Citrus Sinensis ID: 018272

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------36
Protein Sequence
MVIPSNNWPFAAAGTSRRQSSVDFAEPPRFDDELPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSRMTGRAKKITPKPPPVLSSHCARQMGPVSAEVAEAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVYP
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccHHHHcccccccEEcEEEEEEccccccccccccccccccccccccccccHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccEEEEcccccHHHHHHHHHHHHHcccccEEEEEEEccccccccHHHHHHHHHHHHccccccEEEEEcccccccHHHHcccccccccccccccccccHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHcccccccccccccccccccHHHHHcccccccccHHHHcccccccc
Secondary Structure Prediction (SSPRO)
cccccccccHHHcccccccccccccccccccccHHHHHHHHHHccccEEEEEEEEEEcccccccccccccccccEEEcccccccHHHHHHHHHHHHHHHccHccccccccccccccccccEccccccccccHHHHHHHHHHHHcccEEEcccccHHHHHHHHHHHHHHccccEEEEEEEEccEEccccHHHHHHHHHHHHHcccccEEEEEEcccccHHHHHHHcccccccHcccEEEEcHHHHHccccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccEEEccccccccccccccHHHcccccccccccccccEEEEEEcc
Coil and Loop (DISEMBL)
mvipsnnwpfaaagtsrrqssvdfaepprfddelpeapagvrdpskvRYKLIFGidftasnlwagkfsfeneslhtivdgdtlnpyQEVIYITGKElvlfdgdcircygfgddttrdegvfsfqendspcqgfEHVLECYRknvpnvqyfgptsyapMVEAAVDIVEESGGLHHVLVIITsgqvatgsqqeqETIRSivdassypLSIVLVGvgdgpwesIQKFHdkipalqfdnfhfvNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSRMtgrakkitpkpppvlsshcarqmgpvSAEVAEAQRCCiccedekdtafecghmscikcalrmpqcpfcreeittrrrvyp
Flexible Loop (DISEMBL)
mvipsnnwpfaaagtsrrqssvDFAEPprfddelpeapagvrdpskVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSgqvatgsqQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSRMTGRAKKITPKPPPVLSSHCARQMGPVSAEVAEAQRCCICCEDEKDTAFECGHMSCIkcalrmpqcpfcreeittrrrvyp
Low Complexity Region (SEG)
MVIPSNNWPFAAAGTSRRQSSVDFAEPPRFDDELPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSRMTGRAKKITPKPPPVLSSHCARQMGPVSAEVAEAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVYP
Disordered region (IsUnstruct)
*********************************************KVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVAT*******TIRSIVDASSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALINASMAADEL*********************************AEVAEAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEIT*******
Disordered Region (DISOPRED)
****************************RFDDELPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGK*SFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSRMTGRAKKITPKPPPVLSSHCARQMGPVSAEVAEAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVYP
Disordered Region (DISEMBL)
MVIPSNNWPFA***************PPRFDDELPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQ***********IRSIVDASSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSRMTGRAKKITPKPPPVLSSHCARQMGPVSAEVAEAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEI********
Disordered Region (DISPRO)
**********************DFAEPPRFDDELPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSR**********KPPP*******************AQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVYP
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVIPSNNWPFAAAGTSRRQSSVDFAEPPRFDDELPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSRMTGRAKKITPKPPPVLSSHCARQMGPVSAEVAEAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVYP
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	358	2.2.26 [Sep-21-2011]
Q9LY87	468	E3 ubiquitin-protein liga	no	no	0.854	0.653	0.424	1e-69
Q9SS90	489	E3 ubiquitin-protein liga	no	no	0.843	0.617	0.441	1e-69
Q09221	7705	Copine family protein 2 O	yes	no	0.527	0.024	0.457	6e-46
Q1RLL3	553	Copine-9 OS=Mus musculus	yes	no	0.430	0.278	0.352	2e-13
Q5BJS7	553	Copine-9 OS=Rattus norveg	yes	no	0.430	0.278	0.347	2e-13
Q8IYJ1	553	Copine-9 OS=Homo sapiens	yes	no	0.430	0.278	0.347	3e-13
Q7YXU4	600	Copine-A OS=Dictyostelium	no	no	0.491	0.293	0.312	5e-13
Q5S1W2	586	Protein BONZAI 2 OS=Arabi	no	no	0.466	0.284	0.326	7e-13
Q96FN4	548	Copine-2 OS=Homo sapiens	no	no	0.536	0.350	0.282	1e-12
Q9XUB9	634	Nicotinic receptor-associ	no	no	0.346	0.195	0.318	7e-12

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

 Score =  263 bits (673), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 148/349 (42%), Positives = 192/349 (55%), Gaps = 43/349 (12%)

Query: 50  KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCY 108
            LI GIDFT SN W G  SF  +SLH I  G + NPY++ I I G+ L  FD D  I CY
Sbjct: 122 NLIVGIDFTKSNEWTGARSFNRKSLHFI--GSSPNPYEQAITIIGRTLAAFDEDNLIPCY 179

Query: 109 GFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEE 168
           GFGD +T D+ VFSF   D  C GFE VL  Y++ VP ++  GPTS+AP+++ A+ IVE+
Sbjct: 180 GFGDASTHDQDVFSFNSEDRFCNGFEEVLSRYKEIVPQLKLAGPTSFAPIIDMAMTIVEQ 239

Query: 169 SGGLHHVLVIITSGQVATG--------SQQEQETIRSIVDASSYPLSIVLVGVGDGPWES 220
           SGG +HVLVII  GQV           S QEQ+T+ +IV AS  PLSIVLVGVGDGPW+ 
Sbjct: 240 SGGQYHVLVIIADGQVTRSVDTENGQLSPQEQKTVDAIVQASKLPLSIVLVGVGDGPWDM 299

Query: 221 IQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALI----NASMAADELGIMS 276
           +++F D IPA  FDNF FVNFT IM+K    + K  +FA + +        A  EL ++ 
Sbjct: 300 MREFDDNIPARAFDNFQFVNFTEIMAKNKAQSLKETEFALSALMEIPQQYKATIELNLLG 359

Query: 277 RMTGRAKKITPKPPPVLSSHCARQ-------------MGPVSAE---------------V 308
           R  G   +  P PPP+     +               + P   E                
Sbjct: 360 RRNGYIPERFPLPPPMRGGSSSYNSPKPSRLPSFKPSVPPHPTEGYHVRSSPVPPPTSSA 419

Query: 309 AEAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVY 357
           ++ Q C IC  + KD AF CGH +C +C   +  CP CR  I TR ++Y
Sbjct: 420 SDNQLCPICLSNPKDMAFGCGHQTCCECGPDLQMCPICRAPIQTRIKLY 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 =  263 bits (672), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 150/340 (44%), Positives = 193/340 (56%), Gaps = 38/340 (11%)

Query: 50  KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCY 108
            LI GIDFT SN W G  SF  +SLH +   +T NPY++ I I G+ L  FD D  I CY
Sbjct: 156 NLIVGIDFTKSNEWTGAKSFNRKSLHHL--SNTPNPYEQAITIIGRTLAAFDEDNLIPCY 213

Query: 109 GFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEE 168
           GFGD +T D+ VFSF      C GFE VL  YR+ VP ++  GPTS+AP++E A+ +VE+
Sbjct: 214 GFGDASTHDQDVFSFYPEGRFCNGFEEVLARYREIVPQLKLAGPTSFAPIIEMAMTVVEQ 273

Query: 169 SGGLHHVLVIITSGQVATG--------SQQEQETIRSIVDASSYPLSIVLVGVGDGPWES 220
           S G +HVLVII  GQV           S QEQ+T+ +IV AS+ PLSIVLVGVGDGPW+ 
Sbjct: 274 SSGQYHVLVIIADGQVTRSVDTEHGRLSPQEQKTVDAIVKASTLPLSIVLVGVGDGPWDM 333

Query: 221 IQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFA-AALINAS---MAADELGIMS 276
           +Q+F D IPA  FDNF FVNFT IMSK    + K  +FA +AL+       A  EL ++ 
Sbjct: 334 MQEFDDNIPARAFDNFQFVNFTEIMSKNKDQSRKETEFALSALMEIPPQYKATIELNLLG 393

Query: 277 RMTGRAKKITPKPPPVLSSHC-------------------ARQMGPVSAEVAEAQRCCIC 317
              G   +  P PPPV S                      ++QM    +   + Q C IC
Sbjct: 394 VRNGNIPQRIPLPPPVQSGSSFSSSRIPNFEPSVPPYPFESKQM----SSADDIQLCPIC 449

Query: 318 CEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVY 357
             + K+ AF CGH +C +C   +  CP CR  I TR ++Y
Sbjct: 450 LSNPKNMAFGCGHQTCCECGPDLKVCPICRAPIQTRIKLY 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 =  185 bits (469), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 91/199 (45%), Positives = 125/199 (62%), Gaps = 10/199 (5%)

Query: 51   LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDC-IRCYG 109
            LIFGID+T SN + G+ +F+   LHTI D   +NPYQ+VI I GK L  FD D  I  YG
Sbjct: 7476 LIFGIDYTKSNFYQGERTFDKRPLHTI-DPAEMNPYQQVIQIVGKTLSSFDADGQIPAYG 7534

Query: 110  FGDDTTRDEGVFSFQEN---DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIV 166
            FGD+   D G+F+  E    +  C GFE VL  Y +  P ++  GPT++ P+++ A++I 
Sbjct: 7535 FGDEEFTDHGIFNIAERYDLEKDCNGFEEVLRVYNEVTPTIEMSGPTNFVPLIDRAIEIC 7594

Query: 167  EESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHD 226
            +E    +H+LVI+  GQV      E+   ++I  AS YPLSI++VGVGDGPW  + +F D
Sbjct: 7595 KEKHS-YHILVIVADGQVTN----EKINQKAIAAASHYPLSIIMVGVGDGPWNMMGRFDD 7649

Query: 227  KIPALQFDNFHFVNFTAIM 245
             IP   FDNFHFV+F  +M
Sbjct: 7650 NIPKRLFDNFHFVDFHKVM 7668

Caenorhabditis elegans (taxid: 6239)

>sp|Q1RLL3|CPNE9_MOUSE Copine-9 OS=Mus musculus GN=Cpne9 PE=2 SV=1

 Score = 77.0 bits (188), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 66/187 (35%), Positives = 97/187 (51%), Gaps = 33/187 (17%)

Query: 54  GIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYI-----TGKELVLFDGDCIR-C 107
            IDFTASN   G    +  SLH       ++PYQ   Y       G+ +  +D D +   
Sbjct: 303 AIDFTASN---GN-PLQPTSLHY------MSPYQLSAYAMALKAVGEIIQDYDSDKLFPA 352

Query: 108 YGFGDDTTRDEGVFSFQ------ENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMV-- 159
           YGFG      EG  S Q      + D  C G E VLE Y +++  VQ +GPT +AP++  
Sbjct: 353 YGFGAKLP-PEGRISHQFPLNNNDEDPNCAGIEGVLESYFQSLRTVQLYGPTYFAPVINQ 411

Query: 160 --EAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGP 217
              AA  I +  G  ++VL+IIT G ++  +Q    T  +IV ASS P+SI++VGVG   
Sbjct: 412 VARAAAKISD--GSQYYVLLIITDGVISDMTQ----TKEAIVSASSLPMSIIIVGVGPAM 465

Query: 218 WESIQKF 224
           +E++++ 
Sbjct: 466 FEAMEEL 472

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

Mus musculus (taxid: 10090)

>sp|Q5BJS7|CPNE9_RAT Copine-9 OS=Rattus norvegicus GN=Cpne9 PE=2 SV=1

 Score = 76.6 bits (187), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 65/187 (34%), Positives = 96/187 (51%), Gaps = 33/187 (17%)

Query: 54  GIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYI-----TGKELVLFDGDCIR-C 107
            IDFTASN        +  SLH       ++PYQ   Y       G+ +  +D D +   
Sbjct: 303 AIDFTASN----GNPLQPTSLHY------MSPYQLSAYAMALKAVGEIIQDYDSDKLFPA 352

Query: 108 YGFGDDTTRDEGVFSFQ------ENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMV-- 159
           YGFG      EG  S Q      + D  C G E VLE Y +++  VQ +GPT +AP++  
Sbjct: 353 YGFGAKLP-PEGRISHQFPLNNNDEDPNCAGIEGVLESYFQSLRTVQLYGPTYFAPVINQ 411

Query: 160 --EAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGP 217
              AA  I +  G  ++VL+IIT G ++  +Q    T  +IV ASS P+SI++VGVG   
Sbjct: 412 VARAAAKISD--GSQYYVLLIITDGVISDMTQ----TKEAIVSASSLPMSIIIVGVGPAM 465

Query: 218 WESIQKF 224
           +E++++ 
Sbjct: 466 FEAMEEL 472

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

Rattus norvegicus (taxid: 10116)

>sp|Q8IYJ1|CPNE9_HUMAN Copine-9 OS=Homo sapiens GN=CPNE9 PE=1 SV=3

 Score = 76.3 bits (186), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 65/187 (34%), Positives = 98/187 (52%), Gaps = 33/187 (17%)

Query: 54  GIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYI-----TGKELVLFDGDCIR-C 107
            IDFTASN   G    +  SLH       ++PYQ   Y       G+ +  +D D +   
Sbjct: 303 AIDFTASN---GN-PLQPTSLHY------MSPYQLSAYAMALKAVGEIIQDYDSDKLFPA 352

Query: 108 YGFGDDTTRDEGVFSFQ------ENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMV-- 159
           YGFG      EG  S Q      + D  C G E VLE Y +++  VQ +GPT +AP++  
Sbjct: 353 YGFGAKLP-PEGRISHQFPLNNNDEDPNCAGIEGVLESYFQSLRTVQLYGPTYFAPVINQ 411

Query: 160 --EAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGP 217
              AA  I +  G  ++VL+IIT G ++  +Q ++    +IV ASS P+SI++VGVG   
Sbjct: 412 VARAAAKISD--GSQYYVLLIITDGVISDMTQTKE----AIVSASSLPMSIIIVGVGPAM 465

Query: 218 WESIQKF 224
           +E++++ 
Sbjct: 466 FEAMEEL 472

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

Homo sapiens (taxid: 9606)

>sp|Q7YXU4|CPNA_DICDI Copine-A OS=Dictyostelium discoideum GN=cpnA PE=2 SV=1

 Score = 75.9 bits (185), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 61/195 (31%), Positives = 90/195 (46%), Gaps = 19/195 (9%)

Query: 48  RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIR 106
           +  LI GID TASN      S +  SLH   +   LN Y   I   G  +V +     I 
Sbjct: 284 QMNLIVGIDCTASN----GDSNDPNSLH-YKNAQGLNQYANAICSVGNVIVPYTTTPLIP 338

Query: 107 CYGFGDDTTRDEGV-----FSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEA 161
            YGFG        V      +   +++ C G   VL+CY  N+  +Q  GPT +AP++  
Sbjct: 339 VYGFGGIMPGQSEVSHCFPMTLNASNTLCCGVNGVLDCYYDNISKIQLHGPTYFAPLINM 398

Query: 162 AVDIV----EESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGP 217
           A         +S   + +L+IIT G++         TI +IV +S  PLSI++VGVG+  
Sbjct: 399 AARYASQGQSQSNQKYTILMIITDGEILDADN----TIDAIVKSSGLPLSIIIVGVGNAN 454

Query: 218 WESIQKFHDKIPALQ 232
           + ++        ALQ
Sbjct: 455 FTNMNILDGDDAALQ 469

Required for cytokinesis, contractile vacuole function and development.

Dictyostelium discoideum (taxid: 44689)

>sp|Q5S1W2|BON2_ARATH Protein BONZAI 2 OS=Arabidopsis thaliana GN=BON2 PE=1 SV=2

 Score = 75.1 bits (183), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 62/190 (32%), Positives = 92/190 (48%), Gaps = 23/190 (12%)

Query: 45  SKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDC 104
           S      +  IDFTASN   G      +SLH I     LN YQ  I   G+ L  +D D 
Sbjct: 339 SGFELNFMVAIDFTASN---GNPRLP-DSLHYIDPTGRLNAYQRAIVEVGEVLQFYDSDK 394

Query: 105 -IRCYGFGDDTTRDEGV-----FSFQENDSPCQ--GFEHVLECYRKNVPNVQYFGPTSYA 156
               +GFG    R   +     F+   + + C+  G + ++  Y   + NV + GPT + 
Sbjct: 395 RFPAWGFG---ARPIDIPVSHCFNLNGSSTYCEVDGIQGIMNAYNGALFNVSFAGPTLFG 451

Query: 157 PMVEAAV----DIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVG 212
           P++ AA     D + +S   ++VL+IIT G +       QET  SIV AS  PLSI++VG
Sbjct: 452 PVINAAATIASDSLAQSAKKYYVLLIITDGVIT----DLQETRDSIVSASDLPLSILIVG 507

Query: 213 VGDGPWESIQ 222
           VG   ++ ++
Sbjct: 508 VGGADYKEME 517

Negative regulator of cell death and defense responses. May repress a number of R genes and may have effects in promoting growth and development. May function in membrane trafficking and in fusion of vesicles with plasma membrane.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 74.7 bits (182), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 66/234 (28%), Positives = 113/234 (48%), Gaps = 42/234 (17%)

Query: 42  RDPSKVRY-----KLIF--GIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITG 94
           RD S + Y     +L+F  GIDFTASN   G    +  SLH I    T N Y   I+  G
Sbjct: 292 RDYSFLDYILGGCQLMFTVGIDFTASN---GN-PLDPSSLHYINPMGT-NEYLSAIWAVG 346

Query: 95  KELVLFDGD-CIRCYGFG-----DDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQ 148
           + +  +D D      GFG     D     E   +F   +  C G + + + Y   +P+++
Sbjct: 347 QIIQDYDSDKMFPALGFGAQLPPDWKVSHEFAINFNPTNPFCSGVDGIAQAYSACLPHIR 406

Query: 149 YFGPTSYAPMVE-----AAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASS 203
           ++GPT+++P+V      AA    + +   + +L+IIT G ++      +ET  ++V AS 
Sbjct: 407 FYGPTNFSPIVNHVARFAAQATQQRTATQYFILLIITDGVIS----DMEETRHAVVQASK 462

Query: 204 YPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKD 257
            P+SI++VGVG+  + +++               F++  + M ++ T  E A+D
Sbjct: 463 LPMSIIIVGVGNADFAAME---------------FLDGDSRMLRSHTGEEAARD 501

Homo sapiens (taxid: 9606)

>sp|Q9XUB9|NRA1_CAEEL Nicotinic receptor-associated protein 1 OS=Caenorhabditis elegans GN=nra-1 PE=3 SV=1

 Score = 72.0 bits (175), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 44/138 (31%), Positives = 70/138 (50%), Gaps = 14/138 (10%)

Query: 107 CYGFGDDTTRDEGV-----FSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVE- 160
            +GFG        V        Q   S   G   V+  YR  + NVQ +GPT++AP++E 
Sbjct: 391 AFGFGAKLPNQSSVSAIFPLDLQRGTSEVVGITGVMTAYRHALSNVQLYGPTNFAPIIEN 450

Query: 161 ---AAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGP 217
               A +++ +S   + +L+IIT G ++        TIRSI+ AS  PLSI+++GVG+  
Sbjct: 451 VARKAQNMIHDSA-RYQILLIITDGIIS----DMHATIRSIISASGLPLSIIIIGVGNED 505

Query: 218 WESIQKFHDKIPALQFDN 235
           +E + +       LQ D+
Sbjct: 506 FEKMHELDSDDALLQQDS 523

May function in membrane trafficking. Exhibits calcium-dependent phospholipid binding properties (By similarity). Affects directional sperm motility.

Caenorhabditis elegans (taxid: 6239)

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	358
224112337	396	predicted protein [Populus trichocarpa]	0.899	0.813	0.535	3e-92
357139581	402	PREDICTED: E3 ubiquitin-protein ligase R	0.905	0.805	0.526	2e-90
359494663	450	PREDICTED: E3 ubiquitin-protein ligase R	0.849	0.675	0.530	8e-90
356556700	417	PREDICTED: E3 ubiquitin-protein ligase R	0.955	0.820	0.493	2e-89
356526411	425	PREDICTED: E3 ubiquitin-protein ligase R	0.966	0.814	0.490	4e-89
297736098	5665	unnamed protein product [Vitis vinifera]	0.846	0.053	0.531	1e-88
356528633	451	PREDICTED: E3 ubiquitin-protein ligase R	0.851	0.676	0.527	4e-88
242078093	408	hypothetical protein SORBIDRAFT_07g00270	0.966	0.848	0.491	4e-87
357501221	390	E3 ubiquitin-protein ligase RGLG2 [Medic	0.837	0.769	0.538	2e-86
224098822	342	predicted protein [Populus trichocarpa]	0.851	0.891	0.529	3e-86

>gi|224112337|ref|XP_002316157.1| predicted protein [Populus trichocarpa] gi|222865197|gb|EEF02328.1| predicted protein [Populus trichocarpa]

 Score =  344 bits (883), Expect = 3e-92,   Method: Compositional matrix adjust.
 Identities = 183/342 (53%), Positives = 227/342 (66%), Gaps = 20/342 (5%)

Query: 34  LPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYIT 93
           L +    +R+       L+ GIDFT SN W GK SF N SLH I  GDT NPY++ I I 
Sbjct: 56  LEQVTTALREAGLESSNLVVGIDFTKSNEWTGKVSFNNRSLHAI--GDTPNPYEKAISII 113

Query: 94  GKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGP 152
           GK +  FD D  I C+GFGD TT D+ VFSF  + SPC GFE VL CY+K VPN++  GP
Sbjct: 114 GKTMAPFDEDNLIPCFGFGDATTHDQEVFSFHSDHSPCHGFEEVLACYKKIVPNLRLSGP 173

Query: 153 TSYAPMVEAAVDIVEESGGLHHVLVIITSGQVA----TG----SQQEQETIRSIVDASSY 204
           TSY P++EAA+DIVE+SGG +HVL+II  GQV     TG    S QE++TI++IVDASSY
Sbjct: 174 TSYGPVIEAAIDIVEKSGGQYHVLLIIADGQVTRSVDTGDGEMSPQEEQTIKAIVDASSY 233

Query: 205 PLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFA-AALI 263
           PLSI+LVGVGDGPWE +++F DK+PA +FDNF FVNFTAIMSK  T +EK   FA AAL+
Sbjct: 234 PLSIILVGVGDGPWEDMKRFDDKLPAREFDNFQFVNFTAIMSKNATISEKETAFALAALM 293

Query: 264 NASM---AADELGIMSRMTGRAKKITPKPPPVLSSH---CARQMGPVSAEVAE--AQRCC 315
              +   AA E GI+ R  G+AKKI P+PPPV  S      R+   VS+ V +   Q C 
Sbjct: 294 EIPLQYKAAVEFGIIGRSMGQAKKIVPRPPPVPYSRRPVLDREPTHVSSPVLDERTQACP 353

Query: 316 ICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVY 357
           IC  + KD AF CGHM+C  C  R+  CP CR  IT+R R++
Sbjct: 354 ICLTNRKDLAFGCGHMTCRDCGSRVSSCPICRRPITSRIRLF 395

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357139581|ref|XP_003571359.1| PREDICTED: E3 ubiquitin-protein ligase RGLG2-like [Brachypodium distachyon]

 Score =  338 bits (867), Expect = 2e-90,   Method: Compositional matrix adjust.
 Identities = 180/342 (52%), Positives = 223/342 (65%), Gaps = 18/342 (5%)

Query: 34  LPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYIT 93
           L +  A +R+       LI GIDFT SN W GK SFE +SLH +V+G T NPY++ I I 
Sbjct: 61  LEQVAAALREQGLESSNLILGIDFTKSNEWTGKRSFEGQSLHKLVEG-TGNPYEKAIGII 119

Query: 94  GKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGP 152
           GK L  FD D  I C+GFGD TT D GVFSF  + SPCQGFE VL CYRK VP+++  GP
Sbjct: 120 GKTLAPFDDDNLIPCFGFGDATTHDYGVFSFHGDGSPCQGFEEVLSCYRKIVPHLRLSGP 179

Query: 153 TSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATG--------SQQEQETIRSIVDASSY 204
           TS+AP+VEAAVDIV+ SGG +HVLVI+  GQV           S QE+ T+ +IV AS+Y
Sbjct: 180 TSFAPIVEAAVDIVDRSGGQYHVLVIVADGQVTRSVDTDEGDLSPQERRTVDAIVMASAY 239

Query: 205 PLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFA-AALI 263
           PLSIVLVGVGDGPWE ++KF DK+PA  FDNF FVNFTAIMS+  T  +K   FA AAL+
Sbjct: 240 PLSIVLVGVGDGPWEDMRKFDDKLPARAFDNFQFVNFTAIMSRPATAQQKESAFALAALM 299

Query: 264 NASM---AADELGIMSRMTGRAKKITPKPPPVLSS----HCARQMGPVSAEVAEAQRCCI 316
              +   A  ELGI+ R TG+AK++ P PPP+ +S             +AE  E Q C I
Sbjct: 300 EVPIQYKATMELGILGRSTGKAKRVVPAPPPLPTSLRREASNAATSATTAEPREDQVCPI 359

Query: 317 CCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVYP 358
           C  + KD AF CGHM C +C   + +CP CRE I ++ R+YP
Sbjct: 360 CLTNAKDLAFGCGHMCCRECGDNLTRCPICREAIRSKLRLYP 401

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359494663|ref|XP_002265556.2| PREDICTED: E3 ubiquitin-protein ligase RGLG2-like [Vitis vinifera]

 Score =  337 bits (863), Expect = 8e-90,   Method: Compositional matrix adjust.
 Identities = 185/349 (53%), Positives = 219/349 (62%), Gaps = 45/349 (12%)

Query: 50  KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCY 108
            LI GIDFT SN W GK SF N SLH I  GDT NPY++ I I GK L  FD D  I C+
Sbjct: 104 NLIIGIDFTKSNEWTGKASFNNRSLHAI--GDTPNPYEKAISIIGKTLAPFDEDNLIPCF 161

Query: 109 GFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEE 168
           GFGD TT D  VFSF ++ SPC GFE VL CY++ VPN+Q  GPTSYAP+VEAA+DIVE+
Sbjct: 162 GFGDATTHDSEVFSFHDDRSPCHGFEEVLACYKRIVPNLQLSGPTSYAPVVEAAIDIVEK 221

Query: 169 SGGLHHVLVIITSGQVATG--------SQQEQETIRSIVDASSYPLSIVLVGVGDGPWES 220
           SGG +HVLVII  GQV           S QE++TI SIV ASSYPLSI+LVGVGDGPW+ 
Sbjct: 222 SGGQYHVLVIIADGQVTRSVNANDKELSPQEEKTINSIVTASSYPLSIILVGVGDGPWDD 281

Query: 221 IQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFA-AALINASM---AADELGIMS 276
           ++KF DKIPA  FDNF FVNFTAIMSK  + +EK   FA AAL+   +   A  E GI+ 
Sbjct: 282 MKKFDDKIPARGFDNFQFVNFTAIMSKNASPSEKETAFALAALMEIPIQYKATVEFGILG 341

Query: 277 RMTGRAKKITPKPPPV-----------------------LSSHC-----ARQMGPVSAEV 308
           R+TG+AKK+ P+PPP                        LSS       +RQ+     E 
Sbjct: 342 RVTGKAKKVVPRPPPASYARHAPPPYAMPYGMPSHQPSNLSSRMPSRMPSRQLSNTRDEG 401

Query: 309 AEAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVY 357
            +A  C IC    KD AF CGHM+C +CA ++  CP CRE I  R RVY
Sbjct: 402 NQA--CPICLTSVKDMAFGCGHMTCRECASKVSNCPICREPIRNRLRVY 448

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356556700|ref|XP_003546661.1| PREDICTED: E3 ubiquitin-protein ligase RGLG2-like [Glycine max]

 Score =  335 bits (858), Expect = 2e-89,   Method: Compositional matrix adjust.
 Identities = 179/363 (49%), Positives = 224/363 (61%), Gaps = 21/363 (5%)

Query: 14  GTSRRQSSVDFAEPPRFDDELPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENES 73
           G+ +  +   +A  P     L +    +R        L+ GIDFT SN W G  SF N S
Sbjct: 55  GSGKLSAKEKYALIPDNFTTLEQVTIALRKEGLESSNLVLGIDFTKSNEWTGSVSFNNRS 114

Query: 74  LHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDSPCQG 132
           LH I  G T NPY++ I I GK L  FD D  I C+GFGD TT D+ VFSF  ++SPC G
Sbjct: 115 LHAI--GSTPNPYEKAISIIGKTLAPFDDDNLIPCFGFGDATTHDQEVFSFHSDNSPCHG 172

Query: 133 FEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATG----- 187
           FE VL CY+K VPN++  GPTSYAP++EAA+DIVE+S G  HVLVI+  GQV T      
Sbjct: 173 FEEVLACYQKIVPNLRLSGPTSYAPVIEAAIDIVEKSHGQFHVLVIVADGQVTTSAASED 232

Query: 188 ---SQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAI 244
              S QE  TI++I DASSYPLSI+LVGVGDGPWE ++KF DKIPA  FDNF FVNFT I
Sbjct: 233 GELSPQEARTIKAIADASSYPLSIILVGVGDGPWEDMKKFDDKIPARDFDNFQFVNFTDI 292

Query: 245 MSKTTTTAEKAKDFA-AALINASM---AADELGIMSRMTGRAKKITPKPPPVLSSHC--- 297
           M+K ++ +EK   FA AAL+       AA ELG++ R TGR+ KI P+PPP   S     
Sbjct: 293 MAKKSSPSEKEAAFALAALMEIPFQYKAATELGLLGRATGRSNKIVPRPPPAPYSQLVPP 352

Query: 298 ARQMGPVSAEVAEAQR---CCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRR 354
           AR +      + + +    C IC  ++KD AF CGHM+C  C  R+  CP CR+ IT R 
Sbjct: 353 ARVLSNTPTFMDDERNQMACAICLTNKKDLAFGCGHMTCRDCGSRLTDCPICRQRITNRL 412

Query: 355 RVY 357
           RV+
Sbjct: 413 RVF 415

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356526411|ref|XP_003531811.1| PREDICTED: E3 ubiquitin-protein ligase RGLG2-like [Glycine max]

 Score =  334 bits (856), Expect = 4e-89,   Method: Compositional matrix adjust.
 Identities = 180/367 (49%), Positives = 226/367 (61%), Gaps = 21/367 (5%)

Query: 10  FAAAGTSRRQSSVDFAEPPRFDDELPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSF 69
           F   G+ +  +   +A  P     L +    +R        L+ GIDFT SN W G  SF
Sbjct: 59  FFNTGSGKLSAKEKYALIPDNFTTLEQVTTALRKEGLESSNLVLGIDFTKSNEWTGSVSF 118

Query: 70  ENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDS 128
            N+SLH I  G T NPY++ I I GK L  FD D  I C+GFGD TT D+ VFSF  + S
Sbjct: 119 NNKSLHAI--GSTANPYEKAISIIGKTLAPFDDDNLIPCFGFGDATTHDQEVFSFHSDHS 176

Query: 129 PCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATG- 187
           PC GFE VL CY+K VPN++  GPTSYAP++EAA+DIVE+S G  HVLVI+  GQV T  
Sbjct: 177 PCHGFEEVLACYQKVVPNLRLSGPTSYAPVIEAAIDIVEKSHGQFHVLVIVADGQVTTSA 236

Query: 188 -------SQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVN 240
                  S QE  TI++IVDASSYPLSI+LVGVGDGPWE ++KF DKIPA  FDNF FVN
Sbjct: 237 ASEHGELSPQEARTIKAIVDASSYPLSIILVGVGDGPWEDMKKFDDKIPARDFDNFQFVN 296

Query: 241 FTAIMSKTTTTAEKAKDFA-AALINASM---AADELGIMSRMTGRAKKITPKPPPVLSSH 296
           FT IM+K ++ +EK   FA AAL+       AA EL ++ R TGR+ KI P+PPP   S 
Sbjct: 297 FTDIMTKKSSPSEKETAFALAALMEIPFQYKAAIELELLGRATGRSNKIVPRPPPAPYSR 356

Query: 297 C---ARQMGPVSAEVAEAQR---CCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEI 350
               AR +  +   + + +    C IC  ++KD AF CGHM+C  C  R+  CP CR+ I
Sbjct: 357 LVPPARVLSNMPTFMDDERNQMACAICLTNKKDLAFGCGHMTCRDCGSRLTNCPICRQRI 416

Query: 351 TTRRRVY 357
           T R RV+
Sbjct: 417 TNRLRVF 423

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297736098|emb|CBI24136.3| unnamed protein product [Vitis vinifera]

 Score =  333 bits (853), Expect = 1e-88,   Method: Compositional matrix adjust.
 Identities = 185/348 (53%), Positives = 219/348 (62%), Gaps = 45/348 (12%)

Query: 51   LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYG 109
            LI GIDFT SN W GK SF N SLH I  GDT NPY++ I I GK L  FD D  I C+G
Sbjct: 5320 LIIGIDFTKSNEWTGKASFNNRSLHAI--GDTPNPYEKAISIIGKTLAPFDEDNLIPCFG 5377

Query: 110  FGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES 169
            FGD TT D  VFSF ++ SPC GFE VL CY++ VPN+Q  GPTSYAP+VEAA+DIVE+S
Sbjct: 5378 FGDATTHDSEVFSFHDDRSPCHGFEEVLACYKRIVPNLQLSGPTSYAPVVEAAIDIVEKS 5437

Query: 170  GGLHHVLVIITSGQVATG--------SQQEQETIRSIVDASSYPLSIVLVGVGDGPWESI 221
            GG +HVLVII  GQV           S QE++TI SIV ASSYPLSI+LVGVGDGPW+ +
Sbjct: 5438 GGQYHVLVIIADGQVTRSVNANDKELSPQEEKTINSIVTASSYPLSIILVGVGDGPWDDM 5497

Query: 222  QKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFA-AALINASM---AADELGIMSR 277
            +KF DKIPA  FDNF FVNFTAIMSK  + +EK   FA AAL+   +   A  E GI+ R
Sbjct: 5498 KKFDDKIPARGFDNFQFVNFTAIMSKNASPSEKETAFALAALMEIPIQYKATVEFGILGR 5557

Query: 278  MTGRAKKITPKPPPV-----------------------LSSHC-----ARQMGPVSAEVA 309
            +TG+AKK+ P+PPP                        LSS       +RQ+     E  
Sbjct: 5558 VTGKAKKVVPRPPPASYARHAPPPYAMPYGMPSHQPSNLSSRMPSRMPSRQLSNTRDEGN 5617

Query: 310  EAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVY 357
            +A  C IC    KD AF CGHM+C +CA ++  CP CRE I  R RVY
Sbjct: 5618 QA--CPICLTSVKDMAFGCGHMTCRECASKVSNCPICREPIRNRLRVY 5663

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356528633|ref|XP_003532904.1| PREDICTED: E3 ubiquitin-protein ligase RGLG2-like [Glycine max]

 Score =  331 bits (848), Expect = 4e-88,   Method: Compositional matrix adjust.
 Identities = 170/322 (52%), Positives = 214/322 (66%), Gaps = 17/322 (5%)

Query: 51  LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYG 109
           LI GIDFT SN W G+ SF   SLH I  G T NPY++ I I GK L  FD D  I C+G
Sbjct: 130 LILGIDFTKSNEWTGRISFNKRSLHAI--GSTPNPYEKAISIIGKTLAPFDDDNLIPCFG 187

Query: 110 FGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES 169
           FGD TT D+ VFSF  + SP  GFE VL CY+K VPN++  GPTSYAP++EAA+DIVE++
Sbjct: 188 FGDATTHDQEVFSFHSDHSPYHGFEEVLACYQKIVPNLKLSGPTSYAPVIEAAIDIVEKN 247

Query: 170 GGLHHVLVIITSGQVATG--------SQQEQETIRSIVDASSYPLSIVLVGVGDGPWESI 221
            G  HVLVI+  GQV           S QE++TI+++VDAS+YPL+IVLVGVGDGPWE +
Sbjct: 248 RGQFHVLVIVADGQVTRSVDTSDGELSPQEEKTIKAVVDASAYPLAIVLVGVGDGPWEDM 307

Query: 222 QKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFA-AALINASM---AADELGIMSR 277
           +KF DKIPA  +DNF FVNFT IMSK  + +EK   FA AAL+       A  E GI+ R
Sbjct: 308 RKFDDKIPARDYDNFQFVNFTEIMSKNISPSEKEAAFALAALMEIPFQYKATMEFGILGR 367

Query: 278 MTGRAKKITPKPPPVLSSHCARQMGPVSAEVAEAQR--CCICCEDEKDTAFECGHMSCIK 335
           +TGRAK+I PKPPPV  S  A  +   ++   +  +  C +C  + +D AF CGHM+C +
Sbjct: 368 VTGRAKRIVPKPPPVPYSRPAPSINTAASSGDDQNQTACPVCLTNARDLAFGCGHMTCRE 427

Query: 336 CALRMPQCPFCREEITTRRRVY 357
           C  ++  CP CRE IT+R RVY
Sbjct: 428 CGHKLTNCPMCRERITSRLRVY 449

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242078093|ref|XP_002443815.1| hypothetical protein SORBIDRAFT_07g002700 [Sorghum bicolor] gi|241940165|gb|EES13310.1| hypothetical protein SORBIDRAFT_07g002700 [Sorghum bicolor]

 Score =  327 bits (839), Expect = 4e-87,   Method: Compositional matrix adjust.
 Identities = 180/366 (49%), Positives = 228/366 (62%), Gaps = 20/366 (5%)

Query: 11  AAAGTSRRQSSVDFAEPPRFDDELPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFE 70
           AA G  +   S  ++  P     L +  A +R+       LI GIDFT SN W GK SF 
Sbjct: 42  AAGGHRKAMLSKKYSYIPDTYTSLDQVAAALREQGLESSNLILGIDFTKSNEWTGKQSFG 101

Query: 71  NESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDSP 129
            +SLH I D D  NPY++ I I GK L  FD D  I C+GFGD TT D  VFSF  +++P
Sbjct: 102 GQSLHRISD-DAPNPYEQAISIIGKTLAPFDEDNLIPCFGFGDATTHDNNVFSFHRDNTP 160

Query: 130 CQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVA---- 185
           C GFE VL CYR  VP+++  GPTS+AP+VEAAVDIV+ SGG +HVLVI+  GQV     
Sbjct: 161 CHGFEEVLACYRTVVPHLRLSGPTSFAPIVEAAVDIVDRSGGQYHVLVIVADGQVTRSVD 220

Query: 186 TG----SQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNF 241
           TG    S QE+ T+ SIV ASSYPLSIVLVGVGDGPW+ +++F DK+PA  FDNF FVNF
Sbjct: 221 TGDGDLSPQEKRTVDSIVMASSYPLSIVLVGVGDGPWDDMRRFDDKLPARDFDNFQFVNF 280

Query: 242 TAIMSKTTTTAEKAKDFA-AALINASM---AADELGIMSRMTGRAKKITPKPPPV----L 293
           T+IMS+  T  +K   FA AAL+   +   A  ELGI+ R TG AK+++P PPP+     
Sbjct: 281 TSIMSRAATAQQKESAFALAALMEVPIQYKATMELGILGRSTGNAKRVSPAPPPLPNAQR 340

Query: 294 SSHCARQMGPVSAEVA--EAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEIT 351
            S   R    V A  A  + Q C IC  + KD AF CGHM+C +C   + +CP CR+ I 
Sbjct: 341 QSSLRRGASNVGAAAAPRDDQVCPICLTNAKDLAFGCGHMTCRECGESLTRCPICRQPIR 400

Query: 352 TRRRVY 357
           ++ R+Y
Sbjct: 401 SKLRLY 406

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357501221|ref|XP_003620899.1| E3 ubiquitin-protein ligase RGLG2 [Medicago truncatula] gi|355495914|gb|AES77117.1| E3 ubiquitin-protein ligase RGLG2 [Medicago truncatula]

 Score =  325 bits (833), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 173/321 (53%), Positives = 205/321 (63%), Gaps = 21/321 (6%)

Query: 51  LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYG 109
           LI GIDFT SN W G+ SF  +SLH I  GDT NPY++ I I GK L  FD D  I C+G
Sbjct: 75  LILGIDFTKSNEWTGQISFNKKSLHAI--GDTPNPYEKAISIVGKTLAPFDEDNLIPCFG 132

Query: 110 FGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES 169
           FGD TT D+ VFSF  + SPC GFE VL CY+  VPN++  GPTSYAP++EAA+DIVE+S
Sbjct: 133 FGDATTHDQEVFSFHSDHSPCHGFEEVLACYKNIVPNLKLSGPTSYAPVIEAAIDIVEKS 192

Query: 170 GGLHHVLVIITSGQVATG-----SQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKF 224
            G  HVLVII  GQV        S QE++TI++I DAS YPL+IVLVGVGDGPWE ++KF
Sbjct: 193 HGQFHVLVIIADGQVTKSVDNEVSPQEKKTIKAIADASKYPLAIVLVGVGDGPWEDMEKF 252

Query: 225 HDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALINASM-------AADELGIMSR 277
            DKIP   FDNF FVNFT IMSK T+ AEK   FA   +N  M       A  E   +  
Sbjct: 253 DDKIPTRDFDNFQFVNFTKIMSKNTSAAEKEAAFA---VNTLMEIPFQYKACVEFRKLGH 309

Query: 278 MTGRAKKITPKPPPVLSSHCARQMGPVSAEVAEAQRCC-ICCEDEKDTAFECGHMSCIKC 336
           +TGRAK+I PKP PV  S  A        +   A  CC +C  + KD AF CGHM+C  C
Sbjct: 310 VTGRAKRIVPKPSPVPYSRPAHSNSTTDDQNQSA--CCPVCLTNAKDLAFGCGHMTCRDC 367

Query: 337 ALRMPQCPFCREEITTRRRVY 357
             R+  CP CR  IT+R RVY
Sbjct: 368 GSRLRHCPICRHRITSRLRVY 388

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224098822|ref|XP_002311280.1| predicted protein [Populus trichocarpa] gi|222851100|gb|EEE88647.1| predicted protein [Populus trichocarpa]

 Score =  324 bits (831), Expect = 3e-86,   Method: Compositional matrix adjust.
 Identities = 173/327 (52%), Positives = 215/327 (65%), Gaps = 22/327 (6%)

Query: 50  KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCY 108
            LI GIDFT SN W GK SF N  LH I  GDT NPY++ I I G  +  FD D  + C+
Sbjct: 18  NLIVGIDFTKSNEWTGKVSFNNRCLHVI--GDTPNPYEKAISIIGNTMSPFDEDNLVPCF 75

Query: 109 GFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEE 168
           GFGD TT D+ VFSF  + SPC GFE VL CY+K VPN++  GPTSY P++EAA+DIV++
Sbjct: 76  GFGDATTHDQEVFSFHGDHSPCHGFEEVLTCYKKIVPNLRLAGPTSYGPVIEAAIDIVQK 135

Query: 169 SGGLHHVLVIITSGQVATG--------SQQEQETIRSIVDASSYPLSIVLVGVGDGPWES 220
           S G +HVL+II  GQV           S QE++TI++IVDASSYPLSI+LVGVGDGPWE 
Sbjct: 136 SKGQYHVLIIIADGQVTRSDNSSDRELSPQEEQTIKAIVDASSYPLSIILVGVGDGPWED 195

Query: 221 IQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFA-AALINASM---AADELGIMS 276
           +++F DKIP  +FDNF FVNFT IM+K  T +EK   FA  AL+       AA E G++ 
Sbjct: 196 MKRFDDKIPDRKFDNFQFVNFTEIMAKKATLSEKEAAFALTALMEIPFQYKAAVEFGVIG 255

Query: 277 RMTGRAKKITPKPPPV----LSSHCARQMGPVSAEVAE--AQRCCICCEDEKDTAFECGH 330
             TGRAKKI P+PPPV     S  C R+   VS+ V +   Q C IC  D KD AF CGH
Sbjct: 256 CSTGRAKKIVPRPPPVPYSSRSVQC-REPTNVSSPVLDERTQACPICLTDGKDLAFGCGH 314

Query: 331 MSCIKCALRMPQCPFCREEITTRRRVY 357
           M+C  C  R+  CP CR+ IT+R +++
Sbjct: 315 MTCRDCGSRVSNCPICRQPITSRMKLF 341

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	358
TAIR|locus:2206395	401	RGLG4 "RING DOMAIN LIGASE 4" [	0.980	0.875	0.458	1.4e-80
TAIR|locus:2008570	453	AT1G67800 [Arabidopsis thalian	0.689	0.545	0.530	6e-72
TAIR|locus:2145643	468	RGLG2 "RING domain ligase2" [A	0.670	0.512	0.498	1.6e-69
TAIR|locus:2084218	489	RGLG1 "RING domain ligase1" [A	0.675	0.494	0.498	9.8e-68
TAIR|locus:2160821	367	RGLG3 "RING DOMAIN LIGASE 3" [	0.768	0.749	0.438	1.6e-54
DICTYBASE|DDB_G0272196	284	DDB_G0272196 "copine family pr	0.614	0.774	0.441	7.1e-45
WB|WBGene00006495	1107	cpna-1 [Caenorhabditis elegans	0.583	0.188	0.438	1.1e-38
UNIPROTKB|Q7Z6C8	301	CPNE5 "CPNE5 protein" [Homo sa	0.631	0.750	0.308	4.9e-16
ZFIN|ZDB-GENE-040426-1398	574	cpne5 "copine V" [Danio rerio	0.614	0.383	0.312	2.3e-15
MGI|MGI:2443052	553	Cpne9 "copine family member IX	0.636	0.412	0.293	6.3e-15

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

 Score = 809 (289.8 bits), Expect = 1.4e-80, P = 1.4e-80
 Identities = 170/371 (45%), Positives = 226/371 (60%)

Query:     4 PSNNWPFAAAGTSRRQSSVDFAE-PPRFDDELPEAPAGVRDPSKVRYKLIFGIDFTASNL 62
             PS + P  +   +   +   +A  P RF   L +    +R+       LI G+DFT SN 
Sbjct:    33 PSPSDPSLSLADNTNATKKKYALIPDRFSS-LDQVSKALREAGLESSNLILGVDFTKSNE 91

Query:    63 WAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVF 121
             W GK SF+ + LH +  G+T NPY++ I++ G+ L  FD D  I C+GFGD TT DE VF
Sbjct:    92 WTGKTSFDGKCLHAL--GETSNPYEKAIFVIGQTLAPFDEDNLIPCFGFGDSTTHDEEVF 149

Query:   122 SFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITS 181
              F  ++SPC GFE VL CY++  PN++  GPTSY P+++AAVDIVE++ G  HVLVI+  
Sbjct:   150 GFHSDNSPCHGFEEVLACYKRIAPNLRLSGPTSYGPLIDAAVDIVEKNNGQFHVLVIVAD 209

Query:   182 GQVATG--------SQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHDKIPALQF 233
             GQV  G        SQQE+ TI +IV+ASSY LSIVLVGVGDGPWE ++KF DKIP  +F
Sbjct:   210 GQVTRGTDMAEGELSQQEKTTIDAIVNASSYALSIVLVGVGDGPWEDMRKFDDKIPKREF 269

Query:   234 DNFHFVNFTAIMSKTTTTAEKAKDFA-AALINASM---AADELGIMSRMTGRAKKITPKP 289
             DNF FVNFT IM++ +  + K   FA AAL+       AA EL ++ + TG AK I P+P
Sbjct:   270 DNFQFVNFTEIMTRNSPESAKETAFALAALMEIPFQYQAAIELRLLGKQTGLAKTIVPRP 329

Query:   290 PPVLSSHCARQMGPVSAEVA---EAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFC 346
             PP+  +       P +A  A   + Q C IC  + KD AF CGHM+C  C  ++  CP C
Sbjct:   330 PPIPYTPPTNAELPSTASPASPEQTQSCPICLTNRKDVAFSCGHMTCGDCGSKISNCPIC 389

Query:   347 REEITTRRRVY 357
             R  IT R ++Y
Sbjct:   390 RVRITNRLKLY 400

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

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

 Score = 634 (228.2 bits), Expect = 6.0e-72, Sum P(2) = 6.0e-72
 Identities = 139/262 (53%), Positives = 168/262 (64%)

Query:    51 LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYG 109
             LI GID T SN W G  SF  +SLH I  G T NPYQ+ I I GK L +FD D  I CYG
Sbjct:   114 LIVGIDVTKSNEWTGARSFGRKSLHFI--GTTPNPYQQAISIIGKTLSVFDEDNLIPCYG 171

Query:   110 FGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES 169
             FGD TT D+ VFSF  ND+ C GFE VL CYR+ VP ++  GPTS+AP++E A+ IVEES
Sbjct:   172 FGDATTHDQDVFSFNPNDTYCNGFEEVLMCYREIVPQLRLSGPTSFAPIIERAMTIVEES 231

Query:   170 GGLHHVLVIITSGQVATG--------SQQEQETIRSIVDASSYPLSIVLVGVGDGPWESI 221
             GG +HVL+II  GQV           S QEQ+TI +IV AS YPLSIVLVGVGDGPW+++
Sbjct:   232 GGQYHVLLIIADGQVTRSVDTDNGGFSPQEQQTIDAIVRASEYPLSIVLVGVGDGPWDTM 291

Query:   222 QKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFA-AALINASM---AADELGIMSR 277
             ++F D IPA  FDNF FVNFT IMSK    A K  +FA +AL+       A  ELG++ +
Sbjct:   292 RQFDDNIPARAFDNFQFVNFTDIMSKNIDPARKEAEFALSALMEIPSQYKATLELGLLGQ 351

Query:   278 MTGRAKKITPKPPPVLSSHCAR 299
              TG        PPP  ++   R
Sbjct:   352 RTGHCPDRIALPPPTYATQSMR 373

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

 Score = 587 (211.7 bits), Expect = 1.6e-69, Sum P(2) = 1.6e-69
 Identities = 127/255 (49%), Positives = 161/255 (63%)

Query:    51 LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYG 109
             LI GIDFT SN W G  SF  +SLH I  G + NPY++ I I G+ L  FD D  I CYG
Sbjct:   123 LIVGIDFTKSNEWTGARSFNRKSLHFI--GSSPNPYEQAITIIGRTLAAFDEDNLIPCYG 180

Query:   110 FGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES 169
             FGD +T D+ VFSF   D  C GFE VL  Y++ VP ++  GPTS+AP+++ A+ IVE+S
Sbjct:   181 FGDASTHDQDVFSFNSEDRFCNGFEEVLSRYKEIVPQLKLAGPTSFAPIIDMAMTIVEQS 240

Query:   170 GGLHHVLVIITSGQVATG--------SQQEQETIRSIVDASSYPLSIVLVGVGDGPWESI 221
             GG +HVLVII  GQV           S QEQ+T+ +IV AS  PLSIVLVGVGDGPW+ +
Sbjct:   241 GGQYHVLVIIADGQVTRSVDTENGQLSPQEQKTVDAIVQASKLPLSIVLVGVGDGPWDMM 300

Query:   222 QKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFA-AALINASM---AADELGIMSR 277
             ++F D IPA  FDNF FVNFT IM+K    + K  +FA +AL+       A  EL ++ R
Sbjct:   301 REFDDNIPARAFDNFQFVNFTEIMAKNKAQSLKETEFALSALMEIPQQYKATIELNLLGR 360

Query:   278 MTGRAKKITPKPPPV 292
               G   +  P PPP+
Sbjct:   361 RNGYIPERFPLPPPM 375

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 = 581 (209.6 bits), Expect = 9.8e-68, Sum P(2) = 9.8e-68
 Identities = 128/257 (49%), Positives = 160/257 (62%)

Query:    51 LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYG 109
             LI GIDFT SN W G  SF  +SLH +   +T NPY++ I I G+ L  FD D  I CYG
Sbjct:   157 LIVGIDFTKSNEWTGAKSFNRKSLHHL--SNTPNPYEQAITIIGRTLAAFDEDNLIPCYG 214

Query:   110 FGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES 169
             FGD +T D+ VFSF      C GFE VL  YR+ VP ++  GPTS+AP++E A+ +VE+S
Sbjct:   215 FGDASTHDQDVFSFYPEGRFCNGFEEVLARYREIVPQLKLAGPTSFAPIIEMAMTVVEQS 274

Query:   170 GGLHHVLVIITSGQVATG--------SQQEQETIRSIVDASSYPLSIVLVGVGDGPWESI 221
              G +HVLVII  GQV           S QEQ+T+ +IV AS+ PLSIVLVGVGDGPW+ +
Sbjct:   275 SGQYHVLVIIADGQVTRSVDTEHGRLSPQEQKTVDAIVKASTLPLSIVLVGVGDGPWDMM 334

Query:   222 QKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFA-AALINAS---MAADELGIMSR 277
             Q+F D IPA  FDNF FVNFT IMSK    + K  +FA +AL+       A  EL ++  
Sbjct:   335 QEFDDNIPARAFDNFQFVNFTEIMSKNKDQSRKETEFALSALMEIPPQYKATIELNLLGV 394

Query:   278 MTGRAKKITPKPPPVLS 294
               G   +  P PPPV S
Sbjct:   395 RNGNIPQRIPLPPPVQS 411

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

 Score = 563 (203.2 bits), Expect = 1.6e-54, P = 1.6e-54
 Identities = 128/292 (43%), Positives = 174/292 (59%)

Query:    34 LPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYIT 93
             L +    +R+       LI GIDFT SN W G++SF  +SLH I  G   NPY++ I I 
Sbjct:    21 LDQVITSLREAGLESSNLILGIDFTKSNEWTGRYSFNRKSLHAI--GKRQNPYEKAISII 78

Query:    94 GKELVLFD-GDCIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGP 152
             G+ L  FD  D I C+GFGD TTRD+ VFSF   +  C G E+ ++ YR+ VP+++  GP
Sbjct:    79 GRTLSPFDEDDLIPCFGFGDVTTRDQYVFSFYPENKSCDGLENAVKRYREIVPHLKLSGP 138

Query:   153 TSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATG--------SQQEQETIRSIVDASSY 204
             TS+AP+++AA++IVE++   +HVLVII  GQV           S QE+ T+ SI+ AS Y
Sbjct:   139 TSFAPVIDAAINIVEQNNMQYHVLVIIADGQVTRNPDVPLGRLSPQEEATMNSIMAASHY 198

Query:   205 PLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFA-AALI 263
             PLSIVLVGVGDGPW+++++F D IP  +FDNF FVNFT IMS+    A+K   FA AAL+
Sbjct:   199 PLSIVLVGVGDGPWDTMKQFDDNIPHREFDNFQFVNFTKIMSEHKDAAKKEAAFALAALM 258

Query:   264 NASMAADELGIMSRMTGRAK----KITPKPPPVLS-SHCARQMGPVSAEVAE 310
                        ++R   R+     K  P PP V+   +  R +     E AE
Sbjct:   259 EIPFQYKATLSLNRKPVRSSHQHHKPLPPPPEVIERDNAVRSVPNQMTETAE 310

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

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

 Score = 472 (171.2 bits), Expect = 7.1e-45, P = 7.1e-45
 Identities = 102/231 (44%), Positives = 137/231 (59%)

Query:    34 LPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYIT 93
             L E    +R        LI GID+T SN W GK +F  + LH I  G  LNPYQE I I 
Sbjct:    48 LQEVQDALRTAGLESSNLIIGIDYTKSNTWNGKKTFGGKCLHDIQPG-MLNPYQEAIEII 106

Query:    94 GKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGP 152
             GK L +FD D  +  YGFGD  T D+ VFSF   + PC GF  VL+ Y +  P V   GP
Sbjct:   107 GKTLSVFDDDNLLPTYGFGDSRTTDKSVFSFT-TERPCFGFNEVLQKYNEITPLVSLSGP 165

Query:   153 TSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVG 212
             TS+AP++   ++I   +   +H+LVII  G+V+  +    ETI++I +AS YP+SI+ +G
Sbjct:   166 TSFAPIIRETINITAAAKA-YHILVIIADGEVSVVN----ETIKAIEEASKYPISIICIG 220

Query:   213 VGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALI 263
             VGDGPW++++KF D +P  QFDNF FV F   M+K      +  DFA A +
Sbjct:   221 VGDGPWDTMEKFDDDLPERQFDNFQFVPFHTTMAKAEN---REVDFAVAAL 268

GO:0044351 "macropinocytosis" evidence=RCA

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

 Score = 425 (154.7 bits), Expect = 1.1e-38, P = 1.1e-38
 Identities = 96/219 (43%), Positives = 130/219 (59%)

Query:    32 DELPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIY 91
             D L EA   +R        LIFGID+TASN + G+ SF   SLHTI    T NPYQ+VI 
Sbjct:   848 DSLSEA---MRKAGLETTNLIFGIDYTASNKYQGEESFGGRSLHTIHPHVT-NPYQQVIS 903

Query:    92 ITGKELVLFDGDC-IRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYF 150
             I G+ L  F G   +  YGFGD  T D  VF+ +     C+  + VL  Y    P V   
Sbjct:   904 ILGRTLAPFAGQGRLGVYGFGDAKTGDWSVFNLKGEGGDCRSLDEVLNVYNTVTPTVALS 963

Query:   151 GPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVL 210
             GPT++AP++  A++I ++S   +H+LVII  GQV      E+ T R+IV A  +PLSI++
Sbjct:   964 GPTNFAPLIYQAMEICQKSRD-YHILVIIADGQVTN----ERATRRAIVQACQHPLSIIV 1018

Query:   211 VGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTT 249
             VGVGDGPW+ ++ F + +P   +DNFHFV F  I+ K+T
Sbjct:  1019 VGVGDGPWDMMRIFDESLPKRPWDNFHFVEFHEIVKKST 1057

GO:0016021 "integral to membrane" evidence=IEA

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

UNIPROTKB|Q7Z6C8 CPNE5 "CPNE5 protein" [Homo sapiens (taxid:9606)]

 Score = 213 (80.0 bits), Expect = 4.9e-16, P = 4.9e-16
 Identities = 82/266 (30%), Positives = 130/266 (48%)

Query:    55 IDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDD 113
             IDFTASN   G  S ++ SLH  +    LN Y   +   G+ +  +D D      GFG  
Sbjct:    41 IDFTASN---GNPS-QSTSLH-YMSPYQLNAYALALTAVGEIIQHYDSDKMFPALGFGAK 95

Query:   114 TTRDEGV-FSF-----QENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVE--AAVDI 165
                D  V   F     QEN S C G + +LE Y +++  VQ +GPT++AP+V   A    
Sbjct:    96 LPPDGRVSHEFPLNGNQENPSCC-GIDGILEAYHRSLRTVQLYGPTNFAPVVTHVARNAA 154

Query:   166 VEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFH 225
               + G  + VL+IIT G ++  +Q ++    +IV+A+  P+SI++VGVG   ++++ +  
Sbjct:   155 AVQDGSQYSVLLIITDGVISDMAQTKE----AIVNAAKLPMSIIIVGVGQAEFDAMVELD 210

Query:   226 -DKI------PALQFDNFHFVNFTAIMSKT----TTTAEKAKDFAAALINASMAADELGI 274
              D +         + D   FV F   + +T     + A  A+D  A +       D+L  
Sbjct:   211 GDDVRISSRGKLAERDIVQFVPFRDYVDRTGNHVLSMARLARDVLAEI------PDQL-- 262

Query:   275 MSRMTGRAKKITPKPPPVLSSHCARQ 300
             +S M  +A+ I P+PPP   +H   Q
Sbjct:   263 VSYM--KAQGIRPRPPPAAPTHSPSQ 286

GO:0043005 "neuron projection" evidence=IEA

GO:0043025 "neuronal cell body" evidence=IEA

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

 Score = 219 (82.2 bits), Expect = 2.3e-15, P = 2.3e-15
 Identities = 80/256 (31%), Positives = 124/256 (48%)

Query:    55 IDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDD 113
             IDFTASN   G  S ++ SLH  ++   +N Y   +   G+ +  +D D      GFG  
Sbjct:   324 IDFTASN---GNPS-QSTSLH-YMNPYQMNAYALALKAVGEIIQDYDSDKMFPALGFGAK 378

Query:   114 TTRDEGV---FSFQEN-DSP-CQGFEHVLECYRKNVPNVQYFGPTSYAPMVE--AAVDIV 166
                D  V   F    N ++P C G E +LE Y +++  VQ +GPT++AP+V   A     
Sbjct:   379 LPPDGRVSHEFPLNGNIENPYCNGIEGILEAYHQSLKTVQLYGPTNFAPVVNHVARYAAA 438

Query:   167 EESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFH- 225
              + G  + +L+IIT G ++  SQ ++    +IV+A+  P+SI++VGVG   ++++ +   
Sbjct:   439 VQDGSQYFILLIITDGVISDMSQTKE----AIVNAAKLPMSIIIVGVGQAEFDAMVELDG 494

Query:   226 DKI------PALQFDNFHFVNFTAIMSKT----TTTAEKAKDFAAALINASMAADELGIM 275
             D I         + D   FV F   M +T     + A  AKD  A +       D+   +
Sbjct:   495 DDIRISSRGKLAERDIVQFVPFRDYMDRTGNHVLSMARLAKDVLAEI------PDQF--I 546

Query:   276 SRMTGRAKKITPKPPP 291
             S M  R  K  P PPP
Sbjct:   547 SYMKSRGIKPNPAPPP 562

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

MGI|MGI:2443052 Cpne9 "copine family member IX" [Mus musculus (taxid:10090)]

 Score = 215 (80.7 bits), Expect = 6.3e-15, P = 6.3e-15
 Identities = 74/252 (29%), Positives = 119/252 (47%)

Query:    55 IDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCI-RCYGFGDD 113
             IDFTASN   G    +  SLH  +    L+ Y   +   G+ +  +D D +   YGFG  
Sbjct:   304 IDFTASN---GN-PLQPTSLH-YMSPYQLSAYAMALKAVGEIIQDYDSDKLFPAYGFGAK 358

Query:   114 TTRDEGV---FSFQENDS-P-CQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEE 168
                +  +   F    ND  P C G E VLE Y +++  VQ +GPT +AP++        +
Sbjct:   359 LPPEGRISHQFPLNNNDEDPNCAGIEGVLESYFQSLRTVQLYGPTYFAPVINQVARAAAK 418

Query:   169 --SGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFH- 225
                G  ++VL+IIT G ++  +Q ++    +IV ASS P+SI++VGVG   +E++++   
Sbjct:   419 ISDGSQYYVLLIITDGVISDMTQTKE----AIVSASSLPMSIIIVGVGPAMFEAMEELDG 474

Query:   226 DKIPALQFDNF---HFVNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSRMTGRA 282
             D +       +     V F         +  +    A  L    +A     ++S M  R 
Sbjct:   475 DDVRVSSRGRYAERDIVQFVPFRDYVDRSGNQVLSMAR-LAKDVLAEIPEQLLSYM--RT 531

Query:   283 KKITPKPPPVLS 294
             + I P+PPP +S
Sbjct:   532 RDIQPRPPPPVS 543

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	358
cd01459	254	cd01459, vWA_copine_like, VWA Copine: Copines are	8e-67
pfam07002	146	pfam07002, Copine, Copine	4e-49
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	2e-09
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	4e-07
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	2e-06
smart00184	40	smart00184, RING, Ring finger	4e-04
smart00327	175	smart00327, VWA, von Willebrand factor (vWF) type	4e-04
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	0.001
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	0.001

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

 Score =  211 bits (538), Expect = 8e-67
 Identities = 90/213 (42%), Positives = 120/213 (56%), Gaps = 22/213 (10%)

Query: 49  YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRC 107
             LI  IDFT SN W G+      SLH I     LNPYQ+ I I G+ L  +D D  I  
Sbjct: 32  SNLIVAIDFTKSNGWPGEKR----SLHYI-SPGRLNPYQKAIRIVGEVLQPYDSDKLIPA 86

Query: 108 YGFGDDTTRDEGVFSF---QENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVD 164
           +GFG   T+D+ VFSF         CQGFE VL  YR+ +PNV   GPT++AP++ AA +
Sbjct: 87  FGFGAIVTKDQSVFSFFPGYSESPECQGFEGVLRAYREALPNVSLSGPTNFAPVIRAAAN 146

Query: 165 IVEES--GGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQ 222
           I + S     +H+L+IIT G++        ETI++IV+AS YPLSIV+VGVGDGP+++++
Sbjct: 147 IAKASNSQSKYHILLIITDGEITD----MNETIKAIVEASKYPLSIVIVGVGDGPFDAME 202

Query: 223 KFHDK-------IPALQFDNFHFVNFTAIMSKT 248
           +  D              D   FV FT  MS  
Sbjct: 203 RLDDDDGLESSDGRIATRDIVQFVPFTEFMSNA 235

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 =  161 bits (410), Expect = 4e-49
 Identities = 62/151 (41%), Positives = 83/151 (54%), Gaps = 14/151 (9%)

Query: 73  SLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGV-----FSFQEN 126
           SLH I      NPY++ I I G+ L  +D D     +GFG     D  V      +F   
Sbjct: 1   SLHYI-SPHQPNPYEQAIRIVGEILQPYDSDKRFPAFGFGARLPPDYEVSHDFPLNFNPE 59

Query: 127 DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEE---SGGLHHVLVIITSGQ 183
           +  C G E VL  YR+ +PN+Q  GPT++AP+++AA  I E      G +HVL+IIT GQ
Sbjct: 60  NPECNGIEGVLNAYREALPNLQLSGPTNFAPIIDAAARIAEASTQKSGQYHVLLIITDGQ 119

Query: 184 VATGSQQEQETIRSIVDASSYPLSIVLVGVG 214
           V       + TI +IV AS  PLSI++VGVG
Sbjct: 120 VT----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|222454 pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RING finger)

 Score = 52.4 bits (126), Expect = 2e-09
 Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 5/49 (10%)

Query: 310 EAQRCCICCEDEKDTAF-ECGHMS-CIKCALRM---PQCPFCREEITTR 353
           E   C IC E  ++  F  CGH+  C +CA R+    +CP CR+ I + 
Sbjct: 1   EDDLCVICLERPRNVVFLPCGHLCLCEECAKRLRSKKKCPICRQPIESV 49

Length = 49

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

 Score = 46.0 bits (109), Expect = 4e-07
 Identities = 16/45 (35%), Positives = 21/45 (46%), Gaps = 6/45 (13%)

Query: 310 EAQRCCICCEDEKDTAFE--CGHMSCIKCALRM----PQCPFCRE 348
           E   C IC +  +D      CGH+ C +C LR      +CP CR 
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 = 44.0 bits (104), Expect = 2e-06
 Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 7/44 (15%)

Query: 314 CCICCEDEKDTAF--ECGHMSCIKCALRM-----PQCPFCREEI 350
           C IC E+ ++      CGH+ C  C  +        CP CR  I
Sbjct: 2   CPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 37.5 bits (87), Expect = 4e-04
 Identities = 12/40 (30%), Positives = 14/40 (35%), Gaps = 7/40 (17%)

Query: 314 CCICCEDEKDTAF--ECGHMSCIKCALRM-----PQCPFC 346
           C IC E+         CGH  C  C  +        CP C
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

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

 Score = 40.1 bits (94), Expect = 4e-04
 Identities = 32/192 (16%), Positives = 68/192 (35%), Gaps = 34/192 (17%)

Query: 51  LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGF 110
           ++F +D + S     +F    E +  +V+   L+                DGD +    F
Sbjct: 2   VVFLLDGSGSM-GGNRFELAKEFVLKLVE--QLDIGP-------------DGDRVGLVTF 45

Query: 111 GDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES- 169
            DD      +F   +     +  + +LE         +  G T+    ++ A++ +    
Sbjct: 46  SDDARV---LFPLND----SRSKDALLEALASLSY--KLGGGTNLGAALQYALENLFSKS 96

Query: 170 ----GGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVG-DGPWESIQKF 224
                G   V+++IT G+   G +   +  +   +     + + +VGVG D   E ++K 
Sbjct: 97  AGSRRGAPKVVILITDGESNDGPKDLLKAAK---ELKRSGVKVFVVGVGNDVDEEELKKL 153

Query: 225 HDKIPALQFDNF 236
                 +     
Sbjct: 154 ASAPGGVYVFLP 165

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

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

 Score = 36.3 bits (84), Expect = 0.001
 Identities = 15/40 (37%), Positives = 17/40 (42%), Gaps = 7/40 (17%)

Query: 314 CCICCE--DEKDTAFECGHMSCIKCALRM-----PQCPFC 346
           C IC E   +  T   CGH+ C KC L         CP C
Sbjct: 1   CPICLEEPKDPVTILPCGHLFCSKCILSWLESGNVTCPLC 40

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

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

 Score = 36.2 bits (84), Expect = 0.001
 Identities = 11/44 (25%), Positives = 17/44 (38%), Gaps = 8/44 (18%)

Query: 314 CCICCEDEKDTA----FECGHMSCIKCALRM----PQCPFCREE 349
           C IC ++ +         CGH+   +C  +       CP CR  
Sbjct: 3   CPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCRAP 46

Length = 46

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	358
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	99.96
cd01457	199	vWA_ORF176_type VWA ORF176 type: Von Willebrand fa	99.82
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.98
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.95
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	98.86
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.68
smart00327	177	VWA von Willebrand factor (vWF) type A domain. VWA	98.65
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.59
cd01461	171	vWA_interalpha_trypsin_inhibitor vWA_interalpha tr	98.57
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.56
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.55
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	98.45
cd00198	161	vWFA Von Willebrand factor type A (vWA) domain was	98.41
cd01463	190	vWA_VGCC_like VWA Voltage gated Calcium channel li	98.41
PHA02929	238	N1R/p28-like protein; Provisional	98.4
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.39
cd01471	186	vWA_micronemal_protein Micronemal proteins: The To	98.36
cd01464	176	vWA_subfamily VWA subfamily: Von Willebrand factor	98.3
cd01465	170	vWA_subgroup VWA subgroup: Von Willebrand factor t	98.25
cd01450	161	vWFA_subfamily_ECM Von Willebrand factor type A (v	98.24
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.22
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.2
PHA02926	242	zinc finger-like protein; Provisional	98.17
cd01466	155	vWA_C3HC4_type VWA C3HC4-type: Von Willebrand fact	98.16
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.14
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.12
PF14634	44	zf-RING_5: zinc-RING finger domain	98.09
cd01454	174	vWA_norD_type norD type: Denitrifying bacteria con	98.04
cd01456	206	vWA_ywmD_type VWA ywmD type:Von Willebrand factor	98.02
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	97.99
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	97.99
cd01482	164	vWA_collagen_alphaI-XII-like Collagen: The extrace	97.97
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.96
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	97.96
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	97.94
PF13519	172	VWA_2: von Willebrand factor type A domain; PDB: 3	97.93
cd01467	180	vWA_BatA_type VWA BatA type: Von Willebrand factor	97.9
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.87
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	97.86
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	97.85
TIGR03788	596	marine_srt_targ marine proteobacterial sortase tar	97.85
cd01476	163	VWA_integrin_invertebrates VWA_integrin (invertebr	97.82
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	97.82
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.81
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	97.8
cd01470	198	vWA_complement_factors Complement factors B and C2	97.77
cd01472	164	vWA_collagen von Willebrand factor (vWF) type A do	97.73
cd01473	192	vWA_CTRP CTRP for CS protein-TRAP-related protein:	97.72
PF13768	155	VWA_3: von Willebrand factor type A domain	97.71
PF00092	178	VWA: von Willebrand factor type A domain; InterPro	97.71
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	97.66
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.65
cd01474	185	vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxi	97.64
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	97.56
PTZ00441	576	sporozoite surface protein 2 (SSP2); Provisional	97.46
cd01462	152	VWA_YIEM_type VWA YIEM type: Von Willebrand factor	97.46
cd01453	183	vWA_transcription_factor_IIH_type Transcription fa	97.44
cd01475	224	vWA_Matrilin VWA_Matrilin: In cartilaginous plate,	97.44
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	97.35
cd01480	186	vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI	97.35
cd01460	266	vWA_midasin VWA_Midasin: Midasin is a member of th	97.32
cd01477	193	vWA_F09G8-8_type VWA F09G8.8 type: Von Willebrand	97.28
cd01469	177	vWA_integrins_alpha_subunit Integrins are a class	97.24
cd01452	187	VWA_26S_proteasome_subunit 26S proteasome plays a	97.19
PRK13685	326	hypothetical protein; Provisional	97.09
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	97.02
cd01451	178	vWA_Magnesium_chelatase Magnesium chelatase: Mg-ch	97.01
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	96.99
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	96.98
cd01481	165	vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(V	96.95
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	96.95
COG5236	493	Uncharacterized conserved protein, contains RING Z	96.93
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	96.93
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.76
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	96.6
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.6
PF09967	126	DUF2201: VWA-like domain (DUF2201); InterPro: IPR0	96.58
cd01458	218	vWA_ku Ku70/Ku80 N-terminal domain. The Ku78 heter	96.55
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	96.47
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	96.45
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	96.39
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	96.28
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	96.09
TIGR03436	296	acidobact_VWFA VWFA-related Acidobacterial domain.	96.07
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	95.93
cd01455	191	vWA_F11C1-5a_type Von Willebrand factor type A (vW	95.85
KOG3002	299	consensus Zn finger protein [General function pred	95.82
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.76
COG5152	259	Uncharacterized conserved protein, contains RING a	95.66
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	95.35
PRK10997	487	yieM hypothetical protein; Provisional	95.33
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.22
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	95.06
KOG1002	791	consensus Nucleotide excision repair protein RAD16	94.91
KOG0825	1134	consensus PHD Zn-finger protein [General function	94.83
KOG0297	391	consensus TNF receptor-associated factor [Signal t	94.67
TIGR00868	863	hCaCC calcium-activated chloride channel protein 1	94.55
KOG3039	303	consensus Uncharacterized conserved protein [Funct	93.66
KOG1001	674	consensus Helicase-like transcription factor HLTF/	93.6
PF05762	222	VWA_CoxE: VWA domain containing CoxE-like protein;	93.51
PF04641	260	Rtf2: Rtf2 RING-finger	93.41
COG5175	480	MOT2 Transcriptional repressor [Transcription]	93.07
KOG2660	331	consensus Locus-specific chromosome binding protei	92.24
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	91.79
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	90.87
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	90.33
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	90.16
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	90.0
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	89.07
COG5222	427	Uncharacterized conserved protein, contains RING Z	88.98
KOG2113	394	consensus Predicted RNA binding protein, contains	86.4
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	86.21
COG1240	261	ChlD Mg-chelatase subunit ChlD [Coenzyme metabolis	85.11
COG4245	207	TerY Uncharacterized protein encoded in toxicity p	84.33
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	84.24
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	83.74
COG5219	1525	Uncharacterized conserved protein, contains RING Z	83.27
COG2425	437	Uncharacterized protein containing a von Willebran	80.98
KOG2068	327	consensus MOT2 transcription factor [Transcription	80.54

>KOG1327 consensus Copine [Signal transduction mechanisms]

Probab=100.00  E-value=8.8e-74  Score=576.82  Aligned_cols=249  Identities=34%  Similarity=0.505  Sum_probs=228.2

Q ss_pred             CCCCCCCCCCCCCccchhhhhccCCCceeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhccccc
Q 018272           21 SVDFAEPPRFDDELPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF  100 (358)
Q Consensus        21 ~~~~~~~~~~~~~~~~~~~~l~~~gl~~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~y  100 (358)
                      ..+...+.+.|+++++++-.+..+|++++||+||||||+||+|+|.    +.||||| ++...|+||+||++||++|++|
T Consensus       258 k~~g~~~l~~~~~~~~~sfld~i~gg~~lnf~vgIDfTaSNg~p~~----~sSLHyi-~p~~~N~Y~~Ai~~vG~~lq~y  332 (529)
T KOG1327|consen  258 KNSGQLILDRFTSLDQYSFLDYIAGGEQLNFTVGIDFTASNGDPRN----PSSLHYI-DPHQPNPYEQAIRSVGETLQDY  332 (529)
T ss_pred             cccceEEehheeehhhhhHHHHHccCceeeeEEEEEEeccCCCCCC----CCcceec-CCCCCCHHHHHHHHHhhhhccc
Confidence            3468889999999999999999999999999999999999999876    4499999 6788999999999999999999


Q ss_pred             CCC-ceeEEeecCCCCCC---CCc--cccCCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcC---C
Q 018272          101 DGD-CIRCYGFGDDTTRD---EGV--FSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG---G  171 (358)
Q Consensus       101 D~d-~ip~~GFGa~~~~~---~~~--f~~~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~---~  171 (358)
                      |+| +||+|||||+.+++   +++  |+|++.||+|.|++||++||++++|+|+|+|||||+|||++|+++|+++.   .
T Consensus       333 dsdk~fpa~GFGakip~~~~vs~~f~ln~~~~~~~c~Gi~gVl~aY~~~lp~v~l~GPTnFaPII~~va~~a~~~~~~~~  412 (529)
T KOG1327|consen  333 DSDKLFPAFGFGAKIPPDGQVSHEFVLNFNPEDPECRGIEGVLEAYRKALPNVQLYGPTNFSPIINHVARIAQQSGNTAG  412 (529)
T ss_pred             CCCCccccccccccCCCCcccccceeecCCCCCCccccHHHHHHHHHhhcccccccCCCccHHHHHHHHHHHHHhccCCc
Confidence            999 99999999998763   454  55678899999999999999999999999999999999999999999885   7


Q ss_pred             ceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCeEEEEEeeCCCCchhhhhccCCCCC-------cccceeEeeecccc
Q 018272          172 LHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHDKIPA-------LQFDNFHFVNFTAI  244 (358)
Q Consensus       172 ~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPlSIiiVGVG~~~f~~m~~LD~~~~~-------r~rDnvqFV~f~~~  244 (358)
                      +||||||||||+|+|    |++|++|||.||+|||||||||||++||+.|++||++.+.       +.|||||||+|+|+
T Consensus       413 qY~VLlIitDG~vTd----m~~T~~AIV~AS~lPlSIIiVGVGd~df~~M~~lD~d~~~l~~~gr~~~rD~vQFV~f~~~  488 (529)
T KOG1327|consen  413 QYHVLLIITDGVVTD----MKETRDAIVSASDLPLSIIIVGVGDADFDMMRELDGDDPKLRSPGRIAERDNVQFVPFRDI  488 (529)
T ss_pred             ceEEEEEEeCCcccc----HHHHHHHHHhhccCCeEEEEEEeCCCCHHHHHHhhcCCcccccccccccccceEeecHHHH
Confidence            999999999999999    9999999999999999999999999999999999987665       78999999999999


Q ss_pred             ccccccchhHHHHHHHH-HHH---HHHHHhhhcccccc
Q 018272          245 MSKTTTTAEKAKDFAAA-LIN---ASMAADELGIMSRM  278 (358)
Q Consensus       245 ~~~~~~~~~~~~~la~~-L~E---qy~~~~~~~~l~~~  278 (358)
                      ++++.+...++++||+. |||   ||..+++++-+..+
T Consensus       489 ~~~~~~~~~~~~~lA~~vL~EIP~Q~~~y~~~~~~~p~  526 (529)
T KOG1327|consen  489 MNGAENPSDKEAALALAVLAEIPQQYVQYMRLRGILPK  526 (529)
T ss_pred             hhcCCcccchhHHHHHHHHHHhhHHHHHHHHhcCCCCC
Confidence            98765555578999999 999   99999999655443

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

Probab=100.00  E-value=2.3e-68  Score=503.60  Aligned_cols=217  Identities=42%  Similarity=0.695  Sum_probs=192.1

Q ss_pred             CCCCccchhhhhccCCCceeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC-ceeEE
Q 018272           30 FDDELPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCY  108 (358)
Q Consensus        30 ~~~~~~~~~~~l~~~gl~~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d-~ip~~  108 (358)
                      .+++||++     ++|+ ++||+||||||+||||+++    ++||||+ ++...|+||+||++||+||++||+| +||+|
T Consensus        19 ~~tFldy~-----~~G~-~~nl~vaIDfT~SNg~p~~----~~SLHy~-~~~~~N~Yq~aI~~vg~il~~yD~D~~ip~~   87 (254)
T cd01459          19 QPTFLDYR-----SAGL-ESNLIVAIDFTKSNGWPGE----KRSLHYI-SPGRLNPYQKAIRIVGEVLQPYDSDKLIPAF   87 (254)
T ss_pred             CCCHHHHH-----hCCC-eeeEEEEEEeCCCCCCCCC----CCCcccC-CCCCccHHHHHHHHHHHHHHhcCCCCceeeE
Confidence            55556555     4444 5799999999999999765    6899999 5778999999999999999999999 99999


Q ss_pred             eecCCCCCCC---CccccCCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcCC--ceEEEEEEeCCc
Q 018272          109 GFGDDTTRDE---GVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGG--LHHVLVIITSGQ  183 (358)
Q Consensus       109 GFGa~~~~~~---~~f~~~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~~--~Y~VLlIiTDG~  183 (358)
                      |||++.++..   ++|++++++|+|.|++||+++|++++++|+|+|||+|+|||++|+++++++..  +|+||||||||+
T Consensus        88 GFGa~~~~~~~v~~~f~~~~~~p~~~Gi~gvl~aY~~~l~~v~lsGpT~fapvI~~a~~~a~~~~~~~~Y~VLLIiTDG~  167 (254)
T cd01459          88 GFGAIVTKDQSVFSFFPGYSESPECQGFEGVLRAYREALPNVSLSGPTNFAPVIRAAANIAKASNSQSKYHILLIITDGE  167 (254)
T ss_pred             eecccCCCCCccccccCCCCCCCcccCHHHHHHHHHHHhceeeecCcchHHHHHHHHHHHHHHhcCCCceEEEEEECCCC
Confidence            9999987654   44555688999999999999999999999999999999999999999987643  499999999999


Q ss_pred             cCCcchhHHHHHHHHHHhcCCCeEEEEEeeCCCCchhhhhccC-------CCCCcccceeEeeeccccccccccchhHHH
Q 018272          184 VATGSQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHD-------KIPALQFDNFHFVNFTAIMSKTTTTAEKAK  256 (358)
Q Consensus       184 i~d~~~~~~~t~~aIv~AS~lPlSIiiVGVG~~~f~~m~~LD~-------~~~~r~rDnvqFV~f~~~~~~~~~~~~~~~  256 (358)
                      |+|    +++|+++|++||++||||||||||+++|+.|++||+       .++.|.|||||||+|+++....   .++++
T Consensus       168 i~D----~~~t~~aIv~AS~~PlSIiiVGVGd~~F~~M~~LD~d~~l~~~~~~~~~rDnvqFV~f~~~~~~~---~~~~~  240 (254)
T cd01459         168 ITD----MNETIKAIVEASKYPLSIVIVGVGDGPFDAMERLDDDDGLESSDGRIATRDIVQFVPFTEFMSNA---GNPEA  240 (254)
T ss_pred             ccc----HHHHHHHHHHHhcCCeEEEEEEeCCCChHHHHHhcCccccccccCCcceecceeeecchhhcccc---cccHH
Confidence            999    999999999999999999999999999999999997       3466789999999999997542   13468


Q ss_pred             HHHHH-HHH
Q 018272          257 DFAAA-LIN  264 (358)
Q Consensus       257 ~la~~-L~E  264 (358)
                      +||++ |+|
T Consensus       241 ~La~~~L~E  249 (254)
T cd01459         241 ALATAALAE  249 (254)
T ss_pred             HHHHHHHHh
Confidence            99999 999

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=2.1e-49  Score=346.21  Aligned_cols=137  Identities=44%  Similarity=0.772  Sum_probs=128.9

Q ss_pred             CcccccCCCCCChHHHHHHHHhhcccccCCC-ceeEEeecCCCCCC---CCccccC--CCCCCCCCHHHHHHHHHhcCCc
Q 018272           73 SLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRD---EGVFSFQ--ENDSPCQGFEHVLECYRKNVPN  146 (358)
Q Consensus        73 sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~---~~~f~~~--~~~~~~~g~~gvl~~Y~~~l~~  146 (358)
                      ||||+ ++..+|+||+||++||++|++||+| +||+|||||+.+++   +++|+|+  +++|+|.|++||+++|++++++
T Consensus         1 SLH~~-~~~~~N~Y~~ai~~vg~il~~Yd~dk~~p~~GFGa~~~~~~~vsh~F~ln~~~~~p~~~Gi~gvl~~Y~~~~~~   79 (146)
T PF07002_consen    1 SLHYI-SPNQPNPYQQAIRAVGEILQDYDSDKMIPAYGFGAKIPPDYSVSHCFPLNGNPQNPECQGIDGVLEAYRKALPK   79 (146)
T ss_pred             CcccC-CCCCCCHHHHHHHHHHHHHHhhccCCccceeccCCcCCCCcccccceeeecCCCCCcccCHHHHHHHHHHHhhh
Confidence            89999 5667999999999999999999999 99999999998865   4668876  5789999999999999999999


Q ss_pred             eeeccCCChHHHHHHHHHHHHh---cCCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCeEEEEEeeC
Q 018272          147 VQYFGPTSYAPMVEAAVDIVEE---SGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVG  214 (358)
Q Consensus       147 v~l~gpt~fapvI~~a~~~~~~---~~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPlSIiiVGVG  214 (358)
                      |+|+|||+|+|||++|++++++   .+++|+||||||||+|+|    |++|++||++||++||||||||||
T Consensus        80 v~l~GPT~fapiI~~a~~~a~~~~~~~~~Y~iLlIlTDG~i~D----~~~T~~aIv~AS~~PlSIIiVGVG  146 (146)
T PF07002_consen   80 VQLSGPTNFAPIINHAAKIAKQSNQNGQQYFILLILTDGQITD----MEETIDAIVEASKLPLSIIIVGVG  146 (146)
T ss_pred             eEECCCccHHHHHHHHHHHHhhhccCCceEEEEEEeccccccc----HHHHHHHHHHHccCCeEEEEEEeC
Confidence            9999999999999999999984   567899999999999999    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=99.96  E-value=5.9e-28  Score=219.75  Aligned_cols=174  Identities=23%  Similarity=0.307  Sum_probs=147.1

Q ss_pred             CChHHHHHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHH
Q 018272           83 LNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEA  161 (358)
Q Consensus        83 ~N~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~  161 (358)
                      ....|++++++..+..+||+| .+++|.||.+..+...+        ....+++.++.....++.+...|.|+++|||++
T Consensus        20 ~G~vQ~~~Er~lalA~~~DdDG~i~v~~Fs~~~~~~~~v--------t~~~~~~~v~~~~~~~~~~~~~G~t~y~~vm~~   91 (200)
T PF10138_consen   20 DGTVQRVVERILALAAQFDDDGEIDVWFFSTEFDRLPDV--------TLDNYEGYVDELHAGLPDWGRMGGTNYAPVMED   91 (200)
T ss_pred             CccHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCcCCCc--------CHHHHHHHHHHHhccccccCCCCCcchHHHHHH
Confidence            578999999999999999999 99999999986655433        223567777666555555666678999999999


Q ss_pred             HHHHHHhc-C-CceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCeEEEEEeeCCCCchhhhhccCCCCCcccceeEee
Q 018272          162 AVDIVEES-G-GLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFV  239 (358)
Q Consensus       162 a~~~~~~~-~-~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPlSIiiVGVG~~~f~~m~~LD~~~~~r~rDnvqFV  239 (358)
                      |++.+.+. . ......|++|||+++|    .+++.++|++||++||+|+|||||+.+|+.|++||+ +.+|..||+.||
T Consensus        92 v~~~y~~~~~~~~P~~VlFiTDG~~~~----~~~~~~~i~~as~~pifwqFVgiG~~~f~fL~kLD~-l~gR~vDNa~Ff  166 (200)
T PF10138_consen   92 VLDHYFKREPSDAPALVLFITDGGPDD----RRAIEKLIREASDEPIFWQFVGIGDSNFGFLEKLDD-LAGRVVDNAGFF  166 (200)
T ss_pred             HHHHHhhcCCCCCCeEEEEEecCCccc----hHHHHHHHHhccCCCeeEEEEEecCCcchHHHHhhc-cCCcccCCcCeE
Confidence            99998743 2 2245557789999999    899999999999999999999999999999999999 588999999999


Q ss_pred             eccccccccccchhHHHHHHHH-HHH--HH-HHHhhhccc
Q 018272          240 NFTAIMSKTTTTAEKAKDFAAA-LIN--AS-MAADELGIM  275 (358)
Q Consensus       240 ~f~~~~~~~~~~~~~~~~la~~-L~E--qy-~~~~~~~~l  275 (358)
                      .+.++...+      |++|+.. |.|  +| ++++..|+|
T Consensus       167 ~~~d~~~ls------D~eLy~~LL~Efp~Wl~~ar~~gi~  200 (200)
T PF10138_consen  167 AIDDIDELS------DEELYDRLLAEFPDWLKAARAKGIL  200 (200)
T ss_pred             ecCCcccCC------HHHHHHHHHHHHHHHHHHHHHcCCC
Confidence            999986543      7899999 988  77 999999886

>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=99.82  E-value=1.1e-19  Score=165.55  Aligned_cols=169  Identities=20%  Similarity=0.174  Sum_probs=126.6

Q ss_pred             eceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCCCCC
Q 018272           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDS  128 (358)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~~~~  128 (358)
                      ++++.||.|+|+++.    +.+.++|      +.+.+++++.+++.++..||.| ...+++||.. ..   .++.     
T Consensus         4 dvv~~ID~SgSM~~~----~~~~~~~------k~~~ak~~~~~l~~~~~~~D~d~i~l~~f~~~~-~~---~~~~-----   64 (199)
T cd01457           4 DYTLLIDKSGSMAEA----DEAKERS------RWEEAQESTRALARKCEEYDSDGITVYLFSGDF-RR---YDNV-----   64 (199)
T ss_pred             CEEEEEECCCcCCCC----CCCCCch------HHHHHHHHHHHHHHHHHhcCCCCeEEEEecCCc-cc---cCCc-----
Confidence            678999999999742    1122344      3499999999999999999999 5455555443 11   1111     


Q ss_pred             CCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhc------CCceEEEEEEeCCccCCcchhHHHHHHHHHHhc
Q 018272          129 PCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES------GGLHHVLVIITSGQVATGSQQEQETIRSIVDAS  202 (358)
Q Consensus       129 ~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~------~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS  202 (358)
                         ..+++.++|.+..    ..|+|++.+.|+.+++...+.      ...+.+++|||||..+|    .+++.++|++|+
T Consensus        65 ---~~~~v~~~~~~~~----p~G~T~l~~~l~~a~~~~~~~~~~~~~~p~~~~vIiiTDG~~~d----~~~~~~~i~~a~  133 (199)
T cd01457          65 ---NSSKVDQLFAENS----PDGGTNLAAVLQDALNNYFQRKENGATCPEGETFLVITDGAPDD----KDAVERVIIKAS  133 (199)
T ss_pred             ---CHHHHHHHHhcCC----CCCcCcHHHHHHHHHHHHHHHHhhccCCCCceEEEEEcCCCCCc----HHHHHHHHHHHH
Confidence               1667777775544    469999999999997543221      12378889999999998    889999999998


Q ss_pred             CC-----CeEEEEEeeCCC--CchhhhhccCCC--CCcccceeEeeecccccccc
Q 018272          203 SY-----PLSIVLVGVGDG--PWESIQKFHDKI--PALQFDNFHFVNFTAIMSKT  248 (358)
Q Consensus       203 ~l-----PlSIiiVGVG~~--~f~~m~~LD~~~--~~r~rDnvqFV~f~~~~~~~  248 (358)
                      +.     +|.|.|||||++  .|..|++||+.+  .++.||||+||+|+++...+
T Consensus       134 ~~l~~~~~i~i~~v~vG~~~~~~~~L~~ld~~~~~~~~~~d~vd~~~~~~~~~~~  188 (199)
T cd01457         134 DELDADNELAISFLQIGRDPAATAFLKALDDQLQEVGAKFDIVDTVTWDDMERLT  188 (199)
T ss_pred             HhhccccCceEEEEEeCCcHHHHHHHHHHhHHHHhcCCcccceeeeeHHhhhcCC
Confidence            63     788888888875  899999999864  34679999999999986654

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

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

Probab=98.98  E-value=2.4e-11  Score=87.79  Aligned_cols=47  Identities=40%  Similarity=0.987  Sum_probs=43.2

Q ss_pred             CCccCcccCCCCeee-cCCCC-CchhhhhcC-----CCCCCCccccCCeeecCC
Q 018272          312 QRCCICCEDEKDTAF-ECGHM-SCIKCALRM-----PQCPFCREEITTRRRVYP  358 (358)
Q Consensus       312 ~~C~IC~~~~~~~v~-pCgH~-~C~~C~~~~-----~~CP~CR~~i~~~~~~f~  358 (358)
                      .+|.||+|++.|.++ -|||+ +|.+|+.++     ..||+||.+|..+++.|+
T Consensus         8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dvIkTY~   61 (62)
T KOG4172|consen    8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKDVIKTYR   61 (62)
T ss_pred             cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHHHHHhhc
Confidence            689999999999998 99999 999999987     359999999999998875

>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=98.95  E-value=1.4e-10  Score=83.22  Aligned_cols=43  Identities=40%  Similarity=1.035  Sum_probs=37.6

Q ss_pred             CCCccCcccCCCCeee-cCCCC-CchhhhhcC----CCCCCCccccCCe
Q 018272          311 AQRCCICCEDEKDTAF-ECGHM-SCIKCALRM----PQCPFCREEITTR  353 (358)
Q Consensus       311 ~~~C~IC~~~~~~~v~-pCgH~-~C~~C~~~~----~~CP~CR~~i~~~  353 (358)
                      +..|.||++...++++ ||||. +|..|+.++    ..||+||++|+++
T Consensus         2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~V   50 (50)
T PF13920_consen    2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIESV   50 (50)
T ss_dssp             HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SEE
T ss_pred             cCCCccCCccCCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcCC
Confidence            4689999999999988 99999 999999998    7899999999864

...

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

Probab=98.86  E-value=2.3e-10  Score=108.53  Aligned_cols=48  Identities=44%  Similarity=1.079  Sum_probs=46.2

Q ss_pred             CCCccCcccCCCCeee-cCCCC-CchhhhhcCCCCCCCccccCCeeecCC
Q 018272          311 AQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVYP  358 (358)
Q Consensus       311 ~~~C~IC~~~~~~~v~-pCgH~-~C~~C~~~~~~CP~CR~~i~~~~~~f~  358 (358)
                      ..+|.||+|.++|.+| +|||+ .|.+|..+|..||+||+.|.+++|+|+
T Consensus       300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm~eCPICRqyi~rvvrif~  349 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKRMNECPICRQYIVRVVRIFR  349 (350)
T ss_pred             HHHHHHHhcCCcceEEeecCcEEeehhhccccccCchHHHHHHHHHhhhc
Confidence            6799999999999998 99999 899999999999999999999999986

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

Probab=98.68  E-value=6.3e-09  Score=96.28  Aligned_cols=49  Identities=31%  Similarity=0.769  Sum_probs=42.5

Q ss_pred             ccCCCccCcccCCCCeee-cCCCCCchhhhhcC-------CCCCCCccccCC--eeecC
Q 018272          309 AEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-------PQCPFCREEITT--RRRVY  357 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-------~~CP~CR~~i~~--~~~~f  357 (358)
                      .....|-||+|..+++|+ .|||+||+.|+-+|       +.||+|+..++.  ++.||
T Consensus        45 ~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlY  103 (230)
T KOG0823|consen   45 GGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLY  103 (230)
T ss_pred             CCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeee
Confidence            446899999999999999 99999999999988       569999998876  45555

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

Probab=98.65  E-value=3.5e-07  Score=79.35  Aligned_cols=148  Identities=19%  Similarity=0.264  Sum_probs=104.9

Q ss_pred             eeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccC---CC-ceeEEeecCCCCCCCCccccC
Q 018272           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSFQ  124 (358)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD---~d-~ip~~GFGa~~~~~~~~f~~~  124 (358)
                      +++.+.||-|.|..                    ......+...+..++..+.   ++ .+-+++|++....   .+++.
T Consensus         2 ~~v~l~vD~S~SM~--------------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~~~~~~---~~~~~   58 (177)
T smart00327        2 LDVVFLLDGSGSMG--------------------PNRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFSDDATV---LFPLN   58 (177)
T ss_pred             ccEEEEEeCCCccc--------------------hHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCceE---EEccc
Confidence            46889999998863                    1122334444444444444   47 9999999985321   22221


Q ss_pred             CCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhc---C--CceEEEEEEeCCccCCcchhHHHHHHHHH
Q 018272          125 ENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES---G--GLHHVLVIITSGQVATGSQQEQETIRSIV  199 (358)
Q Consensus       125 ~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~---~--~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv  199 (358)
                          ...+.+.+.+......+.  ..|.|++...|+.+++..++.   .  ....+++|||||...+    .+.+.+++.
T Consensus        59 ----~~~~~~~~~~~i~~~~~~--~~~~~~~~~al~~~~~~~~~~~~~~~~~~~~~iviitDg~~~~----~~~~~~~~~  128 (177)
T smart00327       59 ----DSRSKDALLEALASLSYK--LGGGTNLGAALQYALENLFSKSAGSRRGAPKVLILITDGESND----GGDLLKAAK  128 (177)
T ss_pred             ----ccCCHHHHHHHHHhcCCC--CCCCchHHHHHHHHHHHhcCcCCCCCCCCCeEEEEEcCCCCCC----CccHHHHHH
Confidence                245777777777765543  578899999999999887521   1  1257889999999887    357788888


Q ss_pred             HhcCCCeEEEEEeeCCC-CchhhhhccCCCC
Q 018272          200 DASSYPLSIVLVGVGDG-PWESIQKFHDKIP  229 (358)
Q Consensus       200 ~AS~lPlSIiiVGVG~~-~f~~m~~LD~~~~  229 (358)
                      .+....+.|++||+|+. +...|+.|.....
T Consensus       129 ~~~~~~i~i~~i~~~~~~~~~~l~~~~~~~~  159 (177)
T smart00327      129 ELKRSGVKVFVVGVGNDVDEEELKKLASAPG  159 (177)
T ss_pred             HHHHCCCEEEEEEccCccCHHHHHHHhCCCc
Confidence            88888899999999998 9999999987533

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.

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

Probab=98.59  E-value=1.2e-08  Score=99.57  Aligned_cols=49  Identities=33%  Similarity=0.877  Sum_probs=43.2

Q ss_pred             ccCCCccCcccCCCCeee-cCCCC-CchhhhhcC----CCCCCCccccCCeeecC
Q 018272          309 AEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRM----PQCPFCREEITTRRRVY  357 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~-pCgH~-~C~~C~~~~----~~CP~CR~~i~~~~~~f  357 (358)
                      ++..+|.||+...+|+++ ||+|+ +|..|+..+    ..||+||++|...+.++
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            446899999999999887 99999 899999976    46999999999877764

>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=98.57  E-value=1.4e-06  Score=76.08  Aligned_cols=147  Identities=19%  Similarity=0.248  Sum_probs=101.9

Q ss_pred             eeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCCCC
Q 018272           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQEND  127 (358)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~~~  127 (358)
                      .++.+.+|-|.|=.        +            ...+.+-.++..++..+..+ .+.+++|+.......   +.    
T Consensus         3 ~~v~~vlD~S~SM~--------~------------~~~~~~~~al~~~l~~l~~~~~~~l~~Fs~~~~~~~---~~----   55 (171)
T cd01461           3 KEVVFVIDTSGSMS--------G------------TKIEQTKEALLTALKDLPPGDYFNIIGFSDTVEEFS---PS----   55 (171)
T ss_pred             ceEEEEEECCCCCC--------C------------hhHHHHHHHHHHHHHhCCCCCEEEEEEeCCCceeec---Cc----
Confidence            46788899887742        1            12456677777788888877 999999998743211   11    


Q ss_pred             CCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcCCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCeE
Q 018272          128 SPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLS  207 (358)
Q Consensus       128 ~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPlS  207 (358)
                      ....+.+.+ +...+.+..+...|-|++...|+.+.+..+.....--++++||||...+    ..++.+++.++.+.++.
T Consensus        56 ~~~~~~~~~-~~~~~~l~~~~~~g~T~l~~al~~a~~~l~~~~~~~~~iillTDG~~~~----~~~~~~~~~~~~~~~i~  130 (171)
T cd01461          56 SVSATAENV-AAAIEYVNRLQALGGTNMNDALEAALELLNSSPGSVPQIILLTDGEVTN----ESQILKNVREALSGRIR  130 (171)
T ss_pred             ceeCCHHHH-HHHHHHHHhcCCCCCcCHHHHHHHHHHhhccCCCCccEEEEEeCCCCCC----HHHHHHHHHHhcCCCce
Confidence            011122222 2233444455568999999999999888765333346778999999877    67888888888777899


Q ss_pred             EEEEeeCC-CCchhhhhccCC
Q 018272          208 IVLVGVGD-GPWESIQKFHDK  227 (358)
Q Consensus       208 IiiVGVG~-~~f~~m~~LD~~  227 (358)
                      |..||+|. .+...|+.+-+.
T Consensus       131 i~~i~~g~~~~~~~l~~ia~~  151 (171)
T cd01461         131 LFTFGIGSDVNTYLLERLARE  151 (171)
T ss_pred             EEEEEeCCccCHHHHHHHHHc
Confidence            99999996 467778777653

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.

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

Probab=98.56  E-value=2e-08  Score=95.56  Aligned_cols=45  Identities=31%  Similarity=0.953  Sum_probs=39.9

Q ss_pred             ccCCCccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018272          309 AEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITTR  353 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~~  353 (358)
                      ...+.|.+|+++..++.- ||||.||+.|+..+    ..||+||+++...
T Consensus       237 ~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ps  286 (293)
T KOG0317|consen  237 EATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPS  286 (293)
T ss_pred             CCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccccCCCcccccCCCc
Confidence            345899999999999887 99999999999988    5799999998874

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.55  E-value=3.3e-08  Score=89.91  Aligned_cols=44  Identities=30%  Similarity=0.912  Sum_probs=38.6

Q ss_pred             ccCCCccCcccCCCCeee-cCCCCCchhhhhcC--------------------CCCCCCccccCC
Q 018272          309 AEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM--------------------PQCPFCREEITT  352 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~--------------------~~CP~CR~~i~~  352 (358)
                      .+...|+||++..+++++ +|||.||+.|+.++                    ..||+||.++..
T Consensus        16 ~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~   80 (193)
T PLN03208         16 GGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE   80 (193)
T ss_pred             CCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence            456899999999999988 99999999999753                    369999999976

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

Probab=98.45  E-value=3.8e-08  Score=96.27  Aligned_cols=48  Identities=38%  Similarity=1.030  Sum_probs=44.6

Q ss_pred             CCCccCcccCCCCeee-cCCCC-CchhhhhcCCCCCCCccccCCeeecCC
Q 018272          311 AQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVYP  358 (358)
Q Consensus       311 ~~~C~IC~~~~~~~v~-pCgH~-~C~~C~~~~~~CP~CR~~i~~~~~~f~  358 (358)
                      ...|.||.+.+.+++| ||||+ +|..|...+++||+||+.|...+++|.
T Consensus       305 p~lcVVcl~e~~~~~fvpcGh~ccct~cs~~l~~CPvCR~rI~~~~k~y~  354 (355)
T KOG1571|consen  305 PDLCVVCLDEPKSAVFVPCGHVCCCTLCSKHLPQCPVCRQRIRLVRKRYR  354 (355)
T ss_pred             CCceEEecCCccceeeecCCcEEEchHHHhhCCCCchhHHHHHHHHHHhc
Confidence            3599999999999998 99999 899999999999999999999988874

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

Probab=98.41  E-value=7.9e-06  Score=68.67  Aligned_cols=146  Identities=14%  Similarity=0.260  Sum_probs=98.5

Q ss_pred             eceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCC---C-ceeEEeecCCCCCCCCccccCC
Q 018272           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDG---D-CIRCYGFGDDTTRDEGVFSFQE  125 (358)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~---d-~ip~~GFGa~~~~~~~~f~~~~  125 (358)
                      ++++.||.|.|-.                    ....+.+...+..++..+..   . .+-+++|+.....   .++++.
T Consensus         2 ~v~~viD~S~Sm~--------------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~~~~~~---~~~~~~   58 (161)
T cd00198           2 DIVFLLDVSGSMG--------------------GEKLDKAKEALKALVSSLSASPPGDRVGLVTFGSNARV---VLPLTT   58 (161)
T ss_pred             cEEEEEeCCCCcC--------------------cchHHHHHHHHHHHHHhcccCCCCcEEEEEEecCccce---eecccc
Confidence            5788999987731                    13344455556666666654   6 9999999974221   122221


Q ss_pred             CCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhc--CCceEEEEEEeCCccCCcchhHHHHHHHHHHhcC
Q 018272          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES--GGLHHVLVIITSGQVATGSQQEQETIRSIVDASS  203 (358)
Q Consensus       126 ~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~--~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~  203 (358)
                      .    .+.+.+.+.-.. +.. ...|.|++...++.+.+...+.  .....++++||||..++.   ..+..+.+..+..
T Consensus        59 ~----~~~~~~~~~~~~-~~~-~~~~~t~~~~al~~~~~~~~~~~~~~~~~~lvvitDg~~~~~---~~~~~~~~~~~~~  129 (161)
T cd00198          59 D----TDKADLLEAIDA-LKK-GLGGGTNIGAALRLALELLKSAKRPNARRVIILLTDGEPNDG---PELLAEAARELRK  129 (161)
T ss_pred             c----CCHHHHHHHHHh-ccc-CCCCCccHHHHHHHHHHHhcccCCCCCceEEEEEeCCCCCCC---cchhHHHHHHHHH
Confidence            1    233444333222 221 4679999999999999998763  446788999999988761   2256666777777


Q ss_pred             CCeEEEEEeeCC-CCchhhhhccCC
Q 018272          204 YPLSIVLVGVGD-GPWESIQKFHDK  227 (358)
Q Consensus       204 lPlSIiiVGVG~-~~f~~m~~LD~~  227 (358)
                      ..+.|.+||+|+ .+-..++.|+..
T Consensus       130 ~~v~v~~v~~g~~~~~~~l~~l~~~  154 (161)
T cd00198         130 LGITVYTIGIGDDANEDELKEIADK  154 (161)
T ss_pred             cCCEEEEEEcCCCCCHHHHHHHhcc
Confidence            799999999998 788888888764

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.

>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=98.41  E-value=4e-06  Score=75.70  Aligned_cols=149  Identities=11%  Similarity=0.134  Sum_probs=97.6

Q ss_pred             ceeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCC
Q 018272           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQE  125 (358)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~  125 (358)
                      ...++.+.||-|.|=.        +            +..+.|-.++..++..+..+ .+-++.|+......   +++..
T Consensus        12 ~p~~vv~llD~SgSM~--------~------------~~l~~ak~~~~~ll~~l~~~d~v~lv~F~~~~~~~---~~~~~   68 (190)
T cd01463          12 SPKDIVILLDVSGSMT--------G------------QRLHLAKQTVSSILDTLSDNDFFNIITFSNEVNPV---VPCFN   68 (190)
T ss_pred             CCceEEEEEECCCCCC--------c------------HHHHHHHHHHHHHHHhCCCCCEEEEEEeCCCeeEE---eeecc
Confidence            4578999999998743        1            12344555566667777777 99999999975422   22211


Q ss_pred             C---CCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHh---c------CCceEEEEEEeCCccCCcchhHHH
Q 018272          126 N---DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEE---S------GGLHHVLVIITSGQVATGSQQEQE  193 (358)
Q Consensus       126 ~---~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~---~------~~~Y~VLlIiTDG~i~d~~~~~~~  193 (358)
                      .   .......+.    ..+.+..++..|.|++...|+.+.+..++   .      ...-.++++||||..++    ..+
T Consensus        69 ~~~~~~~~~~~~~----~~~~l~~l~~~G~T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~----~~~  140 (190)
T cd01463          69 DTLVQATTSNKKV----LKEALDMLEAKGIANYTKALEFAFSLLLKNLQSNHSGSRSQCNQAIMLITDGVPEN----YKE  140 (190)
T ss_pred             cceEecCHHHHHH----HHHHHhhCCCCCcchHHHHHHHHHHHHHHhhhcccccccCCceeEEEEEeCCCCCc----HhH
Confidence            0   000112233    33445667778999999999999887654   1      11235789999999887    556


Q ss_pred             HHHHHHHhc--CCCeEEEEEeeCCC--CchhhhhccC
Q 018272          194 TIRSIVDAS--SYPLSIVLVGVGDG--PWESIQKFHD  226 (358)
Q Consensus       194 t~~aIv~AS--~lPlSIiiVGVG~~--~f~~m~~LD~  226 (358)
                      ..+++....  ..|+.|..||||.+  +...|+.|=.
T Consensus       141 ~~~~~~~~~~~~~~v~i~tigiG~~~~d~~~L~~lA~  177 (190)
T cd01463         141 IFDKYNWDKNSEIPVRVFTYLIGREVTDRREIQWMAC  177 (190)
T ss_pred             HHHHhcccccCCCcEEEEEEecCCccccchHHHHHHh
Confidence            666554322  35899999999975  6888887753

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.

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.40  E-value=1.3e-07  Score=88.99  Aligned_cols=47  Identities=30%  Similarity=0.759  Sum_probs=38.3

Q ss_pred             ccCCCccCcccCCCC--------eee-cCCCCCchhhhhcC----CCCCCCccccCCeee
Q 018272          309 AEAQRCCICCEDEKD--------TAF-ECGHMSCIKCALRM----PQCPFCREEITTRRR  355 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~--------~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~~~~  355 (358)
                      ....+|+||++...+        +++ +|||.||..|+.++    ..||+||.++..+++
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            345799999997543        245 89999999999877    679999999998754

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

Probab=98.39  E-value=1.4e-07  Score=84.23  Aligned_cols=47  Identities=34%  Similarity=0.897  Sum_probs=38.3

Q ss_pred             CCCccCcccCCCCee-e--cCCCCCchhhhhcC----CCCCCCccccCC--eeecC
Q 018272          311 AQRCCICCEDEKDTA-F--ECGHMSCIKCALRM----PQCPFCREEITT--RRRVY  357 (358)
Q Consensus       311 ~~~C~IC~~~~~~~v-~--pCgH~~C~~C~~~~----~~CP~CR~~i~~--~~~~f  357 (358)
                      -..|+|||+....-+ +  .|||.||..|+...    ..||+||+.|+.  .++||
T Consensus       131 ~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~~rI~  186 (187)
T KOG0320|consen  131 TYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQFHRIY  186 (187)
T ss_pred             ccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccchhhheecc
Confidence            379999999877644 3  99999999999976    679999988876  34554

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

Probab=98.36  E-value=6.4e-06  Score=73.73  Aligned_cols=151  Identities=10%  Similarity=0.103  Sum_probs=95.7

Q ss_pred             HHHHHHHHhhcccccC---CC-ceeEEeecCCCCCCCCccccCCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHH
Q 018272           86 YQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEA  161 (358)
Q Consensus        86 Yq~aI~~ig~vl~~yD---~d-~ip~~GFGa~~~~~~~~f~~~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~  161 (358)
                      +.++...+..+++.+.   ++ .+-++.|+....   .++++...  .-...+.+.+.-+........+|-|+++..|+.
T Consensus        19 ~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs~~~~---~~~~l~~~--~~~~~~~~~~~i~~l~~~~~~~G~T~l~~aL~~   93 (186)
T cd01471          19 VTHVVPFLHTFVQNLNISPDEINLYLVTFSTNAK---ELIRLSSP--NSTNKDLALNAIRALLSLYYPNGSTNTTSALLV   93 (186)
T ss_pred             HHHHHHHHHHHHHhcccCCCceEEEEEEecCCce---EEEECCCc--cccchHHHHHHHHHHHhCcCCCCCccHHHHHHH
Confidence            4556666667777663   45 899999998643   23444321  111223322222222333345799999999999


Q ss_pred             HHHHHHhc----CCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCeEEEEEeeCC-CCchhhhhccCCC-CCcccce
Q 018272          162 AVDIVEES----GGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGD-GPWESIQKFHDKI-PALQFDN  235 (358)
Q Consensus       162 a~~~~~~~----~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPlSIiiVGVG~-~~f~~m~~LD~~~-~~r~rDn  235 (358)
                      |.+...+.    ...-.+++|||||..++    ..++.++..+..+.++-|.+||||. .+...|+.|-+.. .....++
T Consensus        94 a~~~l~~~~~~r~~~~~~villTDG~~~~----~~~~~~~a~~l~~~gv~v~~igiG~~~d~~~l~~ia~~~~~~~~~~~  169 (186)
T cd01471          94 VEKHLFDTRGNRENAPQLVIIMTDGIPDS----KFRTLKEARKLRERGVIIAVLGVGQGVNHEENRSLVGCDPDDSPCPL  169 (186)
T ss_pred             HHHHhhccCCCcccCceEEEEEccCCCCC----CcchhHHHHHHHHCCCEEEEEEeehhhCHHHHHHhcCCCCCCCCCCe
Confidence            98887541    12235678889999877    4555566666667789999999996 5778888887642 1222567


Q ss_pred             eEeeeccccc
Q 018272          236 FHFVNFTAIM  245 (358)
Q Consensus       236 vqFV~f~~~~  245 (358)
                      +-..+|+++.
T Consensus       170 ~~~~~~~~~~  179 (186)
T cd01471         170 YLQSSWSEVQ  179 (186)
T ss_pred             eecCCHHHHH
Confidence            7777776664

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.

>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=98.30  E-value=5.6e-06  Score=73.73  Aligned_cols=144  Identities=17%  Similarity=0.229  Sum_probs=94.5

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccC---CC-ceeEEeecCCCCCCCCcccc
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSF  123 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD---~d-~ip~~GFGa~~~~~~~~f~~  123 (358)
                      .+++.+.||-|.|=+  |+      .+         ..-++|+..+...+...+   .+ .+-++.|+....   .++++
T Consensus         3 ~~~v~~llD~SgSM~--~~------~~---------~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F~~~a~---~~~~l   62 (176)
T cd01464           3 RLPIYLLLDTSGSMA--GE------PI---------EALNQGLQMLQSELRQDPYALESVEISVITFDSAAR---VIVPL   62 (176)
T ss_pred             CCCEEEEEECCCCCC--Ch------HH---------HHHHHHHHHHHHHHhcChhhccccEEEEEEecCCce---EecCC
Confidence            467888999987732  11      11         233456666666555433   34 899999998632   23444


Q ss_pred             CCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcCCc---------eEEEEEEeCCccCCcchhHHHH
Q 018272          124 QENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGL---------HHVLVIITSGQVATGSQQEQET  194 (358)
Q Consensus       124 ~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~~~---------Y~VLlIiTDG~i~d~~~~~~~t  194 (358)
                      ...       .      ......+...|-|++..-|+++.+...+....         -.++++||||.-+|   +....
T Consensus        63 ~~~-------~------~~~~~~l~~~GgT~l~~aL~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~---~~~~~  126 (176)
T cd01464          63 TPL-------E------SFQPPRLTASGGTSMGAALELALDCIDRRVQRYRADQKGDWRPWVFLLTDGEPTD---DLTAA  126 (176)
T ss_pred             ccH-------H------hcCCCcccCCCCCcHHHHHHHHHHHHHHHHHHhcccCcCCcCcEEEEEcCCCCCc---hHHHH
Confidence            321       1      11234566789999999999998886432111         13678899999877   13444


Q ss_pred             HHHHHHhcCCCeEEEEEeeC-CCCchhhhhccCC
Q 018272          195 IRSIVDASSYPLSIVLVGVG-DGPWESIQKFHDK  227 (358)
Q Consensus       195 ~~aIv~AS~lPlSIiiVGVG-~~~f~~m~~LD~~  227 (358)
                      .+++.++-..++.|..|||| +.+.+.|++|-+.
T Consensus       127 ~~~~~~~~~~~~~i~~igiG~~~~~~~L~~ia~~  160 (176)
T cd01464         127 IERIKEARDSKGRIVACAVGPKADLDTLKQITEG  160 (176)
T ss_pred             HHHHHhhcccCCcEEEEEeccccCHHHHHHHHCC
Confidence            47777777778999999999 4788888888754

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=98.25  E-value=2.6e-05  Score=68.02  Aligned_cols=146  Identities=14%  Similarity=0.149  Sum_probs=94.7

Q ss_pred             eeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCCCC
Q 018272           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQEND  127 (358)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~~~  127 (358)
                      +++.+.+|.|.|=.        +            ...+.+..++..++..+..+ .+-++.|+.....   ++.+.+. 
T Consensus         1 ~~~~~vlD~S~SM~--------~------------~~~~~~k~a~~~~~~~l~~~~~v~li~f~~~~~~---~~~~~~~-   56 (170)
T cd01465           1 LNLVFVIDRSGSMD--------G------------PKLPLVKSALKLLVDQLRPDDRLAIVTYDGAAET---VLPATPV-   56 (170)
T ss_pred             CcEEEEEECCCCCC--------C------------hhHHHHHHHHHHHHHhCCCCCEEEEEEecCCccE---EecCccc-
Confidence            57889999998732        1            12556667777788888777 9999999986331   2222211 


Q ss_pred             CCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcC--CceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCC
Q 018272          128 SPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG--GLHHVLVIITSGQVATGSQQEQETIRSIVDASSYP  205 (358)
Q Consensus       128 ~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~--~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lP  205 (358)
                         ...+.+.+    .+.+++..|.|++..-++.+.+..++..  ..--.++++|||..++...+.++..+++..+.+..
T Consensus        57 ---~~~~~l~~----~l~~~~~~g~T~~~~al~~a~~~~~~~~~~~~~~~ivl~TDG~~~~~~~~~~~~~~~~~~~~~~~  129 (170)
T cd01465          57 ---RDKAAILA----AIDRLTAGGSTAGGAGIQLGYQEAQKHFVPGGVNRILLATDGDFNVGETDPDELARLVAQKRESG  129 (170)
T ss_pred             ---chHHHHHH----HHHcCCCCCCCCHHHHHHHHHHHHHhhcCCCCeeEEEEEeCCCCCCCCCCHHHHHHHHHHhhcCC
Confidence               12233332    3334556889999999999988876542  22255688899987641112455666666666678


Q ss_pred             eEEEEEeeCCC-Cchhhhhcc
Q 018272          206 LSIVLVGVGDG-PWESIQKFH  225 (358)
Q Consensus       206 lSIiiVGVG~~-~f~~m~~LD  225 (358)
                      +-|..||+|.. +...|+++=
T Consensus       130 v~i~~i~~g~~~~~~~l~~ia  150 (170)
T cd01465         130 ITLSTLGFGDNYNEDLMEAIA  150 (170)
T ss_pred             eEEEEEEeCCCcCHHHHHHHH
Confidence            88999999943 556666654

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

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

Probab=98.24  E-value=1.3e-05  Score=68.72  Aligned_cols=145  Identities=14%  Similarity=0.187  Sum_probs=94.9

Q ss_pred             eceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccc---cCCC-ceeEEeecCCCCCCCCccccCC
Q 018272           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVL---FDGD-CIRCYGFGDDTTRDEGVFSFQE  125 (358)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~---yD~d-~ip~~GFGa~~~~~~~~f~~~~  125 (358)
                      ++.+.+|.|+|=.        +            ..++.+...+..++..   .+.+ .+.++.|+.....   .+++..
T Consensus         2 di~~llD~S~Sm~--------~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~~~~~---~~~~~~   58 (161)
T cd01450           2 DIVFLLDGSESVG--------P------------ENFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVRV---EFSLND   58 (161)
T ss_pred             cEEEEEeCCCCcC--------H------------HHHHHHHHHHHHHHHheeeCCCceEEEEEEEcCCceE---EEECCC
Confidence            5678888876632        1            1333444444444444   4457 9999999986431   233321


Q ss_pred             CCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcC----CceEEEEEEeCCccCCcchhHHHHHHHHHHh
Q 018272          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG----GLHHVLVIITSGQVATGSQQEQETIRSIVDA  201 (358)
Q Consensus       126 ~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~----~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~A  201 (358)
                      ..    ..+.+.+.........  .|-|++...++.+.+...+..    ..-.++++||||..++    ..+..+++.+.
T Consensus        59 ~~----~~~~~~~~i~~~~~~~--~~~t~~~~al~~a~~~~~~~~~~~~~~~~~iiliTDG~~~~----~~~~~~~~~~~  128 (161)
T cd01450          59 YK----SKDDLLKAVKNLKYLG--GGGTNTGKALQYALEQLFSESNARENVPKVIIVLTDGRSDD----GGDPKEAAAKL  128 (161)
T ss_pred             CC----CHHHHHHHHHhcccCC--CCCccHHHHHHHHHHHhcccccccCCCCeEEEEECCCCCCC----CcchHHHHHHH
Confidence            11    3555555554432211  147999999999998877552    4567889999998887    23456666666


Q ss_pred             cCCCeEEEEEeeCCCCchhhhhccCC
Q 018272          202 SSYPLSIVLVGVGDGPWESIQKFHDK  227 (358)
Q Consensus       202 S~lPlSIiiVGVG~~~f~~m~~LD~~  227 (358)
                      .+..+-|+.||+|..+.+.|++|-+.
T Consensus       129 ~~~~v~v~~i~~g~~~~~~l~~la~~  154 (161)
T cd01450         129 KDEGIKVFVVGVGPADEEELREIASC  154 (161)
T ss_pred             HHCCCEEEEEeccccCHHHHHHHhCC
Confidence            66799999999999889999888653

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

>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=98.22  E-value=2.8e-07  Score=62.67  Aligned_cols=33  Identities=39%  Similarity=1.139  Sum_probs=27.6

Q ss_pred             ccCcccCCCCe-ee-cCCCCCchhhhhcC----CCCCCC
Q 018272          314 CCICCEDEKDT-AF-ECGHMSCIKCALRM----PQCPFC  346 (358)
Q Consensus       314 C~IC~~~~~~~-v~-pCgH~~C~~C~~~~----~~CP~C  346 (358)
                      |+||++...++ ++ +|||.||..|+.++    ..||+|
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            89999999998 45 99999999999976    679987

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

Probab=98.20  E-value=4.3e-07  Score=63.11  Aligned_cols=33  Identities=42%  Similarity=0.900  Sum_probs=26.9

Q ss_pred             ccCcccCCCCeee-cCCCCCchhhhhcC--------CCCCCC
Q 018272          314 CCICCEDEKDTAF-ECGHMSCIKCALRM--------PQCPFC  346 (358)
Q Consensus       314 C~IC~~~~~~~v~-pCgH~~C~~C~~~~--------~~CP~C  346 (358)
                      |+||++..++++. +|||.||..|+.++        ..||.|
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            8999999999887 99999999999976        258887

>PHA02926 zinc finger-like protein; Provisional

Probab=98.17  E-value=5e-07  Score=83.49  Aligned_cols=46  Identities=28%  Similarity=0.676  Sum_probs=36.6

Q ss_pred             ccCCCccCcccCCC---------Ceee-cCCCCCchhhhhcCC----------CCCCCccccCCee
Q 018272          309 AEAQRCCICCEDEK---------DTAF-ECGHMSCIKCALRMP----------QCPFCREEITTRR  354 (358)
Q Consensus       309 ~~~~~C~IC~~~~~---------~~v~-pCgH~~C~~C~~~~~----------~CP~CR~~i~~~~  354 (358)
                      +.+.+|.||+|...         -.++ +|+|.||..|+.++.          .||+||..+..++
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            45689999998632         2456 999999999999872          2999999988754

>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=98.16  E-value=2.4e-05  Score=68.40  Aligned_cols=141  Identities=14%  Similarity=0.176  Sum_probs=90.9

Q ss_pred             eeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCCCC
Q 018272           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQEND  127 (358)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~~~  127 (358)
                      +++.+.||.|.|=.        .            +..+.|-.++..+++.+.++ .+-+++|+.....   .+++.+.+
T Consensus         1 ~~v~~vlD~S~SM~--------~------------~rl~~ak~a~~~l~~~l~~~~~~~li~F~~~~~~---~~~~~~~~   57 (155)
T cd01466           1 VDLVAVLDVSGSMA--------G------------DKLQLVKHALRFVISSLGDADRLSIVTFSTSAKR---LSPLRRMT   57 (155)
T ss_pred             CcEEEEEECCCCCC--------c------------HHHHHHHHHHHHHHHhCCCcceEEEEEecCCccc---cCCCcccC
Confidence            35778899887632        1            13344445555566666666 8999999986432   23333211


Q ss_pred             CCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcC--CceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCC
Q 018272          128 SPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG--GLHHVLVIITSGQVATGSQQEQETIRSIVDASSYP  205 (358)
Q Consensus       128 ~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~--~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lP  205 (358)
                      +  .+-+.    ..+.+..+...|-|++..-++.+.+..++..  ..-.++++||||..++    .    .++..+.+.+
T Consensus        58 ~--~~~~~----~~~~i~~~~~~g~T~~~~al~~a~~~~~~~~~~~~~~~iillTDG~~~~----~----~~~~~~~~~~  123 (155)
T cd01466          58 A--KGKRS----AKRVVDGLQAGGGTNVVGGLKKALKVLGDRRQKNPVASIMLLSDGQDNH----G----AVVLRADNAP  123 (155)
T ss_pred             H--HHHHH----HHHHHHhccCCCCccHHHHHHHHHHHHhhcccCCCceEEEEEcCCCCCc----c----hhhhcccCCC
Confidence            1  11222    2333444667889999999999998876532  2346789999998765    2    3344566779


Q ss_pred             eEEEEEeeC-CCCchhhhhccC
Q 018272          206 LSIVLVGVG-DGPWESIQKFHD  226 (358)
Q Consensus       206 lSIiiVGVG-~~~f~~m~~LD~  226 (358)
                      +.|..||+| +.+...|++|=+
T Consensus       124 v~v~~igig~~~~~~~l~~iA~  145 (155)
T cd01466         124 IPIHTFGLGASHDPALLAFIAE  145 (155)
T ss_pred             ceEEEEecCCCCCHHHHHHHHh
Confidence            999999999 567777887754

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,

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

Probab=98.14  E-value=7.6e-07  Score=90.64  Aligned_cols=42  Identities=38%  Similarity=0.833  Sum_probs=38.3

Q ss_pred             CCCccCcccCCCCeee-cCCCCCchhhhhcC---------CCCCCCccccCC
Q 018272          311 AQRCCICCEDEKDTAF-ECGHMSCIKCALRM---------PQCPFCREEITT  352 (358)
Q Consensus       311 ~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~---------~~CP~CR~~i~~  352 (358)
                      ...|+||++.+..++. .|||.||..|+.++         .+||+||..|..
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            6799999999999988 99999999999865         579999999987

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.12  E-value=1.2e-06  Score=88.18  Aligned_cols=50  Identities=32%  Similarity=0.701  Sum_probs=43.0

Q ss_pred             CCccccccCCCccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018272          303 PVSAEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITT  352 (358)
Q Consensus       303 ~~~~~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~  352 (358)
                      +....+.....|+||.+...++++ +|||.||..|+..+    ..||+||..+..
T Consensus        18 ~~l~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~   72 (397)
T TIGR00599        18 PSLYPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE   72 (397)
T ss_pred             ccccccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence            444667788999999999999888 99999999999865    579999998865

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

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.09  E-value=1.6e-06  Score=60.54  Aligned_cols=36  Identities=39%  Similarity=1.095  Sum_probs=30.2

Q ss_pred             CccCcccCC---CCeee-cCCCCCchhhhhcCC----CCCCCcc
Q 018272          313 RCCICCEDE---KDTAF-ECGHMSCIKCALRMP----QCPFCRE  348 (358)
Q Consensus       313 ~C~IC~~~~---~~~v~-pCgH~~C~~C~~~~~----~CP~CR~  348 (358)
                      .|.||++..   ....+ +|||.+|..|+.++.    .||+||+
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            489999987   23445 999999999999986    8999985

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

Probab=98.04  E-value=6.1e-05  Score=66.81  Aligned_cols=125  Identities=14%  Similarity=0.206  Sum_probs=76.8

Q ss_pred             HHHHHHHhhcccccCCCceeEEeecCCCCCCC--CccccCCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHH
Q 018272           87 QEVIYITGKELVLFDGDCIRCYGFGDDTTRDE--GVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVD  164 (358)
Q Consensus        87 q~aI~~ig~vl~~yD~d~ip~~GFGa~~~~~~--~~f~~~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~  164 (358)
                      .+++..+...+.. ..|.+-+|+|+...+...  ..+...+-+.   .   +..+.++.+..+...|.|++.+.|+.+.+
T Consensus        23 k~a~~~l~~~l~~-~~d~~~l~~F~~~~~~~~~~~~~~~~~~~~---~---~~~~~~~~l~~~~~~g~T~~~~al~~a~~   95 (174)
T cd01454          23 KKAAVLLAEALEA-CGVPHAILGFTTDAGGRERVRWIKIKDFDE---S---LHERARKRLAALSPGGNTRDGAAIRHAAE   95 (174)
T ss_pred             HHHHHHHHHHHHH-cCCcEEEEEecCCCCCccceEEEEecCccc---c---cchhHHHHHHccCCCCCCcHHHHHHHHHH
Confidence            3444444444444 233899999987632111  1111111010   1   01122333445556788999999999998


Q ss_pred             HHHhcCCceEEEEEEeCCccCCcch------hHHHHHHHHHHhcCCCeEEEEEeeCCCCc
Q 018272          165 IVEESGGLHHVLVIITSGQVATGSQ------QEQETIRSIVDASSYPLSIVLVGVGDGPW  218 (358)
Q Consensus       165 ~~~~~~~~Y~VLlIiTDG~i~d~~~------~~~~t~~aIv~AS~lPlSIiiVGVG~~~f  218 (358)
                      ...+....--++++||||.-++...      ..++.++++.++-+..+.+..||||+...
T Consensus        96 ~l~~~~~~~~~iiliTDG~~~~~~~~~~~~~~~~~~~~~~~~~~~~gi~v~~igig~~~~  155 (174)
T cd01454          96 RLLARPEKRKILLVISDGEPNDLDYYEGNVFATEDALRAVIEARKLGIEVFGITIDRDAT  155 (174)
T ss_pred             HHhcCCCcCcEEEEEeCCCcCcccccCcchhHHHHHHHHHHHHHhCCcEEEEEEecCccc
Confidence            8775444456788999998876210      13455566888888899999999998764

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.

>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=98.02  E-value=5.3e-05  Score=69.23  Aligned_cols=161  Identities=16%  Similarity=0.199  Sum_probs=94.3

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC-ceeEEeecCCCCCC--CC-cccc
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRD--EG-VFSF  123 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~--~~-~f~~  123 (358)
                      ..++.+.||.|.|=..             . +....+..+.|..++..++..+.++ .+-++.|+......  .. +++.
T Consensus        20 ~~~vv~vlD~SgSM~~-------------~-~~~~~~rl~~ak~a~~~~l~~l~~~~~v~lv~F~~~~~~~~~~~~~~p~   85 (206)
T cd01456          20 PPNVAIVLDNSGSMRE-------------V-DGGGETRLDNAKAALDETANALPDGTRLGLWTFSGDGDNPLDVRVLVPK   85 (206)
T ss_pred             CCcEEEEEeCCCCCcC-------------C-CCCcchHHHHHHHHHHHHHHhCCCCceEEEEEecCCCCCCccccccccc
Confidence            4689999999877421             1 1112456666766777777778667 99999999864321  11 1111


Q ss_pred             CCCCCCCCCHH-HHHHHHHhcCCcee-eccCCChHHHHHHHHHHHHhcCCceEEEEEEeCCccCCcchhHHHHHHHHHHh
Q 018272          124 QENDSPCQGFE-HVLECYRKNVPNVQ-YFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDA  201 (358)
Q Consensus       124 ~~~~~~~~g~~-gvl~~Y~~~l~~v~-l~gpt~fapvI~~a~~~~~~~~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~A  201 (358)
                      .+.-....+.. .-.+...+.+..++ ..|-|++..-|+.+.+..+ . ..-..+++||||.-++ ..+..+..+.+.+.
T Consensus        86 ~~~~~~~~~~~~~~~~~l~~~i~~i~~~~G~T~l~~aL~~a~~~l~-~-~~~~~iillTDG~~~~-~~~~~~~~~~~~~~  162 (206)
T cd01456          86 GCLTAPVNGFPSAQRSALDAALNSLQTPTGWTPLAAALAEAAAYVD-P-GRVNVVVLITDGEDTC-GPDPCEVARELAKR  162 (206)
T ss_pred             cccccccCCCCcccHHHHHHHHHhhcCCCCcChHHHHHHHHHHHhC-C-CCcceEEEEcCCCccC-CCCHHHHHHHHHHh
Confidence            11000111210 11233344455555 6889999999999988775 2 2335678889998765 11122333444432


Q ss_pred             --cCCCeEEEEEeeCCC-Cchhhhhcc
Q 018272          202 --SSYPLSIVLVGVGDG-PWESIQKFH  225 (358)
Q Consensus       202 --S~lPlSIiiVGVG~~-~f~~m~~LD  225 (358)
                        ..-++.|.+||+|.+ +...|+++=
T Consensus       163 ~~~~~~i~i~~igiG~~~~~~~l~~iA  189 (206)
T cd01456         163 RTPAPPIKVNVIDFGGDADRAELEAIA  189 (206)
T ss_pred             cCCCCCceEEEEEecCcccHHHHHHHH
Confidence              124788999999975 455666653

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

>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=97.99  E-value=1e-06  Score=61.32  Aligned_cols=35  Identities=34%  Similarity=0.832  Sum_probs=28.2

Q ss_pred             CccCcccCCC--C-eee-cCCCCCchhhhhcC----CCCCCCc
Q 018272          313 RCCICCEDEK--D-TAF-ECGHMSCIKCALRM----PQCPFCR  347 (358)
Q Consensus       313 ~C~IC~~~~~--~-~v~-pCgH~~C~~C~~~~----~~CP~CR  347 (358)
                      .|+||++...  + ++. +|||.||..|+.++    ..||+||
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            6999999763  2 333 99999999999987    6899998

...

>smart00504 Ubox Modified RING finger domain

Probab=97.99  E-value=3.9e-06  Score=62.29  Aligned_cols=41  Identities=20%  Similarity=0.184  Sum_probs=36.8

Q ss_pred             CCccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018272          312 QRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITT  352 (358)
Q Consensus       312 ~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~  352 (358)
                      ..|+||.+...+++. +|||.+|+.|+.++    ..||+|++++..
T Consensus         2 ~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~   47 (63)
T smart00504        2 FLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTH   47 (63)
T ss_pred             cCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence            579999999999888 99999999999976    579999999854

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

>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=97.97  E-value=0.00015  Score=63.75  Aligned_cols=125  Identities=15%  Similarity=0.178  Sum_probs=79.5

Q ss_pred             HHHHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHH
Q 018272           87 QEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDI  165 (358)
Q Consensus        87 q~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~  165 (358)
                      .+++..+..-+....++ .+.++.|+.+..   ..|+++.    ....+.++++..+...   ..|.|+...-|+.+.+.
T Consensus        22 k~~~~~l~~~~~~~~~~~rvgli~fs~~~~---~~~~l~~----~~~~~~l~~~l~~~~~---~~g~T~~~~aL~~a~~~   91 (164)
T cd01482          22 RSFLSSVVEAFEIGPDGVQVGLVQYSDDPR---TEFDLNA----YTSKEDVLAAIKNLPY---KGGNTRTGKALTHVREK   91 (164)
T ss_pred             HHHHHHHHhheeeCCCceEEEEEEECCCee---EEEecCC----CCCHHHHHHHHHhCcC---CCCCChHHHHHHHHHHH
Confidence            34444444444333356 999999999742   2244431    2345566665554321   47889999999988765


Q ss_pred             HHhc-----CCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCeEEEEEeeCCCCchhhhhccCC
Q 018272          166 VEES-----GGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHDK  227 (358)
Q Consensus       166 ~~~~-----~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPlSIiiVGVG~~~f~~m~~LD~~  227 (358)
                      ..+.     ...-.+++|||||.-+|   +.++..+.+.   +..+.|..||+|+.+-..|++|-+.
T Consensus        92 ~~~~~~~~r~~~~k~iillTDG~~~~---~~~~~a~~lk---~~gi~i~~ig~g~~~~~~L~~ia~~  152 (164)
T cd01482          92 NFTPDAGARPGVPKVVILITDGKSQD---DVELPARVLR---NLGVNVFAVGVKDADESELKMIASK  152 (164)
T ss_pred             hcccccCCCCCCCEEEEEEcCCCCCc---hHHHHHHHHH---HCCCEEEEEecCcCCHHHHHHHhCC
Confidence            4221     12356888999998765   2334444443   4688999999999887777777654

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.

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

Probab=97.96  E-value=1.7e-06  Score=85.51  Aligned_cols=42  Identities=43%  Similarity=1.027  Sum_probs=38.9

Q ss_pred             CCccCcccCCCCeee-cCCCCCchhhhhcC------CCCCCCccccCCe
Q 018272          312 QRCCICCEDEKDTAF-ECGHMSCIKCALRM------PQCPFCREEITTR  353 (358)
Q Consensus       312 ~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~------~~CP~CR~~i~~~  353 (358)
                      .+|+||-|+.+|+-+ ||||.+|..|+..|      +.||.||..|...
T Consensus       370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt  418 (563)
T KOG1785|consen  370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT  418 (563)
T ss_pred             HHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence            689999999999999 99999999999987      4699999999874

>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=97.96  E-value=3.8e-06  Score=57.02  Aligned_cols=38  Identities=37%  Similarity=0.987  Sum_probs=30.9

Q ss_pred             CccCcccCCCCee-e-cCCCCCchhhhhcC-----CCCCCCcccc
Q 018272          313 RCCICCEDEKDTA-F-ECGHMSCIKCALRM-----PQCPFCREEI  350 (358)
Q Consensus       313 ~C~IC~~~~~~~v-~-pCgH~~C~~C~~~~-----~~CP~CR~~i  350 (358)
                      .|+||++...+.+ + +|||.+|..|...+     ..||+||..+
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            5999999885544 4 69999999999854     5699999864

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

Probab=97.94  E-value=1.4e-06  Score=84.57  Aligned_cols=51  Identities=31%  Similarity=0.644  Sum_probs=44.5

Q ss_pred             CCCccccccCCCccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018272          302 GPVSAEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITT  352 (358)
Q Consensus       302 ~~~~~~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~  352 (358)
                      .|....+.+...|-||.|.++.+++ ||||.||..|+...    +.||.|+.+++.
T Consensus        14 ipslk~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~E   69 (442)
T KOG0287|consen   14 IPSLKTLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTE   69 (442)
T ss_pred             CchhhhhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCCCCCceecccch
Confidence            4445567788999999999999998 99999999999976    789999998875

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

Probab=97.93  E-value=0.00012  Score=62.98  Aligned_cols=146  Identities=17%  Similarity=0.209  Sum_probs=96.6

Q ss_pred             eceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCCceeEEeecCCCCCCCCccccCCCCCC
Q 018272           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSP  129 (358)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d~ip~~GFGa~~~~~~~~f~~~~~~~~  129 (358)
                      ++++.+|-|.|=.+.               ....+...++..++..++..+..+.|.++.|+....   ..+++.     
T Consensus         1 dvv~v~D~SgSM~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~v~l~~f~~~~~---~~~~~t-----   57 (172)
T PF13519_consen    1 DVVFVLDNSGSMNGY---------------DGNRTRIDQAKDALNELLANLPGDRVGLVSFSDSSR---TLSPLT-----   57 (172)
T ss_dssp             EEEEEEE-SGGGGTT---------------TSSS-HHHHHHHHHHHHHHHHTTSEEEEEEESTSCE---EEEEEE-----
T ss_pred             CEEEEEECCcccCCC---------------CCCCcHHHHHHHHHHHHHHHCCCCEEEEEEeccccc---cccccc-----
Confidence            468889998885421               112578888999999999988644999999998531   123332     


Q ss_pred             CCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcCCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCeEEE
Q 018272          130 CQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIV  209 (358)
Q Consensus       130 ~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPlSIi  209 (358)
                       .+.+.+.+...+..+.....|.|++...|+.+.+........=-.+++||||.-+.      ...+++..+.+..+.|.
T Consensus        58 -~~~~~~~~~l~~~~~~~~~~~~t~~~~al~~a~~~~~~~~~~~~~iv~iTDG~~~~------~~~~~~~~~~~~~i~i~  130 (172)
T PF13519_consen   58 -SDKDELKNALNKLSPQGMPGGGTNLYDALQEAAKMLASSDNRRRAIVLITDGEDNS------SDIEAAKALKQQGITIY  130 (172)
T ss_dssp             -SSHHHHHHHHHTHHHHG--SSS--HHHHHHHHHHHHHC-SSEEEEEEEEES-TTHC------HHHHHHHHHHCTTEEEE
T ss_pred             -ccHHHHHHHhhcccccccCccCCcHHHHHHHHHHHHHhCCCCceEEEEecCCCCCc------chhHHHHHHHHcCCeEE
Confidence             36777777776666666668899999999999999876643345557779997654      33346667778899999


Q ss_pred             EEeeCCCCc--hhhhhcc
Q 018272          210 LVGVGDGPW--ESIQKFH  225 (358)
Q Consensus       210 iVGVG~~~f--~~m~~LD  225 (358)
                      +||+|...-  ..|+.|-
T Consensus       131 ~v~~~~~~~~~~~l~~la  148 (172)
T PF13519_consen  131 TVGIGSDSDANEFLQRLA  148 (172)
T ss_dssp             EEEES-TT-EHHHHHHHH
T ss_pred             EEEECCCccHHHHHHHHH
Confidence            999998765  3555554

>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=97.90  E-value=0.00031  Score=62.09  Aligned_cols=141  Identities=15%  Similarity=0.122  Sum_probs=82.8

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCCceeEEeecCCCCCCCCccccCCCC
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQEND  127 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d~ip~~GFGa~~~~~~~~f~~~~~~  127 (358)
                      .+++.+.||.|.|=..  .        ++    ...+..+.|...+...+.....|.+-++.|+.....   ++++.   
T Consensus         2 ~~~vv~vlD~S~SM~~--~--------~~----~~~~r~~~a~~~~~~~~~~~~~~~v~lv~f~~~~~~---~~~~~---   61 (180)
T cd01467           2 GRDIMIALDVSGSMLA--Q--------DF----VKPSRLEAAKEVLSDFIDRRENDRIGLVVFAGAAFT---QAPLT---   61 (180)
T ss_pred             CceEEEEEECCccccc--c--------cC----CCCCHHHHHHHHHHHHHHhCCCCeEEEEEEcCCeee---ccCCC---
Confidence            3688999999988541  1        11    012444455555656666655458999999886321   22222   


Q ss_pred             CCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcCCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCeE
Q 018272          128 SPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLS  207 (358)
Q Consensus       128 ~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPlS  207 (358)
                         .+...+.+. -+.+......|.|+...-|+.+.+...+....-.++++||||.-++-..+..+.   ...+....+.
T Consensus        62 ---~~~~~~~~~-l~~l~~~~~~g~T~l~~al~~a~~~l~~~~~~~~~iiliTDG~~~~g~~~~~~~---~~~~~~~gi~  134 (180)
T cd01467          62 ---LDRESLKEL-LEDIKIGLAGQGTAIGDAIGLAIKRLKNSEAKERVIVLLTDGENNAGEIDPATA---AELAKNKGVR  134 (180)
T ss_pred             ---ccHHHHHHH-HHHhhhcccCCCCcHHHHHHHHHHHHHhcCCCCCEEEEEeCCCCCCCCCCHHHH---HHHHHHCCCE
Confidence               122222222 122222335788999988988888876544445788999999765410012222   2334456788


Q ss_pred             EEEEeeCC
Q 018272          208 IVLVGVGD  215 (358)
Q Consensus       208 IiiVGVG~  215 (358)
                      |..||+|.
T Consensus       135 i~~i~ig~  142 (180)
T cd01467         135 IYTIGVGK  142 (180)
T ss_pred             EEEEEecC
Confidence            88888887

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

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

Probab=97.87  E-value=2.9e-06  Score=90.02  Aligned_cols=46  Identities=30%  Similarity=0.767  Sum_probs=41.1

Q ss_pred             ccccCCCccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018272          307 EVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITT  352 (358)
Q Consensus       307 ~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~  352 (358)
                      ..+....|++|.++++++++ .|||.||..|....     .+||.|..+|..
T Consensus       639 ~yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga  690 (698)
T KOG0978|consen  639 EYKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA  690 (698)
T ss_pred             HHHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence            34566999999999999999 99999999999864     789999999876

>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=97.86  E-value=4e-06  Score=57.25  Aligned_cols=33  Identities=39%  Similarity=1.015  Sum_probs=29.2

Q ss_pred             ccCcccCCCCee-e-cCCCCCchhhhhcC------CCCCCC
Q 018272          314 CCICCEDEKDTA-F-ECGHMSCIKCALRM------PQCPFC  346 (358)
Q Consensus       314 C~IC~~~~~~~v-~-pCgH~~C~~C~~~~------~~CP~C  346 (358)
                      |+||++...+.+ + +|||.||..|+.++      ..||+|
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            899999999987 5 99999999999876      469987

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 ....

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

Probab=97.85  E-value=7.1e-06  Score=76.00  Aligned_cols=46  Identities=30%  Similarity=0.676  Sum_probs=42.6

Q ss_pred             CCccCcccCCCCeee-cCCCC-CchhhhhcCCCCCCCccccCCeeecC
Q 018272          312 QRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVY  357 (358)
Q Consensus       312 ~~C~IC~~~~~~~v~-pCgH~-~C~~C~~~~~~CP~CR~~i~~~~~~f  357 (358)
                      ..|..|.++...+++ ||.|+ +|..|......||+|+.+....+++|
T Consensus       159 ~~Cr~C~~~~~~VlllPCrHl~lC~~C~~~~~~CPiC~~~~~s~~~v~  206 (207)
T KOG1100|consen  159 RSCRKCGEREATVLLLPCRHLCLCGICDESLRICPICRSPKTSSVEVN  206 (207)
T ss_pred             ccceecCcCCceEEeecccceEecccccccCccCCCCcChhhceeecc
Confidence            349999999999988 99999 99999998899999999999999887

>TIGR03788 marine_srt_targ marine proteobacterial sortase target protein

Probab=97.85  E-value=0.00023  Score=75.61  Aligned_cols=129  Identities=19%  Similarity=0.109  Sum_probs=84.2

Q ss_pred             hHHHHHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHH
Q 018272           85 PYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAV  163 (358)
Q Consensus        85 ~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~  163 (358)
                      ..++|-.++..+|....++ .|-++.|+.......   +..    ...+ ++-++...+.+..++..|-|++...|+.+.
T Consensus       288 ~i~~ak~al~~~l~~L~~~d~~~ii~F~~~~~~~~---~~~----~~~~-~~~~~~a~~~i~~l~a~GgT~l~~aL~~a~  359 (596)
T TIGR03788       288 SIEQAKSALLLALDQLRPGDRFNIIQFDSDVTLLF---PVP----VPAT-AHNLARARQFVAGLQADGGTEMAGALSAAL  359 (596)
T ss_pred             cHHHHHHHHHHHHHhCCCCCEEEEEEECCcceEec---ccc----ccCC-HHHHHHHHHHHhhCCCCCCccHHHHHHHHH
Confidence            3556777777788888877 999999998754221   110    0011 122233344455566789999999999998


Q ss_pred             HHHHhc-CCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCeEEEEEeeCCC-CchhhhhccC
Q 018272          164 DIVEES-GGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDG-PWESIQKFHD  226 (358)
Q Consensus       164 ~~~~~~-~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPlSIiiVGVG~~-~f~~m~~LD~  226 (358)
                      +..... ...--.+++||||.+.|    ..++.+.+..+. -..-|..||||++ +...|+.|-.
T Consensus       360 ~~~~~~~~~~~~~iillTDG~~~~----~~~~~~~~~~~~-~~~ri~tvGiG~~~n~~lL~~lA~  419 (596)
T TIGR03788       360 RDDGPESSGALRQVVFLTDGAVGN----EDALFQLIRTKL-GDSRLFTVGIGSAPNSYFMRKAAQ  419 (596)
T ss_pred             HhhcccCCCceeEEEEEeCCCCCC----HHHHHHHHHHhc-CCceEEEEEeCCCcCHHHHHHHHH
Confidence            763222 12234467789999988    778888776553 2456778999986 6777777653

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).

>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=97.82  E-value=0.00052  Score=59.75  Aligned_cols=143  Identities=17%  Similarity=0.238  Sum_probs=88.1

Q ss_pred             eeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCC---C-ceeEEeecCCCCCCCCccccC
Q 018272           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDG---D-CIRCYGFGDDTTRDEGVFSFQ  124 (358)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~---d-~ip~~GFGa~~~~~~~~f~~~  124 (358)
                      +++.+.+|-|.|-.                     ..|+++...+..++..+..   . .+-+.+|+.... ..-.|+++
T Consensus         1 ldv~~llD~S~Sm~---------------------~~~~~~~~~~~~~~~~l~~~~~~~~v~lv~f~~~~~-~~~~~~l~   58 (163)
T cd01476           1 LDLLFVLDSSGSVR---------------------GKFEKYKKYIERIVEGLEIGPTATRVALITYSGRGR-QRVRFNLP   58 (163)
T ss_pred             CCEEEEEeCCcchh---------------------hhHHHHHHHHHHHHHhcCCCCCCcEEEEEEEcCCCc-eEEEecCC
Confidence            36778888876632                     0134445555555666553   4 999999998522 11124443


Q ss_pred             CCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhc----CCceEEEEEEeCCccCCcchhHHHHHHHHHH
Q 018272          125 ENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES----GGLHHVLVIITSGQVATGSQQEQETIRSIVD  200 (358)
Q Consensus       125 ~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~----~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~  200 (358)
                      ..    ...+.++++-.. +.  ...|.|+....|+.+.+...+.    .....+++++|||..++   +..+..+.+.+
T Consensus        59 ~~----~~~~~l~~~i~~-l~--~~gg~T~l~~aL~~a~~~l~~~~~~r~~~~~~villTDG~~~~---~~~~~~~~l~~  128 (163)
T cd01476          59 KH----NDGEELLEKVDN-LR--FIGGTTATGAAIEVALQQLDPSEGRREGIPKVVVVLTDGRSHD---DPEKQARILRA  128 (163)
T ss_pred             CC----CCHHHHHHHHHh-Cc--cCCCCccHHHHHHHHHHHhccccCCCCCCCeEEEEECCCCCCC---chHHHHHHHhh
Confidence            21    234445444433 22  1367899999999998887421    12237889999998765   24455566655


Q ss_pred             hcCCCeEEEEEeeCCC---Cchhhhhcc
Q 018272          201 ASSYPLSIVLVGVGDG---PWESIQKFH  225 (358)
Q Consensus       201 AS~lPlSIiiVGVG~~---~f~~m~~LD  225 (358)
                        ..-+.|+.||+|+.   +...|+.+-
T Consensus       129 --~~~v~v~~vg~g~~~~~~~~~L~~ia  154 (163)
T cd01476         129 --VPNIETFAVGTGDPGTVDTEELHSIT  154 (163)
T ss_pred             --cCCCEEEEEECCCccccCHHHHHHHh
Confidence              46688999999986   455555553

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.

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

Probab=97.82  E-value=5.1e-06  Score=79.34  Aligned_cols=52  Identities=33%  Similarity=0.601  Sum_probs=44.1

Q ss_pred             CCCCccccccCCCccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018272          301 MGPVSAEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITT  352 (358)
Q Consensus       301 ~~~~~~~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~  352 (358)
                      ..|+...+.....|.||-+..+.++. +|||.||..|+.+.    ..||+||.+...
T Consensus        15 ~IPSL~~LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~e   71 (391)
T COG5432          15 KIPSLKGLDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCE   71 (391)
T ss_pred             cCcchhcchhHHHhhhhhheeecceecccccchhHHHHHHHhcCCCCCccccccHHh
Confidence            34555566778899999999999999 99999999999986    679999987654

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

Probab=97.81  E-value=4.7e-06  Score=77.44  Aligned_cols=43  Identities=35%  Similarity=0.760  Sum_probs=37.5

Q ss_pred             cccccCCCccCcccCCCCeee-cCCCCCchhhhhcCC----CCCCCcc
Q 018272          306 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRMP----QCPFCRE  348 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~~----~CP~CR~  348 (358)
                      ....+...|+||++..+++.+ +|||.||+.|+..+.    .||.||.
T Consensus         8 ~~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen    8 EVLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             hhccccccChhhHHHhhcCccccccchHhHHHHHHhcCCCcCCcccCC
Confidence            455678999999999999876 999999999999874    7999994

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

Probab=97.80  E-value=6.8e-06  Score=77.65  Aligned_cols=44  Identities=30%  Similarity=0.856  Sum_probs=37.6

Q ss_pred             ccCCCccCcccCCCCeee-cCCCCCchhhhhc-C-----CCCCCCccccCC
Q 018272          309 AEAQRCCICCEDEKDTAF-ECGHMSCIKCALR-M-----PQCPFCREEITT  352 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~-~-----~~CP~CR~~i~~  352 (358)
                      ..+..|.||++..-+++. +|||.||..|+.. +     ..||+||+....
T Consensus       213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~p  263 (271)
T COG5574         213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYP  263 (271)
T ss_pred             ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhccc
Confidence            346899999999999887 9999999999987 3     359999997654

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

Probab=97.77  E-value=0.00038  Score=63.09  Aligned_cols=155  Identities=14%  Similarity=0.200  Sum_probs=89.3

Q ss_pred             eeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCCCC
Q 018272           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQEND  127 (358)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~~~  127 (358)
                      +++.+.||-|.|=+        +.         ..+.-.+++..+...|..+..+ .+-++.|+....   .+|++..  
T Consensus         1 ~di~~vlD~SgSM~--------~~---------~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs~~~~---~~~~~~~--   58 (198)
T cd01470           1 LNIYIALDASDSIG--------EE---------DFDEAKNAIKTLIEKISSYEVSPRYEIISYASDPK---EIVSIRD--   58 (198)
T ss_pred             CcEEEEEECCCCcc--------HH---------HHHHHHHHHHHHHHHccccCCCceEEEEEecCCce---EEEeccc--
Confidence            46788899887632        10         1122334555554444445445 999999998643   1344431  


Q ss_pred             CCCCCHHHHHHHHHhcCCcee-eccCCChHHHHHHHHHHHHhc----C----CceEEEEEEeCCccCCcchhHHHHHHHH
Q 018272          128 SPCQGFEHVLECYRKNVPNVQ-YFGPTSYAPMVEAAVDIVEES----G----GLHHVLVIITSGQVATGSQQEQETIRSI  198 (358)
Q Consensus       128 ~~~~g~~gvl~~Y~~~l~~v~-l~gpt~fapvI~~a~~~~~~~----~----~~Y~VLlIiTDG~i~d~~~~~~~t~~aI  198 (358)
                      ..-...+.++++-...-.... ..|-|++..-|+.+.+.....    .    ..-.++++||||+-++- .+..+..+.|
T Consensus        59 ~~~~~~~~~~~~l~~~~~~~~~~~ggT~~~~Al~~~~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g-~~~~~~~~~~  137 (198)
T cd01470          59 FNSNDADDVIKRLEDFNYDDHGDKTGTNTAAALKKVYERMALEKVRNKEAFNETRHVIILFTDGKSNMG-GSPLPTVDKI  137 (198)
T ss_pred             CCCCCHHHHHHHHHhCCcccccCccchhHHHHHHHHHHHHHHHHhcCccchhhcceEEEEEcCCCcCCC-CChhHHHHHH
Confidence            111234455554433322221 246799999998887654211    0    12378899999987641 1133444555


Q ss_pred             HHh----------cCCCeEEEEEeeCCC-CchhhhhccC
Q 018272          199 VDA----------SSYPLSIVLVGVGDG-PWESIQKFHD  226 (358)
Q Consensus       199 v~A----------S~lPlSIiiVGVG~~-~f~~m~~LD~  226 (358)
                      .++          ....+.|..||||+. +.+.|+++=.
T Consensus       138 ~~~~~~~~~~~~~~~~~v~i~~iGvG~~~~~~~L~~iA~  176 (198)
T cd01470         138 KNLVYKNNKSDNPREDYLDVYVFGVGDDVNKEELNDLAS  176 (198)
T ss_pred             HHHHhcccccccchhcceeEEEEecCcccCHHHHHHHhc
Confidence            443          234689999999964 7888888855

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.

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

Probab=97.73  E-value=0.00043  Score=60.59  Aligned_cols=121  Identities=18%  Similarity=0.273  Sum_probs=75.8

Q ss_pred             HHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCCCCCCCCCHHHHHHHHHhcCCceee-ccCCChHHHHHHHHHHH
Q 018272           89 VIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQY-FGPTSYAPMVEAAVDIV  166 (358)
Q Consensus        89 aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~~~~~~~g~~gvl~~Y~~~l~~v~l-~gpt~fapvI~~a~~~~  166 (358)
                      ++..+..-|.....+ .+-++-|+.....   +++++.    ....+.+.+.-.+    +.. .|.|+....++.|.+..
T Consensus        24 ~~~~~~~~l~~~~~~~~~giv~Fs~~~~~---~~~~~~----~~~~~~~~~~l~~----l~~~~g~T~~~~al~~a~~~l   92 (164)
T cd01472          24 FVKRVVERLDIGPDGVRVGVVQYSDDPRT---EFYLNT----YRSKDDVLEAVKN----LRYIGGGTNTGKALKYVRENL   92 (164)
T ss_pred             HHHHHHhhcccCCCCeEEEEEEEcCceeE---EEecCC----CCCHHHHHHHHHh----CcCCCCCchHHHHHHHHHHHh
Confidence            444443334333345 8999999976432   234431    1234444444333    332 78899999999998876


Q ss_pred             Hhc-----CCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCeEEEEEeeCCCCchhhhhccC
Q 018272          167 EES-----GGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHD  226 (358)
Q Consensus       167 ~~~-----~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPlSIiiVGVG~~~f~~m~~LD~  226 (358)
                      ...     ...-.++++||||.-++      +..++..+..+..+.|..||+|+.+.+.|+.+=+
T Consensus        93 ~~~~~~~~~~~~~~iiliTDG~~~~------~~~~~~~~l~~~gv~i~~ig~g~~~~~~L~~ia~  151 (164)
T cd01472          93 FTEASGSREGVPKVLVVITDGKSQD------DVEEPAVELKQAGIEVFAVGVKNADEEELKQIAS  151 (164)
T ss_pred             CCcccCCCCCCCEEEEEEcCCCCCc------hHHHHHHHHHHCCCEEEEEECCcCCHHHHHHHHC
Confidence            541     22346778889997654      2233333444578899999999988888888754

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.

>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=97.72  E-value=0.001  Score=60.61  Aligned_cols=150  Identities=13%  Similarity=0.130  Sum_probs=93.3

Q ss_pred             HHHHHhhcccccC---CC-ceeEEeecCCCCCCCCccccCCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHH
Q 018272           89 VIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVD  164 (358)
Q Consensus        89 aI~~ig~vl~~yD---~d-~ip~~GFGa~~~~~~~~f~~~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~  164 (358)
                      ++..+-.+++.|+   .+ .+.+.=|+....   ..++|+..  .-..-+.++++-++..+....+|-|+....|+.+.+
T Consensus        22 ~~~f~~~lv~~l~i~~~~~rvgvv~fs~~~~---~~~~~~~~--~~~~~~~l~~~i~~l~~~~~~~g~T~~~~AL~~a~~   96 (192)
T cd01473          22 VIPFTEKIINNLNISKDKVHVGILLFAEKNR---DVVPFSDE--ERYDKNELLKKINDLKNSYRSGGETYIVEALKYGLK   96 (192)
T ss_pred             HHHHHHHHHHhCccCCCccEEEEEEecCCce---eEEecCcc--cccCHHHHHHHHHHHHhccCCCCcCcHHHHHHHHHH
Confidence            3444555555554   34 899999998642   22444321  112345566655554433334688999999999887


Q ss_pred             HHHhcC----CceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCeEEEEEeeCCCCchhhhhccCCC-CCcccceeEee
Q 018272          165 IVEESG----GLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHDKI-PALQFDNFHFV  239 (358)
Q Consensus       165 ~~~~~~----~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPlSIiiVGVG~~~f~~m~~LD~~~-~~r~rDnvqFV  239 (358)
                      ...+..    ..--|+++||||.-++.  +...+.++...+-+.-+.|..||||..+-..++.+=+.- ......+|-..
T Consensus        97 ~~~~~~~~r~~~~kv~IllTDG~s~~~--~~~~~~~~a~~lk~~gV~i~~vGiG~~~~~el~~ia~~~~~~~~~~~~~~~  174 (192)
T cd01473          97 NYTKHGNRRKDAPKVTMLFTDGNDTSA--SKKELQDISLLYKEENVKLLVVGVGAASENKLKLLAGCDINNDNCPNVIKT  174 (192)
T ss_pred             HhccCCCCcccCCeEEEEEecCCCCCc--chhhHHHHHHHHHHCCCEEEEEEeccccHHHHHHhcCCCCCCCCCCeEEec
Confidence            764321    12678999999988761  123466777777788999999999998877766665431 11122344445


Q ss_pred             eccccc
Q 018272          240 NFTAIM  245 (358)
Q Consensus       240 ~f~~~~  245 (358)
                      +|+++.
T Consensus       175 ~f~~l~  180 (192)
T cd01473         175 EWNNLN  180 (192)
T ss_pred             chhhHH
Confidence            566553

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.

>PF13768 VWA_3: von Willebrand factor type A domain

Probab=97.71  E-value=0.00035  Score=60.52  Aligned_cols=142  Identities=15%  Similarity=0.192  Sum_probs=87.7

Q ss_pred             eceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCCCCC
Q 018272           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDS  128 (358)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~~~~  128 (358)
                      ++++-||.+.|..  |               . .   +.+..++-.+++...+. .|-++.||.........  +.+  .
T Consensus         2 ~vvilvD~S~Sm~--g---------------~-~---~~~k~al~~~l~~L~~~d~fnii~f~~~~~~~~~~--~~~--~   56 (155)
T PF13768_consen    2 DVVILVDTSGSMS--G---------------E-K---ELVKDALRAILRSLPPGDRFNIIAFGSSVRPLFPG--LVP--A   56 (155)
T ss_pred             eEEEEEeCCCCCC--C---------------c-H---HHHHHHHHHHHHhCCCCCEEEEEEeCCEeeEcchh--HHH--H
Confidence            5788899998864  1               0 1   22333444455666667 99999999964322110  000  0


Q ss_pred             CCCCHHHHHHHHHhcCCceee-ccCCChHHHHHHHHHHHHhcCCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCeE
Q 018272          129 PCQGFEHVLECYRKNVPNVQY-FGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLS  207 (358)
Q Consensus       129 ~~~g~~gvl~~Y~~~l~~v~l-~gpt~fapvI~~a~~~~~~~~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPlS  207 (358)
                      .-.+.+.+    .+.+..+.. .|.|++.+.++.|.+..... ..-..+++||||..++   ..+++.+.+..+. -.+-
T Consensus        57 ~~~~~~~a----~~~I~~~~~~~G~t~l~~aL~~a~~~~~~~-~~~~~IilltDG~~~~---~~~~i~~~v~~~~-~~~~  127 (155)
T PF13768_consen   57 TEENRQEA----LQWIKSLEANSGGTDLLAALRAALALLQRP-GCVRAIILLTDGQPVS---GEEEILDLVRRAR-GHIR  127 (155)
T ss_pred             hHHHHHHH----HHHHHHhcccCCCccHHHHHHHHHHhcccC-CCccEEEEEEeccCCC---CHHHHHHHHHhcC-CCce
Confidence            00133333    333444666 89999999999988765222 3345567789999644   1567777776543 5588


Q ss_pred             EEEEeeCC-CCchhhhhcc
Q 018272          208 IVLVGVGD-GPWESIQKFH  225 (358)
Q Consensus       208 IiiVGVG~-~~f~~m~~LD  225 (358)
                      |..+|+|. .+...|++|=
T Consensus       128 i~~~~~g~~~~~~~L~~LA  146 (155)
T PF13768_consen  128 IFTFGIGSDADADFLRELA  146 (155)
T ss_pred             EEEEEECChhHHHHHHHHH
Confidence            88899997 5677777664

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

Probab=97.71  E-value=0.00052  Score=59.71  Aligned_cols=148  Identities=15%  Similarity=0.225  Sum_probs=88.4

Q ss_pred             eceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCCCCC
Q 018272           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDS  128 (358)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~~~~  128 (358)
                      ++++.||-|.|-+.           .      ..+...+++..+..-+...+.. .+-+.-||....   ..|+|+..  
T Consensus         1 DivflvD~S~sm~~-----------~------~~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~~~~~---~~~~~~~~--   58 (178)
T PF00092_consen    1 DIVFLVDTSGSMSG-----------D------NFEKAKQFVKSIISRLSISNNGTRVGIVTFSDSAR---VLFSLTDY--   58 (178)
T ss_dssp             EEEEEEE-STTSCH-----------H------HHHHHHHHHHHHHHHSTBSTTSEEEEEEEESSSEE---EEEETTSH--
T ss_pred             CEEEEEeCCCCCch-----------H------HHHHHHHHHHHHHHhhhccccccccceeeeecccc---cccccccc--
Confidence            46788888877541           0      0123444444444444455666 999999998754   23455321  


Q ss_pred             CCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhc-----CCceEEEEEEeCCccCCcchhHHHHHHHHHHhcC
Q 018272          129 PCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES-----GGLHHVLVIITSGQVATGSQQEQETIRSIVDASS  203 (358)
Q Consensus       129 ~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~-----~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~  203 (358)
                        ...+.+++.-  .......+|.|++...|++|.+.....     .....++++||||..++. +...+....+.+.  
T Consensus        59 --~~~~~~~~~i--~~~~~~~~g~t~~~~aL~~a~~~l~~~~~~~r~~~~~~iiliTDG~~~~~-~~~~~~~~~~~~~--  131 (178)
T PF00092_consen   59 --QSKNDLLNAI--NDSIPSSGGGTNLGAALKFAREQLFSSNNGGRPNSPKVIILITDGNSNDS-DSPSEEAANLKKS--  131 (178)
T ss_dssp             --SSHHHHHHHH--HTTGGCCBSSB-HHHHHHHHHHHTTSGGGTTGTTSEEEEEEEESSSSSSH-SGHHHHHHHHHHH--
T ss_pred             --cccccccccc--cccccccchhhhHHHHHhhhhhcccccccccccccccceEEEEeecccCC-cchHHHHHHHHHh--
Confidence              2344554433  233445679999999999999986533     356899999999999982 1122333333322  


Q ss_pred             CCeEEEEEeeCCCCchhhhhccC
Q 018272          204 YPLSIVLVGVGDGPWESIQKFHD  226 (358)
Q Consensus       204 lPlSIiiVGVG~~~f~~m~~LD~  226 (358)
                      .-+.++.||++..+-..|+.|-+
T Consensus       132 ~~i~~~~ig~~~~~~~~l~~la~  154 (178)
T PF00092_consen  132 NGIKVIAIGIDNADNEELRELAS  154 (178)
T ss_dssp             CTEEEEEEEESCCHHHHHHHHSH
T ss_pred             cCcEEEEEecCcCCHHHHHHHhC
Confidence            56666666665567777777654

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 ....

>smart00184 RING Ring finger

Probab=97.66  E-value=2.9e-05  Score=50.70  Aligned_cols=33  Identities=42%  Similarity=1.053  Sum_probs=28.5

Q ss_pred             ccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCC
Q 018272          314 CCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFC  346 (358)
Q Consensus       314 C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----~~CP~C  346 (358)
                      |+||++...++++ +|||.+|..|...+     ..||+|
T Consensus         1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            8899999888777 99999999999854     569987

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)

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

Probab=97.65  E-value=2.1e-05  Score=59.27  Aligned_cols=45  Identities=29%  Similarity=0.729  Sum_probs=27.0

Q ss_pred             cccCCCccCcccCCCCee-e-cCCCCCchhhhhcC--CCCCCCccccCC
Q 018272          308 VAEAQRCCICCEDEKDTA-F-ECGHMSCIKCALRM--PQCPFCREEITT  352 (358)
Q Consensus       308 ~~~~~~C~IC~~~~~~~v-~-pCgH~~C~~C~~~~--~~CP~CR~~i~~  352 (358)
                      +++...|.+|.+..+.++ + .|.|.||+.|....  ..||+|+.|-..
T Consensus         4 le~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Paw~   52 (65)
T PF14835_consen    4 LEELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSECPVCHTPAWI   52 (65)
T ss_dssp             HHHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB-SSS--B-S-
T ss_pred             HHHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCCCCCcCChHHH
Confidence            456789999999999987 4 99999999999987  779999998743

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

Probab=97.64  E-value=0.00066  Score=60.94  Aligned_cols=147  Identities=16%  Similarity=0.185  Sum_probs=88.0

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccC-CC-ceeEEeecCCCCCCCCccccCC
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD-GD-CIRCYGFGDDTTRDEGVFSFQE  125 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD-~d-~ip~~GFGa~~~~~~~~f~~~~  125 (358)
                      .+++.+.||-|.|=+  ++         +          .+++..+-.++..|. ++ ++-++.|+....   .+|+|+.
T Consensus         4 ~~Dvv~llD~SgSm~--~~---------~----------~~~~~~~~~l~~~~~~~~~rvglv~Fs~~~~---~~~~l~~   59 (185)
T cd01474           4 HFDLYFVLDKSGSVA--AN---------W----------IEIYDFVEQLVDRFNSPGLRFSFITFSTRAT---KILPLTD   59 (185)
T ss_pred             ceeEEEEEeCcCchh--hh---------H----------HHHHHHHHHHHHHcCCCCcEEEEEEecCCce---EEEeccc
Confidence            478899999887732  10         1          112222333334443 34 999999997632   2456542


Q ss_pred             CCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHh--cCCc--eEEEEEEeCCccCCcchhHHHHHHHHHHh
Q 018272          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEE--SGGL--HHVLVIITSGQVATGSQQEQETIRSIVDA  201 (358)
Q Consensus       126 ~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~--~~~~--Y~VLlIiTDG~i~d~~~~~~~t~~aIv~A  201 (358)
                      ..      +.+.++.. .++.+...|.|+...-|+.|.+...+  .+..  -.++++||||.-++.  ....+.++...+
T Consensus        60 ~~------~~~~~~l~-~l~~~~~~g~T~~~~aL~~a~~~l~~~~~~~r~~~~~villTDG~~~~~--~~~~~~~~a~~l  130 (185)
T cd01474          60 DS------SAIIKGLE-VLKKVTPSGQTYIHEGLENANEQIFNRNGGGRETVSVIIALTDGQLLLN--GHKYPEHEAKLS  130 (185)
T ss_pred             cH------HHHHHHHH-HHhccCCCCCCcHHHHHHHHHHHHHhhccCCCCCCeEEEEEcCCCcCCC--CCcchHHHHHHH
Confidence            11      12222221 13445557899999999999876532  1111  177889999988430  022344444445


Q ss_pred             cCCCeEEEEEeeCCCCchhhhhccCC
Q 018272          202 SSYPLSIVLVGVGDGPWESIQKFHDK  227 (358)
Q Consensus       202 S~lPlSIiiVGVG~~~f~~m~~LD~~  227 (358)
                      -+..+-|..||||+.+...|+.+=+.
T Consensus       131 ~~~gv~i~~vgv~~~~~~~L~~iA~~  156 (185)
T cd01474         131 RKLGAIVYCVGVTDFLKSQLINIADS  156 (185)
T ss_pred             HHcCCEEEEEeechhhHHHHHHHhCC
Confidence            55678899999988888888877653

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.

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

Probab=97.56  E-value=1.9e-05  Score=55.20  Aligned_cols=26  Identities=35%  Similarity=0.881  Sum_probs=16.9

Q ss_pred             ccCcccCCCC----ee-ecCCCCCchhhhhcC
Q 018272          314 CCICCEDEKD----TA-FECGHMSCIKCALRM  340 (358)
Q Consensus       314 C~IC~~~~~~----~v-~pCgH~~C~~C~~~~  340 (358)
                      |+||.+ ..+    ++ ++|||.+|+.|++++
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 655    55 499999999999987

>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional

Probab=97.46  E-value=0.0017  Score=68.23  Aligned_cols=150  Identities=12%  Similarity=0.117  Sum_probs=97.6

Q ss_pred             ceeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCC---C-ceeEEeecCCCCCCCCccc
Q 018272           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDG---D-CIRCYGFGDDTTRDEGVFS  122 (358)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~---d-~ip~~GFGa~~~~~~~~f~  122 (358)
                      .++.+.+.||-|+|=+             +      .|-.++|...+..++..++.   . .+-+..|+....   .+|+
T Consensus        41 ~~lDIvFLLD~SgSMg-------------~------~Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~FSd~~r---~vfp   98 (576)
T PTZ00441         41 EEVDLYLLVDGSGSIG-------------Y------HNWITHVIPMLMGLIQQLNLSDDAINLYMSLFSNNTT---ELIR   98 (576)
T ss_pred             CCceEEEEEeCCCccC-------------C------ccHHHHHHHHHHHHHHHhccCCCceEEEEEEeCCCce---EEEe
Confidence            3688899999877643             1      13345677777777777743   2 555578887632   2345


Q ss_pred             cCCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcC---CceEEEEEEeCCccCCcchhHHHHHHHHH
Q 018272          123 FQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG---GLHHVLVIITSGQVATGSQQEQETIRSIV  199 (358)
Q Consensus       123 ~~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~---~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv  199 (358)
                      +...  .-...+.++.+-.+....+..+|-|++...|+.+.+...+..   ..--++++||||.-++    ..++++++.
T Consensus        99 L~s~--~s~Dk~~aL~~I~sL~~~~~pgGgTnig~AL~~Aae~L~sr~~R~nvpKVVILLTDG~sns----~~dvleaAq  172 (576)
T PTZ00441         99 LGSG--ASKDKEQALIIVKSLRKTYLPYGKTNMTDALLEVRKHLNDRVNRENAIQLVILMTDGIPNS----KYRALEESR  172 (576)
T ss_pred             cCCC--ccccHHHHHHHHHHHHhhccCCCCccHHHHHHHHHHHHhhcccccCCceEEEEEecCCCCC----cccHHHHHH
Confidence            5321  112345666666666666667899999999999887765431   1236888999998665    345666666


Q ss_pred             HhcCCCeEEEEEeeCCC-Cchhhhhc
Q 018272          200 DASSYPLSIVLVGVGDG-PWESIQKF  224 (358)
Q Consensus       200 ~AS~lPlSIiiVGVG~~-~f~~m~~L  224 (358)
                      ...+..+-|..||||.+ +-..|+.+
T Consensus       173 ~LR~~GVeI~vIGVG~g~n~e~LrlI  198 (576)
T PTZ00441        173 KLKDRNVKLAVIGIGQGINHQFNRLL  198 (576)
T ss_pred             HHHHCCCEEEEEEeCCCcCHHHHHHH
Confidence            66677899999999974 33334444

>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=97.46  E-value=0.0036  Score=53.97  Aligned_cols=133  Identities=17%  Similarity=0.157  Sum_probs=76.6

Q ss_pred             eceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCCceeEEeecCCCCCCCCccccCCCCCC
Q 018272           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSP  129 (358)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d~ip~~GFGa~~~~~~~~f~~~~~~~~  129 (358)
                      .+.+.||.|.|=.        +.-+         -....++..++..+.. ..+.+-++.|+....    ...+.    .
T Consensus         2 ~v~illD~SgSM~--------~~k~---------~~a~~~~~~l~~~~~~-~~~~v~li~F~~~~~----~~~~~----~   55 (152)
T cd01462           2 PVILLVDQSGSMY--------GAPE---------EVAKAVALALLRIALA-ENRDTYLILFDSEFQ----TKIVD----K   55 (152)
T ss_pred             CEEEEEECCCCCC--------CCHH---------HHHHHHHHHHHHHHHH-cCCcEEEEEeCCCce----EEecC----C
Confidence            3678899987732        1001         1223444455554444 223788999998711    11111    1


Q ss_pred             CCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcCCceEEEEEEeCCc-cCCcchhHHHHHHHHHHhcCCCeEE
Q 018272          130 CQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQ-VATGSQQEQETIRSIVDASSYPLSI  208 (358)
Q Consensus       130 ~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~~~Y~VLlIiTDG~-i~d~~~~~~~t~~aIv~AS~lPlSI  208 (358)
                      -..+..+++...    .+...|.|++.+.++.+.+..++....=.+++|||||. -.+    ..++.++...+....+-|
T Consensus        56 ~~~~~~~~~~l~----~~~~~ggT~l~~al~~a~~~l~~~~~~~~~ivliTDG~~~~~----~~~~~~~~~~~~~~~~~v  127 (152)
T cd01462          56 TDDLEEPVEFLS----GVQLGGGTDINKALRYALELIERRDPRKADIVLITDGYEGGV----SDELLREVELKRSRVARF  127 (152)
T ss_pred             cccHHHHHHHHh----cCCCCCCcCHHHHHHHHHHHHHhcCCCCceEEEECCCCCCCC----CHHHHHHHHHHHhcCcEE
Confidence            124555555433    34567999999999999988776433335778999994 333    234433333333445667


Q ss_pred             EEEeeCCC
Q 018272          209 VLVGVGDG  216 (358)
Q Consensus       209 iiVGVG~~  216 (358)
                      ..||||++
T Consensus       128 ~~~~~g~~  135 (152)
T cd01462         128 VALALGDH  135 (152)
T ss_pred             EEEEecCC
Confidence            77777764

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

>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=97.44  E-value=0.0016  Score=58.86  Aligned_cols=145  Identities=12%  Similarity=0.100  Sum_probs=91.7

Q ss_pred             eeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhccccc---CCC-ceeEEeecCCCCCCCCccccC
Q 018272           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF---DGD-CIRCYGFGDDTTRDEGVFSFQ  124 (358)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~y---D~d-~ip~~GFGa~~~~~~~~f~~~  124 (358)
                      .++++++|-|.|=..             .  +..+|..+.|-..+...++.+   .+. ++-++.|++...+.  +.+++
T Consensus         4 r~ivi~lD~S~SM~a-------------~--D~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~a~~--~~PlT   66 (183)
T cd01453           4 RHLIIVIDCSRSMEE-------------Q--DLKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGRAEK--LTDLT   66 (183)
T ss_pred             eEEEEEEECcHHHhc-------------C--CCCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCccEE--EECCC
Confidence            378999999977320             0  123789999999999999876   344 89999996542211  22333


Q ss_pred             CCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcCC--ceEEEEEEeCCccCCcchhHHHHHHHHHHhc
Q 018272          125 ENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGG--LHHVLVIITSGQVATGSQQEQETIRSIVDAS  202 (358)
Q Consensus       125 ~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~~--~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS  202 (358)
                      .      ..+.+++.-+..   +...|-|++...|+.|.+..++...  +=.|+|++|||.-.|    ..+..+++..+.
T Consensus        67 ~------D~~~~~~~L~~~---~~~~G~t~l~~aL~~A~~~l~~~~~~~~~~iiil~sd~~~~~----~~~~~~~~~~l~  133 (183)
T cd01453          67 G------NPRKHIQALKTA---RECSGEPSLQNGLEMALESLKHMPSHGSREVLIIFSSLSTCD----PGNIYETIDKLK  133 (183)
T ss_pred             C------CHHHHHHHhhcc---cCCCCchhHHHHHHHHHHHHhcCCccCceEEEEEEcCCCcCC----hhhHHHHHHHHH
Confidence            2      223333333322   2346779999999999888765321  235788899987665    233334455555


Q ss_pred             CCCeEEEEEeeCCCCchhhhhc
Q 018272          203 SYPLSIVLVGVGDGPWESIQKF  224 (358)
Q Consensus       203 ~lPlSIiiVGVG~~~f~~m~~L  224 (358)
                      +..+-|-+||+|.+ ...|+++
T Consensus       134 ~~~I~v~~IgiG~~-~~~L~~i  154 (183)
T cd01453         134 KENIRVSVIGLSAE-MHICKEI  154 (183)
T ss_pred             HcCcEEEEEEechH-HHHHHHH
Confidence            66788888999853 3344444

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.

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

Probab=97.44  E-value=0.0021  Score=59.57  Aligned_cols=142  Identities=15%  Similarity=0.166  Sum_probs=88.4

Q ss_pred             eeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccC---CC-ceeEEeecCCCCCCCCccccC
Q 018272           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSFQ  124 (358)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD---~d-~ip~~GFGa~~~~~~~~f~~~  124 (358)
                      +.+.+.||-|.|=+                    ...++++...+..++..++   +. .+-+..|+....   .+|+|+
T Consensus         3 ~DlvfllD~S~Sm~--------------------~~~~~~~k~f~~~l~~~l~~~~~~~rvglv~fs~~~~---~~~~l~   59 (224)
T cd01475           3 TDLVFLIDSSRSVR--------------------PENFELVKQFLNQIIDSLDVGPDATRVGLVQYSSTVK---QEFPLG   59 (224)
T ss_pred             ccEEEEEeCCCCCC--------------------HHHHHHHHHHHHHHHHhcccCCCccEEEEEEecCcee---EEeccc
Confidence            56778888765521                    1346677777777777774   34 899999999743   245664


Q ss_pred             CCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHH----hc-CCc---eEEEEEEeCCccCCcchhHHHHHH
Q 018272          125 ENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVE----ES-GGL---HHVLVIITSGQVATGSQQEQETIR  196 (358)
Q Consensus       125 ~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~----~~-~~~---Y~VLlIiTDG~i~d~~~~~~~t~~  196 (358)
                      ..    ...+.+.++-... +.  +.|.|+....|+.+.+.+-    .. ...   -.|+++||||.-.|   +..+..+
T Consensus        60 ~~----~~~~~l~~~i~~i-~~--~~~~t~tg~AL~~a~~~~~~~~~g~r~~~~~~~kvvillTDG~s~~---~~~~~a~  129 (224)
T cd01475          60 RF----KSKADLKRAVRRM-EY--LETGTMTGLAIQYAMNNAFSEAEGARPGSERVPRVGIVVTDGRPQD---DVSEVAA  129 (224)
T ss_pred             cc----CCHHHHHHHHHhC-cC--CCCCChHHHHHHHHHHHhCChhcCCCCCCCCCCeEEEEEcCCCCcc---cHHHHHH
Confidence            21    2344555544432 22  3566777777777766521    11 111   37889999998766   2333333


Q ss_pred             HHHHhcCCCeEEEEEeeCCCCchhhhhccC
Q 018272          197 SIVDASSYPLSIVLVGVGDGPWESIQKFHD  226 (358)
Q Consensus       197 aIv~AS~lPlSIiiVGVG~~~f~~m~~LD~  226 (358)
                         ++-..-+.|..||||+.+...|+++=.
T Consensus       130 ---~lk~~gv~i~~VgvG~~~~~~L~~ias  156 (224)
T cd01475         130 ---KARALGIEMFAVGVGRADEEELREIAS  156 (224)
T ss_pred             ---HHHHCCcEEEEEeCCcCCHHHHHHHhC
Confidence               344567899999999987777766654

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.

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

Probab=97.35  E-value=5.6e-05  Score=74.07  Aligned_cols=45  Identities=29%  Similarity=0.748  Sum_probs=40.1

Q ss_pred             ccCCCccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018272          309 AEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITTR  353 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~~  353 (358)
                      .++.+|+||+..+.+++| ||+|..|..|+.+.    +.|-.|+..+..+
T Consensus       420 sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~~  469 (489)
T KOG4692|consen  420 SEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVIDV  469 (489)
T ss_pred             cccccCcceecccchhhccCCCCchHHHHHHHHHhcCCeeeEecceeeeh
Confidence            456899999999999999 99999999999975    7899999988754

>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=97.35  E-value=0.0048  Score=55.51  Aligned_cols=112  Identities=17%  Similarity=0.234  Sum_probs=73.0

Q ss_pred             ceeEEeecCCCCCCCCccccCCCCCCCCCHHHHHHHHHhcCCcee-eccCCChHHHHHHHHHHHHhc--CCceEEEEEEe
Q 018272          104 CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQ-YFGPTSYAPMVEAAVDIVEES--GGLHHVLVIIT  180 (358)
Q Consensus       104 ~ip~~GFGa~~~~~~~~f~~~~~~~~~~g~~gvl~~Y~~~l~~v~-l~gpt~fapvI~~a~~~~~~~--~~~Y~VLlIiT  180 (358)
                      .+-++.|+....   ..+++...   -...+.+.++    +.+++ ..|.|+...-|+.|.+.....  ...-.++++||
T Consensus        48 rvglv~fs~~~~---~~~~l~~~---~~~~~~l~~~----i~~l~~~gg~T~~~~AL~~a~~~l~~~~~~~~~~~iillT  117 (186)
T cd01480          48 RVGVVQYSDQQE---VEAGFLRD---IRNYTSLKEA----VDNLEYIGGGTFTDCALKYATEQLLEGSHQKENKFLLVIT  117 (186)
T ss_pred             EEEEEEecCCce---eeEecccc---cCCHHHHHHH----HHhCccCCCCccHHHHHHHHHHHHhccCCCCCceEEEEEe
Confidence            899999997643   23444321   1234444333    33343 478999999999998887641  23346778889


Q ss_pred             CCccCCcchhHHHHHHHHHHhcCCCeEEEEEeeCCCCchhhhhccCC
Q 018272          181 SGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHDK  227 (358)
Q Consensus       181 DG~i~d~~~~~~~t~~aIv~AS~lPlSIiiVGVG~~~f~~m~~LD~~  227 (358)
                      ||.-++.  +.....+++.++.+..+.|..||||..+-..|+++=+.
T Consensus       118 DG~~~~~--~~~~~~~~~~~~~~~gi~i~~vgig~~~~~~L~~IA~~  162 (186)
T cd01480         118 DGHSDGS--PDGGIEKAVNEADHLGIKIFFVAVGSQNEEPLSRIACD  162 (186)
T ss_pred             CCCcCCC--cchhHHHHHHHHHHCCCEEEEEecCccchHHHHHHHcC
Confidence            9976430  02234556666778899999999999776667666543

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.

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

Probab=97.32  E-value=0.0033  Score=60.49  Aligned_cols=139  Identities=18%  Similarity=0.304  Sum_probs=92.7

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCCceeEEeecCCCCCCCCccccCCCC
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQEND  127 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d~ip~~GFGa~~~~~~~~f~~~~~~  127 (358)
                      +.++++|||=|.|=..       .        .-.++..+ |+..|.+.+..-..+++-+.+||....   .+.+|+  +
T Consensus        60 ~~qIvlaID~S~SM~~-------~--------~~~~~ale-ak~lIs~al~~Le~g~vgVv~Fg~~~~---~v~Plt--~  118 (266)
T cd01460          60 DYQILIAIDDSKSMSE-------N--------NSKKLALE-SLCLVSKALTLLEVGQLGVCSFGEDVQ---ILHPFD--E  118 (266)
T ss_pred             CceEEEEEecchhccc-------c--------cccccHHH-HHHHHHHHHHhCcCCcEEEEEeCCCce---EeCCCC--C
Confidence            5789999999987431       0        11256665 899999999999888999999999632   122333  1


Q ss_pred             CCCCCHHHHHHHHHhcCCceeec-cCCChHHHHHHHHHHHHhcC----C--ceEEEEEEeCCccCCcchhHHHHHHHHHH
Q 018272          128 SPCQGFEHVLECYRKNVPNVQYF-GPTSYAPMVEAAVDIVEESG----G--LHHVLVIITSGQVATGSQQEQETIRSIVD  200 (358)
Q Consensus       128 ~~~~g~~gvl~~Y~~~l~~v~l~-gpt~fapvI~~a~~~~~~~~----~--~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~  200 (358)
                      +    +..  ++.-+++....+. +-|+.+..|+.+++..++..    .  .--++||||||.-.+   +......++.+
T Consensus       119 d----~~~--~a~~~~l~~~~f~~~~Tni~~aL~~a~~~f~~~~~~~~s~~~~qlilLISDG~~~~---~e~~~~~~~r~  189 (266)
T cd01460         119 Q----FSS--QSGPRILNQFTFQQDKTDIANLLKFTAQIFEDARTQSSSGSLWQLLLIISDGRGEF---SEGAQKVRLRE  189 (266)
T ss_pred             C----chh--hHHHHHhCcccCCCCCCcHHHHHHHHHHHHHhhhccccccccccEEEEEECCCccc---CccHHHHHHHH
Confidence            1    111  2223333322233 45899999999998866431    1  137899999998443   12333455788


Q ss_pred             hcCCCeEEEEEeeCCC
Q 018272          201 ASSYPLSIVLVGVGDG  216 (358)
Q Consensus       201 AS~lPlSIiiVGVG~~  216 (358)
                      |....+.+++|||-+.
T Consensus       190 a~e~~i~l~~I~ld~~  205 (266)
T cd01460         190 AREQNVFVVFIIIDNP  205 (266)
T ss_pred             HHHcCCeEEEEEEcCC
Confidence            8888999999999875

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.

>cd01477 vWA_F09G8-8_type VWA F09G8

Probab=97.28  E-value=0.0039  Score=57.04  Aligned_cols=148  Identities=11%  Similarity=0.133  Sum_probs=95.0

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCC--------C--ceeEEeecCCCCCC
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDG--------D--CIRCYGFGDDTTRD  117 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~--------d--~ip~~GFGa~~~~~  117 (358)
                      .+.+.+.||-+.|=+                    .+.++++..-+..++..++.        +  ++-+.-|+....  
T Consensus        19 ~~DivfvlD~S~Sm~--------------------~~~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs~~a~--   76 (193)
T cd01477          19 WLDIVFVVDNSKGMT--------------------QGGLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYNSNAT--   76 (193)
T ss_pred             eeeEEEEEeCCCCcc--------------------hhhHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEccCceE--
Confidence            467888888776632                    12366676666666665553        2  888899988632  


Q ss_pred             CCccccCCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhc-----CCceEEEEEEeCCccCCcchhHH
Q 018272          118 EGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES-----GGLHHVLVIITSGQVATGSQQEQ  192 (358)
Q Consensus       118 ~~~f~~~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~-----~~~Y~VLlIiTDG~i~d~~~~~~  192 (358)
                       -.|+|+    .....++++++....++.+..+|-|+...-|+.|.+.....     ...--|+++||||.-.+.   ..
T Consensus        77 -~~~~L~----d~~~~~~~~~ai~~~~~~~~~~ggT~ig~aL~~A~~~l~~~~~~~R~~v~kvvIllTDg~~~~~---~~  148 (193)
T cd01477          77 -VVADLN----DLQSFDDLYSQIQGSLTDVSSTNASYLDTGLQAAEQMLAAGKRTSRENYKKVVIVFASDYNDEG---SN  148 (193)
T ss_pred             -EEEecc----cccCHHHHHHHHHHHhhccccCCcchHHHHHHHHHHHHHhhhccccCCCCeEEEEEecCccCCC---CC
Confidence             125553    12356788887777666665567899999999998876532     123577889999754320   01


Q ss_pred             HHHHHHHHhcCCCeEEEEEeeCCC-Cchhhhhcc
Q 018272          193 ETIRSIVDASSYPLSIVLVGVGDG-PWESIQKFH  225 (358)
Q Consensus       193 ~t~~aIv~AS~lPlSIiiVGVG~~-~f~~m~~LD  225 (358)
                      ...++..++.+..+-|.-||||.+ +=..|++|.
T Consensus       149 ~~~~~a~~l~~~GI~i~tVGiG~~~d~~~~~~L~  182 (193)
T cd01477         149 DPRPIAARLKSTGIAIITVAFTQDESSNLLDKLG  182 (193)
T ss_pred             CHHHHHHHHHHCCCEEEEEEeCCCCCHHHHHHHH
Confidence            233444445577999999999985 223355554

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

>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=97.24  E-value=0.0036  Score=55.91  Aligned_cols=119  Identities=19%  Similarity=0.243  Sum_probs=79.6

Q ss_pred             ChHHHHHHHHhhcccccCC---C-ceeEEeecCCCCCCCCccccCCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHH
Q 018272           84 NPYQEVIYITGKELVLFDG---D-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMV  159 (358)
Q Consensus        84 N~Yq~aI~~ig~vl~~yD~---d-~ip~~GFGa~~~~~~~~f~~~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI  159 (358)
                      ..++++...+..++..++.   . ++-+..|+....   ..|+|+.    ....+.++++-+. ++.  +.|.|+....|
T Consensus        16 ~~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs~~~~---~~~~l~~----~~~~~~~~~~i~~-~~~--~~g~T~~~~AL   85 (177)
T cd01469          16 DDFQKVKNFLSTVMKKLDIGPTKTQFGLVQYSESFR---TEFTLNE----YRTKEEPLSLVKH-ISQ--LLGLTNTATAI   85 (177)
T ss_pred             HHHHHHHHHHHHHHHHcCcCCCCcEEEEEEECCcee---EEEecCc----cCCHHHHHHHHHh-Ccc--CCCCccHHHHH
Confidence            4567777777777777775   4 899999998742   2355531    1234555554443 332  56789999999


Q ss_pred             HHHHHHH--Hhc---CCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCeEEEEEeeCCC
Q 018272          160 EAAVDIV--EES---GGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDG  216 (358)
Q Consensus       160 ~~a~~~~--~~~---~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPlSIiiVGVG~~  216 (358)
                      +.|.+..  ...   ...-.|+++||||.-+|    -..+.+++..+-..-+-|.-||||+.
T Consensus        86 ~~a~~~l~~~~~g~R~~~~kv~illTDG~~~~----~~~~~~~~~~~k~~gv~v~~Vgvg~~  143 (177)
T cd01469          86 QYVVTELFSESNGARKDATKVLVVITDGESHD----DPLLKDVIPQAEREGIIRYAIGVGGH  143 (177)
T ss_pred             HHHHHHhcCcccCCCCCCCeEEEEEeCCCCCC----ccccHHHHHHHHHCCcEEEEEEeccc
Confidence            9998774  221   12356888899999887    23334455556667899999999985

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.

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

Probab=97.19  E-value=0.0063  Score=55.65  Aligned_cols=160  Identities=11%  Similarity=0.115  Sum_probs=102.5

Q ss_pred             ceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhccccc-CC--C-ceeEEeecCCCCCCCCccccCCC
Q 018272           51 LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF-DG--D-CIRCYGFGDDTTRDEGVFSFQEN  126 (358)
Q Consensus        51 ~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~y-D~--d-~ip~~GFGa~~~~~~~~f~~~~~  126 (358)
                      .+|+||.+.|-..       +        +..+|.++.+...+..++..| |.  . ++-+..|+++....  ..+++  
T Consensus         6 ~vi~lD~S~sM~a-------~--------D~~PnRL~aak~~i~~~~~~f~~~np~~~vGlv~fag~~a~v--~~plT--   66 (187)
T cd01452           6 TMICIDNSEYMRN-------G--------DYPPTRFQAQADAVNLICQAKTRSNPENNVGLMTMAGNSPEV--LVTLT--   66 (187)
T ss_pred             EEEEEECCHHHHc-------C--------CCCCCHHHHHHHHHHHHHHHHHhcCCCccEEEEEecCCceEE--EECCC--
Confidence            5789999977431       0        224799999999998887444 32  3 88889999853211  12222  


Q ss_pred             CCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcC---CceEEEEEEeCCccCCcchhHHHHHHHHHHhcC
Q 018272          127 DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG---GLHHVLVIITSGQVATGSQQEQETIRSIVDASS  203 (358)
Q Consensus       127 ~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~---~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~  203 (358)
                          .....++..-    ..+.+.|.+++..-|+.|...-+...   ..=-|++|++++.-.|    ..+..+++.++.+
T Consensus        67 ----~D~~~~~~~L----~~i~~~g~~~l~~AL~~A~~~L~~~~~~~~~~rivi~v~S~~~~d----~~~i~~~~~~lkk  134 (187)
T cd01452          67 ----NDQGKILSKL----HDVQPKGKANFITGIQIAQLALKHRQNKNQKQRIVAFVGSPIEED----EKDLVKLAKRLKK  134 (187)
T ss_pred             ----CCHHHHHHHH----HhCCCCCcchHHHHHHHHHHHHhcCCCcCCcceEEEEEecCCcCC----HHHHHHHHHHHHH
Confidence                1344444433    34556799999999998887765432   1235667777775555    5666677777777


Q ss_pred             CCeEEEEEeeCCC--CchhhhhccCCCCCcccceeEeeeccc
Q 018272          204 YPLSIVLVGVGDG--PWESIQKFHDKIPALQFDNFHFVNFTA  243 (358)
Q Consensus       204 lPlSIiiVGVG~~--~f~~m~~LD~~~~~r~rDnvqFV~f~~  243 (358)
                      ..+.+-+||+|+.  +-+.++.|-+....  -|+-+||....
T Consensus       135 ~~I~v~vI~~G~~~~~~~~l~~~~~~~~~--~~~s~~~~~~~  174 (187)
T cd01452         135 NNVSVDIINFGEIDDNTEKLTAFIDAVNG--KDGSHLVSVPP  174 (187)
T ss_pred             cCCeEEEEEeCCCCCCHHHHHHHHHHhcC--CCCceEEEeCC
Confidence            7888888888865  44555555443322  37788887654

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.

>PRK13685 hypothetical protein; Provisional

Probab=97.09  E-value=0.0063  Score=59.89  Aligned_cols=140  Identities=11%  Similarity=0.089  Sum_probs=88.7

Q ss_pred             eeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCCCC
Q 018272           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQEND  127 (358)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~~~  127 (358)
                      .+++++||-|.|=.  +.             +..+|..+.|-.++..+++.+.++ .+-++.|++....   +.+++   
T Consensus        89 ~~vvlvlD~S~SM~--~~-------------D~~p~RL~~ak~~~~~~l~~l~~~d~vglv~Fa~~a~~---~~p~t---  147 (326)
T PRK13685         89 AVVMLVIDVSQSMR--AT-------------DVEPNRLAAAQEAAKQFADELTPGINLGLIAFAGTATV---LVSPT---  147 (326)
T ss_pred             ceEEEEEECCcccc--CC-------------CCCCCHHHHHHHHHHHHHHhCCCCCeEEEEEEcCceee---cCCCC---
Confidence            57889999987742  11             123578888989999999998666 9999999986421   12222   


Q ss_pred             CCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHh--------cCCceEEEEEEeCCccCCcc-h-hHHHHHHH
Q 018272          128 SPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEE--------SGGLHHVLVIITSGQVATGS-Q-QEQETIRS  197 (358)
Q Consensus       128 ~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~--------~~~~Y~VLlIiTDG~i~d~~-~-~~~~t~~a  197 (358)
                         ...+.+    ...+..++..|-|+...-|..+.+..++        .....-++++||||.-+... + +.....++
T Consensus       148 ---~d~~~l----~~~l~~l~~~~~T~~g~al~~A~~~l~~~~~~~~~~~~~~~~~IILlTDG~~~~~~~~~~~~~~~~a  220 (326)
T PRK13685        148 ---TNREAT----KNAIDKLQLADRTATGEAIFTALQAIATVGAVIGGGDTPPPARIVLMSDGKETVPTNPDNPRGAYTA  220 (326)
T ss_pred             ---CCHHHH----HHHHHhCCCCCCcchHHHHHHHHHHHHhhhcccccccCCCCCEEEEEcCCCCCCCCCCCCcccHHHH
Confidence               233333    2333345566778888888888877652        11123456788999765310 0 01122345


Q ss_pred             HHHhcCCCeEEEEEeeCCC
Q 018272          198 IVDASSYPLSIVLVGVGDG  216 (358)
Q Consensus       198 Iv~AS~lPlSIiiVGVG~~  216 (358)
                      ...|.+..+.|-.||||..
T Consensus       221 a~~a~~~gi~i~~Ig~G~~  239 (326)
T PRK13685        221 ARTAKDQGVPISTISFGTP  239 (326)
T ss_pred             HHHHHHcCCeEEEEEECCC
Confidence            5666677888888999874

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

Probab=97.02  E-value=0.0002  Score=55.39  Aligned_cols=44  Identities=23%  Similarity=0.291  Sum_probs=34.3

Q ss_pred             cCCCccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCCe
Q 018272          310 EAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITTR  353 (358)
Q Consensus       310 ~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~~  353 (358)
                      +...|+||.+-.+++++ +|||.+++.|+.++     ..||+|++++...
T Consensus         3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~   52 (73)
T PF04564_consen    3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSES   52 (73)
T ss_dssp             GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred             cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence            46799999999999998 99999999999976     4599999998864

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 ....

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

Probab=97.01  E-value=0.026  Score=50.29  Aligned_cols=129  Identities=12%  Similarity=0.159  Sum_probs=77.9

Q ss_pred             hHHHHHHHHhhccc-ccCCC-ceeEEeecCCCCCCCCccccCCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHH
Q 018272           85 PYQEVIYITGKELV-LFDGD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAA  162 (358)
Q Consensus        85 ~Yq~aI~~ig~vl~-~yD~d-~ip~~GFGa~~~~~~~~f~~~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a  162 (358)
                      ..+.|..++..++. .+..+ .+-++.|.+...+  .++++.      .+.+.+.+    .+..+...|-|++..-|+.+
T Consensus        18 rl~~ak~a~~~~~~~~~~~~d~v~lv~F~~~~~~--~~~~~t------~~~~~~~~----~l~~l~~~G~T~l~~aL~~a   85 (178)
T cd01451          18 RMAAAKGAVLSLLRDAYQRRDKVALIAFRGTEAE--VLLPPT------RSVELAKR----RLARLPTGGGTPLAAGLLAA   85 (178)
T ss_pred             HHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCce--EEeCCC------CCHHHHHH----HHHhCCCCCCCcHHHHHHHH
Confidence            45556666666554 34455 8999999764211  122222      24444433    33445668999999999999


Q ss_pred             HHHHH-hc--CCceEEEEEEeCCccCCcchhHHHH-HHHHHHhcCCCeEEEEEeeCCCC--chhhhhcc
Q 018272          163 VDIVE-ES--GGLHHVLVIITSGQVATGSQQEQET-IRSIVDASSYPLSIVLVGVGDGP--WESIQKFH  225 (358)
Q Consensus       163 ~~~~~-~~--~~~Y~VLlIiTDG~i~d~~~~~~~t-~~aIv~AS~lPlSIiiVGVG~~~--f~~m~~LD  225 (358)
                      .+..+ +.  ...-.++++||||.-+......... .++..++....+.|+.||+|..+  -+.|++|=
T Consensus        86 ~~~l~~~~~~~~~~~~ivliTDG~~~~g~~~~~~~~~~~~~~l~~~gi~v~~I~~~~~~~~~~~l~~iA  154 (178)
T cd01451          86 YELAAEQARDPGQRPLIVVITDGRANVGPDPTADRALAAARKLRARGISALVIDTEGRPVRRGLAKDLA  154 (178)
T ss_pred             HHHHHHHhcCCCCceEEEEECCCCCCCCCCchhHHHHHHHHHHHhcCCcEEEEeCCCCccCccHHHHHH
Confidence            98872 21  1223688899999866310012233 55555666778888999998754  34566663

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=96.99  E-value=0.00022  Score=70.47  Aligned_cols=44  Identities=25%  Similarity=0.764  Sum_probs=34.8

Q ss_pred             cccCCCccCcccCCCC-------------ee-ecCCCCCchhhhhcC----CCCCCCccccC
Q 018272          308 VAEAQRCCICCEDEKD-------------TA-FECGHMSCIKCALRM----PQCPFCREEIT  351 (358)
Q Consensus       308 ~~~~~~C~IC~~~~~~-------------~v-~pCgH~~C~~C~~~~----~~CP~CR~~i~  351 (358)
                      ..++..|.||+|....             +- +||||.+=-+|.+.|    +.||+||.++.
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~i  345 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVI  345 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccc
Confidence            4567899999997222             12 499999999999877    78999999943

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

Probab=96.98  E-value=0.00027  Score=68.19  Aligned_cols=41  Identities=27%  Similarity=0.711  Sum_probs=34.8

Q ss_pred             CCCccCcccCCCC----eeecCCCCCchhhhhcC-----CCCCCCccccC
Q 018272          311 AQRCCICCEDEKD----TAFECGHMSCIKCALRM-----PQCPFCREEIT  351 (358)
Q Consensus       311 ~~~C~IC~~~~~~----~v~pCgH~~C~~C~~~~-----~~CP~CR~~i~  351 (358)
                      ..+|.||+++...    +++||.|.|=..|..+|     .+||+||.++.
T Consensus       323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence            4799999997654    34499999999999998     57999999875

>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=96.95  E-value=0.015  Score=51.59  Aligned_cols=128  Identities=13%  Similarity=0.172  Sum_probs=81.8

Q ss_pred             ChHHHHHHHHhhcccccC---CC-ceeEEeecCCCCCCCCccccCCCCCCCCCHHHHHHHHHhcCCceeecc-CCChHHH
Q 018272           84 NPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFG-PTSYAPM  158 (358)
Q Consensus        84 N~Yq~aI~~ig~vl~~yD---~d-~ip~~GFGa~~~~~~~~f~~~~~~~~~~g~~gvl~~Y~~~l~~v~l~g-pt~fapv  158 (358)
                      ..++++..-+..++..|+   +. ++.+.-|+....   ..|+|+.-    ...++++++-.+. +.  ..| .|+-...
T Consensus        16 ~~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys~~~~---~~~~l~~~----~~~~~l~~~i~~i-~~--~~g~~t~t~~A   85 (165)
T cd01481          16 GNFPAIRDFIERIVQSLDVGPDKIRVAVVQFSDTPR---PEFYLNTH----STKADVLGAVRRL-RL--RGGSQLNTGSA   85 (165)
T ss_pred             HHHHHHHHHHHHHHhhccCCCCCcEEEEEEecCCee---EEEecccc----CCHHHHHHHHHhc-cc--CCCCcccHHHH
Confidence            456677777777777776   44 899999998643   23566421    1456676665543 22  245 4788888


Q ss_pred             HHHHHHHHHh--c-----CCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCeEEEEEeeCCCCchhhhhccCC
Q 018272          159 VEAAVDIVEE--S-----GGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHDK  227 (358)
Q Consensus       159 I~~a~~~~~~--~-----~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPlSIiiVGVG~~~f~~m~~LD~~  227 (358)
                      |+.+.+..-.  .     .+--.+|++||||.-.|   +..+..+.+.   +.-+-|+.||+|..+...|+.+-++
T Consensus        86 L~~~~~~~f~~~~g~R~~~~~~kv~vviTdG~s~d---~~~~~a~~lr---~~gv~i~~vG~~~~~~~eL~~ias~  155 (165)
T cd01481          86 LDYVVKNLFTKSAGSRIEEGVPQFLVLITGGKSQD---DVERPAVALK---RAGIVPFAIGARNADLAELQQIAFD  155 (165)
T ss_pred             HHHHHHhhcCccccCCccCCCCeEEEEEeCCCCcc---hHHHHHHHHH---HCCcEEEEEeCCcCCHHHHHHHhCC
Confidence            8888765321  1     12247889999998776   2334444444   4567888888887777777666553

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.

>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=96.95  E-value=0.00026  Score=54.89  Aligned_cols=36  Identities=33%  Similarity=0.882  Sum_probs=27.6

Q ss_pred             CCccCcccCC-------------CCeee-cCCCCCchhhhhcC----CCCCCCc
Q 018272          312 QRCCICCEDE-------------KDTAF-ECGHMSCIKCALRM----PQCPFCR  347 (358)
Q Consensus       312 ~~C~IC~~~~-------------~~~v~-pCgH~~C~~C~~~~----~~CP~CR  347 (358)
                      ..|.||++..             ..+++ +|||.|-..|+.++    ..||+||
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            3599999876             22344 89999999999976    6799998

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 ....

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

Probab=96.93  E-value=0.00051  Score=67.35  Aligned_cols=46  Identities=37%  Similarity=0.821  Sum_probs=39.2

Q ss_pred             ccCCCccCcccCCCCeee-cCCCCCchhhhhcC------CCCCCCccccCCee
Q 018272          309 AEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM------PQCPFCREEITTRR  354 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~------~~CP~CR~~i~~~~  354 (358)
                      ++...|.||-+..+-+.+ ||+|.+|..|+.++      +.||+||..-..++
T Consensus        59 Een~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V~  111 (493)
T COG5236          59 EENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETEAVV  111 (493)
T ss_pred             cccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCccccccceEE
Confidence            456899999998888776 99999999999986      68999999876653

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

Probab=96.93  E-value=4.6e-05  Score=74.69  Aligned_cols=49  Identities=31%  Similarity=0.647  Sum_probs=40.3

Q ss_pred             ccccCCCccCcccCCCCeee--cCCCCCchhhhhcC-----CCCCCCccccCCeee
Q 018272          307 EVAEAQRCCICCEDEKDTAF--ECGHMSCIKCALRM-----PQCPFCREEITTRRR  355 (358)
Q Consensus       307 ~~~~~~~C~IC~~~~~~~v~--pCgH~~C~~C~~~~-----~~CP~CR~~i~~~~~  355 (358)
                      .+..+..|+||++..+.+..  .|+|.||..|+++-     ..||.||+.......
T Consensus        39 ~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skrs   94 (381)
T KOG0311|consen   39 MFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRS   94 (381)
T ss_pred             HhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccccc
Confidence            44567899999998877544  99999999999964     689999999877543

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

Probab=96.76  E-value=0.001  Score=63.37  Aligned_cols=43  Identities=28%  Similarity=0.758  Sum_probs=36.5

Q ss_pred             ccCCCccCcccCCCCeee--cCCCCCchhhhhcC------CCCCCCccccC
Q 018272          309 AEAQRCCICCEDEKDTAF--ECGHMSCIKCALRM------PQCPFCREEIT  351 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~--pCgH~~C~~C~~~~------~~CP~CR~~i~  351 (358)
                      +..-+|++|-+.++.+-.  +|||.+|..|+..-      -.||.|.++..
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            456799999999988764  89999999999864      36999998876

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=96.60  E-value=0.029  Score=59.76  Aligned_cols=149  Identities=15%  Similarity=0.199  Sum_probs=94.7

Q ss_pred             ceeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhccc-ccCCC-ceeEEeecCCCCCCCCccccC
Q 018272           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELV-LFDGD-CIRCYGFGDDTTRDEGVFSFQ  124 (358)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~-~yD~d-~ip~~GFGa~~~~~~~~f~~~  124 (358)
                      ....+++.||.|.|-.                    .+.-..|-.++..+|. .|-.. .+-++.|++...  ..+++..
T Consensus       400 ~~~~vvfvvD~SGSM~--------------------~~rl~~aK~a~~~ll~~ay~~rD~v~lI~F~g~~a--~~~lppT  457 (584)
T PRK13406        400 SETTTIFVVDASGSAA--------------------LHRLAEAKGAVELLLAEAYVRRDQVALVAFRGRGA--ELLLPPT  457 (584)
T ss_pred             CCccEEEEEECCCCCc--------------------HhHHHHHHHHHHHHHHhhcCCCCEEEEEEECCCce--eEEcCCC
Confidence            4577888888887731                    1233445555555553 46666 999999965411  1112211


Q ss_pred             CCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhc--CCceEEEEEEeCCccCCcc-------hhHHHHH
Q 018272          125 ENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES--GGLHHVLVIITSGQVATGS-------QQEQETI  195 (358)
Q Consensus       125 ~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~--~~~Y~VLlIiTDG~i~d~~-------~~~~~t~  195 (358)
                            ..++.+    ++.+..+.-.|-|.++.-|..|.+..++.  .+.-.++++||||.-+...       ....+..
T Consensus       458 ------~~~~~~----~~~L~~l~~gGgTpL~~gL~~A~~~l~~~~~~~~~~~iVLlTDG~~n~~~~~~~~~~~~~~~~~  527 (584)
T PRK13406        458 ------RSLVRA----KRSLAGLPGGGGTPLAAGLDAAAALALQVRRKGMTPTVVLLTDGRANIARDGTAGRAQAEEDAL  527 (584)
T ss_pred             ------cCHHHH----HHHHhcCCCCCCChHHHHHHHHHHHHHHhccCCCceEEEEEeCCCCCCCccccccccchhhHHH
Confidence                  244444    34445666789999999999998887653  2234677889999876310       0013445


Q ss_pred             HHHHHhcCCCeEEEEEeeCCCCchhhhhccCC
Q 018272          196 RSIVDASSYPLSIVLVGVGDGPWESIQKFHDK  227 (358)
Q Consensus       196 ~aIv~AS~lPlSIiiVGVG~~~f~~m~~LD~~  227 (358)
                      ++...+...-+.+++|++|....+.|++|=+.
T Consensus       528 ~~a~~~~~~gi~~~vId~g~~~~~~~~~LA~~  559 (584)
T PRK13406        528 AAARALRAAGLPALVIDTSPRPQPQARALAEA  559 (584)
T ss_pred             HHHHHHHhcCCeEEEEecCCCCcHHHHHHHHh
Confidence            55555666778999999998887788877543

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.60  E-value=0.00095  Score=48.85  Aligned_cols=42  Identities=31%  Similarity=0.759  Sum_probs=33.7

Q ss_pred             CCCccCcccCCCCee-ecCCCCCchhhhh--cCCCCCCCccccCC
Q 018272          311 AQRCCICCEDEKDTA-FECGHMSCIKCAL--RMPQCPFCREEITT  352 (358)
Q Consensus       311 ~~~C~IC~~~~~~~v-~pCgH~~C~~C~~--~~~~CP~CR~~i~~  352 (358)
                      ...|..|......-+ +||||.+|..|-.  +...||+|..+++.
T Consensus         7 ~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~rYngCPfC~~~~~~   51 (55)
T PF14447_consen    7 EQPCVFCGFVGTKGTVLPCGHLICDNCFPGERYNGCPFCGTPFEF   51 (55)
T ss_pred             ceeEEEccccccccccccccceeeccccChhhccCCCCCCCcccC
Confidence            457888888766544 4999999999976  55889999998875

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

Probab=96.58  E-value=0.011  Score=50.43  Aligned_cols=121  Identities=17%  Similarity=0.252  Sum_probs=76.3

Q ss_pred             ceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCCceeEEeecCCCCCCCCccccCCCCCCC
Q 018272           51 LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSPC  130 (358)
Q Consensus        51 ~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d~ip~~GFGa~~~~~~~~f~~~~~~~~~  130 (358)
                      +.||||-|+|=.                    .....+.+..|..+++.+.. .+-++=|-++......+   .      
T Consensus         1 i~vaiDtSGSis--------------------~~~l~~fl~ev~~i~~~~~~-~v~vi~~D~~v~~~~~~---~------   50 (126)
T PF09967_consen    1 IVVAIDTSGSIS--------------------DEELRRFLSEVAGILRRFPA-EVHVIQFDAEVQDVQVF---R------   50 (126)
T ss_pred             CEEEEECCCCCC--------------------HHHHHHHHHHHHHHHHhCCC-CEEEEEECCEeeeeeEE---e------
Confidence            468999887732                    13567788888899999922 67777787765432211   1      


Q ss_pred             CCHHHHHHHHHhcCCceee--ccCCChHHHHHHHHHHHHhcCCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCeEE
Q 018272          131 QGFEHVLECYRKNVPNVQY--FGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSI  208 (358)
Q Consensus       131 ~g~~gvl~~Y~~~l~~v~l--~gpt~fapvI~~a~~~~~~~~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPlSI  208 (358)
                       .       ....+..+++  .|-|+|.|+++++.+.    .....++++||||.....           ..+-.+|+=|
T Consensus        51 -~-------~~~~~~~~~~~GgGGTdf~pvf~~~~~~----~~~~~~vi~fTDg~~~~~-----------~~~P~~~vlW  107 (126)
T PF09967_consen   51 -S-------LEDELRDIKLKGGGGTDFRPVFEYLEEN----RPRPSVVIYFTDGEGWPP-----------EEAPPYPVLW  107 (126)
T ss_pred             -c-------ccccccccccCCCCCCcchHHHHHHHhc----CCCCCEEEEEeCCCCCCC-----------CCCCCCcEEE
Confidence             1       1111222222  4789999999998654    345678889999987541           0122789999


Q ss_pred             EEEe--eCCCCchhhhhc
Q 018272          209 VLVG--VGDGPWESIQKF  224 (358)
Q Consensus       209 iiVG--VG~~~f~~m~~L  224 (358)
                      ++.|  -...+|+..-+|
T Consensus       108 vl~~~~~~~~P~G~vv~l  125 (126)
T PF09967_consen  108 VLPGNRNPKAPFGRVVRL  125 (126)
T ss_pred             EEeCCCCCCCCCEEEEEe
Confidence            9998  233455544333

>cd01458 vWA_ku Ku70/Ku80 N-terminal domain

Probab=96.55  E-value=0.066  Score=49.35  Aligned_cols=158  Identities=12%  Similarity=0.220  Sum_probs=96.1

Q ss_pred             eceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccc---cCCC-ceeEEeecCCCCCC----CCcc
Q 018272           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVL---FDGD-CIRCYGFGDDTTRD----EGVF  121 (358)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~---yD~d-~ip~~GFGa~~~~~----~~~f  121 (358)
                      .++++||.+.|=.        .  .+   +...++..+.|+..+..+++.   ..+. .+-++.||...+..    .+++
T Consensus         3 ~ivf~iDvS~SM~--------~--~~---~~~~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~~~~~~i~   69 (218)
T cd01458           3 SVVFLVDVSPSMF--------E--SK---DGEYESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNPVGYENIY   69 (218)
T ss_pred             EEEEEEeCCHHHc--------C--CC---CCCCCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCcCCCCceE
Confidence            3678999986632        0  00   112368999999999999997   5555 99999999975432    3444


Q ss_pred             ccCCCCCCCCCHHHHHHHHHhcCCcee--------eccCCChHHHHHHHHHHHHhcC--CceEEEEEEeCCccC---Ccc
Q 018272          122 SFQENDSPCQGFEHVLECYRKNVPNVQ--------YFGPTSYAPMVEAAVDIVEESG--GLHHVLVIITSGQVA---TGS  188 (358)
Q Consensus       122 ~~~~~~~~~~g~~gvl~~Y~~~l~~v~--------l~gpt~fapvI~~a~~~~~~~~--~~Y~VLlIiTDG~i~---d~~  188 (358)
                      .+.|-  ..... ..++.+.+.+....        -++.|.+...|..+.+..++..  ..--.+++||||.=.   | .
T Consensus        70 v~~~l--~~~~~-~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~aL~~a~~~~~~~~~~~~~k~IvL~TDg~~p~~~~-~  145 (218)
T cd01458          70 VLLDL--DTPGA-ERVEDLKELIEPGGLSFAGQVGDSGQVSLSDALWVCLDLFSKGKKKKSHKRIFLFTNNDDPHGGD-S  145 (218)
T ss_pred             EeecC--CCCCH-HHHHHHHHHhhcchhhhcccCCCCCCccHHHHHHHHHHHHHhccccccccEEEEECCCCCCCCCC-H
Confidence            44321  11122 33344444332221        2457899999999988876521  112456788999533   1 0


Q ss_pred             hhHHHHHHHHHHhcCCCeEEEEEeeCCCC--chhhhhc
Q 018272          189 QQEQETIRSIVDASSYPLSIVLVGVGDGP--WESIQKF  224 (358)
Q Consensus       189 ~~~~~t~~aIv~AS~lPlSIiiVGVG~~~--f~~m~~L  224 (358)
                      ...++..+.+.+..+.-+.|..||+|..+  |+..+.+
T Consensus       146 ~~~~~~~~~a~~l~~~gI~i~~i~i~~~~~~f~~~~fy  183 (218)
T cd01458         146 IKDSQAAVKAEDLKDKGIELELFPLSSPGKKFDVSKFY  183 (218)
T ss_pred             HHHHHHHHHHHHHHhCCcEEEEEecCCCCCCCChhHHH
Confidence            01244555666666778999999998765  5544333

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.

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

Probab=96.47  E-value=0.0014  Score=66.21  Aligned_cols=46  Identities=24%  Similarity=0.590  Sum_probs=36.6

Q ss_pred             cccccCCCccCcccCCCC---eee--cCCCCCchhhhhcC--CCCCCCccccC
Q 018272          306 AEVAEAQRCCICCEDEKD---TAF--ECGHMSCIKCALRM--PQCPFCREEIT  351 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~~---~v~--pCgH~~C~~C~~~~--~~CP~CR~~i~  351 (358)
                      ..+.+.++|+||+|+.-.   .++  .|-|.|=..|+.++  ..||+||---.
T Consensus       170 ~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~scpvcR~~q~  222 (493)
T KOG0804|consen  170 TGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDSSCPVCRYCQS  222 (493)
T ss_pred             CCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcccCcChhhhhhcC
Confidence            445788999999997644   334  99999988999999  57999996544

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

Probab=96.45  E-value=0.0011  Score=66.91  Aligned_cols=44  Identities=32%  Similarity=0.927  Sum_probs=38.3

Q ss_pred             ccCCCccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018272          309 AEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITT  352 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~  352 (358)
                      ..+..|.||+...-.++. ||||.+|..|+.+.    ..||.||.++..
T Consensus        82 ~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCCccccccccccHHHHHHHhccCCCCccccccccc
Confidence            667899999998888776 99999999997765    679999998875

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

Probab=96.39  E-value=0.0008  Score=70.82  Aligned_cols=44  Identities=27%  Similarity=0.606  Sum_probs=36.2

Q ss_pred             ccccCCCccCcccCCCC-----eee-cCCCCCchhhhhcC----CCCCCCcccc
Q 018272          307 EVAEAQRCCICCEDEKD-----TAF-ECGHMSCIKCALRM----PQCPFCREEI  350 (358)
Q Consensus       307 ~~~~~~~C~IC~~~~~~-----~v~-pCgH~~C~~C~~~~----~~CP~CR~~i  350 (358)
                      .......|.||.|....     +.. +|||.||..|...+    +.||+||..+
T Consensus       287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~  340 (543)
T KOG0802|consen  287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL  340 (543)
T ss_pred             hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence            33456799999997766     444 99999999999988    7899999944

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=96.28  E-value=0.066  Score=57.12  Aligned_cols=146  Identities=16%  Similarity=0.119  Sum_probs=88.1

Q ss_pred             eeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccc-cCCC-ceeEEeecCCCCCCCCccccCCC
Q 018272           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVL-FDGD-CIRCYGFGDDTTRDEGVFSFQEN  126 (358)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~-yD~d-~ip~~GFGa~~~~~~~~f~~~~~  126 (358)
                      ..+++.||-|.|=.                    .+..+.|-.++..++.. |... .+-++.|++...  ..++++   
T Consensus       408 ~~v~fvvD~SGSM~--------------------~~rl~~aK~av~~Ll~~~~~~~D~v~Li~F~~~~a--~~~lp~---  462 (589)
T TIGR02031       408 RLLIFVVDASGSAA--------------------VARMSEAKGAVELLLGEAYVHRDQVSLIAFRGTAA--EVLLPP---  462 (589)
T ss_pred             ceEEEEEECCCCCC--------------------hHHHHHHHHHHHHHHHhhccCCCEEEEEEECCCCc--eEECCC---
Confidence            45667788776621                    13455566666666653 4444 899999976421  012222   


Q ss_pred             CCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcC--CceEEEEEEeCCccCCc---c-----hh---H-H
Q 018272          127 DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG--GLHHVLVIITSGQVATG---S-----QQ---E-Q  192 (358)
Q Consensus       127 ~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~--~~Y~VLlIiTDG~i~d~---~-----~~---~-~  192 (358)
                         -.+.+.+    ++.+..+..+|.|.++.-|..+.+..++..  ..-.++++||||.-+-.   +     ++   . +
T Consensus       463 ---t~~~~~~----~~~L~~l~~gGgTpL~~gL~~A~~~~~~~~~~~~~~~ivllTDG~~nv~~~~~~~~~~~~~~~~~~  535 (589)
T TIGR02031       463 ---SRSVEQA----KRRLDVLPGGGGTPLAAGLAAAFQTALQARSSGGTPTIVLITDGRGNIPLDGDPESIKADREQAAE  535 (589)
T ss_pred             ---CCCHHHH----HHHHhcCCCCCCCcHHHHHHHHHHHHHHhcccCCceEEEEECCCCCCCCCCcccccccccchhHHH
Confidence               1244443    345667778999999999999998876532  22357788999976421   0     00   1 1


Q ss_pred             HHHHHHHHhcCCCeEEEEEeeCCCCc--hhhhhccC
Q 018272          193 ETIRSIVDASSYPLSIVLVGVGDGPW--ESIQKFHD  226 (358)
Q Consensus       193 ~t~~aIv~AS~lPlSIiiVGVG~~~f--~~m~~LD~  226 (358)
                      +...+........+.+++||+|.+..  +.+++|=+
T Consensus       536 ~~~~~a~~~~~~gi~~~vid~~~~~~~~~~~~~lA~  571 (589)
T TIGR02031       536 EALALARKIREAGMPALVIDTAMRFVSTGFAQKLAR  571 (589)
T ss_pred             HHHHHHHHHHhcCCeEEEEeCCCCCccchHHHHHHH
Confidence            22222333345678999999998744  44776643

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.

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

Probab=96.09  E-value=0.0024  Score=63.49  Aligned_cols=46  Identities=33%  Similarity=0.843  Sum_probs=38.7

Q ss_pred             ccCCCccCcccCCCCee-----e----cCCCCCchhhhhcC-----------CCCCCCccccCCee
Q 018272          309 AEAQRCCICCEDEKDTA-----F----ECGHMSCIKCALRM-----------PQCPFCREEITTRR  354 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v-----~----pCgH~~C~~C~~~~-----------~~CP~CR~~i~~~~  354 (358)
                      ....+|.||++...+..     |    +|-|.+|..|+.++           +.||.||.+...++
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            45679999999888877     4    79999999999976           46999999887654

>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain

Probab=96.07  E-value=0.14  Score=49.37  Aligned_cols=135  Identities=14%  Similarity=0.064  Sum_probs=75.6

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccc-cCCC-ceeEEeecCCCCCCCCccccCC
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVL-FDGD-CIRCYGFGDDTTRDEGVFSFQE  125 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~-yD~d-~ip~~GFGa~~~~~~~~f~~~~  125 (358)
                      .+++.+.+|.|.|=.                     +....+..++...++. +.++ .+-++.|+.....   ++.++ 
T Consensus        53 p~~vvlvlD~SgSM~---------------------~~~~~a~~a~~~~l~~~l~~~d~v~lv~f~~~~~~---~~~~t-  107 (296)
T TIGR03436        53 PLTVGLVIDTSGSMR---------------------NDLDRARAAAIRFLKTVLRPNDRVFVVTFNTRLRL---LQDFT-  107 (296)
T ss_pred             CceEEEEEECCCCch---------------------HHHHHHHHHHHHHHHhhCCCCCEEEEEEeCCceeE---eecCC-
Confidence            467888888886632                     1133455555556655 4556 9999999986432   12232 


Q ss_pred             CCCCCCCHHHHHHHHHhcCC-----------ceeeccCCChHHHHHHHHH-HHHhcC---CceEEEEEEeCCccCCcchh
Q 018272          126 NDSPCQGFEHVLECYRKNVP-----------NVQYFGPTSYAPMVEAAVD-IVEESG---GLHHVLVIITSGQVATGSQQ  190 (358)
Q Consensus       126 ~~~~~~g~~gvl~~Y~~~l~-----------~v~l~gpt~fapvI~~a~~-~~~~~~---~~Y~VLlIiTDG~i~d~~~~  190 (358)
                           ...+.+.++-.+.-+           .+...|.|++..-|..++. ...+..   ..=-++++||||.-+..   
T Consensus       108 -----~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~g~T~l~~al~~aa~~~~~~~~~~~p~rk~iIllTDG~~~~~---  179 (296)
T TIGR03436       108 -----SDPRLLEAALNRLKPPLRTDYNSSGAFVRDGGGTALYDAITLAALEQLANALAGIPGRKALIVISDGGDNRS---  179 (296)
T ss_pred             -----CCHHHHHHHHHhccCCCccccccccccccCCCcchhHHHHHHHHHHHHHHhhcCCCCCeEEEEEecCCCcch---
Confidence                 134444444444322           1233678887777765543 322221   01256889999976541   


Q ss_pred             HHHHHHHHHHhcCCCeEEEEEeeCC
Q 018272          191 EQETIRSIVDASSYPLSIVLVGVGD  215 (358)
Q Consensus       191 ~~~t~~aIv~AS~lPlSIiiVGVG~  215 (358)
                      .....+++..+.+.-+.|..||+|+
T Consensus       180 ~~~~~~~~~~~~~~~v~vy~I~~~~  204 (296)
T TIGR03436       180 RDTLERAIDAAQRADVAIYSIDARG  204 (296)
T ss_pred             HHHHHHHHHHHHHcCCEEEEeccCc
Confidence            2223333333445567888888875

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.

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

Probab=95.93  E-value=0.0034  Score=62.31  Aligned_cols=42  Identities=31%  Similarity=0.761  Sum_probs=34.2

Q ss_pred             CCccCcccCCCC--e--eecCCCCCchhhhhcC-----CCCCCCccccCCe
Q 018272          312 QRCCICCEDEKD--T--AFECGHMSCIKCALRM-----PQCPFCREEITTR  353 (358)
Q Consensus       312 ~~C~IC~~~~~~--~--v~pCgH~~C~~C~~~~-----~~CP~CR~~i~~~  353 (358)
                      .+|.||+|....  -  ++||.|.|=..|...|     ..||+|++.+.+.
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~  280 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTD  280 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCC
Confidence            499999997665  2  2399999988999988     3499999988764

>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=95.85  E-value=0.1  Score=47.85  Aligned_cols=157  Identities=13%  Similarity=0.125  Sum_probs=83.5

Q ss_pred             eceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCCCCC
Q 018272           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDS  128 (358)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~~~~  128 (358)
                      .+++|+|.|+|=..     ++    . .  .+..-.-..|...+.+.+..|... .....||++...... ...+  +.|
T Consensus         2 ~l~lavDlSgSM~~-----~~----~-~--dg~~~~RL~a~k~v~~~f~~f~~~r~~DriG~~g~~~~~~-~lt~--d~p   66 (191)
T cd01455           2 RLKLVVDVSGSMYR-----FN----G-Y--DGRLDRSLEAVVMVMEAFDGFEDKIQYDIIGHSGDGPCVP-FVKT--NHP   66 (191)
T ss_pred             ceEEEEECcHhHHH-----Hh----c-c--CCccccHHHHHHHHHHHHHHHHHhCccceeeecCcccccC-cccc--ccC
Confidence            47899999998421     11    0 1  122223344555555555555455 667777766532111 1111  222


Q ss_pred             CCCCHH--HHHHHHHhcCCceeeccCCChHHHHHHHHHHHH-hcCCceEEEEEEeCCccCCcchhHHHHHH-HHHHhcCC
Q 018272          129 PCQGFE--HVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVE-ESGGLHHVLVIITSGQVATGSQQEQETIR-SIVDASSY  204 (358)
Q Consensus       129 ~~~g~~--gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~-~~~~~Y~VLlIiTDG~i~d~~~~~~~t~~-aIv~AS~l  204 (358)
                      .-..-+  .++...-.-+ ++.+.|+..- .-|..+++..+ ++..+=.|+++||||.-+..   .-.-.+ +-.-|.+.
T Consensus        67 ~t~d~~~~~~l~~~l~~~-q~g~ag~~Ta-dAi~~av~rl~~~~~a~~kvvILLTDG~n~~~---~i~P~~aAa~lA~~~  141 (191)
T cd01455          67 PKNNKERLETLKMMHAHS-QFCWSGDHTV-EATEFAIKELAAKEDFDEAIVIVLSDANLERY---GIQPKKLADALAREP  141 (191)
T ss_pred             cccchhHHHHHHHHHHhc-ccCccCccHH-HHHHHHHHHHHhcCcCCCcEEEEEeCCCcCCC---CCChHHHHHHHHHhC
Confidence            222322  2333333222 3445676443 77777777776 55444457788899986542   112233 23335567


Q ss_pred             CeEEEEEeeCCCCchhhhhccC
Q 018272          205 PLSIVLVGVGDGPWESIQKFHD  226 (358)
Q Consensus       205 PlSIiiVGVG~~~f~~m~~LD~  226 (358)
                      -+=|-.||||..+.+.++.+-.
T Consensus       142 gV~iytIgiG~~d~~~l~~iA~  163 (191)
T cd01455         142 NVNAFVIFIGSLSDEADQLQRE  163 (191)
T ss_pred             CCEEEEEEecCCCHHHHHHHHh
Confidence            7778888888866566655443

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

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

Probab=95.82  E-value=0.0045  Score=60.48  Aligned_cols=47  Identities=28%  Similarity=0.729  Sum_probs=39.8

Q ss_pred             ccccCCCccCcccCCCCeeecC--CCCCchhhhhcC-CCCCCCccccCCe
Q 018272          307 EVAEAQRCCICCEDEKDTAFEC--GHMSCIKCALRM-PQCPFCREEITTR  353 (358)
Q Consensus       307 ~~~~~~~C~IC~~~~~~~v~pC--gH~~C~~C~~~~-~~CP~CR~~i~~~  353 (358)
                      ...+-..|+||++....+.+.|  ||+.|..|..+. ..||.||.++..+
T Consensus        44 ~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~~~CP~Cr~~~g~~   93 (299)
T KOG3002|consen   44 LDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVSNKCPTCRLPIGNI   93 (299)
T ss_pred             cchhhccCchhhccCcccceecCCCcEehhhhhhhhcccCCccccccccH
Confidence            3456689999999999999955  899999999555 7899999999853

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

Probab=95.76  E-value=0.0039  Score=60.10  Aligned_cols=43  Identities=28%  Similarity=0.643  Sum_probs=37.7

Q ss_pred             CCccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCCee
Q 018272          312 QRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITTRR  354 (358)
Q Consensus       312 ~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~~~  354 (358)
                      ..|-||.....++|. .|||.||..|+.+.    ..|++|.+.+....
T Consensus       242 f~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~  289 (313)
T KOG1813|consen  242 FKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGSF  289 (313)
T ss_pred             ccccccccccccchhhcCCceeehhhhccccccCCcceeccccccccc
Confidence            469999999999888 99999999999865    57999999887754

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

Probab=95.66  E-value=0.0028  Score=57.88  Aligned_cols=44  Identities=34%  Similarity=0.717  Sum_probs=36.8

Q ss_pred             CCCccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCCee
Q 018272          311 AQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITTRR  354 (358)
Q Consensus       311 ~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~~~  354 (358)
                      ...|.||.+....++. .|||.||..|+.+-    ..|-+|........
T Consensus       196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G~f  244 (259)
T COG5152         196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATYGRF  244 (259)
T ss_pred             ceeehhchhhccchhhhhcchhHHHHHHHHHhccCCcceecchhhccce
Confidence            4699999999888888 99999999998753    67999988766543

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=95.35  E-value=0.21  Score=53.73  Aligned_cols=145  Identities=13%  Similarity=0.143  Sum_probs=85.4

Q ss_pred             eeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhccc-ccCCC-ceeEEeecCCCCCCCCccccCCC
Q 018272           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELV-LFDGD-CIRCYGFGDDTTRDEGVFSFQEN  126 (358)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~-~yD~d-~ip~~GFGa~~~~~~~~f~~~~~  126 (358)
                      ..+++.||.|+|=.        .           .+..+.|..++..++. .|-.. .+-+++|++...  ..+++++  
T Consensus       466 ~~vv~vvD~SgSM~--------~-----------~~rl~~ak~a~~~ll~~a~~~~D~v~lI~F~g~~a--~~~~p~t--  522 (633)
T TIGR02442       466 NLVIFVVDASGSMA--------A-----------RGRMAAAKGAVLSLLRDAYQKRDKVALITFRGEEA--EVLLPPT--  522 (633)
T ss_pred             ceEEEEEECCccCC--------C-----------ccHHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCc--eEEcCCC--
Confidence            46778888887732        0           1345566666666654 45555 999999976411  1122221  


Q ss_pred             CCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHh----cCCceEEEEEEeCCccCCc---chhHHHHHHHHH
Q 018272          127 DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEE----SGGLHHVLVIITSGQVATG---SQQEQETIRSIV  199 (358)
Q Consensus       127 ~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~----~~~~Y~VLlIiTDG~i~d~---~~~~~~t~~aIv  199 (358)
                          .+.+.+.    +.+..+...|.|+++.-|..+.+..++    ....-.++++||||.-+..   ....++..++-.
T Consensus       523 ----~~~~~~~----~~L~~l~~gG~Tpl~~aL~~A~~~l~~~~~~~~~~~~~vvliTDG~~n~~~~~~~~~~~~~~~a~  594 (633)
T TIGR02442       523 ----SSVELAA----RRLEELPTGGRTPLAAGLLKAAEVLSNELLRDDDGRPLLVVITDGRANVADGGEPPTDDARTIAA  594 (633)
T ss_pred             ----CCHHHHH----HHHHhCCCCCCCCHHHHHHHHHHHHHHhhccCCCCceEEEEECCCCCCCCCCCCChHHHHHHHHH
Confidence                2444442    344455678999999999999988763    2223467788999976431   011233333333


Q ss_pred             HhcCCCeEEEEEeeCCC--Cchhhhhc
Q 018272          200 DASSYPLSIVLVGVGDG--PWESIQKF  224 (358)
Q Consensus       200 ~AS~lPlSIiiVGVG~~--~f~~m~~L  224 (358)
                      ...+..+-+++|+.+++  +.+.+++|
T Consensus       595 ~l~~~~i~~~vIdt~~~~~~~~~~~~l  621 (633)
T TIGR02442       595 KLAARGILFVVIDTESGFVRLGLAEDL  621 (633)
T ss_pred             HHHhcCCeEEEEeCCCCCcchhHHHHH
Confidence            33445677888888765  33444444

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.

>PRK10997 yieM hypothetical protein; Provisional

Probab=95.33  E-value=0.43  Score=49.78  Aligned_cols=145  Identities=13%  Similarity=0.111  Sum_probs=85.4

Q ss_pred             ceeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHH-HHHHhhcccccCCCceeEEeecCCCCCCCCccccCC
Q 018272           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEV-IYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQE  125 (358)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~a-I~~ig~vl~~yD~d~ip~~GFGa~~~~~~~~f~~~~  125 (358)
                      ..-.++|.||-|+|=.  |.                +-.|.+| .-+++.+...=.+ .+-++.|+......    .+.+
T Consensus       322 ~kGpiII~VDtSGSM~--G~----------------ke~~AkalAaAL~~iAl~q~d-r~~li~Fs~~i~~~----~l~~  378 (487)
T PRK10997        322 PRGPFIVCVDTSGSMG--GF----------------NEQCAKAFCLALMRIALAENR-RCYIMLFSTEVVTY----ELTG  378 (487)
T ss_pred             CCCcEEEEEECCCCCC--CC----------------HHHHHHHHHHHHHHHHHhcCC-CEEEEEecCCceee----ccCC
Confidence            3568999999998832  11                1255555 3444444433333 46688898864321    2222


Q ss_pred             CCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcCCceEEEEEEeCCccCCcchhHHHHHHHHHHhcC-C
Q 018272          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASS-Y  204 (358)
Q Consensus       126 ~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~-l  204 (358)
                          -.|+..+++.-..     .+.|.|++++.++.+++..++..-.=-.+|||||+.....   .++..++|...-+ .
T Consensus       379 ----~~gl~~ll~fL~~-----~f~GGTDl~~aL~~al~~l~~~~~r~adIVVISDF~~~~~---~eel~~~L~~Lk~~~  446 (487)
T PRK10997        379 ----PDGLEQAIRFLSQ-----SFRGGTDLAPCLRAIIEKMQGREWFDADAVVISDFIAQRL---PDELVAKVKELQRQH  446 (487)
T ss_pred             ----ccCHHHHHHHHHH-----hcCCCCcHHHHHHHHHHHHcccccCCceEEEECCCCCCCC---hHHHHHHHHHHHHhc
Confidence                2478887776543     2489999999999999888764223356789999965431   2445555544322 3


Q ss_pred             CeEEEEEeeCC-CCchhhhhccC
Q 018272          205 PLSIVLVGVGD-GPWESIQKFHD  226 (358)
Q Consensus       205 PlSIiiVGVG~-~~f~~m~~LD~  226 (358)
                      -..+.-|-||+ ++=+.|+.+|.
T Consensus       447 ~~rf~~l~i~~~~~p~l~~ifD~  469 (487)
T PRK10997        447 QHRFHAVAMSAHGKPGIMRIFDH  469 (487)
T ss_pred             CcEEEEEEeCCCCCchHHHhcCe
Confidence            33444444444 44455777774

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

Probab=95.22  E-value=0.0067  Score=43.36  Aligned_cols=37  Identities=41%  Similarity=0.911  Sum_probs=18.4

Q ss_pred             ccCcccCC--CCeee---cCCCCCchhhhhcC-----CCCCCCcccc
Q 018272          314 CCICCEDE--KDTAF---ECGHMSCIKCALRM-----PQCPFCREEI  350 (358)
Q Consensus       314 C~IC~~~~--~~~v~---pCgH~~C~~C~~~~-----~~CP~CR~~i  350 (358)
                      |++|.+..  ++..|   +||+.+|+.|..++     ..||.||++-
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            67888754  33344   78999999997765     4699999874

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

Probab=95.06  E-value=0.013  Score=46.81  Aligned_cols=40  Identities=30%  Similarity=0.684  Sum_probs=28.7

Q ss_pred             CCccCcccCCCC--eee-cCCCCCchhhhhcC-------CCCCCCccccC
Q 018272          312 QRCCICCEDEKD--TAF-ECGHMSCIKCALRM-------PQCPFCREEIT  351 (358)
Q Consensus       312 ~~C~IC~~~~~~--~v~-pCgH~~C~~C~~~~-------~~CP~CR~~i~  351 (358)
                      ..|+.|.-.-.+  .++ .|+|.|=..|+.++       ..||+||++..
T Consensus        33 g~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   33 GCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             cCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            345555544334  345 99999999999876       46999999864

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

Probab=94.91  E-value=0.006  Score=62.90  Aligned_cols=45  Identities=24%  Similarity=0.601  Sum_probs=37.4

Q ss_pred             ccccCCCccCcccCCCCeee-cCCCCCchhhhhcC---------CCCCCCccccC
Q 018272          307 EVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM---------PQCPFCREEIT  351 (358)
Q Consensus       307 ~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~---------~~CP~CR~~i~  351 (358)
                      +-++...|.+|-+...+.+. .|.|.||+.|....         -.||.|....+
T Consensus       532 enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls  586 (791)
T KOG1002|consen  532 ENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS  586 (791)
T ss_pred             cccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence            34566899999999999887 99999999999643         46999987654

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

Probab=94.83  E-value=0.0051  Score=65.90  Aligned_cols=46  Identities=22%  Similarity=0.408  Sum_probs=36.8

Q ss_pred             cCCCccCcccCCCCeee----cCCCCCchhhhhcC----CCCCCCccccCCeee
Q 018272          310 EAQRCCICCEDEKDTAF----ECGHMSCIKCALRM----PQCPFCREEITTRRR  355 (358)
Q Consensus       310 ~~~~C~IC~~~~~~~v~----pCgH~~C~~C~~~~----~~CP~CR~~i~~~~~  355 (358)
                      ....|++|+....+-..    +|+|.||..|...|    ..||+||..+.+++.
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V  175 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVKV  175 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheeee
Confidence            34678888877666433    89999999999987    679999999988653

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

Probab=94.67  E-value=0.019  Score=58.18  Aligned_cols=47  Identities=36%  Similarity=0.801  Sum_probs=41.1

Q ss_pred             cccCCCccCcccCCCCeee--cCCCCCchhhhhcC----CCCCCCccccCCee
Q 018272          308 VAEAQRCCICCEDEKDTAF--ECGHMSCIKCALRM----PQCPFCREEITTRR  354 (358)
Q Consensus       308 ~~~~~~C~IC~~~~~~~v~--pCgH~~C~~C~~~~----~~CP~CR~~i~~~~  354 (358)
                      .+++..|++|.....+++.  .|||.||..|...+    ..||.||..+....
T Consensus        18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~   70 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE   70 (391)
T ss_pred             CcccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccchhh
Confidence            5678999999999999887  89999999999987    57999998877643

>TIGR00868 hCaCC calcium-activated chloride channel protein 1

Probab=94.55  E-value=0.5  Score=52.47  Aligned_cols=143  Identities=15%  Similarity=0.149  Sum_probs=83.5

Q ss_pred             eceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCCCCC
Q 018272           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDS  128 (358)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~~~~  128 (358)
                      .+.+.||-|.|=.  |+              ...+.-++|+....  .+.+.++ ++-++.|+......   .+|.+-. 
T Consensus       306 ~VVLVLDvSGSM~--g~--------------dRL~~lkqAA~~fL--~~~l~~~DrVGLVtFsssA~vl---~pLt~It-  363 (863)
T TIGR00868       306 IVCLVLDKSGSMT--VE--------------DRLKRMNQAAKLFL--LQTVEKGSWVGMVTFDSAAYIK---NELIQIT-  363 (863)
T ss_pred             eEEEEEECCcccc--cc--------------CHHHHHHHHHHHHH--HHhCCCCCEEEEEEECCceeEe---eccccCC-
Confidence            4677888887732  11              11233445554432  1223445 99999999864321   2232111 


Q ss_pred             CCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcCC--ceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCe
Q 018272          129 PCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGG--LHHVLVIITSGQVATGSQQEQETIRSIVDASSYPL  206 (358)
Q Consensus       129 ~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~~--~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPl  206 (358)
                         . +...++-...++ ....|-|++..-|+.|.+..++...  .--.+++||||+-++    ..+..+.   +....+
T Consensus       364 ---s-~~dr~aL~~~L~-~~A~GGT~I~~GL~~Alq~L~~~~~~~~~~~IILLTDGedn~----~~~~l~~---lk~~gV  431 (863)
T TIGR00868       364 ---S-SAERDALTANLP-TAASGGTSICSGLKAAFQVIKKSYQSTDGSEIVLLTDGEDNT----ISSCFEE---VKQSGA  431 (863)
T ss_pred             ---c-HHHHHHHHHhhc-cccCCCCcHHHHHHHHHHHHHhcccccCCCEEEEEeCCCCCC----HHHHHHH---HHHcCC
Confidence               1 123334444444 3467899999999999998775421  223567779998665    4444443   344578


Q ss_pred             EEEEEeeCCCCchhhhhccC
Q 018272          207 SIVLVGVGDGPWESIQKFHD  226 (358)
Q Consensus       207 SIiiVGVG~~~f~~m~~LD~  226 (358)
                      .|-.||+|.+.=..|++|=.
T Consensus       432 tI~TIg~G~dad~~L~~IA~  451 (863)
T TIGR00868       432 IIHTIALGPSAAKELEELSD  451 (863)
T ss_pred             EEEEEEeCCChHHHHHHHHH
Confidence            88899999876555655543

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

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.66  E-value=0.037  Score=52.30  Aligned_cols=44  Identities=14%  Similarity=0.335  Sum_probs=36.8

Q ss_pred             cCCCccCcccCCCC----eee-cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018272          310 EAQRCCICCEDEKD----TAF-ECGHMSCIKCALRM----PQCPFCREEITTR  353 (358)
Q Consensus       310 ~~~~C~IC~~~~~~----~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~~  353 (358)
                      ....|+||.+...+    +++ ||||.+|.+|..++    ..||+|-.+...+
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            56899999987666    346 99999999999998    4699999988764

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

Probab=93.60  E-value=0.025  Score=61.07  Aligned_cols=40  Identities=33%  Similarity=0.978  Sum_probs=33.8

Q ss_pred             CCccCcccCCCCeee-cCCCCCchhhhhcC------CCCCCCccccCC
Q 018272          312 QRCCICCEDEKDTAF-ECGHMSCIKCALRM------PQCPFCREEITT  352 (358)
Q Consensus       312 ~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~------~~CP~CR~~i~~  352 (358)
                      ..|.+|.+ ...+++ +|||.+|..|....      ..||.||..+..
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 666666 99999999999875      469999987654

>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=93.51  E-value=0.8  Score=42.63  Aligned_cols=88  Identities=16%  Similarity=0.203  Sum_probs=53.4

Q ss_pred             ceeEEeecCCCCCCCCccccCCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcCCceEEEEEEeCC-
Q 018272          104 CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSG-  182 (358)
Q Consensus       104 ~ip~~GFGa~~~~~~~~f~~~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~~~Y~VLlIiTDG-  182 (358)
                      .+-+|-|+.........+  ..     .+..+.+.........  ++|-|++...++++.+........-.++|||||| 
T Consensus        90 ~~~~f~F~~~l~~vT~~l--~~-----~~~~~~l~~~~~~~~~--~~GgTdi~~aL~~~~~~~~~~~~~~t~vvIiSDg~  160 (222)
T PF05762_consen   90 RVRVFVFSTRLTEVTPLL--RR-----RDPEEALARLSALVQS--FGGGTDIGQALREFLRQYARPDLRRTTVVIISDGW  160 (222)
T ss_pred             CEEEEEEeeehhhhhhhh--cc-----CCHHHHHHHHHhhccC--CCCccHHHHHHHHHHHHhhcccccCcEEEEEeccc
Confidence            578899998643222111  11     1344455544433333  8899999999999998877443256888999999 


Q ss_pred             ccCCcchhHHHHHHHHHHh
Q 018272          183 QVATGSQQEQETIRSIVDA  201 (358)
Q Consensus       183 ~i~d~~~~~~~t~~aIv~A  201 (358)
                      +-.+ .....+.++.|.+.
T Consensus       161 ~~~~-~~~~~~~l~~l~~r  178 (222)
T PF05762_consen  161 DTND-PEPLAEELRRLRRR  178 (222)
T ss_pred             ccCC-hHHHHHHHHHHHHh
Confidence            4444 22233444444443

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

>PF04641 Rtf2: Rtf2 RING-finger

Probab=93.41  E-value=0.06  Score=51.54  Aligned_cols=45  Identities=18%  Similarity=0.361  Sum_probs=36.9

Q ss_pred             cccCCCccCcccCCC----Ceee-cCCCCCchhhhhcCC---CCCCCccccCC
Q 018272          308 VAEAQRCCICCEDEK----DTAF-ECGHMSCIKCALRMP---QCPFCREEITT  352 (358)
Q Consensus       308 ~~~~~~C~IC~~~~~----~~v~-pCgH~~C~~C~~~~~---~CP~CR~~i~~  352 (358)
                      ......|||......    -+++ +|||.++..++..+.   .||+|-.++..
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            345689999997653    2455 999999999999986   79999999886

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=93.07  E-value=0.031  Score=55.01  Aligned_cols=44  Identities=32%  Similarity=0.745  Sum_probs=32.4

Q ss_pred             ccCCCccCcccCC--CCeee---cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018272          309 AEAQRCCICCEDE--KDTAF---ECGHMSCIKCALRM-----PQCPFCREEITT  352 (358)
Q Consensus       309 ~~~~~C~IC~~~~--~~~v~---pCgH~~C~~C~~~~-----~~CP~CR~~i~~  352 (358)
                      +++..|+.|+|..  .|--|   |||-.+|+.|...+     ..||.||.....
T Consensus        12 deed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~d   65 (480)
T COG5175          12 DEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDD   65 (480)
T ss_pred             cccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence            3445699999853  23334   78888999999876     579999987654

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

Probab=92.24  E-value=0.029  Score=55.01  Aligned_cols=48  Identities=27%  Similarity=0.568  Sum_probs=41.1

Q ss_pred             ccccCCCccCcccCCCCeee--cCCCCCchhhhhcC----CCCCCCccccCCee
Q 018272          307 EVAEAQRCCICCEDEKDTAF--ECGHMSCIKCALRM----PQCPFCREEITTRR  354 (358)
Q Consensus       307 ~~~~~~~C~IC~~~~~~~v~--pCgH~~C~~C~~~~----~~CP~CR~~i~~~~  354 (358)
                      ++....+|.+|-....|++.  -|=|.||+.|+-+.    ..||.|...|.+..
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            34566899999999999764  99999999999875    68999999888764

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

Probab=91.79  E-value=0.11  Score=50.98  Aligned_cols=44  Identities=16%  Similarity=0.520  Sum_probs=34.0

Q ss_pred             cccCCCccCcccCCCCe-ee-cCCCCCchhhhhcC----CCCCCCccccC
Q 018272          308 VAEAQRCCICCEDEKDT-AF-ECGHMSCIKCALRM----PQCPFCREEIT  351 (358)
Q Consensus       308 ~~~~~~C~IC~~~~~~~-v~-pCgH~~C~~C~~~~----~~CP~CR~~i~  351 (358)
                      ..+...|+||+....++ ++ --|-.||..|+-..    .+||+-.-+..
T Consensus       297 ~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~  346 (357)
T KOG0826|consen  297 PPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPAS  346 (357)
T ss_pred             CCccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcch
Confidence            34567999999877764 45 77999999999864    78998665543

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

Probab=90.87  E-value=0.074  Score=54.71  Aligned_cols=45  Identities=27%  Similarity=0.677  Sum_probs=33.8

Q ss_pred             cccCCCccCcccCC-----------------CCeee-cCCCCCchhhhhcC----C-CCCCCccccCC
Q 018272          308 VAEAQRCCICCEDE-----------------KDTAF-ECGHMSCIKCALRM----P-QCPFCREEITT  352 (358)
Q Consensus       308 ~~~~~~C~IC~~~~-----------------~~~v~-pCgH~~C~~C~~~~----~-~CP~CR~~i~~  352 (358)
                      .....-|+||+..-                 ++-.+ ||-|.+=+.|+.++    + .||+||.++..
T Consensus       568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            34567899999631                 12234 99999999999987    3 79999998753

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

Probab=90.33  E-value=0.084  Score=39.04  Aligned_cols=37  Identities=24%  Similarity=0.483  Sum_probs=25.9

Q ss_pred             ccCCCccCcccCCCCeee--cCCCCCchhhhhcC------CCCCC
Q 018272          309 AEAQRCCICCEDEKDTAF--ECGHMSCIKCALRM------PQCPF  345 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~--pCgH~~C~~C~~~~------~~CP~  345 (358)
                      .-...|+|.+....+++.  .|||.|.++.+..+      ..||+
T Consensus         9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            446899999999999987  99999999998876      35998

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

Probab=90.16  E-value=0.1  Score=45.03  Aligned_cols=43  Identities=30%  Similarity=0.802  Sum_probs=36.3

Q ss_pred             CCCccCcccCCCCeee-----cCCCCCchhhhhcC-------CCCCCCccccCCe
Q 018272          311 AQRCCICCEDEKDTAF-----ECGHMSCIKCALRM-------PQCPFCREEITTR  353 (358)
Q Consensus       311 ~~~C~IC~~~~~~~v~-----pCgH~~C~~C~~~~-------~~CP~CR~~i~~~  353 (358)
                      -.+|-||.|...+.-|     -||-..|..|...+       +.||+|+..+.+.
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            4689999999999776     38988999998776       5799999998764

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

Probab=90.00  E-value=0.09  Score=53.04  Aligned_cols=31  Identities=32%  Similarity=0.842  Sum_probs=25.4

Q ss_pred             cCCCccCcccCCCC---eee-cCCCCCchhhhhcC
Q 018272          310 EAQRCCICCEDEKD---TAF-ECGHMSCIKCALRM  340 (358)
Q Consensus       310 ~~~~C~IC~~~~~~---~v~-pCgH~~C~~C~~~~  340 (358)
                      ....|.||++...-   ..+ ||+|.+|..|+...
T Consensus       183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY  217 (445)
T KOG1814|consen  183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDY  217 (445)
T ss_pred             hcccceeeehhhcCcceeeecccchHHHHHHHHHH
Confidence            34799999998766   455 99999999999853

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

Probab=89.07  E-value=0.17  Score=48.62  Aligned_cols=44  Identities=20%  Similarity=0.633  Sum_probs=33.3

Q ss_pred             ccCCCccCcccCCCCee-----------ecCCCCCchhhhhcC------CCCCCCccccCC
Q 018272          309 AEAQRCCICCEDEKDTA-----------FECGHMSCIKCALRM------PQCPFCREEITT  352 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v-----------~pCgH~~C~~C~~~~------~~CP~CR~~i~~  352 (358)
                      .++..|.||-......+           +.|+|.|=..|+..+      +.||.|++.++.
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl  282 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL  282 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence            45679999987543322           399999877787765      689999998865

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

Probab=88.98  E-value=0.16  Score=49.43  Aligned_cols=37  Identities=27%  Similarity=0.641  Sum_probs=32.5

Q ss_pred             CCccCcccCCCCeee--cCCCCCchhhhhcC-----CCCCCCcc
Q 018272          312 QRCCICCEDEKDTAF--ECGHMSCIKCALRM-----PQCPFCRE  348 (358)
Q Consensus       312 ~~C~IC~~~~~~~v~--pCgH~~C~~C~~~~-----~~CP~CR~  348 (358)
                      +.|+.|-...++++-  -|||.||.+|+...     ..||.|..
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            789999999999876  68999999999953     68999976

>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]

Probab=86.40  E-value=0.51  Score=46.23  Aligned_cols=48  Identities=13%  Similarity=-0.043  Sum_probs=39.3

Q ss_pred             ccCCCccCcccCCCCeee-cCCCC-CchhhhhcC--CCCCCCccccCCeeec
Q 018272          309 AEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRM--PQCPFCREEITTRRRV  356 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~-pCgH~-~C~~C~~~~--~~CP~CR~~i~~~~~~  356 (358)
                      -..++|.+|-+......+ +|||+ +|.+|+..-  ..||.|.......+++
T Consensus       341 ~s~~~~~~~~~~~~st~~~~~~~n~~~~~~a~~s~~~~~~~c~~~~~~~~~i  392 (394)
T KOG2113|consen  341 MSSLKGTSAGFGLLSTIWSGGNMNLSPGSLASASASPTSSTCDHNDHTLVPI  392 (394)
T ss_pred             hhhcccccccCceeeeEeecCCcccChhhhhhcccCCccccccccceeeeec
Confidence            345899999999988888 99999 999999854  6899998766555543

>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=86.21  E-value=0.32  Score=34.71  Aligned_cols=43  Identities=30%  Similarity=0.785  Sum_probs=22.4

Q ss_pred             CCccCcccCCCCeeecCC-CCCchhhhhcC----CCCCCCccccCCeee
Q 018272          312 QRCCICCEDEKDTAFECG-HMSCIKCALRM----PQCPFCREEITTRRR  355 (358)
Q Consensus       312 ~~C~IC~~~~~~~v~pCg-H~~C~~C~~~~----~~CP~CR~~i~~~~~  355 (358)
                      ..|+-|+-..+. .+.|. |.+|..|+..|    ..||+|..++...++
T Consensus         3 ~nCKsCWf~~k~-Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtkir   50 (50)
T PF03854_consen    3 YNCKSCWFANKG-LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTKIR   50 (50)
T ss_dssp             ----SS-S--SS-EEE-SS-EEEHHHHHHT-SSSSEETTTTEE----S-
T ss_pred             ccChhhhhcCCC-eeeecchhHHHHHHHHHhccccCCCcccCcCccccC
Confidence            358888843333 33675 66999999988    469999999887653

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.

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

Probab=85.11  E-value=3.7  Score=39.41  Aligned_cols=107  Identities=12%  Similarity=0.219  Sum_probs=69.9

Q ss_pred             ccCCC-ceeEEeecCCCCCCCCccccCCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcC----Cce
Q 018272           99 LFDGD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG----GLH  173 (358)
Q Consensus        99 ~yD~d-~ip~~GFGa~~~~~~~~f~~~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~----~~Y  173 (358)
                      .|-.- ++.+.+|=+...   ++ =+.|.    ..++.+    .+.+..+...|-|-+++-|+.+.+...+..    ..-
T Consensus       111 AYq~RdkvavI~F~G~~A---~l-ll~pT----~sv~~~----~~~L~~l~~GG~TPL~~aL~~a~ev~~r~~r~~p~~~  178 (261)
T COG1240         111 AYQRRDKVAVIAFRGEKA---EL-LLPPT----SSVELA----ERALERLPTGGKTPLADALRQAYEVLAREKRRGPDRR  178 (261)
T ss_pred             HHHccceEEEEEecCCcc---eE-EeCCc----ccHHHH----HHHHHhCCCCCCCchHHHHHHHHHHHHHhhccCCCcc
Confidence            45554 888999965321   11 11222    234443    333444556899999999999988865432    356


Q ss_pred             EEEEEEeCCccCCcchh--HHHHHHHHHHhcCCCeEEEEEeeCCCC
Q 018272          174 HVLVIITSGQVATGSQQ--EQETIRSIVDASSYPLSIVLVGVGDGP  217 (358)
Q Consensus       174 ~VLlIiTDG~i~d~~~~--~~~t~~aIv~AS~lPlSIiiVGVG~~~  217 (358)
                      .++++||||..++..+.  ..+|..+-......++-+++|....+.
T Consensus       179 ~~~vviTDGr~n~~~~~~~~~e~~~~a~~~~~~g~~~lvid~e~~~  224 (261)
T COG1240         179 PVMVVITDGRANVPIPLGPKAETLEAASKLRLRGIQLLVIDTEGSE  224 (261)
T ss_pred             eEEEEEeCCccCCCCCCchHHHHHHHHHHHhhcCCcEEEEecCCcc
Confidence            78889999987664221  467777777777788888888887766

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

Probab=84.33  E-value=3.5  Score=37.95  Aligned_cols=81  Identities=19%  Similarity=0.250  Sum_probs=47.0

Q ss_pred             CceeeccCCChHHHHHHHHHHHHhc--------CCce-EEEEEEeCCccCCcchhHHHHHHHHHHhcCCCeEEEEEeeCC
Q 018272          145 PNVQYFGPTSYAPMVEAAVDIVEES--------GGLH-HVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGD  215 (358)
Q Consensus       145 ~~v~l~gpt~fapvI~~a~~~~~~~--------~~~Y-~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPlSIiiVGVG~  215 (358)
                      |.+.-.|-|....-|+.+++.+++.        .+.| .+.++||||..+| .....+++..--++++--+-+..||+-+
T Consensus        71 p~L~a~GgT~lGaAl~~a~d~Ie~~~~~~~a~~kgdyrP~vfLiTDG~PtD-~w~~~~~~~~~~~~~~k~v~a~~~G~~~  149 (207)
T COG4245          71 PILTAQGGTPLGAALTLALDMIEERKRKYDANGKGDYRPWVFLITDGEPTD-DWQAGAALVFQGERRAKSVAAFSVGVQG  149 (207)
T ss_pred             CceecCCCCchHHHHHHHHHHHHHHHhhcccCCccccceEEEEecCCCcch-HHHhHHHHhhhcccccceEEEEEecccc
Confidence            3344568888888888888886643        1222 3446779999998 1111122222333444444455555555


Q ss_pred             CCchhhhhccC
Q 018272          216 GPWESIQKFHD  226 (358)
Q Consensus       216 ~~f~~m~~LD~  226 (358)
                      ++-..++++-+
T Consensus       150 ad~~~L~qit~  160 (207)
T COG4245         150 ADNKTLNQITE  160 (207)
T ss_pred             cccHHHHHHHH
Confidence            67777777764

>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=84.24  E-value=0.54  Score=37.93  Aligned_cols=32  Identities=28%  Similarity=0.815  Sum_probs=24.9

Q ss_pred             cccCCCccCcccCCCCeee---cCCCCCchhhhhc
Q 018272          308 VAEAQRCCICCEDEKDTAF---ECGHMSCIKCALR  339 (358)
Q Consensus       308 ~~~~~~C~IC~~~~~~~v~---pCgH~~C~~C~~~  339 (358)
                      +++...|.+|.....+.+|   ||||.+-..|..+
T Consensus        75 i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~r  109 (109)
T PF10367_consen   75 ITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIKR  109 (109)
T ss_pred             ECCCCCccCcCCcCCCceEEEeCCCeEEecccccC
Confidence            4556789999998776443   9999998888754

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 [].

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

Probab=83.74  E-value=0.43  Score=46.69  Aligned_cols=40  Identities=25%  Similarity=0.670  Sum_probs=28.7

Q ss_pred             CccCcccCCCCee--e-cCCCCCchhhhhcC--CCCCCCccccCCe
Q 018272          313 RCCICCEDEKDTA--F-ECGHMSCIKCALRM--PQCPFCREEITTR  353 (358)
Q Consensus       313 ~C~IC~~~~~~~v--~-pCgH~~C~~C~~~~--~~CP~CR~~i~~~  353 (358)
                      .|--| +.+..+.  + ||.|.||.+|+..-  +.||.|-..+.++
T Consensus        92 fCd~C-d~PI~IYGRmIPCkHvFCl~CAr~~~dK~Cp~C~d~VqrI  136 (389)
T KOG2932|consen   92 FCDRC-DFPIAIYGRMIPCKHVFCLECARSDSDKICPLCDDRVQRI  136 (389)
T ss_pred             eeccc-CCcceeeecccccchhhhhhhhhcCccccCcCcccHHHHH
Confidence            34444 4444443  3 99999999999876  5899998877653

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

Probab=83.27  E-value=0.42  Score=52.91  Aligned_cols=43  Identities=30%  Similarity=0.750  Sum_probs=31.4

Q ss_pred             cCCCccCcccCCC--Ceee------cCCCCCchhhhhcC------CCCCCCccccCC
Q 018272          310 EAQRCCICCEDEK--DTAF------ECGHMSCIKCALRM------PQCPFCREEITT  352 (358)
Q Consensus       310 ~~~~C~IC~~~~~--~~v~------pCgH~~C~~C~~~~------~~CP~CR~~i~~  352 (358)
                      ...+|.||+.-..  +-.+      -|.|-|=..|+-+|      ..||+||..|+-
T Consensus      1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219        1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred             CcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence            4579999996322  1122      57788888999887      579999988764

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

Probab=80.98  E-value=6.2  Score=40.75  Aligned_cols=79  Identities=16%  Similarity=0.186  Sum_probs=50.4

Q ss_pred             CCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcC-CceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCC
Q 018272          127 DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG-GLHHVLVIITSGQVATGSQQEQETIRSIVDASSYP  205 (358)
Q Consensus       127 ~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~-~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lP  205 (358)
                      .+...|++++++--.....    +| |+|...|+.|++..++.. .+|-+ |+||||.-.- +.+....++.+.++++.=
T Consensus       326 ~~k~~~~~e~i~fL~~~f~----GG-TD~~~~l~~al~~~k~~~~~~adi-v~ITDg~~~~-~~~~~~~v~e~~k~~~~r  398 (437)
T COG2425         326 YEKKIDIEELIEFLSYVFG----GG-TDITKALRSALEDLKSRELFKADI-VVITDGEDER-LDDFLRKVKELKKRRNAR  398 (437)
T ss_pred             cCCccCHHHHHHHHhhhcC----CC-CChHHHHHHHHHHhhcccccCCCE-EEEeccHhhh-hhHHHHHHHHHHHHhhce
Confidence            3455689998875544433    46 999999999999998652 24454 6779994322 011355666666666655


Q ss_pred             eEEEEEe
Q 018272          206 LSIVLVG  212 (358)
Q Consensus       206 lSIiiVG  212 (358)
                      +--|+||
T Consensus       399 l~aV~I~  405 (437)
T COG2425         399 LHAVLIG  405 (437)
T ss_pred             EEEEEec
Confidence            5444433

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=80.54  E-value=3.2  Score=41.02  Aligned_cols=44  Identities=32%  Similarity=0.739  Sum_probs=34.0

Q ss_pred             cCCCccCcccCC--CC-eee--cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018272          310 EAQRCCICCEDE--KD-TAF--ECGHMSCIKCALRM----PQCPFCREEITTR  353 (358)
Q Consensus       310 ~~~~C~IC~~~~--~~-~v~--pCgH~~C~~C~~~~----~~CP~CR~~i~~~  353 (358)
                      -...|++|.+..  .+ ..+  ||||..|..|....    ..||.||.+...-
T Consensus       248 v~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~  300 (327)
T KOG2068|consen  248 VPPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYERN  300 (327)
T ss_pred             cCCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccccC
Confidence            347999999854  33 334  89999999999876    5799999877653

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	358
2yhn_A	79	The Idol-Ube2d Complex Mediates Sterol-Dependent De		4e-05

>pdb|2YHN|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent Degradation Of The Ldl Receptor Length = 79

Iteration: 1
 Score = 45.8 bits (107), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/53 (37%), Positives = 31/53 (58%), Gaps = 2/53 (3%)
Query: 307 EVAEAQRCCICCEDEKDTAF-ECGHMSCIK-CALRMPQCPFCREEITTRRRVY 357
           ++ EA  C +CCE+E ++ F  CGH  C + CA ++  CP CR  +   + VY
Sbjct: 14  KLKEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQLQSCPVCRSRVEHVQHVY 66

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	358
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	4e-15
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	1e-14
2ea5_A	68	Cell growth regulator with ring finger domain prot	1e-12
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	5e-11
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	6e-11
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	4e-10
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	1e-07
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-06
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-05
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-05
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-05
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	2e-05
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-05
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	4e-05
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	4e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	5e-05
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	6e-05
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	1e-04
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	2e-04
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	3e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	3e-04
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	4e-04
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	6e-04
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	6e-04
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	7e-04
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	9e-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 = 68.6 bits (168), Expect = 4e-15
 Identities = 20/53 (37%), Positives = 30/53 (56%), Gaps = 2/53 (3%)

Query: 307 EVAEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVY 357
           ++ EA  C +CCE+E ++ F  CGH   C  CA ++  CP CR  +   + VY
Sbjct: 14  KLKEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQLQSCPVCRSRVEHVQHVY 66

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

 Score = 67.5 bits (165), Expect = 1e-14
 Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 2/53 (3%)

Query: 307 EVAEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVY 357
            + E + C IC +      F  CGH+ +C +CA  + +CP C   IT +++++
Sbjct: 21  RLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMCYTVITFKQKIF 73

>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 = 61.3 bits (149), Expect = 1e-12
 Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 2/50 (4%)

Query: 310 EAQRCCICCEDEKDTAF-ECGHMS-CIKCALRMPQCPFCREEITTRRRVY 357
            ++ C +C     +     C H   C  C     QCP CR+ +     + 
Sbjct: 14  NSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKYFQQCPMCRQFVQESFALS 63

>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 = 56.7 bits (137), Expect = 5e-11
 Identities = 16/61 (26%), Positives = 26/61 (42%), Gaps = 8/61 (13%)

Query: 305 SAEVAEAQRCCICCEDEKDTAF---ECGHM-SCIKCALRMPQ----CPFCREEITTRRRV 356
           S  +   + C IC    K+      + GH+ +C  CA ++ +    CP CR+ I      
Sbjct: 2   SLPLNAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQMIVLT 61

Query: 357 Y 357
           Y
Sbjct: 62  Y 62

>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 = 62.3 bits (149), Expect = 6e-11
 Identities = 17/66 (25%), Positives = 27/66 (40%), Gaps = 2/66 (3%)

Query: 294 SSHCARQMGPVSAEVAEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEIT 351
                  +      + E + C +C + E    F  CGH+  C +CA  + +CP CR  I 
Sbjct: 278 EDVSGLSLEEQLRRLQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSLRKCPICRGIIK 337

Query: 352 TRRRVY 357
              R +
Sbjct: 338 GTVRTF 343

>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 = 54.1 bits (130), Expect = 4e-10
 Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 8/54 (14%)

Query: 312 QRCCICCEDEKDTAF---ECGHM-SCIKCALRM----PQCPFCREEITTRRRVY 357
           + C +C +  +D        GH+ +C  CA R+      CP C++EI    +V+
Sbjct: 8   KPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQLVIKVF 61

>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 = 52.1 bits (124), Expect = 1e-07
 Identities = 20/57 (35%), Positives = 25/57 (43%), Gaps = 6/57 (10%)

Query: 307 EVAEAQRCCICCEDEKDTAFE-CGHMSCIKCALRM-----PQCPFCREEITTRRRVY 357
             +  Q C IC E++KD   E CGH+ C  C           CPFCR EI     + 
Sbjct: 328 MGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIV 384

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

 Score = 43.9 bits (104), Expect = 2e-06
 Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 4/49 (8%)

Query: 307 EVAEAQRCCICCEDEKDTAFECGHMSCIKCA----LRMPQCPFCREEIT 351
           ++ + + CCIC +   D    C H  C KC      R   CP CR ++T
Sbjct: 11  QLTDEEECCICMDGRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMT 59

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens} Length = 100

 Score = 42.6 bits (100), Expect = 1e-05
 Identities = 17/55 (30%), Positives = 22/55 (40%), Gaps = 7/55 (12%)

Query: 306 AEVAEAQRCCICCEDEKDTAF--ECGHMSCIKC-----ALRMPQCPFCREEITTR 353
             +AE  RC IC E  +D      C  + C  C       +  QCP CR  +  R
Sbjct: 17  ESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLR 71

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus} Length = 71

 Score = 41.4 bits (97), Expect = 2e-05
 Identities = 16/70 (22%), Positives = 27/70 (38%), Gaps = 14/70 (20%)

Query: 302 GPVSAEVAEAQRCCICCEDEKDTAF--------ECGHM---SCIKCAL-RMPQCPFCREE 349
           G      +    C IC +   +           ECGH+    C++ +L     CP CR++
Sbjct: 1   GTTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 60

Query: 350 ITTR--RRVY 357
           I  +    +Y
Sbjct: 61  INHKRYHPIY 70

>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase, protein binding complex; 4.80A {Homo sapiens} Length = 149

 Score = 43.1 bits (101), Expect = 2e-05
 Identities = 13/71 (18%), Positives = 26/71 (36%), Gaps = 5/71 (7%)

Query: 293 LSSHCARQMGPVSAEVAEAQRCCICCEDEKD-TAFECGHMSCIKCALRM----PQCPFCR 347
           + +     +  ++  +    +C IC E   +     C H  C  C         +CP CR
Sbjct: 46  MQAQKEEVLSHMNDVLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICR 105

Query: 348 EEITTRRRVYP 358
           ++I ++     
Sbjct: 106 KDIKSKTYSLV 116

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

 Score = 40.9 bits (96), Expect = 2e-05
 Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 6/50 (12%)

Query: 309 AEAQRCCICCEDEKDTAF--ECGHMSCIKC----ALRMPQCPFCREEITT 352
             A+RC IC ED  + +    C H  C  C      + P CP C+  + +
Sbjct: 3   TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES 52

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens} Length = 64

 Score = 40.5 bits (95), Expect = 3e-05
 Identities = 15/58 (25%), Positives = 25/58 (43%), Gaps = 14/58 (24%)

Query: 314 CCICCEDEKDTAF--------ECGHM---SCIKCAL-RMPQCPFCREEITTR--RRVY 357
           C IC +   +           ECGH+    C++ +L     CP CR++I  +    +Y
Sbjct: 6   CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIY 63

>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B Length = 165

 Score = 42.7 bits (100), Expect = 4e-05
 Identities = 21/82 (25%), Positives = 36/82 (43%), Gaps = 9/82 (10%)

Query: 284 KITPKPPPVLSSHCARQMGPVSAEVAEAQRCCICCEDEKD--TAFECGH---MSCIKCAL 338
           ++   P   ++      + P    +     C IC +  K+  T  EC H     CI  AL
Sbjct: 29  ELQRTPQEAITDGLEIVVSP--RSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITAL 86

Query: 339 R--MPQCPFCREEITTRRRVYP 358
           R    +CP CR+++ ++R + P
Sbjct: 87  RSGNKECPTCRKKLVSKRSLRP 108

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 71

 Score = 40.6 bits (95), Expect = 4e-05
 Identities = 13/55 (23%), Positives = 20/55 (36%), Gaps = 5/55 (9%)

Query: 302 GPVSAEVAEAQRCCICCEDEKD-TAFECGHMSCIKC----ALRMPQCPFCREEIT 351
              +A       C IC +      +  C H+ C  C    +    +C  CR+EI 
Sbjct: 6   SGNTAPSLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIP 60

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

 Score = 40.5 bits (94), Expect = 5e-05
 Identities = 17/67 (25%), Positives = 23/67 (34%), Gaps = 10/67 (14%)

Query: 301 MGPVSAEVAEAQRCCICCE--DEKDTAF---ECGHMSCIKCALRM-----PQCPFCREEI 350
           M        +   C +C E  +  D  F    CG+  C  C  R+       CP CR+  
Sbjct: 1   MSRSPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY 60

Query: 351 TTRRRVY 357
                VY
Sbjct: 61  PEDPAVY 67

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens} Length = 99

 Score = 40.5 bits (95), Expect = 6e-05
 Identities = 16/57 (28%), Positives = 21/57 (36%), Gaps = 6/57 (10%)

Query: 303 PVSAEVAEAQRCCICCEDEKD--TAFECGH---MSCIKCAL-RMPQCPFCREEITTR 353
            V   + +  RC IC E         +C H     CI+  L    QCP C   +T  
Sbjct: 14  AVMKTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEP 70

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

 Score = 38.7 bits (90), Expect = 1e-04
 Identities = 14/64 (21%), Positives = 25/64 (39%), Gaps = 12/64 (18%)

Query: 302 GPVSAEVAEAQRCCICCEDEKDTAF--------ECGHM---SCIKCALRM-PQCPFCREE 349
                  +    C IC +   +           ECGH+    C++ +L+    CP CR++
Sbjct: 6   SGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 65

Query: 350 ITTR 353
           I  +
Sbjct: 66  INHK 69

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 72

 Score = 38.2 bits (89), Expect = 2e-04
 Identities = 15/55 (27%), Positives = 20/55 (36%), Gaps = 6/55 (10%)

Query: 306 AEVAEAQRCCICCEDEKD--TAFECGH---MSCIKCALRM-PQCPFCREEITTRR 354
           +E+     C IC     D  T  EC H    SCI        +CP C   +   +
Sbjct: 10  SELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQ 64

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens} Length = 124

 Score = 39.2 bits (91), Expect = 3e-04
 Identities = 13/63 (20%), Positives = 21/63 (33%), Gaps = 6/63 (9%)

Query: 298 ARQMGPVSAEVAEAQRCCICCEDEKDT-AFECGH---MSCIKCALR--MPQCPFCREEIT 351
                   ++V E  +C  C E         C H     C+  + R  +  CP CR ++ 
Sbjct: 39  GSPFQLFLSKVEETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLG 98

Query: 352 TRR 354
              
Sbjct: 99  RSY 101

>1jm7_B BARD1, BRCA1-associated ring domain protein 1; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 117

 Score = 39.1 bits (91), Expect = 3e-04
 Identities = 10/56 (17%), Positives = 16/56 (28%), Gaps = 4/56 (7%)

Query: 303 PVSAEVAEAQRCCICCEDEKD--TAFECGHMSCIKCALRM--PQCPFCREEITTRR 354
                + +  RC  C    ++      C H+ C  C        CP C      + 
Sbjct: 14  AALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWIQD 69

>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT- interacting protein, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 88

 Score = 38.1 bits (89), Expect = 4e-04
 Identities = 13/50 (26%), Positives = 19/50 (38%), Gaps = 12/50 (24%)

Query: 314 CCICCEDEKDTAF-----ECGHMSCIKCALRMP-------QCPFCREEIT 351
           C IC E   +         CGH  C +C  ++        +CPFC +   
Sbjct: 18  CPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITR 67

>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA damage, chromatin regulator, chromosomal protein, DNA repair, metal-binding; 2.12A {Homo sapiens} Length = 115

 Score = 38.4 bits (89), Expect = 6e-04
 Identities = 14/51 (27%), Positives = 19/51 (37%), Gaps = 6/51 (11%)

Query: 314 CCICCEDEKD-TAFECGHMSCIKCALRM-----PQCPFCREEITTRRRVYP 358
           C IC E   +     C H  C  C           CPFCR  +++  R + 
Sbjct: 18  CGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHT 68

>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A Length = 108

 Score = 37.9 bits (88), Expect = 6e-04
 Identities = 15/58 (25%), Positives = 21/58 (36%), Gaps = 6/58 (10%)

Query: 306 AEVAEAQRCCICCEDEKD--TAFECGH---MSCIKCALRM-PQCPFCREEITTRRRVY 357
            E+     C +C     D  T  EC H    +CI   L     CP C  ++   R + 
Sbjct: 10  TELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLL 67

>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc binuclear cluster, zinc finger, DNA-binding protein; 2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1 Length = 116

 Score = 38.0 bits (88), Expect = 7e-04
 Identities = 16/59 (27%), Positives = 19/59 (32%), Gaps = 6/59 (10%)

Query: 306 AEVAEAQRCCICCEDEKD-TAFECGHMSCIKCALRM-----PQCPFCREEITTRRRVYP 358
           A   ++  C IC     D     C H+ C  C LR        CP CR          P
Sbjct: 18  AHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESP 76

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 81

 Score = 36.7 bits (85), Expect = 9e-04
 Identities = 13/43 (30%), Positives = 19/43 (44%), Gaps = 5/43 (11%)

Query: 313 RCCICCEDEKD-TAFECGHMSCIKCAL----RMPQCPFCREEI 350
           RC IC +  ++    +C H  C  CAL      P+C  C +  
Sbjct: 17  RCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYICDQPT 59

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	358
2ea5_A	68	Cell growth regulator with ring finger domain prot	99.35
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.2
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	99.2
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	99.19
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.09
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.03
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.92
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	98.92
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.89
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	98.86
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	98.86
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	98.85
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.84
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	98.84
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	98.83
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	98.81
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	98.79
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	98.79
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	98.78
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	98.76
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.75
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	98.75
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	98.73
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	98.72
2ect_A	78	Ring finger protein 126; metal binding protein, st	98.71
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.71
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.69
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	98.65
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	98.65
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	98.64
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	98.63
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	98.63
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.63
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.62
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	98.61
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.57
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	98.56
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.55
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.54
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	98.54
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.51
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.5
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.49
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.48
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.47
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.46
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.46
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.41
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.41
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.41
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.39
4hqf_A	281	Thrombospondin-related anonymous protein, trap; ma	98.39
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.38
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.3
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.3
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.25
4hqo_A	266	Sporozoite surface protein 2; malaria, gliding mot	98.22
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.21
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.18
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.12
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.11
3ibs_A	218	Conserved hypothetical protein BATB; structural ge	98.11
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.06
3n2n_F	185	Anthrax toxin receptor 1; rossmann fold; 1.80A {Ho	98.02
1atz_A	189	VON willebrand factor; collagen-binding, hemostasi	97.97
1shu_X	182	Anthrax toxin receptor 2; alpha/beta rossmann fold	97.91
2xgg_A	178	Microneme protein 2; A/I domain, cell adhesion, hy	97.88
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	97.83
1q0p_A	223	Complement factor B; VON willebrand factor, MAC-1,	97.83
1n3y_A	198	Integrin alpha-X; alpha/beta rossmann fold, cell a	97.83
1ijb_A	202	VON willebrand factor; dinucleotide-binding fold,	97.83
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	97.82
4b4t_W	268	RPN10, 26S proteasome regulatory subunit RPN10; hy	97.79
2b2x_A	223	Integrin alpha-1; computational design, antibody-a	97.75
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	97.7
1pt6_A	213	Integrin alpha-1; cell adhesion; 1.87A {Homo sapie	97.7
4fx5_A	464	VON willebrand factor type A; structural genomics,	97.67
1mf7_A	194	Integrin alpha M; cell adhesion; 1.25A {Homo sapie	97.67
2odp_A	509	Complement C2; C3/C5 convertase, complement serin	97.66
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	97.63
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	97.6
2x5n_A	192	SPRPN10, 26S proteasome regulatory subunit RPN10;	97.58
1v7p_C	200	Integrin alpha-2; snake venom, C-type lectin, anta	97.56
1rrk_A	497	Complement factor B; BB, hydrolase; 2.00A {Homo sa	97.32
2x31_A	189	Magnesium-chelatase 60 kDa subunit; ligase, bacter	97.1
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	97.07
3hrz_D	741	Complement factor B; serine protease, glycosilated	97.06
3zqk_A	199	VON willebrand factor; blood clotting, adamts-13,	96.95
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	96.71
3k6s_A	1095	Integrin alpha-X; cell receptor, adhesion molecule	96.43
1mjn_A	179	Integrin alpha-L; rossmann fold, immune system; 1.	96.24
1yvr_A	538	RO autoantigen, 60-kDa SS-A/RO ribonucleoprotein,	96.06
1jey_A	609	KU70; double-strand DNA break repair, non-homologo	95.54
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	95.39
1jey_B	565	KU80; double-strand DNA break repair, non-homologo	95.32
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	95.25
2nvo_A	535	RO sixty-related protein, RSR; alpha helical repea	95.11
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	94.8
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	94.18
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	88.97
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	82.69

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

Probab=99.35  E-value=7.5e-13  Score=100.15  Aligned_cols=52  Identities=21%  Similarity=0.570  Sum_probs=47.8

Q ss_pred             ccccCCCccCcccCCCCeee-cCCCC-CchhhhhcCCCCCCCccccCCeeecCC
Q 018272          307 EVAEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVYP  358 (358)
Q Consensus       307 ~~~~~~~C~IC~~~~~~~v~-pCgH~-~C~~C~~~~~~CP~CR~~i~~~~~~f~  358 (358)
                      ...+...|+||+++.+++++ ||||. +|..|+..+..||+||++|..++++|.
T Consensus        11 ~~~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~~~CP~CR~~i~~~~~i~~   64 (68)
T 2ea5_A           11 SEENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKYFQQCPMCRQFVQESFALSG   64 (68)
T ss_dssp             SCCCSSCCSSSSSSCCCCEETTTTBCCSCTTHHHHCSSCTTTCCCCCCEECCCS
T ss_pred             cCCCCCCCCCcCcCCCCEEEECCCChhhhHHHHhcCCCCCCCCcchhceEEeec
Confidence            34457899999999999998 99999 999999999999999999999999984

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

Probab=99.20  E-value=4.5e-12  Score=97.07  Aligned_cols=51  Identities=31%  Similarity=0.849  Sum_probs=47.5

Q ss_pred             ccccCCCccCcccCCCCeee-cCCCC-CchhhhhcCCCCCCCccccCCeeecC
Q 018272          307 EVAEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVY  357 (358)
Q Consensus       307 ~~~~~~~C~IC~~~~~~~v~-pCgH~-~C~~C~~~~~~CP~CR~~i~~~~~~f  357 (358)
                      .+.+...|+||++...++++ ||||. +|..|+.++..||+||+++..++++|
T Consensus        20 ~~~~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~CP~Cr~~i~~~~~i~   72 (74)
T 4ic3_A           20 RLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMCYTVITFKQKIL   72 (74)
T ss_dssp             HHHHHTBCTTTSSSBCCEEEETTCCBCCCHHHHTTCSBCTTTCCBCSEEEECB
T ss_pred             cCccCCCCCCCCCCCCCEEEcCCCChhHHHHhhhcCccCCCcCcCccCcEEEe
Confidence            45567899999999999988 99999 99999999999999999999999987

>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=99.20  E-value=4.1e-12  Score=98.78  Aligned_cols=51  Identities=39%  Similarity=1.046  Sum_probs=47.2

Q ss_pred             ccccCCCccCcccCCCCeee-cCCCC-CchhhhhcCCCCCCCccccCCeeecC
Q 018272          307 EVAEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVY  357 (358)
Q Consensus       307 ~~~~~~~C~IC~~~~~~~v~-pCgH~-~C~~C~~~~~~CP~CR~~i~~~~~~f  357 (358)
                      .+.+...|+||++..+++++ ||||. +|..|+.+++.||+||.++..++++|
T Consensus        14 ~l~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~~~CP~Cr~~i~~~~~i~   66 (79)
T 2yho_A           14 KLKEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQLQSCPVCRSRVEHVQHVY   66 (79)
T ss_dssp             HHHHHTBCTTTSSSBCCEEEETTCBCCBCHHHHTTCSBCTTTCCBCCEEEECB
T ss_pred             cCCCCCEeEEeCcccCcEEEECCCCHHHHHHHHHhcCcCCCCCchhhCeEEEE
Confidence            44566899999999999998 99999 99999999999999999999999887

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

Probab=99.19  E-value=4e-12  Score=97.43  Aligned_cols=51  Identities=31%  Similarity=0.882  Sum_probs=47.1

Q ss_pred             ccccCCCccCcccCCCCeee-cCCCC-CchhhhhcCCCCCCCccccCCeeecC
Q 018272          307 EVAEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVY  357 (358)
Q Consensus       307 ~~~~~~~C~IC~~~~~~~v~-pCgH~-~C~~C~~~~~~CP~CR~~i~~~~~~f  357 (358)
                      .+.+..+|+||++..+++++ ||||. ||..|+.++..||+||.++...+++|
T Consensus        21 ~~~~~~~C~IC~~~~~~~~~~pCgH~~~C~~C~~~~~~CP~Cr~~i~~~~~i~   73 (75)
T 2ecg_A           21 RLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMCYTVITFKQKIF   73 (75)
T ss_dssp             HHHHHHSCSSSCSSCCCBCCSSSCCCCBCHHHHHHCSBCTTTCCBCCCCCBCC
T ss_pred             cCCCCCCCCcCCCCCCCEEEecCCCHHHHHHHhhCCCCCccCCceecCcEEEe
Confidence            34556799999999999998 99999 99999999999999999999999987

>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=99.09  E-value=8.8e-12  Score=92.67  Aligned_cols=49  Identities=31%  Similarity=0.842  Sum_probs=43.8

Q ss_pred             ccCCCccCcccCCCCeee---cCCCC-CchhhhhcCC----CCCCCccccCCeeecC
Q 018272          309 AEAQRCCICCEDEKDTAF---ECGHM-SCIKCALRMP----QCPFCREEITTRRRVY  357 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~---pCgH~-~C~~C~~~~~----~CP~CR~~i~~~~~~f  357 (358)
                      +...+|+||+++++++++   ||||. +|..|+.++.    .||+||++|..++++|
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i~~~i~i~   61 (63)
T 2vje_B            5 NLLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQLVIKVF   61 (63)
T ss_dssp             GGGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBCCEEEEEE
T ss_pred             CcCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchhhceEEEe
Confidence            456799999999998653   99999 9999999885    8999999999999987

>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=99.03  E-value=2e-11  Score=90.99  Aligned_cols=49  Identities=31%  Similarity=0.789  Sum_probs=43.7

Q ss_pred             ccCCCccCcccCCCCeee---cCCCC-CchhhhhcCC----CCCCCccccCCeeecC
Q 018272          309 AEAQRCCICCEDEKDTAF---ECGHM-SCIKCALRMP----QCPFCREEITTRRRVY  357 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~---pCgH~-~C~~C~~~~~----~CP~CR~~i~~~~~~f  357 (358)
                      .+..+|+||+++++++++   ||||. +|..|+.++.    .||+||++|..++++|
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            356799999999999774   99999 8999999873    5999999999999987

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

Probab=98.92  E-value=4.6e-10  Score=87.08  Aligned_cols=53  Identities=30%  Similarity=0.661  Sum_probs=41.9

Q ss_pred             ccccccCCCccCcccCC--CCeee-c--CCCCCchhhhhcCC-----CCCCCccccCCeeecC
Q 018272          305 SAEVAEAQRCCICCEDE--KDTAF-E--CGHMSCIKCALRMP-----QCPFCREEITTRRRVY  357 (358)
Q Consensus       305 ~~~~~~~~~C~IC~~~~--~~~v~-p--CgH~~C~~C~~~~~-----~CP~CR~~i~~~~~~f  357 (358)
                      ...+.+...|+||++..  .++.+ |  |||.||..|+.+++     .||+||+++.....+|
T Consensus         5 ~~~~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~~~   67 (78)
T 1e4u_A            5 PDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAVY   67 (78)
T ss_dssp             SCCCCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSSCC
T ss_pred             ccccccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCchhh
Confidence            34567788999999977  34555 5  99999999998763     6999999998765444

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

Probab=98.92  E-value=5.6e-10  Score=84.12  Aligned_cols=46  Identities=26%  Similarity=0.652  Sum_probs=40.2

Q ss_pred             cccCCCccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018272          308 VAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITTR  353 (358)
Q Consensus       308 ~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~~  353 (358)
                      ..+...|+||++...+++. +|||.||..|+.++    ..||+||..+...
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   62 (71)
T 2d8t_A           12 SLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPED   62 (71)
T ss_dssp             SSSCCBCSSSSSBCSSEEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCHH
T ss_pred             CCCCCCCccCCcccCCCEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCHh
Confidence            4566899999999999877 99999999999987    5699999998753

>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=98.89  E-value=4.9e-10  Score=109.69  Aligned_cols=52  Identities=33%  Similarity=0.870  Sum_probs=48.6

Q ss_pred             cccccCCCccCcccCCCCeee-cCCCC-CchhhhhcCCCCCCCccccCCeeecC
Q 018272          306 AEVAEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVY  357 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~~~v~-pCgH~-~C~~C~~~~~~CP~CR~~i~~~~~~f  357 (358)
                      ..+.+...|+||++...++++ ||||. +|..|+.++..||+||.++..++++|
T Consensus       290 ~~l~~~~~C~IC~~~~~~~v~lpCgH~~fC~~C~~~~~~CP~CR~~i~~~~~i~  343 (345)
T 3t6p_A          290 RRLQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSLRKCPICRGIIKGTVRTF  343 (345)
T ss_dssp             HHHHTTCBCTTTSSSBCCEEEETTCCEEECTTTGGGCSBCTTTCCBCCEEEECC
T ss_pred             HhCcCCCCCCccCCcCCceEEcCCCChhHhHHHHhcCCcCCCCCCCccCeEEee
Confidence            455678999999999999998 99999 99999999999999999999999998

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

Probab=98.86  E-value=1.2e-09  Score=82.56  Aligned_cols=53  Identities=26%  Similarity=0.528  Sum_probs=43.8

Q ss_pred             CCCccccccCCCccCcccCCCCee-e-cCCCCCchhhhhcC----CCCCCCccccCCee
Q 018272          302 GPVSAEVAEAQRCCICCEDEKDTA-F-ECGHMSCIKCALRM----PQCPFCREEITTRR  354 (358)
Q Consensus       302 ~~~~~~~~~~~~C~IC~~~~~~~v-~-pCgH~~C~~C~~~~----~~CP~CR~~i~~~~  354 (358)
                      +.....+.+...|+||++...+++ + +|||.||..|+.++    ..||+||.++....
T Consensus         6 ~~~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   64 (72)
T 2djb_A            6 SGNLSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQ   64 (72)
T ss_dssp             CCCCCCCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSSC
T ss_pred             hhhHhhcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCccc
Confidence            344456677889999999999865 4 99999999999876    67999999998753

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

Probab=98.86  E-value=5.4e-10  Score=82.98  Aligned_cols=48  Identities=29%  Similarity=0.712  Sum_probs=39.9

Q ss_pred             ccccccCCCccCcccCCCCe-------ee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018272          305 SAEVAEAQRCCICCEDEKDT-------AF-ECGHMSCIKCALRM----PQCPFCREEITT  352 (358)
Q Consensus       305 ~~~~~~~~~C~IC~~~~~~~-------v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~  352 (358)
                      .....+...|+||++...+.       ++ +|||.||..|+.++    ..||+||.++..
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            34556778999999987664       55 99999999999877    579999999875

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

Probab=98.85  E-value=1.6e-09  Score=81.62  Aligned_cols=48  Identities=27%  Similarity=0.769  Sum_probs=41.5

Q ss_pred             ccccccCCCccCcccCCCCeee-cCCCCCchhhhhcCC-------CCCCCccccCC
Q 018272          305 SAEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRMP-------QCPFCREEITT  352 (358)
Q Consensus       305 ~~~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~~-------~CP~CR~~i~~  352 (358)
                      ...+.+...|+||++...+++. +|||.||..|+.++.       .||+||.++..
T Consensus        14 ~~~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   69 (73)
T 2ysl_A           14 VNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRK   69 (73)
T ss_dssp             CCCCCCCCBCTTTCSBCSSEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCC
T ss_pred             HHhCccCCEeccCCcccCCeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCc
Confidence            3456678899999999999887 999999999998763       69999999875

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

Probab=98.84  E-value=7.5e-10  Score=82.94  Aligned_cols=52  Identities=29%  Similarity=0.795  Sum_probs=43.3

Q ss_pred             cccccCCCccCcccCCCCeeecCCCCCchhhhhcC----CCCCCCccccCCeeecC
Q 018272          306 AEVAEAQRCCICCEDEKDTAFECGHMSCIKCALRM----PQCPFCREEITTRRRVY  357 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~~~v~pCgH~~C~~C~~~~----~~CP~CR~~i~~~~~~f  357 (358)
                      ....+...|+||++...++.++|||.||..|+.++    ..||+||.++.....+|
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~   65 (70)
T 2ecn_A           10 KQLTDEEECCICMDGRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANESS   65 (70)
T ss_dssp             CCCCCCCCCSSSCCSCCSEEETTTEEECHHHHHHSSCCCSSCHHHHHCTTCCCCCC
T ss_pred             hcCCCCCCCeeCCcCccCcccCCCCcccHHHHHHHHHCcCcCCCcCCcccCCCccc
Confidence            44566789999999999944499999999999987    56999999998765544

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

Probab=98.84  E-value=1.5e-09  Score=83.74  Aligned_cols=47  Identities=30%  Similarity=0.678  Sum_probs=40.7

Q ss_pred             cccccCCCccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018272          306 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITT  352 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~  352 (358)
                      .+..+...|+||++...++++ +|||.||..|+.++    ..||+||.++..
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            344567899999999999887 99999999999877    579999999874

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

Probab=98.83  E-value=3.6e-09  Score=81.41  Aligned_cols=50  Identities=30%  Similarity=0.580  Sum_probs=42.3

Q ss_pred             CCccccccCCCccCcccCCCCeee-cCCCCCchhhhhc----------CCCCCCCccccCC
Q 018272          303 PVSAEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALR----------MPQCPFCREEITT  352 (358)
Q Consensus       303 ~~~~~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~----------~~~CP~CR~~i~~  352 (358)
                      .....+.+...|+||++...+++. +|||.||..|+..          ...||+||.++..
T Consensus        11 ~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecw_A           11 SVLEMIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF   71 (85)
T ss_dssp             CCCCCCCTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT
T ss_pred             HHHHhCccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH
Confidence            344556778999999999999877 9999999999986          3579999999875

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

Probab=98.81  E-value=2e-09  Score=81.87  Aligned_cols=49  Identities=22%  Similarity=0.582  Sum_probs=41.4

Q ss_pred             CccccccCCCccCcccCCCCeee-c-CCCCCchhhhhcC------CCCCCCccccCC
Q 018272          304 VSAEVAEAQRCCICCEDEKDTAF-E-CGHMSCIKCALRM------PQCPFCREEITT  352 (358)
Q Consensus       304 ~~~~~~~~~~C~IC~~~~~~~v~-p-CgH~~C~~C~~~~------~~CP~CR~~i~~  352 (358)
                      ....+.+...|+||++...+++. + |||.||..|+.++      ..||+||+++..
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~   64 (74)
T 2yur_A            8 EDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS   64 (74)
T ss_dssp             CCCCSCGGGSCSSSCCCCTTCEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCC
T ss_pred             ccccCCCCCCCcCCChHHhCCeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCC
Confidence            34556778899999999999877 8 9999999999876      379999998654

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

Probab=98.79  E-value=2.3e-09  Score=83.35  Aligned_cols=50  Identities=28%  Similarity=0.701  Sum_probs=41.8

Q ss_pred             CCccccccCCCccCcccCCCC----eee-cCCCCCchhhhhcC-------CCCCCCccccCC
Q 018272          303 PVSAEVAEAQRCCICCEDEKD----TAF-ECGHMSCIKCALRM-------PQCPFCREEITT  352 (358)
Q Consensus       303 ~~~~~~~~~~~C~IC~~~~~~----~v~-pCgH~~C~~C~~~~-------~~CP~CR~~i~~  352 (358)
                      .....+.+...|+||++...+    +++ +|||.||..|+.++       ..||+||.++..
T Consensus         7 ~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A            7 GNLDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRI   68 (88)
T ss_dssp             CSCCCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCC
T ss_pred             cChhhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccc
Confidence            344566778899999999887    766 99999999999876       479999998764

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

Probab=98.79  E-value=6e-09  Score=80.13  Aligned_cols=49  Identities=31%  Similarity=0.640  Sum_probs=42.0

Q ss_pred             CccccccCCCccCcccCCCCeee-cCCCCCchhhhhcC----------CCCCCCccccCC
Q 018272          304 VSAEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----------PQCPFCREEITT  352 (358)
Q Consensus       304 ~~~~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~----------~~CP~CR~~i~~  352 (358)
                      ....+.+...|+||++...+++. +|||.||..|+..+          ..||+||..+..
T Consensus        12 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecv_A           12 ILVNVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP   71 (85)
T ss_dssp             CCCCCCCCCCCTTTCSCCSSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS
T ss_pred             HHHHccCCCCCCCCCcccCCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH
Confidence            34556778999999999999876 99999999999863          579999999885

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

Probab=98.78  E-value=3.3e-09  Score=80.97  Aligned_cols=48  Identities=31%  Similarity=0.634  Sum_probs=41.1

Q ss_pred             ccccccCCCccCcccCCCCeee-cCCCCCchhhhhcC-----------CCCCCCccccCC
Q 018272          305 SAEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----------PQCPFCREEITT  352 (358)
Q Consensus       305 ~~~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----------~~CP~CR~~i~~  352 (358)
                      ...+.+...|+||++...+++. +|||.||..|+.++           ..||+||.++..
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            3456778899999999999876 99999999999964           369999999875

>4ayc_A E3 ubiquitin-protein ligase RNF8; DNA damage, K63 chains; HET: CPQ; 1.90A {Homo sapiens} PDB: 4epo_C

Probab=98.76  E-value=1.4e-09  Score=92.51  Aligned_cols=45  Identities=29%  Similarity=0.739  Sum_probs=39.7

Q ss_pred             ccCCCccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018272          309 AEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITTR  353 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~~  353 (358)
                      .+...|+||++...+++. ||||.||..|+..+    ..||+||.++...
T Consensus        51 ~~~~~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           51 ENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK  100 (138)
T ss_dssp             HHHSBCTTTCSBCSSEEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCCE
T ss_pred             cccCCCcccCcccCCceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCCC
Confidence            456789999999999887 99999999999876    5699999999764

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

Probab=98.75  E-value=4.6e-09  Score=75.85  Aligned_cols=44  Identities=27%  Similarity=0.567  Sum_probs=38.9

Q ss_pred             ccCCCccCcccCCCCeee-cCCCCCchhhhhcC-CCCCCCccccCC
Q 018272          309 AEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-PQCPFCREEITT  352 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-~~CP~CR~~i~~  352 (358)
                      .+...|+||++...+++. +|||.||..|+... ..||+||+.+..
T Consensus         4 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~CP~Cr~~~~~   49 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEASGMQCPICQAPWPL   49 (56)
T ss_dssp             CCCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSSSSSCSSCCSSSSC
T ss_pred             ccCCCceEeCCccCCeEEcCCCCcccHHHHccCCCCCCcCCcEeec
Confidence            466899999999999877 99999999999876 579999999875

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

Probab=98.75  E-value=3.8e-09  Score=78.47  Aligned_cols=49  Identities=33%  Similarity=0.730  Sum_probs=41.0

Q ss_pred             ccCCCccCcccCCCCe-ee-cCCCCCchhhhhcC----CCCCCCccccCCeeecC
Q 018272          309 AEAQRCCICCEDEKDT-AF-ECGHMSCIKCALRM----PQCPFCREEITTRRRVY  357 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~-v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~~~~~f  357 (358)
                      ++...|+||++...+. +. +|||.||..|+.++    ..||+||.++...++.+
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~   57 (68)
T 1chc_A            3 TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTI   57 (68)
T ss_dssp             CCCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCCEECCC
T ss_pred             CCCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhCcCcCcCCChhhHhhhhcc
Confidence            3457999999999884 55 99999999999876    67999999998876543

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

Probab=98.73  E-value=3.3e-09  Score=78.63  Aligned_cols=48  Identities=29%  Similarity=0.639  Sum_probs=40.7

Q ss_pred             cccccCCCccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCCe
Q 018272          306 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITTR  353 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~~  353 (358)
                      ..+.+...|+||++..++++. +|||.||..|+.++     ..||+||.++...
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            344567899999999999877 99999999999865     4699999998763

>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=1.7e-09  Score=80.85  Aligned_cols=45  Identities=31%  Similarity=0.762  Sum_probs=38.0

Q ss_pred             cccCCCccCcccCCCCe-------ee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018272          308 VAEAQRCCICCEDEKDT-------AF-ECGHMSCIKCALRM----PQCPFCREEITT  352 (358)
Q Consensus       308 ~~~~~~C~IC~~~~~~~-------v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~  352 (358)
                      ..+...|+||++...+.       +. +|||.||..|+.++    ..||+||.++..
T Consensus         7 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   63 (71)
T 3ng2_A            7 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   63 (71)
T ss_dssp             CTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCC
T ss_pred             CCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCccCh
Confidence            35678999999987664       55 99999999999876    689999999885

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

Probab=98.71  E-value=6.5e-09  Score=79.37  Aligned_cols=50  Identities=26%  Similarity=0.582  Sum_probs=39.4

Q ss_pred             CccccccCCCccCcccCCCC---eee-cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018272          304 VSAEVAEAQRCCICCEDEKD---TAF-ECGHMSCIKCALRM----PQCPFCREEITTR  353 (358)
Q Consensus       304 ~~~~~~~~~~C~IC~~~~~~---~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~~  353 (358)
                      ......+...|+||++...+   +.. +|||.||..|+.++    ..||+||.++...
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (78)
T 2ect_A            8 TEEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQ   65 (78)
T ss_dssp             CCTTSSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCS
T ss_pred             CcccCCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCc
Confidence            33445667899999887653   233 99999999999876    5799999998764

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

Probab=98.71  E-value=3.7e-09  Score=83.27  Aligned_cols=47  Identities=23%  Similarity=0.610  Sum_probs=40.4

Q ss_pred             ccccccCCCccCcccCCCCeee-c-CCCCCchhhhhcC------CCCCCCccccC
Q 018272          305 SAEVAEAQRCCICCEDEKDTAF-E-CGHMSCIKCALRM------PQCPFCREEIT  351 (358)
Q Consensus       305 ~~~~~~~~~C~IC~~~~~~~v~-p-CgH~~C~~C~~~~------~~CP~CR~~i~  351 (358)
                      ...+.+...|+||++...+++. + |||.||..|+..+      ..||+||.++.
T Consensus         7 ~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A            7 DDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CCCCCTTTEETTTTEECSSCEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             cccCCcCCCCCCCChhhcCceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            3456778999999999999877 8 9999999999866      47999999973

>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=98.69  E-value=4.8e-09  Score=86.22  Aligned_cols=47  Identities=28%  Similarity=0.644  Sum_probs=40.3

Q ss_pred             cccccCCCccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018272          306 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITT  352 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~  352 (358)
                      ....+...|+||++...+++. +|||.||..|+.++     ..||+||..+..
T Consensus        10 ~~~~~~~~C~iC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           10 IPSLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             CCCHHHHBCTTTCSBCSSCEECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             cCCCCCCCCccCCcccCceeEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            445667899999999999876 99999999999987     369999998863

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1

Probab=98.65  E-value=1.4e-08  Score=72.25  Aligned_cols=44  Identities=25%  Similarity=0.724  Sum_probs=36.3

Q ss_pred             cccCCCccCcccCCCC---ee-ec-CCCCCchhhhhcC----CCCCCCccccC
Q 018272          308 VAEAQRCCICCEDEKD---TA-FE-CGHMSCIKCALRM----PQCPFCREEIT  351 (358)
Q Consensus       308 ~~~~~~C~IC~~~~~~---~v-~p-CgH~~C~~C~~~~----~~CP~CR~~i~  351 (358)
                      +++...|+||++...+   +. ++ |||.||..|+.++    ..||+||.++.
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            3567899999998766   44 46 9999999999987    57999999864

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2

Probab=98.65  E-value=8.5e-09  Score=78.71  Aligned_cols=46  Identities=26%  Similarity=0.333  Sum_probs=40.1

Q ss_pred             ccccCCCccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018272          307 EVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITT  352 (358)
Q Consensus       307 ~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~  352 (358)
                      .+.+...|+||++...+++. +|||.||+.|+.++     ..||+||.++..
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            34567899999999999887 99999999999865     469999999875

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens}

Probab=98.64  E-value=4.2e-09  Score=76.89  Aligned_cols=48  Identities=31%  Similarity=0.777  Sum_probs=38.9

Q ss_pred             cCCCccCcccCCCCe-------ee-cCCCCCchhhhhcC----CCCCCCccccCC--eeecC
Q 018272          310 EAQRCCICCEDEKDT-------AF-ECGHMSCIKCALRM----PQCPFCREEITT--RRRVY  357 (358)
Q Consensus       310 ~~~~C~IC~~~~~~~-------v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~--~~~~f  357 (358)
                      +...|+||++...+.       +. +|||.||..|+.++    ..||+||.++..  ..++|
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            457899999987653       44 99999999999876    579999999985  45554

>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=98.63  E-value=1.2e-08  Score=72.43  Aligned_cols=42  Identities=31%  Similarity=0.707  Sum_probs=35.8

Q ss_pred             cCCCccCcccCCCC----eee-cCCCCCchhhhhcC----CCCCCCccccC
Q 018272          310 EAQRCCICCEDEKD----TAF-ECGHMSCIKCALRM----PQCPFCREEIT  351 (358)
Q Consensus       310 ~~~~C~IC~~~~~~----~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~  351 (358)
                      +...|+||++...+    +++ +|||.||..|+.++    ..||+||.++.
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            45789999998755    555 99999999999987    68999999875

>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=98.63  E-value=1.9e-08  Score=74.98  Aligned_cols=50  Identities=26%  Similarity=0.565  Sum_probs=39.4

Q ss_pred             cccccCCCccCcccCCC---Ceee-cCCCCCchhhhhcC----CCCCCCccccCCeee
Q 018272          306 AEVAEAQRCCICCEDEK---DTAF-ECGHMSCIKCALRM----PQCPFCREEITTRRR  355 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~---~~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~~~~  355 (358)
                      .+..+...|+||++...   .++. +|||.||..|+.++    ..||+||..+...+.
T Consensus         9 ~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   66 (69)
T 2kiz_A            9 TEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQLP   66 (69)
T ss_dssp             CSTTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSCCC
T ss_pred             CcCCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCcCC
Confidence            34456689999988653   3444 99999999999976    679999999987653

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.63  E-value=1.8e-08  Score=72.29  Aligned_cols=43  Identities=33%  Similarity=0.771  Sum_probs=36.3

Q ss_pred             CccccccCCCccCcccCCCCeee-cCCCCCchhhhhcC-------CCCCCC
Q 018272          304 VSAEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-------PQCPFC  346 (358)
Q Consensus       304 ~~~~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-------~~CP~C  346 (358)
                      ....+.+...|+||++...+++. +|||.||..|+.++       ..||+|
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A            8 ALENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CSSCSCCCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             HhhccccCCCCccCCcccCccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            33456678899999999999877 99999999999876       469998

>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=98.62  E-value=5.8e-09  Score=86.90  Aligned_cols=47  Identities=30%  Similarity=0.569  Sum_probs=40.8

Q ss_pred             cccccCCCccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018272          306 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITT  352 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~  352 (358)
                      ..+.+...|+||++...+++. +|||.||..|+..+     ..||+||.++..
T Consensus        47 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           47 SKVEETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HHHHHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             HhCccCCCCCcCChHHcCcEEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            345667899999999999887 99999999999865     379999999976

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.61  E-value=1.3e-08  Score=76.91  Aligned_cols=51  Identities=25%  Similarity=0.571  Sum_probs=40.5

Q ss_pred             ccccccCCCccCcccCCCC---eee-cCCCCCchhhhhcC----CCCCCCccccCCeee
Q 018272          305 SAEVAEAQRCCICCEDEKD---TAF-ECGHMSCIKCALRM----PQCPFCREEITTRRR  355 (358)
Q Consensus       305 ~~~~~~~~~C~IC~~~~~~---~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~~~~  355 (358)
                      ..+..+...|+||++...+   +.. +|||.||..|+.++    ..||+||.++.....
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            3455667899999998654   223 99999999999876    579999999987544

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.57  E-value=1.1e-08  Score=75.65  Aligned_cols=43  Identities=26%  Similarity=0.655  Sum_probs=34.9

Q ss_pred             cCCCccCccc-CCCCe----ee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018272          310 EAQRCCICCE-DEKDT----AF-ECGHMSCIKCALRM-----PQCPFCREEITT  352 (358)
Q Consensus       310 ~~~~C~IC~~-~~~~~----v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~  352 (358)
                      ++..|+||++ ...++    ++ +|||.||..|+.++     ..||+||.++..
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            3578999999 44443    34 99999999999877     469999999976

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

Probab=98.56  E-value=3.5e-08  Score=72.23  Aligned_cols=42  Identities=31%  Similarity=0.815  Sum_probs=36.1

Q ss_pred             ccccccCCCccCcccCCCCeee-cCCCCCchhhhhcC-------CCCCCC
Q 018272          305 SAEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-------PQCPFC  346 (358)
Q Consensus       305 ~~~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-------~~CP~C  346 (358)
                      ...+.+...|+||++...+++. +|||.||..|+.++       ..||+|
T Consensus        14 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           14 VNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCCCCBCTTTCSBCSSCEECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             HHhCccCCCCCcCCchhCCeEEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            3456778899999999999887 99999999999876       369998

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens}

Probab=98.55  E-value=1.1e-08  Score=81.77  Aligned_cols=48  Identities=29%  Similarity=0.645  Sum_probs=40.7

Q ss_pred             ccccccCCCccCcccCCCCee-e-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018272          305 SAEVAEAQRCCICCEDEKDTA-F-ECGHMSCIKCALRM----PQCPFCREEITT  352 (358)
Q Consensus       305 ~~~~~~~~~C~IC~~~~~~~v-~-pCgH~~C~~C~~~~----~~CP~CR~~i~~  352 (358)
                      ...+.+...|+||++...+++ + +|||.||..|+.++    ..||+||.++..
T Consensus        16 ~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           16 MKTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             GHHHHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             HHhCCCCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            345567789999999999976 4 89999999999876    579999999875

>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=98.54  E-value=1.7e-08  Score=81.97  Aligned_cols=46  Identities=35%  Similarity=0.845  Sum_probs=39.5

Q ss_pred             ccccCCCccCcccCCCCeee-cCCCCCchhhhhcC-------CCCCCCccccCC
Q 018272          307 EVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-------PQCPFCREEITT  352 (358)
Q Consensus       307 ~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-------~~CP~CR~~i~~  352 (358)
                      .+.+...|+||++...+++. +|||.||..|+.++       ..||+||.++..
T Consensus        17 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (112)
T 1jm7_A           17 AMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (112)
T ss_dssp             HHHHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             hccCCCCCcccChhhcCeEECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCH
Confidence            34566899999999999877 99999999999876       269999999875

>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=98.54  E-value=1.3e-08  Score=82.01  Aligned_cols=47  Identities=36%  Similarity=0.902  Sum_probs=40.8

Q ss_pred             cccccCCCccCcccCCCCeee--cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018272          306 AEVAEAQRCCICCEDEKDTAF--ECGHMSCIKCALRM-----PQCPFCREEITT  352 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~~~v~--pCgH~~C~~C~~~~-----~~CP~CR~~i~~  352 (358)
                      ..+.+...|+||++...+++.  +|||.||..|+.++     ..||+||.++..
T Consensus        17 ~~l~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (100)
T 3lrq_A           17 ESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQL   70 (100)
T ss_dssp             HHHHHHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             ccCCCCCCCccCCccccCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCH
Confidence            456678999999999999765  99999999999976     479999999865

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens}

Probab=98.51  E-value=1.7e-08  Score=79.84  Aligned_cols=46  Identities=26%  Similarity=0.565  Sum_probs=37.4

Q ss_pred             cccCCCccCcccCCCC---eee-cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018272          308 VAEAQRCCICCEDEKD---TAF-ECGHMSCIKCALRM----PQCPFCREEITTR  353 (358)
Q Consensus       308 ~~~~~~C~IC~~~~~~---~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~~  353 (358)
                      ..+...|+||++....   +.. +|||.||..|+.++    ..||+||..+...
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            3456789999987655   444 99999999999976    5799999988753

>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=98.50  E-value=1.9e-08  Score=87.13  Aligned_cols=48  Identities=27%  Similarity=0.585  Sum_probs=41.3

Q ss_pred             cccccCCCccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCCe
Q 018272          306 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITTR  353 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~~  353 (358)
                      ..+.+...|+||++...+++. +|||.||..|+..+     ..||+||.++...
T Consensus        73 ~~l~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           73 KKLEQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHHHHHTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             HhCccCCEeecCChhhcCCEEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            345567899999999999887 99999999999876     3699999998864

>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=98.49  E-value=2.8e-08  Score=80.72  Aligned_cols=47  Identities=28%  Similarity=0.659  Sum_probs=41.1

Q ss_pred             cccccCCCccCcccCCCCee-e-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018272          306 AEVAEAQRCCICCEDEKDTA-F-ECGHMSCIKCALRM----PQCPFCREEITT  352 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~~~v-~-pCgH~~C~~C~~~~----~~CP~CR~~i~~  352 (358)
                      ..+.+...|+||++...+++ + +|||.||..|+..+    ..||+||..+..
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (108)
T 2ckl_A           10 TELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHK   62 (108)
T ss_dssp             HHHGGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCS
T ss_pred             hccCCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHhCCcCcCCCccccc
Confidence            45677899999999999976 4 99999999999877    579999999875

>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=98.48  E-value=5.2e-08  Score=80.42  Aligned_cols=48  Identities=21%  Similarity=0.569  Sum_probs=41.5

Q ss_pred             ccccccCCCccCcccCCCCee-e-cCCCCCchhhhhcC--CCCCCCccccCC
Q 018272          305 SAEVAEAQRCCICCEDEKDTA-F-ECGHMSCIKCALRM--PQCPFCREEITT  352 (358)
Q Consensus       305 ~~~~~~~~~C~IC~~~~~~~v-~-pCgH~~C~~C~~~~--~~CP~CR~~i~~  352 (358)
                      ...+.+...|+||++...+++ + +|||.||..|+..+  ..||+||.++..
T Consensus        16 ~~~l~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~~~   67 (117)
T 1jm7_B           16 LDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWI   67 (117)
T ss_dssp             HHHHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTTBCSSSCCBCSC
T ss_pred             HHhchhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhcCCCcCCCCcCcc
Confidence            345677899999999999976 4 89999999999988  569999999854

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.47  E-value=2.9e-08  Score=75.35  Aligned_cols=45  Identities=27%  Similarity=0.616  Sum_probs=36.6

Q ss_pred             cccCCCccCcccCCCCe---ee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018272          308 VAEAQRCCICCEDEKDT---AF-ECGHMSCIKCALRM----PQCPFCREEITT  352 (358)
Q Consensus       308 ~~~~~~C~IC~~~~~~~---v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~  352 (358)
                      ..+...|+||++...+.   .. +|||.||..|+.++    ..||+||+++..
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            34567999999876542   33 99999999999987    679999998865

>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=98.46  E-value=3.4e-08  Score=86.21  Aligned_cols=47  Identities=30%  Similarity=0.700  Sum_probs=39.1

Q ss_pred             cccccCCCccCcccCCCCee-e-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018272          306 AEVAEAQRCCICCEDEKDTA-F-ECGHMSCIKCALRM-----PQCPFCREEITT  352 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~~~v-~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~  352 (358)
                      ..+.+...|+||++...+++ + +|||.||..|+.++     ..||+||.++..
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            34456679999999999976 4 99999999999876     459999999854

>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=98.46  E-value=6.3e-08  Score=95.85  Aligned_cols=46  Identities=41%  Similarity=0.947  Sum_probs=40.4

Q ss_pred             CCCccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCCeeec
Q 018272          311 AQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITTRRRV  356 (358)
Q Consensus       311 ~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~~~~~  356 (358)
                      ...|+||++...++++ ||||.||..|+..+     ..||+||.++.....+
T Consensus       332 ~~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~~i  383 (389)
T 2y1n_A          332 FQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI  383 (389)
T ss_dssp             SSBCTTTSSSBCCEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEEEEC
T ss_pred             CCCCCccCcCCCCeEEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCceeE
Confidence            4699999999999987 99999999999854     6799999999986544

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus}

Probab=98.41  E-value=7.5e-08  Score=75.45  Aligned_cols=47  Identities=21%  Similarity=0.205  Sum_probs=41.3

Q ss_pred             ccccCCCccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018272          307 EVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITTR  353 (358)
Q Consensus       307 ~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~~  353 (358)
                      .+.+...|+||++..+++|. +|||.||+.|+.++    ..||+||+++...
T Consensus        10 ~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   61 (85)
T 2kr4_A           10 DAPDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTES   61 (85)
T ss_dssp             TCCTTTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             cCchheECcccCchhcCCeECCCCCEECHHHHHHHHhcCCCCCCCcCCCChH
Confidence            44567899999999999998 99999999999876    5799999998753

>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=98.41  E-value=6e-08  Score=80.16  Aligned_cols=48  Identities=23%  Similarity=0.578  Sum_probs=41.5

Q ss_pred             cccccCCCccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCCe
Q 018272          306 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITTR  353 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~~  353 (358)
                      ..+.+...|+||++...+++. +|||.||..|+.++     ..||+||.++...
T Consensus        13 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (118)
T 3hct_A           13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (118)
T ss_dssp             SCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             cCCCCCCCCCcCChhhcCeEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHH
Confidence            345677899999999999887 99999999999876     3899999998763

>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=98.41  E-value=5.3e-08  Score=80.04  Aligned_cols=47  Identities=32%  Similarity=0.611  Sum_probs=41.1

Q ss_pred             cccccCCCccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018272          306 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITT  352 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~  352 (358)
                      .++.+...|+||++...+++. +|||.||..|+.++     ..||+||.++..
T Consensus        18 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   70 (116)
T 1rmd_A           18 AHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (116)
T ss_dssp             HHHHHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             HhccCCCCCCCCCcHhcCcEEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCH
Confidence            456677899999999999887 99999999999865     479999999875

>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=98.39  E-value=1.2e-07  Score=76.31  Aligned_cols=48  Identities=17%  Similarity=0.048  Sum_probs=41.6

Q ss_pred             cccccCCCccCcccCCCCeee-cCC-CCCchhhhhcC----CCCCCCccccCCe
Q 018272          306 AEVAEAQRCCICCEDEKDTAF-ECG-HMSCIKCALRM----PQCPFCREEITTR  353 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~~~v~-pCg-H~~C~~C~~~~----~~CP~CR~~i~~~  353 (358)
                      ..+.+...|+||++..+++|. +|| |.||+.|+.++    ..||+||+++...
T Consensus        17 ~~~p~~~~CpI~~~~m~dPV~~~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~   70 (98)
T 1wgm_A           17 ADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMD   70 (98)
T ss_dssp             CSCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTT
T ss_pred             hcCcHhcCCcCccccccCCeECCCCCeEECHHHHHHHHHhCCCCCCCCCCCChh
Confidence            345667899999999999998 999 99999999876    4699999998753

>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=98.39  E-value=4.3e-06  Score=78.29  Aligned_cols=151  Identities=13%  Similarity=0.172  Sum_probs=102.3

Q ss_pred             ceeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChH-HHHHHHHhhcccccCC---C-ceeEEeecCCCCCCCCcc
Q 018272           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPY-QEVIYITGKELVLFDG---D-CIRCYGFGDDTTRDEGVF  121 (358)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Y-q~aI~~ig~vl~~yD~---d-~ip~~GFGa~~~~~~~~f  121 (358)
                      ..+++++.||-|.|=+        .            ..+ +.+...+..++..+..   + .+-++.|+....   .+|
T Consensus        20 ~~~div~vlD~SgSM~--------~------------~~~~~~~k~~~~~~v~~l~~~~~~~rvglv~Fs~~~~---~~~   76 (281)
T 4hqf_A           20 DEVDLYLLMDGSGSIR--------R------------HNWVNHAVPLAMKLIQQLNLNDNAIHLYASVFSNNAR---EII   76 (281)
T ss_dssp             SCEEEEEEEECCCCSS--------T------------HHHHHHHHHHHHHHHTTCCCCTTSEEEEEEEEETTEE---EEE
T ss_pred             CceeEEEEEeCCCCcC--------H------------HHHHHHHHHHHHHHHHHhccCCCCcEEEEEEcCCCce---EEE
Confidence            4689999999987732        1            122 4455555555555553   6 999999998642   234


Q ss_pred             ccCCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcC---CceEEEEEEeCCccCCcchhHHHHHHHH
Q 018272          122 SFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG---GLHHVLVIITSGQVATGSQQEQETIRSI  198 (358)
Q Consensus       122 ~~~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~---~~Y~VLlIiTDG~i~d~~~~~~~t~~aI  198 (358)
                      +++...  -...+.++++-.+.-......|-|+....|+.|.+.....+   ..-.++|+||||..+|    ..++.+++
T Consensus        77 ~l~~~~--~~~~~~l~~~i~~l~~~~~~~G~T~~~~aL~~a~~~l~~~~~r~~~~~~iillTDG~~~d----~~~~~~~~  150 (281)
T 4hqf_A           77 RLHSDA--SKNKEKALIIIKSLLSTNLPYGKTSLTDALLQVRKHLNDRINRENANQLVVILTDGIPDS----IQDSLKES  150 (281)
T ss_dssp             EECSSC--SSCHHHHHHHHHHHHHTTGGGCSCCHHHHHHHHHHHHHTSCCCTTCEEEEEEEESSCCSC----HHHHHHHH
T ss_pred             EccccC--ccCHHHHHHHHHHHhhccCCCCCccHHHHHHHHHHHHHhccCCCCCCEEEEEEecCCCCC----cHHHHHHH
Confidence            554221  12345555444443223346899999999999977766432   2467889999999988    56777777


Q ss_pred             HHhcCCCeEEEEEeeCCC-CchhhhhccC
Q 018272          199 VDASSYPLSIVLVGVGDG-PWESIQKFHD  226 (358)
Q Consensus       199 v~AS~lPlSIiiVGVG~~-~f~~m~~LD~  226 (358)
                      ..+...-+-|..||||++ +-+.|+.+-+
T Consensus       151 ~~l~~~gv~i~~igiG~~~~~~~L~~iA~  179 (281)
T 4hqf_A          151 RKLSDRGVKIAVFGIGQGINVAFNRFLVG  179 (281)
T ss_dssp             HHHHHTTCEEEEEEESSSCCHHHHHHHTT
T ss_pred             HHHHHCCCEEEEEeCCCccCHHHHHhhhC
Confidence            777778899999999985 6666777754

>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=98.38  E-value=8.6e-08  Score=77.55  Aligned_cols=46  Identities=22%  Similarity=0.231  Sum_probs=40.8

Q ss_pred             ccccCCCccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018272          307 EVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITT  352 (358)
Q Consensus       307 ~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~  352 (358)
                      .+.+...|+||++..+++|. +|||.||+.|+.++    ..||+||.++..
T Consensus        25 ~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~   75 (100)
T 2kre_A           25 DAPDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLNSPTDPFNRQTLTE   75 (100)
T ss_dssp             SCSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTTSCSBCSSSCCBCCT
T ss_pred             cCcHhhCCcCccCcccCCeECCCCCEEchHHHHHHHHcCCCCCCCCCCCCh
Confidence            44567899999999999998 99999999999876    469999999875

>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=98.30  E-value=5.6e-08  Score=83.33  Aligned_cols=45  Identities=22%  Similarity=0.528  Sum_probs=39.5

Q ss_pred             cccccCCCccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCcccc
Q 018272          306 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEI  350 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i  350 (358)
                      ..+.+...|+||++...+++. +|||.||..|+.++     ..||+||.++
T Consensus        26 ~~l~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~   76 (141)
T 3knv_A           26 TKLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEG   76 (141)
T ss_dssp             GGCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTT
T ss_pred             ccCCcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHhcCCCCCCCCCCcc
Confidence            345677899999999999887 99999999999987     3799999975

>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=98.30  E-value=2.5e-07  Score=86.07  Aligned_cols=43  Identities=16%  Similarity=0.023  Sum_probs=38.3

Q ss_pred             cCCCccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018272          310 EAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITT  352 (358)
Q Consensus       310 ~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~  352 (358)
                      +...|+||++..+++|. +|||.||+.|+.++     ..||+||.++..
T Consensus       207 ~~~~c~i~~~~~~dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          207 DYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             STTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             cccCCcCcCCHhcCCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            46799999999999998 99999999999876     349999999875

>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=98.25  E-value=1.6e-07  Score=76.69  Aligned_cols=43  Identities=30%  Similarity=0.685  Sum_probs=34.1

Q ss_pred             CCCccCcccCCCCe------------------ee-cCCCCCchhhhhcC---------CCCCCCccccCCe
Q 018272          311 AQRCCICCEDEKDT------------------AF-ECGHMSCIKCALRM---------PQCPFCREEITTR  353 (358)
Q Consensus       311 ~~~C~IC~~~~~~~------------------v~-pCgH~~C~~C~~~~---------~~CP~CR~~i~~~  353 (358)
                      ...|+||++...+.                  .+ +|||.||..|+..+         ..||+||..+...
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~   95 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK   95 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSC
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCC
Confidence            35899999986442                  14 99999999999865         3699999988653

>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=98.22  E-value=4.4e-06  Score=77.86  Aligned_cols=151  Identities=12%  Similarity=0.153  Sum_probs=102.5

Q ss_pred             ceeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChH-HHHHHHHhhcccccC---CC-ceeEEeecCCCCCCCCcc
Q 018272           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPY-QEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVF  121 (358)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Y-q~aI~~ig~vl~~yD---~d-~ip~~GFGa~~~~~~~~f  121 (358)
                      ..+++++.||-|.|=+                    ...+ +++...+..++..++   ++ .+-++.|+....   .+|
T Consensus        17 ~~~DivfvlD~SgSM~--------------------~~~~~~~~k~~~~~lv~~l~~~~~~~rvglv~Fs~~~~---~~~   73 (266)
T 4hqo_A           17 EQVDLYLLVDGSGSIG--------------------YPNWITKVIPMLNGLINSLSLSRDTINLYMNLFGSYTT---ELI   73 (266)
T ss_dssp             CCEEEEEEEECSTTTC--------------------HHHHHHTHHHHHHHHHHTCCBCTTSEEEEEEEESSSEE---EEE
T ss_pred             CceeEEEEEECCCCcC--------------------hhHHHHHHHHHHHHHHHHcccCCCCcEEEEEEecCCcc---eEE
Confidence            3589999999987742                    0123 245666666677776   55 999999998632   234


Q ss_pred             ccCCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhc---CCceEEEEEEeCCccCCcchhHHHHHHHH
Q 018272          122 SFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES---GGLHHVLVIITSGQVATGSQQEQETIRSI  198 (358)
Q Consensus       122 ~~~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~---~~~Y~VLlIiTDG~i~d~~~~~~~t~~aI  198 (358)
                      +|+...  -...+.++++-.+.-......|-|+...-|+.|.+..+..   ...-.++++||||..+|    ..++.+++
T Consensus        74 ~l~~~~--~~~~~~~~~~i~~l~~~~~~~G~T~~~~AL~~a~~~l~~~~~r~~~~~~iIllTDG~~~d----~~~~~~~a  147 (266)
T 4hqo_A           74 RLGSGQ--SIDKRQALSKVTELRKTYTPYGTTSMTAALDEVQKHLNDRVNREKAIQLVILMTDGVPNS----KYRALEVA  147 (266)
T ss_dssp             CTTSHH--HHCHHHHHHHHHHHHHHCCCCSCCCHHHHHHHHHHHHHTTCSCTTSEEEEEEEECSCCSC----HHHHHHHH
T ss_pred             ecCCCC--ccCHHHHHHHHHHhhhccCCCCCCCHHHHHHHHHHHHhhccccCCCCeEEEEEccCCCCC----chHHHHHH
Confidence            554210  0124455554444322224679999999999998776653   23467889999999988    67788888


Q ss_pred             HHhcCCCeEEEEEeeCCCC-chhhhhccC
Q 018272          199 VDASSYPLSIVLVGVGDGP-WESIQKFHD  226 (358)
Q Consensus       199 v~AS~lPlSIiiVGVG~~~-f~~m~~LD~  226 (358)
                      ..+.+..+.|..||||++. -..|+.+-+
T Consensus       148 ~~l~~~gi~i~~iGiG~~~~~~~L~~iA~  176 (266)
T 4hqo_A          148 NKLKQRNVRLAVIGIGQGINHQFNRLIAG  176 (266)
T ss_dssp             HHHHHTTCEEEEEECSSSCCHHHHHHHHT
T ss_pred             HHHHHCCCEEEEEecCcccCHHHHHHhhC
Confidence            8888888999999999864 444466654

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.21  E-value=1.8e-07  Score=77.52  Aligned_cols=44  Identities=32%  Similarity=0.793  Sum_probs=37.7

Q ss_pred             ccCCCccCcccCCCCe-------ee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018272          309 AEAQRCCICCEDEKDT-------AF-ECGHMSCIKCALRM----PQCPFCREEITT  352 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~-------v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~  352 (358)
                      .+...|+||++...++       +. +|||.||..|+.++    ..||+||+.+..
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            4568999999987765       55 99999999999876    579999999885

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.18  E-value=8.1e-07  Score=68.70  Aligned_cols=43  Identities=28%  Similarity=0.678  Sum_probs=34.5

Q ss_pred             cCCCccCcccCCCC--------------e-ee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018272          310 EAQRCCICCEDEKD--------------T-AF-ECGHMSCIKCALRM----PQCPFCREEITT  352 (358)
Q Consensus       310 ~~~~C~IC~~~~~~--------------~-v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~  352 (358)
                      +...|.||++...+              + ++ +|||.|+..|+.++    ..||+||+++..
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            45689999987754              3 34 59999999999976    579999998764

>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=98.12  E-value=6.4e-07  Score=78.33  Aligned_cols=46  Identities=24%  Similarity=0.598  Sum_probs=41.0

Q ss_pred             ccccCCCccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018272          307 EVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITT  352 (358)
Q Consensus       307 ~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~  352 (358)
                      .+.+...|+||++...+++. +|||.||..|+.++     ..||+||.++..
T Consensus        14 ~~~~~~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (170)
T 3hcs_A           14 PLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (170)
T ss_dssp             CCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             CCCCCCCCCCCChhhcCcEECCCCCHHHHHHHHHHHHhCCCCCCCCccCcch
Confidence            45677899999999999887 99999999999876     389999999876

>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=98.11  E-value=7.8e-07  Score=70.78  Aligned_cols=42  Identities=29%  Similarity=0.513  Sum_probs=36.4

Q ss_pred             cccCCCccCcccCCCCeee-c-CCCCCchhhhhcC----------CCCCC--Cccc
Q 018272          308 VAEAQRCCICCEDEKDTAF-E-CGHMSCIKCALRM----------PQCPF--CREE  349 (358)
Q Consensus       308 ~~~~~~C~IC~~~~~~~v~-p-CgH~~C~~C~~~~----------~~CP~--CR~~  349 (358)
                      ..+...|+||++...++|. + |||.||+.|+.++          ..||+  |+..
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            4567899999999999887 6 9999999999876          27999  9865

>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=98.11  E-value=1.4e-05  Score=71.18  Aligned_cols=141  Identities=13%  Similarity=0.182  Sum_probs=97.9

Q ss_pred             ceeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCCceeEEeecCCCCCCCCccccCCC
Q 018272           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQEN  126 (358)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d~ip~~GFGa~~~~~~~~f~~~~~  126 (358)
                      ..+++++.||-|.|=..  +             ...++..+.|-..+..++..+..+.+-++.|+....   .+++++. 
T Consensus        10 ~~~~iv~vlD~SgSM~~--~-------------d~~~~r~~~ak~~~~~~~~~~~~~~v~lv~F~~~~~---~~~~~~~-   70 (218)
T 3ibs_A           10 KGVEVIIALDISNSMLA--Q-------------DVQPSRLEKAKRLISRLVDELDNDKVGMIVFAGDAF---TQLPITS-   70 (218)
T ss_dssp             CCCEEEEEEECSGGGGC--C-------------SSSSCHHHHHHHHHHHHHHTCSSCEEEEEEESSSEE---EEEEEES-
T ss_pred             CCCcEEEEEECCcCccc--c-------------cCCcCHHHHHHHHHHHHHHhCCCCeEEEEEECCCce---EeCCCCC-
Confidence            45789999999988431  1             112577888888888888888755999999998632   2244432 


Q ss_pred             CCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcCCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCe
Q 018272          127 DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPL  206 (358)
Q Consensus       127 ~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPl  206 (358)
                           +.+.+.+.-...-+.....|.|++..-|+.|.+........-.++++||||..++    - ...+++..+.+..+
T Consensus        71 -----~~~~~~~~l~~l~~~~~~~g~T~l~~al~~a~~~l~~~~~~~~~ivllTDG~~~~----~-~~~~~~~~~~~~~i  140 (218)
T 3ibs_A           71 -----DYISAKMFLESISPSLISKQGTAIGEAINLATRSFTPQEGVGRAIIVITDGENHE----G-GAVEAAKAAAEKGI  140 (218)
T ss_dssp             -----CHHHHHHHHHTCCGGGCCSCSCCHHHHHHHHHTTSCSCSSCCEEEEEEECCTTCC----S-CHHHHHHHHHTTTE
T ss_pred             -----CHHHHHHHHHhcCcccCCCCCCcHHHHHHHHHHHHhhCCCCCcEEEEEcCCCCCC----C-cHHHHHHHHHhcCC
Confidence                 3445444444433444557999999999998877655433456888999998876    1 34555666667889


Q ss_pred             EEEEEeeCCC
Q 018272          207 SIVLVGVGDG  216 (358)
Q Consensus       207 SIiiVGVG~~  216 (358)
                      .|..||||..
T Consensus       141 ~v~~igig~~  150 (218)
T 3ibs_A          141 QVSVLGVGMP  150 (218)
T ss_dssp             EEEEEEESCT
T ss_pred             EEEEEEecCC
Confidence            9999999974

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=98.06  E-value=1e-06  Score=78.62  Aligned_cols=45  Identities=16%  Similarity=0.011  Sum_probs=39.2

Q ss_pred             ccCCCccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCCe
Q 018272          309 AEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITTR  353 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~~  353 (358)
                      .+...|+||++...++|. +|||.||+.|+.++     ..||+||.++...
T Consensus       104 p~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~  154 (179)
T 2f42_A          104 PDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQD  154 (179)
T ss_dssp             CGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             cHhhcccCccccCCCCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChh
Confidence            356799999999999998 99999999999876     2599999998753

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.06  E-value=5.7e-07  Score=74.47  Aligned_cols=49  Identities=31%  Similarity=0.802  Sum_probs=39.5

Q ss_pred             ccCCCccCcccCCCCe-------ee-cCCCCCchhhhhcC----CCCCCCccccCCe--eecC
Q 018272          309 AEAQRCCICCEDEKDT-------AF-ECGHMSCIKCALRM----PQCPFCREEITTR--RRVY  357 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~-------v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~~--~~~f  357 (358)
                      .+...|+||++...+.       +. +|||.||..|+.++    ..||+||.++...  +++|
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            4567899999976653       54 99999999999876    6899999999863  4444

>3n2n_F Anthrax toxin receptor 1; rossmann fold; 1.80A {Homo sapiens} SCOP: c.62.1.1

Probab=98.02  E-value=4.8e-05  Score=65.67  Aligned_cols=148  Identities=17%  Similarity=0.119  Sum_probs=93.3

Q ss_pred             ceeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCC
Q 018272           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQE  125 (358)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~  125 (358)
                      ..+++++.||-|.|=+        .   .+       ....++++.+..-+  ..++ .+-++.|+....   .+++++.
T Consensus         6 ~~~div~vlD~SgSM~--------~---~~-------~~~~~~~~~~~~~~--~~~~~~v~lv~f~~~~~---~~~~l~~   62 (185)
T 3n2n_F            6 GGFDLYFILDKSGSVL--------H---HW-------NEIYYFVEQLAHKF--ISPQLRMSFIVFSTRGT---TLMKLTE   62 (185)
T ss_dssp             SEEEEEEEEECSGGGG--------G---GH-------HHHHHHHHHHHHHC--CCTTEEEEEEEESSSEE---EEEEEEC
T ss_pred             CCeeEEEEEeCCCChh--------h---hH-------HHHHHHHHHHHHHh--CCCCcEEEEEEEecCce---EEeccCC
Confidence            3578999999887632        1   01       11223333333333  2346 999999988642   2344442


Q ss_pred             CCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHh--c--CCceEEEEEEeCCccCCcchhHHHHHHHHHHh
Q 018272          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEE--S--GGLHHVLVIITSGQVATGSQQEQETIRSIVDA  201 (358)
Q Consensus       126 ~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~--~--~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~A  201 (358)
                            ..+.+.++-.+.- .+...|.|+...-|+.+.+....  .  ...-.++++||||..++. . ...+.+++..+
T Consensus        63 ------~~~~~~~~i~~l~-~~~~~g~T~~~~al~~a~~~l~~~~~~~~~~~~~iillTDG~~~~~-~-~~~~~~~~~~~  133 (185)
T 3n2n_F           63 ------DREQIRQGLEELQ-KVLPGGDTYMHEGFERASEQIYYENRQGYRTASVIIALTDGELHED-L-FFYSEREANRS  133 (185)
T ss_dssp             ------CHHHHHHHHHHHH-TCCCCSCCCHHHHHHHHHHHHHHHHTTCBCEEEEEEEEECCCCCHH-H-HHHHHHHHHHH
T ss_pred             ------CHHHHHHHHHHHh-hhcCCCCccHHHHHHHHHHHHhhccccCCCCCcEEEEEcCCCCCCC-c-ccchHHHHHHH
Confidence                  4444444333322 22457999999999999886521  1  124578899999998761 1 11345666667


Q ss_pred             cCCCeEEEEEeeCCCCchhhhhccC
Q 018272          202 SSYPLSIVLVGVGDGPWESIQKFHD  226 (358)
Q Consensus       202 S~lPlSIiiVGVG~~~f~~m~~LD~  226 (358)
                      .+..+.|..||||+.+...|+.+=+
T Consensus       134 ~~~gi~i~~igvg~~~~~~L~~iA~  158 (185)
T 3n2n_F          134 RDLGAIVYAVGVKDFNETQLARIAD  158 (185)
T ss_dssp             HHTTEEEEEEECSSCCHHHHTTTSS
T ss_pred             HHCCCEEEEEEeccCCHHHHHHHhC
Confidence            7788999999999888887777754

>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=97.97  E-value=9e-05  Score=64.69  Aligned_cols=143  Identities=14%  Similarity=0.139  Sum_probs=94.2

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccC---CC-ceeEEeecCCCCCCCCcccc
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSF  123 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD---~d-~ip~~GFGa~~~~~~~~f~~  123 (358)
                      .+++++.||-|.|=+                    .+.++++...+..++..++   .+ .+-++.|+....   ..|++
T Consensus         5 ~~div~vlD~SgSm~--------------------~~~~~~~k~~~~~~~~~l~~~~~~~rv~lv~f~~~~~---~~~~l   61 (189)
T 1atz_A            5 PLDVILLLDGSSSFP--------------------ASYFDEMKSFAKAFISKANIGPRLTQVSVLQYGSITT---IDVPW   61 (189)
T ss_dssp             CEEEEEEEECSSSSC--------------------HHHHHHHHHHHHHHHHHSCBSTTSEEEEEEEESSSEE---EEECT
T ss_pred             ceeEEEEEeCCCCCC--------------------hhhHHHHHHHHHHHHHhcCcCCCCeEEEEEEECCcce---EEEec
Confidence            578999999987732                    1345556666666666664   34 899999987632   23455


Q ss_pred             CCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhc-----CCceEEEEEEeCCccCCcchhHHHHHHHH
Q 018272          124 QENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES-----GGLHHVLVIITSGQVATGSQQEQETIRSI  198 (358)
Q Consensus       124 ~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~-----~~~Y~VLlIiTDG~i~d~~~~~~~t~~aI  198 (358)
                      +.    ....+.+.++..+. +.  ..|.|+...-|+.|.+.....     ...-.+++|||||..+|   +..+..+.+
T Consensus        62 ~~----~~~~~~~~~~i~~l-~~--~~g~T~~~~aL~~a~~~l~~~~~g~r~~~~~~vivltdg~~~~---~~~~~~~~~  131 (189)
T 1atz_A           62 NV----VPEKAHLLSLVDVM-QR--EGGPSQIGDALGFAVRYLTSEMHGARPGASKAVVILVTDVSVD---SVDAAADAA  131 (189)
T ss_dssp             TC----CCCHHHHHHHHHTC-CC--CCCCCCHHHHHHHHHHHHHSCCTTCCTTSEEEEEEEECSCCSS---CCHHHHHHH
T ss_pred             CC----CCCHHHHHHHHHhC-cC--CCCcchHHHHHHHHHHHHhccccCCCCCCCcEEEEEeCCCCCc---hHHHHHHHH
Confidence            32    12556666555443 22  368899999999999876542     12356778889997776   244444444


Q ss_pred             HHhcCCCeEEEEEeeCC-CCchhhhhccC
Q 018272          199 VDASSYPLSIVLVGVGD-GPWESIQKFHD  226 (358)
Q Consensus       199 v~AS~lPlSIiiVGVG~-~~f~~m~~LD~  226 (358)
                         .+..+.|..||||+ .+-..|+.+=+
T Consensus       132 ---~~~gi~v~~igvG~~~~~~~L~~iA~  157 (189)
T 1atz_A          132 ---RSNRVTVFPIGIGDRYDAAQLRILAG  157 (189)
T ss_dssp             ---HHTTEEEEEEEESSSSCHHHHHHHTG
T ss_pred             ---HHCCCEEEEEEcCCcCCHHHHHHHHC
Confidence               45688999999998 46666766644

>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=97.91  E-value=2.5e-05  Score=67.28  Aligned_cols=148  Identities=16%  Similarity=0.161  Sum_probs=94.5

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCCC
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQEN  126 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~~  126 (358)
                      .+++++.||-|.|=+        +   ...      ...+.+...+..++.   ++ .+-++.|+....   .++++.  
T Consensus         6 ~~dvv~vlD~SgSM~--------~---~~~------~~~~~~~~~~~~~~~---~~~~v~lv~f~~~~~---~~~~~~--   60 (182)
T 1shu_X            6 AFDLYFVLDKSGSVA--------N---NWI------EIYNFVQQLAERFVS---PEMRLSFIVFSSQAT---IILPLT--   60 (182)
T ss_dssp             CEEEEEEEECSGGGG--------G---GHH------HHHHHHHHHHHHCCC---TTEEEEEEEESSSEE---EEEEEE--
T ss_pred             ceeEEEEEECCCCcc--------c---CHH------HHHHHHHHHHHHhcC---CCceEEEEEeCCCce---EEECCC--
Confidence            578999999987742        0   111      122233333333433   45 999999988632   123443  


Q ss_pred             CCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhc--CCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCC
Q 018272          127 DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES--GGLHHVLVIITSGQVATGSQQEQETIRSIVDASSY  204 (358)
Q Consensus       127 ~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~--~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~l  204 (358)
                          .+.+.+.++-.. +..+...|.|++...|+.+.+...+.  ...-.++++||||.-++.  ......+++..+.+.
T Consensus        61 ----~~~~~~~~~l~~-l~~~~~~g~T~~~~al~~a~~~l~~~~~~~~~~~iiliTDG~~~~~--~~~~~~~~~~~~~~~  133 (182)
T 1shu_X           61 ----GDRGKISKGLED-LKRVSPVGETYIHEGLKLANEQIQKAGGLKTSSIIIALTDGKLDGL--VPSYAEKEAKISRSL  133 (182)
T ss_dssp             ----CCHHHHHHHHHH-HHTCCCCSCCCHHHHHHHHHHHHHHHTGGGSCEEEEEEECCCCCTT--HHHHHHHHHHHHHHT
T ss_pred             ----CCHHHHHHHHHh-cccCCCCCCchHHHHHHHHHHHHHhccCCCCCeEEEEECCCCcCCC--CchhHHHHHHHHHhC
Confidence                133333332222 22344679999999999999887654  234578899999998761  123345566666778


Q ss_pred             CeEEEEEeeCCCCchhhhhccCC
Q 018272          205 PLSIVLVGVGDGPWESIQKFHDK  227 (358)
Q Consensus       205 PlSIiiVGVG~~~f~~m~~LD~~  227 (358)
                      .+.|..||||+.+...|+.+-+.
T Consensus       134 ~i~i~~igvg~~~~~~L~~ia~~  156 (182)
T 1shu_X          134 GASVYCVGVLDFEQAQLERIADS  156 (182)
T ss_dssp             TCEEEEEECSSCCHHHHHHHSSS
T ss_pred             CCEEEEEeCCcCCHHHHHHHhCC
Confidence            89999999999888888888653

>2xgg_A Microneme protein 2; A/I domain, cell adhesion, hydrolase; 2.05A {Toxoplasma gondii}

Probab=97.88  E-value=0.00011  Score=63.88  Aligned_cols=137  Identities=14%  Similarity=0.157  Sum_probs=89.6

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccC---CC-ceeEEeecCCCCCCCCcccc
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSF  123 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD---~d-~ip~~GFGa~~~~~~~~f~~  123 (358)
                      .+++++.||-|.|=+                    ...++++...+..++..++   +. .+-++.|+....   ..|+|
T Consensus        17 ~~divfvlD~SgSm~--------------------~~~~~~~k~~~~~~i~~l~~~~~~~rv~vv~F~~~~~---~~~~l   73 (178)
T 2xgg_A           17 QLDICFLIDSSGSIG--------------------IQNFRLVKQFLHTFLMVLPIGPEEVNNAVVTYSTDVH---LQWDL   73 (178)
T ss_dssp             CEEEEEEEECCTTTC--------------------HHHHHHHHHHHHHHHHHSCBSTTSEEEEEEEESSSEE---EEECT
T ss_pred             CeeEEEEEECCCCCC--------------------HHHHHHHHHHHHHHHHhcCCCCCCeEEEEEEeCCceE---EEEeC
Confidence            589999999987742                    1235566666666777765   34 999999998642   23455


Q ss_pred             CCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhc-----CCceEEEEEEeCCccCCcchhHHHHHHHH
Q 018272          124 QENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES-----GGLHHVLVIITSGQVATGSQQEQETIRSI  198 (358)
Q Consensus       124 ~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~-----~~~Y~VLlIiTDG~i~d~~~~~~~t~~aI  198 (358)
                      +...  ....+.+.++-.+. +.  ..|.|+...-|+.|.+.....     ...-.++++||||..++    -....+++
T Consensus        74 ~~~~--~~~~~~~~~~i~~l-~~--~~g~T~~~~aL~~a~~~l~~~~~g~r~~~~~~iillTDG~~~~----~~~~~~~~  144 (178)
T 2xgg_A           74 QSPN--AVDKQLAAHAVLDM-PY--KKGSTNTSDGLKACKQILFTGSRPGREHVPKLVIGMTDGESDS----DFRTVRAA  144 (178)
T ss_dssp             TSGG--GSCHHHHHHHHHHC-CC--CCCCCCHHHHHHHHHHHHHHCCCTTCTTSCEEEEEEESSCCCH----HHHHSHHH
T ss_pred             CCCC--ccCHHHHHHHHHhC-CC--CCCCccHHHHHHHHHHHhcCcccCCCCCCCEEEEEEcCCCCCC----CccHHHHH
Confidence            4211  11455555544433 21  468999999999998874321     12357889999999887    33455555


Q ss_pred             HHhcCCCeEEEEEeeCCC
Q 018272          199 VDASSYPLSIVLVGVGDG  216 (358)
Q Consensus       199 v~AS~lPlSIiiVGVG~~  216 (358)
                      ..+.+..+-|..||||+.
T Consensus       145 ~~l~~~gi~v~~igvG~~  162 (178)
T 2xgg_A          145 KEIRELGGIVTVLAVGHY  162 (178)
T ss_dssp             HHHHHTTCEEEEEECC--
T ss_pred             HHHHHCCCEEEEEEcCCc
Confidence            555566899999999975

>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=97.83  E-value=7.5e-06  Score=76.91  Aligned_cols=46  Identities=17%  Similarity=0.386  Sum_probs=39.5

Q ss_pred             ccccCCCccCcccCCCCeee--cCCCCCchhhhhcC------CCCCC--CccccCC
Q 018272          307 EVAEAQRCCICCEDEKDTAF--ECGHMSCIKCALRM------PQCPF--CREEITT  352 (358)
Q Consensus       307 ~~~~~~~C~IC~~~~~~~v~--pCgH~~C~~C~~~~------~~CP~--CR~~i~~  352 (358)
                      .......|+||++..+++|.  .|||.||+.|+..+      ..||+  ||+.+..
T Consensus       177 ~~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~  232 (267)
T 3htk_C          177 GGKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSM  232 (267)
T ss_dssp             SSBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECG
T ss_pred             CCceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCch
Confidence            34677899999999999885  99999999999976      25999  9998765

>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=97.83  E-value=4.1e-05  Score=68.05  Aligned_cols=157  Identities=11%  Similarity=0.072  Sum_probs=98.1

Q ss_pred             ceeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCC
Q 018272           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQE  125 (358)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~  125 (358)
                      ..+++++.||-|.|=+.  .         .      .....+++..+..-+..++.+ .+-++.|+....   ..++++ 
T Consensus        14 ~~~div~vlD~SgSM~~--~---------~------~~~~k~~~~~~i~~l~~~~~~~~v~lv~f~~~~~---~~~~~~-   72 (223)
T 1q0p_A           14 GSMNIYLVLDGSDSIGA--S---------N------FTGAKKSLVNLIEKVASYGVKPRYGLVTYATYPK---IWVKVS-   72 (223)
T ss_dssp             -CEEEEEEEECSTTTCH--H---------H------HHHHHHHHHHHHHHHHTTTCCCEEEEEEESSSEE---EEECTT-
T ss_pred             CceeEEEEEeCCCCCch--H---------H------HHHHHHHHHHHHHHHhcCCCCceEEEEEecCccc---eeeccc-
Confidence            46899999999887431  0         0      123344555555556666677 999999998642   123332 


Q ss_pred             CCCCCCCHHHHHHHHHhcCCce-eeccCCChHHHHHHHHHHHHhcC--------CceEEEEEEeCCccCCcchhHHHHHH
Q 018272          126 NDSPCQGFEHVLECYRKNVPNV-QYFGPTSYAPMVEAAVDIVEESG--------GLHHVLVIITSGQVATGSQQEQETIR  196 (358)
Q Consensus       126 ~~~~~~g~~gvl~~Y~~~l~~v-~l~gpt~fapvI~~a~~~~~~~~--------~~Y~VLlIiTDG~i~d~~~~~~~t~~  196 (358)
                       .+.-...+.+.++-.+.-+.. ...|.|+...-|+.|.+......        ..-.++++||||..+.. .+.....+
T Consensus        73 -~~~~~~~~~~~~~i~~l~~~~~~~~g~T~~~~aL~~a~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g-~~~~~~~~  150 (223)
T 1q0p_A           73 -EADSSNADWVTKQLNEINYEDHKLKSGTNTKKALQAVYSMMSWPDDVPPEGWNRTRHVIILMTDGLHNMG-GDPITVID  150 (223)
T ss_dssp             -SGGGGCHHHHHHHHHTCCTTSCSCTTCCCHHHHHHHHHHHHCCTTSSCCTTGGGCEEEEEEEECSCCCSS-SCTHHHHH
T ss_pred             -cCCCCCHHHHHHHHHhcccccccCCCCccHHHHHHHHHHHhhccccccccccccCCeEEEEECCCCCCCC-CChHHHHH
Confidence             222234556655554433321 24799999999999988865321        24578899999988720 01445555


Q ss_pred             HHHHh----------cCCCeEEEEEeeCC-CCchhhhhccC
Q 018272          197 SIVDA----------SSYPLSIVLVGVGD-GPWESIQKFHD  226 (358)
Q Consensus       197 aIv~A----------S~lPlSIiiVGVG~-~~f~~m~~LD~  226 (358)
                      .+.+.          .+..+-|..||||+ .+...|+.+=.
T Consensus       151 ~~~~~~~~~~~~~~~~~~~i~i~~igvG~~~~~~~L~~iA~  191 (223)
T 1q0p_A          151 EIRDLLYIGKDRKNPREDYLDVYVFGVGPLVNQVNINALAS  191 (223)
T ss_dssp             HHHHHTTCSCBTTBCCGGGEEEEEEECSSCCCHHHHHHHSC
T ss_pred             HHHHHHhhhhhhhhcccCCcEEEEEEecCcCCHHHHHHHhc
Confidence            55442          34578999999996 46777777754

>1n3y_A Integrin alpha-X; alpha/beta rossmann fold, cell adhesion; 1.65A {Homo sapiens} SCOP: c.62.1.1

Probab=97.83  E-value=1.3e-05  Score=70.23  Aligned_cols=144  Identities=18%  Similarity=0.235  Sum_probs=90.1

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhccccc-CCC-ceeEEeecCCCCCCCCccccCC
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF-DGD-CIRCYGFGDDTTRDEGVFSFQE  125 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~y-D~d-~ip~~GFGa~~~~~~~~f~~~~  125 (358)
                      .+++++.||-|.|=+.                    ..++.+...+-.++..+ .++ .+-++.|+....   ..++++.
T Consensus         9 ~~div~vlD~SgSM~~--------------------~~~~~~~~~~~~~~~~l~~~~~~v~lv~f~~~~~---~~~~~~~   65 (198)
T 1n3y_A            9 EQDIVFLIDGSGSISS--------------------RNFATMMNFVRAVISQFQRPSTQFSLMQFSNKFQ---THFTFEE   65 (198)
T ss_dssp             CEEEEEEEECCTTSCH--------------------HHHHHHHHHHHHHHTTSCTTTEEEEEEEESSSEE---EEECHHH
T ss_pred             CeeEEEEEECCCCCCH--------------------HHHHHHHHHHHHHHHhcCCCCcEEEEEEeCCCcc---EEEecCc
Confidence            4789999999877430                    12445666666677777 466 999999998632   1233321


Q ss_pred             CCCCCCCHHHHHHHHHhcCCcee-eccCCChHHHHHHHHHH-HHhc----CCceEEEEEEeCCccC-CcchhHHHHHHHH
Q 018272          126 NDSPCQGFEHVLECYRKNVPNVQ-YFGPTSYAPMVEAAVDI-VEES----GGLHHVLVIITSGQVA-TGSQQEQETIRSI  198 (358)
Q Consensus       126 ~~~~~~g~~gvl~~Y~~~l~~v~-l~gpt~fapvI~~a~~~-~~~~----~~~Y~VLlIiTDG~i~-d~~~~~~~t~~aI  198 (358)
                             ... .+...+.+..+. ..|.|+....|+.+.+. ....    ...-.++++||||..+ |    .....+++
T Consensus        66 -------~~~-~~~~~~~i~~l~~~~g~T~~~~al~~a~~~l~~~~~~~r~~~~~~iillTDG~~~~~----~~~~~~~~  133 (198)
T 1n3y_A           66 -------FRR-SSNPLSLLASVHQLQGFTYTATAIQNVVHRLFHASYGARRDAAKILIVITDGKKEGD----SLDYKDVI  133 (198)
T ss_dssp             -------HHH-CSSGGGGGTTCCCCCSCBCHHHHHHHHHTTTTSGGGTCCTTSEEEEEEEESSCCBSC----SSCHHHHH
T ss_pred             -------cCC-HHHHHHHHhcCcCCCCCchHHHHHHHHHHHHhCcccCCCCCCceEEEEECCCCCCCC----cccHHHHH
Confidence                   000 011222333333 57899999999999844 2221    2346788999999887 4    22233444


Q ss_pred             HHhcCCCeEEEEEeeCCCC-----chhhhhccC
Q 018272          199 VDASSYPLSIVLVGVGDGP-----WESIQKFHD  226 (358)
Q Consensus       199 v~AS~lPlSIiiVGVG~~~-----f~~m~~LD~  226 (358)
                      ..+.+..+.|..||||+..     ...|+.+=.
T Consensus       134 ~~~~~~gi~i~~igvG~~~~~~~~~~~L~~iA~  166 (198)
T 1n3y_A          134 PMADAAGIIRYAIGVGLAFQNRNSWKELNDIAS  166 (198)
T ss_dssp             HHHHHTTCEEEEEEESGGGGSSTTHHHHHHHSC
T ss_pred             HHHHHCCCEEEEEEccccccccccHHHHHHHHc
Confidence            5555678899999999864     566666654

>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=97.83  E-value=0.00012  Score=64.87  Aligned_cols=146  Identities=8%  Similarity=0.095  Sum_probs=94.4

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccC---CC-ceeEEeecCCCCCCCCcccc
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSF  123 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD---~d-~ip~~GFGa~~~~~~~~f~~  123 (358)
                      .+++.+.||-|.|=+                    .+.++++...+..++..++   ++ ++-+..|+....   ..|+|
T Consensus        13 ~~divfvlD~SgSm~--------------------~~~~~~~k~~~~~~v~~l~~~~~~~rv~vv~fs~~~~---~~~~l   69 (202)
T 1ijb_A           13 LLDLVFLLDGSSRLS--------------------EAEFEVLKAFVVDMMERLRVSQKWVRVAVVEYHDGSH---AYIGL   69 (202)
T ss_dssp             CEEEEEEEECBTTSC--------------------HHHHHHHHHHHHHHHHTBCBSTTSEEEEEEEESSSEE---EEECT
T ss_pred             cccEEEEEECCCCCC--------------------HHHHHHHHHHHHHHHHhcccCCCceEEEEEEECCCce---EEEec
Confidence            588999999987732                    1235566777777777776   45 999999998632   23455


Q ss_pred             CCCCCCCCCHHHHHHHHHhcCCceeecc-CCChHHHHHHHHHHH-Hhc--CCceEEEEEEeCCccCCcchhHHHHHHHHH
Q 018272          124 QENDSPCQGFEHVLECYRKNVPNVQYFG-PTSYAPMVEAAVDIV-EES--GGLHHVLVIITSGQVATGSQQEQETIRSIV  199 (358)
Q Consensus       124 ~~~~~~~~g~~gvl~~Y~~~l~~v~l~g-pt~fapvI~~a~~~~-~~~--~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv  199 (358)
                      +..    ...+.+.++-.+ ++.  .+| .|+...-|+.|.+.. .+.  ...-.++++||||.-++..  .+...+++.
T Consensus        70 ~~~----~~~~~~~~~i~~-l~~--~gg~~T~~~~aL~~a~~~~~~~~~r~~~~~~iillTDG~~~~~~--~~~~~~~a~  140 (202)
T 1ijb_A           70 KDR----KRPSELRRIASQ-VKY--AGSQVASTSEVLKYTLFQIFSKIDRPEASRIALLLMASQEPQRM--SRNFVRYVQ  140 (202)
T ss_dssp             TCC----CCHHHHHHHHHT-CCC--CCBSCCCHHHHHHHHHHHTSSSCSCTTSEEEEEEEECCCCCGGG--CTTHHHHHH
T ss_pred             CCC----CCHHHHHHHHHh-CcC--CCCCcCcHHHHHHHHHHHHhccCCCCCCCeEEEEEccCCCCccc--hHHHHHHHH
Confidence            421    234555554433 222  245 499999999987543 221  2345788999999876510  123444555


Q ss_pred             HhcCCCeEEEEEeeCC-CCchhhhhcc
Q 018272          200 DASSYPLSIVLVGVGD-GPWESIQKFH  225 (358)
Q Consensus       200 ~AS~lPlSIiiVGVG~-~~f~~m~~LD  225 (358)
                      .+-+..+.|..||||+ .+...|+.+-
T Consensus       141 ~l~~~gi~i~~igvG~~~~~~~L~~iA  167 (202)
T 1ijb_A          141 GLKKKKVIVIPVGIGPHANLKQIRLIE  167 (202)
T ss_dssp             HHHHTTEEEEEEEESTTSCHHHHHHHH
T ss_pred             HHHHCCCEEEEEecCCcCCHHHHHHHh
Confidence            5556789999999996 5777777774

>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=97.82  E-value=6.3e-06  Score=67.29  Aligned_cols=42  Identities=29%  Similarity=0.596  Sum_probs=33.9

Q ss_pred             cCCCccCcccCCCCe------------------ee-cCCCCCchhhhhcC----CCCCCCccccC
Q 018272          310 EAQRCCICCEDEKDT------------------AF-ECGHMSCIKCALRM----PQCPFCREEIT  351 (358)
Q Consensus       310 ~~~~C~IC~~~~~~~------------------v~-pCgH~~C~~C~~~~----~~CP~CR~~i~  351 (358)
                      +...|.||++...+.                  ++ +|||.|+..|+.++    ..||+||+.+.
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            456899999876532                  33 99999999999986    57999999854

>4b4t_W RPN10, 26S proteasome regulatory subunit RPN10; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.79  E-value=0.00016  Score=68.18  Aligned_cols=161  Identities=13%  Similarity=0.125  Sum_probs=107.2

Q ss_pred             ceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccc---cCCC-ceeEEeecCCCCCCCCccccCCC
Q 018272           51 LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVL---FDGD-CIRCYGFGDDTTRDEGVFSFQEN  126 (358)
Q Consensus        51 ~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~---yD~d-~ip~~GFGa~~~~~~~~f~~~~~  126 (358)
                      .+|.||-|.|=..       +        +..+|.++.+..++-.++..   -++. .+-+..|+++.....  .+++  
T Consensus         6 tViviD~S~SM~~-------~--------D~~PsRl~a~k~Av~~li~~~~~~nPed~VGLVtfag~~~~vl--~plT--   66 (268)
T 4b4t_W            6 TVLVIDNSEYSRN-------G--------DFPRTRFEAQIDSVEFIFQAKRNSNPENTVGLISGAGANPRVL--STFT--   66 (268)
T ss_dssp             EEEEECCSSTTSS-------T--------TSSSCHHHHHHHHHHHHHHHHHHHCTTCEEEEEECCTTSCEEE--EEEE--
T ss_pred             EEEEEECCHHHhC-------C--------CCCCcHHHHHHHHHHHHHHHHhhCCCcceEEEEEecCCcceec--cCCc--
Confidence            4788998877421       0        12368888777776666664   3455 889999976532110  1221  


Q ss_pred             CCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhc--CCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCC
Q 018272          127 DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES--GGLHHVLVIITSGQVATGSQQEQETIRSIVDASSY  204 (358)
Q Consensus       127 ~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~--~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~l  204 (358)
                          .....++.    .+..++..|-|++..-|+.|....++.  ...-..++|+|||.+.+   +.++.++++.++.+.
T Consensus        67 ----~D~~~il~----aL~~l~~~G~T~l~~gL~~A~~aLk~~~~k~~~~rIIlf~ds~~~~---~~~~l~~lak~lkk~  135 (268)
T 4b4t_W           67 ----AEFGKILA----GLHDTQIEGKLHMATALQIAQLTLKHRQNKVQHQRIVAFVCSPISD---SRDELIRLAKTLKKN  135 (268)
T ss_dssp             ----SCHHHHHH----HHTTCCCCSCCCHHHHHHHHHHHHHTCSCTTSEEEEEEEECSCCSS---CHHHHHHHHHHHHHH
T ss_pred             ----chHHHHHH----HhhhcCcCCCCChHHHHHHHHHHHHhcccCCCceEEEEEECCCCCC---CHHHHHHHHHHHHHc
Confidence                23444443    456677899999999999999998754  23455667889998776   367888888888888


Q ss_pred             CeEEEEEeeCCC--CchhhhhccCCCCCcccceeEeeec
Q 018272          205 PLSIVLVGVGDG--PWESIQKFHDKIPALQFDNFHFVNF  241 (358)
Q Consensus       205 PlSIiiVGVG~~--~f~~m~~LD~~~~~r~rDnvqFV~f  241 (358)
                      -|+|=+||+|.+  +-+.|+.|=+......-|+-+||..
T Consensus       136 gI~v~vIgFG~~~~n~~kLe~l~~~~Ng~~~~~s~~v~v  174 (268)
T 4b4t_W          136 NVAVDIINFGEIEQNTELLDEFIAAVNNPQEETSHLLTV  174 (268)
T ss_dssp             TEEEEEEEESSCCSSCCHHHHHHHHHCSSTTTSCEEEEE
T ss_pred             CCEEEEEEeCCCccchHHHHHHHHHhcCCCCCceeEEEe
Confidence            888888888864  5566777743222223467777765

>2b2x_A Integrin alpha-1; computational design, antibody-antigen complex, immune syste; 2.20A {Rattus norvegicus} SCOP: c.62.1.1

Probab=97.75  E-value=0.00021  Score=64.14  Aligned_cols=133  Identities=20%  Similarity=0.266  Sum_probs=88.1

Q ss_pred             ceeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccC---CC-ceeEEeecCCCCCCCCccc
Q 018272           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFS  122 (358)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD---~d-~ip~~GFGa~~~~~~~~f~  122 (358)
                      ..+++++.||-|.|=+                      .++++...+..++..++   ++ .+-++.|+....   .+++
T Consensus        21 ~~~div~vlD~SgSM~----------------------~~~~~k~~~~~~~~~l~~~~~~~rv~lv~F~~~~~---~~~~   75 (223)
T 2b2x_A           21 TQLDIVIVLDGSNSIY----------------------PWESVIAFLNDLLKRMDIGPKQTQVGIVQYGENVT---HEFN   75 (223)
T ss_dssp             -CEEEEEEEECSTTCC----------------------CHHHHHHHHHHHHTTSCCSTTSCCEEEEEESSSEE---EEEC
T ss_pred             CcceEEEEEECCCChh----------------------hHHHHHHHHHHHHHhcccCCCCeEEEEEEeCCCcc---EEEe
Confidence            3588999999887621                      15566677777777775   45 999999987632   2345


Q ss_pred             cCCCCCCCCCHHHHHHHHHhcCCcee-ecc-CCChHHHHHHHHHH-HHh----cCCceEEEEEEeCCccCCcchhHHHHH
Q 018272          123 FQENDSPCQGFEHVLECYRKNVPNVQ-YFG-PTSYAPMVEAAVDI-VEE----SGGLHHVLVIITSGQVATGSQQEQETI  195 (358)
Q Consensus       123 ~~~~~~~~~g~~gvl~~Y~~~l~~v~-l~g-pt~fapvI~~a~~~-~~~----~~~~Y~VLlIiTDG~i~d~~~~~~~t~  195 (358)
                      ++.    ....+.++++-..    +. ..| .|+...-|+.|.+. ...    ....-.++++||||.-++    -....
T Consensus        76 l~~----~~~~~~~~~~i~~----l~~~gG~~T~~~~aL~~a~~~l~~~~~~~~~~~~~~iillTDG~~~~----~~~~~  143 (223)
T 2b2x_A           76 LNK----YSSTEEVLVAANK----IVQRGGRQTMTALGIDTARKEAFTEARGARRGVKKVMVIVTDGESHD----NYRLK  143 (223)
T ss_dssp             TTT----CCSHHHHHHHHTT----CCCCCCSSCCHHHHHHHHHHTTSSGGGTCCTTSEEEEEEEESSCCTT----GGGHH
T ss_pred             cCC----CCCHHHHHHHHHh----hhccCCCCccHHHHHHHHHHHhcCcccCCCCCCCeEEEEEcCCCCCC----CccHH
Confidence            421    1345566554433    33 256 49999999999875 221    123457889999999887    22345


Q ss_pred             HHHHHhcCCCeEEEEEeeCCC
Q 018272          196 RSIVDASSYPLSIVLVGVGDG  216 (358)
Q Consensus       196 ~aIv~AS~lPlSIiiVGVG~~  216 (358)
                      +++..+.+..+-|..||||+.
T Consensus       144 ~~~~~~~~~gi~v~~igvG~~  164 (223)
T 2b2x_A          144 QVIQDCEDENIQRFSIAILGH  164 (223)
T ss_dssp             HHHHHHHTTTEEEEEEEECGG
T ss_pred             HHHHHHHHCCCEEEEEEecCc
Confidence            555556678899999999964

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.70  E-value=3.3e-05  Score=59.85  Aligned_cols=51  Identities=18%  Similarity=0.467  Sum_probs=38.5

Q ss_pred             cccccCCCccCcccCCC--Ceee-cCC-----CCCchhhhhcC------CCCCCCccccCCeeec
Q 018272          306 AEVAEAQRCCICCEDEK--DTAF-ECG-----HMSCIKCALRM------PQCPFCREEITTRRRV  356 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~--~~v~-pCg-----H~~C~~C~~~~------~~CP~CR~~i~~~~~~  356 (358)
                      ....+...|.||++...  +.++ ||+     |.|...|+.++      ..||+||..+....++
T Consensus        10 ~~~~~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~~~   74 (80)
T 2d8s_A           10 ITPSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMETKL   74 (80)
T ss_dssp             CCCTTSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCCCS
T ss_pred             CCCCCCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCccc
Confidence            33455679999997543  3445 996     99999999988      3799999998765443

>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=97.70  E-value=0.00037  Score=61.97  Aligned_cols=133  Identities=20%  Similarity=0.262  Sum_probs=87.9

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccC---CC-ceeEEeecCCCCCCCCcccc
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSF  123 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD---~d-~ip~~GFGa~~~~~~~~f~~  123 (358)
                      .+.+++.||-|.|=+                      .++.+...+..++..++   ++ .+-++.|+....   .++++
T Consensus         7 ~~div~vlD~SgSm~----------------------~~~~~k~~~~~~~~~l~~~~~~~~v~lv~F~~~~~---~~~~l   61 (213)
T 1pt6_A            7 QLDIVIVLDGSNSIY----------------------PWDSVTAFLNDLLKRMDIGPKQTQVGIVQYGENVT---HEFNL   61 (213)
T ss_dssp             CEEEEEEEECCTTCC----------------------CHHHHHHHHHHHHTTSCBSTTSBEEEEEEESSSEE---EEECT
T ss_pred             CccEEEEEECCCChh----------------------hHHHHHHHHHHHHHhcCCCCCCeEEEEEEeCCCcc---EEEec
Confidence            578899999887621                      14556666666666665   55 999999998632   23455


Q ss_pred             CCCCCCCCCHHHHHHHHHhcCCceeecc-CCChHHHHHHHHHHH-Hh----cCCceEEEEEEeCCccCCcchhHHHHHHH
Q 018272          124 QENDSPCQGFEHVLECYRKNVPNVQYFG-PTSYAPMVEAAVDIV-EE----SGGLHHVLVIITSGQVATGSQQEQETIRS  197 (358)
Q Consensus       124 ~~~~~~~~g~~gvl~~Y~~~l~~v~l~g-pt~fapvI~~a~~~~-~~----~~~~Y~VLlIiTDG~i~d~~~~~~~t~~a  197 (358)
                      +.    ....+.++++-....+   ..| .|+...-|+.|.+.. ..    ....-.++++||||.-++    -....++
T Consensus        62 ~~----~~~~~~~~~~i~~l~~---~~G~~T~~~~aL~~a~~~l~~~~~~~r~~~~~~iillTDG~~~~----~~~~~~~  130 (213)
T 1pt6_A           62 NK----YSSTEEVLVAAKKIVQ---RGGRQTMTALGTDTARKEAFTEARGARRGVKKVMVIVTDGESHD----NHRLKKV  130 (213)
T ss_dssp             TT----CSSHHHHHHHHHTCCC---CCCSSCCHHHHHHHHHHTTTSGGGTCCTTCEEEEEEEESSCCSC----SHHHHHH
T ss_pred             cc----cCCHHHHHHHHHhccC---CCCCcccHHHHHHHHHHHhcCcccCCCCCCCeEEEEEcCCCCCC----CccHHHH
Confidence            21    1356666665543322   256 499999999998752 21    123467889999999887    3344555


Q ss_pred             HHHhcCCCeEEEEEeeCCC
Q 018272          198 IVDASSYPLSIVLVGVGDG  216 (358)
Q Consensus       198 Iv~AS~lPlSIiiVGVG~~  216 (358)
                      +..+.+..+-|..||||+.
T Consensus       131 ~~~~~~~gi~i~~igig~~  149 (213)
T 1pt6_A          131 IQDCEDENIQRFSIAILGS  149 (213)
T ss_dssp             HHHHHHTTEEEEEEEECHH
T ss_pred             HHHHHHCCCEEEEEEeccc
Confidence            5556667899999999964

>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=97.67  E-value=0.00017  Score=72.90  Aligned_cols=154  Identities=11%  Similarity=0.067  Sum_probs=100.6

Q ss_pred             ceeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCC
Q 018272           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQE  125 (358)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~  125 (358)
                      ..+++++.||-|.|=.+                  ..+..+.+..++..++..+.++ .+-++.|+....   .+++++.
T Consensus        76 ~~~dvv~VLD~SGSM~~------------------~~~rl~~ak~a~~~ll~~L~~~drv~lV~Fs~~a~---~~~p~t~  134 (464)
T 4fx5_A           76 SENVEVIIIDCSGSMDY------------------PRTKMMAAKEATKVAIDTLTDGAFFAVVAGTEGAR---VVYPTGG  134 (464)
T ss_dssp             CCEEEEEEEECCGGGGT------------------TTHHHHHHHHHHHHHHHHSCTTCEEEEEEESSSEE---EEESSSS
T ss_pred             CCceEEEEEEcCcccCC------------------CCchHHHHHHHHHHHHHhCCCCCEEEEEEEcCceE---EEecCCc
Confidence            34677777777766321                  0355677788888888888777 999999998632   1233321


Q ss_pred             CCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcCCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCC
Q 018272          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYP  205 (358)
Q Consensus       126 ~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lP  205 (358)
                        .....-..-.+..++.+..+...|-|++..-|+.+.+..++....-.++++||||..++.   ..+......++....
T Consensus       135 --~l~~~~~~~~~~l~~~I~~L~~~GgT~l~~aL~~A~~~l~~~~~~~~~IILLTDG~~~~~---~~~~l~~~~~a~~~~  209 (464)
T 4fx5_A          135 --QLLRADYQSRAAAKEAVGRLHANGGTAMGRWLAQAGRIFDTAPSAIKHAILLTDGKDESE---TPADLARAIQSSIGN  209 (464)
T ss_dssp             --SCEECSHHHHHHHHHHHHTCCCCSCCCHHHHHHHHHHHHTTCTTSEEEEEEEESSCCTTS---CHHHHHHHHHHHTTT
T ss_pred             --ccccCCHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHhcCCCCCCEEEEEcCCCCCCC---ChHHHHHHHHHhcCC
Confidence              000000111233334445566789999999999999987765445577888999998751   223344455566778


Q ss_pred             eEEEEEeeCC-CCchhhhhccC
Q 018272          206 LSIVLVGVGD-GPWESIQKFHD  226 (358)
Q Consensus       206 lSIiiVGVG~-~~f~~m~~LD~  226 (358)
                      +.|..||+|. .+...|++|-.
T Consensus       210 i~i~tiGiG~~~d~~~L~~IA~  231 (464)
T 4fx5_A          210 FTADCRGIGEDWEPKELRKIAD  231 (464)
T ss_dssp             CEEEEEEESSSSCHHHHHHHHH
T ss_pred             CeEEEEEeCCccCHHHHHHHHH
Confidence            9999999995 47777877754

>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=97.67  E-value=1.7e-05  Score=69.58  Aligned_cols=143  Identities=16%  Similarity=0.211  Sum_probs=89.1

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccC-CC-ceeEEeecCCCCCCCCccccCC
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD-GD-CIRCYGFGDDTTRDEGVFSFQE  125 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD-~d-~ip~~GFGa~~~~~~~~f~~~~  125 (358)
                      .+++++.||-|.|=+                    ...++++...+..++..++ ++ .+-++.|+....   .+|+++.
T Consensus         5 ~~div~vlD~SgSm~--------------------~~~~~~~k~~~~~~~~~l~~~~~~v~vv~f~~~~~---~~~~l~~   61 (194)
T 1mf7_A            5 DSDIAFLIDGSGSII--------------------PHDFRRMKEFVSTVMEQLKKSKTLFSLMQYSEEFR---IHFTFKE   61 (194)
T ss_dssp             CEEEEEEEECCTTSC--------------------HHHHHHHHHHHHHHHHHHCCTTEEEEEEEESSSEE---EEECHHH
T ss_pred             CeeEEEEEeCCCCCC--------------------HHHHHHHHHHHHHHHHhcCCCCeEEEEEEecCCce---EEEecCC
Confidence            478899999987742                    1234556666666666665 45 999999998642   2344431


Q ss_pred             -CCCCCCCHHHHHHHHHhcCCcee-eccCCChHHHHHHHHHHH-Hh-c---CCceEEEEEEeCCccC-CcchhHHHHHHH
Q 018272          126 -NDSPCQGFEHVLECYRKNVPNVQ-YFGPTSYAPMVEAAVDIV-EE-S---GGLHHVLVIITSGQVA-TGSQQEQETIRS  197 (358)
Q Consensus       126 -~~~~~~g~~gvl~~Y~~~l~~v~-l~gpt~fapvI~~a~~~~-~~-~---~~~Y~VLlIiTDG~i~-d~~~~~~~t~~a  197 (358)
                       .+.  ..   +.    +.+..+. ..|.|+...-|+.|.+.. .. .   ...-.++++||||..+ |    .....++
T Consensus        62 ~~~~--~~---~~----~~i~~l~~~~g~T~~~~aL~~a~~~l~~~~~~~r~~~~~~iillTDG~~~~d----~~~~~~~  128 (194)
T 1mf7_A           62 FQNN--PN---PR----SLVKPITQLLGRTHTATGIRKVVRELFNITNGARKNAFKILVVITDGEKFGD----PLGYEDV  128 (194)
T ss_dssp             HHHS--CC---HH----HHHTTCCCCCSCBCHHHHHHHHHHTTTSGGGTCCTTSEEEEEEEESSCCBSC----SSCGGGT
T ss_pred             cCCH--HH---HH----HHHHhCcCCCCCchHHHHHHHHHHHhcCcccCCCCCCCeEEEEEcCCCCCCC----chhhHHH
Confidence             010  11   22    2223333 479999999999998643 21 1   1235788999999887 5    2222334


Q ss_pred             HHHhcCCCeEEEEEeeCCCC-----chhhhhccC
Q 018272          198 IVDASSYPLSIVLVGVGDGP-----WESIQKFHD  226 (358)
Q Consensus       198 Iv~AS~lPlSIiiVGVG~~~-----f~~m~~LD~  226 (358)
                      +.++.+..+.|..||||+..     ...|+.+=+
T Consensus       129 ~~~~~~~gi~v~~igvG~~~~~~~~~~~L~~iA~  162 (194)
T 1mf7_A          129 IPEADREGVIRYVIGVGDAFRSEKSRQELNTIAS  162 (194)
T ss_dssp             HHHHHHTTEEEEEEEESGGGCSHHHHHHHHHHSC
T ss_pred             HHHHHHCCCEEEEEEecccccccccHHHHHHHhC
Confidence            44445678999999999864     456666544

>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=97.66  E-value=0.00019  Score=72.18  Aligned_cols=156  Identities=13%  Similarity=0.205  Sum_probs=99.2

Q ss_pred             CceeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhccccc---CCC-ceeEEeecCCCCCCCCcc
Q 018272           46 KVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF---DGD-CIRCYGFGDDTTRDEGVF  121 (358)
Q Consensus        46 l~~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~y---D~d-~ip~~GFGa~~~~~~~~f  121 (358)
                      .+.+++++.||-|.|=+                    ...+++|.+.+..+++.+   ..+ ++-+..|+....   .+|
T Consensus         7 ~~~~divfvlD~SgSM~--------------------~~~~~~~k~~~~~l~~~l~~~~~~~rv~lv~f~~~~~---~~~   63 (509)
T 2odp_A            7 SGHLNLYLLLDASQSVS--------------------ENDFLIFKESASLMVDRIFSFEINVSVAIITFASEPK---VLM   63 (509)
T ss_dssp             SSEEEEEEEEECSTTSC--------------------HHHHHHHHHHHHHHHHHHHTTCCCEEEEEEEESSSEE---EEE
T ss_pred             CCCeeEEEEEeCCCccc--------------------hhhHHHHHHHHHHHHHHhhccCCCceEEEEEccCCCc---eeE
Confidence            35789999999987732                    123455666666665555   677 999999988632   124


Q ss_pred             ccCCCCCCCCCHHHHHHHHHhcCCceee-ccCCChHHHHHHHHHHHHhc----C-------CceEEEEEEeCCccCCcch
Q 018272          122 SFQENDSPCQGFEHVLECYRKNVPNVQY-FGPTSYAPMVEAAVDIVEES----G-------GLHHVLVIITSGQVATGSQ  189 (358)
Q Consensus       122 ~~~~~~~~~~g~~gvl~~Y~~~l~~v~l-~gpt~fapvI~~a~~~~~~~----~-------~~Y~VLlIiTDG~i~d~~~  189 (358)
                      ++.  .+.-...+.++++-.+.-..... .|.|+...-|+.|.+..+..    +       ..-.++++||||.-++. .
T Consensus        64 ~l~--~~~~~~~~~~~~~l~~l~~~~~~~~ggT~~~~aL~~a~~~l~~~~~~~~~~~~~~~~~~~~iillTDG~~~~~-~  140 (509)
T 2odp_A           64 SVL--NDNSRDMTEVISSLENANYKDHENGTGTNTYAALNSVYLMMNNQMRLLGMETMAWQEIRHAIILLTDGKSNMG-G  140 (509)
T ss_dssp             CTT--SGGGGCHHHHHHHHHTCCGGGGTTCCSCCHHHHHHHHHHHHHHHHHHHCTTSHHHHTEEEEEEEESCSCCCSS-S
T ss_pred             ecc--CCCCCCHHHHHHHHHhcccccCCCCCCccHHHHHHHHHHHHhhcccccccccccccccceEEEEECCCCccCC-C
Confidence            442  11122455555544433222111 37899999999998876431    1       13378899999977651 2


Q ss_pred             hHHHHHHHHHHh------cCCCeEEEEEeeCC--CCchhhhhccCC
Q 018272          190 QEQETIRSIVDA------SSYPLSIVLVGVGD--GPWESIQKFHDK  227 (358)
Q Consensus       190 ~~~~t~~aIv~A------S~lPlSIiiVGVG~--~~f~~m~~LD~~  227 (358)
                      +..+..+.+.+.      .+..+.|..||||+  .+...|++|-+.
T Consensus       141 ~~~~~~~~~~~~~~~~~~~~~~i~i~~iGvG~~~~~~~~L~~iA~~  186 (509)
T 2odp_A          141 SPKTAVDHIREILNINQKRNDYLDIYAIGVGKLDVDWRELNELGSK  186 (509)
T ss_dssp             CTHHHHHHHHHHTTCCSTTGGGEEEEEEEESSSCCCHHHHHHHSCC
T ss_pred             ChhHHHHHHHHHhhccccccCceEEEEEEcCCCcccHHHHHhhccC
Confidence            244555555542      25678899999998  588888888653

>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=97.63  E-value=8.3e-06  Score=64.46  Aligned_cols=40  Identities=20%  Similarity=0.600  Sum_probs=32.1

Q ss_pred             cCCCccCcccCCCCee---e-cCCCCCchhhhhcC------------CCCCC--Cccc
Q 018272          310 EAQRCCICCEDEKDTA---F-ECGHMSCIKCALRM------------PQCPF--CREE  349 (358)
Q Consensus       310 ~~~~C~IC~~~~~~~v---~-pCgH~~C~~C~~~~------------~~CP~--CR~~  349 (358)
                      +..+|+||++......   + +|||.||..|....            ..||.  ||..
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            4678999999876632   3 79999999998753            26999  9998

>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=97.60  E-value=9.1e-06  Score=67.59  Aligned_cols=41  Identities=32%  Similarity=0.656  Sum_probs=0.4

Q ss_pred             CCCccCcccCCCC-----------------e-ee-cCCCCCchhhhhcC----CCCCCCccccC
Q 018272          311 AQRCCICCEDEKD-----------------T-AF-ECGHMSCIKCALRM----PQCPFCREEIT  351 (358)
Q Consensus       311 ~~~C~IC~~~~~~-----------------~-v~-pCgH~~C~~C~~~~----~~CP~CR~~i~  351 (358)
                      ...|.||++...+                 . ++ +|||.|+..|+.++    ..||+||.++.
T Consensus        48 ~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           48 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             C---------------------------------------------------------------
T ss_pred             CCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            4689999987654                 2 22 89999999999987    57999999854

>2x5n_A SPRPN10, 26S proteasome regulatory subunit RPN10; nuclear protein, nucleus, ubiquitin; 1.30A {Schizosaccharomyces pombe}

Probab=97.58  E-value=0.00077  Score=60.11  Aligned_cols=162  Identities=14%  Similarity=0.147  Sum_probs=103.9

Q ss_pred             eceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhccccc---CCC-ceeEEeecCCCCCCCCccccCC
Q 018272           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF---DGD-CIRCYGFGDDTTRDEGVFSFQE  125 (358)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~y---D~d-~ip~~GFGa~~~~~~~~f~~~~  125 (358)
                      .++++||.|.|=..             .  +..+|..+.+...+..++..|   .+. ++-+..|++...+  -+.+++ 
T Consensus         4 ~lvlvlD~S~SM~~-------------~--D~~psRl~~ak~~~~~~~~~~~~~~~~d~vGLV~fa~~~a~--~~~plT-   65 (192)
T 2x5n_A            4 ATMILIDNSEWMIN-------------G--DYIPTRFEAQKDTVHMIFNQKINDNPENMCGLMTIGDNSPQ--VLSTLT-   65 (192)
T ss_dssp             EEEEEECCSGGGGC-------------T--TSSSCHHHHHHHHHHHHHHHHHHHCTTCEEEEEECCTTSCC--EEEEEE-
T ss_pred             EEEEEEECCHhhcc-------------C--CCCCCHHHHHHHHHHHHHHHHHhcCCCCeEEEEEEcCCCcE--EecCCC-
Confidence            57889999877321             1  123688888887777666544   344 8999999875221  112333 


Q ss_pred             CCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcC--CceE-EEEEEeCCccCCcchhHHHHHHHHHHhc
Q 018272          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG--GLHH-VLVIITSGQVATGSQQEQETIRSIVDAS  202 (358)
Q Consensus       126 ~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~--~~Y~-VLlIiTDG~i~d~~~~~~~t~~aIv~AS  202 (358)
                           ...+.+++    .+..+...|.|++..-|+.|.+..++..  .... |+|+++|+.-.|    ..+..+++..+.
T Consensus        66 -----~d~~~i~~----~L~~l~~~g~t~l~~aL~~A~~~l~~~~~~~~~~riiil~~~~~~~~----~~~~~~~a~~lk  132 (192)
T 2x5n_A           66 -----RDYGKFLS----AMHDLPVRGNAKFGDGIQIAQLALKHRENKIQRQRIVAFVGSPIVED----EKNLIRLAKRMK  132 (192)
T ss_dssp             -----SCHHHHHH----HHTTCCCCSCCCHHHHHHHHHHHHHTCSCTTSEEEEEEEECSCCSSC----HHHHHHHHHHHH
T ss_pred             -----CCHHHHHH----HHHcCCCCCCchHHHHHHHHHHHHHhccccCCCceEEEEEECCCCCC----chhHHHHHHHHH
Confidence                 13444443    3344677899999999999998877642  2233 455555554344    667778888888


Q ss_pred             CCCeEEEEEeeCCCCchh-hhhccCCCCCcccceeEeeecccc
Q 018272          203 SYPLSIVLVGVGDGPWES-IQKFHDKIPALQFDNFHFVNFTAI  244 (358)
Q Consensus       203 ~lPlSIiiVGVG~~~f~~-m~~LD~~~~~r~rDnvqFV~f~~~  244 (358)
                      +.-+.|.+||+|..+... |+.|=+....  -|+-+||...+.
T Consensus       133 ~~gi~v~~Ig~G~~~~~~~l~~la~~~n~--~~~s~~~~~~~~  173 (192)
T 2x5n_A          133 KNNVAIDIIHIGELQNESALQHFIDAANS--SDSCHLVSIPPS  173 (192)
T ss_dssp             HTTEEEEEEEESCC---CHHHHHHHHHCS--TTCCEEEEECCC
T ss_pred             HCCCEEEEEEeCCCCccHHHHHHHHhccC--CCceEEEEecCc
Confidence            889999999999886532 7777432221  278888865544

>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=97.56  E-value=0.0011  Score=58.21  Aligned_cols=132  Identities=14%  Similarity=0.130  Sum_probs=87.9

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccC---CC-ceeEEeecCCCCCCCCcccc
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSF  123 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD---~d-~ip~~GFGa~~~~~~~~f~~  123 (358)
                      .+++++.||-|.|=+                      .++++...+..++..++   ++ ++-++.|+....   .+|+|
T Consensus         6 ~~div~vlD~SgSm~----------------------~~~~~k~~~~~~~~~l~~~~~~~rvglv~f~~~~~---~~~~l   60 (200)
T 1v7p_C            6 LIDVVVVCDESNSIY----------------------PWDAVKNFLEKFVQGLDIGPTKTQVGLIQYANNPR---VVFNL   60 (200)
T ss_dssp             CEEEEEEEECCTTCC----------------------CHHHHHHHHHHHHHTSCBSTTSEEEEEEEESSSEE---EEECT
T ss_pred             cccEEEEEECCCCcc----------------------cHHHHHHHHHHHHHhcCCCCCceEEEEEEECCCce---EEEeC
Confidence            478889999886621                      14566677777777776   45 999999998632   23555


Q ss_pred             CCCCCCCCCHHHHHHHHHhcCCceeecc-CCChHHHHHHHHHH-HHhc----CCceEEEEEEeCCccCCcchhHHHHHHH
Q 018272          124 QENDSPCQGFEHVLECYRKNVPNVQYFG-PTSYAPMVEAAVDI-VEES----GGLHHVLVIITSGQVATGSQQEQETIRS  197 (358)
Q Consensus       124 ~~~~~~~~g~~gvl~~Y~~~l~~v~l~g-pt~fapvI~~a~~~-~~~~----~~~Y~VLlIiTDG~i~d~~~~~~~t~~a  197 (358)
                      +.    ....+.++++-.+..+   ..| .|+...-|+.|.+. ....    ...-.++++||||.-+|    .....++
T Consensus        61 ~~----~~~~~~~~~~i~~l~~---~~G~~T~~~~al~~a~~~~~~~~~g~r~~~~~~ivllTDG~~~~----~~~~~~~  129 (200)
T 1v7p_C           61 NT----YKTKEEMIVATSQTSQ---YGGDLTNTFGAIQYARKYAYSAASGGRRSATKVMVVVTDGESHD----GSMLKAV  129 (200)
T ss_dssp             TT----CSSHHHHHHHHHHCCC---CCCSCCCHHHHHHHHHHHTTSGGGTCCTTSEEEEEEEESSCCSC----GGGHHHH
T ss_pred             CC----cCCHHHHHHHHHhhhc---cCCCCCcHHHHHHHHHHhhcccccCCCCCCCeEEEEEccCCCCC----cccHHHH
Confidence            41    2356666666554322   235 59999999999885 2221    12457889999999887    3233444


Q ss_pred             HHHhcCCCeEEEEEeeCC
Q 018272          198 IVDASSYPLSIVLVGVGD  215 (358)
Q Consensus       198 Iv~AS~lPlSIiiVGVG~  215 (358)
                      +..+.+..+.|..||||+
T Consensus       130 ~~~~~~~gi~i~~igvg~  147 (200)
T 1v7p_C          130 IDQCNHDNILRFGIAVLG  147 (200)
T ss_dssp             HHHHHHTTEEEEEEEECH
T ss_pred             HHHHHHCCCEEEEEEecc
Confidence            555556789999999963

>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=97.32  E-value=0.00076  Score=67.39  Aligned_cols=152  Identities=11%  Similarity=0.068  Sum_probs=96.2

Q ss_pred             eeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhccc---ccCCC-ceeEEeecCCCCCCCCccccC
Q 018272           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELV---LFDGD-CIRCYGFGDDTTRDEGVFSFQ  124 (358)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~---~yD~d-~ip~~GFGa~~~~~~~~f~~~  124 (358)
                      +++++.||-|.|=+                    .+.++.+...+..++.   .+..+ .+-++.|+....   ..+.++
T Consensus         2 ~div~vlD~SgSM~--------------------~~~~~~~k~~~~~~~~~l~~~~~~~~v~lv~f~~~~~---~~~~~~   58 (497)
T 1rrk_A            2 MNIYLVLDGSDSIG--------------------ASNFTGAKKVLVNLIEKVASYGVKPRYGLVTYATYPK---IWVKVS   58 (497)
T ss_dssp             EEEEEEEECSTTTC--------------------HHHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESSSEE---EEECTT
T ss_pred             eeEEEEEECCCCcc--------------------hhhHHHHHHHHHHHHHHhhccCCCceEEEEEecCCce---Eeeccc
Confidence            67889999987742                    1334445544444544   45556 999999997532   123332


Q ss_pred             CCCCCCCCHHHHHHHHHhcCCce-eeccCCChHHHHHHHHHHHHhc--------CCceEEEEEEeCCccCCcchhHHHHH
Q 018272          125 ENDSPCQGFEHVLECYRKNVPNV-QYFGPTSYAPMVEAAVDIVEES--------GGLHHVLVIITSGQVATGSQQEQETI  195 (358)
Q Consensus       125 ~~~~~~~g~~gvl~~Y~~~l~~v-~l~gpt~fapvI~~a~~~~~~~--------~~~Y~VLlIiTDG~i~d~~~~~~~t~  195 (358)
                        .+.-...+.+.++-.+.-+.- ...|.|+...-|+.|.+.....        ...-.++++||||.-++ ..+..+..
T Consensus        59 --~~~~~~~~~~~~~l~~l~~~~~~~~g~T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~-g~~~~~~~  135 (497)
T 1rrk_A           59 --EADSSNADWVTKQLNEINYEDHKLKSGTNTKKALQAVYSMMSWPDDVPPEGWNRTRHVIILMTDGLHNM-GGDPITVI  135 (497)
T ss_dssp             --SGGGGCHHHHHHHHHHCCGGGSCCTTCCCHHHHHHHHHHHHCCC------CGGGCEEEEEEEECSCCCS-SSCTHHHH
T ss_pred             --cccccCHHHHHHHHHhCcCccccccCccCHHHHHHHHHHHhhhhhccccccccccceEEEEEeCCCccc-CCChhHHH
Confidence              233345666666655544322 2567899999999998886311        12356889999998774 11245666


Q ss_pred             HHHHHhc----------CCCeEEEEEeeCC-CCchhhhhccC
Q 018272          196 RSIVDAS----------SYPLSIVLVGVGD-GPWESIQKFHD  226 (358)
Q Consensus       196 ~aIv~AS----------~lPlSIiiVGVG~-~~f~~m~~LD~  226 (358)
                      +.+.+..          +..+-|..||||+ .+...|+.|=+
T Consensus       136 ~~~~~~~~~~~~~~~~~~~~i~v~~igvG~~~~~~~L~~iA~  177 (497)
T 1rrk_A          136 DEIRDLLYIGKDRKNPREDYLDVYVFGVGPLVNQVNINALAS  177 (497)
T ss_dssp             HHHHHHTTCSSCC-CCCGGGEEEEEEECSSSCCHHHHHHHSC
T ss_pred             HHHHHHhhhhcccccchhcCeeEEEecCCCccCHHHHHHHhc
Confidence            6665542          2278899999997 56777777754

>2x31_A Magnesium-chelatase 60 kDa subunit; ligase, bacteriochlorophyll biosynthesis, photosynthesis; 7.50A {Rhodobacter capsulatus}

Probab=97.10  E-value=9.9e-05  Score=64.22  Aligned_cols=145  Identities=12%  Similarity=0.140  Sum_probs=86.0

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccc-cCCC-ceeEEeecCCCCCCCCccccCC
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVL-FDGD-CIRCYGFGDDTTRDEGVFSFQE  125 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~-yD~d-~ip~~GFGa~~~~~~~~f~~~~  125 (358)
                      ..++++.||-|.|=.  |                  +..+.+...+..++.. +..+ .+-++.|+.....  .++++. 
T Consensus         5 ~~~vv~vlD~SgSM~--~------------------~~~~~~k~~~~~~~~~~~~~~~~v~lv~f~~~~~~--~~~~~~-   61 (189)
T 2x31_A            5 DRVLIFAVDASGSAA--V------------------ARLSEAKGAVELLLGRAYAARDHVSLITFRGTAAQ--VLLQPS-   61 (189)
T ss_dssp             CCEEEEEEECCTTSC--C--------------------CHHHHHHHHHHHHHSCTTTSCCCEEEESBSCCC--BCTTTC-
T ss_pred             CeEEEEEEECCCCCC--c------------------hHHHHHHHHHHHHHHHhcCCCcEEEEEEECCCCce--EecCCC-
Confidence            468899999998732  1                  1122333344444433 3566 9999999963221  122222 


Q ss_pred             CCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcC--CceEEEEEEeCCccCCcchhH--------HHHH
Q 018272          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG--GLHHVLVIITSGQVATGSQQE--------QETI  195 (358)
Q Consensus       126 ~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~--~~Y~VLlIiTDG~i~d~~~~~--------~~t~  195 (358)
                           .+.+.+.+.-    ..+...|-|++..-|+.+.+..++..  ..-.++++||||..++. .+-        +++.
T Consensus        62 -----~~~~~~~~~i----~~l~~~g~T~~~~al~~a~~~l~~~~~~~~~~~ivliTDG~~~~~-~~~~~~~~~~~~~~~  131 (189)
T 2x31_A           62 -----RSLTQTKRQL----QGLPGGGGTPLASGMEMAMVTAKQARSRGMTPTIALLTDGRGNIA-LDGTANRELAGEQAT  131 (189)
T ss_dssp             -----SCHHHHHHHH----HHCCCCBCCCCHHHHHHHHHHHHTCTTTCSSEEEEECCBSCCSSC-CTHHHHHGGGTCCCE
T ss_pred             -----CCHHHHHHHH----hcCCCCCCCCHHHHHHHHHHHHHhccCCCCceEEEEECCCCCCCC-CCccccccchhHHHH
Confidence                 2455554433    33446799999999999999877642  23567889999987752 000        0111


Q ss_pred             HHHHHhcCCCeEEEEEeeCCCCchhhhhcc
Q 018272          196 RSIVDASSYPLSIVLVGVGDGPWESIQKFH  225 (358)
Q Consensus       196 ~aIv~AS~lPlSIiiVGVG~~~f~~m~~LD  225 (358)
                      +++..+.+..+.|+.||+|+.+...|++|-
T Consensus       132 ~~~~~~~~~gi~v~~ig~g~~~~~~L~~iA  161 (189)
T 2x31_A          132 KVARAIRASGMPAVIIDTAMRPNPALVDLA  161 (189)
T ss_dssp             EEEECTGGGGSCCTHHHHHHSSCSSSCSTT
T ss_pred             HHHHHHHHcCCeEEEEecCCCCHHHHHHHH
Confidence            222233345678888999987655555553

>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=97.07  E-value=0.00018  Score=52.72  Aligned_cols=43  Identities=9%  Similarity=0.114  Sum_probs=37.4

Q ss_pred             CCCccCcccCCCCeee--cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018272          311 AQRCCICCEDEKDTAF--ECGHMSCIKCALRM----PQCPFCREEITTR  353 (358)
Q Consensus       311 ~~~C~IC~~~~~~~v~--pCgH~~C~~C~~~~----~~CP~CR~~i~~~  353 (358)
                      ...|+||++...++++  +|||.+|+.|+.++    ..||++++++...
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L~~~   51 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE   51 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCCChh
Confidence            3689999999999876  79999999999987    5699999998763

>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=0.00099  Score=69.97  Aligned_cols=158  Identities=12%  Similarity=0.069  Sum_probs=96.4

Q ss_pred             ceeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC-ceeEEeecCCCCCCCCccccCC
Q 018272           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQE  125 (358)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d-~ip~~GFGa~~~~~~~~f~~~~  125 (358)
                      ..+++++.||-|.|=+        ..         ....-.+++..+..-|..++.. +|-+.-|+....   .+++|+.
T Consensus       242 ~~~div~vlD~SgSM~--------~~---------~~~~~k~~~~~~i~~l~~~~~~~rv~lv~f~~~~~---~~~~l~~  301 (741)
T 3hrz_D          242 GSMNIYLVLDGSGSIG--------AS---------DFTGAKKCLVNLIEKVASYGVKPRYGLVTYATYPK---IWVKVSE  301 (741)
T ss_dssp             CEEEEEEEEECSTTTC--------HH---------HHHHHHHHHHHHHHHHHHTTCCCEEEEEEESSSEE---EEECTTS
T ss_pred             CceeEEEEeccCCccc--------cc---------chHHHHHHHHHHHHhhhccCCCceEEEEEeccCCc---eeEeecc
Confidence            4689999999887742        10         0123344444544445555565 899999988532   2344432


Q ss_pred             CCCCCCCHHHHHHHHHhcCCcee-eccCCChHHHHHHHHHHHHh--------cCCceEEEEEEeCCccCCcchhHHHHHH
Q 018272          126 NDSPCQGFEHVLECYRKNVPNVQ-YFGPTSYAPMVEAAVDIVEE--------SGGLHHVLVIITSGQVATGSQQEQETIR  196 (358)
Q Consensus       126 ~~~~~~g~~gvl~~Y~~~l~~v~-l~gpt~fapvI~~a~~~~~~--------~~~~Y~VLlIiTDG~i~d~~~~~~~t~~  196 (358)
                      .  .-...+.++++..+.-.... ..|-|+...-|+.|.+....        ....-.++++||||.-+. ..+..+..+
T Consensus       302 ~--~~~~~~~~~~~i~~l~~~~~~~~ggT~~~~aL~~a~~~l~~~~~~~~~~~~~~~~~iillTDG~~n~-g~~p~~~~~  378 (741)
T 3hrz_D          302 A--DSSNADWVTKQLNEINYEDHKLKSGTNTKKALQAVYSMMSWPDDVPPEGWNRTRHVIILMTDGLHNM-GGDPITVID  378 (741)
T ss_dssp             G--GGGCHHHHHHHHTTCCGGGGSSSCCCCHHHHHHHHHHHHCCC--CCCTTGGGEEEEEEEEECSCCCS-SSCTHHHHH
T ss_pred             c--CCcCHHHHHHHHHhcccccccCCCChHHHHHHHHHHHHHhhhhhccccchhccCeEEEEECCCcccc-CCCchHHHH
Confidence            1  11244555554433221111 67899999999999888621        012357889999997653 112456666


Q ss_pred             HHHH----------hcCCCeEEEEEeeCC-CCchhhhhccCC
Q 018272          197 SIVD----------ASSYPLSIVLVGVGD-GPWESIQKFHDK  227 (358)
Q Consensus       197 aIv~----------AS~lPlSIiiVGVG~-~~f~~m~~LD~~  227 (358)
                      .|.+          +.+..+.|..||||+ .+...|++|-..
T Consensus       379 ~i~~~~~~~~~a~~~~~~gi~i~~igvG~~~~~~~L~~ia~~  420 (741)
T 3hrz_D          379 EIRDLLYIGKDRKNPREDYLDVYVFGVGPLVNQVNINALASK  420 (741)
T ss_dssp             HHHHHTTCSSCTTCCCGGGEEEEEEECSSSCCHHHHHHHSCC
T ss_pred             HHHHHhhcccccccccccCeeEEEEeCCCcCCHHHHHHHhcC
Confidence            5653          334678999999997 677778777653

>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=96.95  E-value=0.002  Score=56.86  Aligned_cols=139  Identities=12%  Similarity=0.112  Sum_probs=90.4

Q ss_pred             ceeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccC---CC-ceeEEeecCCCCCCCCccc
Q 018272           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFS  122 (358)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD---~d-~ip~~GFGa~~~~~~~~f~  122 (358)
                      ..+++.+.||-|.|=+                    .+.++++...+-.++..++   ++ ++-+..|+....   ..|+
T Consensus        20 ~~~DivfvlD~S~Sm~--------------------~~~~~~~k~~~~~~~~~l~~~~~~~rv~vv~fs~~~~---~~~~   76 (199)
T 3zqk_A           20 MVLDVAFVLEGSDKIG--------------------EADFNRSKEFMEEVIQRMDVGQDSIHVTVLQYSYMVT---VEYP   76 (199)
T ss_dssp             CCCEEEEEEECCTTTC--------------------HHHHHHHHHHHHHHHHHSCBSTTSBEEEEEEESSSEE---EEEC
T ss_pred             CCcCEEEEEECCCCCC--------------------HHHHHHHHHHHHHHHHhcCCCCCceEEEEEEECCccc---EEEe
Confidence            3478899999886632                    1235556666666777774   55 999999998643   2355


Q ss_pred             cCCCCCCCCCHHHHHHHHHhcCCceeeccC-CChHHHHHHHHHHH-Hh-c---CCceEEEEEEeCCccCCcchhHHHHHH
Q 018272          123 FQENDSPCQGFEHVLECYRKNVPNVQYFGP-TSYAPMVEAAVDIV-EE-S---GGLHHVLVIITSGQVATGSQQEQETIR  196 (358)
Q Consensus       123 ~~~~~~~~~g~~gvl~~Y~~~l~~v~l~gp-t~fapvI~~a~~~~-~~-~---~~~Y~VLlIiTDG~i~d~~~~~~~t~~  196 (358)
                      |+.    ....+.++++-.+. +.  ..|. |+...-|+.+.+.. .. .   ...-.++++||||...|-   ..    
T Consensus        77 l~~----~~~~~~~~~~i~~l-~~--~gg~~T~~~~aL~~a~~~l~~~~~g~r~~~~~~iillTDG~~~d~---v~----  142 (199)
T 3zqk_A           77 FSE----AQSKGDILQRLREI-RY--QGGNRTNTGLALRYLSDHSFLVSQGDREQAPNLVYMVTGNPASDE---IK----  142 (199)
T ss_dssp             TTS----CCCHHHHHHHHHHC-CC--CCCSCCCHHHHHHHCCCCCTCGGGTCCTTSCEEEEEEECSCCSSC---CC----
T ss_pred             cCC----cCCHHHHHHHHHhC-cC--CCCCcChHHHHHHHHHHHhhCcccCCCCCCCeEEEEEeCCCCchH---HH----
Confidence            542    13556666665543 21  3464 99999998887642 11 1   122468899999987771   11    


Q ss_pred             HHHHhcCCCeEEEEEeeC-CCCchhhhhccC
Q 018272          197 SIVDASSYPLSIVLVGVG-DGPWESIQKFHD  226 (358)
Q Consensus       197 aIv~AS~lPlSIiiVGVG-~~~f~~m~~LD~  226 (358)
                         ++ ...+.|.-|||| +.+...|+.+=.
T Consensus       143 ---~~-~~~v~v~~iGiG~~~~~~~L~~iA~  169 (199)
T 3zqk_A          143 ---RL-PGDIQVVPIGVGPNANVQELERIGW  169 (199)
T ss_dssp             ---CC-CTTEEEEEEEESTTCCHHHHHHHHT
T ss_pred             ---HH-hCCCEEEEEEcCCCCCHHHHHHHhC
Confidence               11 257889999999 678888888865

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=96.71  E-value=0.00066  Score=54.57  Aligned_cols=42  Identities=26%  Similarity=0.564  Sum_probs=31.5

Q ss_pred             CccCcccCCCCee-e-cCCCCCchhhhhc-----CCCCCCCccccCCee
Q 018272          313 RCCICCEDEKDTA-F-ECGHMSCIKCALR-----MPQCPFCREEITTRR  354 (358)
Q Consensus       313 ~C~IC~~~~~~~v-~-pCgH~~C~~C~~~-----~~~CP~CR~~i~~~~  354 (358)
                      .|.+|--..+.-. + ||.|.||..|+..     .+.||.||.+|.++-
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe   51 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIE   51 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEEE
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeeeE
Confidence            4777764444422 3 9999999999965     367999999998753

>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=96.43  E-value=0.0033  Score=69.78  Aligned_cols=142  Identities=18%  Similarity=0.236  Sum_probs=93.3

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC--ceeEEeecCCCCCCCCccccCC
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD--CIRCYGFGDDTTRDEGVFSFQE  125 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d--~ip~~GFGa~~~~~~~~f~~~~  125 (358)
                      .+++.+.||-+.|=+                    .+.++++...+..+++.|+.+  ++-+..|+....   ..|+|+.
T Consensus       130 ~~DIvfvlD~SgSm~--------------------~~~f~~~k~fv~~lv~~~~~~~~rVglV~Fs~~~~---~~~~lt~  186 (1095)
T 3k6s_A          130 EQDIVFLIDGSGSIS--------------------SRNFATMMNFVRAVISQFQRPSTQFSLMQFSNKFQ---THFTFEE  186 (1095)
T ss_dssp             CEEEEEEEECCTTSC--------------------SHHHHHHHHHHHHHHHSSCSSSEEEEEEEESSSEE---EEECSHH
T ss_pred             CccEEEEEcCCCCCC--------------------hhHHHHHHHHHHHHHHhccccccEEEEEEECCeEE---EEecCcc
Confidence            478888888876632                    244667777778888888876  999999998643   2344431


Q ss_pred             --CCCCCCCHHHHHHHHHhcCCce-eeccCCChHHHHHHHHHHHH-h-c---CCceEEEEEEeCCccC-CcchhHHHHHH
Q 018272          126 --NDSPCQGFEHVLECYRKNVPNV-QYFGPTSYAPMVEAAVDIVE-E-S---GGLHHVLVIITSGQVA-TGSQQEQETIR  196 (358)
Q Consensus       126 --~~~~~~g~~gvl~~Y~~~l~~v-~l~gpt~fapvI~~a~~~~~-~-~---~~~Y~VLlIiTDG~i~-d~~~~~~~t~~  196 (358)
                        +..   .+       .+.+..+ .+.|-|+...-|+.|.+..- . .   ...-.|+++||||..+ |    .....+
T Consensus       187 ~~~~~---~l-------~~ai~~i~~~gG~T~~g~AL~~a~~~lf~~~~g~R~~~~kviIllTDG~~~~d----~~~~~~  252 (1095)
T 3k6s_A          187 FRRSS---NP-------LSLLASVHQLQGFTYTATAIQNVVHRLFHASYGARRDAAKILIVITDGKKEGD----SLDYKD  252 (1095)
T ss_dssp             HHSCS---CG-------GGGTTTCCCCCSCBCHHHHHHHHHTTTTSTTTTCCSSSEEEEEEEESSCCBSC----SSCHHH
T ss_pred             cCCHH---HH-------HHHHhhhhcccCCChHHHHHHHHHHhhccccccCCCCCCeEEEEEeCCCcCCC----chhHHH
Confidence              111   11       1222233 35788999999999877532 1 1   1235789999999984 4    333444


Q ss_pred             HHHHhcCCCeEEEEEeeCCC-----CchhhhhccC
Q 018272          197 SIVDASSYPLSIVLVGVGDG-----PWESIQKFHD  226 (358)
Q Consensus       197 aIv~AS~lPlSIiiVGVG~~-----~f~~m~~LD~  226 (358)
                      ++.++.+.-+-|..||||+.     +.+.|+++=+
T Consensus       253 ~a~~~r~~GI~i~aIGVG~~~~~~~d~~eL~~IAs  287 (1095)
T 3k6s_A          253 VIPMADAAGIIRYAIGVGLAFQNRNSWKELNDIAS  287 (1095)
T ss_dssp             HHHHHHHHCEEECCEEBSSGGGSTTSSHHHHTTSC
T ss_pred             HHHHHHHCCCEEEEEecccccccccCHHHHHHHHc
Confidence            55555555788999999997     6777777754

>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=96.24  E-value=0.016  Score=50.00  Aligned_cols=130  Identities=16%  Similarity=0.191  Sum_probs=78.2

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCC-C-ceeEEeecCCCCCCCCccccCC
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDG-D-CIRCYGFGDDTTRDEGVFSFQE  125 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~-d-~ip~~GFGa~~~~~~~~f~~~~  125 (358)
                      .+++++.||-|.|=+                    ...++++...+..++..+++ + .+-+..|+....   ..|+|+.
T Consensus         2 ~~divfvlD~S~Sm~--------------------~~~~~~~k~~~~~~~~~l~~~~~rv~vv~fs~~~~---~~~~l~~   58 (179)
T 1mjn_A            2 NVDLVFLFDGSMSLQ--------------------PDEFQKILDFMKDVMKKCSNTSYQFAAVQFSTSYK---TEFDFSD   58 (179)
T ss_dssp             CEEEEEEEECBTTCC--------------------HHHHHHHHHHHHHHHHHTTTSSEEEEEEEESSSEE---EEECHHH
T ss_pred             CccEEEEEeCCCCCC--------------------HHHHHHHHHHHHHHHHHhCCCCeEEEEEEECCcee---EEEcCcc
Confidence            367889999887742                    12345566666666666654 4 899999998643   1244431


Q ss_pred             CCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHH-Hhc----CCceEEEEEEeCCccCCcchhHHHHHHHHHH
Q 018272          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIV-EES----GGLHHVLVIITSGQVATGSQQEQETIRSIVD  200 (358)
Q Consensus       126 ~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~-~~~----~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~  200 (358)
                      .. .-..+..    ..+.++.  +.|.|+...-|+.|.+.. ...    ...-.++++||||.-+|.   .. .      
T Consensus        59 ~~-~~~~~~~----~~~~i~~--~~g~T~~~~aL~~a~~~~~~~~~g~r~~~~~~iillTDG~~~~~---~~-~------  121 (179)
T 1mjn_A           59 YV-KRKDPDA----LLKHVKH--MLLLTNTFGAINYVATEVFREELGARPDATKVLIIITDGEATDS---GN-I------  121 (179)
T ss_dssp             HH-HHCCHHH----HHTTCCC--CCBCCCHHHHHHHHHHHTSSGGGTCCTTSEEEEEEEESSCCSSC---SC-C------
T ss_pred             cC-CHHHHHH----HHHhccc--CCCCChHHHHHHHHHHHhcccccCCCCCCCeEEEEEcCCCCCCC---cc-h------
Confidence            00 0011222    2233443  358899999999988632 211    124578899999998872   11 0      


Q ss_pred             hcCCCeEEEEEeeCCCC
Q 018272          201 ASSYPLSIVLVGVGDGP  217 (358)
Q Consensus       201 AS~lPlSIiiVGVG~~~  217 (358)
                      +...-+-|..||||+..
T Consensus       122 ~~~~~i~i~~igvG~~~  138 (179)
T 1mjn_A          122 DAAKDIIRYIIGIGKHF  138 (179)
T ss_dssp             GGGTTSEEEEEEESGGG
T ss_pred             HHHCCCEEEEEEccccc
Confidence            12345778899999764

>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=96.06  E-value=0.032  Score=57.06  Aligned_cols=141  Identities=13%  Similarity=0.139  Sum_probs=83.7

Q ss_pred             ceeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCCceeEEeecCCCCCCCCccccCCC
Q 018272           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQEN  126 (358)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d~ip~~GFGa~~~~~~~~f~~~~~  126 (358)
                      ...++++.||-|+|=..  .. . +++          -.+.++...++ .+..-..|.+-++.|+....    ..++.++
T Consensus       367 ~~~~v~lvvD~SgSM~~--~~-~-~~~----------l~~~~~Aa~l~-~~~~~~~d~vglv~Fs~~~~----~~~~t~~  427 (538)
T 1yvr_A          367 TGKRFLLAIDVSASMNQ--RV-L-GSI----------LNASVVAAAMC-MLVARTEKDSHMVAFSDEML----PCPITVN  427 (538)
T ss_dssp             CCCCEEEEEECSGGGGS--BS-T-TSS----------CBHHHHHHHHH-HHHHHHCSSEEEEEESSSEE----CCSCCTT
T ss_pred             CCceEEEEEECccccCC--CC-C-CCc----------HHHHHHHHHHH-HHHhccCCceEEEEECCCce----EcCCCCc
Confidence            35789999999988432  10 0 111          12333322222 22222334788899986321    1233332


Q ss_pred             CCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcCCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCe
Q 018272          127 DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPL  206 (358)
Q Consensus       127 ~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPl  206 (358)
                          .++..+++.-..    + ..|-|+++..|..+.+.    ....-++++||||..++...+..+..+.+.+..+.++
T Consensus       428 ----~~l~~~l~~l~~----~-~~GgT~i~~aL~~a~~~----~~~~~~iIliTDg~~~~g~~~~~~~l~~~~~~~~~~v  494 (538)
T 1yvr_A          428 ----MLLHEVVEKMSD----I-TMGSTDCALPMLWAQKT----NTAADIFIVFTDCETNVEDVHPATALKQYREKMGIPA  494 (538)
T ss_dssp             ----SCHHHHHHHHTT----C-CCSCCCTTHHHHHHHHT----TCCCSEEEEEECCCCCSSSCCHHHHHHHHHHHHTCCC
T ss_pred             ----ccHHHHHHHHhc----C-CCCCCcHHHHHHHHHhc----cCCCCEEEEEcCCCCCCCCCCHHHHHHHHHHHhCCCc
Confidence                246666554432    2 47889999988888665    2345678899999776411113455666666667889


Q ss_pred             EEEEEeeCCCCch
Q 018272          207 SIVLVGVGDGPWE  219 (358)
Q Consensus       207 SIiiVGVG~~~f~  219 (358)
                      .+++||+|.....
T Consensus       495 ~l~~igig~~~~~  507 (538)
T 1yvr_A          495 KLIVCAMTSNGFS  507 (538)
T ss_dssp             EEEEEECSSSSEE
T ss_pred             EEEEEEecCCCCc
Confidence            9999999987654

>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=95.54  E-value=0.059  Score=56.06  Aligned_cols=153  Identities=13%  Similarity=0.164  Sum_probs=96.5

Q ss_pred             eceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccc----cCCCceeEEeecCCCCCC----CCcc
Q 018272           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVL----FDGDCIRCYGFGDDTTRD----EGVF  121 (358)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~----yD~d~ip~~GFGa~~~~~----~~~f  121 (358)
                      .++++||.+.|=..   +        ..  +...++.+.|++.+..+++.    -..|++-++.||...+..    .+++
T Consensus        37 ~ivf~IDvS~SM~~---~--------d~--~~~~srl~~a~~~v~~~i~~kii~~~~D~vGlVlfgt~~t~n~l~~d~i~  103 (609)
T 1jey_A           37 SLIFLVDASKAMFE---S--------QS--EDELTPFDMSIQCIQSVYISKIISSDRDLLAVVFYGTEKDKNSVNFKNIY  103 (609)
T ss_dssp             EEEEEEECSGGGGC---C--------CS--SSSCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCCTTEE
T ss_pred             EEEEEEECCHHHcC---C--------CC--CCCCChHHHHHHHHHHHHHHhhCCCCCCeEEEEEEccCCCCCcCCCCCeE
Confidence            48999999876321   0        00  12468999999999988885    444599999999986421    2332


Q ss_pred             ccCC-CCCCCCCHHHHHHHHHhcCC---------ceeeccCCChHHHHHHHHHHHHhcCCc--eEEEEEEeCCccC-Cc-
Q 018272          122 SFQE-NDSPCQGFEHVLECYRKNVP---------NVQYFGPTSYAPMVEAAVDIVEESGGL--HHVLVIITSGQVA-TG-  187 (358)
Q Consensus       122 ~~~~-~~~~~~g~~gvl~~Y~~~l~---------~v~l~gpt~fapvI~~a~~~~~~~~~~--Y~VLlIiTDG~i~-d~-  187 (358)
                      -+.+ ..+   +.+ .++..++.+.         .+.....|.+...|.-|+++.++...+  --++++||||.-. .. 
T Consensus       104 v~~~L~~~---~~~-~ik~l~~l~~~~~~~~~~~~~g~~~~t~l~daL~~a~~~f~~~~~k~~~k~IiL~TDg~~p~~~~  179 (609)
T 1jey_A          104 VLQELDNP---GAK-RILELDQFKGQQGQKRFQDMMGHGSDYSLSEVLWVCANLFSDVQFKMSHKRIMLFTNEDNPHGND  179 (609)
T ss_dssp             EEEEEECC---CHH-HHHHHHTTSHHHHHHHHHHHHCCSCCCCHHHHHHHHHHHHHTCSSCEEEEEEEEEESCSCTTTTC
T ss_pred             EEecCCCC---CHH-HHHHHHHHhhcccchhhhhhcCCCCCCCHHHHHHHHHHHHHhhchhhcCCEEEEEcCCCCCCCCc
Confidence            2221 112   222 2233333221         011246799999999999988765332  3588899999643 10 


Q ss_pred             chhHHHHHHHHHHhcCCCeEEEEEeeCCCC-ch
Q 018272          188 SQQEQETIRSIVDASSYPLSIVLVGVGDGP-WE  219 (358)
Q Consensus       188 ~~~~~~t~~aIv~AS~lPlSIiiVGVG~~~-f~  219 (358)
                      .........+..++..+-|.|.+||||..+ |+
T Consensus       180 ~~~~~~~~~~a~~l~~~gI~i~~igig~~~~fd  212 (609)
T 1jey_A          180 SAKASRARTKAGDLRDTGIFLDLMHLKKPGGFD  212 (609)
T ss_dssp             HHHHHHHHHHHHHHHHHTEEEEEEEBCCTTCCC
T ss_pred             hHHHHHHHHHHHHHHhcCcEEEEEecCCCCccc
Confidence            000135677777888899999999999764 44

>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=95.32  E-value=0.058  Score=55.48  Aligned_cols=144  Identities=12%  Similarity=0.096  Sum_probs=93.5

Q ss_pred             eeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccc---cCCC-ceeEEeecCCCCCC-------
Q 018272           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVL---FDGD-CIRCYGFGDDTTRD-------  117 (358)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~---yD~d-~ip~~GFGa~~~~~-------  117 (358)
                      -.++++||.+.|=..       +       +....+..+.|...+..+++.   ..+. .+-+..||...+..       
T Consensus         8 e~iv~~iDvS~SM~~-------~-------d~~~~srl~~ak~~i~~~i~~ki~~~~~D~vGlv~f~~~~~~~plt~d~~   73 (565)
T 1jey_B            8 AAVVLCMDVGFTMSN-------S-------IPGIESPFEQAKKVITMFVQRQVFAENKDEIALVLFGTDGTDNPLSGGDQ   73 (565)
T ss_dssp             EEEEEEEECCGGGGC-------C-------BTTBCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCTTTC
T ss_pred             eEEEEEEECChHhcc-------c-------CCCCCCcHHHHHHHHHHHHHHHhcCCCCCEEEEEEEccCCCCCccccccC
Confidence            478999999877321       0       011468999999999988883   4454 99999999875321       


Q ss_pred             -CCccccCC-CCCCCCCHHHHHHHHHhcCCceeec-cCCChHHHHHHHHHHHHhc--CCce--EEEEEEeCCccCCcchh
Q 018272          118 -EGVFSFQE-NDSPCQGFEHVLECYRKNVPNVQYF-GPTSYAPMVEAAVDIVEES--GGLH--HVLVIITSGQVATGSQQ  190 (358)
Q Consensus       118 -~~~f~~~~-~~~~~~g~~gvl~~Y~~~l~~v~l~-gpt~fapvI~~a~~~~~~~--~~~Y--~VLlIiTDG~i~d~~~~  190 (358)
                       .+++-+.+ ..+   . ..+++...+.   ++.+ +.|.+...|..|++..++.  ..++  -++++||||.-.-   +
T Consensus        74 y~~i~vl~~l~~~---~-~~~l~~l~~~---l~~~~~~t~i~~al~~A~~~l~~~~~~~k~~~krIiLlTDg~~~~---~  143 (565)
T 1jey_B           74 YQNITVHRHLMLP---D-FDLLEDIESK---IQPGSQQADFLDALIVSMDVIQHETIGKKFEKRHIEIFTDLSSRF---S  143 (565)
T ss_dssp             STTEEEEEEEECC---C-HHHHHHHHTT---CCCCSSCCCHHHHHHHHHHHHHHHSSSSCCSEEEEEEECCCCSCC---C
T ss_pred             CCceEEeecCCCC---C-HHHHHHHHhh---ccCCCccccHHHHHHHHHHHHHHHhhcccccccEEEEEeCCCCCC---C
Confidence             12211111 011   1 1344444442   2333 6799999999999987765  3333  5778889996552   0


Q ss_pred             HHHHHHHHHHhcCCCeEEE-EEeeCCC
Q 018272          191 EQETIRSIVDASSYPLSIV-LVGVGDG  216 (358)
Q Consensus       191 ~~~t~~aIv~AS~lPlSIi-iVGVG~~  216 (358)
                      ..+..+++.++.+.-+.|. +||+|.+
T Consensus       144 ~~~~~~~a~~l~~~gI~i~~vig~g~~  170 (565)
T 1jey_B          144 KSQLDIIIHSLKKCDISLQFFLPFSLG  170 (565)
T ss_dssp             CTTHHHHHHHHHHTTEEEEEEESSCCC
T ss_pred             HHHHHHHHHHHHhcCcEEEEEeccCCC
Confidence            2356667777888899999 8999864

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster}

Probab=95.25  E-value=0.0065  Score=59.12  Aligned_cols=45  Identities=31%  Similarity=0.632  Sum_probs=34.9

Q ss_pred             ccCCCccCcccCCCC-ee-------e-cCCCCCchhhhhcC---------------CCCCCCccccCCe
Q 018272          309 AEAQRCCICCEDEKD-TA-------F-ECGHMSCIKCALRM---------------PQCPFCREEITTR  353 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~-~v-------~-pCgH~~C~~C~~~~---------------~~CP~CR~~i~~~  353 (358)
                      .....|.||++...+ ..       - .|||.|-..|+.++               ..||.||++|+..
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            456799999986555 11       1 69999999999875               2599999998764

>2nvo_A RO sixty-related protein, RSR; alpha helical repeats, VON willebrand factor A domain, beta- RNA binding protein; 1.89A {Deinococcus radiodurans}

Probab=95.11  E-value=0.084  Score=54.03  Aligned_cols=142  Identities=12%  Similarity=0.116  Sum_probs=83.3

Q ss_pred             ceeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCCceeEEeecCCCCCCCCccccCCC
Q 018272           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQEN  126 (358)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d~ip~~GFGa~~~~~~~~f~~~~~  126 (358)
                      ...+++|+||-|+|=.+.      + ...    ....+ +.++...++-++.. ..|.+-++.|++....    .++.+.
T Consensus       361 ~~~~~lv~vDvSgSM~~~------~-~~~----~~k~~-~~e~Aa~la~~~~r-~~d~v~lv~Fs~~~~~----~~~~~~  423 (535)
T 2nvo_A          361 ANTRHLLALDVSGSMTCG------D-VAG----VPGLT-PNMAAAAMSLIALR-TEPDALTMGFAEQFRP----LGITPR  423 (535)
T ss_dssp             CCSEEEEEECCSGGGGSC------C-GGG----CTTCC-HHHHHHHHHHHHHH-HSSEEEEEEEBSSEEE----CCCCTT
T ss_pred             CCceEEEEEECCccccCC------C-CCC----CCccc-HHHHHHHHHHHHcC-cCCceEEEEECCcceE----cCCCcc
Confidence            357899999999884310      0 001    11234 34444455533332 3336788899874321    123222


Q ss_pred             CCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcCCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCe
Q 018272          127 DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPL  206 (358)
Q Consensus       127 ~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPl  206 (358)
                          .++.++++   .+...  ..|.|+++..|+.+.+    .....-+++|||||+..+...+..+.++...+..+.++
T Consensus       424 ----~~l~~~l~---~l~~~--~~ggTdi~~~l~~a~~----~~~~~~~vIliTD~~~~~g~~~~~~al~~~r~~~~~~~  490 (535)
T 2nvo_A          424 ----DTLESAMQ---KAQSV--SFGGTDCAQPILWAAQ----ERLDVDTFVVYTDNETWAGQVHPTVALDQYAQKMGRAP  490 (535)
T ss_dssp             ----CCHHHHHH---HTCCS--SBCCCCTTHHHHHHHH----TTCCCSEEEEEESSCCCCCSSCHHHHHHHHHHHHSCCC
T ss_pred             ----hhHHHHHH---HHhhC--CCCCccHHHHHHHHHH----hcCCCCEEEEEeCCCccCCCCCHHHHHHHHHHhhCCCC
Confidence                35555444   33222  3689999998877633    23456788999999765421113455666666667899


Q ss_pred             EEEEEeeCCCCc
Q 018272          207 SIVLVGVGDGPW  218 (358)
Q Consensus       207 SIiiVGVG~~~f  218 (358)
                      -+++||||....
T Consensus       491 klv~i~l~~~~~  502 (535)
T 2nvo_A          491 KLIVVGLTATEF  502 (535)
T ss_dssp             EEEEEETTCSCC
T ss_pred             eEEEEeccCCCc
Confidence            999999998643

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=94.80  E-value=0.025  Score=42.92  Aligned_cols=45  Identities=22%  Similarity=0.561  Sum_probs=36.1

Q ss_pred             ccCCCccCcccCCCCeee--cCCCCCchhhhhcC------CCCCCCccccCCe
Q 018272          309 AEAQRCCICCEDEKDTAF--ECGHMSCIKCALRM------PQCPFCREEITTR  353 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~--pCgH~~C~~C~~~~------~~CP~CR~~i~~~  353 (358)
                      +....|.||++....-..  .|+|.|=..|+.++      ..||+||......
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            345799999998876544  89999999999865      5799999987653

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=94.18  E-value=0.018  Score=41.74  Aligned_cols=44  Identities=25%  Similarity=0.560  Sum_probs=32.2

Q ss_pred             ccCCCccCcccCCCCeee-cCCC-----CCchhhhhcC------CCCCCCccccCC
Q 018272          309 AEAQRCCICCEDEKDTAF-ECGH-----MSCIKCALRM------PQCPFCREEITT  352 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~-pCgH-----~~C~~C~~~~------~~CP~CR~~i~~  352 (358)
                      ++...|.||++...+..+ ||.+     .+=..|+.++      ..||+||..+..
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            456799999987655555 8654     3556788876      569999998753

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=88.97  E-value=0.13  Score=40.37  Aligned_cols=30  Identities=27%  Similarity=0.591  Sum_probs=23.8

Q ss_pred             cCCCccCcccC-CCCee---ecCCCCCchhhhhc
Q 018272          310 EAQRCCICCED-EKDTA---FECGHMSCIKCALR  339 (358)
Q Consensus       310 ~~~~C~IC~~~-~~~~v---~pCgH~~C~~C~~~  339 (358)
                      +...|.||.+. ..+++   +.|+|.||..|+..
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            35789999974 45544   39999999999986

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3

Probab=82.69  E-value=0.66  Score=35.69  Aligned_cols=31  Identities=35%  Similarity=0.808  Sum_probs=26.0

Q ss_pred             ccCCCccCcccCCCCeee-cC----CCCCchhhhhc
Q 018272          309 AEAQRCCICCEDEKDTAF-EC----GHMSCIKCALR  339 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~-pC----gH~~C~~C~~~  339 (358)
                      .....|.+|.++..+.-| .|    +|.||..|...
T Consensus        13 ~a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~   48 (93)
T 2cs3_A           13 SGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRE   48 (93)
T ss_dssp             CCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHH
T ss_pred             CCeeEeecchhhhccCceeeCCCccCCeeeccccHH
Confidence            456899999999999887 66    47799999884

---

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	358
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	1e-07
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-06
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	3e-06
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	4e-05
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	7e-04
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	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 = 46.9 bits (111), Expect = 1e-07
 Identities = 19/54 (35%), Positives = 23/54 (42%), Gaps = 6/54 (11%)

Query: 310 EAQRCCICCEDEKDTAF-ECGHMSCIKC-----ALRMPQCPFCREEITTRRRVY 357
             Q C IC E++KD     CGH+ C  C           CPFCR EI     + 
Sbjct: 22  TFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIV 75

>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 = 43.4 bits (102), Expect = 1e-06
 Identities = 16/50 (32%), Positives = 22/50 (44%), Gaps = 6/50 (12%)

Query: 309 AEAQRCCICCEDEKDTAF--ECGHMSCIKCALRM----PQCPFCREEITT 352
             A+RC IC ED  + +    C H  C  C  R     P CP C+  + +
Sbjct: 3   TVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES 52

>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 = 41.8 bits (98), Expect = 3e-06
 Identities = 13/47 (27%), Positives = 16/47 (34%), Gaps = 2/47 (4%)

Query: 307 EVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALR-MPQCPFCREEIT 351
           E  +  RC  C  + K      C H  C  C      QCP C+    
Sbjct: 2   EEFQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEASGMQCPICQAPWP 48

>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 = 39.5 bits (92), Expect = 4e-05
 Identities = 16/59 (27%), Positives = 19/59 (32%), Gaps = 6/59 (10%)

Query: 306 AEVAEAQRCCICCEDEKDTA-FECGHMSCIKCALRM-----PQCPFCREEITTRRRVYP 358
           A   ++  C IC     D     C H+ C  C LR        CP CR          P
Sbjct: 18  AHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESP 76

>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 = 7e-04
 Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 8/49 (16%)

Query: 313 RCCICCEDEKDTAF-ECGHMSCIKCALRM-------PQCPFCREEITTR 353
            C IC E  K+    +C H+ C  C L++        QCP C+ +IT R
Sbjct: 23  ECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR 71

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 32.9 bits (75), Expect = 0.004
 Identities = 11/51 (21%), Positives = 17/51 (33%), Gaps = 9/51 (17%)

Query: 310 EAQRCCICCEDEKD-----TAFECGHMSCIKCALRM----PQCPFCREEIT 351
           +   C +C  + +D         CGH    +C          CP CR  + 
Sbjct: 4   DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	358
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.9
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	98.9
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	98.8
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	98.8
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.68
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.67
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	98.66
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.57
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.54
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	98.54
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.5
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.48
d1shux_	181	Capillary morphogenesis protein 2 domain {Human (H	98.22
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	97.98
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	97.96
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	97.93
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	97.81
d1atza_	184	von Willebrand factor A3 domain, vWA3 {Human (Homo	97.53
d1v7pc_	193	Integrin alpha2-beta1 {Human (Homo sapiens) [TaxId	97.5
d1q0pa_	209	Complement factor B domain {Human (Homo sapiens) [	97.44
d1jeya2	220	Ku70 subunit N-terminal domain {Human (Homo sapien	97.41
d1pt6a_	192	Integrin alpha1-beta1 {Human (Homo sapiens) [TaxId	97.36
d1mf7a_	194	Integrin alpha M (CR3, CD11b/CD18, Mac-1 alpha sub	97.28
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	97.17
d1ijba_	202	von Willebrand factor A1 domain, vWA1 {Human (Homo	97.17
d1n3ya_	189	Integrin alpha-x beta2 {Human (Homo sapiens) [TaxI	96.82
d1jeyb2	236	Ku80 subunit N-terminal domain {Human (Homo sapien	96.15
d1mjna_	179	Integrin CD11a/CD18 (Leukocyte function associated	95.65
d1yvra2	174	60-kda SS-A/Ro ribonucleoprotein, RoRNP {African c	95.49

>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=98.90  E-value=3.4e-10  Score=80.72  Aligned_cols=44  Identities=27%  Similarity=0.577  Sum_probs=39.1

Q ss_pred             cCCCccCcccCCCCeee-cCCCCCchhhhhcC-CCCCCCccccCCe
Q 018272          310 EAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-PQCPFCREEITTR  353 (358)
Q Consensus       310 ~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-~~CP~CR~~i~~~  353 (358)
                      +..+|+||++...++++ ||||.||..|+.+. ..||+||+++...
T Consensus         5 ~~l~C~IC~~~~~~p~~lpCgH~fC~~Ci~~~~~~CP~Cr~~~~~~   50 (56)
T d1bora_           5 QFLRCQQCQAEAKCPKLLPCLHTLCSGCLEASGMQCPICQAPWPLG   50 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCSTTSCCSBTTTCSSSSSSCSSCCSSSSCC
T ss_pred             CCCCCcccCcccCCCEEecCCCHHhHHHHHcCCCcCcCCCCcccCC
Confidence            44699999999999887 99999999999987 5899999998753

>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=98.90  E-value=2.3e-10  Score=87.06  Aligned_cols=45  Identities=42%  Similarity=0.985  Sum_probs=39.2

Q ss_pred             CCccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCCeeec
Q 018272          312 QRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITTRRRV  356 (358)
Q Consensus       312 ~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~~~~~  356 (358)
                      ..|+||++...++++ +|||.||..|+.++     ..||+||..+...-.+
T Consensus        24 ~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~i   74 (79)
T d1fbva4          24 QLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI   74 (79)
T ss_dssp             TBCTTTSSSBCCEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCCCS
T ss_pred             CCCccCCCcCCCeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCcee
Confidence            579999999999888 99999999999765     5699999999886443

>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=98.80  E-value=3.3e-10  Score=87.71  Aligned_cols=48  Identities=31%  Similarity=0.597  Sum_probs=41.3

Q ss_pred             cccccCCCccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCCe
Q 018272          306 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITTR  353 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~~  353 (358)
                      .+..+...|+||++...+++. +|||.||+.|+.++     ..||+||.++...
T Consensus        18 ~d~~~~l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~   71 (86)
T d1rmda2          18 AHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPT   71 (86)
T ss_dssp             HHHHHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             hhhccCcCCccCCcchhcceecCCCChhhHHHHHHHHhhCCCcCcccCCCCChh
Confidence            455567899999999999988 99999999999975     5799999988753

>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=98.80  E-value=8.9e-10  Score=81.24  Aligned_cols=45  Identities=36%  Similarity=0.809  Sum_probs=38.1

Q ss_pred             CCCccCcccCCCCe-ee-cCCCCCchhhhhcC----CCCCCCccccCCeee
Q 018272          311 AQRCCICCEDEKDT-AF-ECGHMSCIKCALRM----PQCPFCREEITTRRR  355 (358)
Q Consensus       311 ~~~C~IC~~~~~~~-v~-pCgH~~C~~C~~~~----~~CP~CR~~i~~~~~  355 (358)
                      ...|+||++...+. +. +|||.||..|+.++    .+||+||.++.....
T Consensus         5 ~d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~~~~   55 (68)
T d1chca_           5 AERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVH   55 (68)
T ss_dssp             CCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCCCCEEC
T ss_pred             CCCCccCCcCccCCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcchHhhcc
Confidence            45799999988774 44 99999999999987    789999999987554

>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=98.68  E-value=1.9e-09  Score=85.57  Aligned_cols=46  Identities=35%  Similarity=0.845  Sum_probs=39.2

Q ss_pred             ccccCCCccCcccCCCCeee-cCCCCCchhhhhcC-------CCCCCCccccCC
Q 018272          307 EVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-------PQCPFCREEITT  352 (358)
Q Consensus       307 ~~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-------~~CP~CR~~i~~  352 (358)
                      .+.+...|+||++...+++. +|||.||..|+.++       ..||+||.++..
T Consensus        17 ~l~~~l~CpIC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   70 (103)
T d1jm7a_          17 AMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK   70 (103)
T ss_dssp             HHHHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCT
T ss_pred             hcccCcCCCccCchhCCeEEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCCh
Confidence            34566899999999999887 99999999998764       379999998864

>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=98.67  E-value=3.8e-09  Score=82.90  Aligned_cols=47  Identities=21%  Similarity=0.596  Sum_probs=40.5

Q ss_pred             cccccCCCccCcccCCCCee-e-cCCCCCchhhhhcC--CCCCCCccccCC
Q 018272          306 AEVAEAQRCCICCEDEKDTA-F-ECGHMSCIKCALRM--PQCPFCREEITT  352 (358)
Q Consensus       306 ~~~~~~~~C~IC~~~~~~~v-~-pCgH~~C~~C~~~~--~~CP~CR~~i~~  352 (358)
                      ..+.+...|+||++...+++ + +|||.||..|+.++  ..||.||.++..
T Consensus        17 ~~l~~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~~~   67 (97)
T d1jm7b_          17 DRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWI   67 (97)
T ss_dssp             HHHHHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTTBCSSSCCBCSC
T ss_pred             HhhhhcCCCccCCchhhcCceeCCCCCchhHHHHHHHHhccccccCCcCch
Confidence            45667889999999999976 4 89999999999987  569999998765

>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=98.66  E-value=3.2e-09  Score=77.58  Aligned_cols=43  Identities=26%  Similarity=0.631  Sum_probs=34.1

Q ss_pred             cCCCccCcccCC---C--Ceee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018272          310 EAQRCCICCEDE---K--DTAF-ECGHMSCIKCALRM-----PQCPFCREEITT  352 (358)
Q Consensus       310 ~~~~C~IC~~~~---~--~~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~  352 (358)
                      ++..|+||++..   .  .+++ +|||.||..|+.++     ..||+||+++..
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            457999999742   2  2344 99999999999876     469999999866

>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=98.57  E-value=1.4e-08  Score=71.81  Aligned_cols=44  Identities=25%  Similarity=0.730  Sum_probs=35.7

Q ss_pred             cccCCCccCcccCCCC---ee-e-cCCCCCchhhhhcC----CCCCCCccccC
Q 018272          308 VAEAQRCCICCEDEKD---TA-F-ECGHMSCIKCALRM----PQCPFCREEIT  351 (358)
Q Consensus       308 ~~~~~~C~IC~~~~~~---~v-~-pCgH~~C~~C~~~~----~~CP~CR~~i~  351 (358)
                      +++..+|+||++...+   +. + +|||.||..|+.++    ..||+||.++.
T Consensus         2 ~ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            4566789999997654   32 4 69999999999998    57999999763

>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=98.54  E-value=1.2e-08  Score=77.27  Aligned_cols=45  Identities=16%  Similarity=0.047  Sum_probs=39.8

Q ss_pred             cccCCCccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018272          308 VAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITT  352 (358)
Q Consensus       308 ~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~  352 (358)
                      +.+...|+||++..++++. +|||.||+.|+.++     ..||.||+++..
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            4577899999999999988 99999999998876     469999999875

>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=98.54  E-value=9.5e-09  Score=72.81  Aligned_cols=42  Identities=10%  Similarity=0.123  Sum_probs=37.4

Q ss_pred             CCccCcccCCCCeee--cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018272          312 QRCCICCEDEKDTAF--ECGHMSCIKCALRM----PQCPFCREEITTR  353 (358)
Q Consensus       312 ~~C~IC~~~~~~~v~--pCgH~~C~~C~~~~----~~CP~CR~~i~~~  353 (358)
                      +.|+||++..++++.  .|||.||+.|+.++    ..||+||+++...
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~   48 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE   48 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHH
Confidence            479999999999876  59999999999987    7899999998763

>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=1.2e-08  Score=71.17  Aligned_cols=41  Identities=29%  Similarity=0.583  Sum_probs=32.5

Q ss_pred             CCccCcccCCCC----eee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018272          312 QRCCICCEDEKD----TAF-ECGHMSCIKCALRM-----PQCPFCREEITT  352 (358)
Q Consensus       312 ~~C~IC~~~~~~----~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~  352 (358)
                      .+|+||++....    +.. +|||.+|..|+.++     ..||+||+++..
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            479999996532    223 89999999999986     359999998864

>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=98.48  E-value=2.1e-08  Score=75.41  Aligned_cols=46  Identities=24%  Similarity=0.303  Sum_probs=40.2

Q ss_pred             cccCCCccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCCe
Q 018272          308 VAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITTR  353 (358)
Q Consensus       308 ~~~~~~C~IC~~~~~~~v~-pCgH~~C~~C~~~~-----~~CP~CR~~i~~~  353 (358)
                      ..+...|+||++..++++. +|||.||+.|+.++     ..||.||.++...
T Consensus         5 iP~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~   56 (78)
T d1t1ha_           5 FPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             CSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             CCccCCCcCcCchhhCceEccCCCcchHHHHHHHHHHCCCCCCcccccCCcc
Confidence            4577999999999999988 99999999999865     4599999998763

>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=98.22  E-value=3e-06  Score=71.81  Aligned_cols=146  Identities=15%  Similarity=0.161  Sum_probs=96.7

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCC-C-ceeEEeecCCCCCCCCccccCC
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDG-D-CIRCYGFGDDTTRDEGVFSFQE  125 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~-d-~ip~~GFGa~~~~~~~~f~~~~  125 (358)
                      .+.+++.||-|.|-+                     +.+++....+..++..|.. + ++-+.-|+....   .+|+++.
T Consensus         5 ~~Div~llD~S~Sm~---------------------~~~~~~k~~~~~~~~~~~~~~~rvglv~fs~~~~---~~~~l~~   60 (181)
T d1shux_           5 AFDLYFVLDKSGSVA---------------------NNWIEIYNFVQQLAERFVSPEMRLSFIVFSSQAT---IILPLTG   60 (181)
T ss_dssp             CEEEEEEEECSGGGG---------------------GGHHHHHHHHHHHHHHCCCTTEEEEEEEESSSEE---EEEEEEC
T ss_pred             ceEEEEEEeCCCCcc---------------------cCHHHHHHHHHHHHHHhcCCCCEEEEEEeecceE---EEEEecC
Confidence            478999999765532                     1133344555555566655 4 899999988632   2355542


Q ss_pred             CCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhc--CCceEEEEEEeCCccCCcchhHHHHHHHHHHhcC
Q 018272          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES--GGLHHVLVIITSGQVATGSQQEQETIRSIVDASS  203 (358)
Q Consensus       126 ~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~--~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~  203 (358)
                            ..+.+.+. .+.++.+...|-|+....++.+.+.....  .....++++||||..++-  +.....++...+.+
T Consensus        61 ------~~~~~~~~-l~~l~~~~~~g~t~~~~al~~~~~~~~~~~~~~~~~~ivliTDG~~~~~--~~~~~~~~~~~~k~  131 (181)
T d1shux_          61 ------DRGKISKG-LEDLKRVSPVGETYIHEGLKLANEQIQKAGGLKTSSIIIALTDGKLDGL--VPSYAEKEAKISRS  131 (181)
T ss_dssp             ------CHHHHHHH-HHHHHTCCCCSCCCHHHHHHHHHHHHHHHTGGGSCEEEEEEECCCCCTT--HHHHHHHHHHHHHH
T ss_pred             ------CHHHHHHH-hhhcccccCCCcchHHHHHHHHHHHhhhcccCCCceEEEEecCCCCCCC--ccHHHHHHHHHHHH
Confidence                  22223222 22344566678899999999998876643  234678899999988761  13344556666667


Q ss_pred             CCeEEEEEeeCCCCchhhhhccC
Q 018272          204 YPLSIVLVGVGDGPWESIQKFHD  226 (358)
Q Consensus       204 lPlSIiiVGVG~~~f~~m~~LD~  226 (358)
                      .-+.|+.||+|+.+...|+.+-+
T Consensus       132 ~gv~v~~vgig~~~~~~L~~ia~  154 (181)
T d1shux_         132 LGASVYCVGVLDFEQAQLERIAD  154 (181)
T ss_dssp             TTCEEEEEECSSCCHHHHHHHSS
T ss_pred             CCCEEEEEEeCccCHHHHHHHhC
Confidence            88999999999988888888765

>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=97.98  E-value=7.3e-07  Score=71.20  Aligned_cols=42  Identities=31%  Similarity=0.666  Sum_probs=32.0

Q ss_pred             CCCccCcccCCCC------------------eee-cCCCCCchhhhhcC---------CCCCCCccccCC
Q 018272          311 AQRCCICCEDEKD------------------TAF-ECGHMSCIKCALRM---------PQCPFCREEITT  352 (358)
Q Consensus       311 ~~~C~IC~~~~~~------------------~v~-pCgH~~C~~C~~~~---------~~CP~CR~~i~~  352 (358)
                      ...|+||++...+                  ..+ +|||.||..|+..|         ..||+||..+..
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            3579999986432                  234 99999999999876         159999987644

>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=97.96  E-value=2.7e-06  Score=66.58  Aligned_cols=46  Identities=15%  Similarity=0.054  Sum_probs=39.6

Q ss_pred             ccccCCCccCcccCCCCeee-cCCC-CCchhhhhcC----CCCCCCccccCC
Q 018272          307 EVAEAQRCCICCEDEKDTAF-ECGH-MSCIKCALRM----PQCPFCREEITT  352 (358)
Q Consensus       307 ~~~~~~~C~IC~~~~~~~v~-pCgH-~~C~~C~~~~----~~CP~CR~~i~~  352 (358)
                      +..+...|+||.+..+++|. +||| .||+.|+.++    ..||+||+++..
T Consensus        18 ~~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~   69 (98)
T d1wgma_          18 DACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTM   69 (98)
T ss_dssp             SCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCT
T ss_pred             CCcHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHhcCCcccccccccc
Confidence            44567999999999999988 8876 5999999986    579999999875

>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=97.93  E-value=1.7e-06  Score=66.32  Aligned_cols=41  Identities=29%  Similarity=0.636  Sum_probs=31.9

Q ss_pred             CCCccCcccCCCC------------------eee-cCCCCCchhhhhcC----CCCCCCccccC
Q 018272          311 AQRCCICCEDEKD------------------TAF-ECGHMSCIKCALRM----PQCPFCREEIT  351 (358)
Q Consensus       311 ~~~C~IC~~~~~~------------------~v~-pCgH~~C~~C~~~~----~~CP~CR~~i~  351 (358)
                      ...|.||++...+                  ++. +|||.|+..|+.++    ..||+||++..
T Consensus        21 ~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          21 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            3468888764432                  334 99999999999987    67999999875

>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=97.81  E-value=2.3e-06  Score=60.74  Aligned_cols=44  Identities=23%  Similarity=0.490  Sum_probs=35.3

Q ss_pred             ccCCCccCcccCCCCeee-cC-----CCCCchhhhhcC------CCCCCCccccCC
Q 018272          309 AEAQRCCICCEDEKDTAF-EC-----GHMSCIKCALRM------PQCPFCREEITT  352 (358)
Q Consensus       309 ~~~~~C~IC~~~~~~~v~-pC-----gH~~C~~C~~~~------~~CP~CR~~i~~  352 (358)
                      ++...|.||++...+..+ ||     +|.|+..|+.++      ..||+||+++..
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            456799999997766554 55     499999999987      469999998753

>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=97.53  E-value=0.0004  Score=58.79  Aligned_cols=142  Identities=13%  Similarity=0.141  Sum_probs=95.4

Q ss_pred             eeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccC---CC-ceeEEeecCCCCCCCCccccC
Q 018272           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSFQ  124 (358)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD---~d-~ip~~GFGa~~~~~~~~f~~~  124 (358)
                      +.+++.||-|.|-+                    ...++++...+-.++..|+   .+ ++-+..||....   ..|+|+
T Consensus         3 lDivfliD~S~s~~--------------------~~~f~~~k~~v~~~i~~~~i~~~~~rv~vv~f~~~~~---~~~~l~   59 (184)
T d1atza_           3 LDVILLLDGSSSFP--------------------ASYFDEMKSFAKAFISKANIGPRLTQVSVLQYGSITT---IDVPWN   59 (184)
T ss_dssp             EEEEEEEECSSSSC--------------------HHHHHHHHHHHHHHHHHSCBSTTSEEEEEEEESSSEE---EEECTT
T ss_pred             eEEEEEEeCCCCCC--------------------HHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEEeccce---eecccc
Confidence            67889999776643                    1235666677777788885   34 799999987632   235554


Q ss_pred             CCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhc-----CCceEEEEEEeCCccCCcchhHHHHHHHHH
Q 018272          125 ENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES-----GGLHHVLVIITSGQVATGSQQEQETIRSIV  199 (358)
Q Consensus       125 ~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~-----~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv  199 (358)
                      .    ....+.++++-.+. +.  .+|.|+....|+.+.+..-..     ...--++++||||.-+|   +..+..+++.
T Consensus        60 ~----~~~~~~l~~~i~~l-~~--~gg~t~~~~al~~~~~~~~~~~~g~R~~~~kvvvlltdg~~~d---~~~~~a~~lk  129 (184)
T d1atza_          60 V----VPEKAHLLSLVDVM-QR--EGGPSQIGDALGFAVRYLTSEMHGARPGASKAVVILVTDVSVD---SVDAAADAAR  129 (184)
T ss_dssp             C----CCCHHHHHHHHHTC-CC--CCCCCCHHHHHHHHHHHHHSCCTTCCTTSEEEEEEEECSCCSS---CCHHHHHHHH
T ss_pred             c----cccHHHHHHHHHhh-hh--cccccchhhhhhHHHHHhhhhhcCCCCCCceEEEEEEecCccc---hhhHHHHHHH
Confidence            2    23566665555443 32  478999999999998886532     12356889999998777   2555555555


Q ss_pred             HhcCCCeEEEEEeeCCC-CchhhhhccC
Q 018272          200 DASSYPLSIVLVGVGDG-PWESIQKFHD  226 (358)
Q Consensus       200 ~AS~lPlSIiiVGVG~~-~f~~m~~LD~  226 (358)
                      +   .-+-|+.||||+. +-..|+.+-+
T Consensus       130 ~---~gi~v~~igiG~~~~~~~L~~ias  154 (184)
T d1atza_         130 S---NRVTVFPIGIGDRYDAAQLRILAG  154 (184)
T ss_dssp             H---TTEEEEEEEESSSSCHHHHHHHTG
T ss_pred             H---cCcEEEEEEeCCcCCHHHHHHHhC
Confidence            4   3688999999974 6666666643

>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=97.50  E-value=0.00073  Score=57.22  Aligned_cols=117  Identities=13%  Similarity=0.069  Sum_probs=79.4

Q ss_pred             HHHHHHHHhhcccccC---CC-ceeEEeecCCCCCCCCccccCCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHH
Q 018272           86 YQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEA  161 (358)
Q Consensus        86 Yq~aI~~ig~vl~~yD---~d-~ip~~GFGa~~~~~~~~f~~~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~  161 (358)
                      ++++.+.+-++++.|+   ++ ++-+.-||....   ..|+|+.    -...++++++-.+..+.  -+|.|+....|+.
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            4556666777788885   34 899999998743   2356642    13566777766554332  2457999999999


Q ss_pred             HHHHHH--hc---CCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCeEEEEEeeCC
Q 018272          162 AVDIVE--ES---GGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSIVLVGVGD  215 (358)
Q Consensus       162 a~~~~~--~~---~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPlSIiiVGVG~  215 (358)
                      |.+..-  ..   ...-.|+++||||..+|    ..++..+..++...-+.++-||||+
T Consensus        88 a~~~~f~~~~~~R~~~~kvvVllTDG~s~d----~~~~~~~~~~~~~~gv~v~~Igvg~  142 (193)
T d1v7pc_          88 ARKYAYSAASGGRRSATKVMVVVTDGESHD----GSMLKAVIDQCNHDNILRFGIAVLG  142 (193)
T ss_dssp             HHHHTTSGGGTCCTTSEEEEEEEESSCCSC----GGGHHHHHHHHHHTTEEEEEEEECH
T ss_pred             HHHhccccccCCCCCCceEEEEEecCCcCC----CccHHHHHHHHHhCCCEEEEEEeCC
Confidence            988742  11   12246888999999888    4455566666667788888888885

>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=97.44  E-value=0.00052  Score=58.30  Aligned_cols=152  Identities=13%  Similarity=0.069  Sum_probs=91.9

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhccccc---CCC-ceeEEeecCCCCCCCCcccc
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF---DGD-CIRCYGFGDDTTRDEGVFSF  123 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~y---D~d-~ip~~GFGa~~~~~~~~f~~  123 (358)
                      ++++++.+|-+.|=+                    .+.++++...+-.++..|   +.. ++-+..||....   ..+++
T Consensus         1 slDivfvlD~SgSm~--------------------~~~~~~~k~~~~~li~~l~~~~~~~rv~lv~f~~~~~---~~~~l   57 (209)
T d1q0pa_           1 SMNIYLVLDGSDSIG--------------------ASNFTGAKKSLVNLIEKVASYGVKPRYGLVTYATYPK---IWVKV   57 (209)
T ss_dssp             CEEEEEEEECSTTTC--------------------HHHHHHHHHHHHHHHHHHHTTTCCCEEEEEEESSSEE---EEECT
T ss_pred             CcCEEEEEeCCCCCC--------------------hHHHHHHHHHHHHHHHhcccCCCCcEEEEEEecCcee---EEecC
Confidence            478999999997732                    123455555555555555   456 899999997532   12444


Q ss_pred             CCCCCCCCCHHHHHHHHHhc-CCceeeccCCChHHHHHHHHHHHHhc--------CCceEEEEEEeCCccCCcchhHHHH
Q 018272          124 QENDSPCQGFEHVLECYRKN-VPNVQYFGPTSYAPMVEAAVDIVEES--------GGLHHVLVIITSGQVATGSQQEQET  194 (358)
Q Consensus       124 ~~~~~~~~g~~gvl~~Y~~~-l~~v~l~gpt~fapvI~~a~~~~~~~--------~~~Y~VLlIiTDG~i~d~~~~~~~t  194 (358)
                      +.  ........+.+.-.++ .......|-|+....|+.+.+.....        ...-.|++++|||.-++. .+..+.
T Consensus        58 ~~--~~~~~~~~l~~~i~~i~~~~~~~~g~t~~~~al~~a~~~~~~~~~~~~~~~~~~~kvvvl~TDG~~~~~-~~~~~~  134 (209)
T d1q0pa_          58 SE--ADSSNADWVTKQLNEINYEDHKLKSGTNTKKALQAVYSMMSWPDDVPPEGWNRTRHVIILMTDGLHNMG-GDPITV  134 (209)
T ss_dssp             TS--GGGGCHHHHHHHHHTCCTTSCSCTTCCCHHHHHHHHHHHHCCTTSSCCTTGGGCEEEEEEEECSCCCSS-SCTHHH
T ss_pred             cc--chhhHHHHHHHHHHHhhhccccCCCCchHHHHHHHHHHHHHhhhccCccccCCCceEEEEEcCCCccCC-CChHHH
Confidence            32  1122344444433333 12334678899999999998876432        112468899999987762 223455


Q ss_pred             HHHHHHhcC----------CCeEEEEEeeCC-CCchhhhhcc
Q 018272          195 IRSIVDASS----------YPLSIVLVGVGD-GPWESIQKFH  225 (358)
Q Consensus       195 ~~aIv~AS~----------lPlSIiiVGVG~-~~f~~m~~LD  225 (358)
                      .+.+.+...          ..+.|+.||||+ .+...|+.+=
T Consensus       135 ~~~~~~~~~~~~~~~~~~~~gi~i~~vgvg~~~~~~~L~~iA  176 (209)
T d1q0pa_         135 IDEIRDLLYIGKDRKNPREDYLDVYVFGVGPLVNQVNINALA  176 (209)
T ss_dssp             HHHHHHHTTCSCBTTBCCGGGEEEEEEECSSCCCHHHHHHHS
T ss_pred             HHHHHHhhhhHHHHHHHHhcCCceEEecCCccCCHHHHHHHH
Confidence            555554322          236788899985 4666666664

>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=0.0013  Score=56.16  Aligned_cols=157  Identities=13%  Similarity=0.142  Sum_probs=91.2

Q ss_pred             ceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhccccc----CCCceeEEeecCCCCCCC----Cc--
Q 018272           51 LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF----DGDCIRCYGFGDDTTRDE----GV--  120 (358)
Q Consensus        51 ~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~y----D~d~ip~~GFGa~~~~~~----~~--  120 (358)
                      +++.||-|.|=.             ..+.......++.|+.++-.+++.+    ..|++-++.||...+...    ++  
T Consensus         5 ivf~ID~S~SM~-------------~~d~~~~~s~~~~~~~~~~~~~~~~i~~~~~d~vglv~f~t~~~~~~~~~~~~~~   71 (220)
T d1jeya2           5 LIFLVDASKAMF-------------ESQSEDELTPFDMSIQCIQSVYISKIISSDRDLLAVVFYGTEKDKNSVNFKNIYV   71 (220)
T ss_dssp             EEEEEECSGGGG-------------CCCSSSSCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCCTTEEE
T ss_pred             EEEEEECCcccC-------------ccccCCCCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEEeccccccCCCcccchhh
Confidence            788999987732             1101234677888888888888876    444999999998754221    11  


Q ss_pred             -cccCCCCCCCCCHHHHHHHHHhcCC---------ceeeccCCChHHHHHHHHHHHHhcCCc--eEEEEEEeCCccCCc-
Q 018272          121 -FSFQENDSPCQGFEHVLECYRKNVP---------NVQYFGPTSYAPMVEAAVDIVEESGGL--HHVLVIITSGQVATG-  187 (358)
Q Consensus       121 -f~~~~~~~~~~g~~gvl~~Y~~~l~---------~v~l~gpt~fapvI~~a~~~~~~~~~~--Y~VLlIiTDG~i~d~-  187 (358)
                       +.+.  .+   . ...++..+....         .....|.|++...|..|.+..++...+  .-++++||||+-... 
T Consensus        72 ~~~l~--~~---~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~l~~al~~a~~~~~~~~~~~~~k~IiliTDg~~~~~~  145 (220)
T d1jeya2          72 LQELD--NP---G-AKRILELDQFKGQQGQKRFQDMMGHGSDYSLSEVLWVCANLFSDVQFKMSHKRIMLFTNEDNPHGN  145 (220)
T ss_dssp             EEEEE--CC---C-HHHHHHHHTTSHHHHHHHHHHHHCCSCCCCHHHHHHHHHHHHHTCSSCEEEEEEEEEESCSCTTTT
T ss_pred             hhccc--Cc---h-HHHHHhhhhhhhhhhhhhhhhcccCCCCccHHHHHHHHHHHHHhcccccCCcEEEEEecCCCCCCC
Confidence             1221  11   1 122222222211         122458899999999999988764322  357889999974320 


Q ss_pred             -chhHHHHHHHHHHhcCCCeEEEEEeeCCCCchhhhhccC
Q 018272          188 -SQQEQETIRSIVDASSYPLSIVLVGVGDGPWESIQKFHD  226 (358)
Q Consensus       188 -~~~~~~t~~aIv~AS~lPlSIiiVGVG~~~f~~m~~LD~  226 (358)
                       ..+..+.++.+.++...-+.|-.+|||..+--.++.++.
T Consensus       146 ~~~~~~~~~~~a~~~~~~gv~i~~i~ig~~~~~d~~~f~~  185 (220)
T d1jeya2         146 DSAKASRARTKAGDLRDTGIFLDLMHLKKPGGFDISLFYR  185 (220)
T ss_dssp             CHHHHHHHHHHHHHHHHHTEEEEEEEBCCTTCCCTTTTGG
T ss_pred             cchhhHHHHHHHHHHhhhcceEEEEEeCCCCCcchhhhHH
Confidence             122344555555555566777777777543222344443

>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=97.36  E-value=0.0014  Score=55.18  Aligned_cols=133  Identities=20%  Similarity=0.239  Sum_probs=88.3

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccC---CC-ceeEEeecCCCCCCCCcccc
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSF  123 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD---~d-~ip~~GFGa~~~~~~~~f~~  123 (358)
                      ++.+++.+|-|.|                +     .| ++++...+..++..|+   ++ ++-+.-||....   ..|+|
T Consensus         1 ~~DivfvlD~S~S----------------~-----~~-~~~~k~f~~~~i~~~~i~~~~~rv~vv~fs~~~~---~~~~l   55 (192)
T d1pt6a_           1 QLDIVIVLDGSNS----------------I-----YP-WDSVTAFLNDLLKRMDIGPKQTQVGIVQYGENVT---HEFNL   55 (192)
T ss_dssp             CEEEEEEEECCTT----------------C-----CC-HHHHHHHHHHHHTTSCBSTTSBEEEEEEESSSEE---EEECT
T ss_pred             CeEEEEEEECCCC----------------C-----CC-HHHHHHHHHHHHHHhccCCCCcEEEEEEEeccEE---EEEeC
Confidence            4678899995433                1     12 5667777777888885   34 899999987642   23566


Q ss_pred             CCCCCCCCCHHHHHHHHHhcCCceeecc-CCChHHHHHHHHHHHH--hc---CCceEEEEEEeCCccCCcchhHHHHHHH
Q 018272          124 QENDSPCQGFEHVLECYRKNVPNVQYFG-PTSYAPMVEAAVDIVE--ES---GGLHHVLVIITSGQVATGSQQEQETIRS  197 (358)
Q Consensus       124 ~~~~~~~~g~~gvl~~Y~~~l~~v~l~g-pt~fapvI~~a~~~~~--~~---~~~Y~VLlIiTDG~i~d~~~~~~~t~~a  197 (358)
                      +.    ....+.++++-.+...   ..| .++.+-.++.+.+..-  ..   ...-.|+++||||..+|    .....++
T Consensus        56 ~~----~~~~~~~~~~i~~~~~---~~g~~~~~~~al~~~~~~~~~~~~g~R~~~~kviillTDG~~~d----~~~~~~~  124 (192)
T d1pt6a_          56 NK----YSSTEEVLVAAKKIVQ---RGGRQTMTALGTDTARKEAFTEARGARRGVKKVMVIVTDGESHD----NHRLKKV  124 (192)
T ss_dssp             TT----CSSHHHHHHHHHTCCC---CCCSSCCHHHHHHHHHHTTTSGGGTCCTTCEEEEEEEESSCCSC----SHHHHHH
T ss_pred             Cc----chhhHHHHHHHhhhhh---hhhhccchHHHHHHHHHhhhccccCCCCCcceEEEEEecCCCCc----chhhHHH
Confidence            42    1356677777666543   234 4677777777665421  11   11236888899999888    4566777


Q ss_pred             HHHhcCCCeEEEEEeeCCC
Q 018272          198 IVDASSYPLSIVLVGVGDG  216 (358)
Q Consensus       198 Iv~AS~lPlSIiiVGVG~~  216 (358)
                      +..+-+.-+-|+.||||..
T Consensus       125 a~~lk~~gi~v~~igvg~~  143 (192)
T d1pt6a_         125 IQDCEDENIQRFSIAILGS  143 (192)
T ss_dssp             HHHHHHTTEEEEEEEECHH
T ss_pred             HHHHHHCCCeEEEEEEecc
Confidence            7777788999999999854

>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=97.28  E-value=7.2e-05  Score=63.85  Aligned_cols=144  Identities=18%  Similarity=0.198  Sum_probs=93.2

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC--ceeEEeecCCCCCCCCccccCC
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD--CIRCYGFGDDTTRDEGVFSFQE  125 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d--~ip~~GFGa~~~~~~~~f~~~~  125 (358)
                      .+++++.||-|.|-+                    ...+++++..+..++..++.+  ++-+..|+....   ..|+|+.
T Consensus         5 ~~DivfvlD~S~s~~--------------------~~~~~~~k~f~~~iv~~l~~~~~rv~vv~fs~~~~---~~~~l~~   61 (194)
T d1mf7a_           5 DSDIAFLIDGSGSII--------------------PHDFRRMKEFVSTVMEQLKKSKTLFSLMQYSEEFR---IHFTFKE   61 (194)
T ss_dssp             CEEEEEEEECCTTSC--------------------HHHHHHHHHHHHHHHHHHCCTTEEEEEEEESSSEE---EEECHHH
T ss_pred             CeeEEEEEECCCCCC--------------------HHHHHHHHHHHHHHHHHcCcCCceEEEEEEeccce---eEEeccc
Confidence            478999999887742                    123566778888888888766  899999988643   1244431


Q ss_pred             CCCCCCCHHHHHHHHHhcCCcee-eccCCChHHHHHHHHHHHHh--c---CCceEEEEEEeCCccCCcchhHHHHHHHHH
Q 018272          126 NDSPCQGFEHVLECYRKNVPNVQ-YFGPTSYAPMVEAAVDIVEE--S---GGLHHVLVIITSGQVATGSQQEQETIRSIV  199 (358)
Q Consensus       126 ~~~~~~g~~gvl~~Y~~~l~~v~-l~gpt~fapvI~~a~~~~~~--~---~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv  199 (358)
                      .    ...+++.++    +..+. .+|.|+....|+++.+..-.  .   ...-.|+++||||...+.   .....+++.
T Consensus        62 ~----~~~~~~~~~----i~~i~~~~~~t~~~~al~~~~~~~~~~~~~~~~~~~kvvvliTDG~~~~~---~~~~~~~~~  130 (194)
T d1mf7a_          62 F----QNNPNPRSL----VKPITQLLGRTHTATGIRKVVRELFNITNGARKNAFKILVVITDGEKFGD---PLGYEDVIP  130 (194)
T ss_dssp             H----HHSCCHHHH----HTTCCCCCSCBCHHHHHHHHHHTTTSGGGTCCTTSEEEEEEEESSCCBSC---SSCGGGTHH
T ss_pred             c----CCHHHHHHH----HhhhhhhhccchHHHHHHHHHHHHHhhhccCCCCCceEEEEEecCCCCCC---chhHHHHHH
Confidence            0    011123332    22332 46778888888888777521  1   122468889999987751   334556677


Q ss_pred             HhcCCCeEEEEEeeCCC--Cchhhhhcc
Q 018272          200 DASSYPLSIVLVGVGDG--PWESIQKFH  225 (358)
Q Consensus       200 ~AS~lPlSIiiVGVG~~--~f~~m~~LD  225 (358)
                      .+.+.-+-|+.||||+.  ....+++|.
T Consensus       131 ~~~~~gv~i~~VGi~~~~~~~~~~~~L~  158 (194)
T d1mf7a_         131 EADREGVIRYVIGVGDAFRSEKSRQELN  158 (194)
T ss_dssp             HHHHTTEEEEEEEESGGGCSHHHHHHHH
T ss_pred             HHHHcCCeeEEEecCCcccccccHHHHH
Confidence            77778899999999976  344555554

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.17  E-value=4.7e-05  Score=58.19  Aligned_cols=40  Identities=20%  Similarity=0.487  Sum_probs=30.0

Q ss_pred             cCCCccCcccCCCC---eee-cCCCCCchhhhhcC------------CCCCCCccc
Q 018272          310 EAQRCCICCEDEKD---TAF-ECGHMSCIKCALRM------------PQCPFCREE  349 (358)
Q Consensus       310 ~~~~C~IC~~~~~~---~v~-pCgH~~C~~C~~~~------------~~CP~CR~~  349 (358)
                      ....|+||++....   +.+ +|||.||..|+..+            -.||.|+-+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~   59 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACP   59 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCS
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCCC
Confidence            34689999997643   345 89999999998753            259986543

>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=97.17  E-value=0.0013  Score=56.13  Aligned_cols=147  Identities=7%  Similarity=0.072  Sum_probs=92.9

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhccccc---CCC-ceeEEeecCCCCCCCCcccc
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF---DGD-CIRCYGFGDDTTRDEGVFSF  123 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~y---D~d-~ip~~GFGa~~~~~~~~f~~  123 (358)
                      .+++++.||-|.|=+                    ...++.+.+.+..++..|   ..+ ++-+.-||....   ..|+|
T Consensus        13 ~~Dl~fvlD~S~S~~--------------------~~~f~~~k~fv~~~i~~l~~~~~~~rvavv~y~~~~~---~~~~l   69 (202)
T d1ijba_          13 LLDLVFLLDGSSRLS--------------------EAEFEVLKAFVVDMMERLRVSQKWVRVAVVEYHDGSH---AYIGL   69 (202)
T ss_dssp             CEEEEEEEECBTTSC--------------------HHHHHHHHHHHHHHHHTBCBSTTSEEEEEEEESSSEE---EEECT
T ss_pred             CeeEEEEEeCCCCCC--------------------HHHHHHHHHHHHHHHHHhccCCCCcEEEEEEEeccee---eecCC
Confidence            489999999876632                    012344555566677777   445 899999998643   23555


Q ss_pred             CCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhc---CCceEEEEEEeCCccCCcchhHHHHHHHHHH
Q 018272          124 QENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES---GGLHHVLVIITSGQVATGSQQEQETIRSIVD  200 (358)
Q Consensus       124 ~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~---~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~  200 (358)
                      +.    ...-+.+.+..++. +. .-++.|+-...|+.+.+.+-..   ...--++++||||...+..  .....+++..
T Consensus        70 ~~----~~~~~~l~~~i~~l-~~-~~g~~~~~~~al~~~~~~~~~~~~r~~~~k~vivitdg~~~~~~--~~~~~~~~~~  141 (202)
T d1ijba_          70 KD----RKRPSELRRIASQV-KY-AGSQVASTSEVLKYTLFQIFSKIDRPEASRIALLLMASQEPQRM--SRNFVRYVQG  141 (202)
T ss_dssp             TC----CCCHHHHHHHHHTC-CC-CCBSCCCHHHHHHHHHHHTSSSCSCTTSEEEEEEEECCCCCGGG--CTTHHHHHHH
T ss_pred             cc----cchHHHHHHHHHhh-hh-hhhccccHHHHHHHHHHHhhhhccCCCCcceEEEecccCCCccc--chHHHHHHHH
Confidence            42    23556666666553 32 1234678888999887764322   1345688999999876511  1234555555


Q ss_pred             hcCCCeEEEEEeeC-CCCchhhhhcc
Q 018272          201 ASSYPLSIVLVGVG-DGPWESIQKFH  225 (358)
Q Consensus       201 AS~lPlSIiiVGVG-~~~f~~m~~LD  225 (358)
                      +.+..+-|+.|||| ..+-..|+.+-
T Consensus       142 l~~~gv~i~~Vgig~~~~~~~L~~ia  167 (202)
T d1ijba_         142 LKKKKVIVIPVGIGPHANLKQIRLIE  167 (202)
T ss_dssp             HHHTTEEEEEEEESTTSCHHHHHHHH
T ss_pred             HHHcCCeEEEEEeCCcCCHHHHHHHh
Confidence            55678999999998 44556666663

>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=96.82  E-value=0.00045  Score=58.35  Aligned_cols=135  Identities=18%  Similarity=0.180  Sum_probs=85.1

Q ss_pred             eeeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC--ceeEEeecCCCCCCCCccccCC
Q 018272           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD--CIRCYGFGDDTTRDEGVFSFQE  125 (358)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d--~ip~~GFGa~~~~~~~~f~~~~  125 (358)
                      +..+++.||-|.|=+                    ...++++...+-.++..++.+  .+-+.-||.....   .|+|+.
T Consensus         2 e~DivfvlD~S~Sm~--------------------~~~~~~~k~~~~~~i~~l~~~~~rv~vv~fs~~~~~---~~~l~~   58 (189)
T d1n3ya_           2 EQDIVFLIDGSGSIS--------------------SRNFATMMNFVRAVISQFQRPSTQFSLMQFSNKFQT---HFTFEE   58 (189)
T ss_dssp             CEEEEEEEECCTTSC--------------------HHHHHHHHHHHHHHHTTSCTTTEEEEEEEESSSEEE---EECHHH
T ss_pred             CccEEEEEeCCCCCC--------------------hHHHHHHHHHHHHHHHHhCCCCCEEEEEEeecccee---eccccc
Confidence            467899999776632                    123666777788888889866  7999999986431   234321


Q ss_pred             CCCCCCCHHHHHHHHHhcCCce-eeccCCChHHHHHHHHHHHH--hc--C-CceEEEEEEeCCccCCcchhHHHHHHHHH
Q 018272          126 NDSPCQGFEHVLECYRKNVPNV-QYFGPTSYAPMVEAAVDIVE--ES--G-GLHHVLVIITSGQVATGSQQEQETIRSIV  199 (358)
Q Consensus       126 ~~~~~~g~~gvl~~Y~~~l~~v-~l~gpt~fapvI~~a~~~~~--~~--~-~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv  199 (358)
                      . .   ..+.+    .+.+..+ ...|.|+...-|+.+.+..-  ..  . .--.++++||||..++.   ..+..+++.
T Consensus        59 ~-~---~~~~~----~~~i~~~~~~~g~t~~~~al~~a~~~~f~~~~~~r~~~~kvivllTDG~~~~~---~~~~~~~~~  127 (189)
T d1n3ya_          59 F-R---RSSNP----LSLLASVHQLQGFTYTATAIQNVVHRLFHASYGARRDAAKILIVITDGKKEGD---SLDYKDVIP  127 (189)
T ss_dssp             H-H---HCSSG----GGGGTTCCCCCSCBCHHHHHHHHHTTTTSGGGTCCTTSEEEEEEEESSCCBSC---SSCHHHHHH
T ss_pred             c-c---cHHHH----HHHHHhhhhhhhhchHHHHHHHHHHHHhhhhcCCCCCCceEEEEEecCCCCCC---cccHHHHHH
Confidence            0 0   00011    1222223 25688999888888876532  11  1 12358889999988762   334556666


Q ss_pred             HhcCCCeEEEEEeeCCC
Q 018272          200 DASSYPLSIVLVGVGDG  216 (358)
Q Consensus       200 ~AS~lPlSIiiVGVG~~  216 (358)
                      .+-+.-+-|+.||+|+.
T Consensus       128 ~~~~~gv~i~~Vgig~~  144 (189)
T d1n3ya_         128 MADAAGIIRYAIGVGLA  144 (189)
T ss_dssp             HHHHTTCEEEEEEESGG
T ss_pred             HHHHCCCceEEEecccc
Confidence            66677889999999975

>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=96.15  E-value=0.049  Score=46.13  Aligned_cols=150  Identities=12%  Similarity=0.046  Sum_probs=85.6

Q ss_pred             ceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhccccc---CCC-ceeEEeecCCCCCCCC-------
Q 018272           51 LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF---DGD-CIRCYGFGDDTTRDEG-------  119 (358)
Q Consensus        51 ~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~y---D~d-~ip~~GFGa~~~~~~~-------  119 (358)
                      ++++||.+.|=..             . ++...+.++.|.+.+..+++..   ++. ++-+..||...+....       
T Consensus         5 iv~~lD~S~SM~~-------------~-~~~~~srl~~ak~~~~~~v~~~~~~~~~d~vglV~f~~~~t~~~~~~~~~~~   70 (236)
T d1jeyb2           5 VVLCMDVGFTMSN-------------S-IPGIESPFEQAKKVITMFVQRQVFAENKDEIALVLFGTDGTDNPLSGGDQYQ   70 (236)
T ss_dssp             EEEEEECCGGGGC-------------C-BTTBCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCTTTCST
T ss_pred             EEEEEECChhhcc-------------C-CCCCCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEcCCCcccccccccccc
Confidence            6889999877321             0 1234689999999999998876   555 9999999987542210       


Q ss_pred             -ccccCCCCCCCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhc--CC--ceEEEEEEeCCccCCcchhHHHH
Q 018272          120 -VFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES--GG--LHHVLVIITSGQVATGSQQEQET  194 (358)
Q Consensus       120 -~f~~~~~~~~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~--~~--~Y~VLlIiTDG~i~d~~~~~~~t  194 (358)
                       +.-+.  ....... +.++........  -.+.+++...|..|++.....  ..  .--++++||||+-.. +  .+..
T Consensus        71 ~i~~~~--~~~~~~~-~~~~~~~~~~~~--~~~~~~~~~al~~a~~~~~~~~~~~~~~~r~IiL~TDG~~~~-~--~~~~  142 (236)
T d1jeyb2          71 NITVHR--HLMLPDF-DLLEDIESKIQP--GSQQADFLDALIVSMDVIQHETIGKKFEKRHIEIFTDLSSRF-S--KSQL  142 (236)
T ss_dssp             TEEEEE--EEECCCH-HHHHHHHTTCCC--CSSCCCHHHHHHHHHHHHHHHSSSSCCSEEEEEEECCCCSCC-C--CTTH
T ss_pred             eEEEEe--ccccchh-hHHHHHhhhccc--cccccchhHHHHHHHHHHHHhhhcccccccEEEEEecCCCCc-C--hHHH
Confidence             00000  0011122 333333333322  245688888899888886542  11  124567779996432 1  1222


Q ss_pred             HHHHHHhcCCCeEEEEEeeCCCCchhhh
Q 018272          195 IRSIVDASSYPLSIVLVGVGDGPWESIQ  222 (358)
Q Consensus       195 ~~aIv~AS~lPlSIiiVGVG~~~f~~m~  222 (358)
                      ..++..+.+.-+.|-+||+|..+.....
T Consensus       143 ~~~a~~l~~~~I~i~~ig~g~~~~~~~~  170 (236)
T d1jeyb2         143 DIIIHSLKKCDISLQFFLPFSLGKEDGS  170 (236)
T ss_dssp             HHHHHHHHHTTEEEEEEESSCCC-----
T ss_pred             HHHHHHHHHcCCEEEEEecCCcCCCccc
Confidence            2333444456788889999977655443

>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=95.65  E-value=0.0049  Score=51.43  Aligned_cols=127  Identities=16%  Similarity=0.172  Sum_probs=80.3

Q ss_pred             eeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCC--ceeEEeecCCCCCCCCccccCCC
Q 018272           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD--CIRCYGFGDDTTRDEGVFSFQEN  126 (358)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d--~ip~~GFGa~~~~~~~~f~~~~~  126 (358)
                      +++.+.||-|.|=+                    ...++++...+-.++..+.++  ++-+.-||.....   .|+|+..
T Consensus         3 ~DivfllD~S~Si~--------------------~~~f~~~k~f~~~~i~~i~~~~~rvgvv~fs~~~~~---~~~l~~~   59 (179)
T d1mjna_           3 VDLVFLFDGSMSLQ--------------------PDEFQKILDFMKDVMKKCSNTSYQFAAVQFSTSYKT---EFDFSDY   59 (179)
T ss_dssp             EEEEEEEECBTTCC--------------------HHHHHHHHHHHHHHHHHTTTSSEEEEEEEESSSEEE---EECHHHH
T ss_pred             eEEEEEEECCCCCC--------------------HHHHHHHHHHHHHHHHHhCCCceEEEEEEEeeeeeE---Eechhhc
Confidence            67889999887632                    133667777777788888766  8999999986431   2444310


Q ss_pred             CCCCCCHHHHHHHHHhcCCcee-eccCCChHHHHHHHHHHH-H-hc---CCceEEEEEEeCCccCCcchhHHHHHHHHHH
Q 018272          127 DSPCQGFEHVLECYRKNVPNVQ-YFGPTSYAPMVEAAVDIV-E-ES---GGLHHVLVIITSGQVATGSQQEQETIRSIVD  200 (358)
Q Consensus       127 ~~~~~g~~gvl~~Y~~~l~~v~-l~gpt~fapvI~~a~~~~-~-~~---~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~  200 (358)
                          ...+.+.++    +..++ ..|.|+....|+.+.+.. . ..   ...-.|+++||||..+|.    .      ..
T Consensus        60 ----~~~~~~~~~----i~~i~~~~g~t~~~~AL~~~~~~~f~~~~g~R~~~~kvvvllTDG~s~d~----~------~~  121 (179)
T d1mjna_          60 ----VKRKDPDAL----LKHVKHMLLLTNTFGAINYVATEVFREELGARPDATKVLIIITDGEATDS----G------NI  121 (179)
T ss_dssp             ----HHHCCHHHH----HTTCCCCCBCCCHHHHHHHHHHHTSSGGGTCCTTSEEEEEEEESSCCSSC----S------CC
T ss_pred             ----cchHHHHHH----HhhhhcccCcchHHHHHHHHHHHHhchhcCCCCCCCeEEEEEECCCCccc----c------hH
Confidence                011123232    22332 468899999999887653 1 11   123478899999998872    1      12


Q ss_pred             hcCCCeEEEEEeeCCC
Q 018272          201 ASSYPLSIVLVGVGDG  216 (358)
Q Consensus       201 AS~lPlSIiiVGVG~~  216 (358)
                      ++..-+-+..||||..
T Consensus       122 ~~~~~i~~~~igvg~~  137 (179)
T d1mjna_         122 DAAKDIIRYIIGIGKH  137 (179)
T ss_dssp             GGGTTSEEEEEEESGG
T ss_pred             HHHhcCccceEEeccc
Confidence            3345778888899875

>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=95.49  E-value=0.061  Score=43.93  Aligned_cols=140  Identities=13%  Similarity=0.164  Sum_probs=81.9

Q ss_pred             eeceEEEeccCCCCCCCCCCCCCCCcccccCCCCCChHHHHHHHHhhcccccCCCceeEEeecCCCCCCCCccccCCCCC
Q 018272           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDS  128 (358)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~sLH~~~~~~~~N~Yq~aI~~ig~vl~~yD~d~ip~~GFGa~~~~~~~~f~~~~~~~  128 (358)
                      ..++++||-|.|=++  ..         .  .......+.|+......+  ...+.+-++.|+.....    +++.+.  
T Consensus         6 ~~~vl~iD~SGSM~~--~~---------~--~~~~~~~~~a~~~~~~~~--~~~~~~~vv~F~~~~~~----~~~~~~--   64 (174)
T d1yvra2           6 KRFLLAIDVSASMNQ--RV---------L--GSILNASVVAAAMCMLVA--RTEKDSHMVAFSDEMLP----CPITVN--   64 (174)
T ss_dssp             CCEEEEEECSGGGGS--BS---------T--TSSCBHHHHHHHHHHHHH--HHCSSEEEEEESSSEEC----CSCCTT--
T ss_pred             CeEEEEEECccccCC--cc---------c--CccHHHHHHHHHHHHHhh--ccCCcEEEEEecCCccc----cccCcc--
Confidence            368999999988431  10         0  122344555543332222  22336788999886321    122221  


Q ss_pred             CCCCHHHHHHHHHhcCCceeeccCCChHHHHHHHHHHHHhcCCceEEEEEEeCCccCCcchhHHHHHHHHHHhcCCCeEE
Q 018272          129 PCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETIRSIVDASSYPLSI  208 (358)
Q Consensus       129 ~~~g~~gvl~~Y~~~l~~v~l~gpt~fapvI~~a~~~~~~~~~~Y~VLlIiTDG~i~d~~~~~~~t~~aIv~AS~lPlSI  208 (358)
                        ..+.++++.-.    .. ..|-|+++..|+.+.+.    ..++-++++||||+.+....+..+..+...+..+-|.-+
T Consensus        65 --~~~~~~~~~~~----~~-~~ggT~i~~al~~a~~~----~~~~~~ivllTDg~~~~g~~~~~~~l~~y~~~~~~~~~~  133 (174)
T d1yvra2          65 --MLLHEVVEKMS----DI-TMGSTDCALPMLWAQKT----NTAADIFIVFTDCETNVEDVHPATALKQYREKMGIPAKL  133 (174)
T ss_dssp             --SCHHHHHHHHT----TC-CCSCCCTTHHHHHHHHT----TCCCSEEEEEECCCCCSSSCCHHHHHHHHHHHHTCCCEE
T ss_pred             --chHHHHHHHhh----cc-ccccccHHHHHHHHHhh----hccCCEEEEEeCCCccCCCCCHHHHHHHHHHHcCCCcEE
Confidence              25666554322    22 24569988877766543    345668899999986542111355666677777889999


Q ss_pred             EEEeeCCCCchh
Q 018272          209 VLVGVGDGPWES  220 (358)
Q Consensus       209 iiVGVG~~~f~~  220 (358)
                      ++||++...+..
T Consensus       134 ~~i~l~~~g~~~  145 (174)
T d1yvra2         134 IVCAMTSNGFSI  145 (174)
T ss_dssp             EEEECSSSSEES
T ss_pred             EEEECcCCCCcc
Confidence            999997765553