (333)
Q Consensus       170 ~m~~ld~~~--~~r~~DnvqFv~~~~~~~  196 (333)
                      +|++||+.+  .++.||||+||+|.++..
T Consensus       158 ~L~~ld~~~~~~~~~~d~vd~~~~~~~~~  186 (199)
T cd01457         158 FLKALDDQLQEVGAKFDIVDTVTWDDMER  186 (199)
T ss_pred             HHHHHhHHHHhcCCcccceeeeeHHhhhc
Confidence            999999653  457899999999999854

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

>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=98.77  E-value=1.5e-09  Score=76.69  Aligned_cols=44  Identities=41%  Similarity=1.089  Sum_probs=35.8

Q ss_pred             CCCeecccccCCccce-eCCCCc-cchhhhhcC----CCCCCcccccccc
Q 019939          286 DNHVCPICLTDPKDMA-FGCGHQ-TCCGCGQDL----DLCPICRSFIQTR  329 (333)
Q Consensus       286 ~~~~C~ICl~~~~~~~-l~CgH~-fC~~C~~~~----~~CP~CR~~i~~~  329 (333)
                      ++..|.||++...+++ +||||. ||..|+.++    ..||+||++|+++
T Consensus         1 ~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~V   50 (50)
T PF13920_consen    1 EDEECPICFENPRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIESV   50 (50)
T ss_dssp             -HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SEE
T ss_pred             CcCCCccCCccCCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcCC
Confidence            3578999999999955 599999 999999876    7999999999764

...

>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.64  E-value=2.1e-09  Score=76.48  Aligned_cols=47  Identities=45%  Similarity=1.034  Sum_probs=40.2

Q ss_pred             CCeecccccCCccc-eeCCCCcc-chhhhhcCC-----CCCCcccccccccccC
Q 019939          287 NHVCPICLTDPKDM-AFGCGHQT-CCGCGQDLD-----LCPICRSFIQTRIKLY  333 (333)
Q Consensus       287 ~~~C~ICl~~~~~~-~l~CgH~f-C~~C~~~~~-----~CP~CR~~i~~~i~~y  333 (333)
                      ..+|.||++.+.+. .+-|||.+ |.+|..+++     .||+||++|+.+||.|
T Consensus         7 ~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dvIkTY   60 (62)
T KOG4172|consen    7 SDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKDVIKTY   60 (62)
T ss_pred             ccceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHHHHHhh
Confidence            37899999999995 45999995 559997653     7999999999999877

>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.52  E-value=5.6e-08  Score=85.40  Aligned_cols=48  Identities=35%  Similarity=0.890  Sum_probs=38.2

Q ss_pred             CCCeecccccCCcc-c--eeCCCCccchhhhhcC----CCCCCcccccccc--cccC
Q 019939          286 DNHVCPICLTDPKD-M--AFGCGHQTCCGCGQDL----DLCPICRSFIQTR--IKLY  333 (333)
Q Consensus       286 ~~~~C~ICl~~~~~-~--~l~CgH~fC~~C~~~~----~~CP~CR~~i~~~--i~~y  333 (333)
                      .-..|+|||+-+.. +  ...|||.||..|++..    ..||+||..|+.+  .+||
T Consensus       130 ~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~~rI~  186 (187)
T KOG0320|consen  130 GTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQFHRIY  186 (187)
T ss_pred             cccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccchhhheecc
Confidence            34889999999887 3  2499999999999754    5899999988764  4444

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.50  E-value=5.7e-08  Score=87.00  Aligned_cols=46  Identities=30%  Similarity=0.761  Sum_probs=38.1

Q ss_pred             CCCCCCeecccccCCcc-ceeCCCCccchhhhhcC--------------------CCCCCccccccc
Q 019939          283 STSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL--------------------DLCPICRSFIQT  328 (333)
Q Consensus       283 ~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~--------------------~~CP~CR~~i~~  328 (333)
                      ...++..|+||++..++ ++++|||.||..|+.++                    ..||+||.++..
T Consensus        14 ~~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~   80 (193)
T PLN03208         14 DSGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE   80 (193)
T ss_pred             cCCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence            34567899999999999 55699999999999532                    379999999864

>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A

Probab=98.49  E-value=3.2e-08  Score=67.71  Aligned_cols=33  Identities=48%  Similarity=1.084  Sum_probs=25.2

Q ss_pred             ecccccCCcc-ceeCCCCccchhhhhcC--------CCCCCc
Q 019939          290 CPICLTDPKD-MAFGCGHQTCCGCGQDL--------DLCPIC  322 (333)
Q Consensus       290 C~ICl~~~~~-~~l~CgH~fC~~C~~~~--------~~CP~C  322 (333)
                      |+||++.+++ ++++|||+||..|+.+.        ..||.|
T Consensus         1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999999 88899999999999643        268887

>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.44  E-value=1.5e-07  Score=85.98  Aligned_cols=50  Identities=34%  Similarity=0.720  Sum_probs=41.1

Q ss_pred             CCCCCeecccccCCcc-ceeCCCCccchhhhhcC-------CCCCCcccccc--cccccC
Q 019939          284 TSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL-------DLCPICRSFIQ--TRIKLY  333 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~-------~~CP~CR~~i~--~~i~~y  333 (333)
                      ......|.||+|..++ |+..|||.||..|+-++       +.||+|+..+.  ++|.||
T Consensus        44 ~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlY  103 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLY  103 (230)
T ss_pred             CCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeee
Confidence            3456899999999999 66699999999999644       47999999885  467766

>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=98.41  E-value=2.2e-06  Score=73.94  Aligned_cols=131  Identities=19%  Similarity=0.296  Sum_probs=91.5

Q ss_pred             CHHHHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHHH
Q 019939           25 NPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMA  104 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~~  104 (333)
                      ...+.+...+..++..+..+..+.+++|+.........       ....+.+.+ +...+.+..+...|.|++...|+.+
T Consensus        18 ~~~~~~~~al~~~l~~l~~~~~~~l~~Fs~~~~~~~~~-------~~~~~~~~~-~~~~~~l~~~~~~g~T~l~~al~~a   89 (171)
T cd01461          18 TKIEQTKEALLTALKDLPPGDYFNIIGFSDTVEEFSPS-------SVSATAENV-AAAIEYVNRLQALGGTNMNDALEAA   89 (171)
T ss_pred             hhHHHHHHHHHHHHHhCCCCCEEEEEEeCCCceeecCc-------ceeCCHHHH-HHHHHHHHhcCCCCCcCHHHHHHHH
Confidence            34778888888888889888889999999864321110       001222222 2223344455668999999999999


Q ss_pred             HHHHHhcCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEeccc-CCCCcccccC
Q 019939          105 ITIVEHSGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGD-GPWDMMREFD  175 (333)
Q Consensus       105 ~~~~~~~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd-~~f~~m~~ld  175 (333)
                      .+..+.....-.++++||||...+            .+++.+++.++.+..+.|..||+|. .+...|+.+-
T Consensus        90 ~~~l~~~~~~~~~iillTDG~~~~------------~~~~~~~~~~~~~~~i~i~~i~~g~~~~~~~l~~ia  149 (171)
T cd01461          90 LELLNSSPGSVPQIILLTDGEVTN------------ESQILKNVREALSGRIRLFTFGIGSDVNTYLLERLA  149 (171)
T ss_pred             HHhhccCCCCccEEEEEeCCCCCC------------HHHHHHHHHHhcCCCceEEEEEeCCccCHHHHHHHH
Confidence            888765333456899999999765            5677788888877788899999996 4666677665

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.

>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.40  E-value=3.3e-08  Score=92.62  Aligned_cols=49  Identities=35%  Similarity=1.101  Sum_probs=43.7

Q ss_pred             CCCCeecccccCCccce-eCCCCcc-chhhhhcCCCCCCcccccccccccC
Q 019939          285 SDNHVCPICLTDPKDMA-FGCGHQT-CCGCGQDLDLCPICRSFIQTRIKLY  333 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~~~-l~CgH~f-C~~C~~~~~~CP~CR~~i~~~i~~y  333 (333)
                      .....|.||++.+++.+ |+|||.. |..|..++..||+||+.|.+++|+|
T Consensus       298 ~~~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm~eCPICRqyi~rvvrif  348 (350)
T KOG4275|consen  298 ATRRLCAICMDAPRDCVFLECGHMVTCTKCGKRMNECPICRQYIVRVVRIF  348 (350)
T ss_pred             hHHHHHHHHhcCCcceEEeecCcEEeehhhccccccCchHHHHHHHHHhhh
Confidence            34789999999999955 5999995 6699999999999999999999987

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

Probab=98.39  E-value=1.6e-06  Score=74.26  Aligned_cols=134  Identities=19%  Similarity=0.315  Sum_probs=95.4

Q ss_pred             CHHHHHHHHHHhhhhccCC---CCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHH
Q 019939           25 NPYEQAISIIGKTLSSFDE---DNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPII  101 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD~---d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI  101 (333)
                      +....+...+..++..+..   +..+-+++|++....   .+++.    ...+.+.+.+......+.  ..|.|++...|
T Consensus        17 ~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~~~~~~---~~~~~----~~~~~~~~~~~i~~~~~~--~~~~~~~~~al   87 (177)
T smart00327       17 NRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFSDDATV---LFPLN----DSRSKDALLEALASLSYK--LGGGTNLGAAL   87 (177)
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCceE---EEccc----ccCCHHHHHHHHHhcCCC--CCCCchHHHHH
Confidence            4556666666666666665   789999999984321   22221    245677777666654443  56889999999


Q ss_pred             HHHHHHHHhc--CC---ceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC-CCCcccccC
Q 019939          102 EMAITIVEHS--GG---QYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG-PWDMMREFD  175 (333)
Q Consensus       102 ~~~~~~~~~~--~~---~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~-~f~~m~~ld  175 (333)
                      +.+.+..++.  ..   ...+++|||||...+            .+.+.+++..+.+..+.|++||+|+. +.+.|+.|.
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~iviitDg~~~~------------~~~~~~~~~~~~~~~i~i~~i~~~~~~~~~~l~~~~  155 (177)
T smart00327       88 QYALENLFSKSAGSRRGAPKVLILITDGESND------------GGDLLKAAKELKRSGVKVFVVGVGNDVDEEELKKLA  155 (177)
T ss_pred             HHHHHHhcCcCCCCCCCCCeEEEEEcCCCCCC------------CccHHHHHHHHHHCCCEEEEEEccCccCHHHHHHHh
Confidence            9999987521  11   256899999999885            14667777777777899999999998 889999888


Q ss_pred             CCCC
Q 019939          176 DNIP  179 (333)
Q Consensus       176 ~~~~  179 (333)
                      ....
T Consensus       156 ~~~~  159 (177)
T smart00327      156 SAPG  159 (177)
T ss_pred             CCCc
Confidence            5544

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.

>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.36  E-value=1.3e-07  Score=91.15  Aligned_cols=51  Identities=39%  Similarity=0.972  Sum_probs=44.7

Q ss_pred             CCCCCCeecccccCCcccee-CCCCccch-hhhhcCCCCCCcccccccccccC
Q 019939          283 STSDNHVCPICLTDPKDMAF-GCGHQTCC-GCGQDLDLCPICRSFIQTRIKLY  333 (333)
Q Consensus       283 ~~~~~~~C~ICl~~~~~~~l-~CgH~fC~-~C~~~~~~CP~CR~~i~~~i~~y  333 (333)
                      .+.....|.||++.+.+.++ ||||.+|| .|.+.+..||+||+.|...+++|
T Consensus       301 ~~~~p~lcVVcl~e~~~~~fvpcGh~ccct~cs~~l~~CPvCR~rI~~~~k~y  353 (355)
T KOG1571|consen  301 ELPQPDLCVVCLDEPKSAVFVPCGHVCCCTLCSKHLPQCPVCRQRIRLVRKRY  353 (355)
T ss_pred             ccCCCCceEEecCCccceeeecCCcEEEchHHHhhCCCCchhHHHHHHHHHHh
Confidence            33455789999999999554 99999998 99999999999999999998877

>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]

Probab=98.32  E-value=2.4e-07  Score=87.02  Aligned_cols=44  Identities=32%  Similarity=0.789  Sum_probs=37.8

Q ss_pred             CCCCeecccccCCcc-ceeCCCCccchhhhhcC----CCCCCccccccc
Q 019939          285 SDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      +....|.+|++...+ ...||||.||..|+..+    ..||+||+.++.
T Consensus       237 ~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~p  285 (293)
T KOG0317|consen  237 EATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQP  285 (293)
T ss_pred             CCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccccCCCcccccCCC
Confidence            456899999999999 66799999999999644    479999998864

>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.30  E-value=2.6e-07  Score=89.15  Aligned_cols=49  Identities=37%  Similarity=0.996  Sum_probs=40.8

Q ss_pred             CCCCeecccccCCcc-ceeCCCCcc-chhhhhcC----CCCCCcccccccccccC
Q 019939          285 SDNHVCPICLTDPKD-MAFGCGHQT-CCGCGQDL----DLCPICRSFIQTRIKLY  333 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~-~~l~CgH~f-C~~C~~~~----~~CP~CR~~i~~~i~~y  333 (333)
                      ++..+|.||++..+| +++||.|.+ |..|++.+    .+||+||++|...+.+|
T Consensus       288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll~i~  342 (349)
T KOG4265|consen  288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEELLEIY  342 (349)
T ss_pred             cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhcCCCccccchHhhheec
Confidence            456899999999999 566999996 55999865    47999999998876654

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.26  E-value=3e-07  Score=85.34  Aligned_cols=47  Identities=32%  Similarity=0.731  Sum_probs=37.0

Q ss_pred             CCCCeecccccCCcc--------cee-CCCCccchhhhhcC----CCCCCcccccccccc
Q 019939          285 SDNHVCPICLTDPKD--------MAF-GCGHQTCCGCGQDL----DLCPICRSFIQTRIK  331 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~--------~~l-~CgH~fC~~C~~~~----~~CP~CR~~i~~~i~  331 (333)
                      ..+.+|+||++...+        .++ +|+|.||..|+...    ..||+||.++..+++
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~v~~  231 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFISVIK  231 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeEEee
Confidence            346799999997543        133 89999999999643    589999999987654

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

Probab=98.22  E-value=9e-06  Score=71.85  Aligned_cols=151  Identities=13%  Similarity=0.181  Sum_probs=93.4

Q ss_pred             HHHHHHHHHhhhhccC---CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHH
Q 019939           27 YEQAISIIGKTLSSFD---EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEM  103 (333)
Q Consensus        27 Y~~ai~~i~~vl~~yD---~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~  103 (333)
                      +.++...+..+++.+.   ++-.+-++.|+....   .++++....  ....+.+.+.-.........+|.|+++..++.
T Consensus        19 ~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs~~~~---~~~~l~~~~--~~~~~~~~~~i~~l~~~~~~~G~T~l~~aL~~   93 (186)
T cd01471          19 VTHVVPFLHTFVQNLNISPDEINLYLVTFSTNAK---ELIRLSSPN--STNKDLALNAIRALLSLYYPNGSTNTTSALLV   93 (186)
T ss_pred             HHHHHHHHHHHHHhcccCCCceEEEEEEecCCce---EEEECCCcc--ccchHHHHHHHHHHHhCcCCCCCccHHHHHHH
Confidence            6777777888887774   345799999997543   223332211  11222322222222233446799999999999


Q ss_pred             HHHHHHhc----CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEeccc-CCCCcccccCCCC
Q 019939          104 AITIVEHS----GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGD-GPWDMMREFDDNI  178 (333)
Q Consensus       104 ~~~~~~~~----~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd-~~f~~m~~ld~~~  178 (333)
                      +.+...+.    .....+++|||||..++            ..++.++..++.+.++-|.+||||. .+.+.|+.|-+.-
T Consensus        94 a~~~l~~~~~~r~~~~~~villTDG~~~~------------~~~~~~~a~~l~~~gv~v~~igiG~~~d~~~l~~ia~~~  161 (186)
T cd01471          94 VEKHLFDTRGNRENAPQLVIIMTDGIPDS------------KFRTLKEARKLRERGVIIAVLGVGQGVNHEENRSLVGCD  161 (186)
T ss_pred             HHHHhhccCCCcccCceEEEEEccCCCCC------------CcchhHHHHHHHHCCCEEEEEEeehhhCHHHHHHhcCCC
Confidence            99887541    12245789999999765            2334445555556789999999996 5777788776432


Q ss_pred             -CCcccceeeeeecccc
Q 019939          179 -PARAFDNFQFVNFTEI  194 (333)
Q Consensus       179 -~~r~~DnvqFv~~~~~  194 (333)
                       ..-..++.-+-+|+++
T Consensus       162 ~~~~~~~~~~~~~~~~~  178 (186)
T cd01471         162 PDDSPCPLYLQSSWSEV  178 (186)
T ss_pred             CCCCCCCeeecCCHHHH
Confidence             1222456655566555

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.

>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=98.15  E-value=2e-05  Score=70.23  Aligned_cols=132  Identities=14%  Similarity=0.232  Sum_probs=87.7

Q ss_pred             CHHHHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCC---CCCCCHHHHHHHHHHhCCceeecCCCChHHHH
Q 019939           25 NPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDE---KFCNGFEEVLRRYRELVPHLRLAGPTSFAPII  101 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~---~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI  101 (333)
                      +..+.|-..+..++..+..+..+-++.|+......   +++....   ......+.    ..+.+..++..|.|++...|
T Consensus        29 ~~l~~ak~~~~~ll~~l~~~d~v~lv~F~~~~~~~---~~~~~~~~~~~~~~~~~~----~~~~l~~l~~~G~T~~~~al  101 (190)
T cd01463          29 QRLHLAKQTVSSILDTLSDNDFFNIITFSNEVNPV---VPCFNDTLVQATTSNKKV----LKEALDMLEAKGIANYTKAL  101 (190)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCEEEEEEeCCCeeEE---eeecccceEecCHHHHHH----HHHHHhhCCCCCcchHHHHH
Confidence            56777777888888888888899999999874422   2211110   00112222    33344567778999999999


Q ss_pred             HHHHHHHHh---c------CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHh--cCCCeEEEEEecccC--CC
Q 019939          102 EMAITIVEH---S------GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKA--SEYPLSIILVGVGDG--PW  168 (333)
Q Consensus       102 ~~~~~~~~~---~------~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~A--S~~PlSii~VGvGd~--~f  168 (333)
                      +.+.+..++   .      ...-.++++||||..++            ..+..+++...  ...++.|..||||.+  +.
T Consensus       102 ~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~------------~~~~~~~~~~~~~~~~~v~i~tigiG~~~~d~  169 (190)
T cd01463         102 EFAFSLLLKNLQSNHSGSRSQCNQAIMLITDGVPEN------------YKEIFDKYNWDKNSEIPVRVFTYLIGREVTDR  169 (190)
T ss_pred             HHHHHHHHHhhhcccccccCCceeEEEEEeCCCCCc------------HhHHHHHhcccccCCCcEEEEEEecCCccccc
Confidence            999887654   1      11235789999998775            34555554432  235899999999974  67


Q ss_pred             CcccccC
Q 019939          169 DMMREFD  175 (333)
Q Consensus       169 ~~m~~ld  175 (333)
                      ..|++|-
T Consensus       170 ~~L~~lA  176 (190)
T cd01463         170 REIQWMA  176 (190)
T ss_pred             hHHHHHH
Confidence            7887775

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.

>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=98.13  E-value=1.1e-05  Score=70.93  Aligned_cols=123  Identities=20%  Similarity=0.328  Sum_probs=80.3

Q ss_pred             HHHHHHHHHhhhhccC---CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHH
Q 019939           27 YEQAISIIGKTLSSFD---EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEM  103 (333)
Q Consensus        27 Y~~ai~~i~~vl~~yD---~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~  103 (333)
                      -.+|+..+...+...+   ++..+-++.|+....   .++++..       +.      ......+...|.|++...+++
T Consensus        24 ~k~a~~~~~~~l~~~~~~~~~~~v~ii~F~~~a~---~~~~l~~-------~~------~~~~~~l~~~GgT~l~~aL~~   87 (176)
T cd01464          24 LNQGLQMLQSELRQDPYALESVEISVITFDSAAR---VIVPLTP-------LE------SFQPPRLTASGGTSMGAALEL   87 (176)
T ss_pred             HHHHHHHHHHHHhcChhhccccEEEEEEecCCce---EecCCcc-------HH------hcCCCcccCCCCCcHHHHHHH
Confidence            3445555555444322   245799999998543   2233321       11      012345667899999999999


Q ss_pred             HHHHHHhcC---------CceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEeccc-CCCCcccc
Q 019939          104 AITIVEHSG---------GQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGD-GPWDMMRE  173 (333)
Q Consensus       104 ~~~~~~~~~---------~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd-~~f~~m~~  173 (333)
                      +.+..+...         ..-.++++||||..+|           +.....+++.++....+.|..||||. .+.+.|++
T Consensus        88 a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~-----------~~~~~~~~~~~~~~~~~~i~~igiG~~~~~~~L~~  156 (176)
T cd01464          88 ALDCIDRRVQRYRADQKGDWRPWVFLLTDGEPTD-----------DLTAAIERIKEARDSKGRIVACAVGPKADLDTLKQ  156 (176)
T ss_pred             HHHHHHHHHHHhcccCcCCcCcEEEEEcCCCCCc-----------hHHHHHHHHHhhcccCCcEEEEEeccccCHHHHHH
Confidence            998864321         1124789999999876           23445577888777789999999994 67777887


Q ss_pred             cCC
Q 019939          174 FDD  176 (333)
Q Consensus       174 ld~  176 (333)
                      +-+
T Consensus       157 ia~  159 (176)
T cd01464         157 ITE  159 (176)
T ss_pred             HHC
Confidence            764

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

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.11  E-value=1e-06  Score=87.37  Aligned_cols=49  Identities=24%  Similarity=0.453  Sum_probs=40.9

Q ss_pred             CCCCCCCCCeecccccCCcc-ceeCCCCccchhhhhcC----CCCCCccccccc
Q 019939          280 PASSTSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       280 ~~~~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      ....++....|+||++.+.+ ++++|||.||..|+...    ..||.||..+..
T Consensus        19 ~l~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~   72 (397)
T TIGR00599        19 SLYPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE   72 (397)
T ss_pred             cccccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence            34567788999999999999 66699999999999743    479999998754

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PHA02926 zinc finger-like protein; Provisional

Probab=98.11  E-value=8e-07  Score=80.89  Aligned_cols=46  Identities=33%  Similarity=0.665  Sum_probs=35.1

Q ss_pred             CCCCeecccccCC------cc---cee-CCCCccchhhhhcC----------CCCCCccccccccc
Q 019939          285 SDNHVCPICLTDP------KD---MAF-GCGHQTCCGCGQDL----------DLCPICRSFIQTRI  330 (333)
Q Consensus       285 ~~~~~C~ICl~~~------~~---~~l-~CgH~fC~~C~~~~----------~~CP~CR~~i~~~i  330 (333)
                      .++.+|.||++..      .+   .++ +|+|.||..|+.++          ..||+||..+..++
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~  233 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNIT  233 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeec
Confidence            4568999999874      11   234 99999999999744          24999999887654

>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=98.08  E-value=7.1e-07  Score=61.22  Aligned_cols=35  Identities=40%  Similarity=1.040  Sum_probs=28.2

Q ss_pred             eecccccCCcc----ceeCCCCccchhhhhcC----CCCCCcc
Q 019939          289 VCPICLTDPKD----MAFGCGHQTCCGCGQDL----DLCPICR  323 (333)
Q Consensus       289 ~C~ICl~~~~~----~~l~CgH~fC~~C~~~~----~~CP~CR  323 (333)
                      .|+||++.+..    +.++|||.||.+|+.++    ..||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            69999998843    34599999999999744    5899997

...

>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.06  E-value=1.5e-06  Score=87.30  Aligned_cols=42  Identities=43%  Similarity=0.865  Sum_probs=35.3

Q ss_pred             CCeecccccCCcc-ceeCCCCccchhhhh---------cCCCCCCccccccc
Q 019939          287 NHVCPICLTDPKD-MAFGCGHQTCCGCGQ---------DLDLCPICRSFIQT  328 (333)
Q Consensus       287 ~~~C~ICl~~~~~-~~l~CgH~fC~~C~~---------~~~~CP~CR~~i~~  328 (333)
                      +..||||++.+.- +...|||.||+.|+-         ....||+||..|..
T Consensus       186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~  237 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL  237 (513)
T ss_pred             CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence            7899999999887 444899999999994         23589999998875

>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=98.06  E-value=1.2e-06  Score=58.65  Aligned_cols=33  Identities=42%  Similarity=1.114  Sum_probs=26.0

Q ss_pred             ecccccCCccc-e-eCCCCccchhhhhcC----CCCCCc
Q 019939          290 CPICLTDPKDM-A-FGCGHQTCCGCGQDL----DLCPIC  322 (333)
Q Consensus       290 C~ICl~~~~~~-~-l~CgH~fC~~C~~~~----~~CP~C  322 (333)
                      |+||++...+. + ++|||.||.+|+.+.    ..||+|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            89999999994 4 499999999999643    589887

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

Probab=98.03  E-value=6.5e-05  Score=62.31  Aligned_cols=133  Identities=17%  Similarity=0.328  Sum_probs=88.4

Q ss_pred             CCHHHHHHHHHHhhhhccCC---CCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHH
Q 019939           24 QNPYEQAISIIGKTLSSFDE---DNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPI  100 (333)
Q Consensus        24 ~N~Y~~ai~~i~~vl~~yD~---d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapv  100 (333)
                      ...++.+...+..++..+..   ...+-+++|+.....   .+.++.    ....+.+.+.-.. +.. ..+|.|++...
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~~~~~~---~~~~~~----~~~~~~~~~~~~~-~~~-~~~~~t~~~~a   85 (161)
T cd00198          15 GEKLDKAKEALKALVSSLSASPPGDRVGLVTFGSNARV---VLPLTT----DTDKADLLEAIDA-LKK-GLGGGTNIGAA   85 (161)
T ss_pred             cchHHHHHHHHHHHHHhcccCCCCcEEEEEEecCccce---eecccc----cCCHHHHHHHHHh-ccc-CCCCCccHHHH
Confidence            45667777777777777776   778999999974321   112111    1123333332221 221 36799999999


Q ss_pred             HHHHHHHHHhc--CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEeccc-CCCCcccccCC
Q 019939          101 IEMAITIVEHS--GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGD-GPWDMMREFDD  176 (333)
Q Consensus       101 I~~~~~~~~~~--~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd-~~f~~m~~ld~  176 (333)
                      ++.+.+...+.  .....++++||||...+.           .....+.+..+....+.|.+||+|+ .+-..++.|++
T Consensus        86 l~~~~~~~~~~~~~~~~~~lvvitDg~~~~~-----------~~~~~~~~~~~~~~~v~v~~v~~g~~~~~~~l~~l~~  153 (161)
T cd00198          86 LRLALELLKSAKRPNARRVIILLTDGEPNDG-----------PELLAEAARELRKLGITVYTIGIGDDANEDELKEIAD  153 (161)
T ss_pred             HHHHHHHhcccCCCCCceEEEEEeCCCCCCC-----------cchhHHHHHHHHHcCCEEEEEEcCCCCCHHHHHHHhc
Confidence            99999998653  345788999999987751           1244555666667799999999998 66666776663

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.

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.02  E-value=2.1e-06  Score=59.03  Aligned_cols=36  Identities=39%  Similarity=0.923  Sum_probs=30.0

Q ss_pred             eecccccCCcc----ceeCCCCccchhhhhcCC----CCCCccc
Q 019939          289 VCPICLTDPKD----MAFGCGHQTCCGCGQDLD----LCPICRS  324 (333)
Q Consensus       289 ~C~ICl~~~~~----~~l~CgH~fC~~C~~~~~----~CP~CR~  324 (333)
                      .|++|++.+..    .+++|||.||..|+..+.    .||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            48999999922    344999999999998776    8999985

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

Probab=97.97  E-value=3.3e-05  Score=65.28  Aligned_cols=129  Identities=19%  Similarity=0.303  Sum_probs=84.0

Q ss_pred             HHHHHHHHHHhhhhccC---CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHH
Q 019939           26 PYEQAISIIGKTLSSFD---EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIE  102 (333)
Q Consensus        26 ~Y~~ai~~i~~vl~~yD---~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~  102 (333)
                      .++.+...+..++..+.   .+-.+.++.|++....   ++.+....    ..+.+.+.........  +|.|++...++
T Consensus        17 ~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~~~~~---~~~~~~~~----~~~~~~~~i~~~~~~~--~~~t~~~~al~   87 (161)
T cd01450          17 NFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVRV---EFSLNDYK----SKDDLLKAVKNLKYLG--GGGTNTGKALQ   87 (161)
T ss_pred             HHHHHHHHHHHHHHheeeCCCceEEEEEEEcCCceE---EEECCCCC----CHHHHHHHHHhcccCC--CCCccHHHHHH
Confidence            55666666666666554   4778999999986432   22222111    3445554443322111  14899999999


Q ss_pred             HHHHHHHhcC----CceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCCCcccccC
Q 019939          103 MAITIVEHSG----GQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFD  175 (333)
Q Consensus       103 ~~~~~~~~~~----~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f~~m~~ld  175 (333)
                      .+.+......    ....++++||||..++.            .+..+++.+..+..+-|+.||+|..+.+.|++|-
T Consensus        88 ~a~~~~~~~~~~~~~~~~~iiliTDG~~~~~------------~~~~~~~~~~~~~~v~v~~i~~g~~~~~~l~~la  152 (161)
T cd01450          88 YALEQLFSESNARENVPKVIIVLTDGRSDDG------------GDPKEAAAKLKDEGIKVFVVGVGPADEEELREIA  152 (161)
T ss_pred             HHHHHhcccccccCCCCeEEEEECCCCCCCC------------cchHHHHHHHHHCCCEEEEEeccccCHHHHHHHh
Confidence            9999876542    45678999999988751            1344445555556899999999998888888776

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

>smart00504 Ubox Modified RING finger domain

Probab=97.93  E-value=5e-06  Score=60.85  Aligned_cols=42  Identities=19%  Similarity=0.275  Sum_probs=35.7

Q ss_pred             CCeecccccCCcc-ceeCCCCccchhhhhcC----CCCCCccccccc
Q 019939          287 NHVCPICLTDPKD-MAFGCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       287 ~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      +..|+||.+...+ ++++|||.||..|+.+.    ..||+|+.++..
T Consensus         1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~   47 (63)
T smart00504        1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTH   47 (63)
T ss_pred             CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence            3579999999999 66799999999999744    479999998853

Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.

>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=97.92  E-value=5.2e-05  Score=65.43  Aligned_cols=125  Identities=14%  Similarity=0.228  Sum_probs=82.3

Q ss_pred             HHHHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHHHH
Q 019939           26 PYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAI  105 (333)
Q Consensus        26 ~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~~~  105 (333)
                      ..+.|-.++..++..+.++..+-+++|+......   +++.+.+.  .+.+    ...+.+..+...|-|+....++.+.
T Consensus        17 rl~~ak~a~~~l~~~l~~~~~~~li~F~~~~~~~---~~~~~~~~--~~~~----~~~~~i~~~~~~g~T~~~~al~~a~   87 (155)
T cd01466          17 KLQLVKHALRFVISSLGDADRLSIVTFSTSAKRL---SPLRRMTA--KGKR----SAKRVVDGLQAGGGTNVVGGLKKAL   87 (155)
T ss_pred             HHHHHHHHHHHHHHhCCCcceEEEEEecCCcccc---CCCcccCH--HHHH----HHHHHHHhccCCCCccHHHHHHHHH
Confidence            4566666677777777666679999999864322   22222111  1122    2233334466789999999999999


Q ss_pred             HHHHhcC--CceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecc-cCCCCcccccC
Q 019939          106 TIVEHSG--GQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVG-DGPWDMMREFD  175 (333)
Q Consensus       106 ~~~~~~~--~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvG-d~~f~~m~~ld  175 (333)
                      +..++..  ..-.++++||||..++            .    .++..+.+.++.|..||+| +.+.+.|++|-
T Consensus        88 ~~~~~~~~~~~~~~iillTDG~~~~------------~----~~~~~~~~~~v~v~~igig~~~~~~~l~~iA  144 (155)
T cd01466          88 KVLGDRRQKNPVASIMLLSDGQDNH------------G----AVVLRADNAPIPIHTFGLGASHDPALLAFIA  144 (155)
T ss_pred             HHHhhcccCCCceEEEEEcCCCCCc------------c----hhhhcccCCCceEEEEecCCCCCHHHHHHHH
Confidence            9876432  2346899999998764            1    2234456679999999999 45667777665

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,

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

Probab=97.91  E-value=0.00016  Score=63.25  Aligned_cols=135  Identities=13%  Similarity=0.164  Sum_probs=82.9

Q ss_pred             CHHHHHHHHHHhhhhccCC-CCccceEEeCCCCCCC--CcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHH
Q 019939           25 NPYEQAISIIGKTLSSFDE-DNLIPCFGFGDASTHD--QEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPII  101 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD~-d~~ip~~GFG~~~~~~--~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI  101 (333)
                      +..+.|-..+..++..... +-.+-+|+|+...+..  ..++...+-+.   .   +..+.++.+..+...|.|++...|
T Consensus        17 ~kl~~ak~a~~~l~~~l~~~~d~~~l~~F~~~~~~~~~~~~~~~~~~~~---~---~~~~~~~~l~~~~~~g~T~~~~al   90 (174)
T cd01454          17 RRIDVAKKAAVLLAEALEACGVPHAILGFTTDAGGRERVRWIKIKDFDE---S---LHERARKRLAALSPGGNTRDGAAI   90 (174)
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCcEEEEEecCCCCCccceEEEEecCccc---c---cchhHHHHHHccCCCCCCcHHHHH
Confidence            4566666665555555553 5579999998763111  11111100011   0   011223334456667889999999


Q ss_pred             HHHHHHHHhcCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCC
Q 019939          102 EMAITIVEHSGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGP  167 (333)
Q Consensus       102 ~~~~~~~~~~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~  167 (333)
                      +.+.+...+....--++++||||..++. +...+.+. ..+++++++.++.+..+.+..||||+..
T Consensus        91 ~~a~~~l~~~~~~~~~iiliTDG~~~~~-~~~~~~~~-~~~~~~~~~~~~~~~gi~v~~igig~~~  154 (174)
T cd01454          91 RHAAERLLARPEKRKILLVISDGEPNDL-DYYEGNVF-ATEDALRAVIEARKLGIEVFGITIDRDA  154 (174)
T ss_pred             HHHHHHHhcCCCcCcEEEEEeCCCcCcc-cccCcchh-HHHHHHHHHHHHHhCCcEEEEEEecCcc
Confidence            9999888654444568999999998752 11222221 2455666688888889999999999865

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.

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

Probab=97.90  E-value=0.0001  Score=62.67  Aligned_cols=135  Identities=19%  Similarity=0.318  Sum_probs=88.4

Q ss_pred             CccccCCCCCHHHHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCC
Q 019939           16 SLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPT   95 (333)
Q Consensus        16 sLH~~~~~~N~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt   95 (333)
                      |+...+...+...++...+..++..+..+ .|-+++|+....   ..+++      ..+.+.+.++..+..+.....|.|
T Consensus        11 SM~~~~~~~~~~~~~~~~~~~~~~~~~~~-~v~l~~f~~~~~---~~~~~------t~~~~~~~~~l~~~~~~~~~~~~t   80 (172)
T PF13519_consen   11 SMNGYDGNRTRIDQAKDALNELLANLPGD-RVGLVSFSDSSR---TLSPL------TSDKDELKNALNKLSPQGMPGGGT   80 (172)
T ss_dssp             GGGTTTSSS-HHHHHHHHHHHHHHHHTTS-EEEEEEESTSCE---EEEEE------ESSHHHHHHHHHTHHHHG--SSS-
T ss_pred             ccCCCCCCCcHHHHHHHHHHHHHHHCCCC-EEEEEEeccccc---ccccc------cccHHHHHHHhhcccccccCccCC
Confidence            44433324678899999999999998755 999999998531   12222      246666666666665556668999


Q ss_pred             ChHHHHHHHHHHHHhcCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCC--Ccccc
Q 019939           96 SFAPIIEMAITIVEHSGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPW--DMMRE  173 (333)
Q Consensus        96 ~fapvI~~~~~~~~~~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f--~~m~~  173 (333)
                      ++...|+.+.+........--++++||||....              ...+++..+.+..+.|.+||+|...-  +.|++
T Consensus        81 ~~~~al~~a~~~~~~~~~~~~~iv~iTDG~~~~--------------~~~~~~~~~~~~~i~i~~v~~~~~~~~~~~l~~  146 (172)
T PF13519_consen   81 NLYDALQEAAKMLASSDNRRRAIVLITDGEDNS--------------SDIEAAKALKQQGITIYTVGIGSDSDANEFLQR  146 (172)
T ss_dssp             -HHHHHHHHHHHHHC-SSEEEEEEEEES-TTHC--------------HHHHHHHHHHCTTEEEEEEEES-TT-EHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCCCCceEEEEecCCCCCc--------------chhHHHHHHHHcCCeEEEEEECCCccHHHHHHH
Confidence            999999999999876543345678999997553              22346666778889999999997553  23444


Q ss_pred             c
Q 019939          174 F  174 (333)
Q Consensus       174 l  174 (333)
                      +
T Consensus       147 l  147 (172)
T PF13519_consen  147 L  147 (172)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=97.90  E-value=0.00025  Score=63.71  Aligned_cols=137  Identities=16%  Similarity=0.284  Sum_probs=90.6

Q ss_pred             CHHH-HHHHHHHhhhhccCCC---CccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHH
Q 019939           25 NPYE-QAISIIGKTLSSFDED---NLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPI  100 (333)
Q Consensus        25 N~Y~-~ai~~i~~vl~~yD~d---~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapv  100 (333)
                      ..++ .++..+-.++..|+-.   -.+-+.-|++...   ..++|+.+.  -..-+.++++-++..+.+..+|.|+....
T Consensus        16 ~~f~~~~~~f~~~lv~~l~i~~~~~rvgvv~fs~~~~---~~~~~~~~~--~~~~~~l~~~i~~l~~~~~~~g~T~~~~A   90 (192)
T cd01473          16 SNWRKDVIPFTEKIINNLNISKDKVHVGILLFAEKNR---DVVPFSDEE--RYDKNELLKKINDLKNSYRSGGETYIVEA   90 (192)
T ss_pred             HHHHHHHHHHHHHHHHhCccCCCccEEEEEEecCCce---eEEecCccc--ccCHHHHHHHHHHHHhccCCCCcCcHHHH
Confidence            3355 3667777788887754   4788889987542   223443221  22345565555544333445789999999


Q ss_pred             HHHHHHHHHhc-C---CceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCCCcccccCC
Q 019939          101 IEMAITIVEHS-G---GQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDD  176 (333)
Q Consensus       101 I~~~~~~~~~~-~---~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f~~m~~ld~  176 (333)
                      |+.+.+..... +   ...-|+++||||.-++.          +.....++...+.+.-+-+..||||..+-..|+.+-+
T Consensus        91 L~~a~~~~~~~~~~r~~~~kv~IllTDG~s~~~----------~~~~~~~~a~~lk~~gV~i~~vGiG~~~~~el~~ia~  160 (192)
T cd01473          91 LKYGLKNYTKHGNRRKDAPKVTMLFTDGNDTSA----------SKKELQDISLLYKEENVKLLVVGVGAASENKLKLLAG  160 (192)
T ss_pred             HHHHHHHhccCCCCcccCCeEEEEEecCCCCCc----------chhhHHHHHHHHHHCCCEEEEEEeccccHHHHHHhcC
Confidence            99998876432 1   13679999999998751          1334556666777889999999999987666666553

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.

>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=97.80  E-value=0.00023  Score=61.77  Aligned_cols=128  Identities=16%  Similarity=0.258  Sum_probs=82.9

Q ss_pred             CHHHHHHHHHHhhhhccC---CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHH
Q 019939           25 NPYEQAISIIGKTLSSFD---EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPII  101 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD---~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI  101 (333)
                      ..++++...+-.++..|+   ++..|-++.|+....   ..|.++    .....+.++++..+. +  ..+|.|+....|
T Consensus        16 ~~~~~~k~~~~~l~~~~~~~~~~~rvgli~fs~~~~---~~~~l~----~~~~~~~l~~~l~~~-~--~~~g~T~~~~aL   85 (164)
T cd01482          16 SNFNLVRSFLSSVVEAFEIGPDGVQVGLVQYSDDPR---TEFDLN----AYTSKEDVLAAIKNL-P--YKGGNTRTGKAL   85 (164)
T ss_pred             hhHHHHHHHHHHHHhheeeCCCceEEEEEEECCCee---EEEecC----CCCCHHHHHHHHHhC-c--CCCCCChHHHHH
Confidence            356777776767776664   556899999998643   223332    123455555554432 1  146899999999


Q ss_pred             HHHHHHHHhc-----CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCCCcccccCC
Q 019939          102 EMAITIVEHS-----GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDD  176 (333)
Q Consensus       102 ~~~~~~~~~~-----~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f~~m~~ld~  176 (333)
                      +.+.+...+.     .....++++||||..++           +.++..+.++   +..+.|..||+|+.+-..|+++-+
T Consensus        86 ~~a~~~~~~~~~~~r~~~~k~iillTDG~~~~-----------~~~~~a~~lk---~~gi~i~~ig~g~~~~~~L~~ia~  151 (164)
T cd01482          86 THVREKNFTPDAGARPGVPKVVILITDGKSQD-----------DVELPARVLR---NLGVNVFAVGVKDADESELKMIAS  151 (164)
T ss_pred             HHHHHHhcccccCCCCCCCEEEEEEcCCCCCc-----------hHHHHHHHHH---HCCCEEEEEecCcCCHHHHHHHhC
Confidence            9888754221     22456889999998764           2344444444   468899999999977666666653

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.

>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=97.77  E-value=1.5e-05  Score=53.23  Aligned_cols=38  Identities=39%  Similarity=1.052  Sum_probs=30.4

Q ss_pred             eecccccCCcc-cee-CCCCccchhhhhc-----CCCCCCccccc
Q 019939          289 VCPICLTDPKD-MAF-GCGHQTCCGCGQD-----LDLCPICRSFI  326 (333)
Q Consensus       289 ~C~ICl~~~~~-~~l-~CgH~fC~~C~~~-----~~~CP~CR~~i  326 (333)
                      .|+||++...+ +.+ +|||.||..|+..     ...||.||..+
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            49999999855 445 6999999999963     35799999753

>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=97.77  E-value=7e-06  Score=55.17  Aligned_cols=33  Identities=42%  Similarity=1.100  Sum_probs=27.7

Q ss_pred             ecccccCCcc-c-eeCCCCccchhhhhcC------CCCCCc
Q 019939          290 CPICLTDPKD-M-AFGCGHQTCCGCGQDL------DLCPIC  322 (333)
Q Consensus       290 C~ICl~~~~~-~-~l~CgH~fC~~C~~~~------~~CP~C  322 (333)
                      |+||++.+.+ . +++|||.||..|+.++      ..||.|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            8999999998 4 4599999999999643      479887

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 ....

>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.76  E-value=1e-05  Score=75.25  Aligned_cols=43  Identities=30%  Similarity=0.776  Sum_probs=36.2

Q ss_pred             CCCCeecccccCCcc-ceeCCCCccchhhhhc------CCCCCCcccccc
Q 019939          285 SDNHVCPICLTDPKD-MAFGCGHQTCCGCGQD------LDLCPICRSFIQ  327 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~------~~~CP~CR~~i~  327 (333)
                      ..+..|.||++.... +..+|||.||+.|+-.      ...||+||+...
T Consensus       213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~  262 (271)
T COG5574         213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVY  262 (271)
T ss_pred             ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence            457899999999988 6679999999999965      236999999764

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=97.75  E-value=7.5e-06  Score=85.73  Aligned_cols=49  Identities=29%  Similarity=0.586  Sum_probs=40.4

Q ss_pred             CCCCeecccccCCcccee-CCCCccchhhhh-----cCCCCCCccccccc--ccccC
Q 019939          285 SDNHVCPICLTDPKDMAF-GCGHQTCCGCGQ-----DLDLCPICRSFIQT--RIKLY  333 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~~~l-~CgH~fC~~C~~-----~~~~CP~CR~~i~~--~i~~y  333 (333)
                      .+-..|++|-+.++++++ .|||.||..|++     +.+.||.|-.+|..  +.+||
T Consensus       641 K~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~I~  697 (698)
T KOG0978|consen  641 KELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHRIH  697 (698)
T ss_pred             HhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccccC
Confidence            455899999999999665 999999999997     45799999999853  45544

>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=97.74  E-value=0.00015  Score=65.43  Aligned_cols=142  Identities=15%  Similarity=0.227  Sum_probs=84.0

Q ss_pred             CCCHHHHHHHHHHhhhhccCCCCccceEEeCCCCCCC--Cc-ccccCCCCCCCCCHH-HHHHHHHHhCCcee-ecCCCCh
Q 019939           23 DQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHD--QE-VFSFYPDEKFCNGFE-EVLRRYRELVPHLR-LAGPTSF   97 (333)
Q Consensus        23 ~~N~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~--~~-vf~~~~~~~~~~G~~-gvl~~Y~~~~~~v~-l~gpt~f   97 (333)
                      ..+..+.|...+..++..+.++..+-+|.|+......  .. +++..+--....+.. .-.+...+.+..+. ..|.|+.
T Consensus        40 ~~~rl~~ak~a~~~~l~~l~~~~~v~lv~F~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~l~~~i~~i~~~~G~T~l  119 (206)
T cd01456          40 GETRLDNAKAALDETANALPDGTRLGLWTFSGDGDNPLDVRVLVPKGCLTAPVNGFPSAQRSALDAALNSLQTPTGWTPL  119 (206)
T ss_pred             cchHHHHHHHHHHHHHHhCCCCceEEEEEecCCCCCCccccccccccccccccCCCCcccHHHHHHHHHhhcCCCCcChH
Confidence            3567777888888888888778899999999854311  11 111001000111210 01222333445555 6799999


Q ss_pred             HHHHHHHHHHHHhcCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHh--cCCCeEEEEEecccC-CCCccccc
Q 019939           98 APIIEMAITIVEHSGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKA--SEYPLSIILVGVGDG-PWDMMREF  174 (333)
Q Consensus        98 apvI~~~~~~~~~~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~A--S~~PlSii~VGvGd~-~f~~m~~l  174 (333)
                      ...|+.+.+..+  .+.-..+++||||..++..         +..+..+.+.+.  ...++.|-.||||.. +.+.|+++
T Consensus       120 ~~aL~~a~~~l~--~~~~~~iillTDG~~~~~~---------~~~~~~~~~~~~~~~~~~i~i~~igiG~~~~~~~l~~i  188 (206)
T cd01456         120 AAALAEAAAYVD--PGRVNVVVLITDGEDTCGP---------DPCEVARELAKRRTPAPPIKVNVIDFGGDADRAELEAI  188 (206)
T ss_pred             HHHHHHHHHHhC--CCCcceEEEEcCCCccCCC---------CHHHHHHHHHHhcCCCCCceEEEEEecCcccHHHHHHH
Confidence            999999988875  2233678999999876411         122333444432  124788999999974 34445544


Q ss_pred             C
Q 019939          175 D  175 (333)
Q Consensus       175 d  175 (333)
                      -
T Consensus       189 A  189 (206)
T cd01456         189 A  189 (206)
T ss_pred             H
Confidence            3

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

>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=97.72  E-value=0.00041  Score=59.71  Aligned_cols=131  Identities=15%  Similarity=0.230  Sum_probs=86.2

Q ss_pred             HHHHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHHHH
Q 019939           26 PYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAI  105 (333)
Q Consensus        26 ~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~~~  105 (333)
                      ..+.|...+..++..+..+..+-++.|+.....   ++.+.+.    ...+.+.+    .+.+++..|.|++...++.+.
T Consensus        17 ~~~~~k~a~~~~~~~l~~~~~v~li~f~~~~~~---~~~~~~~----~~~~~l~~----~l~~~~~~g~T~~~~al~~a~   85 (170)
T cd01465          17 KLPLVKSALKLLVDQLRPDDRLAIVTYDGAAET---VLPATPV----RDKAAILA----AIDRLTAGGSTAGGAGIQLGY   85 (170)
T ss_pred             hHHHHHHHHHHHHHhCCCCCEEEEEEecCCccE---EecCccc----chHHHHHH----HHHcCCCCCCCCHHHHHHHHH
Confidence            377888888888899888889999999986332   2222111    12233332    233455689999999999998


Q ss_pred             HHHHhcC--CceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC-CCCcccccC
Q 019939          106 TIVEHSG--GQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG-PWDMMREFD  175 (333)
Q Consensus       106 ~~~~~~~--~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~-~f~~m~~ld  175 (333)
                      +..++..  ...-.++++|||..++..        .+.++..+++.++.+..+-|..||+|.. +...|+++-
T Consensus        86 ~~~~~~~~~~~~~~ivl~TDG~~~~~~--------~~~~~~~~~~~~~~~~~v~i~~i~~g~~~~~~~l~~ia  150 (170)
T cd01465          86 QEAQKHFVPGGVNRILLATDGDFNVGE--------TDPDELARLVAQKRESGITLSTLGFGDNYNEDLMEAIA  150 (170)
T ss_pred             HHHHhhcCCCCeeEEEEEeCCCCCCCC--------CCHHHHHHHHHHhhcCCeEEEEEEeCCCcCHHHHHHHH
Confidence            8876432  223567899999875411        1245566667666677889999999942 445566554

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

>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]

Probab=97.65  E-value=8.2e-06  Score=78.24  Aligned_cols=47  Identities=26%  Similarity=0.534  Sum_probs=39.2

Q ss_pred             CCCCCCCeecccccCCcc-ceeCCCCccchhhhhcC----CCCCCccccccc
Q 019939          282 SSTSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       282 ~~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      -.+..-..|-||.+.++. ++.||+|.||.-|+++.    ..||.|+.+++.
T Consensus        18 k~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~E   69 (442)
T KOG0287|consen   18 KTLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTE   69 (442)
T ss_pred             hhhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCCCCCceecccch
Confidence            344566899999999999 55599999999999854    589999998864

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

Probab=97.62  E-value=0.0006  Score=58.88  Aligned_cols=126  Identities=15%  Similarity=0.287  Sum_probs=79.8

Q ss_pred             CHHHHHHHHHHhhhhccC---CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceee-cCCCChHHH
Q 019939           25 NPYEQAISIIGKTLSSFD---EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRL-AGPTSFAPI  100 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD---~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l-~gpt~fapv  100 (333)
                      ..++.+...+..++..|+   .+-.+-++.|+.....   +++++.    ....+.+.+.-.    .+.. +|.|+....
T Consensus        16 ~~~~~~k~~~~~~~~~l~~~~~~~~~giv~Fs~~~~~---~~~~~~----~~~~~~~~~~l~----~l~~~~g~T~~~~a   84 (164)
T cd01472          16 SNFNLVKDFVKRVVERLDIGPDGVRVGVVQYSDDPRT---EFYLNT----YRSKDDVLEAVK----NLRYIGGGTNTGKA   84 (164)
T ss_pred             HHHHHHHHHHHHHHhhcccCCCCeEEEEEEEcCceeE---EEecCC----CCCHHHHHHHHH----hCcCCCCCchHHHH
Confidence            345666666777777765   3347999999975432   233321    223444444332    3333 788999999


Q ss_pred             HHHHHHHHHhc-----CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCCCcccccC
Q 019939          101 IEMAITIVEHS-----GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFD  175 (333)
Q Consensus       101 I~~~~~~~~~~-----~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f~~m~~ld  175 (333)
                      ++.+.+.....     ...-.++++||||..++           +..+..+.+.   +..+.+..||+|+.+.+.|+.+-
T Consensus        85 l~~a~~~l~~~~~~~~~~~~~~iiliTDG~~~~-----------~~~~~~~~l~---~~gv~i~~ig~g~~~~~~L~~ia  150 (164)
T cd01472          85 LKYVRENLFTEASGSREGVPKVLVVITDGKSQD-----------DVEEPAVELK---QAGIEVFAVGVKNADEEELKQIA  150 (164)
T ss_pred             HHHHHHHhCCcccCCCCCCCEEEEEEcCCCCCc-----------hHHHHHHHHH---HCCCEEEEEECCcCCHHHHHHHH
Confidence            99999876531     23356789999997654           1222333333   46788999999998877777765

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.

>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B

Probab=97.58  E-value=3.1e-05  Score=57.44  Aligned_cols=43  Identities=30%  Similarity=0.763  Sum_probs=24.8

Q ss_pred             CCCCeecccccCCcc-cee-CCCCccchhhhhcC--CCCCCcccccc
Q 019939          285 SDNHVCPICLTDPKD-MAF-GCGHQTCCGCGQDL--DLCPICRSFIQ  327 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~-~~l-~CgH~fC~~C~~~~--~~CP~CR~~i~  327 (333)
                      ++-..|++|.+..+. +.+ .|.|.||..|+.+.  ..||+|+.+-.
T Consensus         5 e~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Paw   51 (65)
T PF14835_consen    5 EELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSECPVCHTPAW   51 (65)
T ss_dssp             HHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB-SSS--B-S
T ss_pred             HHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCCCCCcCChHH
Confidence            345789999999999 555 99999999999865  57999998864

>smart00184 RING Ring finger

Probab=97.58  E-value=4.5e-05  Score=49.10  Aligned_cols=33  Identities=48%  Similarity=1.231  Sum_probs=27.1

Q ss_pred             ecccccCCcc-ceeCCCCccchhhhhc-----CCCCCCc
Q 019939          290 CPICLTDPKD-MAFGCGHQTCCGCGQD-----LDLCPIC  322 (333)
Q Consensus       290 C~ICl~~~~~-~~l~CgH~fC~~C~~~-----~~~CP~C  322 (333)
                      |+||++...+ +.++|||.||..|+..     ...||.|
T Consensus         1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            7899999777 5569999999999973     3469887

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)

>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]

Probab=97.53  E-value=2.2e-05  Score=73.96  Aligned_cols=47  Identities=26%  Similarity=0.502  Sum_probs=38.8

Q ss_pred             CCCCCCCeecccccCCcc-ceeCCCCccchhhhhcC----CCCCCccccccc
Q 019939          282 SSTSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       282 ~~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      -.+.....|.||-+.++. +..+|||.||.-|+++.    ..||+||.+...
T Consensus        20 ~~LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~e   71 (391)
T COG5432          20 KGLDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCE   71 (391)
T ss_pred             hcchhHHHhhhhhheeecceecccccchhHHHHHHHhcCCCCCccccccHHh
Confidence            344556899999999998 55699999999999865    589999987653

>TIGR03788 marine_srt_targ marine proteobacterial sortase target protein

Probab=97.52  E-value=0.00051  Score=72.00  Aligned_cols=130  Identities=22%  Similarity=0.222  Sum_probs=86.3

Q ss_pred             CHHHHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHHH
Q 019939           25 NPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMA  104 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~~  104 (333)
                      +..++|-..+..++..+.++..|-++.|+.........       ....+ ++-+++..+.+..++..|.|++...|+.+
T Consensus       287 ~~i~~ak~al~~~l~~L~~~d~~~ii~F~~~~~~~~~~-------~~~~~-~~~~~~a~~~i~~l~a~GgT~l~~aL~~a  358 (596)
T TIGR03788       287 ESIEQAKSALLLALDQLRPGDRFNIIQFDSDVTLLFPV-------PVPAT-AHNLARARQFVAGLQADGGTEMAGALSAA  358 (596)
T ss_pred             ccHHHHHHHHHHHHHhCCCCCEEEEEEECCcceEeccc-------cccCC-HHHHHHHHHHHhhCCCCCCccHHHHHHHH
Confidence            56788888888888999888899999999865422110       00011 11223333344566678999999999999


Q ss_pred             HHHHHhc-CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC-CCCcccccC
Q 019939          105 ITIVEHS-GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG-PWDMMREFD  175 (333)
Q Consensus       105 ~~~~~~~-~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~-~f~~m~~ld  175 (333)
                      .+..... ....-.+++||||.+.+            ..+.++.+..+. -...|-.||||+. +...|+.+-
T Consensus       359 ~~~~~~~~~~~~~~iillTDG~~~~------------~~~~~~~~~~~~-~~~ri~tvGiG~~~n~~lL~~lA  418 (596)
T TIGR03788       359 LRDDGPESSGALRQVVFLTDGAVGN------------EDALFQLIRTKL-GDSRLFTVGIGSAPNSYFMRKAA  418 (596)
T ss_pred             HHhhcccCCCceeEEEEEeCCCCCC------------HHHHHHHHHHhc-CCceEEEEEeCCCcCHHHHHHHH
Confidence            8764222 22334578999999875            567777776553 2456668899975 666676664

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).

>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A

Probab=97.49  E-value=2.7e-05  Score=53.49  Aligned_cols=26  Identities=46%  Similarity=0.986  Sum_probs=16.2

Q ss_pred             ecccccCCcc-----ceeCCCCccchhhhhcC
Q 019939          290 CPICLTDPKD-----MAFGCGHQTCCGCGQDL  316 (333)
Q Consensus       290 C~ICl~~~~~-----~~l~CgH~fC~~C~~~~  316 (333)
                      |+||.+ +.+     ++++|||.||.+|++++
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l   31 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKL   31 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHH
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHH
Confidence            899999 644     56799999999999754

>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.47  E-value=6.2e-06  Score=79.47  Aligned_cols=49  Identities=31%  Similarity=0.663  Sum_probs=40.2

Q ss_pred             CCCCCCCCeecccccCCcc-cee-CCCCccchhhhhcC-----CCCCCcccccccc
Q 019939          281 ASSTSDNHVCPICLTDPKD-MAF-GCGHQTCCGCGQDL-----DLCPICRSFIQTR  329 (333)
Q Consensus       281 ~~~~~~~~~C~ICl~~~~~-~~l-~CgH~fC~~C~~~~-----~~CP~CR~~i~~~  329 (333)
                      ......+..|+||+++.+. ++. .|+|.||.+|+.+.     ..||.||+...++
T Consensus        37 l~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk   92 (381)
T KOG0311|consen   37 LAMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK   92 (381)
T ss_pred             HHHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence            3455678999999999998 455 89999999999743     5899999988664

>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=97.43  E-value=0.0021  Score=55.16  Aligned_cols=119  Identities=21%  Similarity=0.349  Sum_probs=77.1

Q ss_pred             HHHHHHHHHHhhhhccCC---CCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCcee-ecCCCChHHHH
Q 019939           26 PYEQAISIIGKTLSSFDE---DNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLR-LAGPTSFAPII  101 (333)
Q Consensus        26 ~Y~~ai~~i~~vl~~yD~---d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~-l~gpt~fapvI  101 (333)
                      .|+++...+..++..+..   .-.+-+.+|+..... .-.|++..    ....+.++++-..    +. .+|.|+....|
T Consensus        16 ~~~~~~~~~~~~~~~l~~~~~~~~v~lv~f~~~~~~-~~~~~l~~----~~~~~~l~~~i~~----l~~~gg~T~l~~aL   86 (163)
T cd01476          16 KFEKYKKYIERIVEGLEIGPTATRVALITYSGRGRQ-RVRFNLPK----HNDGEELLEKVDN----LRFIGGTTATGAAI   86 (163)
T ss_pred             hHHHHHHHHHHHHHhcCCCCCCcEEEEEEEcCCCce-EEEecCCC----CCCHHHHHHHHHh----CccCCCCccHHHHH
Confidence            367777778888888865   567999999885221 11233321    1233444443332    33 36889999999


Q ss_pred             HHHHHHHHhc----CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC
Q 019939          102 EMAITIVEHS----GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG  166 (333)
Q Consensus       102 ~~~~~~~~~~----~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~  166 (333)
                      +.+.+...+.    .....+++++|||..++           +..+..+.+.+  ..-+.+.-||+|+.
T Consensus        87 ~~a~~~l~~~~~~r~~~~~~villTDG~~~~-----------~~~~~~~~l~~--~~~v~v~~vg~g~~  142 (163)
T cd01476          87 EVALQQLDPSEGRREGIPKVVVVLTDGRSHD-----------DPEKQARILRA--VPNIETFAVGTGDP  142 (163)
T ss_pred             HHHHHHhccccCCCCCCCeEEEEECCCCCCC-----------chHHHHHHHhh--cCCCEEEEEECCCc
Confidence            9999887421    12247899999998764           13444566665  46688999999986

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.

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

Probab=97.41  E-value=0.0013  Score=58.69  Aligned_cols=137  Identities=16%  Similarity=0.215  Sum_probs=79.6

Q ss_pred             CHHHHHHHHHHhhhhccC---CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCcee-ecCCCChHHH
Q 019939           25 NPYEQAISIIGKTLSSFD---EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLR-LAGPTSFAPI  100 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD---~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~-l~gpt~fapv  100 (333)
                      +.++++...+..++..++   .+-.+-++.|+.....   ++++...  .-...+.++++-...-.... ..|.|+....
T Consensus        16 ~~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs~~~~~---~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~ggT~~~~A   90 (198)
T cd01470          16 EDFDEAKNAIKTLIEKISSYEVSPRYEIISYASDPKE---IVSIRDF--NSNDADDVIKRLEDFNYDDHGDKTGTNTAAA   90 (198)
T ss_pred             HHHHHHHHHHHHHHHHccccCCCceEEEEEecCCceE---EEecccC--CCCCHHHHHHHHHhCCcccccCccchhHHHH
Confidence            356666666666665554   3557999999886432   2333211  11233444443333222221 2477999999


Q ss_pred             HHHHHHHHHhc----C----CceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHh----------cCCCeEEEEEe
Q 019939          101 IEMAITIVEHS----G----GQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKA----------SEYPLSIILVG  162 (333)
Q Consensus       101 I~~~~~~~~~~----~----~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~A----------S~~PlSii~VG  162 (333)
                      |+.+.+.....    .    ..-.++++||||+.++-.       +  ..++.+.|.++          ....+.|..||
T Consensus        91 l~~~~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~-------~--~~~~~~~~~~~~~~~~~~~~~~~~~v~i~~iG  161 (198)
T cd01470          91 LKKVYERMALEKVRNKEAFNETRHVIILFTDGKSNMGG-------S--PLPTVDKIKNLVYKNNKSDNPREDYLDVYVFG  161 (198)
T ss_pred             HHHHHHHHHHHHhcCccchhhcceEEEEEcCCCcCCCC-------C--hhHHHHHHHHHHhcccccccchhcceeEEEEe
Confidence            99887654211    0    124689999999876410       1  23444444443          33468999999


Q ss_pred             ccc-CCCCcccccC
Q 019939          163 VGD-GPWDMMREFD  175 (333)
Q Consensus       163 vGd-~~f~~m~~ld  175 (333)
                      ||+ .+.+.|+++-
T Consensus       162 vG~~~~~~~L~~iA  175 (198)
T cd01470         162 VGDDVNKEELNDLA  175 (198)
T ss_pred             cCcccCHHHHHHHh
Confidence            996 4777887775

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.

>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=97.37  E-value=0.0018  Score=57.72  Aligned_cols=136  Identities=13%  Similarity=0.184  Sum_probs=84.0

Q ss_pred             CCccccCCCCCHHHHHHHHHHhhhhccC---CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceee
Q 019939           15 RSLHHIGDDQNPYEQAISIIGKTLSSFD---EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRL   91 (333)
Q Consensus        15 ~sLH~~~~~~N~Y~~ai~~i~~vl~~yD---~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l   91 (333)
                      +|+...+-.+|-.++|-..+...+..+.   ....+-++.|++...+.  +.+++.      ..+.++...+..   +..
T Consensus        14 ~SM~a~D~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~a~~--~~PlT~------D~~~~~~~L~~~---~~~   82 (183)
T cd01453          14 RSMEEQDLKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGRAEK--LTDLTG------NPRKHIQALKTA---REC   82 (183)
T ss_pred             HHHhcCCCCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCccEE--EECCCC------CHHHHHHHhhcc---cCC
Confidence            4555555568999999999999998873   34578899996543321  122221      222333333222   244


Q ss_pred             cCCCChHHHHHHHHHHHHhcCC--ceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCCC
Q 019939           92 AGPTSFAPIIEMAITIVEHSGG--QYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWD  169 (333)
Q Consensus        92 ~gpt~fapvI~~~~~~~~~~~~--~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f~  169 (333)
                      .|.|++...|+.+.+..+....  .=.+|||+|||...+            ..+..+++..+.+..+-|-+||||.+ ..
T Consensus        83 ~G~t~l~~aL~~A~~~l~~~~~~~~~~iiil~sd~~~~~------------~~~~~~~~~~l~~~~I~v~~IgiG~~-~~  149 (183)
T cd01453          83 SGEPSLQNGLEMALESLKHMPSHGSREVLIIFSSLSTCD------------PGNIYETIDKLKKENIRVSVIGLSAE-MH  149 (183)
T ss_pred             CCchhHHHHHHHHHHHHhcCCccCceEEEEEEcCCCcCC------------hhhHHHHHHHHHHcCcEEEEEEechH-HH
Confidence            6789999999999988765322  224788899987654            12222344445556788888999853 23


Q ss_pred             ccccc
Q 019939          170 MMREF  174 (333)
Q Consensus       170 ~m~~l  174 (333)
                      .|+++
T Consensus       150 ~L~~i  154 (183)
T cd01453         150 ICKEI  154 (183)
T ss_pred             HHHHH
Confidence            34444

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.

>PF13768 VWA_3: von Willebrand factor type A domain

Probab=97.36  E-value=0.00077  Score=57.58  Aligned_cols=127  Identities=18%  Similarity=0.302  Sum_probs=80.0

Q ss_pred             HHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceee-cCCCChHHHHHHHHH
Q 019939           28 EQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRL-AGPTSFAPIIEMAIT  106 (333)
Q Consensus        28 ~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l-~gpt~fapvI~~~~~  106 (333)
                      +.+...+-.+++...+...|-++.||..........    ....-.+.+.+++    .+..+.. .|.|+....++.+.+
T Consensus        18 ~~~k~al~~~l~~L~~~d~fnii~f~~~~~~~~~~~----~~~~~~~~~~a~~----~I~~~~~~~G~t~l~~aL~~a~~   89 (155)
T PF13768_consen   18 ELVKDALRAILRSLPPGDRFNIIAFGSSVRPLFPGL----VPATEENRQEALQ----WIKSLEANSGGTDLLAALRAALA   89 (155)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEEEeCCEeeEcchhH----HHHhHHHHHHHHH----HHHHhcccCCCccHHHHHHHHHH
Confidence            455555556666677777999999998543211100    0001123333333    2333555 799999999998887


Q ss_pred             HHHhcCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEeccc-CCCCcccccC
Q 019939          107 IVEHSGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGD-GPWDMMREFD  175 (333)
Q Consensus       107 ~~~~~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd-~~f~~m~~ld  175 (333)
                      .-. ..+....+++||||..++           ..+++.+.+.++. -.+.|..+|+|. .+...|++|-
T Consensus        90 ~~~-~~~~~~~IilltDG~~~~-----------~~~~i~~~v~~~~-~~~~i~~~~~g~~~~~~~L~~LA  146 (155)
T PF13768_consen   90 LLQ-RPGCVRAIILLTDGQPVS-----------GEEEILDLVRRAR-GHIRIFTFGIGSDADADFLRELA  146 (155)
T ss_pred             hcc-cCCCccEEEEEEeccCCC-----------CHHHHHHHHHhcC-CCceEEEEEECChhHHHHHHHHH
Confidence            642 223456789999999743           1567777777654 558888899997 5666666654

>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=97.29  E-value=0.0047  Score=52.50  Aligned_cols=113  Identities=13%  Similarity=0.153  Sum_probs=65.8

Q ss_pred             HHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHHHHHH
Q 019939           28 EQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITI  107 (333)
Q Consensus        28 ~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~~~~~  107 (333)
                      ..++..++..+..  .+..+-++.|+...    ....+.    .-..+..+++.    +..+...|.|++++.++.+.+.
T Consensus        22 ~~~~~~l~~~~~~--~~~~v~li~F~~~~----~~~~~~----~~~~~~~~~~~----l~~~~~~ggT~l~~al~~a~~~   87 (152)
T cd01462          22 KAVALALLRIALA--ENRDTYLILFDSEF----QTKIVD----KTDDLEEPVEF----LSGVQLGGGTDINKALRYALEL   87 (152)
T ss_pred             HHHHHHHHHHHHH--cCCcEEEEEeCCCc----eEEecC----CcccHHHHHHH----HhcCCCCCCcCHHHHHHHHHHH
Confidence            3444445554444  23468999998861    111111    12344444443    3345568999999999999988


Q ss_pred             HHhcCCceEEEEEEecCc-cccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC
Q 019939          108 VEHSGGQYHVLVIIADGQ-VTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG  166 (333)
Q Consensus       108 ~~~~~~~y~vLlIiTDG~-i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~  166 (333)
                      .++....-.+++|||||. ..+            ..+..++...+....+-|-.||||++
T Consensus        88 l~~~~~~~~~ivliTDG~~~~~------------~~~~~~~~~~~~~~~~~v~~~~~g~~  135 (152)
T cd01462          88 IERRDPRKADIVLITDGYEGGV------------SDELLREVELKRSRVARFVALALGDH  135 (152)
T ss_pred             HHhcCCCCceEEEECCCCCCCC------------CHHHHHHHHHHHhcCcEEEEEEecCC
Confidence            765433346899999994 322            22332223333344566777777763

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

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

Probab=97.22  E-value=0.00015  Score=70.65  Aligned_cols=41  Identities=32%  Similarity=0.791  Sum_probs=34.2

Q ss_pred             CeecccccCCcc----ceeCCCCccchhhhhcC-----CCCCCccccccc
Q 019939          288 HVCPICLTDPKD----MAFGCGHQTCCGCGQDL-----DLCPICRSFIQT  328 (333)
Q Consensus       288 ~~C~ICl~~~~~----~~l~CgH~fC~~C~~~~-----~~CP~CR~~i~~  328 (333)
                      ..|.||+|.+..    .+|||+|.|-+.|+..+     ..||+|++.+..
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~  279 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT  279 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence            599999999976    34699999999999755     359999997754

>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=97.20  E-value=0.0025  Score=56.60  Aligned_cols=131  Identities=15%  Similarity=0.231  Sum_probs=82.3

Q ss_pred             CHHHHHHHHHHhhhhccC---------CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCcee-ecCC
Q 019939           25 NPYEQAISIIGKTLSSFD---------EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLR-LAGP   94 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD---------~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~-l~gp   94 (333)
                      ..++.+.+.+-.++..+.         .+-.+-++.|+....   .+++++.+   ....+.+.++    +..++ .+|.
T Consensus        18 ~~~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs~~~~---~~~~l~~~---~~~~~~l~~~----i~~l~~~gg~   87 (186)
T cd01480          18 QNFDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYSDQQE---VEAGFLRD---IRNYTSLKEA----VDNLEYIGGG   87 (186)
T ss_pred             hhHHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEecCCce---eeEecccc---cCCHHHHHHH----HHhCccCCCC
Confidence            456666666666666662         235789999997543   23343321   1233444433    33343 4789


Q ss_pred             CChHHHHHHHHHHHHh--cCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCCCccc
Q 019939           95 TSFAPIIEMAITIVEH--SGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMR  172 (333)
Q Consensus        95 t~fapvI~~~~~~~~~--~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f~~m~  172 (333)
                      |+....|+.+.+....  ....-.++++||||..++..          .....+++.++.+..+.|..||||..+-..|+
T Consensus        88 T~~~~AL~~a~~~l~~~~~~~~~~~iillTDG~~~~~~----------~~~~~~~~~~~~~~gi~i~~vgig~~~~~~L~  157 (186)
T cd01480          88 TFTDCALKYATEQLLEGSHQKENKFLLVITDGHSDGSP----------DGGIEKAVNEADHLGIKIFFVAVGSQNEEPLS  157 (186)
T ss_pred             ccHHHHHHHHHHHHhccCCCCCceEEEEEeCCCcCCCc----------chhHHHHHHHHHHCCCEEEEEecCccchHHHH
Confidence            9999999999988764  12335689999999864310          12334455556678999999999986655565


Q ss_pred             ccC
Q 019939          173 EFD  175 (333)
Q Consensus       173 ~ld  175 (333)
                      ++-
T Consensus       158 ~IA  160 (186)
T cd01480         158 RIA  160 (186)
T ss_pred             HHH
Confidence            554

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.

>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=97.15  E-value=0.0047  Score=53.81  Aligned_cols=119  Identities=19%  Similarity=0.237  Sum_probs=69.4

Q ss_pred             CHHHHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHHH
Q 019939           25 NPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMA  104 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~~  104 (333)
                      +..+.|...+...+...+ +..+-++.|++....   ++.+.      .+...+.+.. +.+......|.|+....|+.+
T Consensus        24 ~r~~~a~~~~~~~~~~~~-~~~v~lv~f~~~~~~---~~~~~------~~~~~~~~~l-~~l~~~~~~g~T~l~~al~~a   92 (180)
T cd01467          24 SRLEAAKEVLSDFIDRRE-NDRIGLVVFAGAAFT---QAPLT------LDRESLKELL-EDIKIGLAGQGTAIGDAIGLA   92 (180)
T ss_pred             CHHHHHHHHHHHHHHhCC-CCeEEEEEEcCCeee---ccCCC------ccHHHHHHHH-HHhhhcccCCCCcHHHHHHHH
Confidence            445556566666666654 458999999875321   12221      1222222211 122223357889999899888


Q ss_pred             HHHHHhcCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEeccc
Q 019939          105 ITIVEHSGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGD  165 (333)
Q Consensus       105 ~~~~~~~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd  165 (333)
                      .+........-.++++||||..++      +..+  ..+..+   .+.+..+-|..||+|+
T Consensus        93 ~~~l~~~~~~~~~iiliTDG~~~~------g~~~--~~~~~~---~~~~~gi~i~~i~ig~  142 (180)
T cd01467          93 IKRLKNSEAKERVIVLLTDGENNA------GEID--PATAAE---LAKNKGVRIYTIGVGK  142 (180)
T ss_pred             HHHHHhcCCCCCEEEEEeCCCCCC------CCCC--HHHHHH---HHHHCCCEEEEEEecC
Confidence            888765444457899999997653      1111  222232   3345577888888887

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

>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]

Probab=97.14  E-value=0.00013  Score=71.42  Aligned_cols=42  Identities=36%  Similarity=0.889  Sum_probs=37.1

Q ss_pred             CeecccccCCcccee-CCCCccchhhhhcC------CCCCCcccccccc
Q 019939          288 HVCPICLTDPKDMAF-GCGHQTCCGCGQDL------DLCPICRSFIQTR  329 (333)
Q Consensus       288 ~~C~ICl~~~~~~~l-~CgH~fC~~C~~~~------~~CP~CR~~i~~~  329 (333)
                      ..|.||-++.+++.+ ||||..|..|+..+      ..||.||-.|+..
T Consensus       370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt  418 (563)
T KOG1785|consen  370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT  418 (563)
T ss_pred             HHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence            689999999999888 99999999999644      4899999998764

>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.13  E-value=0.00017  Score=68.52  Aligned_cols=42  Identities=29%  Similarity=0.719  Sum_probs=35.2

Q ss_pred             CCCeecccccCCcc----ceeCCCCccchhhhhcCC-----CCCCcccccc
Q 019939          286 DNHVCPICLTDPKD----MAFGCGHQTCCGCGQDLD-----LCPICRSFIQ  327 (333)
Q Consensus       286 ~~~~C~ICl~~~~~----~~l~CgH~fC~~C~~~~~-----~CP~CR~~i~  327 (333)
                      ...+|.||++.+..    +++||.|.|-..|+.++.     .||+||.++.
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence            34899999998854    566999999999998763     7999999874

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

Probab=97.08  E-value=0.0027  Score=56.21  Aligned_cols=128  Identities=15%  Similarity=0.213  Sum_probs=76.5

Q ss_pred             HHHHHHHHhhhhccC-CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHHHHH
Q 019939           28 EQAISIIGKTLSSFD-EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAIT  106 (333)
Q Consensus        28 ~~ai~~i~~vl~~yD-~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~~~~  106 (333)
                      .+++..+-.++..|+ .+-.+-++.|+....   .+|+|+...      +.+.++.. .+..+...|.|+....|+.+.+
T Consensus        22 ~~~~~~~~~l~~~~~~~~~rvglv~Fs~~~~---~~~~l~~~~------~~~~~~l~-~l~~~~~~g~T~~~~aL~~a~~   91 (185)
T cd01474          22 IEIYDFVEQLVDRFNSPGLRFSFITFSTRAT---KILPLTDDS------SAIIKGLE-VLKKVTPSGQTYIHEGLENANE   91 (185)
T ss_pred             HHHHHHHHHHHHHcCCCCcEEEEEEecCCce---EEEeccccH------HHHHHHHH-HHhccCCCCCCcHHHHHHHHHH
Confidence            334455555666654 345899999987532   344443221      12222221 1344555799999999999987


Q ss_pred             HHH--hcCCce--EEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCCCcccccC
Q 019939          107 IVE--HSGGQY--HVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFD  175 (333)
Q Consensus       107 ~~~--~~~~~y--~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f~~m~~ld  175 (333)
                      ...  ..+...  .++++||||..++..          ...+.++...+.+.-+-|..||||+.+.+.|+++-
T Consensus        92 ~l~~~~~~~r~~~~~villTDG~~~~~~----------~~~~~~~a~~l~~~gv~i~~vgv~~~~~~~L~~iA  154 (185)
T cd01474          92 QIFNRNGGGRETVSVIIALTDGQLLLNG----------HKYPEHEAKLSRKLGAIVYCVGVTDFLKSQLINIA  154 (185)
T ss_pred             HHHhhccCCCCCCeEEEEEcCCCcCCCC----------CcchHHHHHHHHHcCCEEEEEeechhhHHHHHHHh
Confidence            763  222221  678999999975310          11223333344456778889999887777777765

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.

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

Probab=97.06  E-value=0.0037  Score=57.16  Aligned_cols=128  Identities=16%  Similarity=0.218  Sum_probs=81.6

Q ss_pred             CCHHHHHHHHHHhhhhccCCC---CccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHH
Q 019939           24 QNPYEQAISIIGKTLSSFDED---NLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPI  100 (333)
Q Consensus        24 ~N~Y~~ai~~i~~vl~~yD~d---~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapv  100 (333)
                      ...++++...+..++..|+..   -.+-++.|+....   .+|+|+..    ...+.+.++-.. +..  +.|.|+-...
T Consensus        17 ~~~~~~~k~f~~~l~~~l~~~~~~~rvglv~fs~~~~---~~~~l~~~----~~~~~l~~~i~~-i~~--~~~~t~tg~A   86 (224)
T cd01475          17 PENFELVKQFLNQIIDSLDVGPDATRVGLVQYSSTVK---QEFPLGRF----KSKADLKRAVRR-MEY--LETGTMTGLA   86 (224)
T ss_pred             HHHHHHHHHHHHHHHHhcccCCCccEEEEEEecCcee---EEeccccc----CCHHHHHHHHHh-CcC--CCCCChHHHH
Confidence            356888888899898888643   4799999998743   24554421    233444444332 222  3567887778


Q ss_pred             HHHHHHHHH--hc---CCc---eEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCCCccc
Q 019939          101 IEMAITIVE--HS---GGQ---YHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMR  172 (333)
Q Consensus       101 I~~~~~~~~--~~---~~~---y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f~~m~  172 (333)
                      |+.+.+.+-  ..   ...   -.++++||||...|           +..+..+.++   +.-+.|..||||+.+.+.|+
T Consensus        87 L~~a~~~~~~~~~g~r~~~~~~~kvvillTDG~s~~-----------~~~~~a~~lk---~~gv~i~~VgvG~~~~~~L~  152 (224)
T cd01475          87 IQYAMNNAFSEAEGARPGSERVPRVGIVVTDGRPQD-----------DVSEVAAKAR---ALGIEMFAVGVGRADEEELR  152 (224)
T ss_pred             HHHHHHHhCChhcCCCCCCCCCCeEEEEEcCCCCcc-----------cHHHHHHHHH---HCCcEEEEEeCCcCCHHHHH
Confidence            888776531  11   111   47899999998765           2344444444   45688999999987766666


Q ss_pred             ccC
Q 019939          173 EFD  175 (333)
Q Consensus       173 ~ld  175 (333)
                      ++-
T Consensus       153 ~ia  155 (224)
T cd01475         153 EIA  155 (224)
T ss_pred             HHh
Confidence            554

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.

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

Probab=97.00  E-value=0.0046  Score=53.04  Aligned_cols=95  Identities=17%  Similarity=0.249  Sum_probs=62.7

Q ss_pred             CHHHHHHHHHHhhhh---ccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHH
Q 019939           25 NPYEQAISIIGKTLS---SFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPII  101 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~---~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI  101 (333)
                      +.++++...+-.++.   ..+..-.+-+.-||....   .+|.|+-    -...+.+++.-  .......+|.|+++..|
T Consensus        15 ~~~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~~~~~---~~~~~~~----~~~~~~~~~~i--~~~~~~~~g~t~~~~aL   85 (178)
T PF00092_consen   15 DNFEKAKQFVKSIISRLSISNNGTRVGIVTFSDSAR---VLFSLTD----YQSKNDLLNAI--NDSIPSSGGGTNLGAAL   85 (178)
T ss_dssp             HHHHHHHHHHHHHHHHSTBSTTSEEEEEEEESSSEE---EEEETTS----HSSHHHHHHHH--HTTGGCCBSSB-HHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhccccccccceeeeecccc---ccccccc----ccccccccccc--cccccccchhhhHHHHH
Confidence            346666666666666   455566799999998654   3334321    12344444432  13345567999999999


Q ss_pred             HHHHHHHHhc-----CCceEEEEEEecCcccc
Q 019939          102 EMAITIVEHS-----GGQYHVLVIIADGQVTR  128 (333)
Q Consensus       102 ~~~~~~~~~~-----~~~y~vLlIiTDG~i~d  128 (333)
                      +.+.+.....     .....++++||||..++
T Consensus        86 ~~a~~~l~~~~~~~r~~~~~~iiliTDG~~~~  117 (178)
T PF00092_consen   86 KFAREQLFSSNNGGRPNSPKVIILITDGNSND  117 (178)
T ss_dssp             HHHHHHTTSGGGTTGTTSEEEEEEEESSSSSS
T ss_pred             hhhhhcccccccccccccccceEEEEeecccC
Confidence            9999986432     35688999999999887

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 ....

>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis

Probab=96.99  E-value=0.00024  Score=54.10  Aligned_cols=43  Identities=21%  Similarity=0.267  Sum_probs=32.5

Q ss_pred             CCCeecccccCCcc-ceeCCCCccchhhhhc-----CCCCCCccccccc
Q 019939          286 DNHVCPICLTDPKD-MAFGCGHQTCCGCGQD-----LDLCPICRSFIQT  328 (333)
Q Consensus       286 ~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~-----~~~CP~CR~~i~~  328 (333)
                      ++..|+||.+.+.+ ++++|||.|++.|+.+     ...||+|++++..
T Consensus         3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~   51 (73)
T PF04564_consen    3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE   51 (73)
T ss_dssp             GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred             cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence            56899999999999 7779999999999963     3579999998875

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 ....

>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional

Probab=96.98  E-value=0.0069  Score=62.83  Aligned_cols=126  Identities=14%  Similarity=0.233  Sum_probs=82.8

Q ss_pred             CCHHHHHHHHHHhhhhccCCCC-ccc--eEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHH
Q 019939           24 QNPYEQAISIIGKTLSSFDEDN-LIP--CFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPI  100 (333)
Q Consensus        24 ~N~Y~~ai~~i~~vl~~yD~d~-~ip--~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapv  100 (333)
                      .|-.++|...+..++..++-.. .+-  +..|+....   .+|.+....  -...+.++.+-.++...+..+|.|++...
T Consensus        58 ~Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~FSd~~r---~vfpL~s~~--s~Dk~~aL~~I~sL~~~~~pgGgTnig~A  132 (576)
T PTZ00441         58 HNWITHVIPMLMGLIQQLNLSDDAINLYMSLFSNNTT---ELIRLGSGA--SKDKEQALIIVKSLRKTYLPYGKTNMTDA  132 (576)
T ss_pred             ccHHHHHHHHHHHHHHHhccCCCceEEEEEEeCCCce---EEEecCCCc--cccHHHHHHHHHHHHhhccCCCCccHHHH
Confidence            3555788888888888886432 333  468877533   234433211  12345566666666566667899999999


Q ss_pred             HHHHHHHHHhc---CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC
Q 019939          101 IEMAITIVEHS---GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG  166 (333)
Q Consensus       101 I~~~~~~~~~~---~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~  166 (333)
                      ++.+.+...+.   ...--++++||||.-++            ..++++++....+.-+-|..||||.+
T Consensus       133 L~~Aae~L~sr~~R~nvpKVVILLTDG~sns------------~~dvleaAq~LR~~GVeI~vIGVG~g  189 (576)
T PTZ00441        133 LLEVRKHLNDRVNRENAIQLVILMTDGIPNS------------KYRALEESRKLKDRNVKLAVIGIGQG  189 (576)
T ss_pred             HHHHHHHHhhcccccCCceEEEEEecCCCCC------------cccHHHHHHHHHHCCCEEEEEEeCCC
Confidence            99988876543   12346899999998654            23455555555567889999999974

>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=96.96  E-value=0.00092  Score=64.62  Aligned_cols=53  Identities=30%  Similarity=0.732  Sum_probs=41.0

Q ss_pred             CCCCCCCCCCCCeecccccCCcc-ceeCCCCccchhhhhcC------CCCCCcccccccc
Q 019939          277 TAPPASSTSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL------DLCPICRSFIQTR  329 (333)
Q Consensus       277 ~~~~~~~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~------~~CP~CR~~i~~~  329 (333)
                      +++.....+++..|.||-+...- .++||+|..|..|+-++      +.|++||..-..+
T Consensus        51 tsSaddtDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V  110 (493)
T COG5236          51 TSSADDTDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETEAV  110 (493)
T ss_pred             cccccccccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCccccccceE
Confidence            34444556677899999988877 45699999999999755      5899999865544

>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=96.95  E-value=0.008  Score=52.94  Aligned_cols=121  Identities=20%  Similarity=0.304  Sum_probs=80.9

Q ss_pred             CCHHHHHHHHHHhhhhccCC---CCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHH
Q 019939           24 QNPYEQAISIIGKTLSSFDE---DNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPI  100 (333)
Q Consensus        24 ~N~Y~~ai~~i~~vl~~yD~---d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapv  100 (333)
                      +..|+++..-+..++..|+.   +-.+-+..|+....   ..|+|.  +  ....+.++++-.. ++  .+.|.|+....
T Consensus        15 ~~~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs~~~~---~~~~l~--~--~~~~~~~~~~i~~-~~--~~~g~T~~~~A   84 (177)
T cd01469          15 PDDFQKVKNFLSTVMKKLDIGPTKTQFGLVQYSESFR---TEFTLN--E--YRTKEEPLSLVKH-IS--QLLGLTNTATA   84 (177)
T ss_pred             HHHHHHHHHHHHHHHHHcCcCCCCcEEEEEEECCcee---EEEecC--c--cCCHHHHHHHHHh-Cc--cCCCCccHHHH
Confidence            35788899889999998887   34789999998642   234443  1  2234455544332 22  24688999999


Q ss_pred             HHHHHHHH--Hhc---CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC
Q 019939          101 IEMAITIV--EHS---GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG  166 (333)
Q Consensus       101 I~~~~~~~--~~~---~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~  166 (333)
                      |+.+.+..  ...   .....++++||||..++.            ..+.+++..+-..-+-|.-||||+.
T Consensus        85 L~~a~~~l~~~~~g~R~~~~kv~illTDG~~~~~------------~~~~~~~~~~k~~gv~v~~Vgvg~~  143 (177)
T cd01469          85 IQYVVTELFSESNGARKDATKVLVVITDGESHDD------------PLLKDVIPQAEREGIIRYAIGVGGH  143 (177)
T ss_pred             HHHHHHHhcCcccCCCCCCCeEEEEEeCCCCCCc------------cccHHHHHHHHHCCcEEEEEEeccc
Confidence            99998875  222   124678899999998762            1223445555567899999999984

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.

>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.94  E-value=0.0004  Score=63.47  Aligned_cols=44  Identities=30%  Similarity=0.734  Sum_probs=38.2

Q ss_pred             ecccccCCcccee-CCCCccch-hhhhcCCCCCCcccccccccccC
Q 019939          290 CPICLTDPKDMAF-GCGHQTCC-GCGQDLDLCPICRSFIQTRIKLY  333 (333)
Q Consensus       290 C~ICl~~~~~~~l-~CgH~fC~-~C~~~~~~CP~CR~~i~~~i~~y  333 (333)
                      |..|.+....|++ ||.|..+| .|...+..||+|+.+....+.+|
T Consensus       161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~~~~CPiC~~~~~s~~~v~  206 (207)
T KOG1100|consen  161 CRKCGEREATVLLLPCRHLCLCGICDESLRICPICRSPKTSSVEVN  206 (207)
T ss_pred             ceecCcCCceEEeecccceEecccccccCccCCCCcChhhceeecc
Confidence            9999999998665 99999655 99988889999999988887765

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

Probab=96.91  E-value=0.012  Score=55.76  Aligned_cols=130  Identities=16%  Similarity=0.324  Sum_probs=85.5

Q ss_pred             CCCCccccCCCCCHHHHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeec
Q 019939           13 QRRSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLA   92 (333)
Q Consensus        13 ~~~sLH~~~~~~N~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~   92 (333)
                      +.+|+..-+-.+|..+ |+..|.+.+..... +.+-+.+||....   .+.+|+-  + ... +    +.-+++....+.
T Consensus        69 ~S~SM~~~~~~~~ale-ak~lIs~al~~Le~-g~vgVv~Fg~~~~---~v~Plt~--d-~~~-~----a~~~~l~~~~f~  135 (266)
T cd01460          69 DSKSMSENNSKKLALE-SLCLVSKALTLLEV-GQLGVCSFGEDVQ---ILHPFDE--Q-FSS-Q----SGPRILNQFTFQ  135 (266)
T ss_pred             cchhcccccccccHHH-HHHHHHHHHHhCcC-CcEEEEEeCCCce---EeCCCCC--C-chh-h----HHHHHhCcccCC
Confidence            4677776655678877 89999999988875 6899999998632   1222221  1 111 1    122233333333


Q ss_pred             -CCCChHHHHHHHHHHHHhc-----CC-ceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEeccc
Q 019939           93 -GPTSFAPIIEMAITIVEHS-----GG-QYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGD  165 (333)
Q Consensus        93 -gpt~fapvI~~~~~~~~~~-----~~-~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd  165 (333)
                       +.|+.+..|+.+.+..+..     ++ ...++||||||.-.+.           ......++.+|.+..+.+++|||=+
T Consensus       136 ~~~Tni~~aL~~a~~~f~~~~~~~~s~~~~qlilLISDG~~~~~-----------e~~~~~~~r~a~e~~i~l~~I~ld~  204 (266)
T cd01460         136 QDKTDIANLLKFTAQIFEDARTQSSSGSLWQLLLIISDGRGEFS-----------EGAQKVRLREAREQNVFVVFIIIDN  204 (266)
T ss_pred             CCCCcHHHHHHHHHHHHHhhhccccccccccEEEEEECCCcccC-----------ccHHHHHHHHHHHcCCeEEEEEEcC
Confidence             6799999999999887543     11 1378999999994331           2333344778888899999999966


Q ss_pred             C
Q 019939          166 G  166 (333)
Q Consensus       166 ~  166 (333)
                      .
T Consensus       205 ~  205 (266)
T cd01460         205 P  205 (266)
T ss_pred             C
Confidence            4

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.

>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.86  E-value=0.00083  Score=63.09  Aligned_cols=43  Identities=28%  Similarity=0.726  Sum_probs=35.4

Q ss_pred             CCCCeecccccCCcc-cee-CCCCccchhhhhcC------CCCCCcccccc
Q 019939          285 SDNHVCPICLTDPKD-MAF-GCGHQTCCGCGQDL------DLCPICRSFIQ  327 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~-~~l-~CgH~fC~~C~~~~------~~CP~CR~~i~  327 (333)
                      ....+|++|-+.+.. .+. +|||.+|..|+...      ..||.|-.+..
T Consensus       237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             cCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            457899999999998 444 79999999999743      38999988765

>PRK13685 hypothetical protein; Provisional

Probab=96.86  E-value=0.014  Score=56.76  Aligned_cols=133  Identities=16%  Similarity=0.175  Sum_probs=83.9

Q ss_pred             CCccccCCCCCHHHHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCC
Q 019939           15 RSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGP   94 (333)
Q Consensus        15 ~sLH~~~~~~N~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gp   94 (333)
                      .|+-..+..+|..+.|-..+..++..+.++..+-++.|++....   +.+++      ...+.+    ...+..+...|-
T Consensus        99 ~SM~~~D~~p~RL~~ak~~~~~~l~~l~~~d~vglv~Fa~~a~~---~~p~t------~d~~~l----~~~l~~l~~~~~  165 (326)
T PRK13685         99 QSMRATDVEPNRLAAAQEAAKQFADELTPGINLGLIAFAGTATV---LVSPT------TNREAT----KNAIDKLQLADR  165 (326)
T ss_pred             ccccCCCCCCCHHHHHHHHHHHHHHhCCCCCeEEEEEEcCceee---cCCCC------CCHHHH----HHHHHhCCCCCC
Confidence            35544444568999999999999999877778999999986431   11221      233222    223345556788


Q ss_pred             CChHHHHHHHHHHHHh--------cCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC
Q 019939           95 TSFAPIIEMAITIVEH--------SGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG  166 (333)
Q Consensus        95 t~fapvI~~~~~~~~~--------~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~  166 (333)
                      |+...-|..+.+..++        .+...-.+++||||.-+...+      +.+.....++...|.+..+.|-.||||..
T Consensus       166 T~~g~al~~A~~~l~~~~~~~~~~~~~~~~~IILlTDG~~~~~~~------~~~~~~~~~aa~~a~~~gi~i~~Ig~G~~  239 (326)
T PRK13685        166 TATGEAIFTALQAIATVGAVIGGGDTPPPARIVLMSDGKETVPTN------PDNPRGAYTAARTAKDQGVPISTISFGTP  239 (326)
T ss_pred             cchHHHHHHHHHHHHhhhcccccccCCCCCEEEEEcCCCCCCCCC------CCCcccHHHHHHHHHHcCCeEEEEEECCC
Confidence            8888889888877652        122245688999998653100      00011223455566677888888899863

>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=96.78  E-value=0.00058  Score=52.15  Aligned_cols=36  Identities=31%  Similarity=0.848  Sum_probs=27.0

Q ss_pred             CeecccccCCc-----------c--cee-CCCCccchhhhhcC----CCCCCcc
Q 019939          288 HVCPICLTDPK-----------D--MAF-GCGHQTCCGCGQDL----DLCPICR  323 (333)
Q Consensus       288 ~~C~ICl~~~~-----------~--~~l-~CgH~fC~~C~~~~----~~CP~CR  323 (333)
                      ..|.||++.+.           +  +.+ +|||.|...|+.+.    ..||+||
T Consensus        20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            35999999871           2  233 89999999999743    5899998

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 ....

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=96.77  E-value=0.00075  Score=67.15  Aligned_cols=46  Identities=26%  Similarity=0.670  Sum_probs=36.7

Q ss_pred             CCCCCCCCeecccccCCcc-c----eeCCCCccchhhhhcCC--CCCCccccc
Q 019939          281 ASSTSDNHVCPICLTDPKD-M----AFGCGHQTCCGCGQDLD--LCPICRSFI  326 (333)
Q Consensus       281 ~~~~~~~~~C~ICl~~~~~-~----~l~CgH~fC~~C~~~~~--~CP~CR~~i  326 (333)
                      +..+.+..+|+||++.... +    ++.|-|.|-+.|+.++.  +||+||-..
T Consensus       169 ~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~scpvcR~~q  221 (493)
T KOG0804|consen  169 PTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDSSCPVCRYCQ  221 (493)
T ss_pred             CCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcccCcChhhhhhc
Confidence            3345678899999998876 2    23999999999998874  899999643

>cd01477 vWA_F09G8-8_type VWA F09G8

Probab=96.72  E-value=0.014  Score=52.63  Aligned_cols=125  Identities=10%  Similarity=0.129  Sum_probs=83.8

Q ss_pred             CCHHHHHHHHHHhhhhccCC---------CCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCC
Q 019939           24 QNPYEQAISIIGKTLSSFDE---------DNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGP   94 (333)
Q Consensus        24 ~N~Y~~ai~~i~~vl~~yD~---------d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gp   94 (333)
                      .+.++++..-+..++..++.         .-.+-+.-|+....   ..|+|+    .....+.++++....+..+..+|.
T Consensus        34 ~~~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs~~a~---~~~~L~----d~~~~~~~~~ai~~~~~~~~~~gg  106 (193)
T cd01477          34 QGGLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYNSNAT---VVADLN----DLQSFDDLYSQIQGSLTDVSSTNA  106 (193)
T ss_pred             hhhHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEccCceE---EEEecc----cccCHHHHHHHHHHHhhccccCCc
Confidence            45689998888888887775         24788888987533   224442    134567777777765555655678


Q ss_pred             CChHHHHHHHHHHHHhc-----CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC
Q 019939           95 TSFAPIIEMAITIVEHS-----GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG  166 (333)
Q Consensus        95 t~fapvI~~~~~~~~~~-----~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~  166 (333)
                      |+....|+.+.+.....     ....-++++||||.-...           .....++..++.+.-+-|.-||||..
T Consensus       107 T~ig~aL~~A~~~l~~~~~~~R~~v~kvvIllTDg~~~~~-----------~~~~~~~a~~l~~~GI~i~tVGiG~~  172 (193)
T cd01477         107 SYLDTGLQAAEQMLAAGKRTSRENYKKVVIVFASDYNDEG-----------SNDPRPIAARLKSTGIAIITVAFTQD  172 (193)
T ss_pred             chHHHHHHHHHHHHHhhhccccCCCCeEEEEEecCccCCC-----------CCCHHHHHHHHHHCCCEEEEEEeCCC
Confidence            99999999998887532     123678999999854321           01122333444567899999999974

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

>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=96.71  E-value=0.013  Score=51.33  Aligned_cols=127  Identities=17%  Similarity=0.288  Sum_probs=83.0

Q ss_pred             CCHHHHHHHHHHhhhhccCC---CCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceee-cC-CCChH
Q 019939           24 QNPYEQAISIIGKTLSSFDE---DNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRL-AG-PTSFA   98 (333)
Q Consensus        24 ~N~Y~~ai~~i~~vl~~yD~---d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l-~g-pt~fa   98 (333)
                      ...|+++..-+..++..|+-   .-.+.+.-|+....   ..|.|+-    ....++++++-.+    ++. .| .|+-.
T Consensus        15 ~~~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys~~~~---~~~~l~~----~~~~~~l~~~i~~----i~~~~g~~t~t~   83 (165)
T cd01481          15 SGNFPAIRDFIERIVQSLDVGPDKIRVAVVQFSDTPR---PEFYLNT----HSTKADVLGAVRR----LRLRGGSQLNTG   83 (165)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCCcEEEEEEecCCee---EEEeccc----cCCHHHHHHHHHh----cccCCCCcccHH
Confidence            46788888888899888874   45788999987643   2355431    1245566665443    333 35 47889


Q ss_pred             HHHHHHHHHHH--hcC-----CceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCCCcc
Q 019939           99 PIIEMAITIVE--HSG-----GQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMM  171 (333)
Q Consensus        99 pvI~~~~~~~~--~~~-----~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f~~m  171 (333)
                      ..|+.+.+..-  ..+     +...+|++||||.-.|           +..+..+.+++   .-+-|..||+|..+.+.|
T Consensus        84 ~AL~~~~~~~f~~~~g~R~~~~~~kv~vviTdG~s~d-----------~~~~~a~~lr~---~gv~i~~vG~~~~~~~eL  149 (165)
T cd01481          84 SALDYVVKNLFTKSAGSRIEEGVPQFLVLITGGKSQD-----------DVERPAVALKR---AGIVPFAIGARNADLAEL  149 (165)
T ss_pred             HHHHHHHHhhcCccccCCccCCCCeEEEEEeCCCCcc-----------hHHHHHHHHHH---CCcEEEEEeCCcCCHHHH
Confidence            99998877642  111     2367899999998775           24455555554   457777788886666655


Q ss_pred             cccC
Q 019939          172 REFD  175 (333)
Q Consensus       172 ~~ld  175 (333)
                      +.+-
T Consensus       150 ~~ia  153 (165)
T cd01481         150 QQIA  153 (165)
T ss_pred             HHHh
Confidence            5554

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.

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

Probab=96.66  E-value=0.033  Score=48.93  Aligned_cols=131  Identities=16%  Similarity=0.253  Sum_probs=79.7

Q ss_pred             CHHHHHHHHHHhhhh-ccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHH
Q 019939           25 NPYEQAISIIGKTLS-SFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEM  103 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~-~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~  103 (333)
                      +..+.|...+..++. .+..+..+-++.|+....+  .++++      -.+.+.+.+    .+..+...|.|++...++.
T Consensus        17 ~rl~~ak~a~~~~~~~~~~~~d~v~lv~F~~~~~~--~~~~~------t~~~~~~~~----~l~~l~~~G~T~l~~aL~~   84 (178)
T cd01451          17 HRMAAAKGAVLSLLRDAYQRRDKVALIAFRGTEAE--VLLPP------TRSVELAKR----RLARLPTGGGTPLAAGLLA   84 (178)
T ss_pred             cHHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCce--EEeCC------CCCHHHHHH----HHHhCCCCCCCcHHHHHHH
Confidence            466777777777664 3455668999999764211  11221      123333332    3344667899999999999


Q ss_pred             HHHHHH-hc--CCceEEEEEEecCccccCCCcccCcCchhHHHH-HHHHHHhcCCCeEEEEEecccCCC--CcccccC
Q 019939          104 AITIVE-HS--GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKT-VEAIVKASEYPLSIILVGVGDGPW--DMMREFD  175 (333)
Q Consensus       104 ~~~~~~-~~--~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t-~~aI~~AS~~PlSii~VGvGd~~f--~~m~~ld  175 (333)
                      +.+..+ +.  ...-.++++||||..+...|       + .... .++..++....+.|+.||+|..+.  +.|++|-
T Consensus        85 a~~~l~~~~~~~~~~~~ivliTDG~~~~g~~-------~-~~~~~~~~~~~l~~~gi~v~~I~~~~~~~~~~~l~~iA  154 (178)
T cd01451          85 AYELAAEQARDPGQRPLIVVITDGRANVGPD-------P-TADRALAAARKLRARGISALVIDTEGRPVRRGLAKDLA  154 (178)
T ss_pred             HHHHHHHHhcCCCCceEEEEECCCCCCCCCC-------c-hhHHHHHHHHHHHhcCCcEEEEeCCCCccCccHHHHHH
Confidence            998872 21  12246899999998663111       1 2222 445555567788888999987532  3455554

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.

>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

Probab=96.64  E-value=0.001  Score=64.86  Aligned_cols=42  Identities=31%  Similarity=0.759  Sum_probs=33.5

Q ss_pred             CCCCeecccccCCc-----------c---ceeCCCCccchhhhh----cCCCCCCccccc
Q 019939          285 SDNHVCPICLTDPK-----------D---MAFGCGHQTCCGCGQ----DLDLCPICRSFI  326 (333)
Q Consensus       285 ~~~~~C~ICl~~~~-----------~---~~l~CgH~fC~~C~~----~~~~CP~CR~~i  326 (333)
                      .++..|.||+|...           +   --+||||.+--+|++    +...||+||.++
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence            46789999999731           1   246999999999996    557999999984

>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function

Probab=96.60  E-value=0.012  Score=49.43  Aligned_cols=107  Identities=19%  Similarity=0.308  Sum_probs=69.6

Q ss_pred             CHHHHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceee--cCCCChHHHHH
Q 019939           25 NPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRL--AGPTSFAPIIE  102 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l--~gpt~fapvI~  102 (333)
                      ..+.+.+..|..+++.+  ...+-++-|-++......+          ...       ...+..+++  .|.|+|.|+++
T Consensus        14 ~~l~~fl~ev~~i~~~~--~~~v~vi~~D~~v~~~~~~----------~~~-------~~~~~~~~~~GgGGTdf~pvf~   74 (126)
T PF09967_consen   14 EELRRFLSEVAGILRRF--PAEVHVIQFDAEVQDVQVF----------RSL-------EDELRDIKLKGGGGTDFRPVFE   74 (126)
T ss_pred             HHHHHHHHHHHHHHHhC--CCCEEEEEECCEeeeeeEE----------ecc-------cccccccccCCCCCCcchHHHH
Confidence            57888999999999999  3458888888765533321          111       111122222  48999999999


Q ss_pred             HHHHHHHhcCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEec--ccCCCCcccc
Q 019939          103 MAITIVEHSGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGV--GDGPWDMMRE  173 (333)
Q Consensus       103 ~~~~~~~~~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGv--Gd~~f~~m~~  173 (333)
                      .+.+.    .....++++||||.....                   ..+-.+|+-|++.|-  ...+|+..-+
T Consensus        75 ~~~~~----~~~~~~vi~fTDg~~~~~-------------------~~~P~~~vlWvl~~~~~~~~P~G~vv~  124 (126)
T PF09967_consen   75 YLEEN----RPRPSVVIYFTDGEGWPP-------------------EEAPPYPVLWVLPGNRNPKAPFGRVVR  124 (126)
T ss_pred             HHHhc----CCCCCEEEEEeCCCCCCC-------------------CCCCCCcEEEEEeCCCCCCCCCEEEEE
Confidence            98654    334678899999987531                   112278999999992  2334554433

>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.54  E-value=0.00084  Score=66.90  Aligned_cols=46  Identities=24%  Similarity=0.595  Sum_probs=38.3

Q ss_pred             CCCCCCeecccccCCcc-ceeCCCCccchhhhhcC----CCCCCccccccc
Q 019939          283 STSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       283 ~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      ....+..|.||...+-. ++.||||.||..|+.+.    ..||.||..+..
T Consensus        80 ~~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   80 EIRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cccchhhhhhhHhhcCCCccccccccccHHHHHHHhccCCCCccccccccc
Confidence            33678999999998888 67799999999997654    489999988764

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.44  E-value=0.0019  Score=46.55  Aligned_cols=43  Identities=23%  Similarity=0.576  Sum_probs=35.7

Q ss_pred             CCCeecccccCCcc-ceeCCCCccchhhhh--cCCCCCCccccccc
Q 019939          286 DNHVCPICLTDPKD-MAFGCGHQTCCGCGQ--DLDLCPICRSFIQT  328 (333)
Q Consensus       286 ~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~--~~~~CP~CR~~i~~  328 (333)
                      .+..|..|....+. ++++|||..|..|-.  +...||+|..+++.
T Consensus         6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~rYngCPfC~~~~~~   51 (55)
T PF14447_consen    6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPGERYNGCPFCGTPFEF   51 (55)
T ss_pred             cceeEEEccccccccccccccceeeccccChhhccCCCCCCCcccC
Confidence            45688889888766 778999999999975  56799999998864

>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.43  E-value=0.00098  Score=64.58  Aligned_cols=44  Identities=32%  Similarity=0.939  Sum_probs=36.4

Q ss_pred             CCCCeecccccCCcccee-CCCCccchhhhhcC----CCCCCccccccc
Q 019939          285 SDNHVCPICLTDPKDMAF-GCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~~~l-~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      .|+..|+||+..+.+.++ ||+|.-|..|+...    +.|=.|+..+..
T Consensus       420 sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  420 SEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             cccccCcceecccchhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            467799999999999777 99999999999743    577888776654

>cd01458 vWA_ku Ku70/Ku80 N-terminal domain

Probab=96.06  E-value=0.15  Score=46.32  Aligned_cols=139  Identities=12%  Similarity=0.239  Sum_probs=86.7

Q ss_pred             CCHHHHHHHHHHhhhhc---cCCCCccceEEeCCCCCC----CCcccccCCCCCCCCCHHHHHHHHHHhCC-cee-----
Q 019939           24 QNPYEQAISIIGKTLSS---FDEDNLIPCFGFGDASTH----DQEVFSFYPDEKFCNGFEEVLRRYRELVP-HLR-----   90 (333)
Q Consensus        24 ~N~Y~~ai~~i~~vl~~---yD~d~~ip~~GFG~~~~~----~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~-~v~-----   90 (333)
                      ++..+.|++.+..+++.   ..+...+-++.||...+.    ..+++.+.|-+  .-.. ..++.+.+.+. ...     
T Consensus        23 ~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~~~~~~i~v~~~l~--~~~~-~~l~~l~~~~~~~~~~~~~~   99 (218)
T cd01458          23 ESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNPVGYENIYVLLDLD--TPGA-ERVEDLKELIEPGGLSFAGQ   99 (218)
T ss_pred             CChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCcCCCCceEEeecCC--CCCH-HHHHHHHHHhhcchhhhccc
Confidence            69999999999999997   666679999999987543    23444333211  1122 23333333322 211     


Q ss_pred             --ecCCCChHHHHHHHHHHHHhcCC--ceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC
Q 019939           91 --LAGPTSFAPIIEMAITIVEHSGG--QYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG  166 (333)
Q Consensus        91 --l~gpt~fapvI~~~~~~~~~~~~--~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~  166 (333)
                        -++.|.+..+|..+.+..++...  .--.+++||||+-.-      +.=..+.++..+.+.+..+.-+.|..||+|..
T Consensus       100 ~~~~~~~~l~~aL~~a~~~~~~~~~~~~~k~IvL~TDg~~p~------~~~~~~~~~~~~~a~~l~~~gI~i~~i~i~~~  173 (218)
T cd01458         100 VGDSGQVSLSDALWVCLDLFSKGKKKKSHKRIFLFTNNDDPH------GGDSIKDSQAAVKAEDLKDKGIELELFPLSSP  173 (218)
T ss_pred             CCCCCCccHHHHHHHHHHHHHhccccccccEEEEECCCCCCC------CCCHHHHHHHHHHHHHHHhCCcEEEEEecCCC
Confidence              24678999999999888764211  123688999996430      00001134555666667778899999999865


Q ss_pred             C--CCcc
Q 019939          167 P--WDMM  171 (333)
Q Consensus       167 ~--f~~m  171 (333)
                      +  |+..
T Consensus       174 ~~~f~~~  180 (218)
T cd01458         174 GKKFDVS  180 (218)
T ss_pred             CCCCChh
Confidence            4  5533

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.

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

Probab=96.04  E-value=0.075  Score=47.86  Aligned_cols=152  Identities=12%  Similarity=0.188  Sum_probs=93.4

Q ss_pred             CccccCCCCCHHHHHHHHHHhhhhccCC---CCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeec
Q 019939           16 SLHHIGDDQNPYEQAISIIGKTLSSFDE---DNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLA   92 (333)
Q Consensus        16 sLH~~~~~~N~Y~~ai~~i~~vl~~yD~---d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~   92 (333)
                      |+-.-+-.+|-++.+...+..++..|-+   ...+-+..|+++....  +.+++      .....++..    +..+.+.
T Consensus        15 sM~a~D~~PnRL~aak~~i~~~~~~f~~~np~~~vGlv~fag~~a~v--~~plT------~D~~~~~~~----L~~i~~~   82 (187)
T cd01452          15 YMRNGDYPPTRFQAQADAVNLICQAKTRSNPENNVGLMTMAGNSPEV--LVTLT------NDQGKILSK----LHDVQPK   82 (187)
T ss_pred             HHHcCCCCCCHHHHHHHHHHHHHHHHHhcCCCccEEEEEecCCceEE--EECCC------CCHHHHHHH----HHhCCCC
Confidence            3333334689999999999988744433   3467888888743321  11222      123334333    3345667


Q ss_pred             CCCChHHHHHHHHHHHHhcC---CceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCC--
Q 019939           93 GPTSFAPIIEMAITIVEHSG---GQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGP--  167 (333)
Q Consensus        93 gpt~fapvI~~~~~~~~~~~---~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~--  167 (333)
                      |.+++...|+.|....+...   ..=-|++|++++.-.|            .....+++.++.+..+.+-+||+|+..  
T Consensus        83 g~~~l~~AL~~A~~~L~~~~~~~~~~rivi~v~S~~~~d------------~~~i~~~~~~lkk~~I~v~vI~~G~~~~~  150 (187)
T cd01452          83 GKANFITGIQIAQLALKHRQNKNQKQRIVAFVGSPIEED------------EKDLVKLAKRLKKNNVSVDIINFGEIDDN  150 (187)
T ss_pred             CcchHHHHHHHHHHHHhcCCCcCCcceEEEEEecCCcCC------------HHHHHHHHHHHHHcCCeEEEEEeCCCCCC
Confidence            99999999999987765332   2224677777764444            455667777777889999999999752  


Q ss_pred             CCcccccCCCCCCcccceeeeeeccc
Q 019939          168 WDMMREFDDNIPARAFDNFQFVNFTE  193 (333)
Q Consensus       168 f~~m~~ld~~~~~r~~DnvqFv~~~~  193 (333)
                      =+.|+.|-+...  .-||-+||....
T Consensus       151 ~~~l~~~~~~~~--~~~~s~~~~~~~  174 (187)
T cd01452         151 TEKLTAFIDAVN--GKDGSHLVSVPP  174 (187)
T ss_pred             HHHHHHHHHHhc--CCCCceEEEeCC
Confidence            222333322222  136778877654

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.

>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.92  E-value=0.0026  Score=66.07  Aligned_cols=42  Identities=29%  Similarity=0.746  Sum_probs=34.5

Q ss_pred             CCCCeecccccCCcc------ceeCCCCccchhhhhcC----CCCCCccccc
Q 019939          285 SDNHVCPICLTDPKD------MAFGCGHQTCCGCGQDL----DLCPICRSFI  326 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~------~~l~CgH~fC~~C~~~~----~~CP~CR~~i  326 (333)
                      .....|.||+|....      ..++|||.||..|++.+    ..||+||..+
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~  340 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL  340 (543)
T ss_pred             hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence            457899999998866      34599999999999754    6999999843

>KOG3002 consensus Zn finger protein [General function prediction only]

Probab=95.61  E-value=0.0058  Score=58.85  Aligned_cols=46  Identities=33%  Similarity=0.743  Sum_probs=38.6

Q ss_pred             CCCCCCeecccccCCccceeCC--CCccchhhh-hcCCCCCCccccccc
Q 019939          283 STSDNHVCPICLTDPKDMAFGC--GHQTCCGCG-QDLDLCPICRSFIQT  328 (333)
Q Consensus       283 ~~~~~~~C~ICl~~~~~~~l~C--gH~fC~~C~-~~~~~CP~CR~~i~~  328 (333)
                      ..-+-..||||.+.....++.|  ||..|..|- +....||.||.++..
T Consensus        44 ~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~~~CP~Cr~~~g~   92 (299)
T KOG3002|consen   44 LDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVSNKCPTCRLPIGN   92 (299)
T ss_pred             cchhhccCchhhccCcccceecCCCcEehhhhhhhhcccCCcccccccc
Confidence            3445689999999999888888  899999998 455699999999874

>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]

Probab=95.52  E-value=0.0063  Score=54.81  Aligned_cols=42  Identities=29%  Similarity=0.641  Sum_probs=34.3

Q ss_pred             CCeecccccCCcc-ceeCCCCccchhhhhc----CCCCCCccccccc
Q 019939          287 NHVCPICLTDPKD-MAFGCGHQTCCGCGQD----LDLCPICRSFIQT  328 (333)
Q Consensus       287 ~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~----~~~CP~CR~~i~~  328 (333)
                      ...|-||...+.. ++..|||.||..|+.+    -..|-+|......
T Consensus       196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G  242 (259)
T COG5152         196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATYG  242 (259)
T ss_pred             ceeehhchhhccchhhhhcchhHHHHHHHHHhccCCcceecchhhcc
Confidence            4799999999988 6779999999999853    3489999775543

>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.50  E-value=0.0056  Score=59.96  Aligned_cols=46  Identities=28%  Similarity=0.615  Sum_probs=36.7

Q ss_pred             CCCCeecccccCCccce---------eCCCCccchhhhhcC-----------CCCCCccccccccc
Q 019939          285 SDNHVCPICLTDPKDMA---------FGCGHQTCCGCGQDL-----------DLCPICRSFIQTRI  330 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~~~---------l~CgH~fC~~C~~~~-----------~~CP~CR~~i~~~i  330 (333)
                      ..+..|-||++...+..         .+|-|.||..|+.++           +.||.||.....++
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~  224 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVN  224 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccccc
Confidence            45789999999876644         379999999999633           58999999876654

>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]

Probab=95.41  E-value=0.012  Score=56.70  Aligned_cols=49  Identities=27%  Similarity=0.625  Sum_probs=35.1

Q ss_pred             CCCCeecccccCCcc-cee-CCCCccchhhhh----cCCCCCCccccc--ccccccC
Q 019939          285 SDNHVCPICLTDPKD-MAF-GCGHQTCCGCGQ----DLDLCPICRSFI--QTRIKLY  333 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~-~~l-~CgH~fC~~C~~----~~~~CP~CR~~i--~~~i~~y  333 (333)
                      .+...|+||+....+ .++ --|..||..|+.    ....||+-.-+.  +.-+|+|
T Consensus       298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~~l~rl~  354 (357)
T KOG0826|consen  298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVDHLIRLF  354 (357)
T ss_pred             CccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcchHHHHHHHh
Confidence            356799999998888 555 569999999995    446899754443  3444443

>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]

Probab=95.27  E-value=0.0043  Score=59.78  Aligned_cols=48  Identities=23%  Similarity=0.490  Sum_probs=39.0

Q ss_pred             CCCCCCeecccccCCccc-ee-CCCCccchhhhhc----CCCCCCccccccccc
Q 019939          283 STSDNHVCPICLTDPKDM-AF-GCGHQTCCGCGQD----LDLCPICRSFIQTRI  330 (333)
Q Consensus       283 ~~~~~~~C~ICl~~~~~~-~l-~CgH~fC~~C~~~----~~~CP~CR~~i~~~i  330 (333)
                      ......+|.+|-..+.|+ ++ .|-|.||..|+-+    ...||.|...|.+..
T Consensus        11 ~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~   64 (331)
T KOG2660|consen   11 ELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTH   64 (331)
T ss_pred             hcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCcc
Confidence            345678999999999994 34 9999999999953    469999998886653

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=95.23  E-value=0.21  Score=52.51  Aligned_cols=142  Identities=12%  Similarity=0.184  Sum_probs=82.3

Q ss_pred             CCHHHHHHHHHHhhhhc-cCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHH
Q 019939           24 QNPYEQAISIIGKTLSS-FDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIE  102 (333)
Q Consensus        24 ~N~Y~~ai~~i~~vl~~-yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~  102 (333)
                      .+..+.|-..+..++.. |-....+-++.|+.....  .++++      -.+.+.+    ++.+..+..+|.|.++..|.
T Consensus       422 ~~rl~~aK~av~~Ll~~~~~~~D~v~Li~F~~~~a~--~~lp~------t~~~~~~----~~~L~~l~~gGgTpL~~gL~  489 (589)
T TIGR02031       422 VARMSEAKGAVELLLGEAYVHRDQVSLIAFRGTAAE--VLLPP------SRSVEQA----KRRLDVLPGGGGTPLAAGLA  489 (589)
T ss_pred             hHHHHHHHHHHHHHHHhhccCCCEEEEEEECCCCce--EECCC------CCCHHHH----HHHHhcCCCCCCCcHHHHHH
Confidence            35677777777777764 433447999999754211  11221      2344433    34466777899999999999


Q ss_pred             HHHHHHHhcC--CceEEEEEEecCccccCCCcccCcCchh----HHHHHHHHHHhcCCCeEEEEEecccCCC--Cccccc
Q 019939          103 MAITIVEHSG--GQYHVLVIIADGQVTRSVDTEHGQLSSQ----EKKTVEAIVKASEYPLSIILVGVGDGPW--DMMREF  174 (333)
Q Consensus       103 ~~~~~~~~~~--~~y~vLlIiTDG~i~d~~~~~~~~~~~~----~~~t~~aI~~AS~~PlSii~VGvGd~~f--~~m~~l  174 (333)
                      .+.+..++..  ..-.++++||||.-+-..+-..+...++    .++...+........+.+++||+|.+..  +.+++|
T Consensus       490 ~A~~~~~~~~~~~~~~~ivllTDG~~nv~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~gi~~~vid~~~~~~~~~~~~~l  569 (589)
T TIGR02031       490 AAFQTALQARSSGGTPTIVLITDGRGNIPLDGDPESIKADREQAAEEALALARKIREAGMPALVIDTAMRFVSTGFAQKL  569 (589)
T ss_pred             HHHHHHHHhcccCCceEEEEECCCCCCCCCCcccccccccchhHHHHHHHHHHHHHhcCCeEEEEeCCCCCccchHHHHH
Confidence            9998876432  2235789999998653111000000000    1122222233345668999999997643  346666


Q ss_pred             CCC
Q 019939          175 DDN  177 (333)
Q Consensus       175 d~~  177 (333)
                      -+.
T Consensus       570 A~~  572 (589)
T TIGR02031       570 ARK  572 (589)
T ss_pred             HHh
Confidence            533

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.

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

Probab=95.08  E-value=0.012  Score=46.22  Aligned_cols=41  Identities=29%  Similarity=0.692  Sum_probs=29.1

Q ss_pred             CCeecccccCCc-----------c--cee-CCCCccchhhhhcC-------CCCCCcccccc
Q 019939          287 NHVCPICLTDPK-----------D--MAF-GCGHQTCCGCGQDL-------DLCPICRSFIQ  327 (333)
Q Consensus       287 ~~~C~ICl~~~~-----------~--~~l-~CgH~fC~~C~~~~-------~~CP~CR~~i~  327 (333)
                      +..|.||...+.           +  .++ .|+|.|-..|+.+.       ..||+||++.+
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            456666665442           3  233 89999999999532       48999999865

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=95.07  E-value=0.28  Score=51.65  Aligned_cols=151  Identities=13%  Similarity=0.222  Sum_probs=92.2

Q ss_pred             CHHHHHHHHHHhhhh-ccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHH
Q 019939           25 NPYEQAISIIGKTLS-SFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEM  103 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~-~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~  103 (333)
                      |.-..|-.++..+|. .|-..-.+-++.|+.....  .+.+.      -..++.+    ++.+..+.-+|.|.++.-|..
T Consensus       417 ~rl~~aK~a~~~ll~~ay~~rD~v~lI~F~g~~a~--~~lpp------T~~~~~~----~~~L~~l~~gGgTpL~~gL~~  484 (584)
T PRK13406        417 HRLAEAKGAVELLLAEAYVRRDQVALVAFRGRGAE--LLLPP------TRSLVRA----KRSLAGLPGGGGTPLAAGLDA  484 (584)
T ss_pred             hHHHHHHHHHHHHHHhhcCCCCEEEEEEECCCcee--EEcCC------CcCHHHH----HHHHhcCCCCCCChHHHHHHH
Confidence            556666666666663 4766668999999654221  11211      1233333    234456777899999999999


Q ss_pred             HHHHHHhc--CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCCCcccccCCCCCCc
Q 019939          104 AITIVEHS--GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFDDNIPAR  181 (333)
Q Consensus       104 ~~~~~~~~--~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f~~m~~ld~~~~~r  181 (333)
                      +.+..+..  .+.-.++++||||..+...+...|. .....+...+...+...-+.+++|++|....+.|++|-+.+.  
T Consensus       485 A~~~l~~~~~~~~~~~iVLlTDG~~n~~~~~~~~~-~~~~~~~~~~a~~~~~~gi~~~vId~g~~~~~~~~~LA~~~g--  561 (584)
T PRK13406        485 AAALALQVRRKGMTPTVVLLTDGRANIARDGTAGR-AQAEEDALAAARALRAAGLPALVIDTSPRPQPQARALAEAMG--  561 (584)
T ss_pred             HHHHHHHhccCCCceEEEEEeCCCCCCCccccccc-cchhhHHHHHHHHHHhcCCeEEEEecCCCCcHHHHHHHHhcC--
Confidence            99887543  2234688999999876321100000 111234455555556667889999999887777777764333  


Q ss_pred             ccceeeeeecccc
Q 019939          182 AFDNFQFVNFTEI  194 (333)
Q Consensus       182 ~~DnvqFv~~~~~  194 (333)
                          ..|+.+.+.
T Consensus       562 ----g~y~~l~~~  570 (584)
T PRK13406        562 ----ARYLPLPRA  570 (584)
T ss_pred             ----CeEEECCCC
Confidence                346666655

>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=94.64  E-value=0.35  Score=44.36  Aligned_cols=89  Identities=20%  Similarity=0.205  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHHHH
Q 019939           26 PYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAI  105 (333)
Q Consensus        26 ~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~~~  105 (333)
                      .|-..+..+...+..--  ..+.+|-|+.........+.       -.+..+.+........  .++|.|+++..++++.
T Consensus        72 ~~s~~~l~~~~~l~~~~--~~~~~f~F~~~l~~vT~~l~-------~~~~~~~l~~~~~~~~--~~~GgTdi~~aL~~~~  140 (222)
T PF05762_consen   72 GYSEFMLAFLYALQRQF--RRVRVFVFSTRLTEVTPLLR-------RRDPEEALARLSALVQ--SFGGGTDIGQALREFL  140 (222)
T ss_pred             HHHHHHHHHHHHHHHhC--CCEEEEEEeeehhhhhhhhc-------cCCHHHHHHHHHhhcc--CCCCccHHHHHHHHHH
Confidence            45555544444333222  26899999986543222110       1244455554443333  3789999999999999


Q ss_pred             HHHHhcCCceEEEEEEecCc
Q 019939          106 TIVEHSGGQYHVLVIIADGQ  125 (333)
Q Consensus       106 ~~~~~~~~~y~vLlIiTDG~  125 (333)
                      +......-.-++||||+||.
T Consensus       141 ~~~~~~~~~~t~vvIiSDg~  160 (222)
T PF05762_consen  141 RQYARPDLRRTTVVIISDGW  160 (222)
T ss_pred             HHhhcccccCcEEEEEeccc
Confidence            88764322467899999993

It is found as part of a CO oxidising (Cox) system operon in several bacteria [].

>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=94.58  E-value=0.015  Score=55.29  Aligned_cols=42  Identities=24%  Similarity=0.501  Sum_probs=35.3

Q ss_pred             CeecccccCCcc-ceeCCCCccchhhhhcC----CCCCCcccccccc
Q 019939          288 HVCPICLTDPKD-MAFGCGHQTCCGCGQDL----DLCPICRSFIQTR  329 (333)
Q Consensus       288 ~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~~  329 (333)
                      ..|-||...+.+ |+..|||.||..|+.+.    ..|.+|.+.+...
T Consensus       242 f~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~  288 (313)
T KOG1813|consen  242 FKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGS  288 (313)
T ss_pred             ccccccccccccchhhcCCceeehhhhccccccCCcceecccccccc
Confidence            469999999998 77799999999998643    5899999877654

>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B

Probab=94.48  E-value=0.012  Score=41.30  Aligned_cols=37  Identities=38%  Similarity=0.920  Sum_probs=17.5

Q ss_pred             ecccccCCcc--cee---CCCCccchhhhhcC-----CCCCCccccc
Q 019939          290 CPICLTDPKD--MAF---GCGHQTCCGCGQDL-----DLCPICRSFI  326 (333)
Q Consensus       290 C~ICl~~~~~--~~l---~CgH~fC~~C~~~~-----~~CP~CR~~i  326 (333)
                      |++|.+....  ..+   +||+..|..|..+.     ..||.||++.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            7888887733  333   78999999997543     3799999874

>KOG0825 consensus PHD Zn-finger protein [General function prediction only]

Probab=94.37  E-value=0.022  Score=60.41  Aligned_cols=46  Identities=24%  Similarity=0.456  Sum_probs=37.0

Q ss_pred             CCCCeecccccCCcc-ce---eCCCCccchhhhhcC----CCCCCccccccccc
Q 019939          285 SDNHVCPICLTDPKD-MA---FGCGHQTCCGCGQDL----DLCPICRSFIQTRI  330 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~-~~---l~CgH~fC~~C~~~~----~~CP~CR~~i~~~i  330 (333)
                      .....|++|+....+ ..   ..|+|.||..|+..+    ..||+||..+..++
T Consensus       121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~  174 (1134)
T KOG0825|consen  121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVK  174 (1134)
T ss_pred             hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheee
Confidence            345789999998887 22   289999999999765    48999999887654

>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain

Probab=94.34  E-value=0.44  Score=45.18  Aligned_cols=120  Identities=19%  Similarity=0.233  Sum_probs=68.6

Q ss_pred             CHHHHHHHHHHhhhhc-cCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCC-----------ceeec
Q 019939           25 NPYEQAISIIGKTLSS-FDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVP-----------HLRLA   92 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~-yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~-----------~v~l~   92 (333)
                      +....+...+...+.. +..+..+-++.|+.....   ++.++      ...+.+.++.....+           .+...
T Consensus        68 ~~~~~a~~a~~~~l~~~l~~~d~v~lv~f~~~~~~---~~~~t------~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~  138 (296)
T TIGR03436        68 NDLDRARAAAIRFLKTVLRPNDRVFVVTFNTRLRL---LQDFT------SDPRLLEAALNRLKPPLRTDYNSSGAFVRDG  138 (296)
T ss_pred             HHHHHHHHHHHHHHHhhCCCCCEEEEEEeCCceeE---eecCC------CCHHHHHHHHHhccCCCccccccccccccCC
Confidence            4566777778888866 667789999999976432   12222      123334443333222           12336


Q ss_pred             CCCChHHHHHHHH-HHHHhcC----CceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEeccc
Q 019939           93 GPTSFAPIIEMAI-TIVEHSG----GQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGD  165 (333)
Q Consensus        93 gpt~fapvI~~~~-~~~~~~~----~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd  165 (333)
                      |.|+....|..+. +...+..    +. -++++||||.-+.+           .....+++..+.+..+.|-.||+|+
T Consensus       139 g~T~l~~al~~aa~~~~~~~~~~~p~r-k~iIllTDG~~~~~-----------~~~~~~~~~~~~~~~v~vy~I~~~~  204 (296)
T TIGR03436       139 GGTALYDAITLAALEQLANALAGIPGR-KALIVISDGGDNRS-----------RDTLERAIDAAQRADVAIYSIDARG  204 (296)
T ss_pred             CcchhHHHHHHHHHHHHHHhhcCCCCC-eEEEEEecCCCcch-----------HHHHHHHHHHHHHcCCEEEEeccCc
Confidence            8888887775554 3332221    22 47999999975431           1222233333445567888888875

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.

>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=94.04  E-value=0.34  Score=43.80  Aligned_cols=135  Identities=14%  Similarity=0.144  Sum_probs=71.7

Q ss_pred             HHHHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHH--HHHHHHHHhCCceeecCCCChHHHHHH
Q 019939           26 PYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFE--EVLRRYRELVPHLRLAGPTSFAPIIEM  103 (333)
Q Consensus        26 ~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~--gvl~~Y~~~~~~v~l~gpt~fapvI~~  103 (333)
                      .-..|...+.+.+..|.+....+-.||++.......++   .+.|.-..-+  .++...-.- -++-+.|+.-= ..|..
T Consensus        25 ~RL~a~k~v~~~f~~f~~~r~~DriG~~g~~~~~~~lt---~d~p~t~d~~~~~~l~~~l~~-~q~g~ag~~Ta-dAi~~   99 (191)
T cd01455          25 RSLEAVVMVMEAFDGFEDKIQYDIIGHSGDGPCVPFVK---TNHPPKNNKERLETLKMMHAH-SQFCWSGDHTV-EATEF   99 (191)
T ss_pred             cHHHHHHHHHHHHHHHHHhCccceeeecCcccccCccc---cccCcccchhHHHHHHHHHHh-cccCccCccHH-HHHHH
Confidence            34445555555566666777788888876533211111   1222222222  233322221 13344565333 88888


Q ss_pred             HHHHHH-hcCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCCCcccccC
Q 019939          104 AITIVE-HSGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFD  175 (333)
Q Consensus       104 ~~~~~~-~~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f~~m~~ld  175 (333)
                      +++..+ ++..+--|++.||||..+.      +.++|.  +.  +-.-|.+.-+=|--||||..+.+.++.+-
T Consensus       100 av~rl~~~~~a~~kvvILLTDG~n~~------~~i~P~--~a--Aa~lA~~~gV~iytIgiG~~d~~~l~~iA  162 (191)
T cd01455         100 AIKELAAKEDFDEAIVIVLSDANLER------YGIQPK--KL--ADALAREPNVNAFVIFIGSLSDEADQLQR  162 (191)
T ss_pred             HHHHHHhcCcCCCcEEEEEeCCCcCC------CCCChH--HH--HHHHHHhCCCEEEEEEecCCCHHHHHHHH
Confidence            888876 6554556899999999764      334331  11  12224455666667777775545555443

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

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.98  E-value=0.031  Score=51.99  Aligned_cols=44  Identities=18%  Similarity=0.405  Sum_probs=37.2

Q ss_pred             CCCeecccccCCcc----cee-CCCCccchhhhhcC----CCCCCcccccccc
Q 019939          286 DNHVCPICLTDPKD----MAF-GCGHQTCCGCGQDL----DLCPICRSFIQTR  329 (333)
Q Consensus       286 ~~~~C~ICl~~~~~----~~l-~CgH~fC~~C~~~~----~~CP~CR~~i~~~  329 (333)
                      ....|+||.+...+    ++| +|||.+|.+|.+++    ..||+|-.+...+
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdr  272 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDR  272 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCccc
Confidence            56899999999988    345 99999999999977    3899999988754

>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=93.82  E-value=0.023  Score=52.00  Aligned_cols=25  Identities=36%  Similarity=0.941  Sum_probs=21.4

Q ss_pred             ceeCCCCccchhhhhcC----CCCCCccc
Q 019939          300 MAFGCGHQTCCGCGQDL----DLCPICRS  324 (333)
Q Consensus       300 ~~l~CgH~fC~~C~~~~----~~CP~CR~  324 (333)
                      .+++|||+||..|+...    ..||.||.
T Consensus        27 ~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   27 VLLPCGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence            56799999999999865    48999993

>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]

Probab=93.74  E-value=0.047  Score=54.61  Aligned_cols=45  Identities=36%  Similarity=0.956  Sum_probs=37.6

Q ss_pred             CCCCCeecccccCCcc-ce-eCCCCccchhhhhcC----CCCCCccccccc
Q 019939          284 TSDNHVCPICLTDPKD-MA-FGCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~-~~-l~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      .+++..|++|.....+ +. ..|||.||..|+...    ..||.||..+..
T Consensus        18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~   68 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQ   68 (391)
T ss_pred             CcccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccch
Confidence            6788999999999999 44 399999999999754    489999887653

>PF04641 Rtf2: Rtf2 RING-finger

Probab=93.46  E-value=0.055  Score=51.05  Aligned_cols=45  Identities=18%  Similarity=0.473  Sum_probs=37.4

Q ss_pred             CCCCCeecccccCCcc----cee-CCCCccchhhhhcCC---CCCCccccccc
Q 019939          284 TSDNHVCPICLTDPKD----MAF-GCGHQTCCGCGQDLD---LCPICRSFIQT  328 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~----~~l-~CgH~fC~~C~~~~~---~CP~CR~~i~~  328 (333)
                      ......|||+...+..    +.+ +|||.|+..++..+.   .||+|-.++..
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k~~~~Cp~c~~~f~~  162 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELKKSKKCPVCGKPFTE  162 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhcccccccccCCcccc
Confidence            4567899999988743    455 999999999998776   79999999874

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=93.35  E-value=0.78  Score=48.70  Aligned_cols=133  Identities=13%  Similarity=0.213  Sum_probs=77.9

Q ss_pred             CHHHHHHHHHHhhhh-ccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHH
Q 019939           25 NPYEQAISIIGKTLS-SFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEM  103 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~-~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~  103 (333)
                      +..+.|...+..++. .|-....+-+++|++...  ..++++      -.+.+.+.    ..+..+...|.|.++..|..
T Consensus       482 ~rl~~ak~a~~~ll~~a~~~~D~v~lI~F~g~~a--~~~~p~------t~~~~~~~----~~L~~l~~gG~Tpl~~aL~~  549 (633)
T TIGR02442       482 GRMAAAKGAVLSLLRDAYQKRDKVALITFRGEEA--EVLLPP------TSSVELAA----RRLEELPTGGRTPLAAGLLK  549 (633)
T ss_pred             cHHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCc--eEEcCC------CCCHHHHH----HHHHhCCCCCCCCHHHHHHH
Confidence            577777777777664 465667899999975311  112221      13333332    23445667899999999999


Q ss_pred             HHHHHHh----cCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC--CCCccccc
Q 019939          104 AITIVEH----SGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG--PWDMMREF  174 (333)
Q Consensus       104 ~~~~~~~----~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~--~f~~m~~l  174 (333)
                      +.+..+.    ....-.++++||||.-+.. |..    ..-.++...+-....+.-+.+++|+.+.+  +.+.+++|
T Consensus       550 A~~~l~~~~~~~~~~~~~vvliTDG~~n~~-~~~----~~~~~~~~~~a~~l~~~~i~~~vIdt~~~~~~~~~~~~l  621 (633)
T TIGR02442       550 AAEVLSNELLRDDDGRPLLVVITDGRANVA-DGG----EPPTDDARTIAAKLAARGILFVVIDTESGFVRLGLAEDL  621 (633)
T ss_pred             HHHHHHHhhccCCCCceEEEEECCCCCCCC-CCC----CChHHHHHHHHHHHHhcCCeEEEEeCCCCCcchhHHHHH
Confidence            9988763    2223468899999986542 110    01123333333333345677888888664  23444444

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.

>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]

Probab=93.26  E-value=0.022  Score=58.04  Aligned_cols=44  Identities=23%  Similarity=0.631  Sum_probs=35.6

Q ss_pred             CCCCCeecccccCCcc-ceeCCCCccchhhhhcC---------CCCCCcccccc
Q 019939          284 TSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL---------DLCPICRSFIQ  327 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~---------~~CP~CR~~i~  327 (333)
                      ..++.+|.+|-+...+ +...|.|.||+.|+...         ..||.|...+.
T Consensus       533 nk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls  586 (791)
T KOG1002|consen  533 NKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS  586 (791)
T ss_pred             ccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence            4567899999999998 55699999999999522         48999987553

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=93.07  E-value=0.034  Score=53.94  Aligned_cols=43  Identities=30%  Similarity=0.757  Sum_probs=31.9

Q ss_pred             CCCeecccccCCcc---cee--CCCCccchhhhhcC-----CCCCCccccccc
Q 019939          286 DNHVCPICLTDPKD---MAF--GCGHQTCCGCGQDL-----DLCPICRSFIQT  328 (333)
Q Consensus       286 ~~~~C~ICl~~~~~---~~l--~CgH~fC~~C~~~~-----~~CP~CR~~i~~  328 (333)
                      ++..|+.|++....   -.+  +||...|.-|....     -.||.||+..+.
T Consensus        13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~d   65 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDD   65 (480)
T ss_pred             ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence            44559999997643   233  78999999998644     389999987654

>PRK10997 yieM hypothetical protein; Provisional

Probab=93.03  E-value=1.8  Score=44.51  Aligned_cols=126  Identities=17%  Similarity=0.176  Sum_probs=73.0

Q ss_pred             HHHHH-HHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHHH
Q 019939           26 PYEQA-ISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMA  104 (333)
Q Consensus        26 ~Y~~a-i~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~~  104 (333)
                      .|.+| .-+++.++..=+  ..+-++.|++.....    .+    +.-.|+..+++.-..     .++|.|++++.++.+
T Consensus       342 ~~AkalAaAL~~iAl~q~--dr~~li~Fs~~i~~~----~l----~~~~gl~~ll~fL~~-----~f~GGTDl~~aL~~a  406 (487)
T PRK10997        342 QCAKAFCLALMRIALAEN--RRCYIMLFSTEVVTY----EL----TGPDGLEQAIRFLSQ-----SFRGGTDLAPCLRAI  406 (487)
T ss_pred             HHHHHHHHHHHHHHHhcC--CCEEEEEecCCceee----cc----CCccCHHHHHHHHHH-----hcCCCCcHHHHHHHH
Confidence            55555 334444444333  346789998854321    11    223588877765533     248999999999999


Q ss_pred             HHHHHhcCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCCCcccccC
Q 019939          105 ITIVEHSGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFD  175 (333)
Q Consensus       105 ~~~~~~~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f~~m~~ld  175 (333)
                      .+..++..-.=..+|||||+....        ++++..+.++.+.+....=+.-+.||- .++=+.|+.||
T Consensus       407 l~~l~~~~~r~adIVVISDF~~~~--------~~eel~~~L~~Lk~~~~~rf~~l~i~~-~~~p~l~~ifD  468 (487)
T PRK10997        407 IEKMQGREWFDADAVVISDFIAQR--------LPDELVAKVKELQRQHQHRFHAVAMSA-HGKPGIMRIFD  468 (487)
T ss_pred             HHHHcccccCCceEEEECCCCCCC--------ChHHHHHHHHHHHHhcCcEEEEEEeCC-CCCchHHHhcC
Confidence            988765422235799999996432        112344555555555555555555542 12223456666

>TIGR00868 hCaCC calcium-activated chloride channel protein 1

Probab=91.85  E-value=1.3  Score=48.63  Aligned_cols=111  Identities=14%  Similarity=0.182  Sum_probs=66.3

Q ss_pred             cCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHHHHHHHHhcCC--ceEEE
Q 019939           41 FDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGG--QYHVL  118 (333)
Q Consensus        41 yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~~~~~~~~~~~--~y~vL  118 (333)
                      +.++..+-++.|+.......   .|.+-.    . ....++-...++ ....|.|++...|+.+.+..++...  .-..+
T Consensus       338 l~~~DrVGLVtFsssA~vl~---pLt~It----s-~~dr~aL~~~L~-~~A~GGT~I~~GL~~Alq~L~~~~~~~~~~~I  408 (863)
T TIGR00868       338 VEKGSWVGMVTFDSAAYIKN---ELIQIT----S-SAERDALTANLP-TAASGGTSICSGLKAAFQVIKKSYQSTDGSEI  408 (863)
T ss_pred             CCCCCEEEEEEECCceeEee---ccccCC----c-HHHHHHHHHhhc-cccCCCCcHHHHHHHHHHHHHhcccccCCCEE
Confidence            45567899999998643222   221100    1 112233333343 3467999999999999998765421  12367


Q ss_pred             EEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCCCcccccC
Q 019939          119 VIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFD  175 (333)
Q Consensus       119 lIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f~~m~~ld  175 (333)
                      ++||||+-.+            ..+..+   ++.+..+.|--||+|...=..|+++-
T Consensus       409 ILLTDGedn~------------~~~~l~---~lk~~gVtI~TIg~G~dad~~L~~IA  450 (863)
T TIGR00868       409 VLLTDGEDNT------------ISSCFE---EVKQSGAIIHTIALGPSAAKELEELS  450 (863)
T ss_pred             EEEeCCCCCC------------HHHHHH---HHHHcCCEEEEEEeCCChHHHHHHHH
Confidence            8889998653            233333   34445788888999975434455443

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

>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=91.36  E-value=0.056  Score=54.75  Aligned_cols=42  Identities=29%  Similarity=0.664  Sum_probs=31.5

Q ss_pred             CCCeecccccCC-----------------cc-ceeCCCCccchhhhhcC----C-CCCCcccccc
Q 019939          286 DNHVCPICLTDP-----------------KD-MAFGCGHQTCCGCGQDL----D-LCPICRSFIQ  327 (333)
Q Consensus       286 ~~~~C~ICl~~~-----------------~~-~~l~CgH~fC~~C~~~~----~-~CP~CR~~i~  327 (333)
                      ....|+||+...                 ++ ++.||.|.|-..|+...    + .||.||.++.
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP  634 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP  634 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence            447899999732                 12 23399999999999754    2 7999999875

>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]

Probab=90.91  E-value=0.076  Score=56.62  Aligned_cols=40  Identities=33%  Similarity=0.877  Sum_probs=32.1

Q ss_pred             CeecccccCCcc-ceeCCCCccchhhhhcC------CCCCCccccccc
Q 019939          288 HVCPICLTDPKD-MAFGCGHQTCCGCGQDL------DLCPICRSFIQT  328 (333)
Q Consensus       288 ~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~------~~CP~CR~~i~~  328 (333)
                      ..|.+|++ ... +...|||.+|.+|....      ..||.||..+..
T Consensus       455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~  501 (674)
T KOG1001|consen  455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKE  501 (674)
T ss_pred             cccccccc-cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence            79999999 444 44499999999999644      379999987754

>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=90.35  E-value=0.15  Score=48.13  Aligned_cols=43  Identities=21%  Similarity=0.549  Sum_probs=32.5

Q ss_pred             CCCeecccccCCcc-c----------eeCCCCccchhhhh------cCCCCCCccccccc
Q 019939          286 DNHVCPICLTDPKD-M----------AFGCGHQTCCGCGQ------DLDLCPICRSFIQT  328 (333)
Q Consensus       286 ~~~~C~ICl~~~~~-~----------~l~CgH~fC~~C~~------~~~~CP~CR~~i~~  328 (333)
                      ++..|.||-..... +          .+.|+|.|--.|++      +...||-|++.++.
T Consensus       223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl  282 (328)
T KOG1734|consen  223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL  282 (328)
T ss_pred             CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence            56799999875533 2          35999998888886      34699999988764

>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]

Probab=90.08  E-value=0.19  Score=48.38  Aligned_cols=41  Identities=22%  Similarity=0.436  Sum_probs=29.1

Q ss_pred             CeecccccCCcc---ceeCCCCccchhhhhcC--CCCCCccccccc
Q 019939          288 HVCPICLTDPKD---MAFGCGHQTCCGCGQDL--DLCPICRSFIQT  328 (333)
Q Consensus       288 ~~C~ICl~~~~~---~~l~CgH~fC~~C~~~~--~~CP~CR~~i~~  328 (333)
                      ..|+.=.+....   ..++|.|.||.+|+..-  +.||.|-.++.+
T Consensus        90 VHfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~~~dK~Cp~C~d~Vqr  135 (389)
T KOG2932|consen   90 VHFCDRCDFPIAIYGRMIPCKHVFCLECARSDSDKICPLCDDRVQR  135 (389)
T ss_pred             eEeecccCCcceeeecccccchhhhhhhhhcCccccCcCcccHHHH
Confidence            444444455544   34699999999999754  599999876654

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

Probab=88.52  E-value=1.1  Score=40.56  Aligned_cols=76  Identities=21%  Similarity=0.360  Sum_probs=46.4

Q ss_pred             CceeecCCCChHHHHHHHHHHHHhc-------C-Cce-EEEEEEecCccccCCCcccCcCchhHHHH--HHHHHHhcCCC
Q 019939           87 PHLRLAGPTSFAPIIEMAITIVEHS-------G-GQY-HVLVIIADGQVTRSVDTEHGQLSSQEKKT--VEAIVKASEYP  155 (333)
Q Consensus        87 ~~v~l~gpt~fapvI~~~~~~~~~~-------~-~~y-~vLlIiTDG~i~d~~~~~~~~~~~~~~~t--~~aI~~AS~~P  155 (333)
                      |.+.-.|.|.....|+.+.+.+++.       + +.| .++.++|||..+|           ++++-  ...-.+++.  
T Consensus        71 p~L~a~GgT~lGaAl~~a~d~Ie~~~~~~~a~~kgdyrP~vfLiTDG~PtD-----------~w~~~~~~~~~~~~~~--  137 (207)
T COG4245          71 PILTAQGGTPLGAALTLALDMIEERKRKYDANGKGDYRPWVFLITDGEPTD-----------DWQAGAALVFQGERRA--  137 (207)
T ss_pred             CceecCCCCchHHHHHHHHHHHHHHHhhcccCCccccceEEEEecCCCcch-----------HHHhHHHHhhhccccc--
Confidence            4566679999999999998887532       2 222 4677889999997           23333  222223333  


Q ss_pred             eEEEEEecc--cCCCCcccccC
Q 019939          156 LSIILVGVG--DGPWDMMREFD  175 (333)
Q Consensus       156 lSii~VGvG--d~~f~~m~~ld  175 (333)
                      .|+++.++|  ..+-..++++-
T Consensus       138 k~v~a~~~G~~~ad~~~L~qit  159 (207)
T COG4245         138 KSVAAFSVGVQGADNKTLNQIT  159 (207)
T ss_pred             ceEEEEEecccccccHHHHHHH
Confidence            455555555  45655555543

>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=88.32  E-value=0.21  Score=47.86  Aligned_cols=37  Identities=32%  Similarity=0.702  Sum_probs=31.6

Q ss_pred             CeecccccCCcc-cee-CCCCccchhhhhc-----CCCCCCccc
Q 019939          288 HVCPICLTDPKD-MAF-GCGHQTCCGCGQD-----LDLCPICRS  324 (333)
Q Consensus       288 ~~C~ICl~~~~~-~~l-~CgH~fC~~C~~~-----~~~CP~CR~  324 (333)
                      +.|+.|-...++ +-. -|+|.||.+|+..     -..||.|..
T Consensus       275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            789999999999 555 7899999999983     358999976

>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=88.18  E-value=0.2  Score=49.81  Aligned_cols=28  Identities=29%  Similarity=0.708  Sum_probs=23.4

Q ss_pred             CCeecccccCCcc---cee-CCCCccchhhhh
Q 019939          287 NHVCPICLTDPKD---MAF-GCGHQTCCGCGQ  314 (333)
Q Consensus       287 ~~~C~ICl~~~~~---~~l-~CgH~fC~~C~~  314 (333)
                      -..|.||++...-   ..+ ||+|.||..|+.
T Consensus       184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~k  215 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLK  215 (445)
T ss_pred             cccceeeehhhcCcceeeecccchHHHHHHHH
Confidence            4789999998865   333 999999999996

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

Probab=86.39  E-value=4  Score=41.49  Aligned_cols=96  Identities=18%  Similarity=0.198  Sum_probs=62.9

Q ss_pred             CccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHHHHHHHHhcC-CceEEEEEEec
Q 019939           45 NLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSG-GQYHVLVIIAD  123 (333)
Q Consensus        45 ~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~~~~~~~~~~-~~y~vLlIiTD  123 (333)
                      +.+-++-|... .....+      .+...|++++++---     ..+.|.|+|...|..+++..+... .+ .=+|+|||
T Consensus       309 R~~~~~lF~s~-~~~~el------~~k~~~~~e~i~fL~-----~~f~GGTD~~~~l~~al~~~k~~~~~~-adiv~ITD  375 (437)
T COG2425         309 RDCYVILFDSE-VIEYEL------YEKKIDIEELIEFLS-----YVFGGGTDITKALRSALEDLKSRELFK-ADIVVITD  375 (437)
T ss_pred             cceEEEEeccc-ceeeee------cCCccCHHHHHHHHh-----hhcCCCCChHHHHHHHHHHhhcccccC-CCEEEEec
Confidence            34777777651 111121      244568988887322     234566999999999999988542 23 34899999


Q ss_pred             CccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEe
Q 019939          124 GQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVG  162 (333)
Q Consensus       124 G~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VG  162 (333)
                      |.-..         +.+....++.+.++++.=+--|+||
T Consensus       376 g~~~~---------~~~~~~~v~e~~k~~~~rl~aV~I~  405 (437)
T COG2425         376 GEDER---------LDDFLRKVKELKKRRNARLHAVLIG  405 (437)
T ss_pred             cHhhh---------hhHHHHHHHHHHHHhhceEEEEEec
Confidence            97432         1246778888888888777666664

>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1

Probab=85.54  E-value=0.47  Score=37.77  Aligned_cols=31  Identities=23%  Similarity=0.644  Sum_probs=24.8

Q ss_pred             CCCCeecccccCCcc---ceeCCCCccchhhhhc
Q 019939          285 SDNHVCPICLTDPKD---MAFGCGHQTCCGCGQD  315 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~---~~l~CgH~fC~~C~~~  315 (333)
                      .+...|.+|-....+   +++||||.+...|+.+
T Consensus        76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~r  109 (109)
T PF10367_consen   76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIKR  109 (109)
T ss_pred             CCCCCccCcCCcCCCceEEEeCCCeEEecccccC
Confidence            456789999998876   3459999999899753

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].

>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C

Probab=85.47  E-value=0.38  Score=34.96  Aligned_cols=36  Identities=28%  Similarity=0.463  Sum_probs=23.2

Q ss_pred             CCCeecccccCCcc-cee-CCCCccchhhhhcC------CCCCC
Q 019939          286 DNHVCPICLTDPKD-MAF-GCGHQTCCGCGQDL------DLCPI  321 (333)
Q Consensus       286 ~~~~C~ICl~~~~~-~~l-~CgH~fC~~C~~~~------~~CP~  321 (333)
                      -...|+|.+..+.+ +.- .|||.|.++.+..+      ..||+
T Consensus        10 ~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   10 ISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             --SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             eccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            45799999999999 443 89999999988643      36887

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

Probab=85.22  E-value=5.4  Score=37.72  Aligned_cols=78  Identities=19%  Similarity=0.333  Sum_probs=56.2

Q ss_pred             HhCCceeecCCCChHHHHHHHHHHHHhcC----CceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEE
Q 019939           84 ELVPHLRLAGPTSFAPIIEMAITIVEHSG----GQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSII  159 (333)
Q Consensus        84 ~~~~~v~l~gpt~fapvI~~~~~~~~~~~----~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii  159 (333)
                      +.+..+..+|-|-.++-|..+.++.....    ..-.++|+||||...+...     +++ +.++..+-.+....++=++
T Consensus       143 ~~L~~l~~GG~TPL~~aL~~a~ev~~r~~r~~p~~~~~~vviTDGr~n~~~~-----~~~-~~e~~~~a~~~~~~g~~~l  216 (261)
T COG1240         143 RALERLPTGGKTPLADALRQAYEVLAREKRRGPDRRPVMVVITDGRANVPIP-----LGP-KAETLEAASKLRLRGIQLL  216 (261)
T ss_pred             HHHHhCCCCCCCchHHHHHHHHHHHHHhhccCCCcceEEEEEeCCccCCCCC-----Cch-HHHHHHHHHHHhhcCCcEE
Confidence            34455677899999999999998865332    3456889999999765221     111 6777777777778888888


Q ss_pred             EEecccCC
Q 019939          160 LVGVGDGP  167 (333)
Q Consensus       160 ~VGvGd~~  167 (333)
                      +|....+.
T Consensus       217 vid~e~~~  224 (261)
T COG1240         217 VIDTEGSE  224 (261)
T ss_pred             EEecCCcc
Confidence            88877655

>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=84.99  E-value=0.22  Score=54.24  Aligned_cols=45  Identities=27%  Similarity=0.521  Sum_probs=33.4

Q ss_pred             CCCCCeecccccCCcc--cee------CCCCccchhhhhcC------CCCCCccccccc
Q 019939          284 TSDNHVCPICLTDPKD--MAF------GCGHQTCCGCGQDL------DLCPICRSFIQT  328 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~--~~l------~CgH~fC~~C~~~~------~~CP~CR~~i~~  328 (333)
                      .+...+|.||+.....  ..+      .|.|-|-..|+-++      .+||+||..|+-
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence            3456899999987652  233      47899999999654      489999987753

>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A

Probab=83.49  E-value=0.28  Score=37.06  Aligned_cols=42  Identities=29%  Similarity=0.570  Sum_probs=18.8

Q ss_pred             CCeecccccCCc-c--c-ee-----CCCCccchhhhhcC---------------CCCCCccccccc
Q 019939          287 NHVCPICLTDPK-D--M-AF-----GCGHQTCCGCGQDL---------------DLCPICRSFIQT  328 (333)
Q Consensus       287 ~~~C~ICl~~~~-~--~-~l-----~CgH~fC~~C~~~~---------------~~CP~CR~~i~~  328 (333)
                      +..|.||+.... +  . .+     .|++.|-..|+.+.               -.||.|+.+|.-
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~   67 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW   67 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence            468999998754 2  1 22     57777777888422               169999998864

>PF11775 CobT_C: Cobalamin biosynthesis protein CobT VWA domain

Probab=82.85  E-value=3.8  Score=37.83  Aligned_cols=51  Identities=20%  Similarity=0.431  Sum_probs=32.6

Q ss_pred             CceEEEEEEecCccccCC---CcccCcCchhHHHHHHHHHHhcCCCeEEEEEeccc
Q 019939          113 GQYHVLVIIADGQVTRSV---DTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGD  165 (333)
Q Consensus       113 ~~y~vLlIiTDG~i~d~~---~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd  165 (333)
                      ..=-+|++|+||...|..   +.+..-|..+.+++++.|...  -++-++-||||.
T Consensus       134 e~rkiLiViSDG~P~d~st~~~n~~~~L~~HLr~vi~~ie~~--~~Vel~aiGIg~  187 (219)
T PF11775_consen  134 EQRKILIVISDGAPADDSTLSANDGDYLDAHLRQVIAEIETR--SDVELIAIGIGH  187 (219)
T ss_pred             ccceEEEEEeCCCcCcccccccCChHHHHHHHHHHHHHHhcc--CCcEEEEEEcCC
Confidence            334599999999988621   122234545556666555543  478888888886

>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0

Probab=82.74  E-value=0.44  Score=40.50  Aligned_cols=43  Identities=26%  Similarity=0.745  Sum_probs=34.1

Q ss_pred             CCeecccccCCccce-e----CCCCccchhhhhcC-------CCCCCcccccccc
Q 019939          287 NHVCPICLTDPKDMA-F----GCGHQTCCGCGQDL-------DLCPICRSFIQTR  329 (333)
Q Consensus       287 ~~~C~ICl~~~~~~~-l----~CgH~fC~~C~~~~-------~~CP~CR~~i~~~  329 (333)
                      -.+|-||.|...+-. +    -||...|-.|...+       ..||+|+..+.+.
T Consensus        80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss  134 (140)
T PF05290_consen   80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS  134 (140)
T ss_pred             ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence            468999999998844 3    38999999887544       3899999988653

>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=80.76  E-value=0.31  Score=37.55  Aligned_cols=40  Identities=30%  Similarity=0.636  Sum_probs=27.4

Q ss_pred             CeecccccCCcc--cee-CCCCccchhhhhcC-------CCCCCcccccc
Q 019939          288 HVCPICLTDPKD--MAF-GCGHQTCCGCGQDL-------DLCPICRSFIQ  327 (333)
Q Consensus       288 ~~C~ICl~~~~~--~~l-~CgH~fC~~C~~~~-------~~CP~CR~~i~  327 (333)
                      ..|+-|.-.-.+  .++ -|.|.|-..|+.+.       ..||+||+..+
T Consensus        32 g~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   32 GCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            455555544444  233 79999999999643       37999998764

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	333
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	2e-14
2ea5_A	68	Cell growth regulator with ring finger domain prot	5e-14
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	6e-14
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	2e-11
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	8e-11
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	3e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	1e-04
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	1e-04
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	2e-04
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	2e-04
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	2e-04
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	3e-04
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	4e-04
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	5e-04
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	5e-04
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	6e-04
3k1f_M	197	Transcription initiation factor IIB; RNA polymeras	8e-04

>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 Length = 79

 Score = 66.7 bits (163), Expect = 2e-14
 Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 2/51 (3%)

Query: 285 SDNHVCPICLTDPKDMAFG-CGHQTCC-GCGQDLDLCPICRSFIQTRIKLY 333
            +  +C +C  +  +  F  CGH  CC  C   L  CP+CRS ++    +Y
Sbjct: 16  KEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQLQSCPVCRSRVEHVQHVY 66

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 68

 Score = 65.2 bits (159), Expect = 5e-14
 Identities = 16/60 (26%), Positives = 25/60 (41%), Gaps = 2/60 (3%)

Query: 276 GTAPPASSTSDNHVCPICLTDPKDMAFG-CGHQTCC-GCGQDLDLCPICRSFIQTRIKLY 333
           G++    S  ++  C +C     +     C H   C GC +    CP+CR F+Q    L 
Sbjct: 4   GSSGVEPSEENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKYFQQCPMCRQFVQESFALS 63

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 75

 Score = 65.2 bits (159), Expect = 6e-14
 Identities = 16/71 (22%), Positives = 31/71 (43%), Gaps = 2/71 (2%)

Query: 265 PSAPSGHERVVGTAPPASSTSDNHVCPICLTDPKDMAFG-CGHQTCC-GCGQDLDLCPIC 322
             +    ++ + T        +  +C IC+     + F  CGH   C  C + +D CP+C
Sbjct: 3   SGSSGSLQKEISTEEQLRRLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMC 62

Query: 323 RSFIQTRIKLY 333
            + I  + K++
Sbjct: 63  YTVITFKQKIF 73

>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 Length = 64

 Score = 57.9 bits (140), Expect = 2e-11
 Identities = 17/57 (29%), Positives = 22/57 (38%), Gaps = 8/57 (14%)

Query: 285 SDNHVCPICLTDPKDMAF---GCGHQTCC-GCGQDL----DLCPICRSFIQTRIKLY 333
           +    C IC   PK+        GH   C  C + L      CP+CR  IQ  +  Y
Sbjct: 6   NAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQMIVLTY 62

>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 = 56.0 bits (135), Expect = 8e-11
 Identities = 17/60 (28%), Positives = 24/60 (40%), Gaps = 8/60 (13%)

Query: 282 SSTSDNHVCPICLTDPKDMAFG---CGHQTCC-GCGQDL----DLCPICRSFIQTRIKLY 333
              +    C +C   P+D        GH   C  C + L      CPIC+  IQ  IK++
Sbjct: 2   DCQNLLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQLVIKVF 61

>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A Length = 345

 Score = 59.6 bits (142), Expect = 3e-10
 Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 2/50 (4%)

Query: 286 DNHVCPICLTDPKDMAFG-CGHQTCC-GCGQDLDLCPICRSFIQTRIKLY 333
           +   C +C+     + F  CGH   C  C   L  CPICR  I+  ++ +
Sbjct: 294 EERTCKVCMDKEVSVVFIPCGHLVVCQECAPSLRKCPICRGIIKGTVRTF 343

>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 = 45.6 bits (107), Expect = 2e-05
 Identities = 51/404 (12%), Positives = 116/404 (28%), Gaps = 126/404 (31%)

Query: 1   MSG-----LVGPCARSFQRRSLH-------HIGDDQNPYEQAISIIGKTLSSFDEDNLIP 48
           + G     +      S++ +          ++ +  +P E  + ++ K L   D +    
Sbjct: 158 VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSP-ETVLEMLQKLLYQIDPN---- 212

Query: 49  CFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLR-LAGPTSFAPII------ 101
                               +   +  +  LRR  +  P+   L        ++      
Sbjct: 213 ---------WTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL--------LVLLNVQN 255

Query: 102 -EMAITIVEHSGGQYHVLVIIADGQVTRSVDT--------EHGQLSSQEKKTVEAIVKA- 151
            +              +L+     QVT  +          +H  ++    +    ++K  
Sbjct: 256 AK----AWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL 311

Query: 152 ------------SEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQFVN---FTEIMS 196
                       +  P  + ++       + +R+      A  +DN++ VN    T I+ 
Sbjct: 312 DCRPQDLPREVLTTNPRRLSIIA------ESIRDG----LAT-WDNWKHVNCDKLTTIIE 360

Query: 197 KNVDRSRKEAEF-----ALAALME---IPSQYKAALEFNILGAQRGKAVDRVSLPP-PQY 247
            +++   + AE+      L+       IP+     L   ++     K+   V +    +Y
Sbjct: 361 SSLN-VLEPAEYRKMFDRLSVFPPSAHIPTI---LLS--LIWFDVIKSDVMVVVNKLHKY 414

Query: 248 GAASQNTPKTSRSS------SFRPSA---PSGHERVVGTAPPASSTSDNHVCPICLTDPK 298
               +  PK S  S        +       + H  +V       +   + + P       
Sbjct: 415 SLVEKQ-PKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIP----PYL 469

Query: 299 DMAFGC--G-HQTCCGCGQD--------LDLCPICRSFIQTRIK 331
           D  F    G H       +         LD       F++ +I+
Sbjct: 470 DQYFYSHIGHHLKNIEHPERMTLFRMVFLDF-----RFLEQKIR 508

>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 = 42.8 bits (100), Expect = 1e-04
 Identities = 16/51 (31%), Positives = 20/51 (39%), Gaps = 6/51 (11%)

Query: 285 SDNHVCPICLTDPKDMAF-GCGHQTCCGCGQDLD-----LCPICRSFIQTR 329
           S   +C IC  + KD+    CGH  C  C           CP CR  I+  
Sbjct: 330 STFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT 380

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 56

 Score = 38.5 bits (90), Expect = 1e-04
 Identities = 13/40 (32%), Positives = 18/40 (45%), Gaps = 6/40 (15%)

Query: 289 VCPICL---TDPKDMAFGCGHQTCCGCGQDLDL-CPICRS 324
            C  C      PK +   C H  C GC +   + CPIC++
Sbjct: 8   RCQQCQAEAKCPKLLP--CLHTLCSGCLEASGMQCPICQA 45

>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B Length = 78

 Score = 38.9 bits (90), Expect = 2e-04
 Identities = 15/52 (28%), Positives = 20/52 (38%), Gaps = 10/52 (19%)

Query: 283 STSDNHVCPICL-----TDPKDMAFGCGHQTCCGCGQDL-----DLCPICRS 324
           +  D   CP+C+      D       CG+Q C  C   +      LCP CR 
Sbjct: 7   AKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRK 58

>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 = 38.0 bits (88), Expect = 2e-04
 Identities = 13/53 (24%), Positives = 19/53 (35%), Gaps = 11/53 (20%)

Query: 286 DNHVCPICLTDP---KDMAF---GCGHQTCCGC-----GQDLDLCPICRSFIQ 327
           D+  CP C T       +      CGH  C  C      +    CP C + ++
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR 54

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 66

 Score = 37.8 bits (88), Expect = 2e-04
 Identities = 11/51 (21%), Positives = 14/51 (27%), Gaps = 6/51 (11%)

Query: 285 SDNHVCPICLTDPKD-MAFGCGHQTCCGC-----GQDLDLCPICRSFIQTR 329
            D + C  C           CGH+ C  C           C  C+  I   
Sbjct: 13  EDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQESIVKD 63

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 70

 Score = 37.8 bits (88), Expect = 3e-04
 Identities = 16/57 (28%), Positives = 22/57 (38%), Gaps = 4/57 (7%)

Query: 275 VGTAPPASSTSDNHVCPICLTDPKDMAFGCGHQTCCGCGQD-LDL---CPICRSFIQ 327
            G++      +D   C IC+    D+   C H  C  C     D    CPICR  + 
Sbjct: 3   SGSSGRVKQLTDEEECCICMDGRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMT 59

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1 Length = 68

 Score = 37.4 bits (87), Expect = 4e-04
 Identities = 14/56 (25%), Positives = 27/56 (48%), Gaps = 8/56 (14%)

Query: 282 SSTSDNHVCPICLTDPKDMAFG--CGHQTCCGCGQD-LDL---CPICRSFIQTRIK 331
           ++ ++   CPICL DP + +    C H  C  C    +     CP+C+  +++ + 
Sbjct: 2   ATVAER--CPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVH 55

>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 = 38.2 bits (89), Expect = 5e-04
 Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 12/50 (24%)

Query: 290 CPICL---TDPKDMAFGCGHQTCCGC-------GQDLDLCPICRSFIQTR 329
           CPICL    +P  ++  C H  C  C        +    CP+C++ I  R
Sbjct: 24  CPICLELIKEP--VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR 71

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 69

 Score = 36.8 bits (85), Expect = 5e-04
 Identities = 16/66 (24%), Positives = 25/66 (37%), Gaps = 12/66 (18%)

Query: 276 GTAPPASSTSDNHVCPICLTDPKDMAFG--------CGHQTCCGC----GQDLDLCPICR 323
           G++      S    CPIC+    ++           CGH  C  C     ++ + CP CR
Sbjct: 4   GSSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 63

Query: 324 SFIQTR 329
             I  +
Sbjct: 64  KKINHK 69

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 73

 Score = 37.0 bits (86), Expect = 6e-04
 Identities = 14/50 (28%), Positives = 20/50 (40%), Gaps = 12/50 (24%)

Query: 290 CPICL---TDPKDMAFGCGHQTCCGC-------GQDLDLCPICRSFIQTR 329
           CPICL     P  +   CGH  C  C             CP+C++ ++  
Sbjct: 23  CPICLDILQKP--VTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKN 70

>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, transcription factor, DNA-binding, DNA-directed RNA polymerase; 4.30A {Saccharomyces cerevisiae} Length = 197

 Score = 38.9 bits (90), Expect = 8e-04
 Identities = 15/69 (21%), Positives = 21/69 (30%), Gaps = 13/69 (18%)

Query: 264 RPSAPSGHERVVGTAPPASSTSDNHVCPICLTDPKDMA--FGCGHQTCCGCG-----QDL 316
           R S      R         + +    CP C   P  +   F  G   C  CG     + +
Sbjct: 4   RESIDKRAGRRG------PNLNIVLTCPECKVYPPKIVERFSEGDVVCALCGLVLSDKLV 57

Query: 317 DLCPICRSF 325
           D     R+F
Sbjct: 58  DTRSEWRTF 66

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	333
2ea5_A	68	Cell growth regulator with ring finger domain prot	99.23
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	99.15
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.1
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	99.02
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.01
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.97
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.94
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	98.93
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	98.89
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	98.89
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	98.88
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	98.87
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.87
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.86
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	98.85
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	98.83
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	98.83
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.8
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	98.8
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.8
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.79
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.78
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	98.75
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	98.74
2ect_A	78	Ring finger protein 126; metal binding protein, st	98.74
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	98.72
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	98.72
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	98.69
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	98.68
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	98.67
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.67
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	98.64
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.61
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.6
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	98.6
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	98.57
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	98.57
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.55
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.55
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.54
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.54
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.53
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.5
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.5
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.5
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	98.49
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.45
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.44
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.44
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.44
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.44
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.42
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.39
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.36
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.36
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.22
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.2
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.11
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.11
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.06
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.04
4hqf_A	281	Thrombospondin-related anonymous protein, trap; ma	97.89
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	97.88
4hqo_A	266	Sporozoite surface protein 2; malaria, gliding mot	97.8
3ibs_A	218	Conserved hypothetical protein BATB; structural ge	97.78
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	97.74
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	97.7
1shu_X	182	Anthrax toxin receptor 2; alpha/beta rossmann fold	97.68
3n2n_F	185	Anthrax toxin receptor 1; rossmann fold; 1.80A {Ho	97.63
4b4t_W	268	RPN10, 26S proteasome regulatory subunit RPN10; hy	97.59
2x5n_A	192	SPRPN10, 26S proteasome regulatory subunit RPN10;	97.54
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	97.53
2xgg_A	178	Microneme protein 2; A/I domain, cell adhesion, hy	97.52
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	97.52
4fx5_A	464	VON willebrand factor type A; structural genomics,	97.45
1q0p_A	223	Complement factor B; VON willebrand factor, MAC-1,	97.43
1atz_A	189	VON willebrand factor; collagen-binding, hemostasi	97.4
2b2x_A	223	Integrin alpha-1; computational design, antibody-a	97.39
1pt6_A	213	Integrin alpha-1; cell adhesion; 1.87A {Homo sapie	97.36
1ijb_A	202	VON willebrand factor; dinucleotide-binding fold,	97.34
1n3y_A	198	Integrin alpha-X; alpha/beta rossmann fold, cell a	97.19
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.18
2x31_A	189	Magnesium-chelatase 60 kDa subunit; ligase, bacter	97.12
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	97.06
3hrz_D	741	Complement factor B; serine protease, glycosilated	97.06
1v7p_C	200	Integrin alpha-2; snake venom, C-type lectin, anta	97.04
2odp_A	509	Complement C2; C3/C5 convertase, complement serin	97.03
1mf7_A	194	Integrin alpha M; cell adhesion; 1.25A {Homo sapie	96.93
1rrk_A	497	Complement factor B; BB, hydrolase; 2.00A {Homo sa	96.58
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	96.23
3zqk_A	199	VON willebrand factor; blood clotting, adamts-13,	95.83
1jey_A	609	KU70; double-strand DNA break repair, non-homologo	95.62
1mjn_A	179	Integrin alpha-L; rossmann fold, immune system; 1.	95.53
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	95.31
1jey_B	565	KU80; double-strand DNA break repair, non-homologo	94.83
3k6s_A	1095	Integrin alpha-X; cell receptor, adhesion molecule	94.72
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	94.37
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	93.85
1yvr_A	538	RO autoantigen, 60-kDa SS-A/RO ribonucleoprotein,	93.35
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	91.72
2nvo_A	535	RO sixty-related protein, RSR; alpha helical repea	87.86

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.23  E-value=7.8e-12  Score=93.15  Aligned_cols=51  Identities=29%  Similarity=0.771  Sum_probs=45.9

Q ss_pred             CCCCCCeecccccCCcccee-CCCCc-cchhhhhcCCCCCCcccccccccccC
Q 019939          283 STSDNHVCPICLTDPKDMAF-GCGHQ-TCCGCGQDLDLCPICRSFIQTRIKLY  333 (333)
Q Consensus       283 ~~~~~~~C~ICl~~~~~~~l-~CgH~-fC~~C~~~~~~CP~CR~~i~~~i~~y  333 (333)
                      ...+...|+||++..+++++ ||||. ||..|+..+..||+||++|..++++|
T Consensus        11 ~~~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~~~CP~CR~~i~~~~~i~   63 (68)
T 2ea5_A           11 SEENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKYFQQCPMCRQFVQESFALS   63 (68)
T ss_dssp             SCCCSSCCSSSSSSCCCCEETTTTBCCSCTTHHHHCSSCTTTCCCCCCEECCC
T ss_pred             cCCCCCCCCCcCcCCCCEEEECCCChhhhHHHHhcCCCCCCCCcchhceEEee
Confidence            34567899999999999655 99999 99999999999999999999999987

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.15  E-value=1.6e-12  Score=98.34  Aligned_cols=49  Identities=31%  Similarity=0.867  Sum_probs=44.5

Q ss_pred             CCCCeecccccCCccc-eeCCCCc-cchhhhhcCCCCCCcccccccccccC
Q 019939          285 SDNHVCPICLTDPKDM-AFGCGHQ-TCCGCGQDLDLCPICRSFIQTRIKLY  333 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~~-~l~CgH~-fC~~C~~~~~~CP~CR~~i~~~i~~y  333 (333)
                      +++..|+||++.+++. .++|||. ||..|+.+...||+||.++..++++|
T Consensus        23 ~~~~~C~IC~~~~~~~~~~pCgH~~~C~~C~~~~~~CP~Cr~~i~~~~~i~   73 (75)
T 2ecg_A           23 QEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMCYTVITFKQKIF   73 (75)
T ss_dssp             HHHHSCSSSCSSCCCBCCSSSCCCCBCHHHHHHCSBCTTTCCBCCCCCBCC
T ss_pred             CCCCCCCcCCCCCCCEEEecCCCHHHHHHHhhCCCCCccCCceecCcEEEe
Confidence            4567899999999994 4599999 99999999999999999999999987

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=99.10  E-value=2.1e-11  Score=91.99  Aligned_cols=50  Identities=30%  Similarity=0.802  Sum_probs=45.1

Q ss_pred             CCCCCeecccccCCcc-ceeCCCCc-cchhhhhcCCCCCCcccccccccccC
Q 019939          284 TSDNHVCPICLTDPKD-MAFGCGHQ-TCCGCGQDLDLCPICRSFIQTRIKLY  333 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~-~~l~CgH~-fC~~C~~~~~~CP~CR~~i~~~i~~y  333 (333)
                      ++++..|+||++.+.+ +.++|||. ||..|+..+..||+||+++..++++|
T Consensus        21 ~~~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~CP~Cr~~i~~~~~i~   72 (74)
T 4ic3_A           21 LQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMCYTVITFKQKIL   72 (74)
T ss_dssp             HHHHTBCTTTSSSBCCEEEETTCCBCCCHHHHTTCSBCTTTCCBCSEEEECB
T ss_pred             CccCCCCCCCCCCCCCEEEcCCCChhHHHHhhhcCccCCCcCcCccCcEEEe
Confidence            3456899999999999 55699999 99999999999999999999999887

>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=99.02  E-value=5.8e-11  Score=90.92  Aligned_cols=49  Identities=29%  Similarity=0.799  Sum_probs=44.0

Q ss_pred             CCCCeecccccCCccc-eeCCCCc-cchhhhhcCCCCCCcccccccccccC
Q 019939          285 SDNHVCPICLTDPKDM-AFGCGHQ-TCCGCGQDLDLCPICRSFIQTRIKLY  333 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~~-~l~CgH~-fC~~C~~~~~~CP~CR~~i~~~i~~y  333 (333)
                      +++..|+||++..+++ .+||||. ||..|+..+..||+||.++..++++|
T Consensus        16 ~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~~~CP~Cr~~i~~~~~i~   66 (79)
T 2yho_A           16 KEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQLQSCPVCRSRVEHVQHVY   66 (79)
T ss_dssp             HHHTBCTTTSSSBCCEEEETTCBCCBCHHHHTTCSBCTTTCCBCCEEEECB
T ss_pred             CCCCEeEEeCcccCcEEEECCCCHHHHHHHHHhcCcCCCCCchhhCeEEEE
Confidence            3457899999999995 4599999 99999999999999999999998876

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.01  E-value=2.7e-10  Score=84.72  Aligned_cols=49  Identities=27%  Similarity=0.805  Sum_probs=41.0

Q ss_pred             CCCCCCCCCeecccccCCcc-ceeCCCCccchhhhhcCC-------CCCCccccccc
Q 019939          280 PASSTSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDLD-------LCPICRSFIQT  328 (333)
Q Consensus       280 ~~~~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~~-------~CP~CR~~i~~  328 (333)
                      .....+++..|+||++.+.+ ++++|||.||..|+..+.       .||+||+++..
T Consensus        13 ~~~~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   69 (73)
T 2ysl_A           13 FVNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRK   69 (73)
T ss_dssp             CCCCCCCCCBCTTTCSBCSSEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCC
T ss_pred             HHHhCccCCEeccCCcccCCeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCc
Confidence            34556778999999999999 666999999999997542       79999998864

>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=98.97  E-value=3.7e-11  Score=88.01  Aligned_cols=48  Identities=38%  Similarity=0.805  Sum_probs=42.3

Q ss_pred             CCCeecccccCCcc-cee--CCCCc-cchhhhhcCC----CCCCcccccccccccC
Q 019939          286 DNHVCPICLTDPKD-MAF--GCGHQ-TCCGCGQDLD----LCPICRSFIQTRIKLY  333 (333)
Q Consensus       286 ~~~~C~ICl~~~~~-~~l--~CgH~-fC~~C~~~~~----~CP~CR~~i~~~i~~y  333 (333)
                      .+..|+||++.+++ +++  ||||. +|..|+.++.    .||+||++|..++++|
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~~i~i~   61 (63)
T 2vje_B            6 LLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQLVIKVF   61 (63)
T ss_dssp             GGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCCEEEEEE
T ss_pred             cCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhhceEEEe
Confidence            45789999999998 455  99999 8999998775    8999999999999887

>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=98.94  E-value=4.8e-11  Score=87.65  Aligned_cols=49  Identities=35%  Similarity=0.760  Sum_probs=42.2

Q ss_pred             CCCCeecccccCCcc-cee--CCCCc-cchhhhhcCC----CCCCcccccccccccC
Q 019939          285 SDNHVCPICLTDPKD-MAF--GCGHQ-TCCGCGQDLD----LCPICRSFIQTRIKLY  333 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~-~~l--~CgH~-fC~~C~~~~~----~CP~CR~~i~~~i~~y  333 (333)
                      +++..|+||++.+++ +.+  ||||. +|.+|+.++.    .||+||+++..++++|
T Consensus         6 ~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~~i~i~   62 (64)
T 2vje_A            6 NAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQMIVLTY   62 (64)
T ss_dssp             GGGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCCCEEEEEE
T ss_pred             CCcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcchhceEeee
Confidence            356789999999999 545  99999 7889997653    6999999999999887

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.93  E-value=5.7e-10  Score=82.96  Aligned_cols=45  Identities=27%  Similarity=0.602  Sum_probs=38.7

Q ss_pred             CCCCCeecccccCCcc-ceeCCCCccchhhhhcC----CCCCCccccccc
Q 019939          284 TSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      ..++..|+||++.+.+ +.++|||.||..|+.++    ..||+||..+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           12 SLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SSSCCBCSSSSSBCSSEEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             CCCCCCCccCCcccCCCEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            4567899999999999 66799999999999865    479999999864

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens}

Probab=98.89  E-value=1.1e-09  Score=82.55  Aligned_cols=48  Identities=27%  Similarity=0.721  Sum_probs=40.6

Q ss_pred             CCCCCCCCeecccccCCcc-ceeCCCCccchhhhhc-----------CCCCCCccccccc
Q 019939          281 ASSTSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQD-----------LDLCPICRSFIQT  328 (333)
Q Consensus       281 ~~~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~-----------~~~CP~CR~~i~~  328 (333)
                      ....+++..|+||++.+.+ ++++|||.||..|+.+           ...||+||..+..
T Consensus         6 ~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~   65 (79)
T 2egp_A            6 SGNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF   65 (79)
T ss_dssp             SCCCCCCCEETTTTEECSSCCCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCS
T ss_pred             HhhcccCCCCcCCCcccCCeeECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCH
Confidence            4456788999999999999 6679999999999974           3479999998864

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.89  E-value=9.5e-10  Score=81.96  Aligned_cols=50  Identities=24%  Similarity=0.497  Sum_probs=41.7

Q ss_pred             CCCCCCCCCeecccccCCcc-cee-CCCCccchhhhhcC----CCCCCcccccccc
Q 019939          280 PASSTSDNHVCPICLTDPKD-MAF-GCGHQTCCGCGQDL----DLCPICRSFIQTR  329 (333)
Q Consensus       280 ~~~~~~~~~~C~ICl~~~~~-~~l-~CgH~fC~~C~~~~----~~CP~CR~~i~~~  329 (333)
                      ....++++..|+||++.+.+ +++ +|||.||..|+.++    ..||+||..+...
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (72)
T 2djb_A            8 NLSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQT   63 (72)
T ss_dssp             CCCCCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSS
T ss_pred             hHhhcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCcc
Confidence            34556778999999999998 666 99999999999643    5899999998754

>2ecw_A Tripartite motif-containing protein 30; metal binding protein, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=98.88  E-value=1.9e-09  Score=81.93  Aligned_cols=49  Identities=29%  Similarity=0.611  Sum_probs=40.9

Q ss_pred             CCCCCCCCCeecccccCCcc-ceeCCCCccchhhhhc----------CCCCCCccccccc
Q 019939          280 PASSTSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQD----------LDLCPICRSFIQT  328 (333)
Q Consensus       280 ~~~~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~----------~~~CP~CR~~i~~  328 (333)
                      .....+++..|+||++.+.+ ++++|||.||..|+..          ...||.||..+..
T Consensus        12 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecw_A           12 VLEMIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF   71 (85)
T ss_dssp             CCCCCCTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT
T ss_pred             HHHhCccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH
Confidence            34456778899999999999 6679999999999964          4589999998864

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.87  E-value=8.1e-10  Score=80.93  Aligned_cols=48  Identities=33%  Similarity=0.791  Sum_probs=39.1

Q ss_pred             CCCCCCCCeecccccCCcc--------ceeCCCCccchhhhhcC----CCCCCccccccc
Q 019939          281 ASSTSDNHVCPICLTDPKD--------MAFGCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       281 ~~~~~~~~~C~ICl~~~~~--------~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      .....+...|+||++.+.+        +.++|||.||..|+.++    ..||+||.++..
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A            9 GLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             CCCTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             ccCCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            3455678899999998876        34599999999999754    589999998865

>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B

Probab=98.87  E-value=1e-09  Score=83.88  Aligned_cols=49  Identities=33%  Similarity=0.766  Sum_probs=38.9

Q ss_pred             CCCCCCCeecccccCCc--cce-eC--CCCccchhhhhcC-----CCCCCccccccccc
Q 019939          282 SSTSDNHVCPICLTDPK--DMA-FG--CGHQTCCGCGQDL-----DLCPICRSFIQTRI  330 (333)
Q Consensus       282 ~~~~~~~~C~ICl~~~~--~~~-l~--CgH~fC~~C~~~~-----~~CP~CR~~i~~~i  330 (333)
                      ..++++..|+||++.+.  +.. ++  |||.||..|+.++     ..||.||+++....
T Consensus         6 ~~~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~   64 (78)
T 1e4u_A            6 DAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDP   64 (78)
T ss_dssp             CCCCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCS
T ss_pred             cccccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCc
Confidence            44678899999999874  333 35  9999999999765     37999999997654

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.86  E-value=1e-09  Score=81.15  Aligned_cols=51  Identities=27%  Similarity=0.636  Sum_probs=42.2

Q ss_pred             CCCCCCCeecccccCCccceeCCCCccchhhhhcC----CCCCCccccccccccc
Q 019939          282 SSTSDNHVCPICLTDPKDMAFGCGHQTCCGCGQDL----DLCPICRSFIQTRIKL  332 (333)
Q Consensus       282 ~~~~~~~~C~ICl~~~~~~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~~i~~  332 (333)
                      ....+...|+||++.+.++.++|||.||..|+.++    ..||+||.++.....+
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   64 (70)
T 2ecn_A           10 KQLTDEEECCICMDGRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANES   64 (70)
T ss_dssp             CCCCCCCCCSSSCCSCCSEEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCCCC
T ss_pred             hcCCCCCCCeeCCcCccCcccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCCcc
Confidence            34566789999999999966699999999999855    5799999999865543

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.85  E-value=3.1e-09  Score=80.75  Aligned_cols=48  Identities=31%  Similarity=0.761  Sum_probs=40.6

Q ss_pred             CCCCCCCCeecccccCCcc-ceeCCCCccchhhhhc----------CCCCCCccccccc
Q 019939          281 ASSTSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQD----------LDLCPICRSFIQT  328 (333)
Q Consensus       281 ~~~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~----------~~~CP~CR~~i~~  328 (333)
                      ....++...|+||++.+.+ +.++|||.||..|+..          ...||.||..+..
T Consensus        13 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecv_A           13 LVNVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP   71 (85)
T ss_dssp             CCCCCCCCCCTTTCSCCSSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS
T ss_pred             HHHccCCCCCCCCCcccCCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH
Confidence            3456778999999999999 6679999999999964          4689999998864

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.83  E-value=1.9e-09  Score=82.10  Aligned_cols=47  Identities=21%  Similarity=0.425  Sum_probs=39.3

Q ss_pred             CCCCCCCeecccccCCcc-ceeCCCCccchhhhhcC----CCCCCccccccc
Q 019939          282 SSTSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       282 ~~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      ...++...|+||++.+.+ ++++|||.||..|+..+    ..||+||.++..
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (81)
T 2csy_A           10 EEEEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYICDQPTGG   61 (81)
T ss_dssp             SCCCCCSBCSSSCSBCCSEEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCCS
T ss_pred             ccCCCCCCCcCCCchhcCeeEccCCCHhHHHHHHHHHHCCCcCCCcCccccc
Confidence            345567899999999999 56699999999999654    579999999864

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens}

Probab=98.83  E-value=1.6e-09  Score=81.31  Aligned_cols=48  Identities=25%  Similarity=0.581  Sum_probs=39.8

Q ss_pred             CCCCCCCCeecccccCCcc-ceeC-CCCccchhhhhcC------CCCCCccccccc
Q 019939          281 ASSTSDNHVCPICLTDPKD-MAFG-CGHQTCCGCGQDL------DLCPICRSFIQT  328 (333)
Q Consensus       281 ~~~~~~~~~C~ICl~~~~~-~~l~-CgH~fC~~C~~~~------~~CP~CR~~i~~  328 (333)
                      ....+++..|+||++.+.+ ++++ |||.||..|+..+      ..||+||+++..
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2yur_A            9 DDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS   64 (74)
T ss_dssp             CCCSCGGGSCSSSCCCCTTCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCC
T ss_pred             cccCCCCCCCcCCChHHhCCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCC
Confidence            4456778999999999999 6678 9999999999643      489999998643

>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=98.80  E-value=1.2e-09  Score=88.60  Aligned_cols=50  Identities=26%  Similarity=0.583  Sum_probs=41.1

Q ss_pred             CCCCCCCCCCeecccccCCcc-ceeCCCCccchhhhhcC-----CCCCCccccccc
Q 019939          279 PPASSTSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL-----DLCPICRSFIQT  328 (333)
Q Consensus       279 ~~~~~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~-----~~CP~CR~~i~~  328 (333)
                      .......++..|+||++.+.+ ++++|||.||..|+.++     ..||.||..+..
T Consensus         7 ~~~~~~~~~~~C~iC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A            7 KDAIPSLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             TTCCCCHHHHBCTTTCSBCSSCEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             ccccCCCCCCCCccCCcccCceeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            334455677999999999999 66799999999999765     379999998753

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.80  E-value=4e-09  Score=77.10  Aligned_cols=48  Identities=25%  Similarity=0.508  Sum_probs=40.0

Q ss_pred             CCCCCCCeecccccCCcc-ceeCCCCccchhhhhcC-----CCCCCcccccccc
Q 019939          282 SSTSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL-----DLCPICRSFIQTR  329 (333)
Q Consensus       282 ~~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~-----~~CP~CR~~i~~~  329 (333)
                      ...+++..|+||++.+.+ +.++|||.||..|+.++     ..||+||+++...
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           10 KTVEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CSCCCCEECTTTCCEESSCCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             hcCCcCCCCCCCChHhcCeeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            345678999999999998 66799999999999743     4799999998654

>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A 4auq_B

Probab=98.80  E-value=1.8e-09  Score=104.27  Aligned_cols=50  Identities=28%  Similarity=0.854  Sum_probs=45.8

Q ss_pred             CCCCCeecccccCCcc-ceeCCCCc-cchhhhhcCCCCCCcccccccccccC
Q 019939          284 TSDNHVCPICLTDPKD-MAFGCGHQ-TCCGCGQDLDLCPICRSFIQTRIKLY  333 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~-~~l~CgH~-fC~~C~~~~~~CP~CR~~i~~~i~~y  333 (333)
                      ++++..|+||++.+.+ +.++|||. ||..|+..+..||+||.++..++++|
T Consensus       292 l~~~~~C~IC~~~~~~~v~lpCgH~~fC~~C~~~~~~CP~CR~~i~~~~~i~  343 (345)
T 3t6p_A          292 LQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSLRKCPICRGIIKGTVRTF  343 (345)
T ss_dssp             HHTTCBCTTTSSSBCCEEEETTCCEEECTTTGGGCSBCTTTCCBCCEEEECC
T ss_pred             CcCCCCCCccCCcCCceEEcCCCChhHhHHHHhcCCcCCCCCCCccCeEEee
Confidence            4567899999999999 55699999 99999999999999999999999987

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.79  E-value=2.4e-09  Score=76.25  Aligned_cols=45  Identities=27%  Similarity=0.546  Sum_probs=38.6

Q ss_pred             CCCCCeecccccCCcc-ceeCCCCccchhhhhcC-CCCCCccccccc
Q 019939          284 TSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL-DLCPICRSFIQT  328 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~-~~CP~CR~~i~~  328 (333)
                      ..++..|+||++.+.+ ++++|||.||..|+... ..||+||+.+..
T Consensus         3 e~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~CP~Cr~~~~~   49 (56)
T 1bor_A            3 EFQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEASGMQCPICQAPWPL   49 (56)
T ss_dssp             SCCCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSSSSSCSSCCSSSSC
T ss_pred             cccCCCceEeCCccCCeEEcCCCCcccHHHHccCCCCCCcCCcEeec
Confidence            3567899999999999 66799999999999765 489999998864

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens}

Probab=98.78  E-value=2.9e-09  Score=82.82  Aligned_cols=46  Identities=26%  Similarity=0.598  Sum_probs=39.1

Q ss_pred             CCCCCCCeecccccCCcc-ceeC-CCCccchhhhhcC------CCCCCcccccc
Q 019939          282 SSTSDNHVCPICLTDPKD-MAFG-CGHQTCCGCGQDL------DLCPICRSFIQ  327 (333)
Q Consensus       282 ~~~~~~~~C~ICl~~~~~-~~l~-CgH~fC~~C~~~~------~~CP~CR~~i~  327 (333)
                      ...+++..|+||++.+.+ ++++ |||.||..|+..+      ..||+||.++.
T Consensus         8 ~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A            8 DPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CCCCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             ccCCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            456778999999999999 6778 9999999999643      48999999873

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.75  E-value=4.7e-09  Score=75.96  Aligned_cols=44  Identities=30%  Similarity=0.814  Sum_probs=36.1

Q ss_pred             CCCCCCCCCCeecccccCCcc-ceeCCCCccchhhhhcC-------CCCCCc
Q 019939          279 PPASSTSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL-------DLCPIC  322 (333)
Q Consensus       279 ~~~~~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~-------~~CP~C  322 (333)
                      ......+++..|+||++.+.+ ++++|||.||..|+.++       ..||+|
T Consensus        12 ~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           12 QFVNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCCCCBCTTTCSBCSSCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             HHHHhCccCCCCCcCCchhCCeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            334566788999999999999 66799999999999643       379998

>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT- interacting protein, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.74  E-value=5.4e-09  Score=80.19  Aligned_cols=48  Identities=27%  Similarity=0.715  Sum_probs=39.1

Q ss_pred             CCCCCCCCeecccccCCcc----ce-eCCCCccchhhhhcC-------CCCCCccccccc
Q 019939          281 ASSTSDNHVCPICLTDPKD----MA-FGCGHQTCCGCGQDL-------DLCPICRSFIQT  328 (333)
Q Consensus       281 ~~~~~~~~~C~ICl~~~~~----~~-l~CgH~fC~~C~~~~-------~~CP~CR~~i~~  328 (333)
                      ....++...|+||++.+.+    .+ ++|||.||..|+.++       ..||+||..+..
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A            9 LDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRI   68 (88)
T ss_dssp             CCCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCC
T ss_pred             hhhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccc
Confidence            3456778899999999987    44 499999999999744       589999998754

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=98.74  E-value=5.2e-09  Score=78.87  Aligned_cols=49  Identities=24%  Similarity=0.547  Sum_probs=38.6

Q ss_pred             CCCCCCCCeecccccCCcc----ceeCCCCccchhhhhcC----CCCCCcccccccc
Q 019939          281 ASSTSDNHVCPICLTDPKD----MAFGCGHQTCCGCGQDL----DLCPICRSFIQTR  329 (333)
Q Consensus       281 ~~~~~~~~~C~ICl~~~~~----~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~~  329 (333)
                      .....+...|+||++.+.+    ..++|||.||..|+.++    ..||+||..+...
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (78)
T 2ect_A            9 EEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQ   65 (78)
T ss_dssp             CTTSSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCS
T ss_pred             cccCCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCc
Confidence            3345667899999998864    23499999999999743    5899999998753

>4ayc_A E3 ubiquitin-protein ligase RNF8; DNA damage, K63 chains; HET: CPQ; 1.90A {Homo sapiens} PDB: 4epo_C

Probab=98.72  E-value=2e-09  Score=90.44  Aligned_cols=44  Identities=30%  Similarity=0.696  Sum_probs=37.7

Q ss_pred             CCCeecccccCCcc-ceeCCCCccchhhhhcC----CCCCCcccccccc
Q 019939          286 DNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL----DLCPICRSFIQTR  329 (333)
Q Consensus       286 ~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~~  329 (333)
                      ++..|+||++.+.+ ++++|||.||..|+..+    ..||+||.++...
T Consensus        52 ~~~~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           52 NELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK  100 (138)
T ss_dssp             HHSBCTTTCSBCSSEEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCCE
T ss_pred             ccCCCcccCcccCCceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCCC
Confidence            45789999999999 66799999999999753    4899999998754

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus}

Probab=98.72  E-value=3e-09  Score=78.47  Aligned_cols=50  Identities=34%  Similarity=0.812  Sum_probs=39.4

Q ss_pred             CCCCCeecccccCCcc--------ceeCCCCccchhhhhcC----CCCCCccccccc--ccccC
Q 019939          284 TSDNHVCPICLTDPKD--------MAFGCGHQTCCGCGQDL----DLCPICRSFIQT--RIKLY  333 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~--------~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~--~i~~y  333 (333)
                      .+++..|+||++.+.+        +.++|||.||..|+.++    ..||+||.++..  ..++|
T Consensus         7 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~   70 (71)
T 3ng2_A            7 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIY   70 (71)
T ss_dssp             CTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSCCCCC
T ss_pred             CCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccChhheeecc
Confidence            3567899999998876        34599999999999643    589999999874  34444

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.69  E-value=8.6e-09  Score=76.85  Aligned_cols=51  Identities=22%  Similarity=0.472  Sum_probs=39.9

Q ss_pred             CCCCCCCCeecccccCCcc-c---eeCCCCccchhhhhcC----CCCCCcccccccccc
Q 019939          281 ASSTSDNHVCPICLTDPKD-M---AFGCGHQTCCGCGQDL----DLCPICRSFIQTRIK  331 (333)
Q Consensus       281 ~~~~~~~~~C~ICl~~~~~-~---~l~CgH~fC~~C~~~~----~~CP~CR~~i~~~i~  331 (333)
                      .....++..|+||++.+.+ .   +++|||.||..|+.++    ..||+||.++.....
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~   67 (74)
T 2ep4_A            9 VKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQ   67 (74)
T ss_dssp             CCCCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBCSSCCS
T ss_pred             cccCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCcccccccc
Confidence            3445677899999999865 2   3399999999999753    589999999876543

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2

Probab=98.68  E-value=6.7e-09  Score=78.26  Aligned_cols=46  Identities=22%  Similarity=0.304  Sum_probs=39.2

Q ss_pred             CCCCCCeecccccCCcc-ceeCCCCccchhhhhc-----CCCCCCccccccc
Q 019939          283 STSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQD-----LDLCPICRSFIQT  328 (333)
Q Consensus       283 ~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~-----~~~CP~CR~~i~~  328 (333)
                      ...++..|+||++.+.+ ++++|||.||..|+.+     ...||+||.++..
T Consensus         4 ~~~~~~~C~IC~~~~~~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~   55 (78)
T 1t1h_A            4 EFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             CCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             CCcccCCCCCccccccCCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCCh
Confidence            35678999999999999 6679999999999963     3579999998864

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1

Probab=98.67  E-value=6.4e-09  Score=76.19  Aligned_cols=47  Identities=30%  Similarity=0.762  Sum_probs=38.8

Q ss_pred             CCCCeecccccCCcc-ce-eCCCCccchhhhhc----CCCCCCcccccccccc
Q 019939          285 SDNHVCPICLTDPKD-MA-FGCGHQTCCGCGQD----LDLCPICRSFIQTRIK  331 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~-~~-l~CgH~fC~~C~~~----~~~CP~CR~~i~~~i~  331 (333)
                      +++..|+||++.+.+ ++ ++|||.||..|+.+    ...||+||.++...++
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   55 (68)
T 1chc_A            3 TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVH   55 (68)
T ss_dssp             CCCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCCEEC
T ss_pred             CCCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHhhhh
Confidence            356789999999988 34 49999999999964    3589999999987654

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.67  E-value=1.2e-08  Score=72.20  Aligned_cols=42  Identities=29%  Similarity=0.729  Sum_probs=35.0

Q ss_pred             CCCCCCCCeecccccCCcc-ceeCCCCccchhhhhcC-------CCCCCc
Q 019939          281 ASSTSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL-------DLCPIC  322 (333)
Q Consensus       281 ~~~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~-------~~CP~C  322 (333)
                      ....+++..|+||++.+.+ +.++|||.||..|+.++       ..||+|
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A            9 LENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SSCSCCCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             hhccccCCCCccCCcccCccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            3455678899999999999 66799999999999654       479988

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens}

Probab=98.64  E-value=6.9e-09  Score=74.74  Aligned_cols=48  Identities=33%  Similarity=0.808  Sum_probs=38.3

Q ss_pred             CCCeecccccCCcc--------ceeCCCCccchhhhhcC----CCCCCccccccc--ccccC
Q 019939          286 DNHVCPICLTDPKD--------MAFGCGHQTCCGCGQDL----DLCPICRSFIQT--RIKLY  333 (333)
Q Consensus       286 ~~~~C~ICl~~~~~--------~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~--~i~~y  333 (333)
                      ++..|+||++.+.+        +.++|||.||..|+.++    ..||+||.++..  ..++|
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~   63 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIY   63 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBCTTTCEEECC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccCCccceeeee
Confidence            46789999998876        34599999999999744    589999999874  45554

>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=98.61  E-value=3.1e-08  Score=78.76  Aligned_cols=48  Identities=17%  Similarity=0.054  Sum_probs=40.8

Q ss_pred             CCCCCCCCeecccccCCcc-ceeCCC-CccchhhhhcC----CCCCCccccccc
Q 019939          281 ASSTSDNHVCPICLTDPKD-MAFGCG-HQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       281 ~~~~~~~~~C~ICl~~~~~-~~l~Cg-H~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      .....++..|+||++.+++ |+++|| |.||+.|+.++    ..||+||+++..
T Consensus        16 ~~~~p~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~   69 (98)
T 1wgm_A           16 YADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             CCSCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             hhcCcHhcCCcCccccccCCeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCCh
Confidence            3455678999999999999 777999 99999999754    479999998864

>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=98.60  E-value=5.3e-09  Score=86.01  Aligned_cols=44  Identities=23%  Similarity=0.473  Sum_probs=37.9

Q ss_pred             CCCCeecccccCCcc-ceeCCCCccchhhhhcC-----CCCCCccccccc
Q 019939          285 SDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL-----DLCPICRSFIQT  328 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~-----~~CP~CR~~i~~  328 (333)
                      +++..|+||++.+.+ ++++|||.||..|+..+     ..||+||.++..
T Consensus        50 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           50 EETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             ccCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            456899999999999 66799999999999633     489999999865

>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=98.60  E-value=2.3e-08  Score=73.44  Aligned_cols=48  Identities=27%  Similarity=0.584  Sum_probs=38.1

Q ss_pred             CCCCCCeecccccCCcc----ceeCCCCccchhhhhcC----CCCCCccccccccc
Q 019939          283 STSDNHVCPICLTDPKD----MAFGCGHQTCCGCGQDL----DLCPICRSFIQTRI  330 (333)
Q Consensus       283 ~~~~~~~C~ICl~~~~~----~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~~i  330 (333)
                      ...++..|+||++.+..    +.++|||.||..|+..+    ..||+||..+...+
T Consensus        10 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   65 (69)
T 2kiz_A           10 EEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQL   65 (69)
T ss_dssp             STTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSCC
T ss_pred             cCCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCcC
Confidence            34566899999998753    34599999999999743    58999999987654

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1

Probab=98.57  E-value=3.4e-08  Score=69.24  Aligned_cols=44  Identities=30%  Similarity=0.713  Sum_probs=35.6

Q ss_pred             CCCCCeecccccCCcc----ceeC-CCCccchhhhhcC----CCCCCcccccc
Q 019939          284 TSDNHVCPICLTDPKD----MAFG-CGHQTCCGCGQDL----DLCPICRSFIQ  327 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~----~~l~-CgH~fC~~C~~~~----~~CP~CR~~i~  327 (333)
                      .+++..|+||++.+.+    +.++ |||.||..|+.++    ..||+||+++.
T Consensus         2 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            3567899999999876    3456 9999999999754    48999998763

>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=98.57  E-value=8.8e-09  Score=81.81  Aligned_cols=46  Identities=28%  Similarity=0.625  Sum_probs=38.9

Q ss_pred             CCCCCCeecccccCCcc-ce-eCCCCccchhhhhcC-----CCCCCccccccc
Q 019939          283 STSDNHVCPICLTDPKD-MA-FGCGHQTCCGCGQDL-----DLCPICRSFIQT  328 (333)
Q Consensus       283 ~~~~~~~C~ICl~~~~~-~~-l~CgH~fC~~C~~~~-----~~CP~CR~~i~~  328 (333)
                      .++++..|+||++.+.+ +. ++|||.||..|+.++     ..||+||.++..
T Consensus        18 ~l~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (100)
T 3lrq_A           18 SIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQL   70 (100)
T ss_dssp             HHHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             cCCCCCCCccCCccccCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCH
Confidence            34567899999999999 66 699999999999743     589999998854

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus}

Probab=98.55  E-value=3.7e-08  Score=76.12  Aligned_cols=47  Identities=17%  Similarity=0.091  Sum_probs=40.3

Q ss_pred             CCCCCCCeecccccCCcc-ceeCCCCccchhhhhcC----CCCCCccccccc
Q 019939          282 SSTSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       282 ~~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      ....++..|+||++.+++ ++++|||.||+.|+.+.    ..||+||.++..
T Consensus         9 ~~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   60 (85)
T 2kr4_A            9 SDAPDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTE   60 (85)
T ss_dssp             TTCCTTTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             hcCchheECcccCchhcCCeECCCCCEECHHHHHHHHhcCCCCCCCcCCCCh
Confidence            345678999999999999 77799999999999644    589999998864

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.55  E-value=1.4e-08  Score=74.00  Aligned_cols=43  Identities=33%  Similarity=0.728  Sum_probs=35.0

Q ss_pred             CCCeeccccc-CCccc-----eeCCCCccchhhhhcC-----CCCCCccccccc
Q 019939          286 DNHVCPICLT-DPKDM-----AFGCGHQTCCGCGQDL-----DLCPICRSFIQT  328 (333)
Q Consensus       286 ~~~~C~ICl~-~~~~~-----~l~CgH~fC~~C~~~~-----~~CP~CR~~i~~  328 (333)
                      ++..|+||++ .+.+.     +++|||.||..|+.++     ..||+||+++..
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   55 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcccc
Confidence            4678999999 66552     3599999999999755     479999999864

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.54  E-value=3.7e-08  Score=73.69  Aligned_cols=45  Identities=27%  Similarity=0.675  Sum_probs=36.6

Q ss_pred             CCCCCeecccccCCcc----ceeCCCCccchhhhhcC----CCCCCccccccc
Q 019939          284 TSDNHVCPICLTDPKD----MAFGCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~----~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      ..++..|+||++.+.+    ..++|||.||..|+.++    ..||+||+.+..
T Consensus        20 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~   72 (75)
T 1x4j_A           20 QSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGP   72 (75)
T ss_dssp             SSSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCC
T ss_pred             cCCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCC
Confidence            4567899999998765    33599999999999754    589999998864

>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=98.54  E-value=7.6e-08  Score=76.76  Aligned_cols=47  Identities=17%  Similarity=0.061  Sum_probs=40.3

Q ss_pred             CCCCCCCeecccccCCcc-ceeCCCCccchhhhhcC----CCCCCccccccc
Q 019939          282 SSTSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       282 ~~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      ....++..|+||++.+++ |+++|||.||+.|+.++    ..||.||.++..
T Consensus        24 ~~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   75 (100)
T 2kre_A           24 SDAPDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTE   75 (100)
T ss_dssp             SSCSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCT
T ss_pred             ccCcHhhCCcCccCcccCCeECCCCCEEchHHHHHHHHcCCCCCCCCCCCCh
Confidence            345678999999999999 77799999999999754    489999998864

>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=98.53  E-value=1.9e-08  Score=80.64  Aligned_cols=45  Identities=24%  Similarity=0.549  Sum_probs=39.0

Q ss_pred             CCCCCeecccccCCcc-cee-CCCCccchhhhhcC----CCCCCccccccc
Q 019939          284 TSDNHVCPICLTDPKD-MAF-GCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~-~~l-~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      ++++..|+||++.+.+ +++ +|||.||..|+..+    ..||+||..+..
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (108)
T 2ckl_A           12 LNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHK   62 (108)
T ss_dssp             HGGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCS
T ss_pred             cCCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHhCCcCcCCCccccc
Confidence            4567899999999999 677 99999999999754    589999999874

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens}

Probab=98.50  E-value=5.8e-09  Score=82.36  Aligned_cols=45  Identities=27%  Similarity=0.592  Sum_probs=38.0

Q ss_pred             CCCCCeecccccCCcc-cee-CCCCccchhhhhcC----CCCCCccccccc
Q 019939          284 TSDNHVCPICLTDPKD-MAF-GCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~-~~l-~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      .+++..|+||++.+.+ +++ +|||.||..|+.++    ..||+||..+..
T Consensus        19 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           19 IDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             HHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CCCCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            3456899999999999 666 89999999999643    489999998864

>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=98.50  E-value=2.3e-08  Score=86.14  Aligned_cols=47  Identities=34%  Similarity=0.728  Sum_probs=38.6

Q ss_pred             CCCCCCCeecccccCCcc-cee-CCCCccchhhhhcC-----CCCCCccccccc
Q 019939          282 SSTSDNHVCPICLTDPKD-MAF-GCGHQTCCGCGQDL-----DLCPICRSFIQT  328 (333)
Q Consensus       282 ~~~~~~~~C~ICl~~~~~-~~l-~CgH~fC~~C~~~~-----~~CP~CR~~i~~  328 (333)
                      ....+...|+||++.+.+ +.+ +|||.||..|+.++     ..||+||.++..
T Consensus        49 ~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           49 RSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             -CCHHHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             hhCCCCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            345567899999999999 666 99999999999643     479999998853

>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=98.50  E-value=3.1e-08  Score=80.73  Aligned_cols=46  Identities=24%  Similarity=0.579  Sum_probs=39.7

Q ss_pred             CCCCCCeecccccCCcc-cee-CCCCccchhhhhcC--CCCCCccccccc
Q 019939          283 STSDNHVCPICLTDPKD-MAF-GCGHQTCCGCGQDL--DLCPICRSFIQT  328 (333)
Q Consensus       283 ~~~~~~~C~ICl~~~~~-~~l-~CgH~fC~~C~~~~--~~CP~CR~~i~~  328 (333)
                      .++++..|+||++.+.+ +++ +|||.||..|+..+  ..||+||.++..
T Consensus        18 ~l~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~~~   67 (117)
T 1jm7_B           18 RLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWI   67 (117)
T ss_dssp             HHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTTBCSSSCCBCSC
T ss_pred             hchhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhcCCCcCCCCcCcc
Confidence            34577999999999999 777 99999999999877  479999998853

>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=98.49  E-value=5.2e-08  Score=68.18  Aligned_cols=42  Identities=31%  Similarity=0.738  Sum_probs=34.5

Q ss_pred             CCCeecccccCCcc----c-eeCCCCccchhhhhcC----CCCCCcccccc
Q 019939          286 DNHVCPICLTDPKD----M-AFGCGHQTCCGCGQDL----DLCPICRSFIQ  327 (333)
Q Consensus       286 ~~~~C~ICl~~~~~----~-~l~CgH~fC~~C~~~~----~~CP~CR~~i~  327 (333)
                      ++..|+||++.+.+    + .++|||.||..|+.++    ..||+||+++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            56789999998754    3 3499999999999754    68999999875

>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=98.45  E-value=1.5e-08  Score=85.79  Aligned_cols=44  Identities=20%  Similarity=0.496  Sum_probs=38.0

Q ss_pred             CCCCCCeecccccCCcc-ceeCCCCccchhhhhcC-----CCCCCccccc
Q 019939          283 STSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL-----DLCPICRSFI  326 (333)
Q Consensus       283 ~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~-----~~CP~CR~~i  326 (333)
                      .++++..|+||++.+.+ +.++|||.||..|+.++     ..||+||.++
T Consensus        27 ~l~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~   76 (141)
T 3knv_A           27 KLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEG   76 (141)
T ss_dssp             GCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTT
T ss_pred             cCCcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHhcCCCCCCCCCCcc
Confidence            45678999999999999 66799999999999754     3799999975

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens}

Probab=98.44  E-value=6.9e-08  Score=75.26  Aligned_cols=46  Identities=24%  Similarity=0.601  Sum_probs=37.0

Q ss_pred             CCCCCeecccccCCcc---c-eeCCCCccchhhhhcC----CCCCCcccccccc
Q 019939          284 TSDNHVCPICLTDPKD---M-AFGCGHQTCCGCGQDL----DLCPICRSFIQTR  329 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~---~-~l~CgH~fC~~C~~~~----~~CP~CR~~i~~~  329 (333)
                      ..++..|+||++.+.+   + .++|||.||..|+..+    ..||+||..+...
T Consensus        37 ~~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~   90 (91)
T 2l0b_A           37 VGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFPPP   90 (91)
T ss_dssp             SSSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBSSCC
T ss_pred             cCCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccCCCC
Confidence            4567899999988765   3 3599999999999743    5899999988653

>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=98.44  E-value=6.5e-08  Score=78.88  Aligned_cols=47  Identities=26%  Similarity=0.648  Sum_probs=40.0

Q ss_pred             CCCCCCCeecccccCCcc-ceeCCCCccchhhhhcC-----CCCCCccccccc
Q 019939          282 SSTSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL-----DLCPICRSFIQT  328 (333)
Q Consensus       282 ~~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~-----~~CP~CR~~i~~  328 (333)
                      ...+++..|+||++.+.+ +.++|||.||..|+..+     ..||+||.++..
T Consensus        13 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (118)
T 3hct_A           13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (118)
T ss_dssp             SCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             cCCCCCCCCCcCChhhcCeEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCH
Confidence            356678899999999999 66799999999999654     389999998865

>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=98.44  E-value=5e-08  Score=83.27  Aligned_cols=45  Identities=24%  Similarity=0.509  Sum_probs=38.1

Q ss_pred             CCCCeecccccCCcc-ceeCCCCccchhhhhcC-----CCCCCcccccccc
Q 019939          285 SDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL-----DLCPICRSFIQTR  329 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~-----~~CP~CR~~i~~~  329 (333)
                      ++...|+||++.+.+ ++++|||.||..|+..+     ..||+||..+...
T Consensus        76 ~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           76 EQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             ccCCEeecCChhhcCCEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            356899999999999 66799999999999644     3799999998754

>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=98.44  E-value=4e-08  Score=78.75  Aligned_cols=43  Identities=35%  Similarity=0.732  Sum_probs=36.5

Q ss_pred             CCCeecccccCCcc-ceeCCCCccchhhhhcC-------CCCCCccccccc
Q 019939          286 DNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL-------DLCPICRSFIQT  328 (333)
Q Consensus       286 ~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~-------~~CP~CR~~i~~  328 (333)
                      +...|+||++.+.+ ++++|||.||..|+..+       ..||+||.++..
T Consensus        20 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (112)
T 1jm7_A           20 KILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (112)
T ss_dssp             HHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             CCCCCcccChhhcCeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCH
Confidence            45789999999999 66799999999999643       379999998864

>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=98.42  E-value=1e-07  Score=92.94  Aligned_cols=46  Identities=33%  Similarity=0.691  Sum_probs=38.7

Q ss_pred             CCCeecccccCCcc-ceeCCCCccchhhhh-----cCCCCCCcccccccccc
Q 019939          286 DNHVCPICLTDPKD-MAFGCGHQTCCGCGQ-----DLDLCPICRSFIQTRIK  331 (333)
Q Consensus       286 ~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~-----~~~~CP~CR~~i~~~i~  331 (333)
                      ....|+||++...+ +.++|||.||..|+.     ....||+||.++.....
T Consensus       331 ~~~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~~  382 (389)
T 2y1n_A          331 TFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEP  382 (389)
T ss_dssp             SSSBCTTTSSSBCCEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEEEE
T ss_pred             CCCCCCccCcCCCCeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCcee
Confidence            34799999999999 556999999999996     35689999999987543

>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=98.39  E-value=8e-08  Score=77.48  Aligned_cols=44  Identities=20%  Similarity=0.451  Sum_probs=34.4

Q ss_pred             CCCeecccccCCcc-c------------------eeCCCCccchhhhhcC---------CCCCCcccccccc
Q 019939          286 DNHVCPICLTDPKD-M------------------AFGCGHQTCCGCGQDL---------DLCPICRSFIQTR  329 (333)
Q Consensus       286 ~~~~C~ICl~~~~~-~------------------~l~CgH~fC~~C~~~~---------~~CP~CR~~i~~~  329 (333)
                      .+..|+||++.+.+ .                  .++|||.||..|+..+         ..||+||..+..+
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            34699999998754 1                  4599999999999632         3899999988643

>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=98.36  E-value=1.9e-07  Score=85.83  Aligned_cols=44  Identities=14%  Similarity=0.050  Sum_probs=37.7

Q ss_pred             CCCCeecccccCCcc-ceeCCCCccchhhhhcC-----CCCCCccccccc
Q 019939          285 SDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL-----DLCPICRSFIQT  328 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~-----~~CP~CR~~i~~  328 (333)
                      .+...|+||++.+.+ |+++|||+||+.|+.+.     ..||+||.++..
T Consensus       206 ~~~~~c~i~~~~~~dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          206 PDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             CSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CcccCCcCcCCHhcCCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            367899999999999 77799999999999643     359999999864

>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=98.36  E-value=3.3e-08  Score=80.20  Aligned_cols=46  Identities=26%  Similarity=0.431  Sum_probs=38.6

Q ss_pred             CCCCCCeecccccCCcc-ceeCCCCccchhhhhc-----CCCCCCccccccc
Q 019939          283 STSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQD-----LDLCPICRSFIQT  328 (333)
Q Consensus       283 ~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~-----~~~CP~CR~~i~~  328 (333)
                      ...++..|+||++.+.+ +.++|||.||..|+.+     ...||+||.++..
T Consensus        19 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (116)
T 1rmd_A           19 HFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (116)
T ss_dssp             HHHHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             hccCCCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCH
Confidence            34567899999999999 6679999999999963     3589999999864

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.22  E-value=2.8e-07  Score=75.36  Aligned_cols=44  Identities=36%  Similarity=0.876  Sum_probs=36.5

Q ss_pred             CCCCeecccccCCcc--------ceeCCCCccchhhhhcC----CCCCCccccccc
Q 019939          285 SDNHVCPICLTDPKD--------MAFGCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~--------~~l~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      .++..|+||++.+.+        ++++|||.||..|+.++    ..||+||+.+..
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   60 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   60 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTT
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcc
Confidence            467899999999876        34599999999999643    589999998864

>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=98.20  E-value=4.9e-07  Score=70.97  Aligned_cols=42  Identities=26%  Similarity=0.496  Sum_probs=35.4

Q ss_pred             CCCCCeecccccCCcc-ceeC-CCCccchhhhhcC----------CCCCC--cccc
Q 019939          284 TSDNHVCPICLTDPKD-MAFG-CGHQTCCGCGQDL----------DLCPI--CRSF  325 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~-~~l~-CgH~fC~~C~~~~----------~~CP~--CR~~  325 (333)
                      ..++..|+||++.+.+ |+++ |||.||+.|+..+          ..||+  |+..
T Consensus         4 ~~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            4 GSSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             CSSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             CCcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            4577899999999999 7775 9999999999532          38999  9865

>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=98.11  E-value=6.1e-07  Score=77.43  Aligned_cols=47  Identities=26%  Similarity=0.648  Sum_probs=40.1

Q ss_pred             CCCCCCCeecccccCCcc-ceeCCCCccchhhhhcC-----CCCCCccccccc
Q 019939          282 SSTSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL-----DLCPICRSFIQT  328 (333)
Q Consensus       282 ~~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~-----~~CP~CR~~i~~  328 (333)
                      ..+++...|+||++.+.+ +.++|||.||..|+.++     ..||+||.++..
T Consensus        13 ~~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (170)
T ss_dssp             SCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             cCCCCCCCCCCCChhhcCcEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcch
Confidence            356678999999999999 66699999999999754     389999998865

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=98.11  E-value=8.4e-07  Score=77.96  Aligned_cols=44  Identities=14%  Similarity=0.039  Sum_probs=37.8

Q ss_pred             CCCCeecccccCCcc-ceeCCCCccchhhhhcC-----CCCCCccccccc
Q 019939          285 SDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL-----DLCPICRSFIQT  328 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~-----~~CP~CR~~i~~  328 (333)
                      .+...|+||++.+.+ |+++|||.||+.|+...     ..||+||.++..
T Consensus       104 p~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~  153 (179)
T 2f42_A          104 PDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQ  153 (179)
T ss_dssp             CGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             cHhhcccCccccCCCCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCCh
Confidence            467999999999999 77799999999999643     359999998865

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.06  E-value=7.9e-07  Score=72.65  Aligned_cols=49  Identities=35%  Similarity=0.834  Sum_probs=39.0

Q ss_pred             CCCCeecccccCCcc--------ceeCCCCccchhhhhc----CCCCCCccccccc--ccccC
Q 019939          285 SDNHVCPICLTDPKD--------MAFGCGHQTCCGCGQD----LDLCPICRSFIQT--RIKLY  333 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~--------~~l~CgH~fC~~C~~~----~~~CP~CR~~i~~--~i~~y  333 (333)
                      ++...|+||++.+.+        +.++|||.||..|+.+    ...||+||..+..  ..++|
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~  132 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIY  132 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGGEEEEC
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhcceeee
Confidence            467889999998876        4459999999999964    4699999999874  34544

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.04  E-value=3.2e-06  Score=64.36  Aligned_cols=43  Identities=23%  Similarity=0.581  Sum_probs=32.8

Q ss_pred             CCCeecccccCCcc--------------c-ee-CCCCccchhhhhcC----CCCCCccccccc
Q 019939          286 DNHVCPICLTDPKD--------------M-AF-GCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       286 ~~~~C~ICl~~~~~--------------~-~l-~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      ++..|+||++.+.+              + ++ +|||.|+..|+.+.    ..||+||+++..
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   76 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV   76 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcch
Confidence            45678888887743              2 34 69999999999743    589999998753

>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=97.89  E-value=3.3e-05  Score=71.34  Aligned_cols=133  Identities=17%  Similarity=0.214  Sum_probs=89.6

Q ss_pred             HH-HHHHHHHHhhhhccCC---CCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHH
Q 019939           26 PY-EQAISIIGKTLSSFDE---DNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPII  101 (333)
Q Consensus        26 ~Y-~~ai~~i~~vl~~yD~---d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI  101 (333)
                      .+ +.+...+..++..++.   +-.+-++.|+....   .+|.++....  ...+.++++-..........|.|+....|
T Consensus        38 ~~~~~~k~~~~~~v~~l~~~~~~~rvglv~Fs~~~~---~~~~l~~~~~--~~~~~l~~~i~~l~~~~~~~G~T~~~~aL  112 (281)
T 4hqf_A           38 NWVNHAVPLAMKLIQQLNLNDNAIHLYASVFSNNAR---EIIRLHSDAS--KNKEKALIIIKSLLSTNLPYGKTSLTDAL  112 (281)
T ss_dssp             HHHHHHHHHHHHHHTTCCCCTTSEEEEEEEEETTEE---EEEEECSSCS--SCHHHHHHHHHHHHHTTGGGCSCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhccCCCCcEEEEEEcCCCce---EEEEccccCc--cCHHHHHHHHHHHhhccCCCCCccHHHHH
Confidence            45 6777777788787775   55799999987542   2344443211  23445544443332234467999999999


Q ss_pred             HHHHHHHHhcC---CceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC-CCCcccccC
Q 019939          102 EMAITIVEHSG---GQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG-PWDMMREFD  175 (333)
Q Consensus       102 ~~~~~~~~~~~---~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~-~f~~m~~ld  175 (333)
                      +.+.+.....+   ....++|+||||..+|            .....+++.++.+.-+-|..||||+. +-+.|+.+-
T Consensus       113 ~~a~~~l~~~~~r~~~~~~iillTDG~~~d------------~~~~~~~~~~l~~~gv~i~~igiG~~~~~~~L~~iA  178 (281)
T 4hqf_A          113 LQVRKHLNDRINRENANQLVVILTDGIPDS------------IQDSLKESRKLSDRGVKIAVFGIGQGINVAFNRFLV  178 (281)
T ss_dssp             HHHHHHHHTSCCCTTCEEEEEEEESSCCSC------------HHHHHHHHHHHHHTTCEEEEEEESSSCCHHHHHHHT
T ss_pred             HHHHHHHHhccCCCCCCEEEEEEecCCCCC------------cHHHHHHHHHHHHCCCEEEEEeCCCccCHHHHHhhh
Confidence            99987765432   2467899999999875            44566666666677799999999985 555566665

>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=97.88  E-value=3.7e-06  Score=77.82  Aligned_cols=45  Identities=20%  Similarity=0.335  Sum_probs=37.9

Q ss_pred             CCCCCeecccccCCcc-cee-CCCCccchhhhhcC------CCCCC--ccccccc
Q 019939          284 TSDNHVCPICLTDPKD-MAF-GCGHQTCCGCGQDL------DLCPI--CRSFIQT  328 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~-~~l-~CgH~fC~~C~~~~------~~CP~--CR~~i~~  328 (333)
                      ...+..|+||++.+++ |+. .|||.||+.|+..+      ..||+  ||+.+..
T Consensus       178 ~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~  232 (267)
T 3htk_C          178 GKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSM  232 (267)
T ss_dssp             SBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECG
T ss_pred             CceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCch
Confidence            4578999999999999 665 99999999999743      36999  9998754

>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=97.80  E-value=5.6e-05  Score=69.39  Aligned_cols=134  Identities=15%  Similarity=0.262  Sum_probs=90.2

Q ss_pred             CHH-HHHHHHHHhhhhccC---CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHH
Q 019939           25 NPY-EQAISIIGKTLSSFD---EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPI  100 (333)
Q Consensus        25 N~Y-~~ai~~i~~vl~~yD---~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapv  100 (333)
                      ..+ +++...+..++..|+   ++-.+-++.|+....   .+|+|+...  -...+.++++-...-......|.|+....
T Consensus        34 ~~~~~~~k~~~~~lv~~l~~~~~~~rvglv~Fs~~~~---~~~~l~~~~--~~~~~~~~~~i~~l~~~~~~~G~T~~~~A  108 (266)
T 4hqo_A           34 PNWITKVIPMLNGLINSLSLSRDTINLYMNLFGSYTT---ELIRLGSGQ--SIDKRQALSKVTELRKTYTPYGTTSMTAA  108 (266)
T ss_dssp             HHHHHTHHHHHHHHHHTCCBCTTSEEEEEEEESSSEE---EEECTTSHH--HHCHHHHHHHHHHHHHHCCCCSCCCHHHH
T ss_pred             hHHHHHHHHHHHHHHHHcccCCCCcEEEEEEecCCcc---eEEecCCCC--ccCHHHHHHHHHHhhhccCCCCCCCHHHH
Confidence            445 477888888888887   566799999998632   233332210  01234455444433222356799999999


Q ss_pred             HHHHHHHHHhc---CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCC-CCcccccC
Q 019939          101 IEMAITIVEHS---GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGP-WDMMREFD  175 (333)
Q Consensus       101 I~~~~~~~~~~---~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~-f~~m~~ld  175 (333)
                      |+.+.+..+..   .....++++||||..+|            .....+++.++.+..+.|..||||+.. -+.|+++-
T Consensus       109 L~~a~~~l~~~~~r~~~~~~iIllTDG~~~d------------~~~~~~~a~~l~~~gi~i~~iGiG~~~~~~~L~~iA  175 (266)
T 4hqo_A          109 LDEVQKHLNDRVNREKAIQLVILMTDGVPNS------------KYRALEVANKLKQRNVRLAVIGIGQGINHQFNRLIA  175 (266)
T ss_dssp             HHHHHHHHHTTCSCTTSEEEEEEEECSCCSC------------HHHHHHHHHHHHHTTCEEEEEECSSSCCHHHHHHHH
T ss_pred             HHHHHHHHhhccccCCCCeEEEEEccCCCCC------------chHHHHHHHHHHHCCCEEEEEecCcccCHHHHHHhh
Confidence            99998777653   23467999999999876            456667777777778999999999853 33345554

>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=97.78  E-value=6.4e-05  Score=65.93  Aligned_cols=129  Identities=18%  Similarity=0.252  Sum_probs=87.0

Q ss_pred             CCccccCCCCCHHHHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCC
Q 019939           15 RSLHHIGDDQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGP   94 (333)
Q Consensus        15 ~sLH~~~~~~N~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gp   94 (333)
                      .|+..-+..++..+.|...+..++..+. +..+-++.|+....   .+++++      .+.+.+.+.-...-+.....|.
T Consensus        22 gSM~~~d~~~~r~~~ak~~~~~~~~~~~-~~~v~lv~F~~~~~---~~~~~~------~~~~~~~~~l~~l~~~~~~~g~   91 (218)
T 3ibs_A           22 NSMLAQDVQPSRLEKAKRLISRLVDELD-NDKVGMIVFAGDAF---TQLPIT------SDYISAKMFLESISPSLISKQG   91 (218)
T ss_dssp             GGGGCCSSSSCHHHHHHHHHHHHHHTCS-SCEEEEEEESSSEE---EEEEEE------SCHHHHHHHHHTCCGGGCCSCS
T ss_pred             cCcccccCCcCHHHHHHHHHHHHHHhCC-CCeEEEEEECCCce---EeCCCC------CCHHHHHHHHHhcCcccCCCCC
Confidence            3444433346888999999999998887 55899999987532   223332      1344444333333333445799


Q ss_pred             CChHHHHHHHHHHHHhcCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC
Q 019939           95 TSFAPIIEMAITIVEHSGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG  166 (333)
Q Consensus        95 t~fapvI~~~~~~~~~~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~  166 (333)
                      |+....|+.+.+..........++++||||..++.             ...+++..+.+..+.|..||||+.
T Consensus        92 T~l~~al~~a~~~l~~~~~~~~~ivllTDG~~~~~-------------~~~~~~~~~~~~~i~v~~igig~~  150 (218)
T 3ibs_A           92 TAIGEAINLATRSFTPQEGVGRAIIVITDGENHEG-------------GAVEAAKAAAEKGIQVSVLGVGMP  150 (218)
T ss_dssp             CCHHHHHHHHHTTSCSCSSCCEEEEEEECCTTCCS-------------CHHHHHHHHHTTTEEEEEEEESCT
T ss_pred             CcHHHHHHHHHHHHhhCCCCCcEEEEEcCCCCCCC-------------cHHHHHHHHHhcCCEEEEEEecCC
Confidence            99999999998776554344578999999987751             233445555677899999999974

>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=97.74  E-value=5.9e-06  Score=64.40  Aligned_cols=40  Identities=23%  Similarity=0.463  Sum_probs=31.9

Q ss_pred             CCCeecccccCCcc-cee---CCCCccchhhhhcC------------CCCCC--cccc
Q 019939          286 DNHVCPICLTDPKD-MAF---GCGHQTCCGCGQDL------------DLCPI--CRSF  325 (333)
Q Consensus       286 ~~~~C~ICl~~~~~-~~l---~CgH~fC~~C~~~~------------~~CP~--CR~~  325 (333)
                      +...|+||++.+.. ..+   +|||.||.+|+...            ..||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            56789999999876 333   79999999998421            37999  9988

>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=97.70  E-value=1.6e-05  Score=63.94  Aligned_cols=42  Identities=24%  Similarity=0.403  Sum_probs=33.0

Q ss_pred             CCCeecccccCCccc------------------e-eCCCCccchhhhhc----CCCCCCcccccc
Q 019939          286 DNHVCPICLTDPKDM------------------A-FGCGHQTCCGCGQD----LDLCPICRSFIQ  327 (333)
Q Consensus       286 ~~~~C~ICl~~~~~~------------------~-l~CgH~fC~~C~~~----~~~CP~CR~~i~  327 (333)
                      ++..|.||++.+.+.                  + ++|+|.|+..|+..    ...||+||+.+.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            456899999887631                  2 49999999999975    358999999853

>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=97.68  E-value=0.00013  Score=61.91  Aligned_cols=113  Identities=11%  Similarity=0.140  Sum_probs=75.4

Q ss_pred             CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHHHHHHHHhc--CCceEEEEE
Q 019939           43 EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHS--GGQYHVLVI  120 (333)
Q Consensus        43 ~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~~~~~~~~~--~~~y~vLlI  120 (333)
                      .+..+-++.|+.....   ++++.      .+.+.+.++-.. +..+...|.|+....|+.+.+.....  .....++++
T Consensus        40 ~~~~v~lv~f~~~~~~---~~~~~------~~~~~~~~~l~~-l~~~~~~g~T~~~~al~~a~~~l~~~~~~~~~~~iil  109 (182)
T 1shu_X           40 PEMRLSFIVFSSQATI---ILPLT------GDRGKISKGLED-LKRVSPVGETYIHEGLKLANEQIQKAGGLKTSSIIIA  109 (182)
T ss_dssp             TTEEEEEEEESSSEEE---EEEEE------CCHHHHHHHHHH-HHTCCCCSCCCHHHHHHHHHHHHHHHTGGGSCEEEEE
T ss_pred             CCceEEEEEeCCCceE---EECCC------CCHHHHHHHHHh-cccCCCCCCchHHHHHHHHHHHHHhccCCCCCeEEEE
Confidence            4667999999875321   23332      233333332222 22345679999999999999887654  234678999


Q ss_pred             EecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCCCcccccC
Q 019939          121 IADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFD  175 (333)
Q Consensus       121 iTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f~~m~~ld  175 (333)
                      ||||..++.          ......+++..+.+..+.|..||||+.+...|+++-
T Consensus       110 iTDG~~~~~----------~~~~~~~~~~~~~~~~i~i~~igvg~~~~~~L~~ia  154 (182)
T 1shu_X          110 LTDGKLDGL----------VPSYAEKEAKISRSLGASVYCVGVLDFEQAQLERIA  154 (182)
T ss_dssp             EECCCCCTT----------HHHHHHHHHHHHHHTTCEEEEEECSSCCHHHHHHHS
T ss_pred             ECCCCcCCC----------CchhHHHHHHHHHhCCCEEEEEeCCcCCHHHHHHHh
Confidence            999997651          123345556666677899999999988877777775

>3n2n_F Anthrax toxin receptor 1; rossmann fold; 1.80A {Homo sapiens} SCOP: c.62.1.1

Probab=97.63  E-value=0.00023  Score=60.62  Aligned_cols=129  Identities=13%  Similarity=0.148  Sum_probs=81.3

Q ss_pred             HHHHHHHHHhhhhcc-CCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHHHH
Q 019939           27 YEQAISIIGKTLSSF-DEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAI  105 (333)
Q Consensus        27 Y~~ai~~i~~vl~~y-D~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~~~  105 (333)
                      +++.++.+-.++..| .++-.+-++.|+....   .+++++.      ..+.+.++-.+. ..+..+|.|+....|+.+.
T Consensus        24 ~~~~~~~~~~~~~~~~~~~~~v~lv~f~~~~~---~~~~l~~------~~~~~~~~i~~l-~~~~~~g~T~~~~al~~a~   93 (185)
T 3n2n_F           24 WNEIYYFVEQLAHKFISPQLRMSFIVFSTRGT---TLMKLTE------DREQIRQGLEEL-QKVLPGGDTYMHEGFERAS   93 (185)
T ss_dssp             HHHHHHHHHHHHHHCCCTTEEEEEEEESSSEE---EEEEEEC------CHHHHHHHHHHH-HTCCCCSCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCCCcEEEEEEEecCce---EEeccCC------CHHHHHHHHHHH-hhhcCCCCccHHHHHHHHH
Confidence            444444444444444 3345799999987543   2334331      344444333332 2234579999999999999


Q ss_pred             HHHH--hcC--CceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCCCcccccC
Q 019939          106 TIVE--HSG--GQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFD  175 (333)
Q Consensus       106 ~~~~--~~~--~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f~~m~~ld  175 (333)
                      +...  ..+  ....++++||||..++.          ......+++..+.+..+.|..||||+.+.+.|+++-
T Consensus        94 ~~l~~~~~~~~~~~~~iillTDG~~~~~----------~~~~~~~~~~~~~~~gi~i~~igvg~~~~~~L~~iA  157 (185)
T 3n2n_F           94 EQIYYENRQGYRTASVIIALTDGELHED----------LFFYSEREANRSRDLGAIVYAVGVKDFNETQLARIA  157 (185)
T ss_dssp             HHHHHHHTTCBCEEEEEEEEECCCCCHH----------HHHHHHHHHHHHHHTTEEEEEEECSSCCHHHHTTTS
T ss_pred             HHHhhccccCCCCCcEEEEEcCCCCCCC----------cccchHHHHHHHHHCCCEEEEEEeccCCHHHHHHHh
Confidence            8652  221  24678999999998751          111335566666677899999999987777777665

>4b4t_W RPN10, 26S proteasome regulatory subunit RPN10; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.59  E-value=0.00036  Score=64.88  Aligned_cols=147  Identities=12%  Similarity=0.191  Sum_probs=101.7

Q ss_pred             CCCHHHHHHHHHHhhhh---ccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHH
Q 019939           23 DQNPYEQAISIIGKTLS---SFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAP   99 (333)
Q Consensus        23 ~~N~Y~~ai~~i~~vl~---~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fap   99 (333)
                      .+|-++.+..++-.++.   ..+....+-+..|+.......  .+++      .....++.    .+..++..|-|+++.
T Consensus        22 ~PsRl~a~k~Av~~li~~~~~~nPed~VGLVtfag~~~~vl--~plT------~D~~~il~----aL~~l~~~G~T~l~~   89 (268)
T 4b4t_W           22 PRTRFEAQIDSVEFIFQAKRNSNPENTVGLISGAGANPRVL--STFT------AEFGKILA----GLHDTQIEGKLHMAT   89 (268)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHHHCTTCEEEEEECCTTSCEEE--EEEE------SCHHHHHH----HHTTCCCCSCCCHHH
T ss_pred             CCcHHHHHHHHHHHHHHHHhhCCCcceEEEEEecCCcceec--cCCc------chHHHHHH----HhhhcCcCCCCChHH
Confidence            57888877777766666   445567899999976432111  1111      23444443    456788899999999


Q ss_pred             HHHHHHHHHHhc--CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCC--CcccccC
Q 019939          100 IIEMAITIVEHS--GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPW--DMMREFD  175 (333)
Q Consensus       100 vI~~~~~~~~~~--~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f--~~m~~ld  175 (333)
                      -|+.|....+..  ...-..++++|||.+.+           +.++.++++.++.+.-|+|=+||+|..++  +.|++|-
T Consensus        90 gL~~A~~aLk~~~~k~~~~rIIlf~ds~~~~-----------~~~~l~~lak~lkk~gI~v~vIgFG~~~~n~~kLe~l~  158 (268)
T 4b4t_W           90 ALQIAQLTLKHRQNKVQHQRIVAFVCSPISD-----------SRDELIRLAKTLKKNNVAVDIINFGEIEQNTELLDEFI  158 (268)
T ss_dssp             HHHHHHHHHHTCSCTTSEEEEEEEECSCCSS-----------CHHHHHHHHHHHHHHTEEEEEEEESSCCSSCCHHHHHH
T ss_pred             HHHHHHHHHHhcccCCCceEEEEEECCCCCC-----------CHHHHHHHHHHHHHcCCEEEEEEeCCCccchHHHHHHH
Confidence            999999988754  22345678889998765           36788888999999999999999997554  4566664


Q ss_pred             CCCCCcccceeeeeecc
Q 019939          176 DNIPARAFDNFQFVNFT  192 (333)
Q Consensus       176 ~~~~~r~~DnvqFv~~~  192 (333)
                      +...+..-|+-+||...
T Consensus       159 ~~~Ng~~~~~s~~v~v~  175 (268)
T 4b4t_W          159 AAVNNPQEETSHLLTVT  175 (268)
T ss_dssp             HHHCSSTTTSCEEEEEC
T ss_pred             HHhcCCCCCceeEEEeC
Confidence            33333334788888864

>2x5n_A SPRPN10, 26S proteasome regulatory subunit RPN10; nuclear protein, nucleus, ubiquitin; 1.30A {Schizosaccharomyces pombe}

Probab=97.54  E-value=0.00054  Score=60.27  Aligned_cols=154  Identities=14%  Similarity=0.210  Sum_probs=97.7

Q ss_pred             CCccccCCCCCHHHHHHHHHHhhhhcc---CCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceee
Q 019939           15 RSLHHIGDDQNPYEQAISIIGKTLSSF---DEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRL   91 (333)
Q Consensus        15 ~sLH~~~~~~N~Y~~ai~~i~~vl~~y---D~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l   91 (333)
                      .|+..-+-.+|..+.|...+..++..|   .....+-+..|++...+.  +.+++      ...+.+.+    .+..+..
T Consensus        13 ~SM~~~D~~psRl~~ak~~~~~~~~~~~~~~~~d~vGLV~fa~~~a~~--~~plT------~d~~~i~~----~L~~l~~   80 (192)
T 2x5n_A           13 EWMINGDYIPTRFEAQKDTVHMIFNQKINDNPENMCGLMTIGDNSPQV--LSTLT------RDYGKFLS----AMHDLPV   80 (192)
T ss_dssp             GGGGCTTSSSCHHHHHHHHHHHHHHHHHHHCTTCEEEEEECCTTSCCE--EEEEE------SCHHHHHH----HHTTCCC
T ss_pred             HhhccCCCCCCHHHHHHHHHHHHHHHHHhcCCCCeEEEEEEcCCCcEE--ecCCC------CCHHHHHH----HHHcCCC
Confidence            455554546899999988877766544   455689999998743221  11222      23444433    4445778


Q ss_pred             cCCCChHHHHHHHHHHHHhcC--CceE-EEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCC
Q 019939           92 AGPTSFAPIIEMAITIVEHSG--GQYH-VLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPW  168 (333)
Q Consensus        92 ~gpt~fapvI~~~~~~~~~~~--~~y~-vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f  168 (333)
                      .|.|++...|+.+.+..++..  .... |+|+++|+. ++           +..+..+++..+.+.-+.+.+||+|..+.
T Consensus        81 ~g~t~l~~aL~~A~~~l~~~~~~~~~~riiil~~~~~-~~-----------~~~~~~~~a~~lk~~gi~v~~Ig~G~~~~  148 (192)
T 2x5n_A           81 RGNAKFGDGIQIAQLALKHRENKIQRQRIVAFVGSPI-VE-----------DEKNLIRLAKRMKKNNVAIDIIHIGELQN  148 (192)
T ss_dssp             CSCCCHHHHHHHHHHHHHTCSCTTSEEEEEEEECSCC-SS-----------CHHHHHHHHHHHHHTTEEEEEEEESCC--
T ss_pred             CCCchHHHHHHHHHHHHHhccccCCCceEEEEEECCC-CC-----------CchhHHHHHHHHHHCCCEEEEEEeCCCCc
Confidence            899999999999998877643  1232 455555544 32           25667777777888899999999998765


Q ss_pred             Cc-ccccCCCCCCcccceeeeeecccc
Q 019939          169 DM-MREFDDNIPARAFDNFQFVNFTEI  194 (333)
Q Consensus       169 ~~-m~~ld~~~~~r~~DnvqFv~~~~~  194 (333)
                      .. |++|-+...  .-||-+||...+-
T Consensus       149 ~~~l~~la~~~n--~~~~s~~~~~~~~  173 (192)
T 2x5n_A          149 ESALQHFIDAAN--SSDSCHLVSIPPS  173 (192)
T ss_dssp             -CHHHHHHHHHC--STTCCEEEEECCC
T ss_pred             cHHHHHHHHhcc--CCCceEEEEecCc
Confidence            32 776642222  1268889865543

>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=97.53  E-value=1.4e-05  Score=65.54  Aligned_cols=42  Identities=24%  Similarity=0.406  Sum_probs=0.8

Q ss_pred             CCCeecccccCCcc------------------ce-eCCCCccchhhhhcC----CCCCCcccccc
Q 019939          286 DNHVCPICLTDPKD------------------MA-FGCGHQTCCGCGQDL----DLCPICRSFIQ  327 (333)
Q Consensus       286 ~~~~C~ICl~~~~~------------------~~-l~CgH~fC~~C~~~~----~~CP~CR~~i~  327 (333)
                      ++..|.||++.+.+                  ++ .+|+|.|+..|+...    ..||+||+++.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             CC---------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            34689999998754                  11 389999999999764    48999999853

>2xgg_A Microneme protein 2; A/I domain, cell adhesion, hydrolase; 2.05A {Toxoplasma gondii}

Probab=97.52  E-value=0.0006  Score=58.30  Aligned_cols=122  Identities=11%  Similarity=0.095  Sum_probs=78.5

Q ss_pred             CHHHHHHHHHHhhhhccCC---CCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHH
Q 019939           25 NPYEQAISIIGKTLSSFDE---DNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPII  101 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD~---d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI  101 (333)
                      ..++++...+..++..|+.   .-.+-++.|+....   .+++|+...  ....+.+.++-.+ ++.  ..|.|+....|
T Consensus        33 ~~~~~~k~~~~~~i~~l~~~~~~~rv~vv~F~~~~~---~~~~l~~~~--~~~~~~~~~~i~~-l~~--~~g~T~~~~aL  104 (178)
T 2xgg_A           33 QNFRLVKQFLHTFLMVLPIGPEEVNNAVVTYSTDVH---LQWDLQSPN--AVDKQLAAHAVLD-MPY--KKGSTNTSDGL  104 (178)
T ss_dssp             HHHHHHHHHHHHHHHHSCBSTTSEEEEEEEESSSEE---EEECTTSGG--GSCHHHHHHHHHH-CCC--CCCCCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCCeEEEEEEeCCceE---EEEeCCCCC--ccCHHHHHHHHHh-CCC--CCCCccHHHHH
Confidence            4678888888888888873   25799999998643   233433211  1144555444332 221  46899999999


Q ss_pred             HHHHHHHHhc-----CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC
Q 019939          102 EMAITIVEHS-----GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG  166 (333)
Q Consensus       102 ~~~~~~~~~~-----~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~  166 (333)
                      +.+.+.....     .....++++||||..++            .....+++..+.+..+-|..||||+.
T Consensus       105 ~~a~~~l~~~~~g~r~~~~~~iillTDG~~~~------------~~~~~~~~~~l~~~gi~v~~igvG~~  162 (178)
T 2xgg_A          105 KACKQILFTGSRPGREHVPKLVIGMTDGESDS------------DFRTVRAAKEIRELGGIVTVLAVGHY  162 (178)
T ss_dssp             HHHHHHHHHCCCTTCTTSCEEEEEEESSCCCH------------HHHHSHHHHHHHHTTCEEEEEECC--
T ss_pred             HHHHHHhcCcccCCCCCCCEEEEEEcCCCCCC------------CccHHHHHHHHHHCCCEEEEEEcCCc
Confidence            9999874221     13457899999999875            22344444444456889999999974

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.52  E-value=6.1e-05  Score=57.44  Aligned_cols=45  Identities=24%  Similarity=0.554  Sum_probs=35.1

Q ss_pred             CCCCeecccccCCcc---ceeCCC-----CccchhhhhcC------CCCCCcccccccc
Q 019939          285 SDNHVCPICLTDPKD---MAFGCG-----HQTCCGCGQDL------DLCPICRSFIQTR  329 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~---~~l~Cg-----H~fC~~C~~~~------~~CP~CR~~i~~~  329 (333)
                      .++..|.||++.+.+   +++||.     |.|...|+.++      ..||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~   71 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIME   71 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCC
T ss_pred             CCCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecC
Confidence            456789999987643   445996     99999999754      4899999988654

>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=97.45  E-value=0.00024  Score=70.87  Aligned_cols=134  Identities=11%  Similarity=0.127  Sum_probs=90.4

Q ss_pred             CCHHHHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCC--CCCCCCHHHHHHHHHHhCCceeecCCCChHHHH
Q 019939           24 QNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPD--EKFCNGFEEVLRRYRELVPHLRLAGPTSFAPII  101 (333)
Q Consensus        24 ~N~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~--~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI  101 (333)
                      .+..+.+...+..++..+.++..|-++.|+....   .++++...  .....+.+.    .++.+..+...|.|++...|
T Consensus        94 ~~rl~~ak~a~~~ll~~L~~~drv~lV~Fs~~a~---~~~p~t~~l~~~~~~~~~~----l~~~I~~L~~~GgT~l~~aL  166 (464)
T 4fx5_A           94 RTKMMAAKEATKVAIDTLTDGAFFAVVAGTEGAR---VVYPTGGQLLRADYQSRAA----AKEAVGRLHANGGTAMGRWL  166 (464)
T ss_dssp             THHHHHHHHHHHHHHHHSCTTCEEEEEEESSSEE---EEESSSSSCEECSHHHHHH----HHHHHHTCCCCSCCCHHHHH
T ss_pred             CchHHHHHHHHHHHHHhCCCCCEEEEEEEcCceE---EEecCCcccccCCHHHHHH----HHHHHHcCCCCCCCcHHHHH
Confidence            4678888889999999898888999999987532   12222100  000112222    33344556678999999999


Q ss_pred             HHHHHHHHhcCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEeccc-CCCCcccccC
Q 019939          102 EMAITIVEHSGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGD-GPWDMMREFD  175 (333)
Q Consensus       102 ~~~~~~~~~~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd-~~f~~m~~ld  175 (333)
                      +.+.+..+.......++++||||..++.           ....+....++....+.|..||||+ .+.+.|+++-
T Consensus       167 ~~A~~~l~~~~~~~~~IILLTDG~~~~~-----------~~~~l~~~~~a~~~~i~i~tiGiG~~~d~~~L~~IA  230 (464)
T 4fx5_A          167 AQAGRIFDTAPSAIKHAILLTDGKDESE-----------TPADLARAIQSSIGNFTADCRGIGEDWEPKELRKIA  230 (464)
T ss_dssp             HHHHHHHTTCTTSEEEEEEEESSCCTTS-----------CHHHHHHHHHHHTTTCEEEEEEESSSSCHHHHHHHH
T ss_pred             HHHHHHHhcCCCCCCEEEEEcCCCCCCC-----------ChHHHHHHHHHhcCCCeEEEEEeCCccCHHHHHHHH
Confidence            9999988765455678999999997741           1223344444566789999999995 4666676664

>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=97.43  E-value=0.00029  Score=61.64  Aligned_cols=136  Identities=13%  Similarity=0.143  Sum_probs=81.8

Q ss_pred             HHHHHHHHHHhhh---hccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCce-eecCCCChHHHH
Q 019939           26 PYEQAISIIGKTL---SSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHL-RLAGPTSFAPII  101 (333)
Q Consensus        26 ~Y~~ai~~i~~vl---~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v-~l~gpt~fapvI  101 (333)
                      .++.+...+..++   ..++.+-.+-++.|+.....   ++.+.  .+.-...+.+.++-...-+.. ...|.|+....|
T Consensus        32 ~~~~~k~~~~~~i~~l~~~~~~~~v~lv~f~~~~~~---~~~~~--~~~~~~~~~~~~~i~~l~~~~~~~~g~T~~~~aL  106 (223)
T 1q0p_A           32 NFTGAKKSLVNLIEKVASYGVKPRYGLVTYATYPKI---WVKVS--EADSSNADWVTKQLNEINYEDHKLKSGTNTKKAL  106 (223)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTCCCEEEEEEESSSEEE---EECTT--SGGGGCHHHHHHHHHTCCTTSCSCTTCCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCceEEEEEecCccce---eeccc--cCCCCCHHHHHHHHHhcccccccCCCCccHHHHH
Confidence            3555555555554   45555668999999886431   22221  122223455554443322211 247999999999


Q ss_pred             HHHHHHHHhcC--------CceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHH----------hcCCCeEEEEEec
Q 019939          102 EMAITIVEHSG--------GQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVK----------ASEYPLSIILVGV  163 (333)
Q Consensus       102 ~~~~~~~~~~~--------~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~----------AS~~PlSii~VGv  163 (333)
                      +.+.+......        ..-.++++||||..+...         +.....+.+.+          +.+..+-|..|||
T Consensus       107 ~~a~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~---------~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~igv  177 (223)
T 1q0p_A          107 QAVYSMMSWPDDVPPEGWNRTRHVIILMTDGLHNMGG---------DPITVIDEIRDLLYIGKDRKNPREDYLDVYVFGV  177 (223)
T ss_dssp             HHHHHHHCCTTSSCCTTGGGCEEEEEEEECSCCCSSS---------CTHHHHHHHHHHTTCSCBTTBCCGGGEEEEEEEC
T ss_pred             HHHHHHhhccccccccccccCCeEEEEECCCCCCCCC---------ChHHHHHHHHHHHhhhhhhhhcccCCcEEEEEEe
Confidence            99998875321        245789999999877311         12344444433          3456789999999


Q ss_pred             cc-CCCCcccccC
Q 019939          164 GD-GPWDMMREFD  175 (333)
Q Consensus       164 Gd-~~f~~m~~ld  175 (333)
                      |+ .+.+.|+++-
T Consensus       178 G~~~~~~~L~~iA  190 (223)
T 1q0p_A          178 GPLVNQVNINALA  190 (223)
T ss_dssp             SSCCCHHHHHHHS
T ss_pred             cCcCCHHHHHHHh
Confidence            96 4556677665

>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=97.40  E-value=0.00042  Score=59.60  Aligned_cols=127  Identities=13%  Similarity=0.204  Sum_probs=82.3

Q ss_pred             CHHHHHHHHHHhhhhccCC---CCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHH
Q 019939           25 NPYEQAISIIGKTLSSFDE---DNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPII  101 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD~---d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI  101 (333)
                      +.++++...+..++..++.   +-.+-++.|+....   .+++++.    ....+.+.++... ++.  .+|.|+....|
T Consensus        21 ~~~~~~k~~~~~~~~~l~~~~~~~rv~lv~f~~~~~---~~~~l~~----~~~~~~~~~~i~~-l~~--~~g~T~~~~aL   90 (189)
T 1atz_A           21 SYFDEMKSFAKAFISKANIGPRLTQVSVLQYGSITT---IDVPWNV----VPEKAHLLSLVDV-MQR--EGGPSQIGDAL   90 (189)
T ss_dssp             HHHHHHHHHHHHHHHHSCBSTTSEEEEEEEESSSEE---EEECTTC----CCCHHHHHHHHHT-CCC--CCCCCCHHHHH
T ss_pred             hhHHHHHHHHHHHHHhcCcCCCCeEEEEEEECCcce---EEEecCC----CCCHHHHHHHHHh-CcC--CCCcchHHHHH
Confidence            5678888888888888762   24799999987532   2334321    1245555554433 222  36899999999


Q ss_pred             HHHHHHHHhc-----CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEeccc-CCCCcccccC
Q 019939          102 EMAITIVEHS-----GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGD-GPWDMMREFD  175 (333)
Q Consensus       102 ~~~~~~~~~~-----~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd-~~f~~m~~ld  175 (333)
                      +.+.+.....     .....+++|||||..++.           ..+..+.+.   +..+-|..||||+ .+-+.|+.+-
T Consensus        91 ~~a~~~l~~~~~g~r~~~~~~vivltdg~~~~~-----------~~~~~~~~~---~~gi~v~~igvG~~~~~~~L~~iA  156 (189)
T 1atz_A           91 GFAVRYLTSEMHGARPGASKAVVILVTDVSVDS-----------VDAAADAAR---SNRVTVFPIGIGDRYDAAQLRILA  156 (189)
T ss_dssp             HHHHHHHHSCCTTCCTTSEEEEEEEECSCCSSC-----------CHHHHHHHH---HTTEEEEEEEESSSSCHHHHHHHT
T ss_pred             HHHHHHHhccccCCCCCCCcEEEEEeCCCCCch-----------HHHHHHHHH---HCCCEEEEEEcCCcCCHHHHHHHH
Confidence            9999876532     224577888999987651           344444444   4678999999997 4544555554

>2b2x_A Integrin alpha-1; computational design, antibody-antigen complex, immune syste; 2.20A {Rattus norvegicus} SCOP: c.62.1.1

Probab=97.39  E-value=0.00076  Score=59.69  Aligned_cols=117  Identities=20%  Similarity=0.282  Sum_probs=77.4

Q ss_pred             HHHHHHHHHhhhhccC---CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceee-cC-CCChHHHH
Q 019939           27 YEQAISIIGKTLSSFD---EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRL-AG-PTSFAPII  101 (333)
Q Consensus        27 Y~~ai~~i~~vl~~yD---~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l-~g-pt~fapvI  101 (333)
                      ++++...+..++..++   ++-.+-++.|+....   .+++++  +  ....+.++++-    ..+.. +| .|+....|
T Consensus        38 ~~~~k~~~~~~~~~l~~~~~~~rv~lv~F~~~~~---~~~~l~--~--~~~~~~~~~~i----~~l~~~gG~~T~~~~aL  106 (223)
T 2b2x_A           38 WESVIAFLNDLLKRMDIGPKQTQVGIVQYGENVT---HEFNLN--K--YSSTEEVLVAA----NKIVQRGGRQTMTALGI  106 (223)
T ss_dssp             HHHHHHHHHHHHTTSCCSTTSCCEEEEEESSSEE---EEECTT--T--CCSHHHHHHHH----TTCCCCCCSSCCHHHHH
T ss_pred             HHHHHHHHHHHHHhcccCCCCeEEEEEEeCCCcc---EEEecC--C--CCCHHHHHHHH----HhhhccCCCCccHHHHH
Confidence            7888888888888886   567899999987532   233432  1  23455555433    33433 45 49999999


Q ss_pred             HHHHHH-HHh----cCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC
Q 019939          102 EMAITI-VEH----SGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG  166 (333)
Q Consensus       102 ~~~~~~-~~~----~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~  166 (333)
                      +.+.+. ...    ......++++||||..++.            ....+++..+.+..+-|..||||+.
T Consensus       107 ~~a~~~l~~~~~~~~~~~~~~iillTDG~~~~~------------~~~~~~~~~~~~~gi~v~~igvG~~  164 (223)
T 2b2x_A          107 DTARKEAFTEARGARRGVKKVMVIVTDGESHDN------------YRLKQVIQDCEDENIQRFSIAILGH  164 (223)
T ss_dssp             HHHHHTTSSGGGTCCTTSEEEEEEEESSCCTTG------------GGHHHHHHHHHTTTEEEEEEEECGG
T ss_pred             HHHHHHhcCcccCCCCCCCeEEEEEcCCCCCCC------------ccHHHHHHHHHHCCCEEEEEEecCc
Confidence            999876 221    1234678999999998762            1233344445567899999999963

>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=97.36  E-value=0.00085  Score=58.84  Aligned_cols=116  Identities=17%  Similarity=0.276  Sum_probs=76.3

Q ss_pred             HHHHHHHHHhhhhccC---CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceee-cC-CCChHHHH
Q 019939           27 YEQAISIIGKTLSSFD---EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRL-AG-PTSFAPII  101 (333)
Q Consensus        27 Y~~ai~~i~~vl~~yD---~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l-~g-pt~fapvI  101 (333)
                      ++.+...+..++..++   ++-.+-++.|+....   .++++.  +  ....+.++++-.    .+.. +| .|+....|
T Consensus        23 ~~~~k~~~~~~~~~l~~~~~~~~v~lv~F~~~~~---~~~~l~--~--~~~~~~~~~~i~----~l~~~~G~~T~~~~aL   91 (213)
T 1pt6_A           23 WDSVTAFLNDLLKRMDIGPKQTQVGIVQYGENVT---HEFNLN--K--YSSTEEVLVAAK----KIVQRGGRQTMTALGT   91 (213)
T ss_dssp             HHHHHHHHHHHHTTSCBSTTSBEEEEEEESSSEE---EEECTT--T--CSSHHHHHHHHH----TCCCCCCSSCCHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCCCCCeEEEEEEeCCCcc---EEEecc--c--cCCHHHHHHHHH----hccCCCCCcccHHHHH
Confidence            7777777888888776   567899999987532   233431  1  234555555433    2332 46 49999999


Q ss_pred             HHHHHHH-Hh----cCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEeccc
Q 019939          102 EMAITIV-EH----SGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGD  165 (333)
Q Consensus       102 ~~~~~~~-~~----~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd  165 (333)
                      +.+.+.. +.    ......++++||||..++.            ....+++..+.+..+-|..||||+
T Consensus        92 ~~a~~~l~~~~~~~r~~~~~~iillTDG~~~~~------------~~~~~~~~~~~~~gi~i~~igig~  148 (213)
T 1pt6_A           92 DTARKEAFTEARGARRGVKKVMVIVTDGESHDN------------HRLKKVIQDCEDENIQRFSIAILG  148 (213)
T ss_dssp             HHHHHTTTSGGGTCCTTCEEEEEEEESSCCSCS------------HHHHHHHHHHHHTTEEEEEEEECH
T ss_pred             HHHHHHhcCcccCCCCCCCeEEEEEcCCCCCCC------------ccHHHHHHHHHHCCCEEEEEEecc
Confidence            9998752 21    1234678999999998761            123344444555688999999996

>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=97.34  E-value=0.00051  Score=60.04  Aligned_cols=130  Identities=10%  Similarity=0.163  Sum_probs=81.9

Q ss_pred             CHHHHHHHHHHhhhhccC---CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceee-cC-CCChHH
Q 019939           25 NPYEQAISIIGKTLSSFD---EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRL-AG-PTSFAP   99 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD---~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l-~g-pt~fap   99 (333)
                      +.++++...+..++..|+   ++-.+-++.|+....   ..|+|+.    ....+.+.++-.    .+.. +| .|+...
T Consensus        29 ~~~~~~k~~~~~~v~~l~~~~~~~rv~vv~fs~~~~---~~~~l~~----~~~~~~~~~~i~----~l~~~gg~~T~~~~   97 (202)
T 1ijb_A           29 AEFEVLKAFVVDMMERLRVSQKWVRVAVVEYHDGSH---AYIGLKD----RKRPSELRRIAS----QVKYAGSQVASTSE   97 (202)
T ss_dssp             HHHHHHHHHHHHHHHTBCBSTTSEEEEEEEESSSEE---EEECTTC----CCCHHHHHHHHH----TCCCCCBSCCCHHH
T ss_pred             HHHHHHHHHHHHHHHhcccCCCceEEEEEEECCCce---EEEecCC----CCCHHHHHHHHH----hCcCCCCCcCcHHH
Confidence            568888888999999887   445899999987532   2344431    123444444332    2332 45 499999


Q ss_pred             HHHHHHHHH-Hhc--CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEeccc-CCCCcccccC
Q 019939          100 IIEMAITIV-EHS--GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGD-GPWDMMREFD  175 (333)
Q Consensus       100 vI~~~~~~~-~~~--~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd-~~f~~m~~ld  175 (333)
                      .|+.+.+.. .+.  .....++++||||..++.          ..+...+++.++.+..+-|..||||+ .+.+.|+.+-
T Consensus        98 aL~~a~~~~~~~~~r~~~~~~iillTDG~~~~~----------~~~~~~~~a~~l~~~gi~i~~igvG~~~~~~~L~~iA  167 (202)
T 1ijb_A           98 VLKYTLFQIFSKIDRPEASRIALLLMASQEPQR----------MSRNFVRYVQGLKKKKVIVIPVGIGPHANLKQIRLIE  167 (202)
T ss_dssp             HHHHHHHHTSSSCSCTTSEEEEEEEECCCCCGG----------GCTTHHHHHHHHHHTTEEEEEEEESTTSCHHHHHHHH
T ss_pred             HHHHHHHHHhccCCCCCCCeEEEEEccCCCCcc----------chHHHHHHHHHHHHCCCEEEEEecCCcCCHHHHHHHh
Confidence            999987543 211  234678999999987641          01123333344445689999999996 4556666653

>1n3y_A Integrin alpha-X; alpha/beta rossmann fold, cell adhesion; 1.65A {Homo sapiens} SCOP: c.62.1.1

Probab=97.19  E-value=0.0001  Score=63.54  Aligned_cols=127  Identities=20%  Similarity=0.314  Sum_probs=79.2

Q ss_pred             HHHHHHHHHHhhhhcc-CCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCcee-ecCCCChHHHHHH
Q 019939           26 PYEQAISIIGKTLSSF-DEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLR-LAGPTSFAPIIEM  103 (333)
Q Consensus        26 ~Y~~ai~~i~~vl~~y-D~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~-l~gpt~fapvI~~  103 (333)
                      .++.+...+-.++..+ .++-.+-++.|+....   .+++++.       ... .+...+.+..+. ..|.|+....|+.
T Consensus        26 ~~~~~~~~~~~~~~~l~~~~~~v~lv~f~~~~~---~~~~~~~-------~~~-~~~~~~~i~~l~~~~g~T~~~~al~~   94 (198)
T 1n3y_A           26 NFATMMNFVRAVISQFQRPSTQFSLMQFSNKFQ---THFTFEE-------FRR-SSNPLSLLASVHQLQGFTYTATAIQN   94 (198)
T ss_dssp             HHHHHHHHHHHHHTTSCTTTEEEEEEEESSSEE---EEECHHH-------HHH-CSSGGGGGTTCCCCCSCBCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCCCcEEEEEEeCCCcc---EEEecCc-------cCC-HHHHHHHHhcCcCCCCCchHHHHHHH
Confidence            5678888888888888 5777899999998632   1222210       000 011222333433 5799999999999


Q ss_pred             HHHH-HHhc----CCceEEEEEEecCccc-cCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCC-----CCccc
Q 019939          104 AITI-VEHS----GGQYHVLVIIADGQVT-RSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGP-----WDMMR  172 (333)
Q Consensus       104 ~~~~-~~~~----~~~y~vLlIiTDG~i~-d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~-----f~~m~  172 (333)
                      +.+. ....    .....++++||||..+ +..         +..+.   +..+.+..+.|..||||+..     ...|+
T Consensus        95 a~~~l~~~~~~~r~~~~~~iillTDG~~~~~~~---------~~~~~---~~~~~~~gi~i~~igvG~~~~~~~~~~~L~  162 (198)
T 1n3y_A           95 VVHRLFHASYGARRDAAKILIVITDGKKEGDSL---------DYKDV---IPMADAAGIIRYAIGVGLAFQNRNSWKELN  162 (198)
T ss_dssp             HHTTTTSGGGTCCTTSEEEEEEEESSCCBSCSS---------CHHHH---HHHHHHTTCEEEEEEESGGGGSSTTHHHHH
T ss_pred             HHHHHhCcccCCCCCCceEEEEECCCCCCCCcc---------cHHHH---HHHHHHCCCEEEEEEccccccccccHHHHH
Confidence            9844 2321    2346789999999887 311         12333   44445667889999999753     45555


Q ss_pred             ccC
Q 019939          173 EFD  175 (333)
Q Consensus       173 ~ld  175 (333)
                      ++-
T Consensus       163 ~iA  165 (198)
T 1n3y_A          163 DIA  165 (198)
T ss_dssp             HHS
T ss_pred             HHH
Confidence            554

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=97.18  E-value=0.00017  Score=57.15  Aligned_cols=41  Identities=27%  Similarity=0.551  Sum_probs=32.2

Q ss_pred             eecccccCCcc--ceeCCCCccchhhhh-----cCCCCCCcccccccc
Q 019939          289 VCPICLTDPKD--MAFGCGHQTCCGCGQ-----DLDLCPICRSFIQTR  329 (333)
Q Consensus       289 ~C~ICl~~~~~--~~l~CgH~fC~~C~~-----~~~~CP~CR~~i~~~  329 (333)
                      -|.+|--..+.  .++||.|.||.+|+.     +.+.||.|+.+|..+
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rV   50 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRI   50 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEE
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeee
Confidence            47777766655  456999999999994     346899999998764

>2x31_A Magnesium-chelatase 60 kDa subunit; ligase, bacteriochlorophyll biosynthesis, photosynthesis; 7.50A {Rhodobacter capsulatus}

Probab=97.12  E-value=9.9e-05  Score=63.42  Aligned_cols=137  Identities=12%  Similarity=0.191  Sum_probs=79.4

Q ss_pred             CHHHHHHHHHHhhhhcc-CCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHH
Q 019939           25 NPYEQAISIIGKTLSSF-DEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEM  103 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~y-D~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~  103 (333)
                      +..+.+...+..++... ..+..+-++.|+.....  .++++.      .+.+.+.+.    +..+...|.|++...|+.
T Consensus        21 ~~~~~~k~~~~~~~~~~~~~~~~v~lv~f~~~~~~--~~~~~~------~~~~~~~~~----i~~l~~~g~T~~~~al~~   88 (189)
T 2x31_A           21 ARLSEAKGAVELLLGRAYAARDHVSLITFRGTAAQ--VLLQPS------RSLTQTKRQ----LQGLPGGGGTPLASGMEM   88 (189)
T ss_dssp             --CHHHHHHHHHHHHHSCTTTSCCCEEEESBSCCC--BCTTTC------SCHHHHHHH----HHHCCCCBCCCCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHhcCCCcEEEEEEECCCCce--EecCCC------CCHHHHHHH----HhcCCCCCCCCHHHHHHH
Confidence            45555666666666444 67778999999963221  122211      244444332    234556799999999999


Q ss_pred             HHHHHHhcC--CceEEEEEEecCccccCCCcccCcCchh-HHHHHHHHHHhcCCCeEEEEEecccCCCCcccccC
Q 019939          104 AITIVEHSG--GQYHVLVIIADGQVTRSVDTEHGQLSSQ-EKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFD  175 (333)
Q Consensus       104 ~~~~~~~~~--~~y~vLlIiTDG~i~d~~~~~~~~~~~~-~~~t~~aI~~AS~~PlSii~VGvGd~~f~~m~~ld  175 (333)
                      +.+..++..  ....++++||||..++..+-.+.  .++ .++..+++..+.+..+.+..||+|+.+...|+++-
T Consensus        89 a~~~l~~~~~~~~~~~ivliTDG~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~gi~v~~ig~g~~~~~~L~~iA  161 (189)
T 2x31_A           89 AMVTAKQARSRGMTPTIALLTDGRGNIALDGTAN--RELAGEQATKVARAIRASGMPAVIIDTAMRPNPALVDLA  161 (189)
T ss_dssp             HHHHHHTCTTTCSSEEEEECCBSCCSSCCTHHHH--HGGGTCCCEEEEECTGGGGSCCTHHHHHHSSCSSSCSTT
T ss_pred             HHHHHHhccCCCCceEEEEECCCCCCCCCCcccc--ccchhHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHH
Confidence            999876542  23568999999987752110000  000 00111222233345678888999988767777665

>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=97.06  E-value=0.00017  Score=52.03  Aligned_cols=42  Identities=12%  Similarity=0.058  Sum_probs=36.1

Q ss_pred             CCeecccccCCcc-cee-CCCCccchhhhhcC----CCCCCccccccc
Q 019939          287 NHVCPICLTDPKD-MAF-GCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       287 ~~~C~ICl~~~~~-~~l-~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      ...|+||++.+.+ ++. +|||.|++.|+.++    ..||++++++..
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~   50 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   50 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCCh
Confidence            3689999999999 777 89999999999755    479999999865

>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=97.06  E-value=0.0028  Score=65.63  Aligned_cols=133  Identities=11%  Similarity=0.115  Sum_probs=83.5

Q ss_pred             CHHHHHHHHHHhhhhccC---CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCcee-----ecCCCC
Q 019939           25 NPYEQAISIIGKTLSSFD---EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLR-----LAGPTS   96 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD---~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~-----l~gpt~   96 (333)
                      +.++++.+.+..++..++   +.-.|-++.|+....   .++.|+..  .-...+.++++.    ..+.     ..|.|+
T Consensus       259 ~~~~~~k~~~~~~i~~l~~~~~~~rv~lv~f~~~~~---~~~~l~~~--~~~~~~~~~~~i----~~l~~~~~~~~ggT~  329 (741)
T 3hrz_D          259 SDFTGAKKCLVNLIEKVASYGVKPRYGLVTYATYPK---IWVKVSEA--DSSNADWVTKQL----NEINYEDHKLKSGTN  329 (741)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESSSEE---EEECTTSG--GGGCHHHHHHHH----TTCCGGGGSSSCCCC
T ss_pred             cchHHHHHHHHHHHHhhhccCCCceEEEEEeccCCc---eeEeeccc--CCcCHHHHHHHH----HhcccccccCCCChH
Confidence            446666666666665554   445799999987532   22333321  112444455443    3444     689999


Q ss_pred             hHHHHHHHHHHHHh--------cCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHH----------hcCCCeEE
Q 019939           97 FAPIIEMAITIVEH--------SGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVK----------ASEYPLSI  158 (333)
Q Consensus        97 fapvI~~~~~~~~~--------~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~----------AS~~PlSi  158 (333)
                      ....|+.|.+....        ....-.++++||||..+.-.         +....++.|.+          +.+..+.|
T Consensus       330 ~~~aL~~a~~~l~~~~~~~~~~~~~~~~~iillTDG~~n~g~---------~p~~~~~~i~~~~~~~~~a~~~~~~gi~i  400 (741)
T 3hrz_D          330 TKKALQAVYSMMSWPDDVPPEGWNRTRHVIILMTDGLHNMGG---------DPITVIDEIRDLLYIGKDRKNPREDYLDV  400 (741)
T ss_dssp             HHHHHHHHHHHHCCC--CCCTTGGGEEEEEEEEECSCCCSSS---------CTHHHHHHHHHHTTCSSCTTCCCGGGEEE
T ss_pred             HHHHHHHHHHHHhhhhhccccchhccCeEEEEECCCccccCC---------CchHHHHHHHHHhhcccccccccccCeeE
Confidence            99999999988721        11235789999999766311         23455555553          34567899


Q ss_pred             EEEeccc-CCCCcccccC
Q 019939          159 ILVGVGD-GPWDMMREFD  175 (333)
Q Consensus       159 i~VGvGd-~~f~~m~~ld  175 (333)
                      ..||||+ .+.+.|++|-
T Consensus       401 ~~igvG~~~~~~~L~~ia  418 (741)
T 3hrz_D          401 YVFGVGPLVNQVNINALA  418 (741)
T ss_dssp             EEEECSSSCCHHHHHHHS
T ss_pred             EEEeCCCcCCHHHHHHHh
Confidence            9999997 5666677765

>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=97.04  E-value=0.0033  Score=54.44  Aligned_cols=116  Identities=16%  Similarity=0.192  Sum_probs=77.1

Q ss_pred             HHHHHHHHHhhhhccC---CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceee-cC-CCChHHHH
Q 019939           27 YEQAISIIGKTLSSFD---EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRL-AG-PTSFAPII  101 (333)
Q Consensus        27 Y~~ai~~i~~vl~~yD---~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l-~g-pt~fapvI  101 (333)
                      ++++...+..++..++   ++-.+-++.|+....   .+++|+  +  ....+.++++-..    +.. .| .|+....|
T Consensus        22 ~~~~k~~~~~~~~~l~~~~~~~rvglv~f~~~~~---~~~~l~--~--~~~~~~~~~~i~~----l~~~~G~~T~~~~al   90 (200)
T 1v7p_C           22 WDAVKNFLEKFVQGLDIGPTKTQVGLIQYANNPR---VVFNLN--T--YKTKEEMIVATSQ----TSQYGGDLTNTFGAI   90 (200)
T ss_dssp             HHHHHHHHHHHHHTSCBSTTSEEEEEEEESSSEE---EEECTT--T--CSSHHHHHHHHHH----CCCCCCSCCCHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCCCCceEEEEEEECCCce---EEEeCC--C--cCCHHHHHHHHHh----hhccCCCCCcHHHHH
Confidence            7888888888888887   566899999987532   234443  1  2355566554443    333 35 69999999


Q ss_pred             HHHHHH-HHh-c---CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEeccc
Q 019939          102 EMAITI-VEH-S---GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGD  165 (333)
Q Consensus       102 ~~~~~~-~~~-~---~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd  165 (333)
                      +.+.+. ... .   .....++++||||..++..         +..+   ++..+.+..+.|..||||+
T Consensus        91 ~~a~~~~~~~~~g~r~~~~~~ivllTDG~~~~~~---------~~~~---~~~~~~~~gi~i~~igvg~  147 (200)
T 1v7p_C           91 QYARKYAYSAASGGRRSATKVMVVVTDGESHDGS---------MLKA---VIDQCNHDNILRFGIAVLG  147 (200)
T ss_dssp             HHHHHHTTSGGGTCCTTSEEEEEEEESSCCSCGG---------GHHH---HHHHHHHTTEEEEEEEECH
T ss_pred             HHHHHhhcccccCCCCCCCeEEEEEccCCCCCcc---------cHHH---HHHHHHHCCCEEEEEEecc
Confidence            999885 322 1   2346789999999987621         1233   3444445688999999963

>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=97.03  E-value=0.00083  Score=66.65  Aligned_cols=138  Identities=14%  Similarity=0.219  Sum_probs=87.6

Q ss_pred             CHHHHHHHHHHhhhhcc---CCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceee-cCCCChHHH
Q 019939           25 NPYEQAISIIGKTLSSF---DEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRL-AGPTSFAPI  100 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~y---D~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l-~gpt~fapv  100 (333)
                      ..+++|.+.+..++..+   ..+-.+-++.|+....   .++++.  .+.-...+.+.++-.+.-..... .|.|+....
T Consensus        25 ~~~~~~k~~~~~l~~~l~~~~~~~rv~lv~f~~~~~---~~~~l~--~~~~~~~~~~~~~l~~l~~~~~~~~ggT~~~~a   99 (509)
T 2odp_A           25 NDFLIFKESASLMVDRIFSFEINVSVAIITFASEPK---VLMSVL--NDNSRDMTEVISSLENANYKDHENGTGTNTYAA   99 (509)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCCCEEEEEEEESSSEE---EEECTT--SGGGGCHHHHHHHHHTCCGGGGTTCCSCCHHHH
T ss_pred             hhHHHHHHHHHHHHHHhhccCCCceEEEEEccCCCc---eeEecc--CCCCCCHHHHHHHHHhcccccCCCCCCccHHHH
Confidence            45677777777777776   6777899999987543   223332  11122455555443332211111 388999999


Q ss_pred             HHHHHHHHHhc----C-------CceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHh------cCCCeEEEEEec
Q 019939          101 IEMAITIVEHS----G-------GQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKA------SEYPLSIILVGV  163 (333)
Q Consensus       101 I~~~~~~~~~~----~-------~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~A------S~~PlSii~VGv  163 (333)
                      |+.+.+..+..    +       ..-.++++||||..++..         +..+..+.+.+.      .+..+-|..|||
T Consensus       100 L~~a~~~l~~~~~~~~~~~~~~~~~~~~iillTDG~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~i~i~~iGv  170 (509)
T 2odp_A          100 LNSVYLMMNNQMRLLGMETMAWQEIRHAIILLTDGKSNMGG---------SPKTAVDHIREILNINQKRNDYLDIYAIGV  170 (509)
T ss_dssp             HHHHHHHHHHHHHHHCTTSHHHHTEEEEEEEESCSCCCSSS---------CTHHHHHHHHHHTTCCSTTGGGEEEEEEEE
T ss_pred             HHHHHHHHhhcccccccccccccccceEEEEECCCCccCCC---------ChhHHHHHHHHHhhccccccCceEEEEEEc
Confidence            99998876431    1       134689999999877522         134555555542      266788999999


Q ss_pred             cc--CCCCcccccCC
Q 019939          164 GD--GPWDMMREFDD  176 (333)
Q Consensus       164 Gd--~~f~~m~~ld~  176 (333)
                      |+  .+.+.|+++-+
T Consensus       171 G~~~~~~~~L~~iA~  185 (509)
T 2odp_A          171 GKLDVDWRELNELGS  185 (509)
T ss_dssp             SSSCCCHHHHHHHSC
T ss_pred             CCCcccHHHHHhhcc
Confidence            98  57778887764

>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=96.93  E-value=0.00016  Score=62.44  Aligned_cols=128  Identities=16%  Similarity=0.262  Sum_probs=78.9

Q ss_pred             CHHHHHHHHHHhhhhccCC-CCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCcee-ecCCCChHHHHH
Q 019939           25 NPYEQAISIIGKTLSSFDE-DNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLR-LAGPTSFAPIIE  102 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD~-d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~-l~gpt~fapvI~  102 (333)
                      ..++++...+..++..++. +-.+-++.|+....   .+|+++... ....+.       +.+..+. ..|.|+....|+
T Consensus        21 ~~~~~~k~~~~~~~~~l~~~~~~v~vv~f~~~~~---~~~~l~~~~-~~~~~~-------~~i~~l~~~~g~T~~~~aL~   89 (194)
T 1mf7_A           21 HDFRRMKEFVSTVMEQLKKSKTLFSLMQYSEEFR---IHFTFKEFQ-NNPNPR-------SLVKPITQLLGRTHTATGIR   89 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHCCTTEEEEEEEESSSEE---EEECHHHHH-HSCCHH-------HHHTTCCCCCSCBCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcCCCCeEEEEEEecCCce---EEEecCCcC-CHHHHH-------HHHHhCcCCCCCchHHHHHH
Confidence            3577888888888888863 45799999987542   223332100 011222       2233444 479999999999


Q ss_pred             HHHHHH-Hh-c---CCceEEEEEEecCccc-cCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCC-----CCcc
Q 019939          103 MAITIV-EH-S---GGQYHVLVIIADGQVT-RSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGP-----WDMM  171 (333)
Q Consensus       103 ~~~~~~-~~-~---~~~y~vLlIiTDG~i~-d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~-----f~~m  171 (333)
                      .+.+.. .. .   .....++++||||..+ |..+         ..+.   +.++.+..+.|..||||+..     .+.|
T Consensus        90 ~a~~~l~~~~~~~r~~~~~~iillTDG~~~~d~~~---------~~~~---~~~~~~~gi~v~~igvG~~~~~~~~~~~L  157 (194)
T 1mf7_A           90 KVVRELFNITNGARKNAFKILVVITDGEKFGDPLG---------YEDV---IPEADREGVIRYVIGVGDAFRSEKSRQEL  157 (194)
T ss_dssp             HHHHTTTSGGGTCCTTSEEEEEEEESSCCBSCSSC---------GGGT---HHHHHHTTEEEEEEEESGGGCSHHHHHHH
T ss_pred             HHHHHhcCcccCCCCCCCeEEEEEcCCCCCCCchh---------hHHH---HHHHHHCCCEEEEEEecccccccccHHHH
Confidence            998643 21 1   1246789999999987 4211         1233   33344568999999999753     3555


Q ss_pred             cccC
Q 019939          172 REFD  175 (333)
Q Consensus       172 ~~ld  175 (333)
                      +++-
T Consensus       158 ~~iA  161 (194)
T 1mf7_A          158 NTIA  161 (194)
T ss_dssp             HHHS
T ss_pred             HHHh
Confidence            5554

>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=96.58  E-value=0.0073  Score=59.44  Aligned_cols=138  Identities=12%  Similarity=0.145  Sum_probs=85.7

Q ss_pred             CHHHHHHHHHHhhhhc---cCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCce-eecCCCChHHH
Q 019939           25 NPYEQAISIIGKTLSS---FDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHL-RLAGPTSFAPI  100 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~---yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v-~l~gpt~fapv  100 (333)
                      +.++.+...+..++..   +..+-.+-++.|+....   .++.+.  .+.-...+.+.++-.+.-... ...|.|+....
T Consensus        17 ~~~~~~k~~~~~~~~~l~~~~~~~~v~lv~f~~~~~---~~~~~~--~~~~~~~~~~~~~l~~l~~~~~~~~g~T~~~~a   91 (497)
T 1rrk_A           17 SNFTGAKKVLVNLIEKVASYGVKPRYGLVTYATYPK---IWVKVS--EADSSNADWVTKQLNEINYEDHKLKSGTNTKKA   91 (497)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESSSEE---EEECTT--SGGGGCHHHHHHHHHHCCGGGSCCTTCCCHHHH
T ss_pred             hhHHHHHHHHHHHHHHhhccCCCceEEEEEecCCce---Eeeccc--cccccCHHHHHHHHHhCcCccccccCccCHHHH
Confidence            4566666666666664   45567899999997532   122221  122235566665554433221 25689999999


Q ss_pred             HHHHHHHHHhc--------CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHh----------cCCCeEEEEEe
Q 019939          101 IEMAITIVEHS--------GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKA----------SEYPLSIILVG  162 (333)
Q Consensus       101 I~~~~~~~~~~--------~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~A----------S~~PlSii~VG  162 (333)
                      |+.+.+.....        .....++++||||..++..         +..++.+.+.+.          .+..+-|..||
T Consensus        92 l~~a~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~---------~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~ig  162 (497)
T 1rrk_A           92 LQAVYSMMSWPDDVPPEGWNRTRHVIILMTDGLHNMGG---------DPITVIDEIRDLLYIGKDRKNPREDYLDVYVFG  162 (497)
T ss_dssp             HHHHHHHHCCC------CGGGCEEEEEEEECSCCCSSS---------CTHHHHHHHHHHTTCSSCC-CCCGGGEEEEEEE
T ss_pred             HHHHHHHhhhhhccccccccccceEEEEEeCCCcccCC---------ChhHHHHHHHHHhhhhcccccchhcCeeEEEec
Confidence            99999887321        1235789999999877421         235555666554          12278899999


Q ss_pred             ccc-CCCCcccccCC
Q 019939          163 VGD-GPWDMMREFDD  176 (333)
Q Consensus       163 vGd-~~f~~m~~ld~  176 (333)
                      ||+ .+.+.|++|-+
T Consensus       163 vG~~~~~~~L~~iA~  177 (497)
T 1rrk_A          163 VGPLVNQVNINALAS  177 (497)
T ss_dssp             CSSSCCHHHHHHHSC
T ss_pred             CCCccCHHHHHHHhc
Confidence            997 46666776653

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=96.23  E-value=0.0079  Score=45.01  Aligned_cols=45  Identities=20%  Similarity=0.508  Sum_probs=35.4

Q ss_pred             CCCCeecccccCCcc-cee-CCCCccchhhhhcC------CCCCCcccccccc
Q 019939          285 SDNHVCPICLTDPKD-MAF-GCGHQTCCGCGQDL------DLCPICRSFIQTR  329 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~-~~l-~CgH~fC~~C~~~~------~~CP~CR~~i~~~  329 (333)
                      +....|.||.+.+.. ..- .|+|.|-..|+.+.      ..||+||......
T Consensus        13 ~~i~~C~IC~~~i~~g~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~   65 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE   65 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSC
T ss_pred             CCCCcCcchhhHcccCCccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCC
Confidence            455799999998876 222 89999999999632      5899999987643

>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=95.83  E-value=0.0072  Score=52.47  Aligned_cols=122  Identities=11%  Similarity=0.244  Sum_probs=80.5

Q ss_pred             CHHHHHHHHHHhhhhccC---CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecC-CCChHHH
Q 019939           25 NPYEQAISIIGKTLSSFD---EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAG-PTSFAPI  100 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD---~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~g-pt~fapv  100 (333)
                      +.++++.+.+-.++..|+   ++-.|-++.|+....   ..|+|+.    ....+.++++-.+. +.  .+| .|+....
T Consensus        37 ~~~~~~k~~~~~~~~~l~~~~~~~rv~vv~fs~~~~---~~~~l~~----~~~~~~~~~~i~~l-~~--~gg~~T~~~~a  106 (199)
T 3zqk_A           37 ADFNRSKEFMEEVIQRMDVGQDSIHVTVLQYSYMVT---VEYPFSE----AQSKGDILQRLREI-RY--QGGNRTNTGLA  106 (199)
T ss_dssp             HHHHHHHHHHHHHHHHSCBSTTSBEEEEEEESSSEE---EEECTTS----CCCHHHHHHHHHHC-CC--CCCSCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCceEEEEEEECCccc---EEEecCC----cCCHHHHHHHHHhC-cC--CCCCcChHHHH
Confidence            567888888888888885   566899999998543   2344431    23455565554432 21  245 4999999


Q ss_pred             HHHHHHHH-H-hc---CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecc-cCCCCccccc
Q 019939          101 IEMAITIV-E-HS---GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVG-DGPWDMMREF  174 (333)
Q Consensus       101 I~~~~~~~-~-~~---~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvG-d~~f~~m~~l  174 (333)
                      |+.+.+.. . ..   .....++++||||...|.+           +       ++ ...+.|.-|||| +.+.+.|+++
T Consensus       107 L~~a~~~l~~~~~g~r~~~~~~iillTDG~~~d~v-----------~-------~~-~~~v~v~~iGiG~~~~~~~L~~i  167 (199)
T 3zqk_A          107 LRYLSDHSFLVSQGDREQAPNLVYMVTGNPASDEI-----------K-------RL-PGDIQVVPIGVGPNANVQELERI  167 (199)
T ss_dssp             HHHCCCCCTCGGGTCCTTSCEEEEEEECSCCSSCC-----------C-------CC-CTTEEEEEEEESTTCCHHHHHHH
T ss_pred             HHHHHHHhhCcccCCCCCCCeEEEEEeCCCCchHH-----------H-------HH-hCCCEEEEEEcCCCCCHHHHHHH
Confidence            99887642 1 11   1235789999999877621           1       11 256889999999 6677777777


Q ss_pred             C
Q 019939          175 D  175 (333)
Q Consensus       175 d  175 (333)
                      -
T Consensus       168 A  168 (199)
T 3zqk_A          168 G  168 (199)
T ss_dssp             H
T ss_pred             h
Confidence            5

>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=95.62  E-value=0.083  Score=54.19  Aligned_cols=145  Identities=9%  Similarity=0.188  Sum_probs=91.1

Q ss_pred             CCccccCC--CCCHHHHHHHHHHhhhhc---cCCCCccceEEeCCCCCC----CCcccccCC-CCCCCCCHHHHHHHHHH
Q 019939           15 RSLHHIGD--DQNPYEQAISIIGKTLSS---FDEDNLIPCFGFGDASTH----DQEVFSFYP-DEKFCNGFEEVLRRYRE   84 (333)
Q Consensus        15 ~sLH~~~~--~~N~Y~~ai~~i~~vl~~---yD~d~~ip~~GFG~~~~~----~~~vf~~~~-~~~~~~G~~gvl~~Y~~   84 (333)
                      .|++..+.  ..+..+.|++.+..+++.   ......|-++.||+..+.    ..+++-+.+ +.+   +.+ .++..+.
T Consensus        46 ~SM~~~d~~~~~srl~~a~~~v~~~i~~kii~~~~D~vGlVlfgt~~t~n~l~~d~i~v~~~L~~~---~~~-~ik~l~~  121 (609)
T 1jey_A           46 KAMFESQSEDELTPFDMSIQCIQSVYISKIISSDRDLLAVVFYGTEKDKNSVNFKNIYVLQELDNP---GAK-RILELDQ  121 (609)
T ss_dssp             GGGGCCCSSSSCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCCTTEEEEEEEECC---CHH-HHHHHHT
T ss_pred             HHHcCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCCeEEEEEEccCCCCCcCCCCCeEEEecCCCC---CHH-HHHHHHH
Confidence            45655442  578999999999999885   345568999999987642    122322221 111   222 1222222


Q ss_pred             hCC---------ceeecCCCChHHHHHHHHHHHHhcCCc--eEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcC
Q 019939           85 LVP---------HLRLAGPTSFAPIIEMAITIVEHSGGQ--YHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASE  153 (333)
Q Consensus        85 ~~~---------~v~l~gpt~fapvI~~~~~~~~~~~~~--y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~  153 (333)
                      .+.         .+.....|.+..+|.-++++.+....+  =-++++||||.-.-      +.-+..+.....+...+.+
T Consensus       122 l~~~~~~~~~~~~~g~~~~t~l~daL~~a~~~f~~~~~k~~~k~IiL~TDg~~p~------~~~~~~~~~~~~~a~~l~~  195 (609)
T 1jey_A          122 FKGQQGQKRFQDMMGHGSDYSLSEVLWVCANLFSDVQFKMSHKRIMLFTNEDNPH------GNDSAKASRARTKAGDLRD  195 (609)
T ss_dssp             TSHHHHHHHHHHHHCCSCCCCHHHHHHHHHHHHHTCSSCEEEEEEEEEESCSCTT------TTCHHHHHHHHHHHHHHHH
T ss_pred             HhhcccchhhhhhcCCCCCCCHHHHHHHHHHHHHhhchhhcCCEEEEEcCCCCCC------CCchHHHHHHHHHHHHHHh
Confidence            211         011146899999999999988765333  24789999997531      1112223466777788889


Q ss_pred             CCeEEEEEecccCC-CC
Q 019939          154 YPLSIILVGVGDGP-WD  169 (333)
Q Consensus       154 ~PlSii~VGvGd~~-f~  169 (333)
                      +-|.|.+||||..+ |+
T Consensus       196 ~gI~i~~igig~~~~fd  212 (609)
T 1jey_A          196 TGIFLDLMHLKKPGGFD  212 (609)
T ss_dssp             HTEEEEEEEBCCTTCCC
T ss_pred             cCcEEEEEecCCCCccc
Confidence            99999999999653 55

>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=95.53  E-value=0.065  Score=45.47  Aligned_cols=123  Identities=17%  Similarity=0.250  Sum_probs=74.3

Q ss_pred             CHHHHHHHHHHhhhhccCCCC-ccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHH
Q 019939           25 NPYEQAISIIGKTLSSFDEDN-LIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEM  103 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD~d~-~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~  103 (333)
                      ..++++...+..++..++.++ .+-+..|+.....   +|+|+... .-..+..++    ..++.  +.|.|+....|+.
T Consensus        18 ~~~~~~k~~~~~~~~~l~~~~~rv~vv~fs~~~~~---~~~l~~~~-~~~~~~~~~----~~i~~--~~g~T~~~~aL~~   87 (179)
T 1mjn_A           18 DEFQKILDFMKDVMKKCSNTSYQFAAVQFSTSYKT---EFDFSDYV-KRKDPDALL----KHVKH--MLLLTNTFGAINY   87 (179)
T ss_dssp             HHHHHHHHHHHHHHHHTTTSSEEEEEEEESSSEEE---EECHHHHH-HHCCHHHHH----TTCCC--CCBCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCCCCeEEEEEEECCceeE---EEcCcccC-CHHHHHHHH----Hhccc--CCCCChHHHHHHH
Confidence            357788888888888886654 7999999875431   23332100 001222222    23333  3589999999999


Q ss_pred             HHHHH-Hh-c---CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCC-----Ccccc
Q 019939          104 AITIV-EH-S---GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPW-----DMMRE  173 (333)
Q Consensus       104 ~~~~~-~~-~---~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f-----~~m~~  173 (333)
                      +.+.. .. .   .....++++||||..+|..+     +           .+  ..-+-|.-||||+..-     +.|+.
T Consensus        88 a~~~~~~~~~g~r~~~~~~iillTDG~~~~~~~-----~-----------~~--~~~i~i~~igvG~~~~~~~~~~~L~~  149 (179)
T 1mjn_A           88 VATEVFREELGARPDATKVLIIITDGEATDSGN-----I-----------DA--AKDIIRYIIGIGKHFQTKESQETLHK  149 (179)
T ss_dssp             HHHHTSSGGGTCCTTSEEEEEEEESSCCSSCSC-----C-----------GG--GTTSEEEEEEESGGGCSHHHHHTTGG
T ss_pred             HHHHhcccccCCCCCCCeEEEEEcCCCCCCCcc-----h-----------HH--HCCCEEEEEEccccccccccHHHHHH
Confidence            98642 21 1   23467899999999876221     0           01  2357788899997532     45555


Q ss_pred             cC
Q 019939          174 FD  175 (333)
Q Consensus       174 ld  175 (333)
                      +-
T Consensus       150 iA  151 (179)
T 1mjn_A          150 FA  151 (179)
T ss_dssp             GS
T ss_pred             Hh
Confidence            54

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster}

Probab=95.31  E-value=0.0045  Score=59.35  Aligned_cols=45  Identities=22%  Similarity=0.528  Sum_probs=34.4

Q ss_pred             CCCCeecccccCCcc-ce--------eCCCCccchhhhhcC---------------CCCCCcccccccc
Q 019939          285 SDNHVCPICLTDPKD-MA--------FGCGHQTCCGCGQDL---------------DLCPICRSFIQTR  329 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~-~~--------l~CgH~fC~~C~~~~---------------~~CP~CR~~i~~~  329 (333)
                      +...+|.||++...+ ..        ..|||.|-..|+.++               ..||.||++|...
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~s  374 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLSTS  374 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEGG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCcc
Confidence            456799999998765 22        269999999999532               2699999998753

>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=94.83  E-value=0.16  Score=51.56  Aligned_cols=135  Identities=15%  Similarity=0.199  Sum_probs=86.1

Q ss_pred             CCccccCC-CCCHHHHHHHHHHhhhh---ccCCCCccceEEeCCCCCCC--------CcccccCCCCCCCCCHHHHHHHH
Q 019939           15 RSLHHIGD-DQNPYEQAISIIGKTLS---SFDEDNLIPCFGFGDASTHD--------QEVFSFYPDEKFCNGFEEVLRRY   82 (333)
Q Consensus        15 ~sLH~~~~-~~N~Y~~ai~~i~~vl~---~yD~d~~ip~~GFG~~~~~~--------~~vf~~~~~~~~~~G~~gvl~~Y   82 (333)
                      .|++.-+. ..|..+.|.+.+..+++   .......+-++.||+..+..        .+++.+.+-.  ... ..+++..
T Consensus        18 ~SM~~~d~~~~srl~~ak~~i~~~i~~ki~~~~~D~vGlv~f~~~~~~~plt~d~~y~~i~vl~~l~--~~~-~~~l~~l   94 (565)
T 1jey_B           18 FTMSNSIPGIESPFEQAKKVITMFVQRQVFAENKDEIALVLFGTDGTDNPLSGGDQYQNITVHRHLM--LPD-FDLLEDI   94 (565)
T ss_dssp             GGGGCCBTTBCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCTTTCSTTEEEEEEEE--CCC-HHHHHHH
T ss_pred             hHhcccCCCCCCcHHHHHHHHHHHHHHHhcCCCCCEEEEEEEccCCCCCccccccCCCceEEeecCC--CCC-HHHHHHH
Confidence            34544333 56899999999999998   46677799999999865311        0111111000  011 1334433


Q ss_pred             HHhCCceeec-CCCChHHHHHHHHHHHHhc--CCce--EEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeE
Q 019939           83 RELVPHLRLA-GPTSFAPIIEMAITIVEHS--GGQY--HVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLS  157 (333)
Q Consensus        83 ~~~~~~v~l~-gpt~fapvI~~~~~~~~~~--~~~y--~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlS  157 (333)
                      ..   .+..+ +.|.+...|..+++..++.  ..++  -.+++||||+-.-.           .....+++..+.+.-+.
T Consensus        95 ~~---~l~~~~~~t~i~~al~~A~~~l~~~~~~~k~~~krIiLlTDg~~~~~-----------~~~~~~~a~~l~~~gI~  160 (565)
T 1jey_B           95 ES---KIQPGSQQADFLDALIVSMDVIQHETIGKKFEKRHIEIFTDLSSRFS-----------KSQLDIIIHSLKKCDIS  160 (565)
T ss_dssp             HT---TCCCCSSCCCHHHHHHHHHHHHHHHSSSSCCSEEEEEEECCCCSCCC-----------CTTHHHHHHHHHHTTEE
T ss_pred             Hh---hccCCCccccHHHHHHHHHHHHHHHhhcccccccEEEEEeCCCCCCC-----------HHHHHHHHHHHHhcCcE
Confidence            33   23333 7899999999999988665  3334  48999999975420           12445566777788899


Q ss_pred             EE-EEecccC
Q 019939          158 II-LVGVGDG  166 (333)
Q Consensus       158 ii-~VGvGd~  166 (333)
                      |. +||+|..
T Consensus       161 i~~vig~g~~  170 (565)
T 1jey_B          161 LQFFLPFSLG  170 (565)
T ss_dssp             EEEEESSCCC
T ss_pred             EEEEeccCCC
Confidence            99 8999853

>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=94.72  E-value=0.021  Score=62.59  Aligned_cols=128  Identities=16%  Similarity=0.293  Sum_probs=82.1

Q ss_pred             CCHHHHHHHHHHhhhhccCCC-CccceEEeCCCCCCCCcccccCC-CCCCCCCHHHHHHHHHHhCCce-eecCCCChHHH
Q 019939           24 QNPYEQAISIIGKTLSSFDED-NLIPCFGFGDASTHDQEVFSFYP-DEKFCNGFEEVLRRYRELVPHL-RLAGPTSFAPI  100 (333)
Q Consensus        24 ~N~Y~~ai~~i~~vl~~yD~d-~~ip~~GFG~~~~~~~~vf~~~~-~~~~~~G~~gvl~~Y~~~~~~v-~l~gpt~fapv  100 (333)
                      .+.++++.+.+..++..|+.+ -.|-+..|+....   .+|+|+. .+.  ..+.       +.+..+ .+.|.|+.+..
T Consensus       145 ~~~f~~~k~fv~~lv~~~~~~~~rVglV~Fs~~~~---~~~~lt~~~~~--~~l~-------~ai~~i~~~gG~T~~g~A  212 (1095)
T 3k6s_A          145 SRNFATMMNFVRAVISQFQRPSTQFSLMQFSNKFQ---THFTFEEFRRS--SNPL-------SLLASVHQLQGFTYTATA  212 (1095)
T ss_dssp             SHHHHHHHHHHHHHHHSSCSSSEEEEEEEESSSEE---EEECSHHHHSC--SCGG-------GGTTTCCCCCSCBCHHHH
T ss_pred             hhHHHHHHHHHHHHHHhccccccEEEEEEECCeEE---EEecCcccCCH--HHHH-------HHHhhhhcccCCChHHHH
Confidence            467899999999999999976 4799999987543   2233321 000  1111       122233 35789999999


Q ss_pred             HHHHHHHHH--hc---CCceEEEEEEecCccc-cCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC-----CCC
Q 019939          101 IEMAITIVE--HS---GGQYHVLVIIADGQVT-RSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG-----PWD  169 (333)
Q Consensus       101 I~~~~~~~~--~~---~~~y~vLlIiTDG~i~-d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~-----~f~  169 (333)
                      |+.|.+..-  ..   .....++++||||..+ |..         +..+.++.+   .+.-+-|..||||+.     +.+
T Consensus       213 L~~a~~~lf~~~~g~R~~~~kviIllTDG~~~~d~~---------~~~~~a~~~---r~~GI~i~aIGVG~~~~~~~d~~  280 (1095)
T 3k6s_A          213 IQNVVHRLFHASYGARRDAAKILIVITDGKKEGDSL---------DYKDVIPMA---DAAGIIRYAIGVGLAFQNRNSWK  280 (1095)
T ss_dssp             HHHHHTTTTSTTTTCCSSSEEEEEEEESSCCBSCSS---------CHHHHHHHH---HHHCEEECCEEBSSGGGSTTSSH
T ss_pred             HHHHHHhhccccccCCCCCCeEEEEEeCCCcCCCch---------hHHHHHHHH---HHCCCEEEEEecccccccccCHH
Confidence            999977542  11   1235799999999984 311         133444444   444788888999986     666


Q ss_pred             cccccC
Q 019939          170 MMREFD  175 (333)
Q Consensus       170 ~m~~ld  175 (333)
                      .|+++-
T Consensus       281 eL~~IA  286 (1095)
T 3k6s_A          281 ELNDIA  286 (1095)
T ss_dssp             HHHTTS
T ss_pred             HHHHHH
Confidence            666665

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=94.37  E-value=0.02  Score=40.83  Aligned_cols=44  Identities=27%  Similarity=0.499  Sum_probs=31.7

Q ss_pred             CCCCeecccccCCcc-ceeCCC--C---ccchhhhhcC------CCCCCccccccc
Q 019939          285 SDNHVCPICLTDPKD-MAFGCG--H---QTCCGCGQDL------DLCPICRSFIQT  328 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~-~~l~Cg--H---~fC~~C~~~~------~~CP~CR~~i~~  328 (333)
                      ++...|.||++...+ .+.||.  |   .|-..|+.+.      ..||+||..+.-
T Consensus         4 ~~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            456799999987555 445865  4   5666898643      589999988753

>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=93.35  E-value=0.39  Score=48.27  Aligned_cols=99  Identities=11%  Similarity=0.164  Sum_probs=63.9

Q ss_pred             CccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHHHHHHHHhcCCceEEEEEEecC
Q 019939           45 NLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMAITIVEHSGGQYHVLVIIADG  124 (333)
Q Consensus        45 ~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~~~~~~~~~~~~y~vLlIiTDG  124 (333)
                      ..+-++.|++...    ..++.++    .++..+++.-.    .+ .+|.|+++..|..+.+.    ....-++++||||
T Consensus       408 d~vglv~Fs~~~~----~~~~t~~----~~l~~~l~~l~----~~-~~GgT~i~~aL~~a~~~----~~~~~~iIliTDg  470 (538)
T 1yvr_A          408 KDSHMVAFSDEML----PCPITVN----MLLHEVVEKMS----DI-TMGSTDCALPMLWAQKT----NTAADIFIVFTDC  470 (538)
T ss_dssp             SSEEEEEESSSEE----CCSCCTT----SCHHHHHHHHT----TC-CCSCCCTTHHHHHHHHT----TCCCSEEEEEECC
T ss_pred             CceEEEEECCCce----EcCCCCc----ccHHHHHHHHh----cC-CCCCCcHHHHHHHHHhc----cCCCCEEEEEcCC
Confidence            3689999986321    1222222    24666665433    22 57899999998888665    2335689999999


Q ss_pred             ccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCC
Q 019939          125 QVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPW  168 (333)
Q Consensus       125 ~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f  168 (333)
                      ..++.      ..  +..+.++.+.+..+.++.+++||+|....
T Consensus       471 ~~~~g------~~--~~~~~l~~~~~~~~~~v~l~~igig~~~~  506 (538)
T 1yvr_A          471 ETNVE------DV--HPATALKQYREKMGIPAKLIVCAMTSNGF  506 (538)
T ss_dssp             CCCSS------SC--CHHHHHHHHHHHHTCCCEEEEEECSSSSE
T ss_pred             CCCCC------CC--CHHHHHHHHHHHhCCCcEEEEEEecCCCC
Confidence            87641      11  13456666676667789999999998654

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=91.72  E-value=0.06  Score=41.68  Aligned_cols=30  Identities=23%  Similarity=0.637  Sum_probs=24.2

Q ss_pred             CCCeecccccC-Ccc-ce--eCCCCccchhhhhc
Q 019939          286 DNHVCPICLTD-PKD-MA--FGCGHQTCCGCGQD  315 (333)
Q Consensus       286 ~~~~C~ICl~~-~~~-~~--l~CgH~fC~~C~~~  315 (333)
                      ++..|.||.+. +.+ +.  +.|+|.||..|+..
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~   35 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKA   35 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHH
Confidence            46889999975 455 55  59999999999975

>2nvo_A RO sixty-related protein, RSR; alpha helical repeats, VON willebrand factor A domain, beta- RNA binding protein; 1.89A {Deinococcus radiodurans}

Probab=87.86  E-value=2.6  Score=42.28  Aligned_cols=116  Identities=15%  Similarity=0.158  Sum_probs=70.0

Q ss_pred             CCHHHHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHH
Q 019939           24 QNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEM  103 (333)
Q Consensus        24 ~N~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~  103 (333)
                      .+..+.| ..++-++..-++  .+-++.|++....    ..+.++    .++.++++.   +...  .+|.|+++..|+.
T Consensus       386 ~~~~e~A-a~la~~~~r~~d--~v~lv~Fs~~~~~----~~~~~~----~~l~~~l~~---l~~~--~~ggTdi~~~l~~  449 (535)
T 2nvo_A          386 LTPNMAA-AAMSLIALRTEP--DALTMGFAEQFRP----LGITPR----DTLESAMQK---AQSV--SFGGTDCAQPILW  449 (535)
T ss_dssp             CCHHHHH-HHHHHHHHHHSS--EEEEEEEBSSEEE----CCCCTT----CCHHHHHHH---TCCS--SBCCCCTTHHHHH
T ss_pred             ccHHHHH-HHHHHHHcCcCC--ceEEEEECCcceE----cCCCcc----hhHHHHHHH---HhhC--CCCCccHHHHHHH
Confidence            4544433 455544443333  5888999874211    112211    456555543   2221  3689999998876


Q ss_pred             HHHHHHhcCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCC
Q 019939          104 AITIVEHSGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGP  167 (333)
Q Consensus       104 ~~~~~~~~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~  167 (333)
                      +.+.    ...+-++++||||+....      ..+  ..+.++...+..+.++-+++||||...
T Consensus       450 a~~~----~~~~~~vIliTD~~~~~g------~~~--~~~al~~~r~~~~~~~klv~i~l~~~~  501 (535)
T 2nvo_A          450 AAQE----RLDVDTFVVYTDNETWAG------QVH--PTVALDQYAQKMGRAPKLIVVGLTATE  501 (535)
T ss_dssp             HHHT----TCCCSEEEEEESSCCCCC------SSC--HHHHHHHHHHHHSCCCEEEEEETTCSC
T ss_pred             HHHh----cCCCCEEEEEeCCCccCC------CCC--HHHHHHHHHHhhCCCCeEEEEeccCCC
Confidence            6433    344678999999987641      112  345666677666789999999999864

---

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	333
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	4e-08
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	1e-05
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	3e-05
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	5e-04
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	5e-04
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	6e-04
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	6e-04
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	0.003
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	0.004

>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 = 47.7 bits (113), Expect = 4e-08
 Identities = 16/55 (29%), Positives = 22/55 (40%), Gaps = 6/55 (10%)

Query: 285 SDNHVCPICLTDPKDMAF-GCGHQTCCGC-----GQDLDLCPICRSFIQTRIKLY 333
           S   +C IC  + KD+    CGH  C  C       +   CP CR  I+    + 
Sbjct: 21  STFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIV 75

>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 = 39.9 bits (93), Expect = 1e-05
 Identities = 12/38 (31%), Positives = 17/38 (44%), Gaps = 2/38 (5%)

Query: 289 VCPICLTDPKDMAF-GCGHQTCCGCGQDLDL-CPICRS 324
            C  C  + K      C H  C GC +   + CPIC++
Sbjct: 8   RCQQCQAEAKCPKLLPCLHTLCSGCLEASGMQCPICQA 45

>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 = 39.2 bits (91), Expect = 3e-05
 Identities = 14/48 (29%), Positives = 22/48 (45%), Gaps = 6/48 (12%)

Query: 290 CPICLTDPKDMAF--GCGHQTCCGCGQDL----DLCPICRSFIQTRIK 331
           CPICL DP + +    C H  C  C          CP+C+  +++ + 
Sbjct: 8   CPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVH 55

>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 = 35.6 bits (81), Expect = 5e-04
 Identities = 13/56 (23%), Positives = 15/56 (26%), Gaps = 12/56 (21%)

Query: 286 DNHVCPICLTDPKDMAF------GCGHQTCCGC------GQDLDLCPICRSFIQTR 329
           D  VC IC  +  +  F      G        C            C IC     TR
Sbjct: 5   DVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNTR 60

>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 = 36.0 bits (83), Expect = 5e-04
 Identities = 12/40 (30%), Positives = 12/40 (30%), Gaps = 6/40 (15%)

Query: 290 CPICLTDPKDMA-FGCGHQTCCGCGQDL-----DLCPICR 323
           C IC     D     C H  C  C           CP CR
Sbjct: 26  CQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCR 65

>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 = 36.6 bits (84), Expect = 6e-04
 Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 8/48 (16%)

Query: 290 CPICLTDPKD-MAFGCGHQTCCGCGQDL-------DLCPICRSFIQTR 329
           CPICL   K+ ++  C H  C  C   L         CP+C++ I  R
Sbjct: 24  CPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR 71

>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 = 35.5 bits (81), Expect = 6e-04
 Identities = 15/55 (27%), Positives = 19/55 (34%), Gaps = 11/55 (20%)

Query: 286 DNHVCPICLTDPKD------MAFGCGHQTCCGCGQDL-----DLCPICRSFIQTR 329
           D+  CP C T          M   CGH  C  C   L       CP C + ++  
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKS 56

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

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]

 Score = 33.6 bits (76), Expect = 0.003
 Identities = 6/42 (14%), Positives = 9/42 (21%), Gaps = 6/42 (14%)

Query: 289 VCPICLTDPKDMAFG--CGHQTCCGC----GQDLDLCPICRS 324
           +C I    P+                     +D    PI   
Sbjct: 2   LCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNE 43

>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 = 32.8 bits (74), Expect = 0.004
 Identities = 13/45 (28%), Positives = 18/45 (40%), Gaps = 10/45 (22%)

Query: 290 CPICLTDPKDMAFG-----CGHQTCCGCGQDL-----DLCPICRS 324
           CP+C+   +          CG+Q C  C   +      LCP CR 
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRK 47

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	333
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.89
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	98.83
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	98.71
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	98.7
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.63
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.58
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.57
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.56
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.54
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	98.52
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.5
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	98.38
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.13
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.11
d1shux_	181	Capillary morphogenesis protein 2 domain {Human (H	97.89
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	97.81
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	97.71
d1jeya2	220	Ku70 subunit N-terminal domain {Human (Homo sapien	97.41
d1atza_	184	von Willebrand factor A3 domain, vWA3 {Human (Homo	97.11
d1v7pc_	193	Integrin alpha2-beta1 {Human (Homo sapiens) [TaxId	97.01
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	96.88
d1pt6a_	192	Integrin alpha1-beta1 {Human (Homo sapiens) [TaxId	96.54
d1q0pa_	209	Complement factor B domain {Human (Homo sapiens) [	96.41
d1mf7a_	194	Integrin alpha M (CR3, CD11b/CD18, Mac-1 alpha sub	96.24
d1ijba_	202	von Willebrand factor A1 domain, vWA1 {Human (Homo	96.06
d1jeyb2	236	Ku80 subunit N-terminal domain {Human (Homo sapien	95.94
d1n3ya_	189	Integrin alpha-x beta2 {Human (Homo sapiens) [TaxI	95.92
d1yvra2	174	60-kda SS-A/Ro ribonucleoprotein, RoRNP {African c	94.85
d1mjna_	179	Integrin CD11a/CD18 (Leukocyte function associated	94.23
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	83.79

>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=98.89  E-value=3.1e-10  Score=79.68  Aligned_cols=43  Identities=28%  Similarity=0.593  Sum_probs=37.3

Q ss_pred             CCCeecccccCCcc-ceeCCCCccchhhhhcC-CCCCCccccccc
Q 019939          286 DNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL-DLCPICRSFIQT  328 (333)
Q Consensus       286 ~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~-~~CP~CR~~i~~  328 (333)
                      +..+|+||++.+.+ ++++|||.||..|+.+. ..||+||+++..
T Consensus         5 ~~l~C~IC~~~~~~p~~lpCgH~fC~~Ci~~~~~~CP~Cr~~~~~   49 (56)
T d1bora_           5 QFLRCQQCQAEAKCPKLLPCLHTLCSGCLEASGMQCPICQAPWPL   49 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSSSSSCSSCCSSSSC
T ss_pred             CCCCCcccCcccCCCEEecCCCHHhHHHHHcCCCcCcCCCCcccC
Confidence            34699999999999 66699999999999876 489999998864

>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=98.83  E-value=6.3e-10  Score=83.36  Aligned_cols=45  Identities=33%  Similarity=0.690  Sum_probs=37.1

Q ss_pred             CCeecccccCCcc-ceeCCCCccchhhhhc-----CCCCCCcccccccccc
Q 019939          287 NHVCPICLTDPKD-MAFGCGHQTCCGCGQD-----LDLCPICRSFIQTRIK  331 (333)
Q Consensus       287 ~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~-----~~~CP~CR~~i~~~i~  331 (333)
                      ...|+||++.+.+ ++++|||.||..|+.+     ...||+||..+...-.
T Consensus        23 ~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~   73 (79)
T d1fbva4          23 FQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEP   73 (79)
T ss_dssp             TTBCTTTSSSBCCEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCCC
T ss_pred             CCCCccCCCcCCCeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCce
Confidence            3579999999999 5559999999999953     3579999999987543

>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=98.71  E-value=2.3e-09  Score=77.78  Aligned_cols=44  Identities=32%  Similarity=0.838  Sum_probs=36.4

Q ss_pred             CCeecccccCCcc-ce-eCCCCccchhhhhcC----CCCCCccccccccc
Q 019939          287 NHVCPICLTDPKD-MA-FGCGHQTCCGCGQDL----DLCPICRSFIQTRI  330 (333)
Q Consensus       287 ~~~C~ICl~~~~~-~~-l~CgH~fC~~C~~~~----~~CP~CR~~i~~~i  330 (333)
                      ...|+||++.+.+ ++ ++|||.||..|+.++    ..||+||.++....
T Consensus         5 ~d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~~~   54 (68)
T d1chca_           5 AERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVV   54 (68)
T ss_dssp             CCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCCEE
T ss_pred             CCCCccCCcCccCCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchHhhc
Confidence            4579999999877 44 499999999999744    58999999987643

>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=98.70  E-value=1.8e-09  Score=82.28  Aligned_cols=43  Identities=28%  Similarity=0.509  Sum_probs=36.7

Q ss_pred             CCCeecccccCCcc-ceeCCCCccchhhhhcC-----CCCCCccccccc
Q 019939          286 DNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL-----DLCPICRSFIQT  328 (333)
Q Consensus       286 ~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~-----~~CP~CR~~i~~  328 (333)
                      ++..|+||++.+.+ ++++|||.||..|+.+.     ..||.||.++..
T Consensus        22 ~~l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~   70 (86)
T d1rmda2          22 KSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (86)
T ss_dssp             HHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             cCcCCccCCcchhcceecCCCChhhHHHHHHHHhhCCCcCcccCCCCCh
Confidence            45789999999999 66699999999999643     479999998864

>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=98.63  E-value=5.9e-09  Score=77.83  Aligned_cols=45  Identities=13%  Similarity=0.045  Sum_probs=38.7

Q ss_pred             CCCCCeecccccCCcc-ceeCCCCccchhhhhcC-----CCCCCccccccc
Q 019939          284 TSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL-----DLCPICRSFIQT  328 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~-----~~CP~CR~~i~~  328 (333)
                      ..++..|+||++.+++ ++++|||.||..|+.+.     ..||.||.++..
T Consensus         4 iP~~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~   54 (80)
T d2c2la2           4 IPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ   54 (80)
T ss_dssp             CCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CCccccCcCcCchhhhhcccCCcCeecHHHHHHHHhcCCccCCCccccccc
Confidence            4578999999999999 77799999999998643     479999998864

>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=98.58  E-value=8.3e-09  Score=76.60  Aligned_cols=46  Identities=22%  Similarity=0.312  Sum_probs=39.2

Q ss_pred             CCCCCCeecccccCCcc-ceeCCCCccchhhhhcC-----CCCCCccccccc
Q 019939          283 STSDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL-----DLCPICRSFIQT  328 (333)
Q Consensus       283 ~~~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~-----~~CP~CR~~i~~  328 (333)
                      +..++..|+||++.+.+ ++++|||.||+.|+.+.     ..||.|+.++..
T Consensus         4 eiP~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~   55 (78)
T d1t1ha_           4 EFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             CCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             CCCccCCCcCcCchhhCceEccCCCcchHHHHHHHHHHCCCCCCcccccCCc
Confidence            45588999999999999 77799999999999642     469999998864

>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=98.57  E-value=6.7e-09  Score=81.16  Aligned_cols=43  Identities=35%  Similarity=0.733  Sum_probs=36.1

Q ss_pred             CCCCeecccccCCcc-ceeCCCCccchhhhhcC-------CCCCCcccccc
Q 019939          285 SDNHVCPICLTDPKD-MAFGCGHQTCCGCGQDL-------DLCPICRSFIQ  327 (333)
Q Consensus       285 ~~~~~C~ICl~~~~~-~~l~CgH~fC~~C~~~~-------~~CP~CR~~i~  327 (333)
                      ++...|+||++.+.+ ++++|||.||..|+.++       ..||.||.++.
T Consensus        19 ~~~l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   69 (103)
T d1jm7a_          19 QKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT   69 (103)
T ss_dssp             HHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCC
T ss_pred             ccCcCCCccCchhCCeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCC
Confidence            345789999999999 66799999999998532       37999999885

>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=98.56  E-value=8.4e-09  Score=79.73  Aligned_cols=46  Identities=24%  Similarity=0.579  Sum_probs=38.4

Q ss_pred             CCCCCCeecccccCCcc-cee-CCCCccchhhhhcC--CCCCCccccccc
Q 019939          283 STSDNHVCPICLTDPKD-MAF-GCGHQTCCGCGQDL--DLCPICRSFIQT  328 (333)
Q Consensus       283 ~~~~~~~C~ICl~~~~~-~~l-~CgH~fC~~C~~~~--~~CP~CR~~i~~  328 (333)
                      .+++...|+||++.+.+ +++ +|||.||..|+.++  ..||.||.++..
T Consensus        18 ~l~~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~~~   67 (97)
T d1jm7b_          18 RLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWI   67 (97)
T ss_dssp             HHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTTBCSSSCCBCSC
T ss_pred             hhhhcCCCccCCchhhcCceeCCCCCchhHHHHHHHHhccccccCCcCch
Confidence            34567899999999999 665 89999999999866  369999988753

>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=98.54  E-value=2.4e-08  Score=69.51  Aligned_cols=43  Identities=30%  Similarity=0.753  Sum_probs=34.9

Q ss_pred             CCCCCeecccccCCcc---c-ee-CCCCccchhhhhcC----CCCCCccccc
Q 019939          284 TSDNHVCPICLTDPKD---M-AF-GCGHQTCCGCGQDL----DLCPICRSFI  326 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~---~-~l-~CgH~fC~~C~~~~----~~CP~CR~~i  326 (333)
                      .+++.+|+||++.+.+   + .+ .|||.||..|+.++    ..||+||.++
T Consensus         2 ~ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i   53 (55)
T d1iyma_           2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEe
Confidence            4567789999999864   3 34 69999999999765    4899999876

>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=98.52  E-value=7.9e-09  Score=74.30  Aligned_cols=43  Identities=33%  Similarity=0.739  Sum_probs=33.2

Q ss_pred             CCCeecccccCC---cc--ce-eCCCCccchhhhhcC-----CCCCCccccccc
Q 019939          286 DNHVCPICLTDP---KD--MA-FGCGHQTCCGCGQDL-----DLCPICRSFIQT  328 (333)
Q Consensus       286 ~~~~C~ICl~~~---~~--~~-l~CgH~fC~~C~~~~-----~~CP~CR~~i~~  328 (333)
                      ++..|+||++..   .+  ++ .+|||.||..|+.++     ..||+||+++..
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~   55 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccc
Confidence            567999999853   22  23 399999999999643     479999999864

>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=98.50  E-value=1.3e-08  Score=69.93  Aligned_cols=41  Identities=32%  Similarity=0.711  Sum_probs=32.3

Q ss_pred             CeecccccCCcc---c-e-eCCCCccchhhhhcC-----CCCCCccccccc
Q 019939          288 HVCPICLTDPKD---M-A-FGCGHQTCCGCGQDL-----DLCPICRSFIQT  328 (333)
Q Consensus       288 ~~C~ICl~~~~~---~-~-l~CgH~fC~~C~~~~-----~~CP~CR~~i~~  328 (333)
                      .+|+||++.+..   + . ++|||.||..|+.++     ..||+||+++..
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            479999998743   2 2 289999999999753     269999998864

>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=98.38  E-value=3.7e-08  Score=68.63  Aligned_cols=41  Identities=12%  Similarity=0.049  Sum_probs=35.3

Q ss_pred             CeecccccCCcc-cee-CCCCccchhhhhcC----CCCCCccccccc
Q 019939          288 HVCPICLTDPKD-MAF-GCGHQTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       288 ~~C~ICl~~~~~-~~l-~CgH~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      +.|+||++.+.+ +.+ .|||.||.+|+.+.    ..||+||+++..
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~   47 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   47 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhccCCCccCCcCCH
Confidence            469999999999 666 69999999999654    589999999865

>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=98.13  E-value=3e-07  Score=72.53  Aligned_cols=42  Identities=21%  Similarity=0.440  Sum_probs=31.7

Q ss_pred             CCeecccccCCcc------------------c-eeCCCCccchhhhhcC---------CCCCCccccccc
Q 019939          287 NHVCPICLTDPKD------------------M-AFGCGHQTCCGCGQDL---------DLCPICRSFIQT  328 (333)
Q Consensus       287 ~~~C~ICl~~~~~------------------~-~l~CgH~fC~~C~~~~---------~~CP~CR~~i~~  328 (333)
                      +..|+||++.+.+                  + .++|||.||..|+..+         ..||+||..+..
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhcc
Confidence            4689999986532                  2 2489999999999643         269999987743

>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=98.11  E-value=1.1e-06  Score=67.74  Aligned_cols=45  Identities=18%  Similarity=0.081  Sum_probs=37.3

Q ss_pred             CCCCCeecccccCCcc-ceeCCCC-ccchhhhhcC----CCCCCccccccc
Q 019939          284 TSDNHVCPICLTDPKD-MAFGCGH-QTCCGCGQDL----DLCPICRSFIQT  328 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~-~~l~CgH-~fC~~C~~~~----~~CP~CR~~i~~  328 (333)
                      ..++..|+||.+.+.+ |+++||| .||+.|+.++    ..||+||.++..
T Consensus        19 ~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~   69 (98)
T d1wgma_          19 ACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             CCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             CcHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHhcCCcccccccccc
Confidence            3467999999999999 6677765 7999999764    489999999864

>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=97.89  E-value=1.4e-05  Score=66.72  Aligned_cols=130  Identities=11%  Similarity=0.122  Sum_probs=88.2

Q ss_pred             HHHHHHHHHHhhhhccCCCC-ccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHHH
Q 019939           26 PYEQAISIIGKTLSSFDEDN-LIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEMA  104 (333)
Q Consensus        26 ~Y~~ai~~i~~vl~~yD~d~-~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~~  104 (333)
                      .+++....+..++..|...+ .+-+..|+....   .+|+++.      ..+.+.+. .+.+..+...|.|+++..++.+
T Consensus        21 ~~~~~k~~~~~~~~~~~~~~~rvglv~fs~~~~---~~~~l~~------~~~~~~~~-l~~l~~~~~~g~t~~~~al~~~   90 (181)
T d1shux_          21 NWIEIYNFVQQLAERFVSPEMRLSFIVFSSQAT---IILPLTG------DRGKISKG-LEDLKRVSPVGETYIHEGLKLA   90 (181)
T ss_dssp             GHHHHHHHHHHHHHHCCCTTEEEEEEEESSSEE---EEEEEEC------CHHHHHHH-HHHHHTCCCCSCCCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHhcCCCCEEEEEEeecceE---EEEEecC------CHHHHHHH-hhhcccccCCCcchHHHHHHHH
Confidence            36667777777888887644 488888987532   3344431      22222222 2234456677899999999999


Q ss_pred             HHHHHhc--CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCCCcccccC
Q 019939          105 ITIVEHS--GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWDMMREFD  175 (333)
Q Consensus       105 ~~~~~~~--~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f~~m~~ld  175 (333)
                      .+.....  .....+++++|||..++.          +.....++...+.+.-+.++.||+|+.+...|+++-
T Consensus        91 ~~~~~~~~~~~~~~~ivliTDG~~~~~----------~~~~~~~~~~~~k~~gv~v~~vgig~~~~~~L~~ia  153 (181)
T d1shux_          91 NEQIQKAGGLKTSSIIIALTDGKLDGL----------VPSYAEKEAKISRSLGASVYCVGVLDFEQAQLERIA  153 (181)
T ss_dssp             HHHHHHHTGGGSCEEEEEEECCCCCTT----------HHHHHHHHHHHHHHTTCEEEEEECSSCCHHHHHHHS
T ss_pred             HHHhhhcccCCCceEEEEecCCCCCCC----------ccHHHHHHHHHHHHCCCEEEEEEeCccCHHHHHHHh
Confidence            8877543  234688999999987751          244455566667778899999999987777777765

>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=97.81  E-value=3.2e-06  Score=63.69  Aligned_cols=26  Identities=19%  Similarity=0.331  Sum_probs=22.0

Q ss_pred             eCCCCccchhhhhc----CCCCCCcccccc
Q 019939          302 FGCGHQTCCGCGQD----LDLCPICRSFIQ  327 (333)
Q Consensus       302 l~CgH~fC~~C~~~----~~~CP~CR~~i~  327 (333)
                      ++|||.|+..|+.+    ...||+||+++.
T Consensus        55 ~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          55 GVCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             ETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             ccccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            38999999999964    358999999875

>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=97.71  E-value=5.6e-06  Score=57.81  Aligned_cols=45  Identities=24%  Similarity=0.420  Sum_probs=34.7

Q ss_pred             CCCCCeecccccCCcc-ceeCC-----CCccchhhhhcC------CCCCCccccccc
Q 019939          284 TSDNHVCPICLTDPKD-MAFGC-----GHQTCCGCGQDL------DLCPICRSFIQT  328 (333)
Q Consensus       284 ~~~~~~C~ICl~~~~~-~~l~C-----gH~fC~~C~~~~------~~CP~CR~~i~~  328 (333)
                      .++...|.||++...+ .+.+|     +|.|+..|+.++      ..||+||+++..
T Consensus         3 ded~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           3 DEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             TCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            4567899999998776 33344     599999999743      479999998764

>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=97.41  E-value=0.0011  Score=56.00  Aligned_cols=147  Identities=9%  Similarity=0.208  Sum_probs=85.5

Q ss_pred             CCCccccCC--CCCHHHHHHHHHHhhhhcc---CCCCccceEEeCCCCCCCC----cccccCC-CCCCCCCHHHHHHHHH
Q 019939           14 RRSLHHIGD--DQNPYEQAISIIGKTLSSF---DEDNLIPCFGFGDASTHDQ----EVFSFYP-DEKFCNGFEEVLRRYR   83 (333)
Q Consensus        14 ~~sLH~~~~--~~N~Y~~ai~~i~~vl~~y---D~d~~ip~~GFG~~~~~~~----~vf~~~~-~~~~~~G~~gvl~~Y~   83 (333)
                      ..||+..+.  ....++.|++.+-.++..+   -...++-++.||.......    +++.+.+ +.+   . ...+...+
T Consensus        12 S~SM~~~d~~~~~s~~~~~~~~~~~~~~~~i~~~~~d~vglv~f~t~~~~~~~~~~~~~~~~~l~~~---~-~~~~~~~~   87 (220)
T d1jeya2          12 SKAMFESQSEDELTPFDMSIQCIQSVYISKIISSDRDLLAVVFYGTEKDKNSVNFKNIYVLQELDNP---G-AKRILELD   87 (220)
T ss_dssp             SGGGGCCCSSSSCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCCTTEEEEEEEECC---C-HHHHHHHH
T ss_pred             CcccCccccCCCCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEEeccccccCCCcccchhhhhcccCc---h-HHHHHhhh
Confidence            346665442  5678999999999988876   3455799999998654211    1111110 111   1 11111111


Q ss_pred             HhC---------CceeecCCCChHHHHHHHHHHHHhcCCc--eEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhc
Q 019939           84 ELV---------PHLRLAGPTSFAPIIEMAITIVEHSGGQ--YHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKAS  152 (333)
Q Consensus        84 ~~~---------~~v~l~gpt~fapvI~~~~~~~~~~~~~--y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS  152 (333)
                      ...         ......|.|++...|..+.+..+....+  --++++||||+-....|      +.+..+.++.+.++.
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~t~l~~al~~a~~~~~~~~~~~~~k~IiliTDg~~~~~~~------~~~~~~~~~~a~~~~  161 (220)
T d1jeya2          88 QFKGQQGQKRFQDMMGHGSDYSLSEVLWVCANLFSDVQFKMSHKRIMLFTNEDNPHGND------SAKASRARTKAGDLR  161 (220)
T ss_dssp             TTSHHHHHHHHHHHHCCSCCCCHHHHHHHHHHHHHTCSSCEEEEEEEEEESCSCTTTTC------HHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhhhhhcccCCCCccHHHHHHHHHHHHHhcccccCCcEEEEEecCCCCCCCc------chhhHHHHHHHHHHh
Confidence            111         1123458999999999999987654332  35789999997542111      233555666666665


Q ss_pred             CCCeEEEEEecccC-CCCc
Q 019939          153 EYPLSIILVGVGDG-PWDM  170 (333)
Q Consensus       153 ~~PlSii~VGvGd~-~f~~  170 (333)
                      ..-+.|-.+|||.. +|+.
T Consensus       162 ~~gv~i~~i~ig~~~~~d~  180 (220)
T d1jeya2         162 DTGIFLDLMHLKKPGGFDI  180 (220)
T ss_dssp             HHTEEEEEEEBCCTTCCCT
T ss_pred             hhcceEEEEEeCCCCCcch
Confidence            56667777777743 3443

>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=97.11  E-value=0.0029  Score=52.48  Aligned_cols=126  Identities=13%  Similarity=0.223  Sum_probs=82.6

Q ss_pred             CHHHHHHHHHHhhhhccC--CCC-ccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHH
Q 019939           25 NPYEQAISIIGKTLSSFD--EDN-LIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPII  101 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD--~d~-~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI  101 (333)
                      ..++++...+-.++..|+  .++ .+-+..||....   ..|+|+.    ....+.++++-.+ ++.  .+|.|+.+..+
T Consensus        18 ~~f~~~k~~v~~~i~~~~i~~~~~rv~vv~f~~~~~---~~~~l~~----~~~~~~l~~~i~~-l~~--~gg~t~~~~al   87 (184)
T d1atza_          18 SYFDEMKSFAKAFISKANIGPRLTQVSVLQYGSITT---IDVPWNV----VPEKAHLLSLVDV-MQR--EGGPSQIGDAL   87 (184)
T ss_dssp             HHHHHHHHHHHHHHHHSCBSTTSEEEEEEEESSSEE---EEECTTC----CCCHHHHHHHHHT-CCC--CCCCCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCCcEEEEEEEeccce---eeccccc----cccHHHHHHHHHh-hhh--cccccchhhhh
Confidence            347788888888889886  333 688999987543   2233321    2355555554432 332  46899999999


Q ss_pred             HHHHHHHHhc-----CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC-CCCccccc
Q 019939          102 EMAITIVEHS-----GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG-PWDMMREF  174 (333)
Q Consensus       102 ~~~~~~~~~~-----~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~-~f~~m~~l  174 (333)
                      +.+.+..-..     ....-++++||||.-+|.           ..+..+++++.   -+-|+.||||+. +-..|+.+
T Consensus        88 ~~~~~~~~~~~~g~R~~~~kvvvlltdg~~~d~-----------~~~~a~~lk~~---gi~v~~igiG~~~~~~~L~~i  152 (184)
T d1atza_          88 GFAVRYLTSEMHGARPGASKAVVILVTDVSVDS-----------VDAAADAARSN---RVTVFPIGIGDRYDAAQLRIL  152 (184)
T ss_dssp             HHHHHHHHSCCTTCCTTSEEEEEEEECSCCSSC-----------CHHHHHHHHHT---TEEEEEEEESSSSCHHHHHHH
T ss_pred             hHHHHHhhhhhcCCCCCCceEEEEEEecCccch-----------hhHHHHHHHHc---CcEEEEEEeCCcCCHHHHHHH
Confidence            9999887432     223568999999987762           34555566543   688999999973 44444444

>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=97.01  E-value=0.0017  Score=54.15  Aligned_cols=118  Identities=14%  Similarity=0.162  Sum_probs=77.4

Q ss_pred             HHHHHHHHHhhhhccC--CCC-ccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHHH
Q 019939           27 YEQAISIIGKTLSSFD--EDN-LIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIEM  103 (333)
Q Consensus        27 Y~~ai~~i~~vl~~yD--~d~-~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~~  103 (333)
                      ++++.+-+-.++..|+  .++ .+-+..||....   .+|.|+.    ....++++++-.+..+.  -+|.|+....|+.
T Consensus        17 f~~~k~f~~~ii~~~~i~~~~~rv~vv~fs~~~~---~~~~l~~----~~~~~~~~~~i~~~~~~--~g~~t~~~~AL~~   87 (193)
T d1v7pc_          17 WDAVKNFLEKFVQGLDIGPTKTQVGLIQYANNPR---VVFNLNT----YKTKEEMIVATSQTSQY--GGDLTNTFGAIQY   87 (193)
T ss_dssp             HHHHHHHHHHHHHTSCBSTTSEEEEEEEESSSEE---EEECTTT----CSSHHHHHHHHHHCCCC--CCSCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcccCCCccEEEEEEeeccee---eeecccc----hhhHHHHHHHHHhhhhh--ccCccchHHHHHH
Confidence            7778888888899996  233 699999988643   3344431    23566666654443221  2467999999999


Q ss_pred             HHHHHH--hcC---CceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEeccc
Q 019939          104 AITIVE--HSG---GQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGD  165 (333)
Q Consensus       104 ~~~~~~--~~~---~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd  165 (333)
                      +.+..-  ..+   ....++++||||...|.            ..+..+..++...-+.++-||||+
T Consensus        88 a~~~~f~~~~~~R~~~~kvvVllTDG~s~d~------------~~~~~~~~~~~~~gv~v~~Igvg~  142 (193)
T d1v7pc_          88 ARKYAYSAASGGRRSATKVMVVVTDGESHDG------------SMLKAVIDQCNHDNILRFGIAVLG  142 (193)
T ss_dssp             HHHHTTSGGGTCCTTSEEEEEEEESSCCSCG------------GGHHHHHHHHHHTTEEEEEEEECH
T ss_pred             HHHhccccccCCCCCCceEEEEEecCCcCCC------------ccHHHHHHHHHhCCCEEEEEEeCC
Confidence            988752  221   23568899999998762            233344455556678888888885

>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=96.88  E-value=0.00011  Score=55.13  Aligned_cols=29  Identities=21%  Similarity=0.484  Sum_probs=23.3

Q ss_pred             CCCeecccccCCcc---cee-CCCCccchhhhh
Q 019939          286 DNHVCPICLTDPKD---MAF-GCGHQTCCGCGQ  314 (333)
Q Consensus       286 ~~~~C~ICl~~~~~---~~l-~CgH~fC~~C~~  314 (333)
                      ....|+||++....   ..+ +|||.||..|+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~   36 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLK   36 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHH
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHH
Confidence            34689999998753   344 899999999985

>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=96.54  E-value=0.0072  Score=49.94  Aligned_cols=117  Identities=19%  Similarity=0.290  Sum_probs=77.1

Q ss_pred             HHHHHHHHHhhhhccC---CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecC-CCChHHHHH
Q 019939           27 YEQAISIIGKTLSSFD---EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAG-PTSFAPIIE  102 (333)
Q Consensus        27 Y~~ai~~i~~vl~~yD---~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~g-pt~fapvI~  102 (333)
                      ++++.+-+-.++..|+   ++-.+-+..||....   .+|.|+.    ....+.++++-.+...   .+| .++-+..++
T Consensus        17 ~~~~k~f~~~~i~~~~i~~~~~rv~vv~fs~~~~---~~~~l~~----~~~~~~~~~~i~~~~~---~~g~~~~~~~al~   86 (192)
T d1pt6a_          17 WDSVTAFLNDLLKRMDIGPKQTQVGIVQYGENVT---HEFNLNK----YSSTEEVLVAAKKIVQ---RGGRQTMTALGTD   86 (192)
T ss_dssp             HHHHHHHHHHHHTTSCBSTTSBEEEEEEESSSEE---EEECTTT----CSSHHHHHHHHHTCCC---CCCSSCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCCcEEEEEEEeccEE---EEEeCCc----chhhHHHHHHHhhhhh---hhhhccchHHHHH
Confidence            8888888889999996   233689999987543   2345432    2345666665444322   234 567777787


Q ss_pred             HHHHHHH--hcC---CceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEeccc
Q 019939          103 MAITIVE--HSG---GQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGD  165 (333)
Q Consensus       103 ~~~~~~~--~~~---~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd  165 (333)
                      .+.+..-  ..+   ..-.++++||||...|            .....+++..+-+.-+-|+.||||.
T Consensus        87 ~~~~~~~~~~~g~R~~~~kviillTDG~~~d------------~~~~~~~a~~lk~~gi~v~~igvg~  142 (192)
T d1pt6a_          87 TARKEAFTEARGARRGVKKVMVIVTDGESHD------------NHRLKKVIQDCEDENIQRFSIAILG  142 (192)
T ss_dssp             HHHHTTTSGGGTCCTTCEEEEEEEESSCCSC------------SHHHHHHHHHHHHTTEEEEEEEECH
T ss_pred             HHHHhhhccccCCCCCcceEEEEEecCCCCc------------chhhHHHHHHHHHCCCeEEEEEEec
Confidence            7766531  222   2246899999998876            2345566666667789999999995

>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=96.41  E-value=0.016  Score=47.88  Aligned_cols=137  Identities=11%  Similarity=0.114  Sum_probs=80.6

Q ss_pred             CHHHHHHHHHHhhhhccC---CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHh-CCceeecCCCChHHH
Q 019939           25 NPYEQAISIIGKTLSSFD---EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYREL-VPHLRLAGPTSFAPI  100 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD---~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~-~~~v~l~gpt~fapv  100 (333)
                      +.++++...+-.++..|+   ..-.+-++.||.....   .+.|+..  .......+.+.-.++ ......+|.|+.+..
T Consensus        17 ~~~~~~k~~~~~li~~l~~~~~~~rv~lv~f~~~~~~---~~~l~~~--~~~~~~~l~~~i~~i~~~~~~~~g~t~~~~a   91 (209)
T d1q0pa_          17 SNFTGAKKSLVNLIEKVASYGVKPRYGLVTYATYPKI---WVKVSEA--DSSNADWVTKQLNEINYEDHKLKSGTNTKKA   91 (209)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTCCCEEEEEEESSSEEE---EECTTSG--GGGCHHHHHHHHHTCCTTSCSCTTCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhcccCCCCcEEEEEEecCceeE---EecCccc--hhhHHHHHHHHHHHhhhccccCCCCchHHHH
Confidence            567777777777777664   4557999999975321   2333211  122333333333322 122346788999999


Q ss_pred             HHHHHHHHHhc--------CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcC----------CCeEEEEEe
Q 019939          101 IEMAITIVEHS--------GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASE----------YPLSIILVG  162 (333)
Q Consensus       101 I~~~~~~~~~~--------~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~----------~PlSii~VG  162 (333)
                      |+.+.+.....        ...-.+++++|||..++..+         .....+.+.+...          ..+.++-||
T Consensus        92 l~~a~~~~~~~~~~~~~~~~~~~kvvvl~TDG~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~gi~i~~vg  162 (209)
T d1q0pa_          92 LQAVYSMMSWPDDVPPEGWNRTRHVIILMTDGLHNMGGD---------PITVIDEIRDLLYIGKDRKNPREDYLDVYVFG  162 (209)
T ss_dssp             HHHHHHHHCCTTSSCCTTGGGCEEEEEEEECSCCCSSSC---------THHHHHHHHHHTTCSCBTTBCCGGGEEEEEEE
T ss_pred             HHHHHHHHHhhhccCccccCCCceEEEEEcCCCccCCCC---------hHHHHHHHHHhhhhHHHHHHHHhcCCceEEec
Confidence            99999887422        11246899999998776322         3444455544322          236678888


Q ss_pred             ccc-CCCCcccccC
Q 019939          163 VGD-GPWDMMREFD  175 (333)
Q Consensus       163 vGd-~~f~~m~~ld  175 (333)
                      ||+ .+.+.|+.+-
T Consensus       163 vg~~~~~~~L~~iA  176 (209)
T d1q0pa_         163 VGPLVNQVNINALA  176 (209)
T ss_dssp             CSSCCCHHHHHHHS
T ss_pred             CCccCCHHHHHHHH
Confidence            885 4555565553

>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=96.24  E-value=0.00094  Score=55.83  Aligned_cols=120  Identities=18%  Similarity=0.286  Sum_probs=77.1

Q ss_pred             CHHHHHHHHHHhhhhccCCCC-ccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCcee-ecCCCChHHHHH
Q 019939           25 NPYEQAISIIGKTLSSFDEDN-LIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLR-LAGPTSFAPIIE  102 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD~d~-~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~-l~gpt~fapvI~  102 (333)
                      ..++++++.+..++..++.++ .+-+..|+....   ..|+|+-.    ...+++    ++.+..+. .+|.|.....|+
T Consensus        21 ~~~~~~k~f~~~iv~~l~~~~~rv~vv~fs~~~~---~~~~l~~~----~~~~~~----~~~i~~i~~~~~~t~~~~al~   89 (194)
T d1mf7a_          21 HDFRRMKEFVSTVMEQLKKSKTLFSLMQYSEEFR---IHFTFKEF----QNNPNP----RSLVKPITQLLGRTHTATGIR   89 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHCCTTEEEEEEEESSSEE---EEECHHHH----HHSCCH----HHHHTTCCCCCSCBCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCcCCceEEEEEEeccce---eEEecccc----CCHHHH----HHHHhhhhhhhccchHHHHHH
Confidence            358889999999999998877 688999987543   12333100    000112    22233343 467889899998


Q ss_pred             HHHHHHHh--c---CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC
Q 019939          103 MAITIVEH--S---GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG  166 (333)
Q Consensus       103 ~~~~~~~~--~---~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~  166 (333)
                      ++.+.+-.  .   ...--|+++||||...+..           ....+++..+.+.-+-|+.||+|+.
T Consensus        90 ~~~~~~~~~~~~~~~~~~kvvvliTDG~~~~~~-----------~~~~~~~~~~~~~gv~i~~VGi~~~  147 (194)
T d1mf7a_          90 KVVRELFNITNGARKNAFKILVVITDGEKFGDP-----------LGYEDVIPEADREGVIRYVIGVGDA  147 (194)
T ss_dssp             HHHHTTTSGGGTCCTTSEEEEEEEESSCCBSCS-----------SCGGGTHHHHHHTTEEEEEEEESGG
T ss_pred             HHHHHHHhhhccCCCCCceEEEEEecCCCCCCc-----------hhHHHHHHHHHHcCCeeEEEecCCc
Confidence            88877521  1   1234689999999876521           2233455556667899999999975

>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=96.06  E-value=0.015  Score=48.51  Aligned_cols=131  Identities=10%  Similarity=0.110  Sum_probs=80.2

Q ss_pred             CHHHHHHHHHHhhhhccC---CCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHH
Q 019939           25 NPYEQAISIIGKTLSSFD---EDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPII  101 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD---~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI  101 (333)
                      ..++.+.+-+..++..|+   .+-.+-+.-||+...   ..|.|+.    ....+.+.+..++. +. .-++.|+-...|
T Consensus        29 ~~f~~~k~fv~~~i~~l~~~~~~~rvavv~y~~~~~---~~~~l~~----~~~~~~l~~~i~~l-~~-~~g~~~~~~~al   99 (202)
T d1ijba_          29 AEFEVLKAFVVDMMERLRVSQKWVRVAVVEYHDGSH---AYIGLKD----RKRPSELRRIASQV-KY-AGSQVASTSEVL   99 (202)
T ss_dssp             HHHHHHHHHHHHHHHTBCBSTTSEEEEEEEESSSEE---EEECTTC----CCCHHHHHHHHHTC-CC-CCBSCCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhccCCCCcEEEEEEEeccee---eecCCcc----cchHHHHHHHHHhh-hh-hhhccccHHHHH
Confidence            446777777888888885   233799999988643   2344431    23455566555443 22 123467888899


Q ss_pred             HHHHHHHHhc---CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEeccc-CCCCccccc
Q 019939          102 EMAITIVEHS---GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGD-GPWDMMREF  174 (333)
Q Consensus       102 ~~~~~~~~~~---~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd-~~f~~m~~l  174 (333)
                      +.+.+.+-..   ....-++++||||...+.       .+++..   +++..+.+..+-|+.||||. .+-+.|+.+
T Consensus       100 ~~~~~~~~~~~~r~~~~k~vivitdg~~~~~-------~~~~~~---~~~~~l~~~gv~i~~Vgig~~~~~~~L~~i  166 (202)
T d1ijba_         100 KYTLFQIFSKIDRPEASRIALLLMASQEPQR-------MSRNFV---RYVQGLKKKKVIVIPVGIGPHANLKQIRLI  166 (202)
T ss_dssp             HHHHHHTSSSCSCTTSEEEEEEEECCCCCGG-------GCTTHH---HHHHHHHHTTEEEEEEEESTTSCHHHHHHH
T ss_pred             HHHHHHhhhhccCCCCcceEEEecccCCCcc-------cchHHH---HHHHHHHHcCCeEEEEEeCCcCCHHHHHHH
Confidence            8887765322   134568999999986541       112233   44444446679999999984 344445444

>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=95.94  E-value=0.033  Score=46.65  Aligned_cols=140  Identities=14%  Similarity=0.144  Sum_probs=80.4

Q ss_pred             CCccccCC-CCCHHHHHHHHHHhhhhcc---CCCCccceEEeCCCCCCCCcc--------cccCCCCCCCCCHHHHHHHH
Q 019939           15 RSLHHIGD-DQNPYEQAISIIGKTLSSF---DEDNLIPCFGFGDASTHDQEV--------FSFYPDEKFCNGFEEVLRRY   82 (333)
Q Consensus        15 ~sLH~~~~-~~N~Y~~ai~~i~~vl~~y---D~d~~ip~~GFG~~~~~~~~v--------f~~~~~~~~~~G~~gvl~~Y   82 (333)
                      .|+...++ .++.++.|.+.+..+++..   ++..++-++.||...+.....        ..+.+  ...... +.+...
T Consensus        13 ~SM~~~~~~~~srl~~ak~~~~~~v~~~~~~~~~d~vglV~f~~~~t~~~~~~~~~~~~i~~~~~--~~~~~~-~~~~~~   89 (236)
T d1jeyb2          13 FTMSNSIPGIESPFEQAKKVITMFVQRQVFAENKDEIALVLFGTDGTDNPLSGGDQYQNITVHRH--LMLPDF-DLLEDI   89 (236)
T ss_dssp             GGGGCCBTTBCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCTTTCSTTEEEEEE--EECCCH-HHHHHH
T ss_pred             hhhccCCCCCCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEcCCCcccccccccccceEEEEec--cccchh-hHHHHH
Confidence            35554443 4789999999999998876   566699999999875421110        00000  001122 223322


Q ss_pred             HHhCCceeecCCCChHHHHHHHHHHHHhc--CCc--eEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEE
Q 019939           83 RELVPHLRLAGPTSFAPIIEMAITIVEHS--GGQ--YHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSI  158 (333)
Q Consensus        83 ~~~~~~v~l~gpt~fapvI~~~~~~~~~~--~~~--y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSi  158 (333)
                      .....  .-.+.+.+...|..+++.....  ..+  --.+++||||+-....        .+.+..++.+   .+.-+.|
T Consensus        90 ~~~~~--~~~~~~~~~~al~~a~~~~~~~~~~~~~~~r~IiL~TDG~~~~~~--------~~~~~~a~~l---~~~~I~i  156 (236)
T d1jeyb2          90 ESKIQ--PGSQQADFLDALIVSMDVIQHETIGKKFEKRHIEIFTDLSSRFSK--------SQLDIIIHSL---KKCDISL  156 (236)
T ss_dssp             HTTCC--CCSSCCCHHHHHHHHHHHHHHHSSSSCCSEEEEEEECCCCSCCCC--------TTHHHHHHHH---HHTTEEE
T ss_pred             hhhcc--ccccccchhHHHHHHHHHHHHhhhcccccccEEEEEecCCCCcCh--------HHHHHHHHHH---HHcCCEE
Confidence            22221  2246788999998888876532  122  2467888999753211        1234444444   4557888


Q ss_pred             EEEecccCCCCc
Q 019939          159 ILVGVGDGPWDM  170 (333)
Q Consensus       159 i~VGvGd~~f~~  170 (333)
                      -+||+|..+...
T Consensus       157 ~~ig~g~~~~~~  168 (236)
T d1jeyb2         157 QFFLPFSLGKED  168 (236)
T ss_dssp             EEEESSCCC---
T ss_pred             EEEecCCcCCCc
Confidence            889998765433

>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=95.92  E-value=0.0019  Score=53.50  Aligned_cols=120  Identities=18%  Similarity=0.281  Sum_probs=75.1

Q ss_pred             CHHHHHHHHHHhhhhccCCCC-ccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCce-eecCCCChHHHHH
Q 019939           25 NPYEQAISIIGKTLSSFDEDN-LIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHL-RLAGPTSFAPIIE  102 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD~d~-~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v-~l~gpt~fapvI~  102 (333)
                      ..++++...+..++..|+.++ .+-+.-||....   ..|.|+.       +... +...+.+..+ ..+|.|+....|+
T Consensus        18 ~~~~~~k~~~~~~i~~l~~~~~rv~vv~fs~~~~---~~~~l~~-------~~~~-~~~~~~i~~~~~~~g~t~~~~al~   86 (189)
T d1n3ya_          18 RNFATMMNFVRAVISQFQRPSTQFSLMQFSNKFQ---THFTFEE-------FRRS-SNPLSLLASVHQLQGFTYTATAIQ   86 (189)
T ss_dssp             HHHHHHHHHHHHHHTTSCTTTEEEEEEEESSSEE---EEECHHH-------HHHC-SSGGGGGTTCCCCCSCBCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCEEEEEEeeccce---eeccccc-------cccH-HHHHHHHHhhhhhhhhchHHHHHH
Confidence            457888888999999998776 599999987543   1222210       0000 0011122333 2568899998888


Q ss_pred             HHHHHHH--hcC---CceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC
Q 019939          103 MAITIVE--HSG---GQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG  166 (333)
Q Consensus       103 ~~~~~~~--~~~---~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~  166 (333)
                      .+.+.+-  ..+   ....++++||||..++.           .....+++..+-+.-+-|+.||+|+.
T Consensus        87 ~a~~~~f~~~~~~r~~~~kvivllTDG~~~~~-----------~~~~~~~~~~~~~~gv~i~~Vgig~~  144 (189)
T d1n3ya_          87 NVVHRLFHASYGARRDAAKILIVITDGKKEGD-----------SLDYKDVIPMADAAGIIRYAIGVGLA  144 (189)
T ss_dssp             HHHTTTTSGGGTCCTTSEEEEEEEESSCCBSC-----------SSCHHHHHHHHHHTTCEEEEEEESGG
T ss_pred             HHHHHHhhhhcCCCCCCceEEEEEecCCCCCC-----------cccHHHHHHHHHHCCCceEEEecccc
Confidence            8876541  211   22468999999987652           12334455555566789999999964

>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=94.85  E-value=0.23  Score=39.70  Aligned_cols=119  Identities=11%  Similarity=0.118  Sum_probs=70.8

Q ss_pred             CCCHHHHHHHHHHhhhhccCCCCccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCceeecCCCChHHHHH
Q 019939           23 DQNPYEQAISIIGKTLSSFDEDNLIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLRLAGPTSFAPIIE  102 (333)
Q Consensus        23 ~~N~Y~~ai~~i~~vl~~yD~d~~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~l~gpt~fapvI~  102 (333)
                      .....+.|+......+..   +..+-++.|+.....    .+..    .-..+..+++.-    ... .+|.|+++..|+
T Consensus        26 ~~~~~~~a~~~~~~~~~~---~~~~~vv~F~~~~~~----~~~~----~~~~~~~~~~~~----~~~-~~ggT~i~~al~   89 (174)
T d1yvra2          26 ILNASVVAAAMCMLVART---EKDSHMVAFSDEMLP----CPIT----VNMLLHEVVEKM----SDI-TMGSTDCALPML   89 (174)
T ss_dssp             SCBHHHHHHHHHHHHHHH---CSSEEEEEESSSEEC----CSCC----TTSCHHHHHHHH----TTC-CCSCCCTTHHHH
T ss_pred             cHHHHHHHHHHHHHhhcc---CCcEEEEEecCCccc----cccC----ccchHHHHHHHh----hcc-ccccccHHHHHH
Confidence            345666665444444433   235889999885321    1111    123556555432    222 256799988887


Q ss_pred             HHHHHHHhcCCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccCCCC
Q 019939          103 MAITIVEHSGGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDGPWD  169 (333)
Q Consensus       103 ~~~~~~~~~~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~~f~  169 (333)
                      .+.+.    ..++-++++||||+.+..      .-+  -.+.++...+..+.|.-+++|+++...+.
T Consensus        90 ~a~~~----~~~~~~ivllTDg~~~~g------~~~--~~~~l~~y~~~~~~~~~~~~i~l~~~g~~  144 (174)
T d1yvra2          90 WAQKT----NTAADIFIVFTDCETNVE------DVH--PATALKQYREKMGIPAKLIVCAMTSNGFS  144 (174)
T ss_dssp             HHHHT----TCCCSEEEEEECCCCCSS------SCC--HHHHHHHHHHHHTCCCEEEEEECSSSSEE
T ss_pred             HHHhh----hccCCEEEEEeCCCccCC------CCC--HHHHHHHHHHHcCCCcEEEEEECcCCCCc
Confidence            66543    445668999999986531      111  24556666777788999999998765444

>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=94.23  E-value=0.033  Score=45.48  Aligned_cols=113  Identities=17%  Similarity=0.244  Sum_probs=71.6

Q ss_pred             CHHHHHHHHHHhhhhccCCCC-ccceEEeCCCCCCCCcccccCCCCCCCCCHHHHHHHHHHhCCcee-ecCCCChHHHHH
Q 019939           25 NPYEQAISIIGKTLSSFDEDN-LIPCFGFGDASTHDQEVFSFYPDEKFCNGFEEVLRRYRELVPHLR-LAGPTSFAPIIE  102 (333)
Q Consensus        25 N~Y~~ai~~i~~vl~~yD~d~-~ip~~GFG~~~~~~~~vf~~~~~~~~~~G~~gvl~~Y~~~~~~v~-l~gpt~fapvI~  102 (333)
                      ..++++.+-+-.++..+..++ .+-+.-||.....   .|.|+.    ....+.+.+    .+..++ .+|.|+....|+
T Consensus        18 ~~f~~~k~f~~~~i~~i~~~~~rvgvv~fs~~~~~---~~~l~~----~~~~~~~~~----~i~~i~~~~g~t~~~~AL~   86 (179)
T d1mjna_          18 DEFQKILDFMKDVMKKCSNTSYQFAAVQFSTSYKT---EFDFSD----YVKRKDPDA----LLKHVKHMLLLTNTFGAIN   86 (179)
T ss_dssp             HHHHHHHHHHHHHHHHTTTSSEEEEEEEESSSEEE---EECHHH----HHHHCCHHH----HHTTCCCCCBCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCCCceEEEEEEEeeeeeE---Eechhh----ccchHHHHH----HHhhhhcccCcchHHHHHH
Confidence            458888888999999998777 6899999875432   233321    001111222    233343 468899999999


Q ss_pred             HHHHHH-H-hc---CCceEEEEEEecCccccCCCcccCcCchhHHHHHHHHHHhcCCCeEEEEEecccC
Q 019939          103 MAITIV-E-HS---GGQYHVLVIIADGQVTRSVDTEHGQLSSQEKKTVEAIVKASEYPLSIILVGVGDG  166 (333)
Q Consensus       103 ~~~~~~-~-~~---~~~y~vLlIiTDG~i~d~~~~~~~~~~~~~~~t~~aI~~AS~~PlSii~VGvGd~  166 (333)
                      .+.+.. . ..   .....+|++||||..+|..                  ..++..-+-+..||||..
T Consensus        87 ~~~~~~f~~~~g~R~~~~kvvvllTDG~s~d~~------------------~~~~~~~i~~~~igvg~~  137 (179)
T d1mjna_          87 YVATEVFREELGARPDATKVLIIITDGEATDSG------------------NIDAAKDIIRYIIGIGKH  137 (179)
T ss_dssp             HHHHHTSSGGGTCCTTSEEEEEEEESSCCSSCS------------------CCGGGTTSEEEEEEESGG
T ss_pred             HHHHHHhchhcCCCCCCCeEEEEEECCCCcccc------------------hHHHHhcCccceEEeccc
Confidence            887654 2 22   1236789999999987622                  112334677778888864

>d1z60a1 g.49.1.2 (A:328-386) TFIIH p44 subunit cysteine-rich domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Cysteine-rich domain
superfamily: Cysteine-rich domain
family: TFIIH p44 subunit cysteine-rich domain
domain: TFIIH p44 subunit cysteine-rich domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.79  E-value=0.42  Score=32.26  Aligned_cols=37  Identities=30%  Similarity=0.738  Sum_probs=29.3

Q ss_pred             CCCeecccccCCcc-cee---CCCCccchhhhh----cCCCCCCc
Q 019939          286 DNHVCPICLTDPKD-MAF---GCGHQTCCGCGQ----DLDLCPIC  322 (333)
Q Consensus       286 ~~~~C~ICl~~~~~-~~l---~CgH~fC~~C~~----~~~~CP~C  322 (333)
                      ....|--|+....+ ..+   .|++.||.+|-.    .+.+||.|
T Consensus        14 ~~~~C~gC~~~l~~~~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          14 GERFCYGCQGELKDQHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             SCCEETTTTEECTTSEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCCCccCCCCcCCCCceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            34689999988777 444   789999999974    56799998