Citrus Sinensis ID: 018644

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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--
Protein Sequence
MVIPSNNWPFAAAGTSRRQSSVDFAEPPRFDDELPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETISSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSRMTGRAKKITPKPPPVLSSHCARQMGPVSAEVAEAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVYP
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccHHHHcccccccEEcEEEEEEccccccccccccccccccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccEEEEcccccHHHHHHHHHHHHHHccccEEEEEEccccccccHHHHHHHHHcccccEEEEEccccccHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccHHHHHcccccccccHHHHcccccccc
Secondary Structure Prediction (SSPRO)
cccccccccHHHcccccccccccccccccccccHHHHHHHHHHccccEEEEEEEEEEcccccccccccccccccEEEcccccccHHHHHHHHHHHHHHHccHccccccccccccccccccEccccccccccHHHHHHHHHHHHcccEEEcccccHHHHHHHHHHHHHHccccEEEEEEEEccEEccccHHHHHHHHccccEEEEEEcccccHHHHHHHcccccccHHccEEEEcHHHHHcccccccHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccEEEccccccccccccccHHHcccccccccccccccEEEEEEcc
Coil and Loop (DISEMBL)
mvipsnnwpfaaagtsrrqssvdfaepprfddelpeapagvrdpskvRYKLIFGidftasnlwagkfsfeneslhtivdgdtlnpyQEVIYITGKElvlfdgdcircygfgddttrdegvfsfqendspcqgfEHVLECYRknvpnvqyfgptsyapMVEAAVDIVEESGGLHHVLVIITsgqvatgsqqeqetissyPLSIVLVGvgdgpwesIQKFHdkipalqfdnfhfvNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSRMtgrakkitpkpppvlsshcarqmgpvSAEVAEAQRCCiccedekdtafecghmscikcalrmpqcpfcreeittrrrvyp
Flexible Loop (DISEMBL)
mvipsnnwpfaaagtsrrqssvDFAEPprfddelpeapagvrdpskVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETISSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSRMTGRAKKITPKPPPVLSSHCARQMGPVSAEVAEAQRCCICCEDEKDTAFECGHMSCIkcalrmpqcpfcreeittrrrvyp
Low Complexity Region (SEG)
MVIPSNNWPFAAAGTSRRQSSVDFAEPPRFDDELPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETISSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSRMTGRAKKITPKPPPVLSSHCARQMGPVSAEVAEAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVYP
Disordered region (IsUnstruct)
*********************************************KVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVAT*******TISSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALINASMAADEL*********************************AEVAEAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEIT*******
Disordered Region (DISOPRED)
**************************PPRFDDELPEAPAGVRDPSKVRYKLIFGIDFTASNLW****SFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETISSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSRMTGRAKKITPKPPPVLSSHCARQMGPVSAEVAEAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVYP
Disordered Region (DISEMBL)
MVIPSNNWPFA***************PPRFDDELPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQ***********ISSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSRMTGRAKKITPKPPPVLSSHCARQMGPVSAEVAEAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEI********
Disordered Region (DISPRO)
**********************DFAEPPRFDDELPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETISSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSRMT***KKITPKPPP*******************AQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVYP
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVIPSNNWPFAAAGTSRRQSSVDFAEPPRFDDELPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETISSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSRMTGRAKKITPKPPPVLSSHCARQMGPVSAEVAEAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVYP
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	352	2.2.26 [Sep-21-2011]
Q9LY87	468	E3 ubiquitin-protein liga	no	no	0.852	0.641	0.415	4e-66
Q9SS90	489	E3 ubiquitin-protein liga	no	no	0.840	0.605	0.432	4e-66
Q09221	7705	Copine family protein 2 O	no	no	0.528	0.024	0.464	4e-45
Q1RLL3	553	Copine-9 OS=Mus musculus	yes	no	0.431	0.274	0.338	3e-12
Q5BJS7	553	Copine-9 OS=Rattus norveg	yes	no	0.431	0.274	0.333	3e-12
Q8IYJ1	553	Copine-9 OS=Homo sapiens	yes	no	0.431	0.274	0.338	4e-12
Q5S1W2	586	Protein BONZAI 2 OS=Arabi	no	no	0.465	0.279	0.315	6e-11
Q96FN4	548	Copine-2 OS=Homo sapiens	no	no	0.539	0.346	0.269	7e-11
Q7YXU4	600	Copine-A OS=Dictyostelium	no	no	0.494	0.29	0.298	8e-11
Q9HCH3	593	Copine-5 OS=Homo sapiens	no	no	0.446	0.264	0.302	2e-10

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

 Score =  252 bits (643), Expect = 4e-66,   Method: Compositional matrix adjust.
 Identities = 145/349 (41%), Positives = 188/349 (53%), Gaps = 49/349 (14%)

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--------SQQEQETI------SSYPLSIVLVGVGDGPWES 214
           SGG +HVLVII  GQV           S QEQ+T+      S  PLSIVLVGVGDGPW+ 
Sbjct: 240 SGGQYHVLVIIADGQVTRSVDTENGQLSPQEQKTVDAIVQASKLPLSIVLVGVGDGPWDM 299

Query: 215 IQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALI----NASMAADELGIMS 270
           +++F D IPA  FDNF FVNFT IM+K    + K  +FA + +        A  EL ++ 
Sbjct: 300 MREFDDNIPARAFDNFQFVNFTEIMAKNKAQSLKETEFALSALMEIPQQYKATIELNLLG 359

Query: 271 RMTGRAKKITPKPPPVLSSHCARQ-------------MGPVSAE---------------V 302
           R  G   +  P PPP+     +               + P   E                
Sbjct: 360 RRNGYIPERFPLPPPMRGGSSSYNSPKPSRLPSFKPSVPPHPTEGYHVRSSPVPPPTSSA 419

Query: 303 AEAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVY 351
           ++ 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 =  251 bits (642), Expect = 4e-66,   Method: Compositional matrix adjust.
 Identities = 147/340 (43%), Positives = 189/340 (55%), Gaps = 44/340 (12%)

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--------SQQEQETI------SSYPLSIVLVGVGDGPWES 214
           S G +HVLVII  GQV           S QEQ+T+      S+ PLSIVLVGVGDGPW+ 
Sbjct: 274 SSGQYHVLVIIADGQVTRSVDTEHGRLSPQEQKTVDAIVKASTLPLSIVLVGVGDGPWDM 333

Query: 215 IQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFA-AALINAS---MAADELGIMS 270
           +Q+F D IPA  FDNF FVNFT IMSK    + K  +FA +AL+       A  EL ++ 
Sbjct: 334 MQEFDDNIPARAFDNFQFVNFTEIMSKNKDQSRKETEFALSALMEIPPQYKATIELNLLG 393

Query: 271 RMTGRAKKITPKPPPVLSSHC-------------------ARQMGPVSAEVAEAQRCCIC 311
              G   +  P PPPV S                      ++QM    +   + Q C IC
Sbjct: 394 VRNGNIPQRIPLPPPVQSGSSFSSSRIPNFEPSVPPYPFESKQM----SSADDIQLCPIC 449

Query: 312 CEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVY 351
             + 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 =  182 bits (461), Expect = 4e-45,   Method: Compositional matrix adjust.
 Identities = 91/196 (46%), Positives = 124/196 (63%), Gaps = 10/196 (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  EESGGLHHVLVIITSGQVATGSQQEQETI---SSYPLSIVLVGVGDGPWESIQKFHDKIP 223
            +E    +H+LVI+  GQV T  +  Q+ I   S YPLSI++VGVGDGPW  + +F D IP
Sbjct: 7595 KEKHS-YHILVIVADGQV-TNEKINQKAIAAASHYPLSIIMVGVGDGPWNMMGRFDDNIP 7652

Query: 224  ALQFDNFHFVNFTAIM 239
               FDNFHFV+F  +M
Sbjct: 7653 KRLFDNFHFVDFHKVM 7668

Caenorhabditis elegans (taxid: 6239)

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

 Score = 72.8 bits (177), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 62/183 (33%), Positives = 95/183 (51%), Gaps = 31/183 (16%)

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 --EAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETI--SSYPLSIVLVGVGDGPWESI 215
              AA  I +  G  ++VL+IIT G ++  +Q ++  +  SS P+SI++VGVG   +E++
Sbjct: 412 VARAAAKISD--GSQYYVLLIITDGVISDMTQTKEAIVSASSLPMSIIIVGVGPAMFEAM 469

Query: 216 QKF 218
           ++ 
Sbjct: 470 EEL 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 = 72.8 bits (177), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 61/183 (33%), Positives = 94/183 (51%), Gaps = 31/183 (16%)

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 --EAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETI--SSYPLSIVLVGVGDGPWESI 215
              AA  I +  G  ++VL+IIT G ++  +Q ++  +  SS P+SI++VGVG   +E++
Sbjct: 412 VARAAAKISD--GSQYYVLLIITDGVISDMTQTKEAIVSASSLPMSIIIVGVGPAMFEAM 469

Query: 216 QKF 218
           ++ 
Sbjct: 470 EEL 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 = 72.4 bits (176), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 62/183 (33%), Positives = 95/183 (51%), Gaps = 31/183 (16%)

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 --EAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETI--SSYPLSIVLVGVGDGPWESI 215
              AA  I +  G  ++VL+IIT G ++  +Q ++  +  SS P+SI++VGVG   +E++
Sbjct: 412 VARAAAKISD--GSQYYVLLIITDGVISDMTQTKEAIVSASSLPMSIIIVGVGPAMFEAM 469

Query: 216 QKF 218
           ++ 
Sbjct: 470 EEL 472

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

Homo sapiens (taxid: 9606)

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

 Score = 68.9 bits (167), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 59/187 (31%), Positives = 92/187 (49%), Gaps = 23/187 (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----DIVEESGGLHHVLVIITSGQVATGSQQEQETI---SSYPLSIVLVGVGD 209
           P++ AA     D + +S   ++VL+IIT G V T  Q+ +++I   S  PLSI++VGVG 
Sbjct: 452 PVINAAATIASDSLAQSAKKYYVLLIITDG-VITDLQETRDSIVSASDLPLSILIVGVGG 510

Query: 210 GPWESIQ 216
             ++ ++
Sbjct: 511 ADYKEME 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 = 68.6 bits (166), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 62/230 (26%), Positives = 108/230 (46%), Gaps = 40/230 (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-----AAVDIVEESGGLHHVLVIITSGQVATGSQQEQETI--SSYPLS 201
           ++GPT+++P+V      AA    + +   + +L+IIT G ++   +     +  S  P+S
Sbjct: 407 FYGPTNFSPIVNHVARFAAQATQQRTATQYFILLIITDGVISDMEETRHAVVQASKLPMS 466

Query: 202 IVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKD 251
           I++VGVG+  + +++               F++  + M ++ T  E A+D
Sbjct: 467 IIIVGVGNADFAAME---------------FLDGDSRMLRSHTGEEAARD 501

Homo sapiens (taxid: 9606)

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

 Score = 68.2 bits (165), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 57/191 (29%), Positives = 85/191 (44%), Gaps = 17/191 (8%)

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----EESGGLHHVLVIITSGQVATGSQQEQETI--SSYPLSIVLVGVGDGPWESI 215
           A         +S   + +L+IIT G++          +  S  PLSI++VGVG+  + ++
Sbjct: 399 AARYASQGQSQSNQKYTILMIITDGEILDADNTIDAIVKSSGLPLSIIIVGVGNANFTNM 458

Query: 216 QKFHDKIPALQ 226
                   ALQ
Sbjct: 459 NILDGDDAALQ 469

Required for cytokinesis, contractile vacuole function and development.

Dictyostelium discoideum (taxid: 44689)

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

 Score = 67.4 bits (163), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 52/172 (30%), Positives = 89/172 (51%), Gaps = 15/172 (8%)

Query: 54  GIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFG- 111
            IDFTASN   G  S ++ SLH +     LN Y   +   G+ +  +D D      GFG 
Sbjct: 332 AIDFTASN---GNPS-QSTSLHYM-SPYQLNAYALALTAVGEIIQHYDSDKMFPALGFGA 386

Query: 112 ----DDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVE--AAVDI 165
               D     E   +  + +  C G + +LE Y +++  VQ +GPT++AP+V   A    
Sbjct: 387 KLPPDGRVSHEFPLNGNQENPSCCGIDGILEAYHRSLRTVQLYGPTNFAPVVTHVARNAA 446

Query: 166 VEESGGLHHVLVIITSGQVATGSQQEQETISS--YPLSIVLVGVGDGPWESI 215
             + G  + VL+IIT G ++  +Q ++  +++   P+SI++VGVG   ++++
Sbjct: 447 AVQDGSQYSVLLIITDGVISDMAQTKEAIVNAAKLPMSIIIVGVGQAEFDAM 498

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

Homo sapiens (taxid: 9606)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	352
224112337	396	predicted protein [Populus trichocarpa]	0.897	0.797	0.523	9e-88
357139581	402	PREDICTED: E3 ubiquitin-protein ligase R	0.903	0.791	0.517	2e-87
359494663	450	PREDICTED: E3 ubiquitin-protein ligase R	0.846	0.662	0.518	5e-86
356556700	417	PREDICTED: E3 ubiquitin-protein ligase R	0.954	0.805	0.484	3e-85
297736098	5665	unnamed protein product [Vitis vinifera]	0.843	0.052	0.520	5e-85
356526411	425	PREDICTED: E3 ubiquitin-protein ligase R	0.965	0.8	0.479	1e-84
242078093	408	hypothetical protein SORBIDRAFT_07g00270	0.965	0.833	0.480	7e-84
356528633	451	PREDICTED: E3 ubiquitin-protein ligase R	0.849	0.662	0.518	8e-84
357501221	390	E3 ubiquitin-protein ligase RGLG2 [Medic	0.835	0.753	0.529	2e-82
224098822	342	predicted protein [Populus trichocarpa]	0.849	0.874	0.516	8e-82

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

 Score =  330 bits (845), Expect = 9e-88,   Method: Compositional matrix adjust.
 Identities = 179/342 (52%), Positives = 221/342 (64%), Gaps = 26/342 (7%)

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----SQQEQETI------SSY 198
           TSY P++EAA+DIVE+SGG +HVL+II  GQV     TG    S QE++TI      SSY
Sbjct: 174 TSYGPVIEAAIDIVEKSGGQYHVLLIIADGQVTRSVDTGDGEMSPQEEQTIKAIVDASSY 233

Query: 199 PLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFA-AALI 257
           PLSI+LVGVGDGPWE +++F DK+PA +FDNF FVNFTAIMSK  T +EK   FA AAL+
Sbjct: 234 PLSIILVGVGDGPWEDMKRFDDKLPAREFDNFQFVNFTAIMSKNATISEKETAFALAALM 293

Query: 258 NASM---AADELGIMSRMTGRAKKITPKPPPVLSSH---CARQMGPVSAEVAE--AQRCC 309
              +   AA E GI+ R  G+AKKI P+PPPV  S      R+   VS+ V +   Q C 
Sbjct: 294 EIPLQYKAAVEFGIIGRSMGQAKKIVPRPPPVPYSRRPVLDREPTHVSSPVLDERTQACP 353

Query: 310 ICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVY 351
           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 =  328 bits (841), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 177/342 (51%), Positives = 219/342 (64%), Gaps = 24/342 (7%)

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--------SQQEQETI------SSY 198
           TS+AP+VEAAVDIV+ SGG +HVLVI+  GQV           S QE+ T+      S+Y
Sbjct: 180 TSFAPIVEAAVDIVDRSGGQYHVLVIVADGQVTRSVDTDEGDLSPQERRTVDAIVMASAY 239

Query: 199 PLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFA-AALI 257
           PLSIVLVGVGDGPWE ++KF DK+PA  FDNF FVNFTAIMS+  T  +K   FA AAL+
Sbjct: 240 PLSIVLVGVGDGPWEDMRKFDDKLPARAFDNFQFVNFTAIMSRPATAQQKESAFALAALM 299

Query: 258 NASM---AADELGIMSRMTGRAKKITPKPPPVLSS----HCARQMGPVSAEVAEAQRCCI 310
              +   A  ELGI+ R TG+AK++ P PPP+ +S             +AE  E Q C I
Sbjct: 300 EVPIQYKATMELGILGRSTGKAKRVVPAPPPLPTSLRREASNAATSATTAEPREDQVCPI 359

Query: 311 CCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVYP 352
           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 =  323 bits (829), Expect = 5e-86,   Method: Compositional matrix adjust.
 Identities = 181/349 (51%), Positives = 215/349 (61%), Gaps = 51/349 (14%)

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--------SQQEQETI------SSYPLSIVLVGVGDGPWES 214
           SGG +HVLVII  GQV           S QE++TI      SSYPLSI+LVGVGDGPW+ 
Sbjct: 222 SGGQYHVLVIIADGQVTRSVNANDKELSPQEEKTINSIVTASSYPLSIILVGVGDGPWDD 281

Query: 215 IQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFA-AALINASM---AADELGIMS 270
           ++KF DKIPA  FDNF FVNFTAIMSK  + +EK   FA AAL+   +   A  E GI+ 
Sbjct: 282 MKKFDDKIPARGFDNFQFVNFTAIMSKNASPSEKETAFALAALMEIPIQYKATVEFGILG 341

Query: 271 RMTGRAKKITPKPPPV-----------------------LSSHC-----ARQMGPVSAEV 302
           R+TG+AKK+ P+PPP                        LSS       +RQ+     E 
Sbjct: 342 RVTGKAKKVVPRPPPASYARHAPPPYAMPYGMPSHQPSNLSSRMPSRMPSRQLSNTRDEG 401

Query: 303 AEAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVY 351
            +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 =  321 bits (823), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 176/363 (48%), Positives = 219/363 (60%), Gaps = 27/363 (7%)

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 ---SQQEQETI------SSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAI 238
              S QE  TI      SSYPLSI+LVGVGDGPWE ++KF DKIPA  FDNF FVNFT I
Sbjct: 233 GELSPQEARTIKAIADASSYPLSIILVGVGDGPWEDMKKFDDKIPARDFDNFQFVNFTDI 292

Query: 239 MSKTTTTAEKAKDFA-AALINASM---AADELGIMSRMTGRAKKITPKPPPVLSSHC--- 291
           M+K ++ +EK   FA AAL+       AA ELG++ R TGR+ KI P+PPP   S     
Sbjct: 293 MAKKSSPSEKEAAFALAALMEIPFQYKAATELGLLGRATGRSNKIVPRPPPAPYSQLVPP 352

Query: 292 ARQMGPVSAEVAEAQR---CCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRR 348
           AR +      + + +    C IC  ++KD AF CGHM+C  C  R+  CP CR+ IT R 
Sbjct: 353 ARVLSNTPTFMDDERNQMACAICLTNKKDLAFGCGHMTCRDCGSRLTDCPICRQRITNRL 412

Query: 349 RVY 351
           RV+
Sbjct: 413 RVF 415

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 =  320 bits (821), Expect = 5e-85,   Method: Compositional matrix adjust.
 Identities = 181/348 (52%), Positives = 215/348 (61%), Gaps = 51/348 (14%)

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--------SQQEQETI------SSYPLSIVLVGVGDGPWESI 215
            GG +HVLVII  GQV           S QE++TI      SSYPLSI+LVGVGDGPW+ +
Sbjct: 5438 GGQYHVLVIIADGQVTRSVNANDKELSPQEEKTINSIVTASSYPLSIILVGVGDGPWDDM 5497

Query: 216  QKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFA-AALINASM---AADELGIMSR 271
            +KF DKIPA  FDNF FVNFTAIMSK  + +EK   FA AAL+   +   A  E GI+ R
Sbjct: 5498 KKFDDKIPARGFDNFQFVNFTAIMSKNASPSEKETAFALAALMEIPIQYKATVEFGILGR 5557

Query: 272  MTGRAKKITPKPPPV-----------------------LSSHC-----ARQMGPVSAEVA 303
            +TG+AKK+ P+PPP                        LSS       +RQ+     E  
Sbjct: 5558 VTGKAKKVVPRPPPASYARHAPPPYAMPYGMPSHQPSNLSSRMPSRMPSRQLSNTRDEGN 5617

Query: 304  EAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEITTRRRVY 351
            +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|356526411|ref|XP_003531811.1| PREDICTED: E3 ubiquitin-protein ligase RGLG2-like [Glycine max]

 Score =  319 bits (817), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 176/367 (47%), Positives = 220/367 (59%), Gaps = 27/367 (7%)

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 -------SQQEQETI------SSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVN 234
                  S QE  TI      SSYPLSI+LVGVGDGPWE ++KF DKIPA  FDNF FVN
Sbjct: 237 ASEHGELSPQEARTIKAIVDASSYPLSIILVGVGDGPWEDMKKFDDKIPARDFDNFQFVN 296

Query: 235 FTAIMSKTTTTAEKAKDFA-AALINASM---AADELGIMSRMTGRAKKITPKPPPVLSSH 290
           FT IM+K ++ +EK   FA AAL+       AA EL ++ R TGR+ KI P+PPP   S 
Sbjct: 297 FTDIMTKKSSPSEKETAFALAALMEIPFQYKAAIELELLGRATGRSNKIVPRPPPAPYSR 356

Query: 291 C---ARQMGPVSAEVAEAQR---CCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEI 344
               AR +  +   + + +    C IC  ++KD AF CGHM+C  C  R+  CP CR+ I
Sbjct: 357 LVPPARVLSNMPTFMDDERNQMACAICLTNKKDLAFGCGHMTCRDCGSRLTNCPICRQRI 416

Query: 345 TTRRRVY 351
           T R RV+
Sbjct: 417 TNRLRVF 423

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 =  317 bits (811), Expect = 7e-84,   Method: Compositional matrix adjust.
 Identities = 176/366 (48%), Positives = 224/366 (61%), Gaps = 26/366 (7%)

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----SQQEQETI------SSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNF 235
           TG    S QE+ T+      SSYPLSIVLVGVGDGPW+ +++F DK+PA  FDNF FVNF
Sbjct: 221 TGDGDLSPQEKRTVDSIVMASSYPLSIVLVGVGDGPWDDMRRFDDKLPARDFDNFQFVNF 280

Query: 236 TAIMSKTTTTAEKAKDFA-AALINASM---AADELGIMSRMTGRAKKITPKPPPV----L 287
           T+IMS+  T  +K   FA AAL+   +   A  ELGI+ R TG AK+++P PPP+     
Sbjct: 281 TSIMSRAATAQQKESAFALAALMEVPIQYKATMELGILGRSTGNAKRVSPAPPPLPNAQR 340

Query: 288 SSHCARQMGPVSAEVA--EAQRCCICCEDEKDTAFECGHMSCIKCALRMPQCPFCREEIT 345
            S   R    V A  A  + Q C IC  + KD AF CGHM+C +C   + +CP CR+ I 
Sbjct: 341 QSSLRRGASNVGAAAAPRDDQVCPICLTNAKDLAFGCGHMTCRECGESLTRCPICRQPIR 400

Query: 346 TRRRVY 351
           ++ 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|356528633|ref|XP_003532904.1| PREDICTED: E3 ubiquitin-protein ligase RGLG2-like [Glycine max]

 Score =  316 bits (810), Expect = 8e-84,   Method: Compositional matrix adjust.
 Identities = 167/322 (51%), Positives = 208/322 (64%), Gaps = 23/322 (7%)

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--------SQQEQETI------SSYPLSIVLVGVGDGPWESI 215
            G  HVLVI+  GQV           S QE++TI      S+YPL+IVLVGVGDGPWE +
Sbjct: 248 RGQFHVLVIVADGQVTRSVDTSDGELSPQEEKTIKAVVDASAYPLAIVLVGVGDGPWEDM 307

Query: 216 QKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFA-AALINASM---AADELGIMSR 271
           +KF DKIPA  +DNF FVNFT IMSK  + +EK   FA AAL+       A  E GI+ R
Sbjct: 308 RKFDDKIPARDYDNFQFVNFTEIMSKNISPSEKEAAFALAALMEIPFQYKATMEFGILGR 367

Query: 272 MTGRAKKITPKPPPVLSSHCARQMGPVSAEVAEAQR--CCICCEDEKDTAFECGHMSCIK 329
           +TGRAK+I PKPPPV  S  A  +   ++   +  +  C +C  + +D AF CGHM+C +
Sbjct: 368 VTGRAKRIVPKPPPVPYSRPAPSINTAASSGDDQNQTACPVCLTNARDLAFGCGHMTCRE 427

Query: 330 CALRMPQCPFCREEITTRRRVY 351
           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|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 =  312 bits (799), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 170/321 (52%), Positives = 200/321 (62%), Gaps = 27/321 (8%)

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-----SQQEQETI------SSYPLSIVLVGVGDGPWESIQKF 218
            G  HVLVII  GQV        S QE++TI      S YPL+IVLVGVGDGPWE ++KF
Sbjct: 193 HGQFHVLVIIADGQVTKSVDNEVSPQEKKTIKAIADASKYPLAIVLVGVGDGPWEDMEKF 252

Query: 219 HDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALINASM-------AADELGIMSR 271
            DKIP   FDNF FVNFT IMSK T+ AEK   FA   +N  M       A  E   +  
Sbjct: 253 DDKIPTRDFDNFQFVNFTKIMSKNTSAAEKEAAFA---VNTLMEIPFQYKACVEFRKLGH 309

Query: 272 MTGRAKKITPKPPPVLSSHCARQMGPVSAEVAEAQRCC-ICCEDEKDTAFECGHMSCIKC 330
           +TGRAK+I PKP PV  S  A        +   A  CC +C  + KD AF CGHM+C  C
Sbjct: 310 VTGRAKRIVPKPSPVPYSRPAHSNSTTDDQNQSA--CCPVCLTNAKDLAFGCGHMTCRDC 367

Query: 331 ALRMPQCPFCREEITTRRRVY 351
             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 =  310 bits (793), Expect = 8e-82,   Method: Compositional matrix adjust.
 Identities = 169/327 (51%), Positives = 209/327 (63%), Gaps = 28/327 (8%)

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--------SQQEQETI------SSYPLSIVLVGVGDGPWES 214
           S G +HVL+II  GQV           S QE++TI      SSYPLSI+LVGVGDGPWE 
Sbjct: 136 SKGQYHVLIIIADGQVTRSDNSSDRELSPQEEQTIKAIVDASSYPLSIILVGVGDGPWED 195

Query: 215 IQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFA-AALINASM---AADELGIMS 270
           +++F DKIP  +FDNF FVNFT IM+K  T +EK   FA  AL+       AA E G++ 
Sbjct: 196 MKRFDDKIPDRKFDNFQFVNFTEIMAKKATLSEKEAAFALTALMEIPFQYKAAVEFGVIG 255

Query: 271 RMTGRAKKITPKPPPV----LSSHCARQMGPVSAEVAE--AQRCCICCEDEKDTAFECGH 324
             TGRAKKI P+PPPV     S  C R+   VS+ V +   Q C IC  D KD AF CGH
Sbjct: 256 CSTGRAKKIVPRPPPVPYSSRSVQC-REPTNVSSPVLDERTQACPICLTDGKDLAFGCGH 314

Query: 325 MSCIKCALRMPQCPFCREEITTRRRVY 351
           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	352
TAIR|locus:2008570	453	AT1G67800 [Arabidopsis thalian	0.582	0.452	0.558	7.7e-66
TAIR|locus:2145643	468	RGLG2 "RING domain ligase2" [A	0.664	0.5	0.470	9.9e-64
TAIR|locus:2206395	401	RGLG4 "RING DOMAIN LIGASE 4" [	0.764	0.670	0.451	9.3e-59
TAIR|locus:2160821	367	RGLG3 "RING DOMAIN LIGASE 3" [	0.823	0.790	0.402	4e-51
TAIR|locus:2084218	489	RGLG1 "RING domain ligase1" [A	0.582	0.419	0.509	1.7e-50
DICTYBASE|DDB_G0272196	284	DDB_G0272196 "copine family pr	0.619	0.767	0.431	7.3e-43
WB|WBGene00006495	1107	cpna-1 [Caenorhabditis elegans	0.588	0.186	0.418	2.4e-36
UNIPROTKB|Q7Z6C8	301	CPNE5 "CPNE5 protein" [Homo sa	0.636	0.744	0.301	7.1e-15
ZFIN|ZDB-GENE-040426-1398	574	cpne5 "copine V" [Danio rerio	0.619	0.379	0.305	1.8e-14
MGI|MGI:2443052	553	Cpne9 "copine family member IX	0.642	0.408	0.286	5e-14

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

 Score = 576 (207.8 bits), Expect = 7.7e-66, Sum P(2) = 7.7e-66
 Identities = 124/222 (55%), Positives = 147/222 (66%)

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--------SQQEQETI------SSYPLSIVLVGVGDGPWESI 215
             GG +HVL+II  GQV           S QEQ+TI      S YPLSIVLVGVGDGPW+++
Sbjct:   232 GGQYHVLLIIADGQVTRSVDTDNGGFSPQEQQTIDAIVRASEYPLSIVLVGVGDGPWDTM 291

Query:   216 QKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALI 257
             ++F D IPA  FDNF FVNFT IMSK    A K  +FA + +
Sbjct:   292 RQFDDNIPARAFDNFQFVNFTDIMSKNIDPARKEAEFALSAL 333

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 = 532 (192.3 bits), Expect = 9.9e-64, Sum P(2) = 9.9e-64
 Identities = 118/251 (47%), Positives = 151/251 (60%)

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--------SQQEQETI------SSYPLSIVLVGVGDGPWESI 215
             GG +HVLVII  GQV           S QEQ+T+      S  PLSIVLVGVGDGPW+ +
Sbjct:   241 GGQYHVLVIIADGQVTRSVDTENGQLSPQEQKTVDAIVQASKLPLSIVLVGVGDGPWDMM 300

Query:   216 QKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSRMTGR 275
             ++F D IPA  FDNF FVNFT IM+K    + K  +FA + +       +  I   + GR
Sbjct:   301 REFDDNIPARAFDNFQFVNFTEIMAKNKAQSLKETEFALSALMEIPQQYKATIELNLLGR 360

Query:   276 AKKITPKPPPV 286
                  P+  P+
Sbjct:   361 RNGYIPERFPL 371

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

 Score = 603 (217.3 bits), Expect = 9.3e-59, P = 9.3e-59
 Identities = 130/288 (45%), Positives = 173/288 (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--------SQQEQETI------SSYPLSIVLVGVGDGPWESIQKFHDKIPALQF 227
             GQV  G        SQQE+ TI      SSY LSIVLVGVGDGPWE ++KF DKIP  +F
Sbjct:   210 GQVTRGTDMAEGELSQQEKTTIDAIVNASSYALSIVLVGVGDGPWEDMRKFDDKIPKREF 269

Query:   228 DNFHFVNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSRMTGR 275
             DNF FVNFT IM++ +  + K   FA A +       +  I  R+ G+
Sbjct:   270 DNFQFVNFTEIMTRNSPESAKETAFALAALMEIPFQYQAAIELRLLGK 317

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

 Score = 531 (192.0 bits), Expect = 4.0e-51, P = 4.0e-51
 Identities = 130/323 (40%), Positives = 181/323 (56%)

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--------SQQEQETISS------Y 198
             TS+AP+++AA++IVE++   +HVLVII  GQV           S QE+ T++S      Y
Sbjct:   139 TSFAPVIDAAINIVEQNNMQYHVLVIIADGQVTRNPDVPLGRLSPQEEATMNSIMAASHY 198

Query:   199 PLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALIN 258
             PLSIVLVGVGDGPW+++++F D IP  +FDNF FVNFT IMS+    A+K   FA A   
Sbjct:   199 PLSIVLVGVGDGPWDTMKQFDDNIPHREFDNFQFVNFTKIMSEHKDAAKKEAAFALA--- 255

Query:   259 ASMAADELGIMSRMTGRAKKITPKPPPVLSSHCARQMGPVSAEVAEAQRCCICCEDEK-D 317
                A  E+    + T     ++    PV SSH   +  P   EV E         ++  +
Sbjct:   256 ---ALMEIPFQYKAT-----LSLNRKPVRSSHQHHKPLPPPPEVIERDNAVRSVPNQMTE 307

Query:   318 TAFECGHMSCIKCALRMPQCPFC 340
             TA +   ++       +P CP C
Sbjct:   308 TAEKSDRLA----PSTVPVCPIC 326

GO:0005886 "plasma membrane" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0009690 "cytokinin metabolic process" evidence=RCA

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

GO:0009611 "response to wounding" evidence=IMP

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

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

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

 Score = 525 (189.9 bits), Expect = 1.7e-50, P = 1.7e-50
 Identities = 113/222 (50%), Positives = 141/222 (63%)

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--------SQQEQETI------SSYPLSIVLVGVGDGPWESI 215
              G +HVLVII  GQV           S QEQ+T+      S+ PLSIVLVGVGDGPW+ +
Sbjct:   275 SGQYHVLVIIADGQVTRSVDTEHGRLSPQEQKTVDAIVKASTLPLSIVLVGVGDGPWDMM 334

Query:   216 QKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALI 257
             Q+F D IPA  FDNF FVNFT IMSK    + K  +FA + +
Sbjct:   335 QEFDDNIPARAFDNFQFVNFTEIMSKNKDQSRKETEFALSAL 376

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

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

 Score = 453 (164.5 bits), Expect = 7.3e-43, P = 7.3e-43
 Identities = 98/227 (43%), Positives = 132/227 (58%)

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 TSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQ--ETISSYPLSIVLVGVGDG 210
             TS+AP++   ++I   +   +H+LVII  G+V+  ++  +  E  S YP+SI+ +GVGDG
Sbjct:   166 TSFAPIIRETINITAAAKA-YHILVIIADGEVSVVNETIKAIEEASKYPISIICIGVGDG 224

Query:   211 PWESIQKFHDKIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFAAALI 257
             PW++++KF D +P  QFDNF FV F   M+K      +  DFA A +
Sbjct:   225 PWDTMEKFDDDLPERQFDNFQFVPFHTTMAKAEN---REVDFAVAAL 268

GO:0044351 "macropinocytosis" evidence=RCA

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

 Score = 403 (146.9 bits), Expect = 2.4e-36, P = 2.4e-36
 Identities = 90/215 (41%), Positives = 125/215 (58%)

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 GPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETISS--YPLSIVLVGVG 208
             GPT++AP++  A++I ++S   +H+LVII  GQV       +  + +  +PLSI++VGVG
Sbjct:   964 GPTNFAPLIYQAMEICQKSRD-YHILVIIADGQVTNERATRRAIVQACQHPLSIIVVGVG 1022

Query:   209 DGPWESIQKFHDKIPALQFDNFHFVNFTAIMSKTT 243
             DGPW+ ++ F + +P   +DNFHFV F  I+ K+T
Sbjct:  1023 DGPWDMMRIFDESLPKRPWDNFHFVEFHEIVKKST 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 = 205 (77.2 bits), Expect = 7.1e-15, P = 7.1e-15
 Identities = 79/262 (30%), Positives = 127/262 (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 VEESGGLHHVLVIITSGQVATGSQQEQETISS--YPLSIVLVGVGDGPWESIQKFH-DKI 222
               + G  + VL+IIT G ++  +Q ++  +++   P+SI++VGVG   ++++ +   D +
Sbjct:   155 AVQDGSQYSVLLIITDGVISDMAQTKEAIVNAAKLPMSIIIVGVGQAEFDAMVELDGDDV 214

Query:   223 ------PALQFDNFHFVNFTAIMSKT----TTTAEKAKDFAAALINASMAADELGIMSRM 272
                      + D   FV F   + +T     + A  A+D  A +       D+L  +S M
Sbjct:   215 RISSRGKLAERDIVQFVPFRDYVDRTGNHVLSMARLARDVLAEI------PDQL--VSYM 266

Query:   273 TGRAKKITPKPPPVLSSHCARQ 294
               +A+ I P+PPP   +H   Q
Sbjct:   267 --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 = 211 (79.3 bits), Expect = 1.8e-14, P = 1.8e-14
 Identities = 77/252 (30%), Positives = 121/252 (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 EESGGLHHVLVIITSGQVATGSQQEQETISS--YPLSIVLVGVGDGPWESIQKFH-DKI- 222
              + G  + +L+IIT G ++  SQ ++  +++   P+SI++VGVG   ++++ +   D I 
Sbjct:   439 VQDGSQYFILLIITDGVISDMSQTKEAIVNAAKLPMSIIIVGVGQAEFDAMVELDGDDIR 498

Query:   223 -----PALQFDNFHFVNFTAIMSKT----TTTAEKAKDFAAALINASMAADELGIMSRMT 273
                     + D   FV F   M +T     + A  AKD  A +       D+   +S M 
Sbjct:   499 ISSRGKLAERDIVQFVPFRDYMDRTGNHVLSMARLAKDVLAEI------PDQF--ISYMK 550

Query:   274 GRAKKITPKPPP 285
              R  K  P PPP
Sbjct:   551 SRGIKPNPAPPP 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 = 207 (77.9 bits), Expect = 5.0e-14, P = 5.0e-14
 Identities = 71/248 (28%), Positives = 116/248 (46%)

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 --SGGLHHVLVIITSGQVATGSQQEQETIS--SYPLSIVLVGVGDGPWESIQKFH-DKIP 223
                G  ++VL+IIT G ++  +Q ++  +S  S P+SI++VGVG   +E++++   D + 
Sbjct:   419 ISDGSQYYVLLIITDGVISDMTQTKEAIVSASSLPMSIIIVGVGPAMFEAMEELDGDDVR 478

Query:   224 ALQFDNF---HFVNFTAIMSKTTTTAEKAKDFAAALINASMAADELGIMSRMTGRAKKIT 280
                   +     V F         +  +    A  L    +A     ++S M  R + I 
Sbjct:   479 VSSRGRYAERDIVQFVPFRDYVDRSGNQVLSMAR-LAKDVLAEIPEQLLSYM--RTRDIQ 535

Query:   281 PKPPPVLS 288
             P+PPP +S
Sbjct:   536 PRPPPPVS 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

Your Input: gw1.X.1323.1 hypothetical protein (362 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	352
cd01459	254	cd01459, vWA_copine_like, VWA Copine: Copines are	2e-62
pfam07002	146	pfam07002, Copine, Copine	3e-43
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	2e-09
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	5e-07
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	2e-06
smart00184	40	smart00184, RING, Ring finger	4e-04
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	0.001
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	0.001
smart00327	175	smart00327, VWA, von Willebrand factor (vWF) type	0.003

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

 Score =  199 bits (508), Expect = 2e-62
 Identities = 86/210 (40%), Positives = 115/210 (54%), Gaps = 22/210 (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--GGLHHVLVIITSGQVATGSQQEQETI---SSYPLSIVLVGVGDGPWESIQKFH 219
           I + S     +H+L+IIT G++ T   +  + I   S YPLSIV+VGVGDGP++++++  
Sbjct: 147 IAKASNSQSKYHILLIITDGEI-TDMNETIKAIVEASKYPLSIVIVGVGDGPFDAMERLD 205

Query: 220 DK-------IPALQFDNFHFVNFTAIMSKT 242
           D              D   FV FT  MS  
Sbjct: 206 DDDGLESSDGRIATRDIVQFVPFTEFMSNA 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 =  146 bits (370), Expect = 3e-43
 Identities = 59/151 (39%), Positives = 79/151 (52%), Gaps = 20/151 (13%)

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 VATGSQQEQETI------SSYPLSIVLVGVG 208
           V       + TI      S  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: 304 EAQRCCICCEDEKDTAF-ECGHMS-CIKCALRM---PQCPFCREEITTR 347
           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 = 45.6 bits (108), Expect = 5e-07
 Identities = 16/45 (35%), Positives = 21/45 (46%), Gaps = 6/45 (13%)

Query: 304 EAQRCCICCEDEKDTAFE--CGHMSCIKCALRM----PQCPFCRE 342
           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 = 43.6 bits (103), Expect = 2e-06
 Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 7/44 (15%)

Query: 308 CCICCEDEKDTAF--ECGHMSCIKCALRM-----PQCPFCREEI 344
           C IC E+ ++      CGH+ C  C  +        CP CR  I
Sbjct: 2   CPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 37.1 bits (86), Expect = 4e-04
 Identities = 12/40 (30%), Positives = 14/40 (35%), Gaps = 7/40 (17%)

Query: 308 CCICCEDEKDTAF--ECGHMSCIKCALRM-----PQCPFC 340
           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|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: 308 CCICCEDEKDTA----FECGHMSCIKCALRM----PQCPFCREE 343
           C IC ++ +         CGH+   +C  +       CP CR  
Sbjct: 3   CPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRSSNTCPLCRAP 46

Length = 46

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

 Score = 35.9 bits (83), Expect = 0.001
 Identities = 15/40 (37%), Positives = 17/40 (42%), Gaps = 7/40 (17%)

Query: 308 CCICCE--DEKDTAFECGHMSCIKCALRM-----PQCPFC 340
           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|214621 smart00327, VWA, von Willebrand factor (vWF) type A domain

 Score = 37.8 bits (88), Expect = 0.003
 Identities = 34/191 (17%), Positives = 67/191 (35%), Gaps = 38/191 (19%)

Query: 51  LIFGIDFTASNLWAGKFSFEN--ESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCY 108
           ++F +D + S    G   FE   E +  +V+   L+                DGD +   
Sbjct: 2   VVFLLDGSGSM---GGNRFELAKEFVLKLVE--QLDIGP-------------DGDRVGLV 43

Query: 109 GFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEE 168
            F DD      +F   +     +  + +LE         +  G T+    ++ A++ +  
Sbjct: 44  TFSDDARV---LFPLND----SRSKDALLEALASLSY--KLGGGTNLGAALQYALENLFS 94

Query: 169 S-----GGLHHVLVIITSGQVATGSQQEQETI---SSYPLSIVLVGVG-DGPWESIQKFH 219
                  G   V+++IT G+   G +   +         + + +VGVG D   E ++K  
Sbjct: 95  KSAGSRRGAPKVVILITDGESNDGPKDLLKAAKELKRSGVKVFVVGVGNDVDEEELKKLA 154

Query: 220 DKIPALQFDNF 230
                +     
Sbjct: 155 SAPGGVYVFLP 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	352
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	99.91
cd01457	199	vWA_ORF176_type VWA ORF176 type: Von Willebrand fa	99.74
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.99
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.96
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	98.81
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.72
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.59
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.56
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.53
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	98.51
smart00327	177	VWA von Willebrand factor (vWF) type A domain. VWA	98.47
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.45
PHA02929	238	N1R/p28-like protein; Provisional	98.43
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.26
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.26
cd01463	190	vWA_VGCC_like VWA Voltage gated Calcium channel li	98.22
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.18
cd00198	161	vWFA Von Willebrand factor type A (vWA) domain was	98.17
PHA02926	242	zinc finger-like protein; Provisional	98.17
cd01461	171	vWA_interalpha_trypsin_inhibitor vWA_interalpha tr	98.17
PF14634	44	zf-RING_5: zinc-RING finger domain	98.16
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.15
cd01471	186	vWA_micronemal_protein Micronemal proteins: The To	98.1
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.03
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.02
cd01450	161	vWFA_subfamily_ECM Von Willebrand factor type A (v	98.01
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.01
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	97.96
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	97.94
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.92
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.91
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.88
cd01464	176	vWA_subfamily VWA subfamily: Von Willebrand factor	97.87
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	97.83
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	97.81
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	97.81
cd01466	155	vWA_C3HC4_type VWA C3HC4-type: Von Willebrand fact	97.8
cd01456	206	vWA_ywmD_type VWA ywmD type:Von Willebrand factor	97.77
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	97.73
cd01465	170	vWA_subgroup VWA subgroup: Von Willebrand factor t	97.71
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	97.63
cd01482	164	vWA_collagen_alphaI-XII-like Collagen: The extrace	97.58
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.57
cd01476	163	VWA_integrin_invertebrates VWA_integrin (invertebr	97.57
cd01467	180	vWA_BatA_type VWA BatA type: Von Willebrand factor	97.52
PF13519	172	VWA_2: von Willebrand factor type A domain; PDB: 3	97.49
TIGR03788	596	marine_srt_targ marine proteobacterial sortase tar	97.44
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	97.39
cd01454	174	vWA_norD_type norD type: Denitrifying bacteria con	97.33
PF13768	155	VWA_3: von Willebrand factor type A domain	97.3
PF00092	178	VWA: von Willebrand factor type A domain; InterPro	97.26
cd01472	164	vWA_collagen von Willebrand factor (vWF) type A do	97.24
cd01470	198	vWA_complement_factors Complement factors B and C2	97.18
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	97.09
cd01473	192	vWA_CTRP CTRP for CS protein-TRAP-related protein:	97.07
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.06
cd01474	185	vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxi	97.05
cd01480	186	vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI	97.05
PTZ00441	576	sporozoite surface protein 2 (SSP2); Provisional	97.04
COG5236	493	Uncharacterized conserved protein, contains RING Z	97.02
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	97.01
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	96.99
cd01462	152	VWA_YIEM_type VWA YIEM type: Von Willebrand factor	96.94
cd01453	183	vWA_transcription_factor_IIH_type Transcription fa	96.9
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	96.84
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.8
KOG3002	299	consensus Zn finger protein [General function pred	96.79
cd01475	224	vWA_Matrilin VWA_Matrilin: In cartilaginous plate,	96.65
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	96.65
cd01460	266	vWA_midasin VWA_Midasin: Midasin is a member of th	96.61
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.56
cd01451	178	vWA_Magnesium_chelatase Magnesium chelatase: Mg-ch	96.5
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	96.4
cd01477	193	vWA_F09G8-8_type VWA F09G8.8 type: Von Willebrand	96.32
cd01481	165	vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(V	96.32
cd01469	177	vWA_integrins_alpha_subunit Integrins are a class	96.29
PRK13685	326	hypothetical protein; Provisional	96.29
PF09967	126	DUF2201: VWA-like domain (DUF2201); InterPro: IPR0	96.04
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	96.03
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	95.88
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	95.81
cd01452	187	VWA_26S_proteasome_subunit 26S proteasome plays a	95.77
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	95.67
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	95.66
cd01458	218	vWA_ku Ku70/Ku80 N-terminal domain. The Ku78 heter	95.64
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.51
COG5152	259	Uncharacterized conserved protein, contains RING a	95.26
cd01455	191	vWA_F11C1-5a_type Von Willebrand factor type A (vW	95.19
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	95.18
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	95.1
TIGR03436	296	acidobact_VWFA VWFA-related Acidobacterial domain.	95.0
KOG0825	1134	consensus PHD Zn-finger protein [General function	94.93
KOG0297	391	consensus TNF receptor-associated factor [Signal t	94.76
KOG3039	303	consensus Uncharacterized conserved protein [Funct	93.99
KOG1001	674	consensus Helicase-like transcription factor HLTF/	93.8
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	93.79
PF04641	260	Rtf2: Rtf2 RING-finger	93.3
PRK10997	487	yieM hypothetical protein; Provisional	93.06
KOG1002	791	consensus Nucleotide excision repair protein RAD16	92.88
TIGR00868	863	hCaCC calcium-activated chloride channel protein 1	92.58
KOG2660	331	consensus Locus-specific chromosome binding protei	92.43
COG5175	480	MOT2 Transcriptional repressor [Transcription]	92.22
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	91.36
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	91.28
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	90.8
PF05762	222	VWA_CoxE: VWA domain containing CoxE-like protein;	90.6
COG5222	427	Uncharacterized conserved protein, contains RING Z	90.39
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	90.31
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	88.32
KOG2113	394	consensus Predicted RNA binding protein, contains	87.96
COG5219	1525	Uncharacterized conserved protein, contains RING Z	86.7
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	86.24
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	85.4
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	84.57
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	84.38
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	81.94
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	81.93

>KOG1327 consensus Copine [Signal transduction mechanisms]

Probab=100.00  E-value=1.5e-73  Score=574.52  Aligned_cols=243  Identities=33%  Similarity=0.514  Sum_probs=223.1

Q ss_pred             CCCCCCCCCCCCCcchhhhhhccCCCceeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhcccccc
Q 018644           21 SVDFAEPPRFDDELPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF  100 (352)
Q Consensus        21 ~~~~~~~~~~~~~l~~~~~~L~~~gl~~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~y  100 (352)
                      ..+...+.++|+++++++-.+..+|++++||+||||||+||+|+|.+    .||||+ ++...|+||+||++||++|++|
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 KNSGQLILDRFTSLDQYSFLDYIAGGEQLNFTVGIDFTASNGDPRNP----SSLHYI-DPHQPNPYEQAIRSVGETLQDY  332 (529)
T ss_pred             cccceEEehheeehhhhhHHHHHccCceeeeEEEEEEeccCCCCCCC----Ccceec-CCCCCCHHHHHHHHHhhhhccc
Confidence            34678899999999999999999999999999999999999998764    499999 5788999999999999999999


Q ss_pred             CCC-ccceeeecCCCCCC---CCc--ccCCCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcC---C
Q 018644          101 DGD-CIRCYGFGDDTTRD---EGV--FSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG---G  171 (352)
Q Consensus       101 d~d-~ip~~GFGa~~~~~---~~~--f~~~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~---~  171 (352)
                      |+| +||+|||||++|++   +|+  |||+|.||+|.|++||++||++++|+|+|+|||+|||||++|+++|+++.   .
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 99999999998874   554  55667899999999999999999999999999999999999999999885   7


Q ss_pred             ceEEEEEEeCCccCCccHHHHHHH---hcCCcEEEEEeecCCCcchhccccCCCCC-------cceeeEeeecchhhhcc
Q 018644          172 LHHVLVIITSGQVATGSQQEQETI---SSYPLSIVLVGVGDGPWESIQKFHDKIPA-------LQFDNFHFVNFTAIMSK  241 (352)
Q Consensus       172 ~Y~VLlIitDG~i~d~~~~~~~~i---S~~PlSIiiVGVG~~~f~~m~~LD~~~~~-------r~rDnvqFV~f~~~~~~  241 (352)
                      +||||||||||+|+| |++|+++|   |+||||||||||||+||+.|++||++.+.       +.|||||||+|++++++
T Consensus       413 qY~VLlIitDG~vTd-m~~T~~AIV~AS~lPlSIIiVGVGd~df~~M~~lD~d~~~l~~~gr~~~rD~vQFV~f~~~~~~  491 (529)
T KOG1327|consen  413 QYHVLLIITDGVVTD-MKETRDAIVSASDLPLSIIIVGVGDADFDMMRELDGDDPKLRSPGRIAERDNVQFVPFRDIMNG  491 (529)
T ss_pred             ceEEEEEEeCCcccc-HHHHHHHHHhhccCCeEEEEEEeCCCCHHHHHHhhcCCcccccccccccccceEeecHHHHhhc
Confidence            999999999999999 69999999   99999999999999999999999988765       78999999999999988


Q ss_pred             ccccchHHHHHHHH-HHH---HHHHhhhhccc
Q 018644          242 TTTTAEKAKDFAAA-LIN---ASMAADELGIM  269 (352)
Q Consensus       242 ~~~~~~~~~~la~~-L~E---qy~~~~~l~ll  269 (352)
                      +.+...++++||+. |||   ||..+++++-+
T Consensus       492 ~~~~~~~~~~lA~~vL~EIP~Q~~~y~~~~~~  523 (529)
T KOG1327|consen  492 AENPSDKEAALALAVLAEIPQQYVQYMRLRGI  523 (529)
T ss_pred             CCcccchhHHHHHHHHHHhhHHHHHHHHhcCC
Confidence            65555567999999 999   99999998544

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

Probab=100.00  E-value=1e-67  Score=498.49  Aligned_cols=214  Identities=40%  Similarity=0.678  Sum_probs=190.8

Q ss_pred             CCCCcchhhhhhccCCCceeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC-cccee
Q 018644           30 FDDELPEAPAGVRDPSKVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCY  108 (352)
Q Consensus        30 ~~~~l~~~~~~L~~~gl~~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d-~ip~~  108 (352)
                      +|+|||++.      |++++||+||||||+||||+++    ++||||+ ++...|+||+||++||+||+.||+| +||+|
T Consensus        19 ~~tFldy~~------~G~~~nl~vaIDfT~SNg~p~~----~~SLHy~-~~~~~N~Yq~aI~~vg~il~~yD~D~~ip~~   87 (254)
T cd01459          19 QPTFLDYRS------AGLESNLIVAIDFTKSNGWPGE----KRSLHYI-SPGRLNPYQKAIRIVGEVLQPYDSDKLIPAF   87 (254)
T ss_pred             CCCHHHHHh------CCCeeeEEEEEEeCCCCCCCCC----CCCcccC-CCCCccHHHHHHHHHHHHHHhcCCCCceeeE
Confidence            677777764      5567899999999999999765    6899999 5778999999999999999999999 99999


Q ss_pred             eecCCCCCCC---CcccCCCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcCC--ceEEEEEEeCCc
Q 018644          109 GFGDDTTRDE---GVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGG--LHHVLVIITSGQ  183 (352)
Q Consensus       109 GFGa~~~~~~---~~f~~~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~~--~Y~VLlIitDG~  183 (352)
                      ||||+.++..   ++|++|+++|+|.|++||+++|++++++|+|+|||+|+|||++|+++|+++..  +|+||||||||+
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            9999977653   45666788999999999999999999999999999999999999999987643  499999999999


Q ss_pred             cCCccHHHHHHH---hcCCcEEEEEeecCCCcchhccccC-------CCCCcceeeEeeecchhhhccccccchHHHHHH
Q 018644          184 VATGSQQEQETI---SSYPLSIVLVGVGDGPWESIQKFHD-------KIPALQFDNFHFVNFTAIMSKTTTTAEKAKDFA  253 (352)
Q Consensus       184 i~d~~~~~~~~i---S~~PlSIiiVGVG~~~f~~m~~LD~-------~~~~r~rDnvqFV~f~~~~~~~~~~~~~~~~la  253 (352)
                      |+| +++|+++|   |++||||||||||+++|+.|++||+       .++.|.|||||||+|+++....   ++++++||
T Consensus       168 i~D-~~~t~~aIv~AS~~PlSIiiVGVGd~~F~~M~~LD~d~~l~~~~~~~~~rDnvqFV~f~~~~~~~---~~~~~~La  243 (254)
T cd01459         168 ITD-MNETIKAIVEASKYPLSIVIVGVGDGPFDAMERLDDDDGLESSDGRIATRDIVQFVPFTEFMSNA---GNPEAALA  243 (254)
T ss_pred             ccc-HHHHHHHHHHHhcCCeEEEEEEeCCCChHHHHHhcCccccccccCCcceecceeeecchhhcccc---cccHHHHH
Confidence            999 69999998   9999999999999999999999997       3566789999999999997542   12468999


Q ss_pred             HH-HHH
Q 018644          254 AA-LIN  258 (352)
Q Consensus       254 ~~-L~E  258 (352)
                      ++ |+|
T Consensus       244 ~~~L~E  249 (254)
T cd01459         244 TAALAE  249 (254)
T ss_pred             HHHHHh
Confidence            99 999

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=1.8e-48  Score=339.94  Aligned_cols=134  Identities=41%  Similarity=0.750  Sum_probs=125.3

Q ss_pred             CcccccCCCCCchHHHHHHHHhccccccCCC-ccceeeecCCCCCC---CCcccCC--CCCCCCCCHHHHHHHHHhhCCc
Q 018644           73 SLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRD---EGVFSFQ--ENDSPCQGFEHVLECYRKNVPN  146 (352)
Q Consensus        73 SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~---~~~f~~~--~~~p~~~G~~gvl~~Y~~~l~~  146 (352)
                      ||||+ ++..+|+||+||++||++|++||+| +||+|||||+.+++   ++||+||  ++||+|.|++||+++|++++++
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 99999999998866   5678887  5789999999999999999999


Q ss_pred             eeeecCCCcHHHHHHHHHHHHH---cCCceEEEEEEeCCccCCccHHHHHHH---hcCCcEEEEEeec
Q 018644          147 VQYFGPTSYAPMVEAAVDIVEE---SGGLHHVLVIITSGQVATGSQQEQETI---SSYPLSIVLVGVG  208 (352)
Q Consensus       147 v~l~gPt~fapiI~~a~~~a~~---~~~~Y~VLlIitDG~i~d~~~~~~~~i---S~~PlSIiiVGVG  208 (352)
                      |+|+|||+|+|||++|+++|++   .+++|+||||||||+|+| +++|+++|   |++||||||||||
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            9999999999999999999994   567999999999999999 69999998   9999999999998

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=99.91  E-value=9.7e-24  Score=192.05  Aligned_cols=172  Identities=23%  Similarity=0.303  Sum_probs=142.7

Q ss_pred             CCchHHHHHHHHhccccccCCC-ccceeeecCCCCCCCCcccCCCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHH
Q 018644           82 TLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVE  160 (352)
Q Consensus        82 ~~N~Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~  160 (352)
                      +.+..|.+..++..+..+||+| .+++|.||.+..+...+        ....+++.++.....++.+...|-|+++|||+
T Consensus        19 k~G~vQ~~~Er~lalA~~~DdDG~i~v~~Fs~~~~~~~~v--------t~~~~~~~v~~~~~~~~~~~~~G~t~y~~vm~   90 (200)
T PF10138_consen   19 KDGTVQRVVERILALAAQFDDDGEIDVWFFSTEFDRLPDV--------TLDNYEGYVDELHAGLPDWGRMGGTNYAPVME   90 (200)
T ss_pred             hCccHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCcCCCc--------CHHHHHHHHHHHhccccccCCCCCcchHHHHH
Confidence            4678999999999999999999 99999999976554433        23457777766666556667667799999999


Q ss_pred             HHHHHHHHc-CCceEEE-EEEeCCccCCccHHHHHHH---hcCCcEEEEEeecCCCcchhccccCCCCCcceeeEeeecc
Q 018644          161 AAVDIVEES-GGLHHVL-VIITSGQVATGSQQEQETI---SSYPLSIVLVGVGDGPWESIQKFHDKIPALQFDNFHFVNF  235 (352)
Q Consensus       161 ~a~~~a~~~-~~~Y~VL-lIitDG~i~d~~~~~~~~i---S~~PlSIiiVGVG~~~f~~m~~LD~~~~~r~rDnvqFV~f  235 (352)
                      .+++...++ ......| |++|||.++| .++++++|   |++||+|.|||||+.+|+.+++||+ +.+|..||+.|+..
T Consensus        91 ~v~~~y~~~~~~~~P~~VlFiTDG~~~~-~~~~~~~i~~as~~pifwqFVgiG~~~f~fL~kLD~-l~gR~vDNa~Ff~~  168 (200)
T PF10138_consen   91 DVLDHYFKREPSDAPALVLFITDGGPDD-RRAIEKLIREASDEPIFWQFVGIGDSNFGFLEKLDD-LAGRVVDNAGFFAI  168 (200)
T ss_pred             HHHHHHhhcCCCCCCeEEEEEecCCccc-hHHHHHHHHhccCCCeeEEEEEecCCcchHHHHhhc-cCCcccCCcCeEec
Confidence            999998743 2233333 5599999999 68888888   9999999999999999999999999 89999999999999


Q ss_pred             hhhhccccccchHHHHHHHH-HHH--HH-HHhhhhccc
Q 018644          236 TAIMSKTTTTAEKAKDFAAA-LIN--AS-MAADELGIM  269 (352)
Q Consensus       236 ~~~~~~~~~~~~~~~~la~~-L~E--qy-~~~~~l~ll  269 (352)
                      .++...+      +++|+.. |.|  +| ++++.+|+|
T Consensus       169 ~d~~~ls------D~eLy~~LL~Efp~Wl~~ar~~gi~  200 (200)
T PF10138_consen  169 DDIDELS------DEELYDRLLAEFPDWLKAARAKGIL  200 (200)
T ss_pred             CCcccCC------HHHHHHHHHHHHHHHHHHHHHcCCC
Confidence            9986443      6899999 988  55 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=99.74  E-value=1.8e-17  Score=150.64  Aligned_cols=166  Identities=17%  Similarity=0.156  Sum_probs=121.4

Q ss_pred             ccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC-ccceeeecCCCCCCCCcccCCCCCC
Q 018644           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDS  128 (352)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~~~p  128 (352)
                      .+++.||.|+|+++.    ..+.++|.      .+.+++++.+++.++..||.| ...++.||....    .++.     
T Consensus         4 dvv~~ID~SgSM~~~----~~~~~~~k------~~~ak~~~~~l~~~~~~~D~d~i~l~~f~~~~~~----~~~~-----   64 (199)
T cd01457           4 DYTLLIDKSGSMAEA----DEAKERSR------WEEAQESTRALARKCEEYDSDGITVYLFSGDFRR----YDNV-----   64 (199)
T ss_pred             CEEEEEECCCcCCCC----CCCCCchH------HHHHHHHHHHHHHHHHhcCCCCeEEEEecCCccc----cCCc-----
Confidence            578999999999753    11234443      499999999999999999999 666666655311    1221     


Q ss_pred             CCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHH-HHHc-----CCceEEEEEEeCCccCCccHHHHHHH---hc--
Q 018644          129 PCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDI-VEES-----GGLHHVLVIITSGQVATGSQQEQETI---SS--  197 (352)
Q Consensus       129 ~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~-a~~~-----~~~Y~VLlIitDG~i~d~~~~~~~~i---S~--  197 (352)
                         ..+++.++|.+    +...|+|++.+.|+.+++. .+..     ...+.+++|||||..+| .+.+.++|   ++  
T Consensus        65 ---~~~~v~~~~~~----~~p~G~T~l~~~l~~a~~~~~~~~~~~~~~p~~~~vIiiTDG~~~d-~~~~~~~i~~a~~~l  136 (199)
T cd01457          65 ---NSSKVDQLFAE----NSPDGGTNLAAVLQDALNNYFQRKENGATCPEGETFLVITDGAPDD-KDAVERVIIKASDEL  136 (199)
T ss_pred             ---CHHHHHHHHhc----CCCCCcCcHHHHHHHHHHHHHHHHhhccCCCCceEEEEEcCCCCCc-HHHHHHHHHHHHHhh
Confidence               16677777754    4456999999999999753 3321     12388889999999999 57767666   32  


Q ss_pred             ---CCcEEEEEeecCC--CcchhccccCCC--CCcceeeEeeecchhhhccc
Q 018644          198 ---YPLSIVLVGVGDG--PWESIQKFHDKI--PALQFDNFHFVNFTAIMSKT  242 (352)
Q Consensus       198 ---~PlSIiiVGVG~~--~f~~m~~LD~~~--~~r~rDnvqFV~f~~~~~~~  242 (352)
                         .+|.|.+||||++  .|..|++||+.+  ..+.||||+||+|+++...+
T Consensus       137 ~~~~~i~i~~v~vG~~~~~~~~L~~ld~~~~~~~~~~d~vd~~~~~~~~~~~  188 (199)
T cd01457         137 DADNELAISFLQIGRDPAATAFLKALDDQLQEVGAKFDIVDTVTWDDMERLT  188 (199)
T ss_pred             ccccCceEEEEEeCCcHHHHHHHHHHhHHHHhcCCcccceeeeeHHhhhcCC
Confidence               3788888888875  899999999753  34679999999999986544

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=98.99  E-value=2.1e-11  Score=88.21  Aligned_cols=47  Identities=40%  Similarity=0.994  Sum_probs=43.3

Q ss_pred             CcccCcccCCCCeee-cCCCC-CchhhhhcCC-----CCCCCccccCCeeecCC
Q 018644          306 QRCCICCEDEKDTAF-ECGHM-SCIKCALRMP-----QCPFCREEITTRRRVYP  352 (352)
Q Consensus       306 ~~C~IC~~~~~~~~~-pCGH~-~C~~C~~~~~-----~CP~CR~~i~~~i~if~  352 (352)
                      .+|.||+|++.|.++ -|||+ +|.+|+.+++     .||+||.+|..+++.|+
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 9999999873     59999999999999875

>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=98.96  E-value=1.3e-10  Score=83.38  Aligned_cols=43  Identities=40%  Similarity=1.035  Sum_probs=37.4

Q ss_pred             CCcccCcccCCCCeee-cCCCC-CchhhhhcC----CCCCCCccccCCe
Q 018644          305 AQRCCICCEDEKDTAF-ECGHM-SCIKCALRM----PQCPFCREEITTR  347 (352)
Q Consensus       305 ~~~C~IC~~~~~~~~~-pCGH~-~C~~C~~~~----~~CP~CR~~i~~~  347 (352)
                      +..|.||++...++++ ||||. +|..|+.++    ..||+||++|+++
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            5689999999999988 99999 999999988    7899999999753

...

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

Probab=98.81  E-value=4e-10  Score=106.90  Aligned_cols=49  Identities=43%  Similarity=1.057  Sum_probs=46.5

Q ss_pred             cCCcccCcccCCCCeee-cCCCC-CchhhhhcCCCCCCCccccCCeeecCC
Q 018644          304 EAQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVYP  352 (352)
Q Consensus       304 ~~~~C~IC~~~~~~~~~-pCGH~-~C~~C~~~~~~CP~CR~~i~~~i~if~  352 (352)
                      ...+|.||++.++|.+| +|||+ .|.+|..+|..||+||+.|.+++|||+
T Consensus       299 ~~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm~eCPICRqyi~rvvrif~  349 (350)
T KOG4275|consen  299 TRRLCAICMDAPRDCVFLECGHMVTCTKCGKRMNECPICRQYIVRVVRIFR  349 (350)
T ss_pred             HHHHHHHHhcCCcceEEeecCcEEeehhhccccccCchHHHHHHHHHhhhc
Confidence            37899999999999998 99999 899999999999999999999999985

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

Probab=98.72  E-value=3.3e-09  Score=103.50  Aligned_cols=49  Identities=33%  Similarity=0.877  Sum_probs=43.7

Q ss_pred             ccCCcccCcccCCCCeee-cCCCC-CchhhhhcC----CCCCCCccccCCeeecC
Q 018644          303 AEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRM----PQCPFCREEITTRRRVY  351 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~~~-pCGH~-~C~~C~~~~----~~CP~CR~~i~~~i~if  351 (352)
                      .+..+|+||++..+|+++ ||+|+ +|..|+..+    ..||+||++|...+.|+
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            456899999999999887 99999 899999977    46999999999987775

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

Probab=98.59  E-value=1.8e-08  Score=93.21  Aligned_cols=49  Identities=31%  Similarity=0.769  Sum_probs=42.6

Q ss_pred             ccCCcccCcccCCCCeee-cCCCCCchhhhhcC-------CCCCCCccccCC--eeecC
Q 018644          303 AEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-------PQCPFCREEITT--RRRVY  351 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-------~~CP~CR~~i~~--~i~if  351 (352)
                      .....|-||+|..+++++ .|||+||..|+-++       ..||+|+..|+.  ++.||
T Consensus        45 ~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlY  103 (230)
T KOG0823|consen   45 GGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLY  103 (230)
T ss_pred             CCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeee
Confidence            456899999999999999 99999999999988       469999999876  45555

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.56  E-value=3e-08  Score=90.09  Aligned_cols=44  Identities=30%  Similarity=0.912  Sum_probs=38.6

Q ss_pred             ccCCcccCcccCCCCeee-cCCCCCchhhhhcC--------------------CCCCCCccccCC
Q 018644          303 AEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM--------------------PQCPFCREEITT  346 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~--------------------~~CP~CR~~i~~  346 (352)
                      .+..+|+||++..+++++ +|||.||..|+.++                    ..||+||.++..
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 99999999999743                    369999999976

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

Probab=98.53  E-value=2.9e-08  Score=94.41  Aligned_cols=45  Identities=31%  Similarity=0.953  Sum_probs=40.1

Q ss_pred             ccCCcccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018644          303 AEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITTR  347 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~~  347 (352)
                      .....|.+|+++..++.- ||||.||..|+..+    ..||+||+++...
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            456899999999999877 99999999999987    5799999998764

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

Probab=98.51  E-value=2.4e-08  Score=97.60  Aligned_cols=49  Identities=37%  Similarity=1.021  Sum_probs=45.2

Q ss_pred             cCCcccCcccCCCCeee-cCCCC-CchhhhhcCCCCCCCccccCCeeecCC
Q 018644          304 EAQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVYP  352 (352)
Q Consensus       304 ~~~~C~IC~~~~~~~~~-pCGH~-~C~~C~~~~~~CP~CR~~i~~~i~if~  352 (352)
                      ....|.||.+.+.+++| ||||+ +|..|...+++||+||+.|...+++|.
T Consensus       304 ~p~lcVVcl~e~~~~~fvpcGh~ccct~cs~~l~~CPvCR~rI~~~~k~y~  354 (355)
T KOG1571|consen  304 QPDLCVVCLDEPKSAVFVPCGHVCCCTLCSKHLPQCPVCRQRIRLVRKRYR  354 (355)
T ss_pred             CCCceEEecCCccceeeecCCcEEEchHHHhhCCCCchhHHHHHHHHHHhc
Confidence            45689999999999998 99999 889999999999999999999998874

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

Probab=98.47  E-value=1.4e-06  Score=75.36  Aligned_cols=145  Identities=19%  Similarity=0.251  Sum_probs=99.2

Q ss_pred             eccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccC---CC-ccceeeecCCCCCCCCcccCC
Q 018644           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSFQ  124 (352)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd---~d-~ip~~GFGa~~~~~~~~f~~~  124 (352)
                      +++.+.||-|.|..                    ......+...+..++..+.   .+ .+-+++|++....   .+++.
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            46788999988863                    1233444444444444444   47 9999999985321   22221


Q ss_pred             CCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHc---C--CceEEEEEEeCCccCCccHHHHHHH---h
Q 018644          125 ENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES---G--GLHHVLVIITSGQVATGSQQEQETI---S  196 (352)
Q Consensus       125 ~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~---~--~~Y~VLlIitDG~i~d~~~~~~~~i---S  196 (352)
                          ...+.+.+.+..+...+.  ..|.|++...|+++.+...+.   .  +...+++|+|||...+ .+...+.+   .
T Consensus        59 ----~~~~~~~~~~~i~~~~~~--~~~~~~~~~al~~~~~~~~~~~~~~~~~~~~~iviitDg~~~~-~~~~~~~~~~~~  131 (177)
T smart00327       59 ----DSRSKDALLEALASLSYK--LGGGTNLGAALQYALENLFSKSAGSRRGAPKVLILITDGESND-GGDLLKAAKELK  131 (177)
T ss_pred             ----ccCCHHHHHHHHHhcCCC--CCCCchHHHHHHHHHHHhcCcCCCCCCCCCeEEEEEcCCCCCC-CccHHHHHHHHH
Confidence                245777777766654443  578899999999999887521   1  1257889999999887 23445554   6


Q ss_pred             cCCcEEEEEeecCC-CcchhccccCCCC
Q 018644          197 SYPLSIVLVGVGDG-PWESIQKFHDKIP  223 (352)
Q Consensus       197 ~~PlSIiiVGVG~~-~f~~m~~LD~~~~  223 (352)
                      ...+.|++||+|+. +...|+.|.....
T Consensus       132 ~~~i~i~~i~~~~~~~~~~l~~~~~~~~  159 (177)
T smart00327      132 RSGVKVFVVGVGNDVDEEELKKLASAPG  159 (177)
T ss_pred             HCCCEEEEEEccCccCHHHHHHHhCCCc
Confidence            66799999999998 9999999987443

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.

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

Probab=98.45  E-value=8.3e-08  Score=85.63  Aligned_cols=48  Identities=33%  Similarity=0.914  Sum_probs=38.6

Q ss_pred             cCCcccCcccCCCCee-e--cCCCCCchhhhhcC----CCCCCCccccCCe--eecC
Q 018644          304 EAQRCCICCEDEKDTA-F--ECGHMSCIKCALRM----PQCPFCREEITTR--RRVY  351 (352)
Q Consensus       304 ~~~~C~IC~~~~~~~~-~--pCGH~~C~~C~~~~----~~CP~CR~~i~~~--i~if  351 (352)
                      ....|+|||+....-+ +  .|||.||..|+...    ..||+||+.|+..  .+||
T Consensus       130 ~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~~rI~  186 (187)
T KOG0320|consen  130 GTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQFHRIY  186 (187)
T ss_pred             cccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccchhhheecc
Confidence            3488999999766644 3  99999999999976    6799999888763  5555

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.43  E-value=1.1e-07  Score=89.58  Aligned_cols=47  Identities=30%  Similarity=0.759  Sum_probs=38.0

Q ss_pred             ccCCcccCcccCCCC--------eee-cCCCCCchhhhhcC----CCCCCCccccCCeee
Q 018644          303 AEAQRCCICCEDEKD--------TAF-ECGHMSCIKCALRM----PQCPFCREEITTRRR  349 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~--------~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~~i~  349 (352)
                      ....+|+||++...+        +++ +|||.||..|+.++    ..||+||.++...++
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            346799999997443        245 89999999999876    579999999988654

>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=98.26  E-value=2.2e-07  Score=63.15  Aligned_cols=33  Identities=39%  Similarity=1.139  Sum_probs=27.6

Q ss_pred             ccCcccCCCCe-ee-cCCCCCchhhhhcC----CCCCCC
Q 018644          308 CCICCEDEKDT-AF-ECGHMSCIKCALRM----PQCPFC  340 (352)
Q Consensus       308 C~IC~~~~~~~-~~-pCGH~~C~~C~~~~----~~CP~C  340 (352)
                      |+||++...++ ++ +|||.||.+|+.++    .+||+|
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 99999999999876    679987

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

Probab=98.26  E-value=3e-07  Score=63.88  Aligned_cols=33  Identities=42%  Similarity=0.900  Sum_probs=26.9

Q ss_pred             ccCcccCCCCeee-cCCCCCchhhhhcC--------CCCCCC
Q 018644          308 CCICCEDEKDTAF-ECGHMSCIKCALRM--------PQCPFC  340 (352)
Q Consensus       308 C~IC~~~~~~~~~-pCGH~~C~~C~~~~--------~~CP~C  340 (352)
                      |+||++..++++. +|||.||..|+.++        ..||.|
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

>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=98.22  E-value=1.1e-05  Score=72.52  Aligned_cols=149  Identities=13%  Similarity=0.153  Sum_probs=95.7

Q ss_pred             ceeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC-ccceeeecCCCCCCCCcccCCC
Q 018644           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQE  125 (352)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~  125 (352)
                      ...++.+.||-|.|=.  |                  +..+.|-.++..++..+..+ .+-++.|+........++....
T Consensus        12 ~p~~vv~llD~SgSM~--~------------------~~l~~ak~~~~~ll~~l~~~d~v~lv~F~~~~~~~~~~~~~~~   71 (190)
T cd01463          12 SPKDIVILLDVSGSMT--G------------------QRLHLAKQTVSSILDTLSDNDFFNIITFSNEVNPVVPCFNDTL   71 (190)
T ss_pred             CCceEEEEEECCCCCC--c------------------HHHHHHHHHHHHHHHhCCCCCEEEEEEeCCCeeEEeeecccce
Confidence            4688899999988742  1                  23455555555667777777 9999999987542221111100


Q ss_pred             CCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHH---c------CCceEEEEEEeCCccCCccHHHHHHH-
Q 018644          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEE---S------GGLHHVLVIITSGQVATGSQQEQETI-  195 (352)
Q Consensus       126 ~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~---~------~~~Y~VLlIitDG~i~d~~~~~~~~i-  195 (352)
                      ........+.+    .+.+..++..|.|++...|+.+.+..++   .      ...-.++++||||..++ ..+..+.+ 
T Consensus        72 ~~~~~~~~~~~----~~~l~~l~~~G~T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~-~~~~~~~~~  146 (190)
T cd01463          72 VQATTSNKKVL----KEALDMLEAKGIANYTKALEFAFSLLLKNLQSNHSGSRSQCNQAIMLITDGVPEN-YKEIFDKYN  146 (190)
T ss_pred             EecCHHHHHHH----HHHHhhCCCCCcchHHHHHHHHHHHHHHhhhcccccccCCceeEEEEEeCCCCCc-HhHHHHHhc
Confidence            00001123333    4456677889999999999999887654   1      11235789999999887 34444444 


Q ss_pred             ----hcCCcEEEEEeecCC--CcchhccccC
Q 018644          196 ----SSYPLSIVLVGVGDG--PWESIQKFHD  220 (352)
Q Consensus       196 ----S~~PlSIiiVGVG~~--~f~~m~~LD~  220 (352)
                          .+.|+.|..||||..  +...|+.|=.
T Consensus       147 ~~~~~~~~v~i~tigiG~~~~d~~~L~~lA~  177 (190)
T cd01463         147 WDKNSEIPVRVFTYLIGREVTDRREIQWMAC  177 (190)
T ss_pred             ccccCCCcEEEEEEecCCccccchHHHHHHh
Confidence                224799999999974  6888877743

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.

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

Probab=98.18  E-value=5.8e-07  Score=91.41  Aligned_cols=42  Identities=38%  Similarity=0.833  Sum_probs=38.4

Q ss_pred             CCcccCcccCCCCeee-cCCCCCchhhhhcC---------CCCCCCccccCC
Q 018644          305 AQRCCICCEDEKDTAF-ECGHMSCIKCALRM---------PQCPFCREEITT  346 (352)
Q Consensus       305 ~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~---------~~CP~CR~~i~~  346 (352)
                      ...||||++.+..++. .|||.||..|+.+.         .+||+||..|..
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            7899999999999888 99999999999865         579999999987

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

Probab=98.17  E-value=3.9e-05  Score=64.18  Aligned_cols=142  Identities=13%  Similarity=0.270  Sum_probs=93.0

Q ss_pred             ccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCC---C-ccceeeecCCCCCCCCcccCCC
Q 018644           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDG---D-CIRCYGFGDDTTRDEGVFSFQE  125 (352)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~---d-~ip~~GFGa~~~~~~~~f~~~~  125 (352)
                      ++++.||.|.|-.                    ...++.+...+..++..+..   . .+-+++|+....   ..++++.
T Consensus         2 ~v~~viD~S~Sm~--------------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~~~~~---~~~~~~~   58 (161)
T cd00198           2 DIVFLLDVSGSMG--------------------GEKLDKAKEALKALVSSLSASPPGDRVGLVTFGSNAR---VVLPLTT   58 (161)
T ss_pred             cEEEEEeCCCCcC--------------------cchHHHHHHHHHHHHHhcccCCCCcEEEEEEecCccc---eeecccc
Confidence            5788999987731                    13445555555555555554   6 999999997421   1233321


Q ss_pred             CCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHc--CCceEEEEEEeCCccCCc---cHHHHHHHhcCCc
Q 018644          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES--GGLHHVLVIITSGQVATG---SQQEQETISSYPL  200 (352)
Q Consensus       126 ~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~--~~~Y~VLlIitDG~i~d~---~~~~~~~iS~~Pl  200 (352)
                      .    ...+.+.+.-.. +.. ...|.|++...++.+.+...+.  .....+++++|||..++.   ..+..+.++...+
T Consensus        59 ~----~~~~~~~~~~~~-~~~-~~~~~t~~~~al~~~~~~~~~~~~~~~~~~lvvitDg~~~~~~~~~~~~~~~~~~~~v  132 (161)
T cd00198          59 D----TDKADLLEAIDA-LKK-GLGGGTNIGAALRLALELLKSAKRPNARRVIILLTDGEPNDGPELLAEAARELRKLGI  132 (161)
T ss_pred             c----CCHHHHHHHHHh-ccc-CCCCCccHHHHHHHHHHHhcccCCCCCceEEEEEeCCCCCCCcchhHHHHHHHHHcCC
Confidence            1    233344333222 111 4778999999999999998753  456788999999988762   1233333377799


Q ss_pred             EEEEEeecC-CCcchhccccC
Q 018644          201 SIVLVGVGD-GPWESIQKFHD  220 (352)
Q Consensus       201 SIiiVGVG~-~~f~~m~~LD~  220 (352)
                      .|.+||+|+ .+-..++.|+.
T Consensus       133 ~v~~v~~g~~~~~~~l~~l~~  153 (161)
T cd00198         133 TVYTIGIGDDANEDELKEIAD  153 (161)
T ss_pred             EEEEEEcCCCCCHHHHHHHhc
Confidence            999999998 77777777775

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.

>PHA02926 zinc finger-like protein; Provisional

Probab=98.17  E-value=4.9e-07  Score=83.50  Aligned_cols=45  Identities=29%  Similarity=0.692  Sum_probs=36.0

Q ss_pred             ccCCcccCcccCCC---------Ceee-cCCCCCchhhhhcCC----------CCCCCccccCCe
Q 018644          303 AEAQRCCICCEDEK---------DTAF-ECGHMSCIKCALRMP----------QCPFCREEITTR  347 (352)
Q Consensus       303 ~~~~~C~IC~~~~~---------~~~~-pCGH~~C~~C~~~~~----------~CP~CR~~i~~~  347 (352)
                      +.+.+|.||+|...         -.++ +|+|.||..|+.++.          .||+||..+...
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I  232 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNI  232 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence            45689999998631         1456 999999999999772          399999998865

>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=98.17  E-value=2.2e-05  Score=68.34  Aligned_cols=143  Identities=20%  Similarity=0.234  Sum_probs=94.7

Q ss_pred             eccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC-ccceeeecCCCCCCCCcccCCCCC
Q 018644           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQEND  127 (352)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~~~  127 (352)
                      .++.+.+|-|.|=.  |                  ...+.+-.++..++..+..+ .+.+++|+.......   +.    
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            46778888887742  1                  12566666777777888777 999999998643221   11    


Q ss_pred             CCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcCCceEEEEEEeCCccCCccHHHHHHH---hcCCcEEEE
Q 018644          128 SPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETI---SSYPLSIVL  204 (352)
Q Consensus       128 p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~~~Y~VLlIitDG~i~d~~~~~~~~i---S~~PlSIii  204 (352)
                      +...+-+.+ +...+.+.++...|-|++..-|+.+.+..+.....=-++++||||..++ .++..+.+   .+.++.|..
T Consensus        56 ~~~~~~~~~-~~~~~~l~~~~~~g~T~l~~al~~a~~~l~~~~~~~~~iillTDG~~~~-~~~~~~~~~~~~~~~i~i~~  133 (171)
T cd01461          56 SVSATAENV-AAAIEYVNRLQALGGTNMNDALEAALELLNSSPGSVPQIILLTDGEVTN-ESQILKNVREALSGRIRLFT  133 (171)
T ss_pred             ceeCCHHHH-HHHHHHHHhcCCCCCcCHHHHHHHHHHhhccCCCCccEEEEEeCCCCCC-HHHHHHHHHHhcCCCceEEE
Confidence            011222222 3334445556678999999999999888765323346778999999877 45555555   334889999


Q ss_pred             EeecC-CCcchhccccC
Q 018644          205 VGVGD-GPWESIQKFHD  220 (352)
Q Consensus       205 VGVG~-~~f~~m~~LD~  220 (352)
                      ||+|. .+...|+.+-+
T Consensus       134 i~~g~~~~~~~l~~ia~  150 (171)
T cd01461         134 FGIGSDVNTYLLERLAR  150 (171)
T ss_pred             EEeCCccCHHHHHHHHH
Confidence            99996 46677777764

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.

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.16  E-value=9.8e-07  Score=61.65  Aligned_cols=36  Identities=39%  Similarity=1.095  Sum_probs=30.2

Q ss_pred             cccCcccCC---CCeee-cCCCCCchhhhhcCC----CCCCCcc
Q 018644          307 RCCICCEDE---KDTAF-ECGHMSCIKCALRMP----QCPFCRE  342 (352)
Q Consensus       307 ~C~IC~~~~---~~~~~-pCGH~~C~~C~~~~~----~CP~CR~  342 (352)
                      .|.+|++..   ..+.+ +|||.||..|+.++.    .||+||+
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            489999977   23445 999999999999986    8999985

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.15  E-value=8.9e-07  Score=88.97  Aligned_cols=50  Identities=32%  Similarity=0.701  Sum_probs=43.0

Q ss_pred             CcccccccCCcccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018644          297 PVSAEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITT  346 (352)
Q Consensus       297 ~~~~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~  346 (352)
                      +.-..+.....|+||.+...++++ +|||.||..|+..+    ..||+||..+..
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    479999998865

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

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

Probab=98.10  E-value=5.4e-05  Score=67.56  Aligned_cols=148  Identities=9%  Similarity=0.092  Sum_probs=93.8

Q ss_pred             HHHHHHHHhccccccC---CC-ccceeeecCCCCCCCCcccCCCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHH
Q 018644           86 YQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEA  161 (352)
Q Consensus        86 Yq~ai~~ig~vl~~yd---~d-~ip~~GFGa~~~~~~~~f~~~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~  161 (352)
                      +.++...+..+++.+.   ++ .+-++.|+....   .+++++..  .-...+.+.+.-+........+|-|+++..+++
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            5566666666776663   45 899999997532   23444321  111223322222233333456889999999999


Q ss_pred             HHHHHHHc----CCceEEEEEEeCCccCCccHHHHHHH---hcCCcEEEEEeecC-CCcchhccccCCC-CCcceeeEee
Q 018644          162 AVDIVEES----GGLHHVLVIITSGQVATGSQQEQETI---SSYPLSIVLVGVGD-GPWESIQKFHDKI-PALQFDNFHF  232 (352)
Q Consensus       162 a~~~a~~~----~~~Y~VLlIitDG~i~d~~~~~~~~i---S~~PlSIiiVGVG~-~~f~~m~~LD~~~-~~r~rDnvqF  232 (352)
                      |.+...+.    ...-.+++|||||..++ ...+.+..   -+.++-|.+||||. .+...|+.|-+.. .....+++-.
T Consensus        94 a~~~l~~~~~~r~~~~~~villTDG~~~~-~~~~~~~a~~l~~~gv~v~~igiG~~~d~~~l~~ia~~~~~~~~~~~~~~  172 (186)
T cd01471          94 VEKHLFDTRGNRENAPQLVIIMTDGIPDS-KFRTLKEARKLRERGVIIAVLGVGQGVNHEENRSLVGCDPDDSPCPLYLQ  172 (186)
T ss_pred             HHHHhhccCCCcccCceEEEEEccCCCCC-CcchhHHHHHHHHCCCEEEEEEeehhhCHHHHHHhcCCCCCCCCCCeeec
Confidence            98877541    12235678899999877 34333333   55689999999996 5778888887633 2233677777


Q ss_pred             ecchhhh
Q 018644          233 VNFTAIM  239 (352)
Q Consensus       233 V~f~~~~  239 (352)
                      .+|+++.
T Consensus       173 ~~~~~~~  179 (186)
T cd01471         173 SSWSEVQ  179 (186)
T ss_pred             CCHHHHH
Confidence            8887774

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.

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

Probab=98.03  E-value=9.1e-07  Score=61.56  Aligned_cols=35  Identities=34%  Similarity=0.811  Sum_probs=28.1

Q ss_pred             cccCcccCCC---Ceee-cCCCCCchhhhhcC----CCCCCCc
Q 018644          307 RCCICCEDEK---DTAF-ECGHMSCIKCALRM----PQCPFCR  341 (352)
Q Consensus       307 ~C~IC~~~~~---~~~~-pCGH~~C~~C~~~~----~~CP~CR  341 (352)
                      +|+||++...   .++. +|||.||..|+..+    ..||+||
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            6999999653   2333 99999999999977    6899998

...

>smart00504 Ubox Modified RING finger domain

Probab=98.02  E-value=3.1e-06  Score=62.71  Aligned_cols=41  Identities=20%  Similarity=0.184  Sum_probs=36.7

Q ss_pred             CcccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018644          306 QRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITT  346 (352)
Q Consensus       306 ~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~  346 (352)
                      ..|+||.+...+++. +|||.+|+.|+.++    ..||+|++++..
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.

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

Probab=98.01  E-value=4.9e-05  Score=64.81  Aligned_cols=140  Identities=16%  Similarity=0.226  Sum_probs=91.3

Q ss_pred             ccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccc---cCCC-ccceeeecCCCCCCCCcccCCC
Q 018644           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVL---FDGD-CIRCYGFGDDTTRDEGVFSFQE  125 (352)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~---yd~d-~ip~~GFGa~~~~~~~~f~~~~  125 (352)
                      ++.+.+|.|.|=.                    ...++.+...+..++..   .+.+ .+.++.|+.....   .+++..
T Consensus         2 di~~llD~S~Sm~--------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~~~~~---~~~~~~   58 (161)
T cd01450           2 DIVFLLDGSESVG--------------------PENFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVRV---EFSLND   58 (161)
T ss_pred             cEEEEEeCCCCcC--------------------HHHHHHHHHHHHHHHHheeeCCCceEEEEEEEcCCceE---EEECCC
Confidence            5677888876631                    01344444444444444   4457 9999999986432   233322


Q ss_pred             CCCCCCCHHHHHHHHHhhCCceeee-cCCCcHHHHHHHHHHHHHcC----CceEEEEEEeCCccCCccHHHHHHH---hc
Q 018644          126 NDSPCQGFEHVLECYRKNVPNVQYF-GPTSYAPMVEAAVDIVEESG----GLHHVLVIITSGQVATGSQQEQETI---SS  197 (352)
Q Consensus       126 ~~p~~~G~~gvl~~Y~~~l~~v~l~-gPt~fapiI~~a~~~a~~~~----~~Y~VLlIitDG~i~d~~~~~~~~i---S~  197 (352)
                      ..    ..+.+.+.......   .. |-|++...++.+.+...+..    ..-.++++||||..++ ..+..+++   .+
T Consensus        59 ~~----~~~~~~~~i~~~~~---~~~~~t~~~~al~~a~~~~~~~~~~~~~~~~~iiliTDG~~~~-~~~~~~~~~~~~~  130 (161)
T cd01450          59 YK----SKDDLLKAVKNLKY---LGGGGTNTGKALQYALEQLFSESNARENVPKVIIVLTDGRSDD-GGDPKEAAAKLKD  130 (161)
T ss_pred             CC----CHHHHHHHHHhccc---CCCCCccHHHHHHHHHHHhcccccccCCCCeEEEEECCCCCCC-CcchHHHHHHHHH
Confidence            11    34555554443221   12 47999999999998876542    4567889999998887 33444555   66


Q ss_pred             CCcEEEEEeecCCCcchhccccC
Q 018644          198 YPLSIVLVGVGDGPWESIQKFHD  220 (352)
Q Consensus       198 ~PlSIiiVGVG~~~f~~m~~LD~  220 (352)
                      ..+-|++||+|..+.+.|++|-+
T Consensus       131 ~~v~v~~i~~g~~~~~~l~~la~  153 (161)
T cd01450         131 EGIKVFVVGVGPADEEELREIAS  153 (161)
T ss_pred             CCCEEEEEeccccCHHHHHHHhC
Confidence            68999999999988988888865

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

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

Probab=98.01  E-value=2.9e-06  Score=57.53  Aligned_cols=38  Identities=37%  Similarity=0.987  Sum_probs=30.9

Q ss_pred             cccCcccCCCCee-e-cCCCCCchhhhhcC-----CCCCCCcccc
Q 018644          307 RCCICCEDEKDTA-F-ECGHMSCIKCALRM-----PQCPFCREEI  344 (352)
Q Consensus       307 ~C~IC~~~~~~~~-~-pCGH~~C~~C~~~~-----~~CP~CR~~i  344 (352)
                      .|+||++...+.+ + +|||.||..|...+     ..||+||..+
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     5799999864

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

Probab=97.96  E-value=1.2e-06  Score=85.03  Aligned_cols=51  Identities=31%  Similarity=0.644  Sum_probs=45.2

Q ss_pred             CCcccccccCCcccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018644          296 GPVSAEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITT  346 (352)
Q Consensus       296 ~~~~~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~  346 (352)
                      -|+...+.+...|-||++.+.-+++ ||||.||..|+...    +.||.|+.+++.
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            4556677888999999999999998 99999999999976    689999998865

>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=97.94  E-value=2.7e-06  Score=58.04  Aligned_cols=33  Identities=39%  Similarity=1.015  Sum_probs=29.3

Q ss_pred             ccCcccCCCCee-e-cCCCCCchhhhhcC------CCCCCC
Q 018644          308 CCICCEDEKDTA-F-ECGHMSCIKCALRM------PQCPFC  340 (352)
Q Consensus       308 C~IC~~~~~~~~-~-pCGH~~C~~C~~~~------~~CP~C  340 (352)
                      |+||++...+.. + +|||.||..|+.++      ..||+|
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 6 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 ....

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

Probab=97.92  E-value=2.5e-06  Score=84.39  Aligned_cols=42  Identities=43%  Similarity=1.027  Sum_probs=38.8

Q ss_pred             CcccCcccCCCCeee-cCCCCCchhhhhcC------CCCCCCccccCCe
Q 018644          306 QRCCICCEDEKDTAF-ECGHMSCIKCALRM------PQCPFCREEITTR  347 (352)
Q Consensus       306 ~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~------~~CP~CR~~i~~~  347 (352)
                      ..|+||-|+.+|+-+ ||||++|..|+..+      ..||.||..|...
T Consensus       370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt  418 (563)
T KOG1785|consen  370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT  418 (563)
T ss_pred             HHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence            689999999999999 99999999999887      4699999999875

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

Probab=97.91  E-value=2.2e-06  Score=90.83  Aligned_cols=52  Identities=29%  Similarity=0.703  Sum_probs=44.0

Q ss_pred             cccccCCcccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCC--eeecC
Q 018644          300 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITT--RRRVY  351 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~--~i~if  351 (352)
                      ...+....|++|-++++++++ .|||.||..|....     ++||.|..++..  +.+||
T Consensus       638 k~yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~I~  697 (698)
T KOG0978|consen  638 KEYKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHRIH  697 (698)
T ss_pred             HHHHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccccC
Confidence            345667999999999999999 99999999999854     789999999876  34444

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

Probab=97.88  E-value=3.2e-06  Score=78.26  Aligned_cols=44  Identities=34%  Similarity=0.727  Sum_probs=38.0

Q ss_pred             ccccccCCcccCcccCCCCeee-cCCCCCchhhhhcCC----CCCCCcc
Q 018644          299 SAEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRMP----QCPFCRE  342 (352)
Q Consensus       299 ~~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~~----~CP~CR~  342 (352)
                      .....+...|+||++...++.+ ||||.||+.|+..++    .||.||.
T Consensus         7 ~~~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen    7 LEVLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             hhhccccccChhhHHHhhcCccccccchHhHHHHHHhcCCCcCCcccCC
Confidence            3455678999999999999876 999999999999874    7999994

>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=97.87  E-value=7.3e-05  Score=66.37  Aligned_cols=141  Identities=17%  Similarity=0.217  Sum_probs=89.8

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccC---CC-ccceeeecCCCCCCCCcccC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSF  123 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd---~d-~ip~~GFGa~~~~~~~~f~~  123 (352)
                      .+++.+.||-|.|=+  |+      .         ...-.+|+..+...+...+   .+ .+-++.|+....   .++++
T Consensus         3 ~~~v~~llD~SgSM~--~~------~---------~~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F~~~a~---~~~~l   62 (176)
T cd01464           3 RLPIYLLLDTSGSMA--GE------P---------IEALNQGLQMLQSELRQDPYALESVEISVITFDSAAR---VIVPL   62 (176)
T ss_pred             CCCEEEEEECCCCCC--Ch------H---------HHHHHHHHHHHHHHHhcChhhccccEEEEEEecCCce---EecCC
Confidence            467788999987732  11      1         1234566666665555432   34 899999998532   23444


Q ss_pred             CCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcCCc---------eEEEEEEeCCccCCccHHHHHH
Q 018644          124 QENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGL---------HHVLVIITSGQVATGSQQEQET  194 (352)
Q Consensus       124 ~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~~~---------Y~VLlIitDG~i~d~~~~~~~~  194 (352)
                      ...       .      ......+...|-|++..-++++.+..++....         -.++++||||.-+|......+.
T Consensus        63 ~~~-------~------~~~~~~l~~~GgT~l~~aL~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~~~~~~~~~  129 (176)
T cd01464          63 TPL-------E------SFQPPRLTASGGTSMGAALELALDCIDRRVQRYRADQKGDWRPWVFLLTDGEPTDDLTAAIER  129 (176)
T ss_pred             ccH-------H------hcCCCcccCCCCCcHHHHHHHHHHHHHHHHHHhcccCcCCcCcEEEEEcCCCCCchHHHHHHH
Confidence            321       0      11234567789999999999998886532111         1367999999987732222244


Q ss_pred             H---hcCCcEEEEEeec-CCCcchhccccCC
Q 018644          195 I---SSYPLSIVLVGVG-DGPWESIQKFHDK  221 (352)
Q Consensus       195 i---S~~PlSIiiVGVG-~~~f~~m~~LD~~  221 (352)
                      +   -..++.|..|||| +.+.+.|++|-+.
T Consensus       130 ~~~~~~~~~~i~~igiG~~~~~~~L~~ia~~  160 (176)
T cd01464         130 IKEARDSKGRIVACAVGPKADLDTLKQITEG  160 (176)
T ss_pred             HHhhcccCCcEEEEEeccccCHHHHHHHHCC
Confidence            5   2336889999999 5788888888754

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

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

Probab=97.83  E-value=8.2e-06  Score=75.53  Aligned_cols=46  Identities=30%  Similarity=0.676  Sum_probs=42.6

Q ss_pred             CcccCcccCCCCeee-cCCCC-CchhhhhcCCCCCCCccccCCeeecC
Q 018644          306 QRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVY  351 (352)
Q Consensus       306 ~~C~IC~~~~~~~~~-pCGH~-~C~~C~~~~~~CP~CR~~i~~~i~if  351 (352)
                      ..|..|.+....+++ ||.|+ +|..|...+..||+|+.+....+.+|
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            339999999999988 99999 99999998889999999999999887

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

Probab=97.81  E-value=5.3e-06  Score=79.23  Aligned_cols=52  Identities=33%  Similarity=0.601  Sum_probs=43.9

Q ss_pred             CCCcccccccCCcccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018644          295 MGPVSAEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITT  346 (352)
Q Consensus       295 ~~~~~~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~  346 (352)
                      ..|+-..+.....|-||-+..+-++. +|||.||..|+.+.    ..||+||.+...
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            34555666778999999999999998 99999999999986    679999987543

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

Probab=97.81  E-value=6.6e-06  Score=77.70  Aligned_cols=44  Identities=30%  Similarity=0.856  Sum_probs=37.7

Q ss_pred             ccCCcccCcccCCCCeee-cCCCCCchhhhhc-C-----CCCCCCccccCC
Q 018644          303 AEAQRCCICCEDEKDTAF-ECGHMSCIKCALR-M-----PQCPFCREEITT  346 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~-~-----~~CP~CR~~i~~  346 (352)
                      ..+..|.+|++..-+++. +|||.||..|+.. +     ..||+||+.+..
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            357899999999999887 9999999999987 3     359999998754

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

Probab=97.80  E-value=0.00019  Score=62.65  Aligned_cols=139  Identities=14%  Similarity=0.186  Sum_probs=88.7

Q ss_pred             eccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC-ccceeeecCCCCCCCCcccCCCCC
Q 018644           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQEND  127 (352)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~~~  127 (352)
                      +++.+.||.|.|=.  +                  +..+.|-.++..+++.+.++ .+-+++|+.....   .+++.+..
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            35678889877632  0                  13344444455556566566 8999999986432   23333211


Q ss_pred             CCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcC--CceEEEEEEeCCccCCccHHHHHHH--hcCCcEEE
Q 018644          128 SPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG--GLHHVLVIITSGQVATGSQQEQETI--SSYPLSIV  203 (352)
Q Consensus       128 p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~--~~Y~VLlIitDG~i~d~~~~~~~~i--S~~PlSIi  203 (352)
                      +  .+-    +...+.+..+...|-|+...-++.+.+..++..  ..-.++++||||..++ .   ...+  .+.++.|.
T Consensus        58 ~--~~~----~~~~~~i~~~~~~g~T~~~~al~~a~~~~~~~~~~~~~~~iillTDG~~~~-~---~~~~~~~~~~v~v~  127 (155)
T cd01466          58 A--KGK----RSAKRVVDGLQAGGGTNVVGGLKKALKVLGDRRQKNPVASIMLLSDGQDNH-G---AVVLRADNAPIPIH  127 (155)
T ss_pred             H--HHH----HHHHHHHHhccCCCCccHHHHHHHHHHHHhhcccCCCceEEEEEcCCCCCc-c---hhhhcccCCCceEE
Confidence            1  112    223444445677888999999999998876431  2236789999998776 2   2223  55699999


Q ss_pred             EEeec-CCCcchhccccC
Q 018644          204 LVGVG-DGPWESIQKFHD  220 (352)
Q Consensus       204 iVGVG-~~~f~~m~~LD~  220 (352)
                      .||+| +.+...|++|=+
T Consensus       128 ~igig~~~~~~~l~~iA~  145 (155)
T cd01466         128 TFGLGASHDPALLAFIAE  145 (155)
T ss_pred             EEecCCCCCHHHHHHHHh
Confidence            99999 567777777653

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,

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

Probab=97.77  E-value=0.00022  Score=65.01  Aligned_cols=156  Identities=15%  Similarity=0.194  Sum_probs=92.9

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC-ccceeeecCCCCCC--C-CcccC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRD--E-GVFSF  123 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~--~-~~f~~  123 (352)
                      ..++.+.||-|.|=..             . +....+..+.|..++..++..+..+ .+-++.|+......  . .+++.
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            4789999999877321             1 1122456666777777777777667 99999999864321  1 11211


Q ss_pred             CCCCCCCCCHH-HHHHHHHhhCCcee-eecCCCcHHHHHHHHHHHHHcCCceEEEEEEeCCccCCcc--HHHHHHH-hc-
Q 018644          124 QENDSPCQGFE-HVLECYRKNVPNVQ-YFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGS--QQEQETI-SS-  197 (352)
Q Consensus       124 ~~~~p~~~G~~-gvl~~Y~~~l~~v~-l~gPt~fapiI~~a~~~a~~~~~~Y~VLlIitDG~i~d~~--~~~~~~i-S~-  197 (352)
                      .+--....+.. .-.+...+.+..+. ..|-|+...-|+.+.+..+ . ..-..+|+||||.-++-.  .+..+.+ .. 
T Consensus        86 ~~~~~~~~~~~~~~~~~l~~~i~~i~~~~G~T~l~~aL~~a~~~l~-~-~~~~~iillTDG~~~~~~~~~~~~~~~~~~~  163 (206)
T cd01456          86 GCLTAPVNGFPSAQRSALDAALNSLQTPTGWTPLAAALAEAAAYVD-P-GRVNVVVLITDGEDTCGPDPCEVARELAKRR  163 (206)
T ss_pred             cccccccCCCCcccHHHHHHHHHhhcCCCCcChHHHHHHHHHHHhC-C-CCcceEEEEcCCCccCCCCHHHHHHHHHHhc
Confidence            11000111210 11233344566666 7889999999999888765 2 232567899999876520  1222222 33 


Q ss_pred             ---CCcEEEEEeecCC-Ccchhcccc
Q 018644          198 ---YPLSIVLVGVGDG-PWESIQKFH  219 (352)
Q Consensus       198 ---~PlSIiiVGVG~~-~f~~m~~LD  219 (352)
                         -++.|.+||+|.. +-..|+++=
T Consensus       164 ~~~~~i~i~~igiG~~~~~~~l~~iA  189 (206)
T cd01456         164 TPAPPIKVNVIDFGGDADRAELEAIA  189 (206)
T ss_pred             CCCCCceEEEEEecCcccHHHHHHHH
Confidence               4899999999975 455555553

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

>smart00184 RING Ring finger

Probab=97.73  E-value=2e-05  Score=51.42  Aligned_cols=33  Identities=42%  Similarity=1.053  Sum_probs=28.5

Q ss_pred             ccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCC
Q 018644          308 CCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFC  340 (352)
Q Consensus       308 C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----~~CP~C  340 (352)
                      |+||++...++++ +|||.||..|...+     ..||+|
T Consensus         1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            8899999888776 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)

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

Probab=97.71  E-value=0.00055  Score=59.47  Aligned_cols=140  Identities=14%  Similarity=0.152  Sum_probs=89.2

Q ss_pred             eccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC-ccceeeecCCCCCCCCcccCCCCC
Q 018644           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQEND  127 (352)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~~~  127 (352)
                      +++.+.+|.|.|=.                 .   ..++.|..++..++..+..+ .+-++.|+.....   ++++.+. 
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            57889999997732                 0   12566667777788888777 9999999986322   2332211 


Q ss_pred             CCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcC--CceEEEEEEeCCccCCc---cHHHHHHH---hcCC
Q 018644          128 SPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG--GLHHVLVIITSGQVATG---SQQEQETI---SSYP  199 (352)
Q Consensus       128 p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~--~~Y~VLlIitDG~i~d~---~~~~~~~i---S~~P  199 (352)
                         ...+.+.    +.+.+++..|.|++..-++.+.+..++..  ..--.++++|||.-++-   .++..+.+   .+..
T Consensus        57 ---~~~~~l~----~~l~~~~~~g~T~~~~al~~a~~~~~~~~~~~~~~~ivl~TDG~~~~~~~~~~~~~~~~~~~~~~~  129 (170)
T cd01465          57 ---RDKAAIL----AAIDRLTAGGSTAGGAGIQLGYQEAQKHFVPGGVNRILLATDGDFNVGETDPDELARLVAQKRESG  129 (170)
T ss_pred             ---chHHHHH----HHHHcCCCCCCCCHHHHHHHHHHHHHhhcCCCCeeEEEEEeCCCCCCCCCCHHHHHHHHHHhhcCC
Confidence               1223333    33444556889999999999988876532  22255689999986531   13334444   2457


Q ss_pred             cEEEEEeecCC-Ccchhcccc
Q 018644          200 LSIVLVGVGDG-PWESIQKFH  219 (352)
Q Consensus       200 lSIiiVGVG~~-~f~~m~~LD  219 (352)
                      +-|..||+|.. +...|+++=
T Consensus       130 v~i~~i~~g~~~~~~~l~~ia  150 (170)
T cd01465         130 ITLSTLGFGDNYNEDLMEAIA  150 (170)
T ss_pred             eEEEEEEeCCCcCHHHHHHHH
Confidence            88899999842 555565553

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

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

Probab=97.63  E-value=1.4e-05  Score=55.93  Aligned_cols=26  Identities=35%  Similarity=0.881  Sum_probs=17.0

Q ss_pred             ccCcccCCCC----ee-ecCCCCCchhhhhcC
Q 018644          308 CCICCEDEKD----TA-FECGHMSCIKCALRM  334 (352)
Q Consensus       308 C~IC~~~~~~----~~-~pCGH~~C~~C~~~~  334 (352)
                      |+||.+ ..+    ++ ++|||.+|.+|+.++
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 666    55 499999999999987

>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=97.58  E-value=0.00086  Score=58.78  Aligned_cols=125  Identities=14%  Similarity=0.170  Sum_probs=78.4

Q ss_pred             HHHHHHHHhccccccCCC-ccceeeecCCCCCCCCcccCCCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHH
Q 018644           86 YQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVD  164 (352)
Q Consensus        86 Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~  164 (352)
                      ..+++..+..-+....++ .+.++.|+....   ..|+++.    ....+.++++-.+.-   ...|.|+...-|+.+.+
T Consensus        21 ~k~~~~~l~~~~~~~~~~~rvgli~fs~~~~---~~~~l~~----~~~~~~l~~~l~~~~---~~~g~T~~~~aL~~a~~   90 (164)
T cd01482          21 VRSFLSSVVEAFEIGPDGVQVGLVQYSDDPR---TEFDLNA----YTSKEDVLAAIKNLP---YKGGNTRTGKALTHVRE   90 (164)
T ss_pred             HHHHHHHHHhheeeCCCceEEEEEEECCCee---EEEecCC----CCCHHHHHHHHHhCc---CCCCCChHHHHHHHHHH
Confidence            344444444444333356 999999998742   2355531    234556666554321   14688999988888876


Q ss_pred             HHHHc-----CCceEEEEEEeCCccCCccHHHHHHHhcCCcEEEEEeecCCCcchhccccC
Q 018644          165 IVEES-----GGLHHVLVIITSGQVATGSQQEQETISSYPLSIVLVGVGDGPWESIQKFHD  220 (352)
Q Consensus       165 ~a~~~-----~~~Y~VLlIitDG~i~d~~~~~~~~iS~~PlSIiiVGVG~~~f~~m~~LD~  220 (352)
                      ...+.     ...-.++||||||.-+|-..+..+.+-+..+.|+.||+|+.+-..|++|-+
T Consensus        91 ~~~~~~~~~r~~~~k~iillTDG~~~~~~~~~a~~lk~~gi~i~~ig~g~~~~~~L~~ia~  151 (164)
T cd01482          91 KNFTPDAGARPGVPKVVILITDGKSQDDVELPARVLRNLGVNVFAVGVKDADESELKMIAS  151 (164)
T ss_pred             HhcccccCCCCCCCEEEEEEcCCCCCchHHHHHHHHHHCCCEEEEEecCcCCHHHHHHHhC
Confidence            54221     124568899999987652223333334568899999999988777777765

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.

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

Probab=97.57  E-value=3e-05  Score=58.51  Aligned_cols=44  Identities=30%  Similarity=0.750  Sum_probs=26.8

Q ss_pred             cccCCcccCcccCCCCee-e-cCCCCCchhhhhcC--CCCCCCccccC
Q 018644          302 VAEAQRCCICCEDEKDTA-F-ECGHMSCIKCALRM--PQCPFCREEIT  345 (352)
Q Consensus       302 ~~~~~~C~IC~~~~~~~~-~-pCGH~~C~~C~~~~--~~CP~CR~~i~  345 (352)
                      +++...|.+|.+..+.++ + .|.|.||..|+...  ..||+|+.|-.
T Consensus         4 le~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Paw   51 (65)
T PF14835_consen    4 LEELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSECPVCHTPAW   51 (65)
T ss_dssp             HHHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB-SSS--B-S
T ss_pred             HHHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCCCCCcCChHH
Confidence            456789999999999986 4 99999999999987  67999998864

>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=97.57  E-value=0.0012  Score=57.24  Aligned_cols=140  Identities=16%  Similarity=0.264  Sum_probs=84.7

Q ss_pred             eccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCC---C-ccceeeecCCCCCCCCcccCC
Q 018644           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDG---D-CIRCYGFGDDTTRDEGVFSFQ  124 (352)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~---d-~ip~~GFGa~~~~~~~~f~~~  124 (352)
                      +++.+.+|-|.|-.                     ..|+++...+..++..+..   . .+.+.+|+..... .-.|+++
T Consensus         1 ldv~~llD~S~Sm~---------------------~~~~~~~~~~~~~~~~l~~~~~~~~v~lv~f~~~~~~-~~~~~l~   58 (163)
T cd01476           1 LDLLFVLDSSGSVR---------------------GKFEKYKKYIERIVEGLEIGPTATRVALITYSGRGRQ-RVRFNLP   58 (163)
T ss_pred             CCEEEEEeCCcchh---------------------hhHHHHHHHHHHHHHhcCCCCCCcEEEEEEEcCCCce-EEEecCC
Confidence            35678888876632                     0144445555555555543   5 9999999985321 1135554


Q ss_pred             CCCCCCCCHHHHHHHHHhhCCcee-eecCCCcHHHHHHHHHHHHHc----CCceEEEEEEeCCccCCccHHHHHHH-hcC
Q 018644          125 ENDSPCQGFEHVLECYRKNVPNVQ-YFGPTSYAPMVEAAVDIVEES----GGLHHVLVIITSGQVATGSQQEQETI-SSY  198 (352)
Q Consensus       125 ~~~p~~~G~~gvl~~Y~~~l~~v~-l~gPt~fapiI~~a~~~a~~~----~~~Y~VLlIitDG~i~d~~~~~~~~i-S~~  198 (352)
                      ..    ...+.++++-..    ++ ..|.|+...-|+.+.+...+.    ...-.+++++|||.-++-.....+.+ +..
T Consensus        59 ~~----~~~~~l~~~i~~----l~~~gg~T~l~~aL~~a~~~l~~~~~~r~~~~~~villTDG~~~~~~~~~~~~l~~~~  130 (163)
T cd01476          59 KH----NDGEELLEKVDN----LRFIGGTTATGAAIEVALQQLDPSEGRREGIPKVVVVLTDGRSHDDPEKQARILRAVP  130 (163)
T ss_pred             CC----CCHHHHHHHHHh----CccCCCCccHHHHHHHHHHHhccccCCCCCCCeEEEEECCCCCCCchHHHHHHHhhcC
Confidence            21    233444443332    33 367899999999998887421    12237889999998765222333444 437


Q ss_pred             CcEEEEEeecCC---Ccchhccc
Q 018644          199 PLSIVLVGVGDG---PWESIQKF  218 (352)
Q Consensus       199 PlSIiiVGVG~~---~f~~m~~L  218 (352)
                      -+.|+.||+|+.   +...|..+
T Consensus       131 ~v~v~~vg~g~~~~~~~~~L~~i  153 (163)
T cd01476         131 NIETFAVGTGDPGTVDTEELHSI  153 (163)
T ss_pred             CCEEEEEECCCccccCHHHHHHH
Confidence            789999999986   44444444

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.

>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=97.52  E-value=0.0016  Score=57.36  Aligned_cols=137  Identities=15%  Similarity=0.148  Sum_probs=82.2

Q ss_pred             eccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCCccceeeecCCCCCCCCcccCCCCCC
Q 018644           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDS  128 (352)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d~ip~~GFGa~~~~~~~~f~~~~~~p  128 (352)
                      +++.+.||.|.|=..  .        ++    ...+..+.|...+...+.....|.+-++.|+.....   .+++.    
T Consensus         3 ~~vv~vlD~S~SM~~--~--------~~----~~~~r~~~a~~~~~~~~~~~~~~~v~lv~f~~~~~~---~~~~~----   61 (180)
T cd01467           3 RDIMIALDVSGSMLA--Q--------DF----VKPSRLEAAKEVLSDFIDRRENDRIGLVVFAGAAFT---QAPLT----   61 (180)
T ss_pred             ceEEEEEECCccccc--c--------cC----CCCCHHHHHHHHHHHHHHhCCCCeEEEEEEcCCeee---ccCCC----
Confidence            688999999988532  0        00    012444555555556666655448999999875421   22332    


Q ss_pred             CCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcCCceEEEEEEeCCccCCc---cHHHHHHHhcCCcEEEEE
Q 018644          129 PCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATG---SQQEQETISSYPLSIVLV  205 (352)
Q Consensus       129 ~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~~~Y~VLlIitDG~i~d~---~~~~~~~iS~~PlSIiiV  205 (352)
                        .+.+.+.+ .-+.+......|.|+...-|+.+.+...+....-.++++||||.-++-   ..+..+.+.+..+.|..|
T Consensus        62 --~~~~~~~~-~l~~l~~~~~~g~T~l~~al~~a~~~l~~~~~~~~~iiliTDG~~~~g~~~~~~~~~~~~~~gi~i~~i  138 (180)
T cd01467          62 --LDRESLKE-LLEDIKIGLAGQGTAIGDAIGLAIKRLKNSEAKERVIVLLTDGENNAGEIDPATAAELAKNKGVRIYTI  138 (180)
T ss_pred             --ccHHHHHH-HHHHhhhcccCCCCcHHHHHHHHHHHHHhcCCCCCEEEEEeCCCCCCCCCCHHHHHHHHHHCCCEEEEE
Confidence              12222222 112222334578899988888888877654444578899999976531   112233335678899999


Q ss_pred             eecC
Q 018644          206 GVGD  209 (352)
Q Consensus       206 GVG~  209 (352)
                      |+|+
T Consensus       139 ~ig~  142 (180)
T cd01467         139 GVGK  142 (180)
T ss_pred             EecC
Confidence            9997

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

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

Probab=97.49  E-value=0.00066  Score=58.18  Aligned_cols=146  Identities=16%  Similarity=0.210  Sum_probs=93.0

Q ss_pred             ccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCCccceeeecCCCCCCCCcccCCCCCCC
Q 018644           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSP  129 (352)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d~ip~~GFGa~~~~~~~~f~~~~~~p~  129 (352)
                      ++++.+|-|.|=.+.               ....+...++..++..++..+..+.|.+++|+...   ...++++     
T Consensus         1 dvv~v~D~SgSM~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~v~l~~f~~~~---~~~~~~t-----   57 (172)
T PF13519_consen    1 DVVFVLDNSGSMNGY---------------DGNRTRIDQAKDALNELLANLPGDRVGLVSFSDSS---RTLSPLT-----   57 (172)
T ss_dssp             EEEEEEE-SGGGGTT---------------TSSS-HHHHHHHHHHHHHHHHTTSEEEEEEESTSC---EEEEEEE-----
T ss_pred             CEEEEEECCcccCCC---------------CCCCcHHHHHHHHHHHHHHHCCCCEEEEEEecccc---ccccccc-----
Confidence            467888988775321               11257888999999999998764499999999853   1123332     


Q ss_pred             CCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcCCceEEEEEEeCCccCCccHHHHHHHhcCCcEEEEEeecC
Q 018644          130 CQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETISSYPLSIVLVGVGD  209 (352)
Q Consensus       130 ~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~~~Y~VLlIitDG~i~d~~~~~~~~iS~~PlSIiiVGVG~  209 (352)
                       .+.+.+.++-.+..++....|.|++...|+.+.+........=-.+|+||||.-+....++.+.+.+..+.|.+||+|.
T Consensus        58 -~~~~~~~~~l~~~~~~~~~~~~t~~~~al~~a~~~~~~~~~~~~~iv~iTDG~~~~~~~~~~~~~~~~~i~i~~v~~~~  136 (172)
T PF13519_consen   58 -SDKDELKNALNKLSPQGMPGGGTNLYDALQEAAKMLASSDNRRRAIVLITDGEDNSSDIEAAKALKQQGITIYTVGIGS  136 (172)
T ss_dssp             -SSHHHHHHHHHTHHHHG--SSS--HHHHHHHHHHHHHC-SSEEEEEEEEES-TTHCHHHHHHHHHHCTTEEEEEEEES-
T ss_pred             -ccHHHHHHHhhcccccccCccCCcHHHHHHHHHHHHHhCCCCceEEEEecCCCCCcchhHHHHHHHHcCCeEEEEEECC
Confidence             4677777777776666677889999999999999887654333555789999765411222222277889999999997


Q ss_pred             CCcc--hhcccc
Q 018644          210 GPWE--SIQKFH  219 (352)
Q Consensus       210 ~~f~--~m~~LD  219 (352)
                      ..-.  .|++|-
T Consensus       137 ~~~~~~~l~~la  148 (172)
T PF13519_consen  137 DSDANEFLQRLA  148 (172)
T ss_dssp             TT-EHHHHHHHH
T ss_pred             CccHHHHHHHHH
Confidence            6643  444443

>TIGR03788 marine_srt_targ marine proteobacterial sortase target protein

Probab=97.44  E-value=0.001  Score=70.48  Aligned_cols=126  Identities=20%  Similarity=0.134  Sum_probs=81.7

Q ss_pred             hHHHHHHHHhccccccCCC-ccceeeecCCCCCCCCcccCCCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHH
Q 018644           85 PYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAV  163 (352)
Q Consensus        85 ~Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~  163 (352)
                      ..++|-.++..+|....++ .|-++.|+......   ++..    ...+ ++-++...+.+.+++..|-|++.+.|+.+.
T Consensus       288 ~i~~ak~al~~~l~~L~~~d~~~ii~F~~~~~~~---~~~~----~~~~-~~~~~~a~~~i~~l~a~GgT~l~~aL~~a~  359 (596)
T TIGR03788       288 SIEQAKSALLLALDQLRPGDRFNIIQFDSDVTLL---FPVP----VPAT-AHNLARARQFVAGLQADGGTEMAGALSAAL  359 (596)
T ss_pred             cHHHHHHHHHHHHHhCCCCCEEEEEEECCcceEe---cccc----ccCC-HHHHHHHHHHHhhCCCCCCccHHHHHHHHH
Confidence            3566777777777887777 99999999875322   1110    0011 122334445566677789999999999998


Q ss_pred             HHHHHcC-CceEEEEEEeCCccCCccHHHHHHH-hc-CCcEEEEEeecCC-Ccchhcccc
Q 018644          164 DIVEESG-GLHHVLVIITSGQVATGSQQEQETI-SS-YPLSIVLVGVGDG-PWESIQKFH  219 (352)
Q Consensus       164 ~~a~~~~-~~Y~VLlIitDG~i~d~~~~~~~~i-S~-~PlSIiiVGVG~~-~f~~m~~LD  219 (352)
                      +...... ..--.+++||||.+.| ..+..+.+ .+ -...|..||||+. +...|+.|-
T Consensus       360 ~~~~~~~~~~~~~iillTDG~~~~-~~~~~~~~~~~~~~~ri~tvGiG~~~n~~lL~~lA  418 (596)
T TIGR03788       360 RDDGPESSGALRQVVFLTDGAVGN-EDALFQLIRTKLGDSRLFTVGIGSAPNSYFMRKAA  418 (596)
T ss_pred             HhhcccCCCceeEEEEEeCCCCCC-HHHHHHHHHHhcCCceEEEEEeCCCcCHHHHHHHH
Confidence            7643221 2223457899999988 46666666 22 3467788999975 666677664

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).

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

Probab=97.39  E-value=4.9e-05  Score=74.44  Aligned_cols=45  Identities=29%  Similarity=0.748  Sum_probs=40.2

Q ss_pred             ccCCcccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018644          303 AEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITTR  347 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~~  347 (352)
                      .++..|+||+..+.+++| ||+|.-|..|+.+.    +.|-.|+..+...
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            466899999999999999 99999999999975    7899999988753

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

Probab=97.33  E-value=0.0025  Score=56.37  Aligned_cols=119  Identities=13%  Similarity=0.169  Sum_probs=70.9

Q ss_pred             HHHHHHHHhccccccCCCccceeeecCCCCCCC--CcccCCCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHH
Q 018644           86 YQEVIYITGKELVLFDGDCIRCYGFGDDTTRDE--GVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAV  163 (352)
Q Consensus        86 Yq~ai~~ig~vl~~yd~d~ip~~GFGa~~~~~~--~~f~~~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~  163 (352)
                      -.+|+..+...+.. ..|.+-+|+|+...+...  ..+...+-+.   .   ...+.++.+..+...|-|++.+-|+.+.
T Consensus        22 ak~a~~~l~~~l~~-~~d~~~l~~F~~~~~~~~~~~~~~~~~~~~---~---~~~~~~~~l~~~~~~g~T~~~~al~~a~   94 (174)
T cd01454          22 AKKAAVLLAEALEA-CGVPHAILGFTTDAGGRERVRWIKIKDFDE---S---LHERARKRLAALSPGGNTRDGAAIRHAA   94 (174)
T ss_pred             HHHHHHHHHHHHHH-cCCcEEEEEecCCCCCccceEEEEecCccc---c---cchhHHHHHHccCCCCCCcHHHHHHHHH
Confidence            34444455554444 223899999987632111  1121101010   1   0122244445566778899999999999


Q ss_pred             HHHHHcCCceEEEEEEeCCccCCccH-------HHHHH---H---hcCCcEEEEEeecCCCc
Q 018644          164 DIVEESGGLHHVLVIITSGQVATGSQ-------QEQET---I---SSYPLSIVLVGVGDGPW  212 (352)
Q Consensus       164 ~~a~~~~~~Y~VLlIitDG~i~d~~~-------~~~~~---i---S~~PlSIiiVGVG~~~f  212 (352)
                      +...+....=-++++||||.-++. .       ...++   +   -+..+.+..||||+...
T Consensus        95 ~~l~~~~~~~~~iiliTDG~~~~~-~~~~~~~~~~~~~~~~~~~~~~~gi~v~~igig~~~~  155 (174)
T cd01454          95 ERLLARPEKRKILLVISDGEPNDL-DYYEGNVFATEDALRAVIEARKLGIEVFGITIDRDAT  155 (174)
T ss_pred             HHHhcCCCcCcEEEEEeCCCcCcc-cccCcchhHHHHHHHHHHHHHhCCcEEEEEEecCccc
Confidence            887654334467899999988752 1       12233   3   56689999999998653

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.

>PF13768 VWA_3: von Willebrand factor type A domain

Probab=97.30  E-value=0.0012  Score=56.91  Aligned_cols=140  Identities=13%  Similarity=0.178  Sum_probs=85.6

Q ss_pred             ccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC-ccceeeecCCCCCCCCcccCCCCCC
Q 018644           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDS  128 (352)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~~~p  128 (352)
                      ++++-||.+.|...                 .. ..-..|++.   +++...+. .|-++.||.........        
T Consensus         2 ~vvilvD~S~Sm~g-----------------~~-~~~k~al~~---~l~~L~~~d~fnii~f~~~~~~~~~~--------   52 (155)
T PF13768_consen    2 DVVILVDTSGSMSG-----------------EK-ELVKDALRA---ILRSLPPGDRFNIIAFGSSVRPLFPG--------   52 (155)
T ss_pred             eEEEEEeCCCCCCC-----------------cH-HHHHHHHHH---HHHhCCCCCEEEEEEeCCEeeEcchh--------
Confidence            46788998888631                 11 334445554   44555556 99999999854322211        


Q ss_pred             CCCCHHHHHHHHHhhCCceee-ecCCCcHHHHHHHHHHHHHcCCceEEEEEEeCCccCCccHHHHHHH--hcCCcEEEEE
Q 018644          129 PCQGFEHVLECYRKNVPNVQY-FGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETI--SSYPLSIVLV  205 (352)
Q Consensus       129 ~~~G~~gvl~~Y~~~l~~v~l-~gPt~fapiI~~a~~~a~~~~~~Y~VLlIitDG~i~d~~~~~~~~i--S~~PlSIiiV  205 (352)
                      ...--+.-++.-.+-+.+++. .|.|++.+-++.|.+..... +.-..+++||||..++..+++.+.+  ..-.+-|..+
T Consensus        53 ~~~~~~~~~~~a~~~I~~~~~~~G~t~l~~aL~~a~~~~~~~-~~~~~IilltDG~~~~~~~~i~~~v~~~~~~~~i~~~  131 (155)
T PF13768_consen   53 LVPATEENRQEALQWIKSLEANSGGTDLLAALRAALALLQRP-GCVRAIILLTDGQPVSGEEEILDLVRRARGHIRIFTF  131 (155)
T ss_pred             HHHHhHHHHHHHHHHHHHhcccCCCccHHHHHHHHHHhcccC-CCccEEEEEEeccCCCCHHHHHHHHHhcCCCceEEEE
Confidence            000001222333444555777 89999999999888765222 2345558899999644234555666  3346888899


Q ss_pred             eecC-CCcchhcccc
Q 018644          206 GVGD-GPWESIQKFH  219 (352)
Q Consensus       206 GVG~-~~f~~m~~LD  219 (352)
                      |+|. .+...|++|=
T Consensus       132 ~~g~~~~~~~L~~LA  146 (155)
T PF13768_consen  132 GIGSDADADFLRELA  146 (155)
T ss_pred             EECChhHHHHHHHHH
Confidence            9997 5666666653

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

Probab=97.26  E-value=0.0015  Score=56.70  Aligned_cols=142  Identities=15%  Similarity=0.244  Sum_probs=86.1

Q ss_pred             ccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhcccc---ccCCC-ccceeeecCCCCCCCCcccCCC
Q 018644           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELV---LFDGD-CIRCYGFGDDTTRDEGVFSFQE  125 (352)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~---~yd~d-~ip~~GFGa~~~~~~~~f~~~~  125 (352)
                      ++++.||-|.|-+                    .+.++++...+-.++.   ..+.. .+-+.-||....   ..|+|+.
T Consensus         1 DivflvD~S~sm~--------------------~~~~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~~~~~---~~~~~~~   57 (178)
T PF00092_consen    1 DIVFLVDTSGSMS--------------------GDNFEKAKQFVKSIISRLSISNNGTRVGIVTFSDSAR---VLFSLTD   57 (178)
T ss_dssp             EEEEEEE-STTSC--------------------HHHHHHHHHHHHHHHHHSTBSTTSEEEEEEEESSSEE---EEEETTS
T ss_pred             CEEEEEeCCCCCc--------------------hHHHHHHHHHHHHHHHhhhccccccccceeeeecccc---ccccccc
Confidence            3577888887753                    1234444444444444   55566 999999998754   3455532


Q ss_pred             CCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHc-----CCceEEEEEEeCCccCCccHHHHHHH---hc
Q 018644          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES-----GGLHHVLVIITSGQVATGSQQEQETI---SS  197 (352)
Q Consensus       126 ~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~-----~~~Y~VLlIitDG~i~d~~~~~~~~i---S~  197 (352)
                      .    ...+.+++.=  ....-..+|-|+++..|++|.+.....     .....++++||||..++-.....+..   ..
T Consensus        58 ~----~~~~~~~~~i--~~~~~~~~g~t~~~~aL~~a~~~l~~~~~~~r~~~~~~iiliTDG~~~~~~~~~~~~~~~~~~  131 (178)
T PF00092_consen   58 Y----QSKNDLLNAI--NDSIPSSGGGTNLGAALKFAREQLFSSNNGGRPNSPKVIILITDGNSNDSDSPSEEAANLKKS  131 (178)
T ss_dssp             H----SSHHHHHHHH--HTTGGCCBSSB-HHHHHHHHHHHTTSGGGTTGTTSEEEEEEEESSSSSSHSGHHHHHHHHHHH
T ss_pred             c----cccccccccc--cccccccchhhhHHHHHhhhhhcccccccccccccccceEEEEeecccCCcchHHHHHHHHHh
Confidence            1    2344554432  234455778999999999999986432     45689999999999988311222222   34


Q ss_pred             CCcEEEEEeecCCCcchhccccC
Q 018644          198 YPLSIVLVGVGDGPWESIQKFHD  220 (352)
Q Consensus       198 ~PlSIiiVGVG~~~f~~m~~LD~  220 (352)
                      +-+.++.||+++.+-..++.|-+
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            55666666664566666666653

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 ....

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

Probab=97.24  E-value=0.0033  Score=54.80  Aligned_cols=122  Identities=19%  Similarity=0.283  Sum_probs=74.9

Q ss_pred             HHHHHHhccccccCCC-ccceeeecCCCCCCCCcccCCCCCCCCCCHHHHHHHHHhhCCceee-ecCCCcHHHHHHHHHH
Q 018644           88 EVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQY-FGPTSYAPMVEAAVDI  165 (352)
Q Consensus        88 ~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~~~p~~~G~~gvl~~Y~~~l~~v~l-~gPt~fapiI~~a~~~  165 (352)
                      +++..+..-|.....+ .+-++-|+.....   +++++.    ....+.+.++    +.++.. .|.|+...-++.|.+.
T Consensus        23 ~~~~~~~~~l~~~~~~~~~giv~Fs~~~~~---~~~~~~----~~~~~~~~~~----l~~l~~~~g~T~~~~al~~a~~~   91 (164)
T cd01472          23 DFVKRVVERLDIGPDGVRVGVVQYSDDPRT---EFYLNT----YRSKDDVLEA----VKNLRYIGGGTNTGKALKYVREN   91 (164)
T ss_pred             HHHHHHHhhcccCCCCeEEEEEEEcCceeE---EEecCC----CCCHHHHHHH----HHhCcCCCCCchHHHHHHHHHHH
Confidence            3444444434333345 8999999976432   244431    1234444443    333443 7889999999999887


Q ss_pred             HHHc-----CCceEEEEEEeCCccCCccHHHHHHHhcCCcEEEEEeecCCCcchhccccC
Q 018644          166 VEES-----GGLHHVLVIITSGQVATGSQQEQETISSYPLSIVLVGVGDGPWESIQKFHD  220 (352)
Q Consensus       166 a~~~-----~~~Y~VLlIitDG~i~d~~~~~~~~iS~~PlSIiiVGVG~~~f~~m~~LD~  220 (352)
                      ..+.     ...=.++++||||.-++-.......+.+..+.|..||+|+.+.+.|+.+=+
T Consensus        92 l~~~~~~~~~~~~~~iiliTDG~~~~~~~~~~~~l~~~gv~i~~ig~g~~~~~~L~~ia~  151 (164)
T cd01472          92 LFTEASGSREGVPKVLVVITDGKSQDDVEEPAVELKQAGIEVFAVGVKNADEEELKQIAS  151 (164)
T ss_pred             hCCcccCCCCCCCEEEEEEcCCCCCchHHHHHHHHHHCCCEEEEEECCcCCHHHHHHHHC
Confidence            6531     122367788999976552111122235578899999999988888887754

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.

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

Probab=97.18  E-value=0.0027  Score=57.32  Aligned_cols=150  Identities=13%  Similarity=0.193  Sum_probs=84.0

Q ss_pred             eccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC-ccceeeecCCCCCCCCcccCCCCC
Q 018644           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQEND  127 (352)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~~~  127 (352)
                      +++.+.||-|.|=+                 +...+.-.+++..+..-|..+..+ .+-++.|+....   .+|++..  
T Consensus         1 ~di~~vlD~SgSM~-----------------~~~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs~~~~---~~~~~~~--   58 (198)
T cd01470           1 LNIYIALDASDSIG-----------------EEDFDEAKNAIKTLIEKISSYEVSPRYEIISYASDPK---EIVSIRD--   58 (198)
T ss_pred             CcEEEEEECCCCcc-----------------HHHHHHHHHHHHHHHHHccccCCCceEEEEEecCCce---EEEeccc--
Confidence            46788889877632                 011233344455544444445445 999999988632   2344432  


Q ss_pred             CCCCCHHHHHHHHHhhCCcee-eecCCCcHHHHHHHHHHHHHc----C----CceEEEEEEeCCccCCc--cHHHHHHH-
Q 018644          128 SPCQGFEHVLECYRKNVPNVQ-YFGPTSYAPMVEAAVDIVEES----G----GLHHVLVIITSGQVATG--SQQEQETI-  195 (352)
Q Consensus       128 p~~~G~~gvl~~Y~~~l~~v~-l~gPt~fapiI~~a~~~a~~~----~----~~Y~VLlIitDG~i~d~--~~~~~~~i-  195 (352)
                      +.-...+.++++-...-.... ..|-|++..-|+++.+.....    .    ..-.++++||||+-++-  ..+..+.+ 
T Consensus        59 ~~~~~~~~~~~~l~~~~~~~~~~~ggT~~~~Al~~~~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~~~~~~~~~~~  138 (198)
T cd01470          59 FNSNDADDVIKRLEDFNYDDHGDKTGTNTAAALKKVYERMALEKVRNKEAFNETRHVIILFTDGKSNMGGSPLPTVDKIK  138 (198)
T ss_pred             CCCCCHHHHHHHHHhCCcccccCccchhHHHHHHHHHHHHHHHHhcCccchhhcceEEEEEcCCCcCCCCChhHHHHHHH
Confidence            111234445443333222221 235689998888887653211    0    12378899999987631  12222222 


Q ss_pred             h------------cCCcEEEEEeecC-CCcchhccccC
Q 018644          196 S------------SYPLSIVLVGVGD-GPWESIQKFHD  220 (352)
Q Consensus       196 S------------~~PlSIiiVGVG~-~~f~~m~~LD~  220 (352)
                      .            ...+.|..||||+ .+.+.|+++=.
T Consensus       139 ~~~~~~~~~~~~~~~~v~i~~iGvG~~~~~~~L~~iA~  176 (198)
T cd01470         139 NLVYKNNKSDNPREDYLDVYVFGVGDDVNKEELNDLAS  176 (198)
T ss_pred             HHHhcccccccchhcceeEEEEecCcccCHHHHHHHhc
Confidence            1            1258899999996 47888888865

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.

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

Probab=97.09  E-value=0.00018  Score=55.61  Aligned_cols=44  Identities=23%  Similarity=0.291  Sum_probs=34.4

Q ss_pred             cCCcccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCCe
Q 018644          304 EAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITTR  347 (352)
Q Consensus       304 ~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~~  347 (352)
                      +...|+||.+...++++ ||||.+++.|+.++     ..||+||+++...
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            57899999999999998 99999999999876     4699999998764

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 ....

>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=97.07  E-value=0.014  Score=53.11  Aligned_cols=146  Identities=14%  Similarity=0.160  Sum_probs=87.6

Q ss_pred             HHHHHhccccccC---CC-ccceeeecCCCCCCCCcccCCCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHH
Q 018644           89 VIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVD  164 (352)
Q Consensus        89 ai~~ig~vl~~yd---~d-~ip~~GFGa~~~~~~~~f~~~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~  164 (352)
                      ++..+-.+++.|+   .+ .+.+.=|+....   ..++|+..  .-..-+.++++=++..+.....|-|+...-|+++.+
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            4444555555555   34 888889987542   23455421  112345565554443333344688999999998877


Q ss_pred             HHHHcC----CceEEEEEEeCCccCCcc-HHHHHH---HhcCCcEEEEEeecCCCcchhccccCCC-CCcceeeEeeecc
Q 018644          165 IVEESG----GLHHVLVIITSGQVATGS-QQEQET---ISSYPLSIVLVGVGDGPWESIQKFHDKI-PALQFDNFHFVNF  235 (352)
Q Consensus       165 ~a~~~~----~~Y~VLlIitDG~i~d~~-~~~~~~---iS~~PlSIiiVGVG~~~f~~m~~LD~~~-~~r~rDnvqFV~f  235 (352)
                      ......    ..=-|+|+||||.-++.. ....++   +-+..+.|..||||..+-..++.+=+.- ......+|-..+|
T Consensus        97 ~~~~~~~~r~~~~kv~IllTDG~s~~~~~~~~~~~a~~lk~~gV~i~~vGiG~~~~~el~~ia~~~~~~~~~~~~~~~~f  176 (192)
T cd01473          97 NYTKHGNRRKDAPKVTMLFTDGNDTSASKKELQDISLLYKEENVKLLVVGVGAASENKLKLLAGCDINNDNCPNVIKTEW  176 (192)
T ss_pred             HhccCCCCcccCCeEEEEEecCCCCCcchhhHHHHHHHHHHCCCEEEEEEeccccHHHHHHhcCCCCCCCCCCeEEecch
Confidence            754321    125789999999887621 123222   2678999999999998766666665431 2222345555666


Q ss_pred             hhhh
Q 018644          236 TAIM  239 (352)
Q Consensus       236 ~~~~  239 (352)
                      +++.
T Consensus       177 ~~l~  180 (192)
T cd01473         177 NNLN  180 (192)
T ss_pred             hhHH
Confidence            6664

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.

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

Probab=97.06  E-value=3.2e-05  Score=75.77  Aligned_cols=50  Identities=32%  Similarity=0.650  Sum_probs=41.2

Q ss_pred             cccccCCcccCcccCCCCeee--cCCCCCchhhhhcC-----CCCCCCccccCCeee
Q 018644          300 AEVAEAQRCCICCEDEKDTAF--ECGHMSCIKCALRM-----PQCPFCREEITTRRR  349 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~~--pCGH~~C~~C~~~~-----~~CP~CR~~i~~~i~  349 (352)
                      ..+..+..|+||++..+....  -|+|.||..|++.-     ..||.||+...+...
T Consensus        38 ~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skrs   94 (381)
T KOG0311|consen   38 AMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRS   94 (381)
T ss_pred             HHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccccc
Confidence            345667999999998877554  99999999999965     579999999887643

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

Probab=97.05  E-value=0.0049  Score=55.12  Aligned_cols=142  Identities=16%  Similarity=0.220  Sum_probs=84.5

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccC-CC-ccceeeecCCCCCCCCcccCCC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD-GD-CIRCYGFGDDTTRDEGVFSFQE  125 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd-~d-~ip~~GFGa~~~~~~~~f~~~~  125 (352)
                      .+++.+.||-|.|=+  ++                   +.+++..+-.++..|. ++ ++-++.|+...   ..+|+|+.
T Consensus         4 ~~Dvv~llD~SgSm~--~~-------------------~~~~~~~~~~l~~~~~~~~~rvglv~Fs~~~---~~~~~l~~   59 (185)
T cd01474           4 HFDLYFVLDKSGSVA--AN-------------------WIEIYDFVEQLVDRFNSPGLRFSFITFSTRA---TKILPLTD   59 (185)
T ss_pred             ceeEEEEEeCcCchh--hh-------------------HHHHHHHHHHHHHHcCCCCcEEEEEEecCCc---eEEEeccc
Confidence            468889999887732  10                   1112222233333333 34 99999998753   23466643


Q ss_pred             CCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHH--cCCc--eEEEEEEeCCccCCc-cHHHHH---HHhc
Q 018644          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEE--SGGL--HHVLVIITSGQVATG-SQQEQE---TISS  197 (352)
Q Consensus       126 ~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~--~~~~--Y~VLlIitDG~i~d~-~~~~~~---~iS~  197 (352)
                      ..      +.+.++.. .++.+...|-|+...-|+.|.+....  .+..  =.++++||||.-++. .....+   .+-+
T Consensus        60 ~~------~~~~~~l~-~l~~~~~~g~T~~~~aL~~a~~~l~~~~~~~r~~~~~villTDG~~~~~~~~~~~~~a~~l~~  132 (185)
T cd01474          60 DS------SAIIKGLE-VLKKVTPSGQTYIHEGLENANEQIFNRNGGGRETVSVIIALTDGQLLLNGHKYPEHEAKLSRK  132 (185)
T ss_pred             cH------HHHHHHHH-HHhccCCCCCCcHHHHHHHHHHHHHhhccCCCCCCeEEEEEcCCCcCCCCCcchHHHHHHHHH
Confidence            21      12322221 24455567899999999999876532  1111  177899999988431 122222   2345


Q ss_pred             CCcEEEEEeecCCCcchhccccC
Q 018644          198 YPLSIVLVGVGDGPWESIQKFHD  220 (352)
Q Consensus       198 ~PlSIiiVGVG~~~f~~m~~LD~  220 (352)
                      ..+-|..||||+.+...|+.+=+
T Consensus       133 ~gv~i~~vgv~~~~~~~L~~iA~  155 (185)
T cd01474         133 LGAIVYCVGVTDFLKSQLINIAD  155 (185)
T ss_pred             cCCEEEEEeechhhHHHHHHHhC
Confidence            67889999998888888887765

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.

>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=97.05  E-value=0.0065  Score=54.51  Aligned_cols=107  Identities=16%  Similarity=0.218  Sum_probs=69.0

Q ss_pred             ccceeeecCCCCCCCCcccCCCCCCCCCCHHHHHHHHHhhCCcee-eecCCCcHHHHHHHHHHHHHc--CCceEEEEEEe
Q 018644          104 CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQ-YFGPTSYAPMVEAAVDIVEES--GGLHHVLVIIT  180 (352)
Q Consensus       104 ~ip~~GFGa~~~~~~~~f~~~~~~p~~~G~~gvl~~Y~~~l~~v~-l~gPt~fapiI~~a~~~a~~~--~~~Y~VLlIit  180 (352)
                      .+-++-|+....   ..|+++..   -...+.+.    +.+.+++ ..|.|+...-|++|.+.....  ...=.++++||
T Consensus        48 rvglv~fs~~~~---~~~~l~~~---~~~~~~l~----~~i~~l~~~gg~T~~~~AL~~a~~~l~~~~~~~~~~~iillT  117 (186)
T cd01480          48 RVGVVQYSDQQE---VEAGFLRD---IRNYTSLK----EAVDNLEYIGGGTFTDCALKYATEQLLEGSHQKENKFLLVIT  117 (186)
T ss_pred             EEEEEEecCCce---eeEecccc---cCCHHHHH----HHHHhCccCCCCccHHHHHHHHHHHHhccCCCCCceEEEEEe
Confidence            889999987532   23555421   12344443    3444454 478999999999998887641  22346788999


Q ss_pred             CCccCCc-cHHHHHHH---hcCCcEEEEEeecCCCcchhccccC
Q 018644          181 SGQVATG-SQQEQETI---SSYPLSIVLVGVGDGPWESIQKFHD  220 (352)
Q Consensus       181 DG~i~d~-~~~~~~~i---S~~PlSIiiVGVG~~~f~~m~~LD~  220 (352)
                      ||.-++. .....+++   .+..+.|..||||..+-..|+++=+
T Consensus       118 DG~~~~~~~~~~~~~~~~~~~~gi~i~~vgig~~~~~~L~~IA~  161 (186)
T cd01480         118 DGHSDGSPDGGIEKAVNEADHLGIKIFFVAVGSQNEEPLSRIAC  161 (186)
T ss_pred             CCCcCCCcchhHHHHHHHHHHCCCEEEEEecCccchHHHHHHHc
Confidence            9976431 12223333   5779999999999976666666654

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.

>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional

Probab=97.04  E-value=0.0079  Score=63.25  Aligned_cols=138  Identities=14%  Similarity=0.144  Sum_probs=89.2

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCC---C-ccceeeecCCCCCCCCcccC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDG---D-CIRCYGFGDDTTRDEGVFSF  123 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~---d-~ip~~GFGa~~~~~~~~f~~  123 (352)
                      ++.+.+.||-|.|=+             +      .|-.++|...+..++..++.   . .+-+..|+....   ..|++
T Consensus        42 ~lDIvFLLD~SgSMg-------------~------~Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~FSd~~r---~vfpL   99 (576)
T PTZ00441         42 EVDLYLLVDGSGSIG-------------Y------HNWITHVIPMLMGLIQQLNLSDDAINLYMSLFSNNTT---ELIRL   99 (576)
T ss_pred             CceEEEEEeCCCccC-------------C------ccHHHHHHHHHHHHHHHhccCCCceEEEEEEeCCCce---EEEec
Confidence            578888888776632             1      13356677777777777743   2 555568877532   24555


Q ss_pred             CCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcC---CceEEEEEEeCCccCCccHHHHHHH---hc
Q 018644          124 QENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG---GLHHVLVIITSGQVATGSQQEQETI---SS  197 (352)
Q Consensus       124 ~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~---~~Y~VLlIitDG~i~d~~~~~~~~i---S~  197 (352)
                      ...  .-...+.++.+-.+....+...|-|++...|..+.+...+..   ..=-+++|||||.-++ ..+..+++   .+
T Consensus       100 ~s~--~s~Dk~~aL~~I~sL~~~~~pgGgTnig~AL~~Aae~L~sr~~R~nvpKVVILLTDG~sns-~~dvleaAq~LR~  176 (576)
T PTZ00441        100 GSG--ASKDKEQALIIVKSLRKTYLPYGKTNMTDALLEVRKHLNDRVNRENAIQLVILMTDGIPNS-KYRALEESRKLKD  176 (576)
T ss_pred             CCC--ccccHHHHHHHHHHHHhhccCCCCccHHHHHHHHHHHHhhcccccCCceEEEEEecCCCCC-cccHHHHHHHHHH
Confidence            421  112345666666666666777899999999999887765431   1236888999998655 23333333   66


Q ss_pred             CCcEEEEEeecCC
Q 018644          198 YPLSIVLVGVGDG  210 (352)
Q Consensus       198 ~PlSIiiVGVG~~  210 (352)
                      ..+-|+.||||.+
T Consensus       177 ~GVeI~vIGVG~g  189 (576)
T PTZ00441        177 RNVKLAVIGIGQG  189 (576)
T ss_pred             CCCEEEEEEeCCC
Confidence            7889999999974

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

Probab=97.02  E-value=0.00039  Score=68.09  Aligned_cols=47  Identities=36%  Similarity=0.796  Sum_probs=39.6

Q ss_pred             ccccCCcccCcccCCCCeee-cCCCCCchhhhhcC------CCCCCCccccCCe
Q 018644          301 EVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM------PQCPFCREEITTR  347 (352)
Q Consensus       301 ~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~------~~CP~CR~~i~~~  347 (352)
                      .-++...|.||-+..+-+.+ ||+|.+|..|+.++      ..||+||..-..+
T Consensus        57 tDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V  110 (493)
T COG5236          57 TDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETEAV  110 (493)
T ss_pred             cccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCccccccceE
Confidence            34567899999998887776 99999999999987      5799999876654

>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=97.01  E-value=0.00024  Score=55.03  Aligned_cols=36  Identities=33%  Similarity=0.882  Sum_probs=27.5

Q ss_pred             CcccCcccCC-------------CCeee-cCCCCCchhhhhcC----CCCCCCc
Q 018644          306 QRCCICCEDE-------------KDTAF-ECGHMSCIKCALRM----PQCPFCR  341 (352)
Q Consensus       306 ~~C~IC~~~~-------------~~~~~-pCGH~~C~~C~~~~----~~CP~CR  341 (352)
                      ..|.||++..             ..+++ +|||.|-..|+.++    ..||+||
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            3499999865             22344 99999999999976    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 ....

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

Probab=96.99  E-value=0.00028  Score=68.06  Aligned_cols=42  Identities=26%  Similarity=0.703  Sum_probs=35.1

Q ss_pred             cCCcccCcccCCCC----eeecCCCCCchhhhhcC-----CCCCCCccccC
Q 018644          304 EAQRCCICCEDEKD----TAFECGHMSCIKCALRM-----PQCPFCREEIT  345 (352)
Q Consensus       304 ~~~~C~IC~~~~~~----~~~pCGH~~C~~C~~~~-----~~CP~CR~~i~  345 (352)
                      ...+|.||++....    +++||-|.|=..|..++     .+||+||.++.
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence            34899999997654    34499999999999988     57999999875

>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=96.94  E-value=0.02  Score=49.19  Aligned_cols=129  Identities=18%  Similarity=0.168  Sum_probs=76.1

Q ss_pred             cceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCCccceeeecCCCCCCCCcccCCCCCCCC
Q 018644           51 LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSPC  130 (352)
Q Consensus        51 ~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d~ip~~GFGa~~~~~~~~f~~~~~~p~~  130 (352)
                      +.+.||.|.|=.  +.               ..-....++..++..+.. ..|.+-++.|+...    ....+.    .-
T Consensus         3 v~illD~SgSM~--~~---------------k~~~a~~~~~~l~~~~~~-~~~~v~li~F~~~~----~~~~~~----~~   56 (152)
T cd01462           3 VILLVDQSGSMY--GA---------------PEEVAKAVALALLRIALA-ENRDTYLILFDSEF----QTKIVD----KT   56 (152)
T ss_pred             EEEEEECCCCCC--CC---------------HHHHHHHHHHHHHHHHHH-cCCcEEEEEeCCCc----eEEecC----Cc
Confidence            578899887732  10               012234445555555544 22378889998871    111121    11


Q ss_pred             CCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcCCceEEEEEEeCC-ccCCccHHHH--HHH-hcCCcEEEEEe
Q 018644          131 QGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSG-QVATGSQQEQ--ETI-SSYPLSIVLVG  206 (352)
Q Consensus       131 ~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~~~Y~VLlIitDG-~i~d~~~~~~--~~i-S~~PlSIiiVG  206 (352)
                      ..+..+++..    ..+...|-|++.+.++.+.+..++....=.+++||||| +-.+ ..+..  ..+ ....+-|..||
T Consensus        57 ~~~~~~~~~l----~~~~~~ggT~l~~al~~a~~~l~~~~~~~~~ivliTDG~~~~~-~~~~~~~~~~~~~~~~~v~~~~  131 (152)
T cd01462          57 DDLEEPVEFL----SGVQLGGGTDINKALRYALELIERRDPRKADIVLITDGYEGGV-SDELLREVELKRSRVARFVALA  131 (152)
T ss_pred             ccHHHHHHHH----hcCCCCCCcCHHHHHHHHHHHHHhcCCCCceEEEECCCCCCCC-CHHHHHHHHHHHhcCcEEEEEE
Confidence            3455555443    34566899999999999998877543222577999999 4444 23332  222 45567788888


Q ss_pred             ecCC
Q 018644          207 VGDG  210 (352)
Q Consensus       207 VG~~  210 (352)
                      ||+.
T Consensus       132 ~g~~  135 (152)
T cd01462         132 LGDH  135 (152)
T ss_pred             ecCC
Confidence            8864

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=96.90  E-value=0.0087  Score=53.99  Aligned_cols=136  Identities=12%  Similarity=0.120  Sum_probs=85.9

Q ss_pred             eccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhcccccc---CCC-ccceeeecCCCCCCCCcccCC
Q 018644           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF---DGD-CIRCYGFGDDTTRDEGVFSFQ  124 (352)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~y---d~d-~ip~~GFGa~~~~~~~~f~~~  124 (352)
                      .++++++|-|.|=.             ..  ...+|..+.|-..+..++..+   ... .+-++.|++...+.  +.+++
T Consensus         4 r~ivi~lD~S~SM~-------------a~--D~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~a~~--~~PlT   66 (183)
T cd01453           4 RHLIIVIDCSRSME-------------EQ--DLKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGRAEK--LTDLT   66 (183)
T ss_pred             eEEEEEEECcHHHh-------------cC--CCCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCccEE--EECCC
Confidence            46789999987732             11  234789999999999999876   334 78899996543322  23333


Q ss_pred             CCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcCC--ceEEEEEEeCCccCCc--cHHHHHHHhcCCc
Q 018644          125 ENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGG--LHHVLVIITSGQVATG--SQQEQETISSYPL  200 (352)
Q Consensus       125 ~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~~--~Y~VLlIitDG~i~d~--~~~~~~~iS~~Pl  200 (352)
                      . |     .+.+++.-+..   +...|-|++..-|+.|.+..++...  +=.|+|++|||.-.|.  ..+..+.+.+..+
T Consensus        67 ~-D-----~~~~~~~L~~~---~~~~G~t~l~~aL~~A~~~l~~~~~~~~~~iiil~sd~~~~~~~~~~~~~~~l~~~~I  137 (183)
T cd01453          67 G-N-----PRKHIQALKTA---RECSGEPSLQNGLEMALESLKHMPSHGSREVLIIFSSLSTCDPGNIYETIDKLKKENI  137 (183)
T ss_pred             C-C-----HHHHHHHhhcc---cCCCCchhHHHHHHHHHHHHhcCCccCceEEEEEEcCCCcCChhhHHHHHHHHHHcCc
Confidence            2 1     22333333222   2445679999999999888765321  2347888999876652  1123333355678


Q ss_pred             EEEEEeecCC
Q 018644          201 SIVLVGVGDG  210 (352)
Q Consensus       201 SIiiVGVG~~  210 (352)
                      -|-+||||.+
T Consensus       138 ~v~~IgiG~~  147 (183)
T cd01453         138 RVSVIGLSAE  147 (183)
T ss_pred             EEEEEEechH
Confidence            8888999853

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.

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

Probab=96.84  E-value=0.00036  Score=68.94  Aligned_cols=45  Identities=24%  Similarity=0.726  Sum_probs=35.0

Q ss_pred             ccccCCcccCcccCCCC-------------ee-ecCCCCCchhhhhcC----CCCCCCccccC
Q 018644          301 EVAEAQRCCICCEDEKD-------------TA-FECGHMSCIKCALRM----PQCPFCREEIT  345 (352)
Q Consensus       301 ~~~~~~~C~IC~~~~~~-------------~~-~pCGH~~C~~C~~~~----~~CP~CR~~i~  345 (352)
                      ...++..|.||+|....             +- +||||.+=-.|.+.+    +.||+||.++.
T Consensus       283 l~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~i  345 (491)
T COG5243         283 LTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVI  345 (491)
T ss_pred             hcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccc
Confidence            34678999999996221             22 499999989999876    78999999943

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

Probab=96.80  E-value=0.00095  Score=63.66  Aligned_cols=45  Identities=27%  Similarity=0.699  Sum_probs=37.9

Q ss_pred             ccccCCcccCcccCCCCeee--cCCCCCchhhhhcC------CCCCCCccccC
Q 018644          301 EVAEAQRCCICCEDEKDTAF--ECGHMSCIKCALRM------PQCPFCREEIT  345 (352)
Q Consensus       301 ~~~~~~~C~IC~~~~~~~~~--pCGH~~C~~C~~~~------~~CP~CR~~i~  345 (352)
                      ..++.-+|++|-+.++.+..  +|||.+|..|+..-      -.||.|.++..
T Consensus       235 ~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  235 TGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             cccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            34567899999999998765  89999999999864      36999998876

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

Probab=96.79  E-value=0.00059  Score=66.51  Aligned_cols=46  Identities=28%  Similarity=0.765  Sum_probs=39.5

Q ss_pred             cccCCcccCcccCCCCeeecC--CCCCchhhhhcC-CCCCCCccccCCe
Q 018644          302 VAEAQRCCICCEDEKDTAFEC--GHMSCIKCALRM-PQCPFCREEITTR  347 (352)
Q Consensus       302 ~~~~~~C~IC~~~~~~~~~pC--GH~~C~~C~~~~-~~CP~CR~~i~~~  347 (352)
                      ..+-.+||||++.-..+.+.|  ||+.|..|..++ ..||.||.++..+
T Consensus        45 ~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~~~CP~Cr~~~g~~   93 (299)
T KOG3002|consen   45 DLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVSNKCPTCRLPIGNI   93 (299)
T ss_pred             chhhccCchhhccCcccceecCCCcEehhhhhhhhcccCCccccccccH
Confidence            456699999999999999966  899999999555 7899999999843

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

Probab=96.65  E-value=0.021  Score=52.76  Aligned_cols=141  Identities=14%  Similarity=0.165  Sum_probs=86.0

Q ss_pred             eccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccC---CC-ccceeeecCCCCCCCCcccCC
Q 018644           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSFQ  124 (352)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd---~d-~ip~~GFGa~~~~~~~~f~~~  124 (352)
                      +.+.+.||-|.|=+                    ...++++...+..++..++   .. .+-+.-|+....   ..|+|+
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            56777888765521                    2346777777777777764   34 899999998743   246665


Q ss_pred             CCCCCCCCHHHHHHHHHhhCCcee-eecCCCcHHHHHHHHHHHH----Hc-CC--c-eEEEEEEeCCccCCccHHHHHHH
Q 018644          125 ENDSPCQGFEHVLECYRKNVPNVQ-YFGPTSYAPMVEAAVDIVE----ES-GG--L-HHVLVIITSGQVATGSQQEQETI  195 (352)
Q Consensus       125 ~~~p~~~G~~gvl~~Y~~~l~~v~-l~gPt~fapiI~~a~~~a~----~~-~~--~-Y~VLlIitDG~i~d~~~~~~~~i  195 (352)
                      ..    ...+++.++-.    +++ +.|-|+-.--|+.+.+.+-    .. ..  . =.|+|+||||.-.|-..+..+.+
T Consensus        60 ~~----~~~~~l~~~i~----~i~~~~~~t~tg~AL~~a~~~~~~~~~g~r~~~~~~~kvvillTDG~s~~~~~~~a~~l  131 (224)
T cd01475          60 RF----KSKADLKRAVR----RMEYLETGTMTGLAIQYAMNNAFSEAEGARPGSERVPRVGIVVTDGRPQDDVSEVAAKA  131 (224)
T ss_pred             cc----CCHHHHHHHHH----hCcCCCCCChHHHHHHHHHHHhCChhcCCCCCCCCCCeEEEEEcCCCCcccHHHHHHHH
Confidence            31    23345544433    233 3456776666666665421    11 11  1 36889999998766222222223


Q ss_pred             hcCCcEEEEEeecCCCcchhccccC
Q 018644          196 SSYPLSIVLVGVGDGPWESIQKFHD  220 (352)
Q Consensus       196 S~~PlSIiiVGVG~~~f~~m~~LD~  220 (352)
                      -+.-+.|..||||+.+...|+++=.
T Consensus       132 k~~gv~i~~VgvG~~~~~~L~~ias  156 (224)
T cd01475         132 RALGIEMFAVGVGRADEEELREIAS  156 (224)
T ss_pred             HHCCcEEEEEeCCcCCHHHHHHHhC
Confidence            5567899999999987766666644

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.

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

Probab=96.65  E-value=0.00074  Score=68.17  Aligned_cols=45  Identities=31%  Similarity=0.930  Sum_probs=38.9

Q ss_pred             cccCCcccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018644          302 VAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITT  346 (352)
Q Consensus       302 ~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~  346 (352)
                      +..+.+|.||+...-.++. ||||.+|..|+.+.    ..||.||.++..
T Consensus        81 ~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   81 IRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             ccchhhhhhhHhhcCCCccccccccccHHHHHHHhccCCCCccccccccc
Confidence            3678999999998888776 99999999997765    679999998875

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

Probab=96.61  E-value=0.026  Score=54.35  Aligned_cols=136  Identities=18%  Similarity=0.278  Sum_probs=88.1

Q ss_pred             ceeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCCccceeeecCCCCCCCCcccCCCC
Q 018644           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQEN  126 (352)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d~ip~~GFGa~~~~~~~~f~~~~~  126 (352)
                      .+.++++|||=|.|=..             .  .-.++..+ |+..|.+.+..-..+.+-+.+||....   .+.+|+. 
T Consensus        59 r~~qIvlaID~S~SM~~-------------~--~~~~~ale-ak~lIs~al~~Le~g~vgVv~Fg~~~~---~v~Plt~-  118 (266)
T cd01460          59 RDYQILIAIDDSKSMSE-------------N--NSKKLALE-SLCLVSKALTLLEVGQLGVCSFGEDVQ---ILHPFDE-  118 (266)
T ss_pred             cCceEEEEEecchhccc-------------c--cccccHHH-HHHHHHHHHHhCcCCcEEEEEeCCCce---EeCCCCC-
Confidence            35789999999877321             1  12356665 899999999988888999999999631   2334432 


Q ss_pred             CCCCCCHHHHHHHHHhhCCceeee-cCCCcHHHHHHHHHHHHHcC----C--ceEEEEEEeCCccCCccHHHHHH-H---
Q 018644          127 DSPCQGFEHVLECYRKNVPNVQYF-GPTSYAPMVEAAVDIVEESG----G--LHHVLVIITSGQVATGSQQEQET-I---  195 (352)
Q Consensus       127 ~p~~~G~~gvl~~Y~~~l~~v~l~-gPt~fapiI~~a~~~a~~~~----~--~Y~VLlIitDG~i~d~~~~~~~~-i---  195 (352)
                       +.    ..  ++.-+++....+. +-|+.+..|..+++..++..    .  .-.++||||||.-.+ .+..... +   
T Consensus       119 -d~----~~--~a~~~~l~~~~f~~~~Tni~~aL~~a~~~f~~~~~~~~s~~~~qlilLISDG~~~~-~e~~~~~~~r~a  190 (266)
T cd01460         119 -QF----SS--QSGPRILNQFTFQQDKTDIANLLKFTAQIFEDARTQSSSGSLWQLLLIISDGRGEF-SEGAQKVRLREA  190 (266)
T ss_pred             -Cc----hh--hHHHHHhCcccCCCCCCcHHHHHHHHHHHHHhhhccccccccccEEEEEECCCccc-CccHHHHHHHHH
Confidence             11    11  2223333433343 45899999999998866431    1  137999999999433 2223322 3   


Q ss_pred             hcCCcEEEEEeecCC
Q 018644          196 SSYPLSIVLVGVGDG  210 (352)
Q Consensus       196 S~~PlSIiiVGVG~~  210 (352)
                      .+-.+.+++|||=+.
T Consensus       191 ~e~~i~l~~I~ld~~  205 (266)
T cd01460         191 REQNVFVVFIIIDNP  205 (266)
T ss_pred             HHcCCeEEEEEEcCC
Confidence            666899999999765

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.

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.56  E-value=0.0011  Score=48.61  Aligned_cols=43  Identities=30%  Similarity=0.737  Sum_probs=34.2

Q ss_pred             cCCcccCcccCCCCee-ecCCCCCchhhhh--cCCCCCCCccccCC
Q 018644          304 EAQRCCICCEDEKDTA-FECGHMSCIKCAL--RMPQCPFCREEITT  346 (352)
Q Consensus       304 ~~~~C~IC~~~~~~~~-~pCGH~~C~~C~~--~~~~CP~CR~~i~~  346 (352)
                      ....|..|......-+ +||||.+|..|-.  +...||+|-.+++.
T Consensus         6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~rYngCPfC~~~~~~   51 (55)
T PF14447_consen    6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPGERYNGCPFCGTPFEF   51 (55)
T ss_pred             cceeEEEccccccccccccccceeeccccChhhccCCCCCCCcccC
Confidence            4567888888755544 4999999999976  45789999999875

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

Probab=96.50  E-value=0.04  Score=48.97  Aligned_cols=123  Identities=13%  Similarity=0.167  Sum_probs=74.1

Q ss_pred             hHHHHHHHHhcccc-ccCCC-ccceeeecCCCCCCCCcccCCCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHH
Q 018644           85 PYQEVIYITGKELV-LFDGD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAA  162 (352)
Q Consensus        85 ~Yq~ai~~ig~vl~-~yd~d-~ip~~GFGa~~~~~~~~f~~~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a  162 (352)
                      ..+.|..++..++. .+..+ .+-++.|......  ..+++.      .+.+.+.    +.+..+...|-|++..-++.+
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------RSVELAK----RRLARLPTGGGTPLAAGLLAA   85 (178)
T ss_pred             HHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCce--EEeCCC------CCHHHHH----HHHHhCCCCCCCcHHHHHHHH
Confidence            45666666666554 34445 8999999764211  122222      2344443    344556778999999999999


Q ss_pred             HHHHH-Hc--CCceEEEEEEeCCccCCc---cHHH-HHHH---hcCCcEEEEEeecCCC--cchhcccc
Q 018644          163 VDIVE-ES--GGLHHVLVIITSGQVATG---SQQE-QETI---SSYPLSIVLVGVGDGP--WESIQKFH  219 (352)
Q Consensus       163 ~~~a~-~~--~~~Y~VLlIitDG~i~d~---~~~~-~~~i---S~~PlSIiiVGVG~~~--f~~m~~LD  219 (352)
                      .+..+ +.  ...-.++++||||.-+..   .... .+..   ....+.|+.||+|..+  -+.|++|=
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  122368899999986621   1112 2222   5667888889998753  33455553

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.

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

Probab=96.40  E-value=0.00097  Score=70.06  Aligned_cols=45  Identities=27%  Similarity=0.578  Sum_probs=36.5

Q ss_pred             ccccCCcccCcccCCCC-----eee-cCCCCCchhhhhcC----CCCCCCccccC
Q 018644          301 EVAEAQRCCICCEDEKD-----TAF-ECGHMSCIKCALRM----PQCPFCREEIT  345 (352)
Q Consensus       301 ~~~~~~~C~IC~~~~~~-----~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~  345 (352)
                      .......|.||.|....     +.. +|||.||..|...+    ..||+||..+.
T Consensus       287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~  341 (543)
T KOG0802|consen  287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY  341 (543)
T ss_pred             hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence            33457899999997666     444 99999999999987    78999999443

>cd01477 vWA_F09G8-8_type VWA F09G8

Probab=96.32  E-value=0.052  Score=49.57  Aligned_cols=145  Identities=12%  Similarity=0.149  Sum_probs=92.2

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCC---------C-ccceeeecCCCCCC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDG---------D-CIRCYGFGDDTTRD  117 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~---------d-~ip~~GFGa~~~~~  117 (352)
                      .+.+.+.||-+.|=+                    .+.++++..-+..++..++.         . ++-+.-|+....  
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            367788888776632                    13466776666665555553         2 888888887532  


Q ss_pred             CCcccCCCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHc-----CCceEEEEEEeCCccCCc---cH
Q 018644          118 EGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES-----GGLHHVLVIITSGQVATG---SQ  189 (352)
Q Consensus       118 ~~~f~~~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~-----~~~Y~VLlIitDG~i~d~---~~  189 (352)
                       ..|+|+    .....++++++.+..++.+..+|-|+...-|+.|.+....+     ...=.|+++||||.-++-   ..
T Consensus        77 -~~~~L~----d~~~~~~~~~ai~~~~~~~~~~ggT~ig~aL~~A~~~l~~~~~~~R~~v~kvvIllTDg~~~~~~~~~~  151 (193)
T cd01477          77 -VVADLN----DLQSFDDLYSQIQGSLTDVSSTNASYLDTGLQAAEQMLAAGKRTSRENYKKVVIVFASDYNDEGSNDPR  151 (193)
T ss_pred             -EEEecc----cccCHHHHHHHHHHHhhccccCCcchHHHHHHHHHHHHHhhhccccCCCCeEEEEEecCccCCCCCCHH
Confidence             236664    22456788888887666666667899999999988876532     122467899999743320   12


Q ss_pred             HHHHHHhcCCcEEEEEeecCC-Ccchhcccc
Q 018644          190 QEQETISSYPLSIVLVGVGDG-PWESIQKFH  219 (352)
Q Consensus       190 ~~~~~iS~~PlSIiiVGVG~~-~f~~m~~LD  219 (352)
                      +..+.+.+..+.|..||||++ +=..|++|.
T Consensus       152 ~~a~~l~~~GI~i~tVGiG~~~d~~~~~~L~  182 (193)
T cd01477         152 PIAARLKSTGIAIITVAFTQDESSNLLDKLG  182 (193)
T ss_pred             HHHHHHHHCCCEEEEEEeCCCCCHHHHHHHH
Confidence            222223677999999999974 222355544

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

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

Probab=96.32  E-value=0.056  Score=47.86  Aligned_cols=126  Identities=14%  Similarity=0.232  Sum_probs=79.6

Q ss_pred             chHHHHHHHHhccccccC---CC-ccceeeecCCCCCCCCcccCCCCCCCCCCHHHHHHHHHhhCCceee-ec-CCCcHH
Q 018644           84 NPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQY-FG-PTSYAP  157 (352)
Q Consensus        84 N~Yq~ai~~ig~vl~~yd---~d-~ip~~GFGa~~~~~~~~f~~~~~~p~~~G~~gvl~~Y~~~l~~v~l-~g-Pt~fap  157 (352)
                      ..++++..-+.+++..|+   .. .+.+.-|+....   ..|+|+.-    ...++++++-.+    ++. .| .|+-..
T Consensus        16 ~~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys~~~~---~~~~l~~~----~~~~~l~~~i~~----i~~~~g~~t~t~~   84 (165)
T cd01481          16 GNFPAIRDFIERIVQSLDVGPDKIRVAVVQFSDTPR---PEFYLNTH----STKADVLGAVRR----LRLRGGSQLNTGS   84 (165)
T ss_pred             HHHHHHHHHHHHHHhhccCCCCCcEEEEEEecCCee---EEEecccc----CCHHHHHHHHHh----cccCCCCcccHHH
Confidence            567777777777777776   44 899999987642   23666421    245566665443    444 35 478888


Q ss_pred             HHHHHHHHHHH--cC-----CceEEEEEEeCCccCCccHHHHHHHhcCCcEEEEEeecCCCcchhccccC
Q 018644          158 MVEAAVDIVEE--SG-----GLHHVLVIITSGQVATGSQQEQETISSYPLSIVLVGVGDGPWESIQKFHD  220 (352)
Q Consensus       158 iI~~a~~~a~~--~~-----~~Y~VLlIitDG~i~d~~~~~~~~iS~~PlSIiiVGVG~~~f~~m~~LD~  220 (352)
                      -|+.+.+..-.  .+     +-=.||++||||.-+|...+.-+.+-+.-+-|+.||+|..+.+.|+.+-+
T Consensus        85 AL~~~~~~~f~~~~g~R~~~~~~kv~vviTdG~s~d~~~~~a~~lr~~gv~i~~vG~~~~~~~eL~~ias  154 (165)
T cd01481          85 ALDYVVKNLFTKSAGSRIEEGVPQFLVLITGGKSQDDVERPAVALKRAGIVPFAIGARNADLAELQQIAF  154 (165)
T ss_pred             HHHHHHHhhcCccccCCccCCCCeEEEEEeCCCCcchHHHHHHHHHHCCcEEEEEeCCcCCHHHHHHHhC
Confidence            88887665321  11     12368899999998773222222335566788888888777777766654

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.

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

Probab=96.29  E-value=0.046  Score=48.65  Aligned_cols=116  Identities=20%  Similarity=0.266  Sum_probs=76.8

Q ss_pred             chHHHHHHHHhccccccCC---C-ccceeeecCCCCCCCCcccCCCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHH
Q 018644           84 NPYQEVIYITGKELVLFDG---D-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMV  159 (352)
Q Consensus        84 N~Yq~ai~~ig~vl~~yd~---d-~ip~~GFGa~~~~~~~~f~~~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI  159 (352)
                      ..++++...+..++..++.   . .+-+..|+....   ..|+|+.    -...+.++++=+. ++  .+.|.|+...-|
T Consensus        16 ~~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs~~~~---~~~~l~~----~~~~~~~~~~i~~-~~--~~~g~T~~~~AL   85 (177)
T cd01469          16 DDFQKVKNFLSTVMKKLDIGPTKTQFGLVQYSESFR---TEFTLNE----YRTKEEPLSLVKH-IS--QLLGLTNTATAI   85 (177)
T ss_pred             HHHHHHHHHHHHHHHHcCcCCCCcEEEEEEECCcee---EEEecCc----cCCHHHHHHHHHh-Cc--cCCCCccHHHHH
Confidence            4577777777778777775   4 899999998642   2356541    1234455544332 22  256789999999


Q ss_pred             HHHHHHH--HHc---CCceEEEEEEeCCccCCccHHHHHHH---hcCCcEEEEEeecCC
Q 018644          160 EAAVDIV--EES---GGLHHVLVIITSGQVATGSQQEQETI---SSYPLSIVLVGVGDG  210 (352)
Q Consensus       160 ~~a~~~a--~~~---~~~Y~VLlIitDG~i~d~~~~~~~~i---S~~PlSIiiVGVG~~  210 (352)
                      +.|.+..  ...   ...=.|+|+||||.-+| .....+++   -..-+-|..||||+.
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            9988764  111   12346888899999887 34333444   456889999999985

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.

>PRK13685 hypothetical protein; Provisional

Probab=96.29  E-value=0.047  Score=53.63  Aligned_cols=134  Identities=12%  Similarity=0.087  Sum_probs=84.7

Q ss_pred             eccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC-ccceeeecCCCCCCCCcccCCCCC
Q 018644           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQEND  127 (352)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~~~  127 (352)
                      .+++++||-|.|=..             .  +..+|..+.|-.++..++.....+ .+-++.|++...-   +.+++   
T Consensus        89 ~~vvlvlD~S~SM~~-------------~--D~~p~RL~~ak~~~~~~l~~l~~~d~vglv~Fa~~a~~---~~p~t---  147 (326)
T PRK13685         89 AVVMLVIDVSQSMRA-------------T--DVEPNRLAAAQEAAKQFADELTPGINLGLIAFAGTATV---LVSPT---  147 (326)
T ss_pred             ceEEEEEECCccccC-------------C--CCCCCHHHHHHHHHHHHHHhCCCCCeEEEEEEcCceee---cCCCC---
Confidence            568899998877421             1  123578888888888899988666 9999999986421   22322   


Q ss_pred             CCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHH--------cCCceEEEEEEeCCccCCcc-----H---HH
Q 018644          128 SPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEE--------SGGLHHVLVIITSGQVATGS-----Q---QE  191 (352)
Q Consensus       128 p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~--------~~~~Y~VLlIitDG~i~d~~-----~---~~  191 (352)
                         ...+.+    ...+..++..+=|+...-|..+.+..++        +...--++|+||||.-+.-.     .   +.
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               222333    3334455566778888888888877652        11123456899999754310     1   11


Q ss_pred             HHHHhcCCcEEEEEeecCC
Q 018644          192 QETISSYPLSIVLVGVGDG  210 (352)
Q Consensus       192 ~~~iS~~PlSIiiVGVG~~  210 (352)
                      .+...+..+.|-+||||..
T Consensus       221 a~~a~~~gi~i~~Ig~G~~  239 (326)
T PRK13685        221 ARTAKDQGVPISTISFGTP  239 (326)
T ss_pred             HHHHHHcCCeEEEEEECCC
Confidence            1222567888889999963

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

Probab=96.04  E-value=0.021  Score=48.65  Aligned_cols=121  Identities=16%  Similarity=0.258  Sum_probs=76.1

Q ss_pred             cceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCCccceeeecCCCCCCCCcccCCCCCCCC
Q 018644           51 LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDSPC  130 (352)
Q Consensus        51 ~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d~ip~~GFGa~~~~~~~~f~~~~~~p~~  130 (352)
                      +.||||-|+|=.                    .....+++..|..+++.+.. .+-++=|-+++......          
T Consensus         1 i~vaiDtSGSis--------------------~~~l~~fl~ev~~i~~~~~~-~v~vi~~D~~v~~~~~~----------   49 (126)
T PF09967_consen    1 IVVAIDTSGSIS--------------------DEELRRFLSEVAGILRRFPA-EVHVIQFDAEVQDVQVF----------   49 (126)
T ss_pred             CEEEEECCCCCC--------------------HHHHHHHHHHHHHHHHhCCC-CEEEEEECCEeeeeeEE----------
Confidence            468999887731                    24677888888889999833 56667676654432211          


Q ss_pred             CCHHHHHHHHHhhCCceeee--cCCCcHHHHHHHHHHHHHcCCceEEEEEEeCCccCCccHHHHHHHhcCCcEEEEEe--
Q 018644          131 QGFEHVLECYRKNVPNVQYF--GPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETISSYPLSIVLVG--  206 (352)
Q Consensus       131 ~G~~gvl~~Y~~~l~~v~l~--gPt~fapiI~~a~~~a~~~~~~Y~VLlIitDG~i~d~~~~~~~~iS~~PlSIiiVG--  206 (352)
                      ..       ....+.++++.  |-|+|.|+++++.+.    ..+..++++||||..... +  .+  -.+|+=|++.|  
T Consensus        50 ~~-------~~~~~~~~~~~GgGGTdf~pvf~~~~~~----~~~~~~vi~fTDg~~~~~-~--~~--P~~~vlWvl~~~~  113 (126)
T PF09967_consen   50 RS-------LEDELRDIKLKGGGGTDFRPVFEYLEEN----RPRPSVVIYFTDGEGWPP-E--EA--PPYPVLWVLPGNR  113 (126)
T ss_pred             ec-------ccccccccccCCCCCCcchHHHHHHHhc----CCCCCEEEEEeCCCCCCC-C--CC--CCCcEEEEEeCCC
Confidence            11       12223334443  689999999998654    335677889999988542 0  11  26888899988  


Q ss_pred             ecCCCcchhccc
Q 018644          207 VGDGPWESIQKF  218 (352)
Q Consensus       207 VG~~~f~~m~~L  218 (352)
                      -...+|+..-+|
T Consensus       114 ~~~~P~G~vv~l  125 (126)
T PF09967_consen  114 NPKAPFGRVVRL  125 (126)
T ss_pred             CCCCCCEEEEEe
Confidence            223456554443

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

Probab=96.03  E-value=0.0034  Score=63.52  Aligned_cols=46  Identities=24%  Similarity=0.590  Sum_probs=36.0

Q ss_pred             cccccCCcccCcccCCCC---eee--cCCCCCchhhhhcC--CCCCCCccccC
Q 018644          300 AEVAEAQRCCICCEDEKD---TAF--ECGHMSCIKCALRM--PQCPFCREEIT  345 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~---~~~--pCGH~~C~~C~~~~--~~CP~CR~~i~  345 (352)
                      ..+.+.++|+||+++--.   .++  .|-|.|=..|+.++  ..||+||---.
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            345788999999996444   234  99999988899998  57999996443

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

Probab=95.88  E-value=0.0034  Score=62.33  Aligned_cols=46  Identities=33%  Similarity=0.843  Sum_probs=38.3

Q ss_pred             ccCCcccCcccCCCCee-----e----cCCCCCchhhhhcC-----------CCCCCCccccCCee
Q 018644          303 AEAQRCCICCEDEKDTA-----F----ECGHMSCIKCALRM-----------PQCPFCREEITTRR  348 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~~-----~----pCGH~~C~~C~~~~-----------~~CP~CR~~i~~~i  348 (352)
                      ..+.+|.||++.-.+..     |    +|-|.+|..|+.++           +.||.||.+...++
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            46789999999877766     4    79999999999876           46999999877653

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

Probab=95.81  E-value=0.0041  Score=61.67  Aligned_cols=42  Identities=31%  Similarity=0.750  Sum_probs=33.7

Q ss_pred             CcccCcccCCCC---e-eecCCCCCchhhhhcC-----CCCCCCccccCCe
Q 018644          306 QRCCICCEDEKD---T-AFECGHMSCIKCALRM-----PQCPFCREEITTR  347 (352)
Q Consensus       306 ~~C~IC~~~~~~---~-~~pCGH~~C~~C~~~~-----~~CP~CR~~i~~~  347 (352)
                      ..|.||+|..+.   . ++||.|.|=..|+..+     ..||+|++.+.+.
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            599999997665   2 2399999988999887     3499999988664

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

Probab=95.77  E-value=0.095  Score=47.89  Aligned_cols=157  Identities=11%  Similarity=0.097  Sum_probs=94.7

Q ss_pred             cceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhcccccc-CC--C-ccceeeecCCCCCCCCcccCCCC
Q 018644           51 LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF-DG--D-CIRCYGFGDDTTRDEGVFSFQEN  126 (352)
Q Consensus        51 ~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~y-d~--d-~ip~~GFGa~~~~~~~~f~~~~~  126 (352)
                      .+|+||.+.|-..             .  +..+|.++.+...+..++..| +.  . ++-+..|+++....  ..+++. 
T Consensus         6 ~vi~lD~S~sM~a-------------~--D~~PnRL~aak~~i~~~~~~f~~~np~~~vGlv~fag~~a~v--~~plT~-   67 (187)
T cd01452           6 TMICIDNSEYMRN-------------G--DYPPTRFQAQADAVNLICQAKTRSNPENNVGLMTMAGNSPEV--LVTLTN-   67 (187)
T ss_pred             EEEEEECCHHHHc-------------C--CCCCCHHHHHHHHHHHHHHHHHhcCCCccEEEEEecCCceEE--EECCCC-
Confidence            4689999877431             1  235799999999998887333 32  2 78888898843321  122222 


Q ss_pred             CCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcC---CceEEEEEEeCCccCCccHHHHHHH---hcCCc
Q 018644          127 DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG---GLHHVLVIITSGQVATGSQQEQETI---SSYPL  200 (352)
Q Consensus       127 ~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~---~~Y~VLlIitDG~i~d~~~~~~~~i---S~~Pl  200 (352)
                           ..+.++.    .+..+.+.|.+++..-|+.|...-+...   ..=-|+++++++.-.| ..+..+++   .+-.+
T Consensus        68 -----D~~~~~~----~L~~i~~~g~~~l~~AL~~A~~~L~~~~~~~~~~rivi~v~S~~~~d-~~~i~~~~~~lkk~~I  137 (187)
T cd01452          68 -----DQGKILS----KLHDVQPKGKANFITGIQIAQLALKHRQNKNQKQRIVAFVGSPIEED-EKDLVKLAKRLKKNNV  137 (187)
T ss_pred             -----CHHHHHH----HHHhCCCCCcchHHHHHHHHHHHHhcCCCcCCcceEEEEEecCCcCC-HHHHHHHHHHHHHcCC
Confidence                 2334433    3445667799999999998877665331   2225566666664445 24554555   66678


Q ss_pred             EEEEEeecCC--CcchhccccCCCCCcceeeEeeecchh
Q 018644          201 SIVLVGVGDG--PWESIQKFHDKIPALQFDNFHFVNFTA  237 (352)
Q Consensus       201 SIiiVGVG~~--~f~~m~~LD~~~~~r~rDnvqFV~f~~  237 (352)
                      .|-+||+|+.  +=+.++.|-+...  .-|+-+||....
T Consensus       138 ~v~vI~~G~~~~~~~~l~~~~~~~~--~~~~s~~~~~~~  174 (187)
T cd01452         138 SVDIINFGEIDDNTEKLTAFIDAVN--GKDGSHLVSVPP  174 (187)
T ss_pred             eEEEEEeCCCCCCHHHHHHHHHHhc--CCCCceEEEeCC
Confidence            8888888865  3444444433222  236677776544

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.

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=95.67  E-value=0.11  Score=55.28  Aligned_cols=124  Identities=15%  Similarity=0.097  Sum_probs=78.2

Q ss_pred             chHHHHHHHHhccccc-cCCC-ccceeeecCCCCCCCCcccCCCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHH
Q 018644           84 NPYQEVIYITGKELVL-FDGD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEA  161 (352)
Q Consensus        84 N~Yq~ai~~ig~vl~~-yd~d-~ip~~GFGa~~~~~~~~f~~~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~  161 (352)
                      +..+.|-.++..++.. |... .+-++.|+.....  .++++      -.+.+.+    ++.+..+...|.|.++.-|..
T Consensus       423 ~rl~~aK~av~~Ll~~~~~~~D~v~Li~F~~~~a~--~~lp~------t~~~~~~----~~~L~~l~~gGgTpL~~gL~~  490 (589)
T TIGR02031       423 ARMSEAKGAVELLLGEAYVHRDQVSLIAFRGTAAE--VLLPP------SRSVEQA----KRRLDVLPGGGGTPLAAGLAA  490 (589)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCEEEEEEECCCCce--EECCC------CCCHHHH----HHHHhcCCCCCCCcHHHHHHH
Confidence            3466666666666653 5444 8999999754211  12322      1344444    355778888999999999999


Q ss_pred             HHHHHHHcC--CceEEEEEEeCCccCCccH-----------HHHHH-------HhcCCcEEEEEeecCCCc--chhcccc
Q 018644          162 AVDIVEESG--GLHHVLVIITSGQVATGSQ-----------QEQET-------ISSYPLSIVLVGVGDGPW--ESIQKFH  219 (352)
Q Consensus       162 a~~~a~~~~--~~Y~VLlIitDG~i~d~~~-----------~~~~~-------iS~~PlSIiiVGVG~~~f--~~m~~LD  219 (352)
                      +.+..++..  ..-.++|+||||.-+--+.           ...+.       +.+..+.+++||+|.+..  +.+++|=
T Consensus       491 A~~~~~~~~~~~~~~~ivllTDG~~nv~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~gi~~~vid~~~~~~~~~~~~~lA  570 (589)
T TIGR02031       491 AFQTALQARSSGGTPTIVLITDGRGNIPLDGDPESIKADREQAAEEALALARKIREAGMPALVIDTAMRFVSTGFAQKLA  570 (589)
T ss_pred             HHHHHHHhcccCCceEEEEECCCCCCCCCCcccccccccchhHHHHHHHHHHHHHhcCCeEEEEeCCCCCccchHHHHHH
Confidence            999876532  2235779999997541000           11111       156779999999997643  3366654

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.

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=95.66  E-value=0.13  Score=54.84  Aligned_cols=143  Identities=14%  Similarity=0.193  Sum_probs=92.1

Q ss_pred             CceeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhcccc-ccCCC-ccceeeecCCCCCCCCcccC
Q 018644           46 KVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELV-LFDGD-CIRCYGFGDDTTRDEGVFSF  123 (352)
Q Consensus        46 l~~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~-~yd~d-~ip~~GFGa~~~~~~~~f~~  123 (352)
                      .....+++.||.|.|-.                    .+....|-.++-.+|. .|-.. .+-++.|++...  ..+++.
T Consensus       399 ~~~~~vvfvvD~SGSM~--------------------~~rl~~aK~a~~~ll~~ay~~rD~v~lI~F~g~~a--~~~lpp  456 (584)
T PRK13406        399 RSETTTIFVVDASGSAA--------------------LHRLAEAKGAVELLLAEAYVRRDQVALVAFRGRGA--ELLLPP  456 (584)
T ss_pred             cCCccEEEEEECCCCCc--------------------HhHHHHHHHHHHHHHHhhcCCCCEEEEEEECCCce--eEEcCC
Confidence            34577888888887731                    1345555556666563 47666 999999965421  112222


Q ss_pred             CCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHc--CCceEEEEEEeCCccCCcc----------HHH
Q 018644          124 QENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES--GGLHHVLVIITSGQVATGS----------QQE  191 (352)
Q Consensus       124 ~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~--~~~Y~VLlIitDG~i~d~~----------~~~  191 (352)
                      +      ..++.+    ++.+..+.-.|-|.++.-|..|.+.+++.  .+.-.++|+||||.-+.-.          .+.
T Consensus       457 T------~~~~~~----~~~L~~l~~gGgTpL~~gL~~A~~~l~~~~~~~~~~~iVLlTDG~~n~~~~~~~~~~~~~~~~  526 (584)
T PRK13406        457 T------RSLVRA----KRSLAGLPGGGGTPLAAGLDAAAALALQVRRKGMTPTVVLLTDGRANIARDGTAGRAQAEEDA  526 (584)
T ss_pred             C------cCHHHH----HHHHhcCCCCCCChHHHHHHHHHHHHHHhccCCCceEEEEEeCCCCCCCccccccccchhhHH
Confidence            1      244444    45556777889999999999999887654  2235788999999865311          111


Q ss_pred             HHHH---hcCCcEEEEEeecCCCcchhccccC
Q 018644          192 QETI---SSYPLSIVLVGVGDGPWESIQKFHD  220 (352)
Q Consensus       192 ~~~i---S~~PlSIiiVGVG~~~f~~m~~LD~  220 (352)
                      .++.   ...-+.+++|+.|....+.|++|=+
T Consensus       527 ~~~a~~~~~~gi~~~vId~g~~~~~~~~~LA~  558 (584)
T PRK13406        527 LAAARALRAAGLPALVIDTSPRPQPQARALAE  558 (584)
T ss_pred             HHHHHHHHhcCCeEEEEecCCCCcHHHHHHHH
Confidence            1111   5567889999999888777777754

>cd01458 vWA_ku Ku70/Ku80 N-terminal domain

Probab=95.64  E-value=0.17  Score=46.61  Aligned_cols=149  Identities=13%  Similarity=0.209  Sum_probs=89.2

Q ss_pred             cceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccc---cCCC-ccceeeecCCCCCC----CCccc
Q 018644           51 LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVL---FDGD-CIRCYGFGDDTTRD----EGVFS  122 (352)
Q Consensus        51 ~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~---yd~d-~ip~~GFGa~~~~~----~~~f~  122 (352)
                      ++++||.+.|=.             .-.+...+++.+.|+..+..+++.   .... .+-++.||...+..    .+++.
T Consensus         4 ivf~iDvS~SM~-------------~~~~~~~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~~~~~~i~v   70 (218)
T cd01458           4 VVFLVDVSPSMF-------------ESKDGEYESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNPVGYENIYV   70 (218)
T ss_pred             EEEEEeCCHHHc-------------CCCCCCCCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCcCCCCceEE
Confidence            578999986632             000112368999999999999997   5555 99999999975432    34444


Q ss_pred             CCCCCCCCCCHHHHHHHHHhhCCcee--------eecCCCcHHHHHHHHHHHHHc--CCceEEEEEEeCCccC---C-cc
Q 018644          123 FQENDSPCQGFEHVLECYRKNVPNVQ--------YFGPTSYAPMVEAAVDIVEES--GGLHHVLVIITSGQVA---T-GS  188 (352)
Q Consensus       123 ~~~~~p~~~G~~gvl~~Y~~~l~~v~--------l~gPt~fapiI~~a~~~a~~~--~~~Y~VLlIitDG~i~---d-~~  188 (352)
                      +.|-+  .-.. ..++...+.+..-.        -++.|.+...|..+.++-++.  ...=-.+++||||.=.   | ..
T Consensus        71 ~~~l~--~~~~-~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~aL~~a~~~~~~~~~~~~~k~IvL~TDg~~p~~~~~~~  147 (218)
T cd01458          71 LLDLD--TPGA-ERVEDLKELIEPGGLSFAGQVGDSGQVSLSDALWVCLDLFSKGKKKKSHKRIFLFTNNDDPHGGDSIK  147 (218)
T ss_pred             eecCC--CCCH-HHHHHHHHHhhcchhhhcccCCCCCCccHHHHHHHHHHHHHhccccccccEEEEECCCCCCCCCCHHH
Confidence            43211  1122 23333343332221        245789999999998887652  1112466889999543   1 01


Q ss_pred             -HHHHHHH---hcCCcEEEEEeecCCC--cchh
Q 018644          189 -QQEQETI---SSYPLSIVLVGVGDGP--WESI  215 (352)
Q Consensus       189 -~~~~~~i---S~~PlSIiiVGVG~~~--f~~m  215 (352)
                       .+..+.+   .+.-+.|..||+|..+  |+..
T Consensus       148 ~~~~~~~a~~l~~~gI~i~~i~i~~~~~~f~~~  180 (218)
T cd01458         148 DSQAAVKAEDLKDKGIELELFPLSSPGKKFDVS  180 (218)
T ss_pred             HHHHHHHHHHHHhCCcEEEEEecCCCCCCCChh
Confidence             1222222   6668999999998654  5433

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.

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

Probab=95.51  E-value=0.0055  Score=59.10  Aligned_cols=43  Identities=28%  Similarity=0.643  Sum_probs=37.4

Q ss_pred             CcccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCCee
Q 018644          306 QRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITTRR  348 (352)
Q Consensus       306 ~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~~i  348 (352)
                      ..|-||.....++|. .|||.||..|+.+.    ..|++|-+.+.+..
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 99999999999876    57999999877653

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

Probab=95.26  E-value=0.0048  Score=56.44  Aligned_cols=43  Identities=35%  Similarity=0.758  Sum_probs=35.9

Q ss_pred             CCcccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018644          305 AQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITTR  347 (352)
Q Consensus       305 ~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~~  347 (352)
                      ...|.||..-...++. .|||.||..|+-+-    ..|-+|-..-...
T Consensus       196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G~  243 (259)
T COG5152         196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATYGR  243 (259)
T ss_pred             ceeehhchhhccchhhhhcchhHHHHHHHHHhccCCcceecchhhccc
Confidence            4789999998888887 99999999998754    6799998765554

>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=95.19  E-value=0.23  Score=45.54  Aligned_cols=152  Identities=14%  Similarity=0.179  Sum_probs=80.2

Q ss_pred             ccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC-ccceeeecCCCCCCCCcccCCCCCC
Q 018644           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQENDS  128 (352)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~~~p  128 (352)
                      .+++|+|.|+|=..     ++    . . ++ ..-.-..|.+.+.+.+..|... ...-.||++...... ...+  +.|
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-DG-RLDRSLEAVVMVMEAFDGFEDKIQYDIIGHSGDGPCVP-FVKT--NHP   66 (191)
T ss_pred             ceEEEEECcHhHHH-----Hh----c-c-CC-ccccHHHHHHHHHHHHHHHHHhCccceeeecCcccccC-cccc--ccC
Confidence            47899999998421     10    0 1 12 2223344455555545555455 666777766432111 1111  122


Q ss_pred             CCCCHH--HHHHHHHhhCCceeeecCCCcHHHHHHHHHHHH-HcCCceEEEEEEeCCccCCc-cHHHH--HHH-hcCCcE
Q 018644          129 PCQGFE--HVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVE-ESGGLHHVLVIITSGQVATG-SQQEQ--ETI-SSYPLS  201 (352)
Q Consensus       129 ~~~G~~--gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~-~~~~~Y~VLlIitDG~i~d~-~~~~~--~~i-S~~PlS  201 (352)
                      .-..-+  .++...-.- -++-+.|+..- .-|..+++..+ ++..+=.|+++||||.-+.- ..-.+  +.+ .+.-+=
T Consensus        67 ~t~d~~~~~~l~~~l~~-~q~g~ag~~Ta-dAi~~av~rl~~~~~a~~kvvILLTDG~n~~~~i~P~~aAa~lA~~~gV~  144 (191)
T cd01455          67 PKNNKERLETLKMMHAH-SQFCWSGDHTV-EATEFAIKELAAKEDFDEAIVIVLSDANLERYGIQPKKLADALAREPNVN  144 (191)
T ss_pred             cccchhHHHHHHHHHHh-cccCccCccHH-HHHHHHHHHHHhcCcCCCcEEEEEeCCCcCCCCCChHHHHHHHHHhCCCE
Confidence            222222  233222221 23456676433 77777777766 55333457799999985432 12222  234 778888


Q ss_pred             EEEEeecCCCcchhccc
Q 018644          202 IVLVGVGDGPWESIQKF  218 (352)
Q Consensus       202 IiiVGVG~~~f~~m~~L  218 (352)
                      |-.||||..+.+.++.+
T Consensus       145 iytIgiG~~d~~~l~~i  161 (191)
T cd01455         145 AFVIFIGSLSDEADQLQ  161 (191)
T ss_pred             EEEEEecCCCHHHHHHH
Confidence            99999998655555444

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

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

Probab=95.18  E-value=0.012  Score=47.08  Aligned_cols=39  Identities=31%  Similarity=0.710  Sum_probs=28.0

Q ss_pred             cccCcccCCCC--eee-cCCCCCchhhhhcC-------CCCCCCccccC
Q 018644          307 RCCICCEDEKD--TAF-ECGHMSCIKCALRM-------PQCPFCREEIT  345 (352)
Q Consensus       307 ~C~IC~~~~~~--~~~-pCGH~~C~~C~~~~-------~~CP~CR~~i~  345 (352)
                      .|+.|.-.-.+  .++ .|+|.|=..|+.+.       ..||+||++..
T Consensus        34 ~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   34 CCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             CCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence            44555443333  345 99999999999876       46999999864

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

Probab=95.10  E-value=0.0081  Score=42.97  Aligned_cols=37  Identities=41%  Similarity=0.911  Sum_probs=18.3

Q ss_pred             ccCcccCC--CCeee---cCCCCCchhhhhcC-----CCCCCCcccc
Q 018644          308 CCICCEDE--KDTAF---ECGHMSCIKCALRM-----PQCPFCREEI  344 (352)
Q Consensus       308 C~IC~~~~--~~~~~---pCGH~~C~~C~~~~-----~~CP~CR~~i  344 (352)
                      |++|.+..  ++..|   +||+.+|+.|..++     ..||.||++-
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            77888754  33334   88999999997765     4699999873

>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain

Probab=95.00  E-value=0.21  Score=48.00  Aligned_cols=133  Identities=13%  Similarity=0.066  Sum_probs=74.3

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccc-cCCC-ccceeeecCCCCCCCCcccCCC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVL-FDGD-CIRCYGFGDDTTRDEGVFSFQE  125 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~-yd~d-~ip~~GFGa~~~~~~~~f~~~~  125 (352)
                      .+++.+.+|.|.|=.                     +..+.+..++..++.. +..+ .+-++.|+.....   .++++ 
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            467788888776631                     1234455555555554 4456 9999999986432   22332 


Q ss_pred             CCCCCCCHHHHHHHHHhhCC-----------ceeeecCCCcHHHHHHHH-HHHHHcC---CceEEEEEEeCCccCCccHH
Q 018644          126 NDSPCQGFEHVLECYRKNVP-----------NVQYFGPTSYAPMVEAAV-DIVEESG---GLHHVLVIITSGQVATGSQQ  190 (352)
Q Consensus       126 ~~p~~~G~~gvl~~Y~~~l~-----------~v~l~gPt~fapiI~~a~-~~a~~~~---~~Y~VLlIitDG~i~d~~~~  190 (352)
                           ...+.+.++-.+.-+           .+...|.|++..-|..++ +...+..   ..=-++|+||||.-+.....
T Consensus       108 -----~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~g~T~l~~al~~aa~~~~~~~~~~~p~rk~iIllTDG~~~~~~~~  182 (296)
T TIGR03436       108 -----SDPRLLEAALNRLKPPLRTDYNSSGAFVRDGGGTALYDAITLAALEQLANALAGIPGRKALIVISDGGDNRSRDT  182 (296)
T ss_pred             -----CCHHHHHHHHHhccCCCccccccccccccCCCcchhHHHHHHHHHHHHHHhhcCCCCCeEEEEEecCCCcchHHH
Confidence                 123444444333222           123367788777766554 3333221   01257899999976552223


Q ss_pred             HHHHH---hcCCcEEEEEeecCC
Q 018644          191 EQETI---SSYPLSIVLVGVGDG  210 (352)
Q Consensus       191 ~~~~i---S~~PlSIiiVGVG~~  210 (352)
                      ..+++   .+.-+.|..||+|+.
T Consensus       183 ~~~~~~~~~~~~v~vy~I~~~~~  205 (296)
T TIGR03436       183 LERAIDAAQRADVAIYSIDARGL  205 (296)
T ss_pred             HHHHHHHHHHcCCEEEEeccCcc
Confidence            33444   456788888888853

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.

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

Probab=94.93  E-value=0.0042  Score=66.49  Aligned_cols=46  Identities=22%  Similarity=0.417  Sum_probs=36.6

Q ss_pred             ccCCcccCcccCCCCeee----cCCCCCchhhhhcC----CCCCCCccccCCee
Q 018644          303 AEAQRCCICCEDEKDTAF----ECGHMSCIKCALRM----PQCPFCREEITTRR  348 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~~~----pCGH~~C~~C~~~~----~~CP~CR~~i~~~i  348 (352)
                      .....|++|+....+-+.    +|+|.||..|+..+    ..||+||..+..++
T Consensus       121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~  174 (1134)
T KOG0825|consen  121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVK  174 (1134)
T ss_pred             hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheee
Confidence            345778899877666332    99999999999877    57999999988764

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

Probab=94.76  E-value=0.017  Score=58.43  Aligned_cols=46  Identities=37%  Similarity=0.816  Sum_probs=40.4

Q ss_pred             cccCCcccCcccCCCCeee--cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018644          302 VAEAQRCCICCEDEKDTAF--ECGHMSCIKCALRM----PQCPFCREEITTR  347 (352)
Q Consensus       302 ~~~~~~C~IC~~~~~~~~~--pCGH~~C~~C~~~~----~~CP~CR~~i~~~  347 (352)
                      .+++..|++|.....+++.  .|||.||..|....    ..||.||..+...
T Consensus        18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~   69 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQA   69 (391)
T ss_pred             CcccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccchh
Confidence            5678999999999999887  99999999999977    5799999887654

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.99  E-value=0.031  Score=52.82  Aligned_cols=44  Identities=14%  Similarity=0.335  Sum_probs=36.7

Q ss_pred             cCCcccCcccCCCC----eee-cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018644          304 EAQRCCICCEDEKD----TAF-ECGHMSCIKCALRM----PQCPFCREEITTR  347 (352)
Q Consensus       304 ~~~~C~IC~~~~~~----~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~~  347 (352)
                      ....|+||.+...+    +++ ||||.+|.+|..++    ..||+|-.+...+
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            56899999986665    346 99999999999998    4599999988764

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

Probab=93.80  E-value=0.023  Score=61.32  Aligned_cols=40  Identities=33%  Similarity=0.978  Sum_probs=33.6

Q ss_pred             CcccCcccCCCCeee-cCCCCCchhhhhcC------CCCCCCccccCC
Q 018644          306 QRCCICCEDEKDTAF-ECGHMSCIKCALRM------PQCPFCREEITT  346 (352)
Q Consensus       306 ~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~------~~CP~CR~~i~~  346 (352)
                      ..|.+|.+ ...+++ +|||.+|.+|....      ..||+||..+..
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 555666 99999999999876      469999987654

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=93.79  E-value=0.6  Score=50.19  Aligned_cols=132  Identities=14%  Similarity=0.181  Sum_probs=80.9

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhcccc-ccCCC-ccceeeecCCCCCCCCcccCCC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELV-LFDGD-CIRCYGFGDDTTRDEGVFSFQE  125 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~-~yd~d-~ip~~GFGa~~~~~~~~f~~~~  125 (352)
                      ...+++.||.|+|=.             .      .+..+.|..++..++. .|-.. .+-+++|++...  ..+++++ 
T Consensus       465 ~~~vv~vvD~SgSM~-------------~------~~rl~~ak~a~~~ll~~a~~~~D~v~lI~F~g~~a--~~~~p~t-  522 (633)
T TIGR02442       465 GNLVIFVVDASGSMA-------------A------RGRMAAAKGAVLSLLRDAYQKRDKVALITFRGEEA--EVLLPPT-  522 (633)
T ss_pred             CceEEEEEECCccCC-------------C------ccHHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCc--eEEcCCC-
Confidence            356778888887732             0      2455666666666654 45555 999999975411  1123322 


Q ss_pred             CCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHH----cCCceEEEEEEeCCccCCc---cHHHHHH----
Q 018644          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEE----SGGLHHVLVIITSGQVATG---SQQEQET----  194 (352)
Q Consensus       126 ~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~----~~~~Y~VLlIitDG~i~d~---~~~~~~~----  194 (352)
                           .+.+.+.    +.+..+...|-|.++.-|..+.+..++    ....=.++++||||.-+..   .+...++    
T Consensus       523 -----~~~~~~~----~~L~~l~~gG~Tpl~~aL~~A~~~l~~~~~~~~~~~~~vvliTDG~~n~~~~~~~~~~~~~~~a  593 (633)
T TIGR02442       523 -----SSVELAA----RRLEELPTGGRTPLAAGLLKAAEVLSNELLRDDDGRPLLVVITDGRANVADGGEPPTDDARTIA  593 (633)
T ss_pred             -----CCHHHHH----HHHHhCCCCCCCCHHHHHHHHHHHHHHhhccCCCCceEEEEECCCCCCCCCCCCChHHHHHHHH
Confidence                 3444442    345567778999999999999988773    2223467789999976430   1111222    


Q ss_pred             --HhcCCcEEEEEeecCC
Q 018644          195 --ISSYPLSIVLVGVGDG  210 (352)
Q Consensus       195 --iS~~PlSIiiVGVG~~  210 (352)
                        +.+..+-+++|+.+++
T Consensus       594 ~~l~~~~i~~~vIdt~~~  611 (633)
T TIGR02442       594 AKLAARGILFVVIDTESG  611 (633)
T ss_pred             HHHHhcCCeEEEEeCCCC
Confidence              1455677888887664

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.

>PF04641 Rtf2: Rtf2 RING-finger

Probab=93.30  E-value=0.054  Score=51.77  Aligned_cols=46  Identities=17%  Similarity=0.389  Sum_probs=37.4

Q ss_pred             cccCCcccCcccCCCC----eee-cCCCCCchhhhhcCC---CCCCCccccCCe
Q 018644          302 VAEAQRCCICCEDEKD----TAF-ECGHMSCIKCALRMP---QCPFCREEITTR  347 (352)
Q Consensus       302 ~~~~~~C~IC~~~~~~----~~~-pCGH~~C~~C~~~~~---~CP~CR~~i~~~  347 (352)
                      ......|||.......    +++ ||||.++..++..+.   .||+|-+++...
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k~~~~Cp~c~~~f~~~  163 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELKKSKKCPVCGKPFTEE  163 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhcccccccccCCccccC
Confidence            3567899999975532    455 999999999999986   799999998763

>PRK10997 yieM hypothetical protein; Provisional

Probab=93.06  E-value=1.7  Score=45.35  Aligned_cols=142  Identities=13%  Similarity=0.097  Sum_probs=86.0

Q ss_pred             ceeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHH-HHHHhccccccCCCccceeeecCCCCCCCCcccCCC
Q 018644           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEV-IYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQE  125 (352)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~a-i~~ig~vl~~yd~d~ip~~GFGa~~~~~~~~f~~~~  125 (352)
                      ..-.++|.||-|+|=.  |.                +..|.+| .-+++.+...=.+ .+-++.|+......    .+. 
T Consensus       322 ~kGpiII~VDtSGSM~--G~----------------ke~~AkalAaAL~~iAl~q~d-r~~li~Fs~~i~~~----~l~-  377 (487)
T PRK10997        322 PRGPFIVCVDTSGSMG--GF----------------NEQCAKAFCLALMRIALAENR-RCYIMLFSTEVVTY----ELT-  377 (487)
T ss_pred             CCCcEEEEEECCCCCC--CC----------------HHHHHHHHHHHHHHHHHhcCC-CEEEEEecCCceee----ccC-
Confidence            3467999999998732  11                2356666 3444554444333 45678898864321    222 


Q ss_pred             CCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcCCceEEEEEEeCCccCCccHHHHHHH----hcCCcE
Q 018644          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETI----SSYPLS  201 (352)
Q Consensus       126 ~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~~~Y~VLlIitDG~i~d~~~~~~~~i----S~~PlS  201 (352)
                         .-.|+..+++.-..     .+.|.|++++.++++.+..++..-+=-.+|||||+......++..+.|    .+.-..
T Consensus       378 ---~~~gl~~ll~fL~~-----~f~GGTDl~~aL~~al~~l~~~~~r~adIVVISDF~~~~~~eel~~~L~~Lk~~~~~r  449 (487)
T PRK10997        378 ---GPDGLEQAIRFLSQ-----SFRGGTDLAPCLRAIIEKMQGREWFDADAVVISDFIAQRLPDELVAKVKELQRQHQHR  449 (487)
T ss_pred             ---CccCHHHHHHHHHH-----hcCCCCcHHHHHHHHHHHHcccccCCceEEEECCCCCCCChHHHHHHHHHHHHhcCcE
Confidence               22578777765543     258999999999999998875422335689999996543223344444    324455


Q ss_pred             EEEEeecC-CCcchhccccC
Q 018644          202 IVLVGVGD-GPWESIQKFHD  220 (352)
Q Consensus       202 IiiVGVG~-~~f~~m~~LD~  220 (352)
                      +.-|=||+ ++=+.|+.+|.
T Consensus       450 f~~l~i~~~~~p~l~~ifD~  469 (487)
T PRK10997        450 FHAVAMSAHGKPGIMRIFDH  469 (487)
T ss_pred             EEEEEeCCCCCchHHHhcCe
Confidence            55555565 33355666664

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

Probab=92.88  E-value=0.027  Score=58.31  Aligned_cols=46  Identities=24%  Similarity=0.586  Sum_probs=38.1

Q ss_pred             cccccCCcccCcccCCCCeee-cCCCCCchhhhhcC---------CCCCCCccccC
Q 018644          300 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM---------PQCPFCREEIT  345 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~---------~~CP~CR~~i~  345 (352)
                      .+-++..+|.+|.+...+.+. .|.|.||+.|+...         -.||.|-...+
T Consensus       531 ~enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls  586 (791)
T KOG1002|consen  531 DENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS  586 (791)
T ss_pred             ccccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence            344667899999999999887 99999999999643         57999987654

>TIGR00868 hCaCC calcium-activated chloride channel protein 1

Probab=92.58  E-value=1.2  Score=49.49  Aligned_cols=141  Identities=14%  Similarity=0.146  Sum_probs=82.5

Q ss_pred             ccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHH-hccccccCCC-ccceeeecCCCCCCCCcccCCCCC
Q 018644           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYIT-GKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQEND  127 (352)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~i-g~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~~~  127 (352)
                      .+.+.||-|.|=.  |.              ...+.-++|++.. ..++   ..+ .+-++.|+......   .+|.+-.
T Consensus       306 ~VVLVLDvSGSM~--g~--------------dRL~~lkqAA~~fL~~~l---~~~DrVGLVtFsssA~vl---~pLt~It  363 (863)
T TIGR00868       306 IVCLVLDKSGSMT--VE--------------DRLKRMNQAAKLFLLQTV---EKGSWVGMVTFDSAAYIK---NELIQIT  363 (863)
T ss_pred             eEEEEEECCcccc--cc--------------CHHHHHHHHHHHHHHHhC---CCCCEEEEEEECCceeEe---eccccCC
Confidence            3667788877732  11              1234455565543 2333   345 99999999864321   2232211


Q ss_pred             CCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcCC--ceEEEEEEeCCccCCccHHHHHHHhcCCcEEEEE
Q 018644          128 SPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGG--LHHVLVIITSGQVATGSQQEQETISSYPLSIVLV  205 (352)
Q Consensus       128 p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~~--~Y~VLlIitDG~i~d~~~~~~~~iS~~PlSIiiV  205 (352)
                          . +...++-...++ ....|-|++..-|+.|.+..++...  .=-.+++||||.-++ ..+..+.+.+..+.|-.|
T Consensus       364 ----s-~~dr~aL~~~L~-~~A~GGT~I~~GL~~Alq~L~~~~~~~~~~~IILLTDGedn~-~~~~l~~lk~~gVtI~TI  436 (863)
T TIGR00868       364 ----S-SAERDALTANLP-TAASGGTSICSGLKAAFQVIKKSYQSTDGSEIVLLTDGEDNT-ISSCFEEVKQSGAIIHTI  436 (863)
T ss_pred             ----c-HHHHHHHHHhhc-cccCCCCcHHHHHHHHHHHHHhcccccCCCEEEEEeCCCCCC-HHHHHHHHHHcCCEEEEE
Confidence                1 122333333444 3467889999999999988775421  123567889998766 344444445568889999


Q ss_pred             eecCCCcchhcccc
Q 018644          206 GVGDGPWESIQKFH  219 (352)
Q Consensus       206 GVG~~~f~~m~~LD  219 (352)
                      |+|...=..|++|=
T Consensus       437 g~G~dad~~L~~IA  450 (863)
T TIGR00868       437 ALGPSAAKELEELS  450 (863)
T ss_pred             EeCCChHHHHHHHH
Confidence            99976544454443

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

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

Probab=92.43  E-value=0.027  Score=55.22  Aligned_cols=49  Identities=27%  Similarity=0.560  Sum_probs=41.8

Q ss_pred             cccccCCcccCcccCCCCeee--cCCCCCchhhhhcC----CCCCCCccccCCee
Q 018644          300 AEVAEAQRCCICCEDEKDTAF--ECGHMSCIKCALRM----PQCPFCREEITTRR  348 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~~--pCGH~~C~~C~~~~----~~CP~CR~~i~~~i  348 (352)
                      .++....+|.+|-....|+..  -|=|.||+.|+-+.    ..||.|...|.+..
T Consensus        10 ~~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~   64 (331)
T KOG2660|consen   10 TELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTH   64 (331)
T ss_pred             hhcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCcc
Confidence            345667899999999999765  99999999999876    68999999887764

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=92.22  E-value=0.051  Score=53.51  Aligned_cols=43  Identities=33%  Similarity=0.764  Sum_probs=31.3

Q ss_pred             cCCcccCcccCC--CCeee---cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018644          304 EAQRCCICCEDE--KDTAF---ECGHMSCIKCALRM-----PQCPFCREEITT  346 (352)
Q Consensus       304 ~~~~C~IC~~~~--~~~~~---pCGH~~C~~C~~~~-----~~CP~CR~~i~~  346 (352)
                      ++..|+.|++.-  .|--|   |||-.+|+.|...+     ..||.||..-+.
T Consensus        13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~d   65 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDD   65 (480)
T ss_pred             ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence            344599999852  22224   78888999998876     579999986554

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

Probab=91.36  E-value=0.073  Score=39.36  Aligned_cols=37  Identities=24%  Similarity=0.483  Sum_probs=26.0

Q ss_pred             ccCCcccCcccCCCCeee--cCCCCCchhhhhcC------CCCCC
Q 018644          303 AEAQRCCICCEDEKDTAF--ECGHMSCIKCALRM------PQCPF  339 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~~~--pCGH~~C~~C~~~~------~~CP~  339 (352)
                      .-...|||.+....+++.  .|||.|.++.+..+      ..||+
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            456899999999999987  99999999999876      35998

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

Probab=91.28  E-value=0.065  Score=55.09  Aligned_cols=45  Identities=27%  Similarity=0.687  Sum_probs=33.6

Q ss_pred             cccCCcccCcccC-----------------CCCeee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018644          302 VAEAQRCCICCED-----------------EKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITT  346 (352)
Q Consensus       302 ~~~~~~C~IC~~~-----------------~~~~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~  346 (352)
                      ......|+||+..                 .++-.+ ||-|.+=+.|+.++     -.||+||.++..
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            3456889999962                 112234 99999999999987     269999998753

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

Probab=90.80  E-value=0.074  Score=53.62  Aligned_cols=31  Identities=32%  Similarity=0.842  Sum_probs=25.6

Q ss_pred             cCCcccCcccCCCC---eee-cCCCCCchhhhhcC
Q 018644          304 EAQRCCICCEDEKD---TAF-ECGHMSCIKCALRM  334 (352)
Q Consensus       304 ~~~~C~IC~~~~~~---~~~-pCGH~~C~~C~~~~  334 (352)
                      ....|.||++...-   ..+ ||+|.+|..|+...
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            45899999998776   345 99999999999853

>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=90.60  E-value=1.8  Score=40.15  Aligned_cols=82  Identities=16%  Similarity=0.193  Sum_probs=50.2

Q ss_pred             ccceeeecCCCCCCCCcccCCCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcCCceEEEEEEeCC-
Q 018644          104 CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSG-  182 (352)
Q Consensus       104 ~ip~~GFGa~~~~~~~~f~~~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~~~Y~VLlIitDG-  182 (352)
                      .+-+|-|+.........+.  .     .+..+.+..-......  ++|-|++...++++.+......-.-.++|||||| 
T Consensus        90 ~~~~f~F~~~l~~vT~~l~--~-----~~~~~~l~~~~~~~~~--~~GgTdi~~aL~~~~~~~~~~~~~~t~vvIiSDg~  160 (222)
T PF05762_consen   90 RVRVFVFSTRLTEVTPLLR--R-----RDPEEALARLSALVQS--FGGGTDIGQALREFLRQYARPDLRRTTVVIISDGW  160 (222)
T ss_pred             CEEEEEEeeehhhhhhhhc--c-----CCHHHHHHHHHhhccC--CCCccHHHHHHHHHHHHhhcccccCcEEEEEeccc
Confidence            4777889876543222221  1     1334444444333333  8999999999999998876432256888999999 


Q ss_pred             ccCCccHHHHHHH
Q 018644          183 QVATGSQQEQETI  195 (352)
Q Consensus       183 ~i~d~~~~~~~~i  195 (352)
                      +-.+ .+...+.+
T Consensus       161 ~~~~-~~~~~~~l  172 (222)
T PF05762_consen  161 DTND-PEPLAEEL  172 (222)
T ss_pred             ccCC-hHHHHHHH
Confidence            4444 33344433

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

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

Probab=90.39  E-value=0.11  Score=50.54  Aligned_cols=37  Identities=27%  Similarity=0.641  Sum_probs=32.4

Q ss_pred             CcccCcccCCCCeee--cCCCCCchhhhhcC-----CCCCCCcc
Q 018644          306 QRCCICCEDEKDTAF--ECGHMSCIKCALRM-----PQCPFCRE  342 (352)
Q Consensus       306 ~~C~IC~~~~~~~~~--pCGH~~C~~C~~~~-----~~CP~CR~  342 (352)
                      +.|+.|....++++-  -|||.||.+|+...     ..||.|-.
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            889999999999876  78999999999943     68999976

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

Probab=90.31  E-value=0.19  Score=49.40  Aligned_cols=43  Identities=16%  Similarity=0.520  Sum_probs=33.5

Q ss_pred             cccCCcccCcccCCCCe-ee-cCCCCCchhhhhcC----CCCCCCcccc
Q 018644          302 VAEAQRCCICCEDEKDT-AF-ECGHMSCIKCALRM----PQCPFCREEI  344 (352)
Q Consensus       302 ~~~~~~C~IC~~~~~~~-~~-pCGH~~C~~C~~~~----~~CP~CR~~i  344 (352)
                      ..+...|+||+....++ ++ --|-.||..|+-..    .+||+--.+.
T Consensus       297 ~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~  345 (357)
T KOG0826|consen  297 PPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA  345 (357)
T ss_pred             CCccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence            35678999999877774 45 77999999999865    7899765544

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

Probab=88.32  E-value=0.21  Score=47.99  Aligned_cols=44  Identities=20%  Similarity=0.633  Sum_probs=32.8

Q ss_pred             ccCCcccCcccCCCCee-----------ecCCCCCchhhhhcC------CCCCCCccccCC
Q 018644          303 AEAQRCCICCEDEKDTA-----------FECGHMSCIKCALRM------PQCPFCREEITT  346 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~~-----------~pCGH~~C~~C~~~~------~~CP~CR~~i~~  346 (352)
                      .++..|.||-...-..+           +.|+|.|=..|+.-+      +.||.|++.++.
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl  282 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL  282 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence            46779999986533322           399999777777754      789999998875

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

Probab=87.96  E-value=0.37  Score=47.16  Aligned_cols=49  Identities=12%  Similarity=-0.030  Sum_probs=40.2

Q ss_pred             cccCCcccCcccCCCCeee-cCCCC-CchhhhhcC--CCCCCCccccCCeeec
Q 018644          302 VAEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRM--PQCPFCREEITTRRRV  350 (352)
Q Consensus       302 ~~~~~~C~IC~~~~~~~~~-pCGH~-~C~~C~~~~--~~CP~CR~~i~~~i~i  350 (352)
                      +-..++|.+|-+.....++ +|||. +|.+|+...  ..||.|....-..++|
T Consensus       340 ~~s~~~~~~~~~~~~st~~~~~~~n~~~~~~a~~s~~~~~~~c~~~~~~~~~i  392 (394)
T KOG2113|consen  340 LMSSLKGTSAGFGLLSTIWSGGNMNLSPGSLASASASPTSSTCDHNDHTLVPI  392 (394)
T ss_pred             chhhcccccccCceeeeEeecCCcccChhhhhhcccCCccccccccceeeeec
Confidence            3456899999999888888 99999 999999854  6899999876665554

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

Probab=86.70  E-value=0.24  Score=54.67  Aligned_cols=45  Identities=29%  Similarity=0.705  Sum_probs=32.4

Q ss_pred             cccCCcccCcccCCC--Cee-----e-cCCCCCchhhhhcC------CCCCCCccccCC
Q 018644          302 VAEAQRCCICCEDEK--DTA-----F-ECGHMSCIKCALRM------PQCPFCREEITT  346 (352)
Q Consensus       302 ~~~~~~C~IC~~~~~--~~~-----~-pCGH~~C~~C~~~~------~~CP~CR~~i~~  346 (352)
                      .+...+|+||+....  +-.     - .|.|-|=..|+-++      ..||+||..|+-
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence            345689999997322  111     1 67788888998887      579999988764

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

Probab=86.24  E-value=0.27  Score=42.47  Aligned_cols=43  Identities=30%  Similarity=0.802  Sum_probs=35.9

Q ss_pred             CCcccCcccCCCCeee-----cCCCCCchhhhhcC-------CCCCCCccccCCe
Q 018644          305 AQRCCICCEDEKDTAF-----ECGHMSCIKCALRM-------PQCPFCREEITTR  347 (352)
Q Consensus       305 ~~~C~IC~~~~~~~~~-----pCGH~~C~~C~~~~-------~~CP~CR~~i~~~  347 (352)
                      -.+|-||.|.-.+.-|     =||-..|..|-..+       +.||+|+..+.+.
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            5689999998888766     48988999998776       5699999988764

>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=85.40  E-value=0.38  Score=34.36  Aligned_cols=43  Identities=30%  Similarity=0.785  Sum_probs=22.6

Q ss_pred             CcccCcccCCCCeeecCC-CCCchhhhhcC----CCCCCCccccCCeee
Q 018644          306 QRCCICCEDEKDTAFECG-HMSCIKCALRM----PQCPFCREEITTRRR  349 (352)
Q Consensus       306 ~~C~IC~~~~~~~~~pCG-H~~C~~C~~~~----~~CP~CR~~i~~~i~  349 (352)
                      ..|+-|+-..+. .+.|. |..|..|+..|    ..||+|..++...++
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            358888844333 23775 66999999988    469999999887654

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.

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

Probab=84.57  E-value=0.4  Score=46.90  Aligned_cols=40  Identities=25%  Similarity=0.712  Sum_probs=29.3

Q ss_pred             cccCcccCCCCee--e-cCCCCCchhhhhcC--CCCCCCccccCC
Q 018644          307 RCCICCEDEKDTA--F-ECGHMSCIKCALRM--PQCPFCREEITT  346 (352)
Q Consensus       307 ~C~IC~~~~~~~~--~-pCGH~~C~~C~~~~--~~CP~CR~~i~~  346 (352)
                      .|+.=.+.++.+.  + ||.|.||-+|+..-  +.||.|-.+|.+
T Consensus        91 HfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~~~dK~Cp~C~d~Vqr  135 (389)
T KOG2932|consen   91 HFCDRCDFPIAIYGRMIPCKHVFCLECARSDSDKICPLCDDRVQR  135 (389)
T ss_pred             EeecccCCcceeeecccccchhhhhhhhhcCccccCcCcccHHHH
Confidence            3444444555543  3 99999999999876  489999887765

>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=84.38  E-value=0.52  Score=37.99  Aligned_cols=33  Identities=27%  Similarity=0.772  Sum_probs=25.4

Q ss_pred             ccccCCcccCcccCCCCeee---cCCCCCchhhhhc
Q 018644          301 EVAEAQRCCICCEDEKDTAF---ECGHMSCIKCALR  333 (352)
Q Consensus       301 ~~~~~~~C~IC~~~~~~~~~---pCGH~~C~~C~~~  333 (352)
                      .+.+...|.+|.....+.+|   ||||.+-..|..+
T Consensus        74 ~i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~r  109 (109)
T PF10367_consen   74 VITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIKR  109 (109)
T ss_pred             EECCCCCccCcCCcCCCceEEEeCCCeEEecccccC
Confidence            34567789999997776443   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 [].

>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=81.94  E-value=0.64  Score=33.36  Aligned_cols=38  Identities=21%  Similarity=0.568  Sum_probs=18.9

Q ss_pred             CcccCcccCCCCeee--cCCCCCchhhhh--------cCCCCCCCccc
Q 018644          306 QRCCICCEDEKDTAF--ECGHMSCIKCAL--------RMPQCPFCREE  343 (352)
Q Consensus       306 ~~C~IC~~~~~~~~~--pCGH~~C~~C~~--------~~~~CP~CR~~  343 (352)
                      ..|++....-..++-  .|.|.-|.+=..        ..+.||+|.++
T Consensus         3 L~CPls~~~i~~P~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIPVRGKNCKHLQCFDLESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSEEEETT--SS--EEHHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeCccCCcCcccceECHHHHHHHhhccCCeECcCCcCc
Confidence            579999998888886  999996643211        22789999874

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 entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.

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

Probab=81.93  E-value=0.35  Score=37.95  Aligned_cols=41  Identities=29%  Similarity=0.592  Sum_probs=29.9

Q ss_pred             CCcccCcccCCCC-ee-e-cCCCCCchhhhhcC-------CCCCCCccccC
Q 018644          305 AQRCCICCEDEKD-TA-F-ECGHMSCIKCALRM-------PQCPFCREEIT  345 (352)
Q Consensus       305 ~~~C~IC~~~~~~-~~-~-pCGH~~C~~C~~~~-------~~CP~CR~~i~  345 (352)
                      +..|+-|.-..-+ ++ + -|-|.|=..|+.+.       ..||+||+...
T Consensus        31 dg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   31 DGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            3567777665555 23 3 89999989998876       46999999754

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	352
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 = 45.4 bits (106), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 20/53 (37%), Positives = 31/53 (58%), Gaps = 2/53 (3%)
Query: 301 EVAEAQRCCICCEDEKDTAF-ECGHMSCIK-CALRMPQCPFCREEITTRRRVY 351
           ++ 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	352
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	5e-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,	7e-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
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-05
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	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,	4e-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	7e-05
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	2e-04
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	3e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	3e-04
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	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	7e-04
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	8e-04

>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase complex, ring zinc-finger, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 2yhn_A Length = 79

 Score = 68.6 bits (168), Expect = 5e-15
 Identities = 20/53 (37%), Positives = 30/53 (56%), Gaps = 2/53 (3%)

Query: 301 EVAEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVY 351
           ++ 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 = 67.1 bits (164), Expect = 1e-14
 Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 2/53 (3%)

Query: 301 EVAEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVY 351
            + 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: 304 EAQRCCICCEDEKDTAF-ECGHMS-CIKCALRMPQCPFCREEITTRRRVY 351
            ++ 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: 299 SAEVAEAQRCCICCEDEKDTAF---ECGHM-SCIKCALRMPQ----CPFCREEITTRRRV 350
           S  +   + C IC    K+      + GH+ +C  CA ++ +    CP CR+ I      
Sbjct: 2   SLPLNAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQMIVLT 61

Query: 351 Y 351
           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 = 61.9 bits (148), Expect = 7e-11
 Identities = 17/66 (25%), Positives = 27/66 (40%), Gaps = 2/66 (3%)

Query: 288 SSHCARQMGPVSAEVAEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEIT 345
                  +      + E + C +C + E    F  CGH+  C +CA  + +CP CR  I 
Sbjct: 278 EDVSGLSLEEQLRRLQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSLRKCPICRGIIK 337

Query: 346 TRRRVY 351
              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: 306 QRCCICCEDEKDTAF---ECGHM-SCIKCALRM----PQCPFCREEITTRRRVY 351
           + 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: 301 EVAEAQRCCICCEDEKDTAFE-CGHMSCIKCALRM-----PQCPFCREEITTRRRVY 351
             +  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: 301 EVAEAQRCCICCEDEKDTAFECGHMSCIKCA----LRMPQCPFCREEIT 345
           ++ + + 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: 300 AEVAEAQRCCICCEDEKDTAF--ECGHMSCIKC-----ALRMPQCPFCREEITTR 347
             +AE  RC IC E  +D      C  + C  C       +  QCP CR  +  R
Sbjct: 17  ESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLR 71

>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: 287 LSSHCARQMGPVSAEVAEAQRCCICCEDEKD-TAFECGHMSCIKCALRM----PQCPFCR 341
           + +     +  ++  +    +C IC E   +     C H  C  C         +CP CR
Sbjct: 46  MQAQKEEVLSHMNDVLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICR 105

Query: 342 EEITTRRRVYP 352
           ++I ++     
Sbjct: 106 KDIKSKTYSLV 116

>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 = 41.0 bits (96), Expect = 2e-05
 Identities = 16/70 (22%), Positives = 27/70 (38%), Gaps = 14/70 (20%)

Query: 296 GPVSAEVAEAQRCCICCEDEKDTAF--------ECGHM---SCIKCAL-RMPQCPFCREE 343
           G      +    C IC +   +           ECGH+    C++ +L     CP CR++
Sbjct: 1   GTTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 60

Query: 344 ITTR--RRVY 351
           I  +    +Y
Sbjct: 61  INHKRYHPIY 70

>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: 303 AEAQRCCICCEDEKDTAF--ECGHMSCIKC----ALRMPQCPFCREEITT 346
             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 = 40.1 bits (94), Expect = 4e-05
 Identities = 15/58 (25%), Positives = 25/58 (43%), Gaps = 14/58 (24%)

Query: 308 CCICCEDEKDTAF--------ECGHM---SCIKCAL-RMPQCPFCREEITTR--RRVY 351
           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: 278 KITPKPPPVLSSHCARQMGPVSAEVAEAQRCCICCEDEKD--TAFECGH---MSCIKCAL 332
           ++   P   ++      + P    +     C IC +  K+  T  EC H     CI  AL
Sbjct: 29  ELQRTPQEAITDGLEIVVSP--RSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITAL 86

Query: 333 R--MPQCPFCREEITTRRRVYP 352
           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 = 40.2 bits (94), Expect = 4e-05
 Identities = 13/55 (23%), Positives = 20/55 (36%), Gaps = 5/55 (9%)

Query: 296 GPVSAEVAEAQRCCICCEDEKD-TAFECGHMSCIKC----ALRMPQCPFCREEIT 345
              +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 = 40.1 bits (93), Expect = 5e-05
 Identities = 17/67 (25%), Positives = 23/67 (34%), Gaps = 10/67 (14%)

Query: 295 MGPVSAEVAEAQRCCICCE--DEKDTAF---ECGHMSCIKCALRM-----PQCPFCREEI 344
           M        +   C +C E  +  D  F    CG+  C  C  R+       CP CR+  
Sbjct: 1   MSRSPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY 60

Query: 345 TTRRRVY 351
                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 = 7e-05
 Identities = 16/57 (28%), Positives = 21/57 (36%), Gaps = 6/57 (10%)

Query: 297 PVSAEVAEAQRCCICCEDEKD--TAFECGH---MSCIKCAL-RMPQCPFCREEITTR 347
            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 = 2e-04
 Identities = 14/64 (21%), Positives = 25/64 (39%), Gaps = 12/64 (18%)

Query: 296 GPVSAEVAEAQRCCICCEDEKDTAF--------ECGHM---SCIKCALRM-PQCPFCREE 343
                  +    C IC +   +           ECGH+    C++ +L+    CP CR++
Sbjct: 6   SGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 65

Query: 344 ITTR 347
           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 = 3e-04
 Identities = 15/55 (27%), Positives = 20/55 (36%), Gaps = 6/55 (10%)

Query: 300 AEVAEAQRCCICCEDEKD--TAFECGH---MSCIKCALRM-PQCPFCREEITTRR 348
           +E+     C IC     D  T  EC H    SCI        +CP C   +   +
Sbjct: 10  SELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQ 64

>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 = 10/53 (18%), Positives = 16/53 (30%), Gaps = 4/53 (7%)

Query: 300 AEVAEAQRCCICCEDEKD--TAFECGHMSCIKCALRM--PQCPFCREEITTRR 348
             + +  RC  C    ++      C H+ C  C        CP C      + 
Sbjct: 17  DRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWIQD 69

>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: 292 ARQMGPVSAEVAEAQRCCICCEDEKDT-AFECGH---MSCIKCALR--MPQCPFCREEIT 345
                   ++V E  +C  C E         C H     C+  + R  +  CP CR ++ 
Sbjct: 39  GSPFQLFLSKVEETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLG 98

Query: 346 TRR 348
              
Sbjct: 99  RSY 101

>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: 308 CCICCEDEKDTAF-----ECGHMSCIKCALRMP-------QCPFCREEIT 345
           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 = 38.0 bits (88), Expect = 6e-04
 Identities = 14/51 (27%), Positives = 19/51 (37%), Gaps = 6/51 (11%)

Query: 308 CCICCEDEKD-TAFECGHMSCIKCALRM-----PQCPFCREEITTRRRVYP 352
           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 = 7e-04
 Identities = 15/58 (25%), Positives = 21/58 (36%), Gaps = 6/58 (10%)

Query: 300 AEVAEAQRCCICCEDEKD--TAFECGH---MSCIKCALRM-PQCPFCREEITTRRRVY 351
            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 = 8e-04
 Identities = 16/59 (27%), Positives = 19/59 (32%), Gaps = 6/59 (10%)

Query: 300 AEVAEAQRCCICCEDEKD-TAFECGHMSCIKCALRM-----PQCPFCREEITTRRRVYP 352
           A   ++  C IC     D     C H+ C  C LR        CP CR          P
Sbjct: 18  AHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESP 76

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	352
2ea5_A	68	Cell growth regulator with ring finger domain prot	99.36
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	99.22
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	99.22
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	99.22
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.12
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.06
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.99
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	98.93
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	98.92
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.91
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.91
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	98.88
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	98.87
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	98.86
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	98.85
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	98.84
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	98.82
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	98.82
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	98.82
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	98.8
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	98.77
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	98.76
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	98.76
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	98.75
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	98.74
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.7
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	98.69
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	98.69
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	98.67
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	98.67
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	98.67
2ect_A	78	Ring finger protein 126; metal binding protein, st	98.67
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.66
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.66
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	98.63
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	98.63
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.62
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.58
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	98.58
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	98.57
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.54
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.54
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.54
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.51
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.5
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.5
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.5
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.46
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	98.46
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	98.44
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.44
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	98.42
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	98.42
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.34
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.31
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.26
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.18
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.16
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.15
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.1
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.08
4hqf_A	281	Thrombospondin-related anonymous protein, trap; ma	98.04
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	97.88
4hqo_A	266	Sporozoite surface protein 2; malaria, gliding mot	97.86
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	97.84
3ibs_A	218	Conserved hypothetical protein BATB; structural ge	97.74
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	97.7
1atz_A	189	VON willebrand factor; collagen-binding, hemostasi	97.64
3n2n_F	185	Anthrax toxin receptor 1; rossmann fold; 1.80A {Ho	97.63
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	97.63
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	97.62
1shu_X	182	Anthrax toxin receptor 2; alpha/beta rossmann fold	97.6
2xgg_A	178	Microneme protein 2; A/I domain, cell adhesion, hy	97.59
4fx5_A	464	VON willebrand factor type A; structural genomics,	97.4
1n3y_A	198	Integrin alpha-X; alpha/beta rossmann fold, cell a	97.4
1q0p_A	223	Complement factor B; VON willebrand factor, MAC-1,	97.36
1ijb_A	202	VON willebrand factor; dinucleotide-binding fold,	97.35
2b2x_A	223	Integrin alpha-1; computational design, antibody-a	97.32
1pt6_A	213	Integrin alpha-1; cell adhesion; 1.87A {Homo sapie	97.22
2odp_A	509	Complement C2; C3/C5 convertase, complement serin	97.14
4b4t_W	268	RPN10, 26S proteasome regulatory subunit RPN10; hy	97.13
2x5n_A	192	SPRPN10, 26S proteasome regulatory subunit RPN10;	97.13
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	97.09
1v7p_C	200	Integrin alpha-2; snake venom, C-type lectin, anta	97.06
1mf7_A	194	Integrin alpha M; cell adhesion; 1.25A {Homo sapie	97.04
2x31_A	189	Magnesium-chelatase 60 kDa subunit; ligase, bacter	96.96
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	96.76
1rrk_A	497	Complement factor B; BB, hydrolase; 2.00A {Homo sa	96.69
3zqk_A	199	VON willebrand factor; blood clotting, adamts-13,	96.58
3hrz_D	741	Complement factor B; serine protease, glycosilated	96.04
1mjn_A	179	Integrin alpha-L; rossmann fold, immune system; 1.	95.52
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	95.39
3k6s_A	1095	Integrin alpha-X; cell receptor, adhesion molecule	95.34
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	94.97
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	94.7
1jey_A	609	KU70; double-strand DNA break repair, non-homologo	94.53
1jey_B	565	KU80; double-strand DNA break repair, non-homologo	94.44
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	94.13
1yvr_A	538	RO autoantigen, 60-kDa SS-A/RO ribonucleoprotein,	93.99
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	89.3
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	85.24
2nvo_A	535	RO sixty-related protein, RSR; alpha helical repea	81.03

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

Probab=99.36  E-value=6.9e-13  Score=100.26  Aligned_cols=51  Identities=22%  Similarity=0.580  Sum_probs=47.5

Q ss_pred             cccCCcccCcccCCCCeee-cCCCC-CchhhhhcCCCCCCCccccCCeeecCC
Q 018644          302 VAEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVYP  352 (352)
Q Consensus       302 ~~~~~~C~IC~~~~~~~~~-pCGH~-~C~~C~~~~~~CP~CR~~i~~~i~if~  352 (352)
                      ..+..+|+||++.++++++ ||||. +|..|+.++..||+||++|..++++|.
T Consensus        12 ~~~~~~C~IC~~~~~~~v~~pCgH~~~C~~C~~~~~~CP~CR~~i~~~~~i~~   64 (68)
T 2ea5_A           12 EENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKYFQQCPMCRQFVQESFALSG   64 (68)
T ss_dssp             CCCSSCCSSSSSSCCCCEETTTTBCCSCTTHHHHCSSCTTTCCCCCCEECCCS
T ss_pred             CCCCCCCCCcCcCCCCEEEECCCChhhhHHHHhcCCCCCCCCcchhceEEeec
Confidence            3457899999999999998 99999 999999999999999999999999984

>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=99.22  E-value=2.6e-12  Score=99.84  Aligned_cols=51  Identities=39%  Similarity=1.046  Sum_probs=47.4

Q ss_pred             ccccCCcccCcccCCCCeee-cCCCC-CchhhhhcCCCCCCCccccCCeeecC
Q 018644          301 EVAEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVY  351 (352)
Q Consensus       301 ~~~~~~~C~IC~~~~~~~~~-pCGH~-~C~~C~~~~~~CP~CR~~i~~~i~if  351 (352)
                      .+.+...|+||++..+++++ ||||. +|..|+.+++.||+||.++...+++|
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            45567899999999999998 99999 99999999999999999999999987

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

Probab=99.22  E-value=2.9e-12  Score=97.96  Aligned_cols=51  Identities=31%  Similarity=0.849  Sum_probs=47.6

Q ss_pred             ccccCCcccCcccCCCCeee-cCCCC-CchhhhhcCCCCCCCccccCCeeecC
Q 018644          301 EVAEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVY  351 (352)
Q Consensus       301 ~~~~~~~C~IC~~~~~~~~~-pCGH~-~C~~C~~~~~~CP~CR~~i~~~i~if  351 (352)
                      .+.+...|+||++...++++ ||||. ||..|+.++..||+||+++...+++|
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            45667899999999999988 99999 99999999999999999999999987

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

Probab=99.22  E-value=2.3e-12  Score=98.60  Aligned_cols=51  Identities=31%  Similarity=0.882  Sum_probs=47.3

Q ss_pred             ccccCCcccCcccCCCCeee-cCCCC-CchhhhhcCCCCCCCccccCCeeecC
Q 018644          301 EVAEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVY  351 (352)
Q Consensus       301 ~~~~~~~C~IC~~~~~~~~~-pCGH~-~C~~C~~~~~~CP~CR~~i~~~i~if  351 (352)
                      .+.+..+|+||++...++++ ||||. ||..|+.++..||+||+++...+++|
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            44566899999999999998 99999 99999999999999999999999988

>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=99.12  E-value=6.4e-12  Score=93.32  Aligned_cols=49  Identities=31%  Similarity=0.842  Sum_probs=43.8

Q ss_pred             ccCCcccCcccCCCCee-e--cCCCC-CchhhhhcCC----CCCCCccccCCeeecC
Q 018644          303 AEAQRCCICCEDEKDTA-F--ECGHM-SCIKCALRMP----QCPFCREEITTRRRVY  351 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~~-~--pCGH~-~C~~C~~~~~----~CP~CR~~i~~~i~if  351 (352)
                      +...+|+||++.+++++ +  ||||. +|..|+.++.    .||+||++|...+++|
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            45678999999999865 3  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=99.06  E-value=1.3e-11  Score=91.96  Aligned_cols=49  Identities=31%  Similarity=0.789  Sum_probs=43.8

Q ss_pred             ccCCcccCcccCCCCeee---cCCCC-CchhhhhcCC----CCCCCccccCCeeecC
Q 018644          303 AEAQRCCICCEDEKDTAF---ECGHM-SCIKCALRMP----QCPFCREEITTRRRVY  351 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~~~---pCGH~-~C~~C~~~~~----~CP~CR~~i~~~i~if  351 (352)
                      .++.+|+||+++++++++   ||||. +|..|+.++.    .||+||++|...+++|
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 8999999874    5999999999999987

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

Probab=98.99  E-value=2e-10  Score=89.10  Aligned_cols=54  Identities=30%  Similarity=0.647  Sum_probs=42.6

Q ss_pred             cccccccCCcccCcccCCC--Ceee-c--CCCCCchhhhhcCC-----CCCCCccccCCeeecC
Q 018644          298 VSAEVAEAQRCCICCEDEK--DTAF-E--CGHMSCIKCALRMP-----QCPFCREEITTRRRVY  351 (352)
Q Consensus       298 ~~~~~~~~~~C~IC~~~~~--~~~~-p--CGH~~C~~C~~~~~-----~CP~CR~~i~~~i~if  351 (352)
                      ....+.++..|+||++...  ++.+ |  |||.||..|+.+++     .||+||+++.....+|
T Consensus         4 ~~~~~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~~~   67 (78)
T 1e4u_A            4 SPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAVY   67 (78)
T ss_dssp             CSCCCCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSSCC
T ss_pred             cccccccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCchhh
Confidence            3345678899999999773  4555 5  99999999998774     6999999998765444

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

Probab=98.93  E-value=4.9e-10  Score=84.32  Aligned_cols=45  Identities=27%  Similarity=0.668  Sum_probs=39.7

Q ss_pred             cccCCcccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018644          302 VAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITT  346 (352)
Q Consensus       302 ~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~  346 (352)
                      ..+...|+||++...+++. +|||.||..|+.++    ..||+||..+..
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   61 (71)
T 2d8t_A           12 SLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPE   61 (71)
T ss_dssp             SSSCCBCSSSSSBCSSEEEETTTEEEEHHHHHHCTTCSSBCSSSCCBCCH
T ss_pred             CCCCCCCccCCcccCCCEEccCCCHHHHHHHHHHHHCCCcCcCcCchhCH
Confidence            3567899999999999877 99999999999986    569999999875

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

Probab=98.92  E-value=7.9e-10  Score=83.12  Aligned_cols=49  Identities=27%  Similarity=0.755  Sum_probs=41.9

Q ss_pred             ccccccCCcccCcccCCCCeee-cCCCCCchhhhhcCC-------CCCCCccccCCe
Q 018644          299 SAEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRMP-------QCPFCREEITTR  347 (352)
Q Consensus       299 ~~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~~-------~CP~CR~~i~~~  347 (352)
                      ...+.+...|+||++...+++. +|||.||..|+.++.       .||+||+++...
T Consensus        14 ~~~~~~~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   70 (73)
T 2ysl_A           14 VNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKN   70 (73)
T ss_dssp             CCCCCCCCBCTTTCSBCSSEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCC
T ss_pred             HHhCccCCEeccCCcccCCeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCcc
Confidence            3456778999999999999887 999999999998763       699999998753

>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=98.91  E-value=3.6e-10  Score=110.42  Aligned_cols=52  Identities=33%  Similarity=0.870  Sum_probs=48.5

Q ss_pred             cccccCCcccCcccCCCCeee-cCCCC-CchhhhhcCCCCCCCccccCCeeecC
Q 018644          300 AEVAEAQRCCICCEDEKDTAF-ECGHM-SCIKCALRMPQCPFCREEITTRRRVY  351 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~~-pCGH~-~C~~C~~~~~~CP~CR~~i~~~i~if  351 (352)
                      ..+.+...|+||++...++++ ||||. ||..|+.++..||+||.+|..++++|
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            345678999999999999998 99999 99999999999999999999999998

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

Probab=98.91  E-value=3.7e-10  Score=84.52  Aligned_cols=52  Identities=29%  Similarity=0.795  Sum_probs=43.3

Q ss_pred             cccccCCcccCcccCCCCeeecCCCCCchhhhhcC----CCCCCCccccCCeeecC
Q 018644          300 AEVAEAQRCCICCEDEKDTAFECGHMSCIKCALRM----PQCPFCREEITTRRRVY  351 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~~pCGH~~C~~C~~~~----~~CP~CR~~i~~~i~if  351 (352)
                      ....+...|+||++...++.++|||.||..|+.++    ..||+||.++.....+|
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            44567789999999999944499999999999977    56999999998766554

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

Probab=98.88  E-value=4.1e-10  Score=83.46  Aligned_cols=48  Identities=29%  Similarity=0.712  Sum_probs=39.7

Q ss_pred             ccccccCCcccCcccCCCCe-------ee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018644          299 SAEVAEAQRCCICCEDEKDT-------AF-ECGHMSCIKCALRM----PQCPFCREEITT  346 (352)
Q Consensus       299 ~~~~~~~~~C~IC~~~~~~~-------~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~  346 (352)
                      .....+...|+||++...+.       ++ +|||.||..|+.++    ..||+||.++..
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            34556788999999976664       55 99999999999876    579999999875

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

Probab=98.87  E-value=1.1e-09  Score=82.62  Aligned_cols=51  Identities=27%  Similarity=0.537  Sum_probs=42.8

Q ss_pred             CcccccccCCcccCcccCCCCee-e-cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018644          297 PVSAEVAEAQRCCICCEDEKDTA-F-ECGHMSCIKCALRM----PQCPFCREEITTR  347 (352)
Q Consensus       297 ~~~~~~~~~~~C~IC~~~~~~~~-~-pCGH~~C~~C~~~~----~~CP~CR~~i~~~  347 (352)
                      .....+.+...|+||++...+++ + +|||.||..|+.++    ..||+||+++...
T Consensus         7 ~~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (72)
T 2djb_A            7 GNLSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQT   63 (72)
T ss_dssp             CCCCCCCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCSS
T ss_pred             hhHhhcCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCcc
Confidence            34456677899999999998865 4 99999999999876    6899999998765

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

Probab=98.86  E-value=1.3e-09  Score=84.02  Aligned_cols=47  Identities=30%  Similarity=0.678  Sum_probs=40.7

Q ss_pred             cccccCCcccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018644          300 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITT  346 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~  346 (352)
                      ....+...|+||++...++++ +|||.||..|+.++    ..||+||.++..
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 99999999999876    579999999874

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

Probab=98.85  E-value=2.6e-09  Score=82.06  Aligned_cols=48  Identities=29%  Similarity=0.578  Sum_probs=41.3

Q ss_pred             ccccccCCcccCcccCCCCeee-cCCCCCchhhhhc----------CCCCCCCccccCC
Q 018644          299 SAEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALR----------MPQCPFCREEITT  346 (352)
Q Consensus       299 ~~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~----------~~~CP~CR~~i~~  346 (352)
                      ...+.+...|+||++...+++. +|||.||..|+..          ...||+||.++..
T Consensus        13 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecw_A           13 LEMIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPF   71 (85)
T ss_dssp             CCCCCTTTSCTTTCSCCSSCEECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCT
T ss_pred             HHhCccCCCCcCCChhhCcceeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCH
Confidence            3456778999999999999877 9999999999986          3579999999875

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

Probab=98.84  E-value=1.7e-09  Score=82.36  Aligned_cols=48  Identities=31%  Similarity=0.634  Sum_probs=41.2

Q ss_pred             ccccccCCcccCcccCCCCeee-cCCCCCchhhhhcC-----------CCCCCCccccCC
Q 018644          299 SAEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----------PQCPFCREEITT  346 (352)
Q Consensus       299 ~~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----------~~CP~CR~~i~~  346 (352)
                      ...+.+...|+||++...+++. +|||.||..|+.++           ..||+||.++..
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            3456778999999999999876 99999999999864           469999999875

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

Probab=98.82  E-value=1.8e-09  Score=82.01  Aligned_cols=49  Identities=22%  Similarity=0.582  Sum_probs=41.4

Q ss_pred             cccccccCCcccCcccCCCCeee-c-CCCCCchhhhhcC------CCCCCCccccCC
Q 018644          298 VSAEVAEAQRCCICCEDEKDTAF-E-CGHMSCIKCALRM------PQCPFCREEITT  346 (352)
Q Consensus       298 ~~~~~~~~~~C~IC~~~~~~~~~-p-CGH~~C~~C~~~~------~~CP~CR~~i~~  346 (352)
                      ....+.+...|+||++...+++. + |||.||..|+.++      ..||+||+++..
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            34556778999999999999876 8 9999999999876      379999998654

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

Probab=98.82  E-value=3.8e-09  Score=81.06  Aligned_cols=48  Identities=31%  Similarity=0.634  Sum_probs=41.5

Q ss_pred             ccccccCCcccCcccCCCCeee-cCCCCCchhhhhc----------CCCCCCCccccCC
Q 018644          299 SAEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALR----------MPQCPFCREEITT  346 (352)
Q Consensus       299 ~~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~----------~~~CP~CR~~i~~  346 (352)
                      ...+.+...|+||++...+++. +|||.||..|+..          ...||+||..+..
T Consensus        13 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~   71 (85)
T 2ecv_A           13 LVNVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQP   71 (85)
T ss_dssp             CCCCCCCCCCTTTCSCCSSCBCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCS
T ss_pred             HHHccCCCCCCCCCcccCCceeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCH
Confidence            3456778999999999999876 9999999999986          3579999999875

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

Probab=98.82  E-value=2e-09  Score=83.55  Aligned_cols=48  Identities=29%  Similarity=0.756  Sum_probs=40.8

Q ss_pred             ccccccCCcccCcccCCCC----eee-cCCCCCchhhhhcC-------CCCCCCccccCC
Q 018644          299 SAEVAEAQRCCICCEDEKD----TAF-ECGHMSCIKCALRM-------PQCPFCREEITT  346 (352)
Q Consensus       299 ~~~~~~~~~C~IC~~~~~~----~~~-pCGH~~C~~C~~~~-------~~CP~CR~~i~~  346 (352)
                      ...+.+...|+||++...+    ++. +|||.||..|+.++       ..||+||+.+..
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   68 (88)
T 2ct2_A            9 LDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRI   68 (88)
T ss_dssp             CCCCCSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCC
T ss_pred             hhhccCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccc
Confidence            3456778999999999888    766 99999999999876       479999998764

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

Probab=98.80  E-value=1.1e-09  Score=93.18  Aligned_cols=46  Identities=28%  Similarity=0.736  Sum_probs=40.2

Q ss_pred             cccCCcccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018644          302 VAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITTR  347 (352)
Q Consensus       302 ~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~~  347 (352)
                      +.++..|+||++...+++. ||||.||..|+..+    ..||+||.++...
T Consensus        50 ~~~~~~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           50 LENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK  100 (138)
T ss_dssp             HHHHSBCTTTCSBCSSEEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCCCE
T ss_pred             ccccCCCcccCcccCCceECCCCCCccHHHHHHHHHcCCcCCCCCCcCCCC
Confidence            3456789999999999887 99999999999876    5699999999765

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

Probab=98.77  E-value=3.6e-09  Score=76.33  Aligned_cols=44  Identities=27%  Similarity=0.567  Sum_probs=38.9

Q ss_pred             ccCCcccCcccCCCCeee-cCCCCCchhhhhcC-CCCCCCccccCC
Q 018644          303 AEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-PQCPFCREEITT  346 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-~~CP~CR~~i~~  346 (352)
                      .+...|+||++...+++. +|||.||..|+... ..||+||+.+..
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            467899999999999876 99999999999876 579999999875

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

Probab=98.76  E-value=3.1e-09  Score=78.82  Aligned_cols=49  Identities=33%  Similarity=0.730  Sum_probs=41.0

Q ss_pred             ccCCcccCcccCCCCe-ee-cCCCCCchhhhhcC----CCCCCCccccCCeeecC
Q 018644          303 AEAQRCCICCEDEKDT-AF-ECGHMSCIKCALRM----PQCPFCREEITTRRRVY  351 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~-~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~~i~if  351 (352)
                      ++...|+||++...+. +. +|||.||..|+.++    ..||+||.++...++.+
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            3567899999999884 55 99999999999875    67999999998876543

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

Probab=98.76  E-value=2.9e-09  Score=78.86  Aligned_cols=47  Identities=30%  Similarity=0.656  Sum_probs=40.3

Q ss_pred             ccccCCcccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCCe
Q 018644          301 EVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITTR  347 (352)
Q Consensus       301 ~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~~  347 (352)
                      .+.+...|+||++...+++. +|||.||..|+.++     ..||+||+++...
T Consensus        11 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           11 TVEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             SCCCCEECTTTCCEESSCCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             cCCcCCCCCCCChHhcCeeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            44667899999999999876 99999999999865     4699999998753

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

Probab=98.75  E-value=1.3e-09  Score=81.34  Aligned_cols=45  Identities=31%  Similarity=0.762  Sum_probs=37.9

Q ss_pred             cccCCcccCcccCCCCe-------ee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018644          302 VAEAQRCCICCEDEKDT-------AF-ECGHMSCIKCALRM----PQCPFCREEITT  346 (352)
Q Consensus       302 ~~~~~~C~IC~~~~~~~-------~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~  346 (352)
                      ..+...|+||++...++       +. +|||.||..|+.++    ..||+||.++..
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

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

Probab=98.74  E-value=3e-09  Score=83.64  Aligned_cols=47  Identities=23%  Similarity=0.610  Sum_probs=40.3

Q ss_pred             ccccccCCcccCcccCCCCeee-c-CCCCCchhhhhcC------CCCCCCccccC
Q 018644          299 SAEVAEAQRCCICCEDEKDTAF-E-CGHMSCIKCALRM------PQCPFCREEIT  345 (352)
Q Consensus       299 ~~~~~~~~~C~IC~~~~~~~~~-p-CGH~~C~~C~~~~------~~CP~CR~~i~  345 (352)
                      ...+.+...|+||++...+++. + |||.||..|+..+      ..||+||.++.
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 9999999999865      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=98.70  E-value=4.1e-09  Score=86.44  Aligned_cols=47  Identities=28%  Similarity=0.644  Sum_probs=40.2

Q ss_pred             cccccCCcccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018644          300 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITT  346 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~  346 (352)
                      ....+...|+||++...+++. +|||.||..|+.++     ..||+||..+..
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            344667899999999999876 99999999999887     369999998763

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

Probab=98.69  E-value=2.8e-09  Score=77.74  Aligned_cols=48  Identities=31%  Similarity=0.777  Sum_probs=38.9

Q ss_pred             cCCcccCcccCCCCe-------ee-cCCCCCchhhhhcC----CCCCCCccccCC--eeecC
Q 018644          304 EAQRCCICCEDEKDT-------AF-ECGHMSCIKCALRM----PQCPFCREEITT--RRRVY  351 (352)
Q Consensus       304 ~~~~C~IC~~~~~~~-------~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~--~i~if  351 (352)
                      +...|+||++...+.       +. +|||.||..|+.++    ..||+||.++..  ..++|
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            467899999976653       44 99999999999876    579999999985  45554

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2

Probab=98.69  E-value=5.5e-09  Score=79.65  Aligned_cols=46  Identities=26%  Similarity=0.333  Sum_probs=40.2

Q ss_pred             ccccCCcccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018644          301 EVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITT  346 (352)
Q Consensus       301 ~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~  346 (352)
                      .+.+...|+||++...+++. +|||.||+.|+.++     ..||+||+++..
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            34678999999999999887 99999999999865     469999999865

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1

Probab=98.67  E-value=1.1e-08  Score=72.65  Aligned_cols=43  Identities=26%  Similarity=0.728  Sum_probs=35.8

Q ss_pred             ccCCcccCcccCCCC---ee-ec-CCCCCchhhhhcC----CCCCCCccccC
Q 018644          303 AEAQRCCICCEDEKD---TA-FE-CGHMSCIKCALRM----PQCPFCREEIT  345 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~---~~-~p-CGH~~C~~C~~~~----~~CP~CR~~i~  345 (352)
                      ++..+|+||++...+   +. ++ |||.||..|+.++    ..||+||.++.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            567899999998766   44 46 9999999999976    57999999864

>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=98.67  E-value=1.2e-08  Score=75.93  Aligned_cols=49  Identities=27%  Similarity=0.572  Sum_probs=39.0

Q ss_pred             ccccCCcccCcccCCC---Ceee-cCCCCCchhhhhcC----CCCCCCccccCCeee
Q 018644          301 EVAEAQRCCICCEDEK---DTAF-ECGHMSCIKCALRM----PQCPFCREEITTRRR  349 (352)
Q Consensus       301 ~~~~~~~C~IC~~~~~---~~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~~i~  349 (352)
                      +..+...|+||++...   .++. +|||.||..|+.++    ..||+||..+...+.
T Consensus        10 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   66 (69)
T 2kiz_A           10 EEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQLP   66 (69)
T ss_dssp             STTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBSCSCCC
T ss_pred             cCCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccccCcCC
Confidence            3456789999988653   3444 99999999999876    679999999987654

>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=98.67  E-value=8.3e-09  Score=73.21  Aligned_cols=42  Identities=31%  Similarity=0.707  Sum_probs=35.8

Q ss_pred             cCCcccCcccCCCC----eee-cCCCCCchhhhhcC----CCCCCCccccC
Q 018644          304 EAQRCCICCEDEKD----TAF-ECGHMSCIKCALRM----PQCPFCREEIT  345 (352)
Q Consensus       304 ~~~~C~IC~~~~~~----~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~  345 (352)
                      +...|+||++...+    +++ +|||.||..|+.++    ..||+||.++.
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            56789999998755    555 99999999999877    68999999875

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

Probab=98.67  E-value=1.1e-08  Score=77.92  Aligned_cols=49  Identities=27%  Similarity=0.594  Sum_probs=38.8

Q ss_pred             ccccccCCcccCcccCCCC---eee-cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018644          299 SAEVAEAQRCCICCEDEKD---TAF-ECGHMSCIKCALRM----PQCPFCREEITTR  347 (352)
Q Consensus       299 ~~~~~~~~~C~IC~~~~~~---~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~~  347 (352)
                      .....+...|+||++...+   +.. +|||.||..|+.++    ..||+||.++...
T Consensus         9 ~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (78)
T 2ect_A            9 EEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQ   65 (78)
T ss_dssp             CTTSSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCCS
T ss_pred             cccCCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCCc
Confidence            3445677899999887653   233 99999999999876    5799999998764

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.66  E-value=1.4e-08  Score=72.72  Aligned_cols=42  Identities=33%  Similarity=0.789  Sum_probs=36.0

Q ss_pred             ccccccCCcccCcccCCCCeee-cCCCCCchhhhhcC-------CCCCCC
Q 018644          299 SAEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-------PQCPFC  340 (352)
Q Consensus       299 ~~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-------~~CP~C  340 (352)
                      .....+...|+||++...+++. +|||.||..|+.++       ..||+|
T Consensus         9 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A            9 LENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SSCSCCCCBCSSSCCBCSSCCCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             hhccccCCCCccCCcccCccEeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            3456678899999999999877 99999999999865       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=98.66  E-value=4.1e-09  Score=87.69  Aligned_cols=47  Identities=30%  Similarity=0.569  Sum_probs=40.9

Q ss_pred             cccccCCcccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018644          300 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITT  346 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~  346 (352)
                      ..+.+...|+||++...+++. +|||.||..|+..+     ..||+||.++..
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            345677899999999999887 99999999999765     379999999976

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

Probab=98.63  E-value=2e-08  Score=73.46  Aligned_cols=42  Identities=31%  Similarity=0.815  Sum_probs=36.2

Q ss_pred             ccccccCCcccCcccCCCCeee-cCCCCCchhhhhcC-------CCCCCC
Q 018644          299 SAEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-------PQCPFC  340 (352)
Q Consensus       299 ~~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-------~~CP~C  340 (352)
                      ...+.+...|+||++...+++. +|||.||..|+.++       ..||+|
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            3456778999999999999887 99999999999866       369998

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.63  E-value=1.2e-08  Score=76.98  Aligned_cols=51  Identities=25%  Similarity=0.571  Sum_probs=40.4

Q ss_pred             ccccccCCcccCcccCCCC---eee-cCCCCCchhhhhcC----CCCCCCccccCCeee
Q 018644          299 SAEVAEAQRCCICCEDEKD---TAF-ECGHMSCIKCALRM----PQCPFCREEITTRRR  349 (352)
Q Consensus       299 ~~~~~~~~~C~IC~~~~~~---~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~~i~  349 (352)
                      ..+..+...|+||++...+   +.. +|||.||..|+.++    ..||+||.++.....
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            3455677899999997654   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=98.62  E-value=6.8e-09  Score=76.58  Aligned_cols=43  Identities=26%  Similarity=0.655  Sum_probs=35.0

Q ss_pred             cCCcccCccc-CCCCe----ee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018644          304 EAQRCCICCE-DEKDT----AF-ECGHMSCIKCALRM-----PQCPFCREEITT  346 (352)
Q Consensus       304 ~~~~C~IC~~-~~~~~----~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~  346 (352)
                      ++..|+||++ ...++    ++ +|||.||..|+.++     ..||+||.++..
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   55 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcccc
Confidence            4678999999 44443    34 99999999999877     469999999876

>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=98.58  E-value=1.1e-08  Score=82.87  Aligned_cols=46  Identities=35%  Similarity=0.845  Sum_probs=39.6

Q ss_pred             ccccCCcccCcccCCCCeee-cCCCCCchhhhhcC-------CCCCCCccccCC
Q 018644          301 EVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-------PQCPFCREEITT  346 (352)
Q Consensus       301 ~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-------~~CP~CR~~i~~  346 (352)
                      .+.+...|+||++...+++. +|||.||..|+.++       ..||+||.++..
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            34567899999999999876 99999999999865       279999999875

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

Probab=98.58  E-value=8.2e-09  Score=82.42  Aligned_cols=48  Identities=29%  Similarity=0.645  Sum_probs=40.7

Q ss_pred             ccccccCCcccCcccCCCCee-e-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018644          299 SAEVAEAQRCCICCEDEKDTA-F-ECGHMSCIKCALRM----PQCPFCREEITT  346 (352)
Q Consensus       299 ~~~~~~~~~C~IC~~~~~~~~-~-pCGH~~C~~C~~~~----~~CP~CR~~i~~  346 (352)
                      ...+.+...|+||++...+++ + +|||.||..|+.++    ..||+||.++..
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            345567799999999999976 4 89999999999876    479999999875

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

Probab=98.57  E-value=9.7e-09  Score=82.56  Aligned_cols=47  Identities=36%  Similarity=0.902  Sum_probs=40.8

Q ss_pred             cccccCCcccCcccCCCCeee--cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018644          300 AEVAEAQRCCICCEDEKDTAF--ECGHMSCIKCALRM-----PQCPFCREEITT  346 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~~--pCGH~~C~~C~~~~-----~~CP~CR~~i~~  346 (352)
                      ..+.+...|+||++...+++.  +|||.||..|+.++     ..||+||.++..
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  99999999999876     479999999865

>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=98.54  E-value=2e-08  Score=81.54  Aligned_cols=47  Identities=28%  Similarity=0.659  Sum_probs=41.2

Q ss_pred             cccccCCcccCcccCCCCee-e-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018644          300 AEVAEAQRCCICCEDEKDTA-F-ECGHMSCIKCALRM----PQCPFCREEITT  346 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~-~-pCGH~~C~~C~~~~----~~CP~CR~~i~~  346 (352)
                      ..+.+...|+||++...+++ + +|||.||..|+..+    ..||+||..+..
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            45678899999999999976 4 99999999999876    579999999875

>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=98.54  E-value=1.3e-08  Score=87.91  Aligned_cols=48  Identities=27%  Similarity=0.585  Sum_probs=41.4

Q ss_pred             cccccCCcccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCCe
Q 018644          300 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITTR  347 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~~  347 (352)
                      ..+.+...|+||++...+++. +|||.||..|+..+     ..||+||.++...
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            345677899999999999887 99999999999876     3799999998864

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens}

Probab=98.54  E-value=1.9e-08  Score=79.49  Aligned_cols=46  Identities=26%  Similarity=0.565  Sum_probs=37.5

Q ss_pred             cccCCcccCcccCCCC---eee-cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018644          302 VAEAQRCCICCEDEKD---TAF-ECGHMSCIKCALRM----PQCPFCREEITTR  347 (352)
Q Consensus       302 ~~~~~~C~IC~~~~~~---~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~~  347 (352)
                      ..+...|+||++....   +.. +|||.||..|+..+    ..||+||..+...
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            3466789999987655   444 99999999999876    5799999998754

>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=98.51  E-value=2.3e-08  Score=87.12  Aligned_cols=47  Identities=30%  Similarity=0.700  Sum_probs=39.2

Q ss_pred             cccccCCcccCcccCCCCee-e-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018644          300 AEVAEAQRCCICCEDEKDTA-F-ECGHMSCIKCALRM-----PQCPFCREEITT  346 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~-~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~  346 (352)
                      ..+.+...|+||++...+++ + +|||.||..|+.++     ..||+||.++..
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            34556789999999999976 4 99999999999876     459999999854

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.50  E-value=2.3e-08  Score=75.74  Aligned_cols=44  Identities=27%  Similarity=0.641  Sum_probs=36.2

Q ss_pred             ccCCcccCcccCCCCe---ee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018644          303 AEAQRCCICCEDEKDT---AF-ECGHMSCIKCALRM----PQCPFCREEITT  346 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~---~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~  346 (352)
                      .+...|+||++...+.   .. +|||.||..|+.++    ..||+||+++..
T Consensus        21 ~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~   72 (75)
T 1x4j_A           21 SEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGP   72 (75)
T ss_dssp             SSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcCCC
Confidence            4667899999876542   33 99999999999876    679999998865

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

Probab=98.50  E-value=3.8e-08  Score=81.08  Aligned_cols=48  Identities=21%  Similarity=0.569  Sum_probs=41.5

Q ss_pred             ccccccCCcccCcccCCCCee-e-cCCCCCchhhhhcC--CCCCCCccccCC
Q 018644          299 SAEVAEAQRCCICCEDEKDTA-F-ECGHMSCIKCALRM--PQCPFCREEITT  346 (352)
Q Consensus       299 ~~~~~~~~~C~IC~~~~~~~~-~-pCGH~~C~~C~~~~--~~CP~CR~~i~~  346 (352)
                      ...+.+...|+||++...+++ + +|||.||..|+..+  ..||+||.++..
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            345678899999999999976 4 99999999999988  469999999854

>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=98.50  E-value=4.2e-08  Score=96.98  Aligned_cols=46  Identities=41%  Similarity=0.947  Sum_probs=40.3

Q ss_pred             CCcccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCCeeec
Q 018644          305 AQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITTRRRV  350 (352)
Q Consensus       305 ~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~~i~i  350 (352)
                      ..+|+||++...++++ ||||.||..|+..+     ..||+||.++.....+
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            4799999999999987 99999999999854     6799999999886544

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus}

Probab=98.46  E-value=6.9e-08  Score=75.54  Aligned_cols=48  Identities=21%  Similarity=0.209  Sum_probs=41.9

Q ss_pred             cccccCCcccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018644          300 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITTR  347 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~~  347 (352)
                      ..+.+...|+||++..++++. +|||.||+.|+.++    ..||+||+++...
T Consensus         9 ~~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   61 (85)
T 2kr4_A            9 SDAPDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLTES   61 (85)
T ss_dssp             TTCCTTTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             hcCchheECcccCchhcCCeECCCCCEECHHHHHHHHhcCCCCCCCcCCCChH
Confidence            345678999999999999998 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=98.46  E-value=4.4e-08  Score=80.87  Aligned_cols=47  Identities=23%  Similarity=0.588  Sum_probs=41.2

Q ss_pred             cccccCCcccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018644          300 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITT  346 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~  346 (352)
                      ..+.+...|+||++...+++. +|||.||..|+.++     ..||+||.++..
T Consensus        13 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   65 (118)
T 3hct_A           13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE   65 (118)
T ss_dssp             SCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             cCCCCCCCCCcCChhhcCeEECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCH
Confidence            345677899999999999887 99999999999876     389999999876

>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=98.44  E-value=4e-08  Score=80.63  Aligned_cols=47  Identities=32%  Similarity=0.611  Sum_probs=41.1

Q ss_pred             cccccCCcccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018644          300 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITT  346 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~  346 (352)
                      .++.+...|+||++...+++. +|||.||..|+.++     ..||+||.++..
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            455678999999999999887 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=98.44  E-value=1.3e-07  Score=76.12  Aligned_cols=48  Identities=17%  Similarity=0.048  Sum_probs=41.8

Q ss_pred             cccccCCcccCcccCCCCeee-cCC-CCCchhhhhcC----CCCCCCccccCCe
Q 018644          300 AEVAEAQRCCICCEDEKDTAF-ECG-HMSCIKCALRM----PQCPFCREEITTR  347 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~~-pCG-H~~C~~C~~~~----~~CP~CR~~i~~~  347 (352)
                      ..+.+...|+||++..+++|. +|| |.||+.|+.++    ..||+||+++...
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            345678999999999999998 999 99999999876    4699999998753

>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=98.42  E-value=6.7e-08  Score=78.08  Aligned_cols=46  Identities=22%  Similarity=0.231  Sum_probs=41.0

Q ss_pred             ccccCCcccCcccCCCCeee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018644          301 EVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM----PQCPFCREEITT  346 (352)
Q Consensus       301 ~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~  346 (352)
                      .+.+...|+||++..++++. +|||.||+.|+.++    ..||+||+++..
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            45678999999999999998 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=98.42  E-value=2.5e-08  Score=85.36  Aligned_cols=46  Identities=22%  Similarity=0.512  Sum_probs=40.0

Q ss_pred             cccccCCcccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccC
Q 018644          300 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEIT  345 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~  345 (352)
                      ..+.+...|+||++...+++. +|||.||..|+.++     ..||+||.++.
T Consensus        26 ~~l~~~~~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~   77 (141)
T 3knv_A           26 TKLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAACVHEGI   77 (141)
T ss_dssp             GGCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHGGGSCEECHHHHHTTC
T ss_pred             ccCCcCcCCCCCChhhcCcEECCCCCccCHHHHHHHHhcCCCCCCCCCCccc
Confidence            355678999999999999887 99999999999987     37999999763

>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=98.34  E-value=1.9e-07  Score=86.66  Aligned_cols=44  Identities=16%  Similarity=0.024  Sum_probs=38.9

Q ss_pred             ccCCcccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018644          303 AEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITT  346 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~  346 (352)
                      .+...|+||++...++|. +|||.||+.|+.++     ..||+||.++..
T Consensus       206 ~~~~~c~i~~~~~~dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~  255 (281)
T 2c2l_A          206 PDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ  255 (281)
T ss_dssp             CSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CcccCCcCcCCHhcCCeECCCCCEECHHHHHHHHHHCCCCCcCCCCCCch
Confidence            367899999999999998 99999999999865     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=98.31  E-value=1.1e-07  Score=77.45  Aligned_cols=43  Identities=30%  Similarity=0.685  Sum_probs=34.1

Q ss_pred             CCcccCcccCCCCe------------------ee-cCCCCCchhhhhcC---------CCCCCCccccCCe
Q 018644          305 AQRCCICCEDEKDT------------------AF-ECGHMSCIKCALRM---------PQCPFCREEITTR  347 (352)
Q Consensus       305 ~~~C~IC~~~~~~~------------------~~-pCGH~~C~~C~~~~---------~~CP~CR~~i~~~  347 (352)
                      +..|+||++...+.                  .+ +|||.||..|+..+         ..||+||..+...
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            45899999986442                  14 99999999999865         3699999988653

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.26  E-value=1.3e-07  Score=78.15  Aligned_cols=45  Identities=31%  Similarity=0.795  Sum_probs=38.0

Q ss_pred             ccCCcccCcccCCCCe-------ee-cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018644          303 AEAQRCCICCEDEKDT-------AF-ECGHMSCIKCALRM----PQCPFCREEITTR  347 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~-------~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~~  347 (352)
                      .+...|+||++...++       +. +|||.||..|+.++    ..||+||+.+...
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   61 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK   61 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTT
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCccc
Confidence            4678999999987765       55 99999999999876    5799999998753

>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=98.18  E-value=4.5e-07  Score=79.14  Aligned_cols=46  Identities=24%  Similarity=0.598  Sum_probs=41.1

Q ss_pred             ccccCCcccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018644          301 EVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITT  346 (352)
Q Consensus       301 ~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~  346 (352)
                      .+.+...|+||++...+++. +|||.||..|+.++     ..||+||.++..
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            45678899999999999887 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=98.16  E-value=6.3e-07  Score=71.23  Aligned_cols=42  Identities=29%  Similarity=0.513  Sum_probs=36.4

Q ss_pred             cccCCcccCcccCCCCeee-c-CCCCCchhhhhcC----------CCCCC--Cccc
Q 018644          302 VAEAQRCCICCEDEKDTAF-E-CGHMSCIKCALRM----------PQCPF--CREE  343 (352)
Q Consensus       302 ~~~~~~C~IC~~~~~~~~~-p-CGH~~C~~C~~~~----------~~CP~--CR~~  343 (352)
                      ..+...|+||++...++|. + |||.||+.|+.++          ..||+  |+..
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            3577899999999999887 6 9999999999866          27999  9865

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.15  E-value=1.1e-06  Score=67.93  Aligned_cols=43  Identities=28%  Similarity=0.678  Sum_probs=34.1

Q ss_pred             cCCcccCcccCCCC--------------e-ee-cCCCCCchhhhhcC----CCCCCCccccCC
Q 018644          304 EAQRCCICCEDEKD--------------T-AF-ECGHMSCIKCALRM----PQCPFCREEITT  346 (352)
Q Consensus       304 ~~~~C~IC~~~~~~--------------~-~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~  346 (352)
                      +...|+||++...+              + ++ +|||.|+..|+.++    ..||+||+++..
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            45679999987654              3 34 59999999999876    579999998764

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=98.10  E-value=8.3e-07  Score=79.08  Aligned_cols=46  Identities=15%  Similarity=0.034  Sum_probs=39.9

Q ss_pred             cccCCcccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCCe
Q 018644          302 VAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITTR  347 (352)
Q Consensus       302 ~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~~  347 (352)
                      +.+...|+||++...++|. +|||.||+.|+.++     ..||+||.++...
T Consensus       103 ip~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~  154 (179)
T 2f42_A          103 IPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQD  154 (179)
T ss_dssp             CCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             CcHhhcccCccccCCCCeECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChh
Confidence            3568899999999999998 99999999999876     2599999998753

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.08  E-value=5.3e-07  Score=74.46  Aligned_cols=49  Identities=31%  Similarity=0.802  Sum_probs=39.5

Q ss_pred             ccCCcccCcccCCCCe-------ee-cCCCCCchhhhhcC----CCCCCCccccCCe--eecC
Q 018644          303 AEAQRCCICCEDEKDT-------AF-ECGHMSCIKCALRM----PQCPFCREEITTR--RRVY  351 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~-------~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~~--i~if  351 (352)
                      .+...|+||++...+.       +. +|||.||..|+.++    ..||+||.++...  +++|
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            4678899999976653       44 99999999999876    6899999998863  4544

>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=98.04  E-value=3.9e-05  Score=71.55  Aligned_cols=148  Identities=14%  Similarity=0.157  Sum_probs=97.1

Q ss_pred             ceeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchH-HHHHHHHhccccccCC---C-ccceeeecCCCCCCCCcc
Q 018644           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPY-QEVIYITGKELVLFDG---D-CIRCYGFGDDTTRDEGVF  121 (352)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Y-q~ai~~ig~vl~~yd~---d-~ip~~GFGa~~~~~~~~f  121 (352)
                      ..+++++.||-|.|=+                    ...+ +.+...+..++..+..   + .+-++.|+....   ..|
T Consensus        20 ~~~div~vlD~SgSM~--------------------~~~~~~~~k~~~~~~v~~l~~~~~~~rvglv~Fs~~~~---~~~   76 (281)
T 4hqf_A           20 DEVDLYLLMDGSGSIR--------------------RHNWVNHAVPLAMKLIQQLNLNDNAIHLYASVFSNNAR---EII   76 (281)
T ss_dssp             SCEEEEEEEECCCCSS--------------------THHHHHHHHHHHHHHHTTCCCCTTSEEEEEEEEETTEE---EEE
T ss_pred             CceeEEEEEeCCCCcC--------------------HHHHHHHHHHHHHHHHHHhccCCCCcEEEEEEcCCCce---EEE
Confidence            4688999999887732                    0123 4455555555555553   6 999999998642   235


Q ss_pred             cCCCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcC---CceEEEEEEeCCccCCccHHHHHHH---
Q 018644          122 SFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG---GLHHVLVIITSGQVATGSQQEQETI---  195 (352)
Q Consensus       122 ~~~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~---~~Y~VLlIitDG~i~d~~~~~~~~i---  195 (352)
                      +++...  -...+.++++-.+.-......|-|+...-|+.|.+.....+   ..-.++|+||||.-+| .....+++   
T Consensus        77 ~l~~~~--~~~~~~l~~~i~~l~~~~~~~G~T~~~~aL~~a~~~l~~~~~r~~~~~~iillTDG~~~d-~~~~~~~~~~l  153 (281)
T 4hqf_A           77 RLHSDA--SKNKEKALIIIKSLLSTNLPYGKTSLTDALLQVRKHLNDRINRENANQLVVILTDGIPDS-IQDSLKESRKL  153 (281)
T ss_dssp             EECSSC--SSCHHHHHHHHHHHHHTTGGGCSCCHHHHHHHHHHHHHTSCCCTTCEEEEEEEESSCCSC-HHHHHHHHHHH
T ss_pred             EccccC--ccCHHHHHHHHHHHhhccCCCCCccHHHHHHHHHHHHHhccCCCCCCEEEEEEecCCCCC-cHHHHHHHHHH
Confidence            554321  12345555544443223456889999999999977765432   2467889999999987 34555555   


Q ss_pred             hcCCcEEEEEeecCC-CcchhccccC
Q 018644          196 SSYPLSIVLVGVGDG-PWESIQKFHD  220 (352)
Q Consensus       196 S~~PlSIiiVGVG~~-~f~~m~~LD~  220 (352)
                      .+.-+-|+.||||++ +-+.|+.+-+
T Consensus       154 ~~~gv~i~~igiG~~~~~~~L~~iA~  179 (281)
T 4hqf_A          154 SDRGVKIAVFGIGQGINVAFNRFLVG  179 (281)
T ss_dssp             HHTTCEEEEEEESSSCCHHHHHHHTT
T ss_pred             HHCCCEEEEEeCCCccCHHHHHhhhC
Confidence            556799999999985 6666777754

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=97.88  E-value=6e-06  Score=77.47  Aligned_cols=46  Identities=17%  Similarity=0.386  Sum_probs=39.7

Q ss_pred             ccccCCcccCcccCCCCeee--cCCCCCchhhhhcC------CCCCC--CccccCC
Q 018644          301 EVAEAQRCCICCEDEKDTAF--ECGHMSCIKCALRM------PQCPF--CREEITT  346 (352)
Q Consensus       301 ~~~~~~~C~IC~~~~~~~~~--pCGH~~C~~C~~~~------~~CP~--CR~~i~~  346 (352)
                      .......|+||++..+++|.  .|||.||+.|+.++      ..||+  ||+.+..
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            34678999999999999884  99999999999976      25999  9998765

>4hqo_A Sporozoite surface protein 2; malaria, gliding motility, VWA domain, TSR domain, extensibl ribbon, receptor on sporozoite, vaccine target; HET: FUC BGC; 2.19A {Plasmodium vivax} PDB: 4hql_A* 4hqn_A*

Probab=97.86  E-value=4.6e-05  Score=70.76  Aligned_cols=148  Identities=13%  Similarity=0.161  Sum_probs=97.2

Q ss_pred             ceeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchH-HHHHHHHhccccccC---CC-ccceeeecCCCCCCCCcc
Q 018644           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPY-QEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVF  121 (352)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Y-q~ai~~ig~vl~~yd---~d-~ip~~GFGa~~~~~~~~f  121 (352)
                      ..+++++.||-|.|=+                    ...+ +++...+-.++..++   ++ .+-++.|+....   ..|
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            3588999999887732                    1234 355666666667776   55 999999998632   245


Q ss_pred             cCCCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHc---CCceEEEEEEeCCccCCccHHHHHHH---
Q 018644          122 SFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES---GGLHHVLVIITSGQVATGSQQEQETI---  195 (352)
Q Consensus       122 ~~~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~---~~~Y~VLlIitDG~i~d~~~~~~~~i---  195 (352)
                      +|+...  -...+.++++-.+.-......|-|+...-|+.|.+..+..   ...-.++|+||||..+| .....+++   
T Consensus        74 ~l~~~~--~~~~~~~~~~i~~l~~~~~~~G~T~~~~AL~~a~~~l~~~~~r~~~~~~iIllTDG~~~d-~~~~~~~a~~l  150 (266)
T 4hqo_A           74 RLGSGQ--SIDKRQALSKVTELRKTYTPYGTTSMTAALDEVQKHLNDRVNREKAIQLVILMTDGVPNS-KYRALEVANKL  150 (266)
T ss_dssp             CTTSHH--HHCHHHHHHHHHHHHHHCCCCSCCCHHHHHHHHHHHHHTTCSCTTSEEEEEEEECSCCSC-HHHHHHHHHHH
T ss_pred             ecCCCC--ccCHHHHHHHHHHhhhccCCCCCCCHHHHHHHHHHHHhhccccCCCCeEEEEEccCCCCC-chHHHHHHHHH
Confidence            554210  0124455554444322235789999999999997776653   23457889999999988 35555555   


Q ss_pred             hcCCcEEEEEeecCCC-cchhccccC
Q 018644          196 SSYPLSIVLVGVGDGP-WESIQKFHD  220 (352)
Q Consensus       196 S~~PlSIiiVGVG~~~-f~~m~~LD~  220 (352)
                      .+..+.|..||||+.. -+.|+.+-+
T Consensus       151 ~~~gi~i~~iGiG~~~~~~~L~~iA~  176 (266)
T 4hqo_A          151 KQRNVRLAVIGIGQGINHQFNRLIAG  176 (266)
T ss_dssp             HHTTCEEEEEECSSSCCHHHHHHHHT
T ss_pred             HHCCCEEEEEecCcccCHHHHHHhhC
Confidence            5678999999999854 344466654

>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=97.84  E-value=5.8e-06  Score=67.43  Aligned_cols=42  Identities=29%  Similarity=0.596  Sum_probs=33.7

Q ss_pred             cCCcccCcccCCCCe------------------ee-cCCCCCchhhhhcC----CCCCCCccccC
Q 018644          304 EAQRCCICCEDEKDT------------------AF-ECGHMSCIKCALRM----PQCPFCREEIT  345 (352)
Q Consensus       304 ~~~~C~IC~~~~~~~------------------~~-pCGH~~C~~C~~~~----~~CP~CR~~i~  345 (352)
                      +...|.||++...+.                  ++ +|||.|+..|+.++    ..||+||+.+.
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            456899999875532                  33 99999999999975    57999999854

>3ibs_A Conserved hypothetical protein BATB; structural genomics, protein structure, midwest center for S genomics, MCSG, PSI-2; HET: MSE; 2.10A {Bacteroides thetaiotaomicron}

Probab=97.74  E-value=8.4e-05  Score=65.77  Aligned_cols=140  Identities=14%  Similarity=0.188  Sum_probs=93.7

Q ss_pred             ceeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCCccceeeecCCCCCCCCcccCCCC
Q 018644           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQEN  126 (352)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d~ip~~GFGa~~~~~~~~f~~~~~  126 (352)
                      ..+++++.||-|.|=..             .  ...++..+.|-..+..++..+..+.+-++.|+....   .+++++. 
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            45788999999877431             1  122577888888888888888745999999987632   2344432 


Q ss_pred             CCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcCCceEEEEEEeCCccCCc-cHHHHHHHhcCCcEEEEE
Q 018644          127 DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATG-SQQEQETISSYPLSIVLV  205 (352)
Q Consensus       127 ~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~~~Y~VLlIitDG~i~d~-~~~~~~~iS~~PlSIiiV  205 (352)
                           ..+.+.+.-...-+.....|.|++..-|+.|.+..+.....-.++++||||..++- ..+..+.+.+..+.|..|
T Consensus        71 -----~~~~~~~~l~~l~~~~~~~g~T~l~~al~~a~~~l~~~~~~~~~ivllTDG~~~~~~~~~~~~~~~~~~i~v~~i  145 (218)
T 3ibs_A           71 -----DYISAKMFLESISPSLISKQGTAIGEAINLATRSFTPQEGVGRAIIVITDGENHEGGAVEAAKAAAEKGIQVSVL  145 (218)
T ss_dssp             -----CHHHHHHHHHTCCGGGCCSCSCCHHHHHHHHHTTSCSCSSCCEEEEEEECCTTCCSCHHHHHHHHHTTTEEEEEE
T ss_pred             -----CHHHHHHHHHhcCcccCCCCCCcHHHHHHHHHHHHhhCCCCCcEEEEEcCCCCCCCcHHHHHHHHHhcCCEEEEE
Confidence                 34444443333333445578999999999888776544334568899999988762 122223336778999999


Q ss_pred             eecCC
Q 018644          206 GVGDG  210 (352)
Q Consensus       206 GVG~~  210 (352)
                      |||+.
T Consensus       146 gig~~  150 (218)
T 3ibs_A          146 GVGMP  150 (218)
T ss_dssp             EESCT
T ss_pred             EecCC
Confidence            99974

>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=97.70  E-value=5.7e-06  Score=65.29  Aligned_cols=40  Identities=20%  Similarity=0.600  Sum_probs=32.2

Q ss_pred             cCCcccCcccCCCCee---e-cCCCCCchhhhhcC------------CCCCC--Cccc
Q 018644          304 EAQRCCICCEDEKDTA---F-ECGHMSCIKCALRM------------PQCPF--CREE  343 (352)
Q Consensus       304 ~~~~C~IC~~~~~~~~---~-pCGH~~C~~C~~~~------------~~CP~--CR~~  343 (352)
                      +..+|+||++......   + +|||.||..|....            ..||.  ||..
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            5678999999876632   3 79999999998743            26999  9998

>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=97.64  E-value=0.0006  Score=59.23  Aligned_cols=143  Identities=14%  Similarity=0.155  Sum_probs=93.8

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccC---CC-ccceeeecCCCCCCCCcccC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSF  123 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd---~d-~ip~~GFGa~~~~~~~~f~~  123 (352)
                      .+++++.||-|.|=+                    .+.++.+...+..++..++   .+ .+-++.|+....   ..|++
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            478889999887732                    1446666666666666664   34 899999987532   23555


Q ss_pred             CCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHc-----CCceEEEEEEeCCccCCccHHHHHHHhcC
Q 018644          124 QENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES-----GGLHHVLVIITSGQVATGSQQEQETISSY  198 (352)
Q Consensus       124 ~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~-----~~~Y~VLlIitDG~i~d~~~~~~~~iS~~  198 (352)
                      +.    ....+.+.++-.+ ++.  ..|-|+...-|+.|.+.....     ...-.+++|||||..+|-..+..+.+.+.
T Consensus        62 ~~----~~~~~~~~~~i~~-l~~--~~g~T~~~~aL~~a~~~l~~~~~g~r~~~~~~vivltdg~~~~~~~~~~~~~~~~  134 (189)
T 1atz_A           62 NV----VPEKAHLLSLVDV-MQR--EGGPSQIGDALGFAVRYLTSEMHGARPGASKAVVILVTDVSVDSVDAAADAARSN  134 (189)
T ss_dssp             TC----CCCHHHHHHHHHT-CCC--CCCCCCHHHHHHHHHHHHHSCCTTCCTTSEEEEEEEECSCCSSCCHHHHHHHHHT
T ss_pred             CC----CCCHHHHHHHHHh-CcC--CCCcchHHHHHHHHHHHHhccccCCCCCCCcEEEEEeCCCCCchHHHHHHHHHHC
Confidence            32    1345666555443 222  368899999999999876542     12356778888887665344444444667


Q ss_pred             CcEEEEEeecC-CCcchhccccC
Q 018644          199 PLSIVLVGVGD-GPWESIQKFHD  220 (352)
Q Consensus       199 PlSIiiVGVG~-~~f~~m~~LD~  220 (352)
                      .+.|..||||+ .+-..|+.+-+
T Consensus       135 gi~v~~igvG~~~~~~~L~~iA~  157 (189)
T 1atz_A          135 RVTVFPIGIGDRYDAAQLRILAG  157 (189)
T ss_dssp             TEEEEEEEESSSSCHHHHHHHTG
T ss_pred             CCEEEEEEcCCcCCHHHHHHHHC
Confidence            89999999997 46666666643

>3n2n_F Anthrax toxin receptor 1; rossmann fold; 1.80A {Homo sapiens} SCOP: c.62.1.1

Probab=97.63  E-value=0.00027  Score=60.71  Aligned_cols=142  Identities=17%  Similarity=0.148  Sum_probs=87.8

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC-ccceeeecCCCCCCCCcccCCCC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQEN  126 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~~  126 (352)
                      .+++++.||-|.|=+.           .+       ....++++.+..-+  ..++ .+-++.|+....   ..++++. 
T Consensus         7 ~~div~vlD~SgSM~~-----------~~-------~~~~~~~~~~~~~~--~~~~~~v~lv~f~~~~~---~~~~l~~-   62 (185)
T 3n2n_F            7 GFDLYFILDKSGSVLH-----------HW-------NEIYYFVEQLAHKF--ISPQLRMSFIVFSTRGT---TLMKLTE-   62 (185)
T ss_dssp             EEEEEEEEECSGGGGG-----------GH-------HHHHHHHHHHHHHC--CCTTEEEEEEEESSSEE---EEEEEEC-
T ss_pred             CeeEEEEEeCCCChhh-----------hH-------HHHHHHHHHHHHHh--CCCCcEEEEEEEecCce---EEeccCC-
Confidence            5788899998766320           01       12223333333322  2346 999999987532   2355542 


Q ss_pred             CCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHH--c--CCceEEEEEEeCCccCCccH--HHHHHH---hc
Q 018644          127 DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEE--S--GGLHHVLVIITSGQVATGSQ--QEQETI---SS  197 (352)
Q Consensus       127 ~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~--~--~~~Y~VLlIitDG~i~d~~~--~~~~~i---S~  197 (352)
                           ..+.+.++-.+. +.+...|-|+...-|+.+.+....  .  ...-.++++||||..++ ..  ...+..   .+
T Consensus        63 -----~~~~~~~~i~~l-~~~~~~g~T~~~~al~~a~~~l~~~~~~~~~~~~~iillTDG~~~~-~~~~~~~~~~~~~~~  135 (185)
T 3n2n_F           63 -----DREQIRQGLEEL-QKVLPGGDTYMHEGFERASEQIYYENRQGYRTASVIIALTDGELHE-DLFFYSEREANRSRD  135 (185)
T ss_dssp             -----CHHHHHHHHHHH-HTCCCCSCCCHHHHHHHHHHHHHHHHTTCBCEEEEEEEEECCCCCH-HHHHHHHHHHHHHHH
T ss_pred             -----CHHHHHHHHHHH-hhhcCCCCccHHHHHHHHHHHHhhccccCCCCCcEEEEEcCCCCCC-CcccchHHHHHHHHH
Confidence                 344444433332 223457999999999999886521  1  12457889999999877 22  112333   66


Q ss_pred             CCcEEEEEeecCCCcchhccccC
Q 018644          198 YPLSIVLVGVGDGPWESIQKFHD  220 (352)
Q Consensus       198 ~PlSIiiVGVG~~~f~~m~~LD~  220 (352)
                      ..+.|..||||+.+...|+++-+
T Consensus       136 ~gi~i~~igvg~~~~~~L~~iA~  158 (185)
T 3n2n_F          136 LGAIVYAVGVKDFNETQLARIAD  158 (185)
T ss_dssp             TTEEEEEEECSSCCHHHHTTTSS
T ss_pred             CCCEEEEEEeccCCHHHHHHHhC
Confidence            78999999999888877777764

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.63  E-value=4.8e-05  Score=58.84  Aligned_cols=48  Identities=19%  Similarity=0.490  Sum_probs=37.1

Q ss_pred             cccCCcccCcccCCC--Ceee-cCC-----CCCchhhhhcC------CCCCCCccccCCeee
Q 018644          302 VAEAQRCCICCEDEK--DTAF-ECG-----HMSCIKCALRM------PQCPFCREEITTRRR  349 (352)
Q Consensus       302 ~~~~~~C~IC~~~~~--~~~~-pCG-----H~~C~~C~~~~------~~CP~CR~~i~~~i~  349 (352)
                      ..+...|.||++...  +.++ ||.     |.|...|+.++      ..||+||..+....+
T Consensus        12 ~~~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~~   73 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMETK   73 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCCC
T ss_pred             CCCCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCcc
Confidence            345679999997543  3445 996     99999999987      379999999876543

>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=97.62  E-value=8.4e-06  Score=67.75  Aligned_cols=42  Identities=29%  Similarity=0.606  Sum_probs=0.8

Q ss_pred             cCCcccCcccCCCC------------------eee-cCCCCCchhhhhcC----CCCCCCccccC
Q 018644          304 EAQRCCICCEDEKD------------------TAF-ECGHMSCIKCALRM----PQCPFCREEIT  345 (352)
Q Consensus       304 ~~~~C~IC~~~~~~------------------~~~-pCGH~~C~~C~~~~----~~CP~CR~~i~  345 (352)
                      +...|.||++...+                  +++ +|||.|+..|+.++    ..||+||+++.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             CC---------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            34689999987654                  223 99999999999986    57999999853

>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=97.60  E-value=0.00013  Score=62.51  Aligned_cols=143  Identities=15%  Similarity=0.173  Sum_probs=90.0

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC-ccceeeecCCCCCCCCcccCCCC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQEN  126 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~~  126 (352)
                      .+++++.||-|.|=+.           ..      ....+.+...+..++.   .+ .+-++.|+....   ..++++  
T Consensus         6 ~~dvv~vlD~SgSM~~-----------~~------~~~~~~~~~~~~~~~~---~~~~v~lv~f~~~~~---~~~~~~--   60 (182)
T 1shu_X            6 AFDLYFVLDKSGSVAN-----------NW------IEIYNFVQQLAERFVS---PEMRLSFIVFSSQAT---IILPLT--   60 (182)
T ss_dssp             CEEEEEEEECSGGGGG-----------GH------HHHHHHHHHHHHHCCC---TTEEEEEEEESSSEE---EEEEEE--
T ss_pred             ceeEEEEEECCCCccc-----------CH------HHHHHHHHHHHHHhcC---CCceEEEEEeCCCce---EEECCC--
Confidence            4788999999877320           01      1222333333344443   45 999999987532   134443  


Q ss_pred             CCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHc--CCceEEEEEEeCCccCCccHH-HHHHH---hcCCc
Q 018644          127 DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES--GGLHHVLVIITSGQVATGSQQ-EQETI---SSYPL  200 (352)
Q Consensus       127 ~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~--~~~Y~VLlIitDG~i~d~~~~-~~~~i---S~~Pl  200 (352)
                          .+.+.+.++-. .+..+...|.|+...-|+.+.+..+..  ...-.++++||||.-++.... ..+..   .+..+
T Consensus        61 ----~~~~~~~~~l~-~l~~~~~~g~T~~~~al~~a~~~l~~~~~~~~~~~iiliTDG~~~~~~~~~~~~~~~~~~~~~i  135 (182)
T 1shu_X           61 ----GDRGKISKGLE-DLKRVSPVGETYIHEGLKLANEQIQKAGGLKTSSIIIALTDGKLDGLVPSYAEKEAKISRSLGA  135 (182)
T ss_dssp             ----CCHHHHHHHHH-HHHTCCCCSCCCHHHHHHHHHHHHHHHTGGGSCEEEEEEECCCCCTTHHHHHHHHHHHHHHTTC
T ss_pred             ----CCHHHHHHHHH-hcccCCCCCCchHHHHHHHHHHHHHhccCCCCCeEEEEECCCCcCCCCchhHHHHHHHHHhCCC
Confidence                23333332222 222345779999999999999887654  234578899999998773111 12232   66789


Q ss_pred             EEEEEeecCCCcchhccccC
Q 018644          201 SIVLVGVGDGPWESIQKFHD  220 (352)
Q Consensus       201 SIiiVGVG~~~f~~m~~LD~  220 (352)
                      .|..||||+.+...|+++-+
T Consensus       136 ~i~~igvg~~~~~~L~~ia~  155 (182)
T 1shu_X          136 SVYCVGVLDFEQAQLERIAD  155 (182)
T ss_dssp             EEEEEECSSCCHHHHHHHSS
T ss_pred             EEEEEeCCcCCHHHHHHHhC
Confidence            99999999888888888765

>2xgg_A Microneme protein 2; A/I domain, cell adhesion, hydrolase; 2.05A {Toxoplasma gondii}

Probab=97.59  E-value=0.00043  Score=59.81  Aligned_cols=133  Identities=12%  Similarity=0.121  Sum_probs=86.5

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccC---CC-ccceeeecCCCCCCCCcccC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSF  123 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd---~d-~ip~~GFGa~~~~~~~~f~~  123 (352)
                      .+++++.||-|.|=+                    ...++.+...+..++..++   .. .+-++.|+....   ..|+|
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            488899999887742                    1345666666666777765   34 999999998642   23555


Q ss_pred             CCCCCCCCCHHHHHHHHHhhCCcee-eecCCCcHHHHHHHHHHHHHc-----CCceEEEEEEeCCccCCccHHHHHHH--
Q 018644          124 QENDSPCQGFEHVLECYRKNVPNVQ-YFGPTSYAPMVEAAVDIVEES-----GGLHHVLVIITSGQVATGSQQEQETI--  195 (352)
Q Consensus       124 ~~~~p~~~G~~gvl~~Y~~~l~~v~-l~gPt~fapiI~~a~~~a~~~-----~~~Y~VLlIitDG~i~d~~~~~~~~i--  195 (352)
                      +...  ....+.+.++-.+    +. ..|.|+...-|+.|.+.....     ...-.++++||||.-+| .....+++  
T Consensus        74 ~~~~--~~~~~~~~~~i~~----l~~~~g~T~~~~aL~~a~~~l~~~~~g~r~~~~~~iillTDG~~~~-~~~~~~~~~~  146 (178)
T 2xgg_A           74 QSPN--AVDKQLAAHAVLD----MPYKKGSTNTSDGLKACKQILFTGSRPGREHVPKLVIGMTDGESDS-DFRTVRAAKE  146 (178)
T ss_dssp             TSGG--GSCHHHHHHHHHH----CCCCCCCCCHHHHHHHHHHHHHHCCCTTCTTSCEEEEEEESSCCCH-HHHHSHHHHH
T ss_pred             CCCC--ccCHHHHHHHHHh----CCCCCCCccHHHHHHHHHHHhcCcccCCCCCCCEEEEEEcCCCCCC-CccHHHHHHH
Confidence            4211  1144555544433    33 568999999999998864321     12347889999999887 33344444  


Q ss_pred             -hcCCcEEEEEeecCC
Q 018644          196 -SSYPLSIVLVGVGDG  210 (352)
Q Consensus       196 -S~~PlSIiiVGVG~~  210 (352)
                       .+..+-|..||||+.
T Consensus       147 l~~~gi~v~~igvG~~  162 (178)
T 2xgg_A          147 IRELGGIVTVLAVGHY  162 (178)
T ss_dssp             HHHTTCEEEEEECC--
T ss_pred             HHHCCCEEEEEEcCCc
Confidence             556889999999964

>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=97.40  E-value=0.00064  Score=68.52  Aligned_cols=151  Identities=12%  Similarity=0.065  Sum_probs=98.5

Q ss_pred             ceeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC-ccceeeecCCCCCCCCcccCCC
Q 018644           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQE  125 (352)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~  125 (352)
                      ..+++++.||-|.|=.+                  ..+..+.+..++..++..+.++ .+-++.|+....   .+++++.
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            34667777777655210                  1356778888888888888777 999999987632   1334321


Q ss_pred             CCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcCCceEEEEEEeCCccCCccH-HHHHHH--hcCCcEE
Q 018644          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQ-QEQETI--SSYPLSI  202 (352)
Q Consensus       126 ~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~~~Y~VLlIitDG~i~d~~~-~~~~~i--S~~PlSI  202 (352)
                      .  ....-..-.+.-.+.+..+...|-|++..-|+.+.+..++....-.++++||||..++... ...+++  ....+.|
T Consensus       135 ~--l~~~~~~~~~~l~~~I~~L~~~GgT~l~~aL~~A~~~l~~~~~~~~~IILLTDG~~~~~~~~~l~~~~~a~~~~i~i  212 (464)
T 4fx5_A          135 Q--LLRADYQSRAAAKEAVGRLHANGGTAMGRWLAQAGRIFDTAPSAIKHAILLTDGKDESETPADLARAIQSSIGNFTA  212 (464)
T ss_dssp             S--CEECSHHHHHHHHHHHHTCCCCSCCCHHHHHHHHHHHHTTCTTSEEEEEEEESSCCTTSCHHHHHHHHHHHTTTCEE
T ss_pred             c--cccCCHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHhcCCCCCCEEEEEcCCCCCCCChHHHHHHHHHhcCCCeE
Confidence            0  0000011223334455667788999999999999998776544557889999999875222 334444  4568899


Q ss_pred             EEEeecC-CCcchhccccC
Q 018644          203 VLVGVGD-GPWESIQKFHD  220 (352)
Q Consensus       203 iiVGVG~-~~f~~m~~LD~  220 (352)
                      ..||+|+ .+...|++|-.
T Consensus       213 ~tiGiG~~~d~~~L~~IA~  231 (464)
T 4fx5_A          213 DCRGIGEDWEPKELRKIAD  231 (464)
T ss_dssp             EEEEESSSSCHHHHHHHHH
T ss_pred             EEEEeCCccCHHHHHHHHH
Confidence            9999994 46777777753

>1n3y_A Integrin alpha-X; alpha/beta rossmann fold, cell adhesion; 1.65A {Homo sapiens} SCOP: c.62.1.1

Probab=97.40  E-value=0.00014  Score=63.43  Aligned_cols=142  Identities=16%  Similarity=0.211  Sum_probs=88.5

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhcccccc-CCC-ccceeeecCCCCCCCCcccCCC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF-DGD-CIRCYGFGDDTTRDEGVFSFQE  125 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~y-d~d-~ip~~GFGa~~~~~~~~f~~~~  125 (352)
                      .+++++.||-|.|=+                    ...++.+...+-.++..+ ..+ .+-++.|+....   ..++++.
T Consensus         9 ~~div~vlD~SgSM~--------------------~~~~~~~~~~~~~~~~~l~~~~~~v~lv~f~~~~~---~~~~~~~   65 (198)
T 1n3y_A            9 EQDIVFLIDGSGSIS--------------------SRNFATMMNFVRAVISQFQRPSTQFSLMQFSNKFQ---THFTFEE   65 (198)
T ss_dssp             CEEEEEEEECCTTSC--------------------HHHHHHHHHHHHHHHTTSCTTTEEEEEEEESSSEE---EEECHHH
T ss_pred             CeeEEEEEECCCCCC--------------------HHHHHHHHHHHHHHHHhcCCCCcEEEEEEeCCCcc---EEEecCc
Confidence            478899999987742                    123456666666666676 466 999999998632   1233321


Q ss_pred             CCCCCCCHHHHHHHHHhhCCcee-eecCCCcHHHHHHHHHH-HHHc----CCceEEEEEEeCCccC-Ccc--HHHHHHHh
Q 018644          126 NDSPCQGFEHVLECYRKNVPNVQ-YFGPTSYAPMVEAAVDI-VEES----GGLHHVLVIITSGQVA-TGS--QQEQETIS  196 (352)
Q Consensus       126 ~~p~~~G~~gvl~~Y~~~l~~v~-l~gPt~fapiI~~a~~~-a~~~----~~~Y~VLlIitDG~i~-d~~--~~~~~~iS  196 (352)
                      .       .. .+...+.+..+. ..|.|+...-|+.+.+. ....    ...-.++++||||.-+ |..  .+..+.+.
T Consensus        66 ~-------~~-~~~~~~~i~~l~~~~g~T~~~~al~~a~~~l~~~~~~~r~~~~~~iillTDG~~~~~~~~~~~~~~~~~  137 (198)
T 1n3y_A           66 F-------RR-SSNPLSLLASVHQLQGFTYTATAIQNVVHRLFHASYGARRDAAKILIVITDGKKEGDSLDYKDVIPMAD  137 (198)
T ss_dssp             H-------HH-CSSGGGGGTTCCCCCSCBCHHHHHHHHHTTTTSGGGTCCTTSEEEEEEEESSCCBSCSSCHHHHHHHHH
T ss_pred             c-------CC-HHHHHHHHhcCcCCCCCchHHHHHHHHHHHHhCcccCCCCCCceEEEEECCCCCCCCcccHHHHHHHHH
Confidence            0       00 011233344443 57899999999999843 2321    2345788999999887 521  22223336


Q ss_pred             cCCcEEEEEeecCCC-----cchhccccC
Q 018644          197 SYPLSIVLVGVGDGP-----WESIQKFHD  220 (352)
Q Consensus       197 ~~PlSIiiVGVG~~~-----f~~m~~LD~  220 (352)
                      +..+.|..||||+..     ...|+.+-.
T Consensus       138 ~~gi~i~~igvG~~~~~~~~~~~L~~iA~  166 (198)
T 1n3y_A          138 AAGIIRYAIGVGLAFQNRNSWKELNDIAS  166 (198)
T ss_dssp             HTTCEEEEEEESGGGGSSTTHHHHHHHSC
T ss_pred             HCCCEEEEEEccccccccccHHHHHHHHc
Confidence            778899999999864     556665544

>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=97.36  E-value=0.00045  Score=61.00  Aligned_cols=151  Identities=10%  Similarity=0.046  Sum_probs=93.7

Q ss_pred             ceeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC-ccceeeecCCCCCCCCcccCCC
Q 018644           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQE  125 (352)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~  125 (352)
                      ..+++++.||-|.|=+.             .    ......+++..+..-+..++.+ .+-++.|+....   ..++++ 
T Consensus        14 ~~~div~vlD~SgSM~~-------------~----~~~~~k~~~~~~i~~l~~~~~~~~v~lv~f~~~~~---~~~~~~-   72 (223)
T 1q0p_A           14 GSMNIYLVLDGSDSIGA-------------S----NFTGAKKSLVNLIEKVASYGVKPRYGLVTYATYPK---IWVKVS-   72 (223)
T ss_dssp             -CEEEEEEEECSTTTCH-------------H----HHHHHHHHHHHHHHHHHTTTCCCEEEEEEESSSEE---EEECTT-
T ss_pred             CceeEEEEEeCCCCCch-------------H----HHHHHHHHHHHHHHHHhcCCCCceEEEEEecCccc---eeeccc-
Confidence            45889999999877421             0    0133344555555445666667 999999988642   224442 


Q ss_pred             CCCCCCCHHHHHHHHHhhCCce-eeecCCCcHHHHHHHHHHHHHcC--------CceEEEEEEeCCccC---CccHHHHH
Q 018644          126 NDSPCQGFEHVLECYRKNVPNV-QYFGPTSYAPMVEAAVDIVEESG--------GLHHVLVIITSGQVA---TGSQQEQE  193 (352)
Q Consensus       126 ~~p~~~G~~gvl~~Y~~~l~~v-~l~gPt~fapiI~~a~~~a~~~~--------~~Y~VLlIitDG~i~---d~~~~~~~  193 (352)
                       .+.-...+.+.++-...-+.. ...|-|+...-|+.|.+......        ..-.++++||||.-+   | .....+
T Consensus        73 -~~~~~~~~~~~~~i~~l~~~~~~~~g~T~~~~aL~~a~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~~-~~~~~~  150 (223)
T 1q0p_A           73 -EADSSNADWVTKQLNEINYEDHKLKSGTNTKKALQAVYSMMSWPDDVPPEGWNRTRHVIILMTDGLHNMGGD-PITVID  150 (223)
T ss_dssp             -SGGGGCHHHHHHHHHTCCTTSCSCTTCCCHHHHHHHHHHHHCCTTSSCCTTGGGCEEEEEEEECSCCCSSSC-THHHHH
T ss_pred             -cCCCCCHHHHHHHHHhcccccccCCCCccHHHHHHHHHHHhhccccccccccccCCeEEEEECCCCCCCCCC-hHHHHH
Confidence             222234455555444322211 24689999999999988865321        245788999999887   5 233344


Q ss_pred             HH-h------------cCCcEEEEEeecC-CCcchhccccC
Q 018644          194 TI-S------------SYPLSIVLVGVGD-GPWESIQKFHD  220 (352)
Q Consensus       194 ~i-S------------~~PlSIiiVGVG~-~~f~~m~~LD~  220 (352)
                      .+ .            +..+-|..||||+ .+...|+.+=.
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            44 2            2368899999996 46677777754

>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=97.35  E-value=0.0011  Score=58.41  Aligned_cols=141  Identities=9%  Similarity=0.117  Sum_probs=91.4

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccC---CC-ccceeeecCCCCCCCCcccC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSF  123 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd---~d-~ip~~GFGa~~~~~~~~f~~  123 (352)
                      .+++.+.||-|.|=+                    .+.++++...+..++..++   .+ .+-+..|+....   ..|+|
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            478899999887732                    1346677777777777776   45 999999987632   23555


Q ss_pred             CCCCCCCCCHHHHHHHHHhhCCceee-ec-CCCcHHHHHHHHHHH-HHc--CCceEEEEEEeCCccCCc-cHHHHHHH--
Q 018644          124 QENDSPCQGFEHVLECYRKNVPNVQY-FG-PTSYAPMVEAAVDIV-EES--GGLHHVLVIITSGQVATG-SQQEQETI--  195 (352)
Q Consensus       124 ~~~~p~~~G~~gvl~~Y~~~l~~v~l-~g-Pt~fapiI~~a~~~a-~~~--~~~Y~VLlIitDG~i~d~-~~~~~~~i--  195 (352)
                      +..    ...+.+.++-.    +++. .| -|+...-|++|.+.. .+.  ...-.++++||||.-++- .+...+..  
T Consensus        70 ~~~----~~~~~~~~~i~----~l~~~gg~~T~~~~aL~~a~~~~~~~~~r~~~~~~iillTDG~~~~~~~~~~~~~a~~  141 (202)
T 1ijb_A           70 KDR----KRPSELRRIAS----QVKYAGSQVASTSEVLKYTLFQIFSKIDRPEASRIALLLMASQEPQRMSRNFVRYVQG  141 (202)
T ss_dssp             TCC----CCHHHHHHHHH----TCCCCCBSCCCHHHHHHHHHHHTSSSCSCTTSEEEEEEEECCCCCGGGCTTHHHHHHH
T ss_pred             CCC----CCHHHHHHHHH----hCcCCCCCcCcHHHHHHHHHHHHhccCCCCCCCeEEEEEccCCCCccchHHHHHHHHH
Confidence            421    23455544433    3333 45 499999999887542 211  124578899999987641 11233333  


Q ss_pred             -hcCCcEEEEEeecC-CCcchhcccc
Q 018644          196 -SSYPLSIVLVGVGD-GPWESIQKFH  219 (352)
Q Consensus       196 -S~~PlSIiiVGVG~-~~f~~m~~LD  219 (352)
                       -+..+.|..||||+ .+.+.|+.+-
T Consensus       142 l~~~gi~i~~igvG~~~~~~~L~~iA  167 (202)
T 1ijb_A          142 LKKKKVIVIPVGIGPHANLKQIRLIE  167 (202)
T ss_dssp             HHHTTEEEEEEEESTTSCHHHHHHHH
T ss_pred             HHHCCCEEEEEecCCcCCHHHHHHHh
Confidence             55789999999996 5777777774

>2b2x_A Integrin alpha-1; computational design, antibody-antigen complex, immune syste; 2.20A {Rattus norvegicus} SCOP: c.62.1.1

Probab=97.32  E-value=0.0014  Score=58.54  Aligned_cols=129  Identities=19%  Similarity=0.266  Sum_probs=85.1

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccC---CC-ccceeeecCCCCCCCCcccC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSF  123 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd---~d-~ip~~GFGa~~~~~~~~f~~  123 (352)
                      .+++++.||-|.|=+                      .++++...+..++..++   .+ .+-++.|+....   ..|++
T Consensus        22 ~~div~vlD~SgSM~----------------------~~~~~k~~~~~~~~~l~~~~~~~rv~lv~F~~~~~---~~~~l   76 (223)
T 2b2x_A           22 QLDIVIVLDGSNSIY----------------------PWESVIAFLNDLLKRMDIGPKQTQVGIVQYGENVT---HEFNL   76 (223)
T ss_dssp             CEEEEEEEECSTTCC----------------------CHHHHHHHHHHHHTTSCCSTTSCCEEEEEESSSEE---EEECT
T ss_pred             cceEEEEEECCCChh----------------------hHHHHHHHHHHHHHhcccCCCCeEEEEEEeCCCcc---EEEec
Confidence            478899999887621                      15666666667777765   45 999999987532   23555


Q ss_pred             CCCCCCCCCHHHHHHHHHhhCCceee-ec-CCCcHHHHHHHHHH-HHH----cCCceEEEEEEeCCccCCccHHHHHHH-
Q 018644          124 QENDSPCQGFEHVLECYRKNVPNVQY-FG-PTSYAPMVEAAVDI-VEE----SGGLHHVLVIITSGQVATGSQQEQETI-  195 (352)
Q Consensus       124 ~~~~p~~~G~~gvl~~Y~~~l~~v~l-~g-Pt~fapiI~~a~~~-a~~----~~~~Y~VLlIitDG~i~d~~~~~~~~i-  195 (352)
                      +.    ....+.++++-    ..+.. .| -|+...-|++|.+. ...    ....-.++++||||.-++ .....+++ 
T Consensus        77 ~~----~~~~~~~~~~i----~~l~~~gG~~T~~~~aL~~a~~~l~~~~~~~~~~~~~~iillTDG~~~~-~~~~~~~~~  147 (223)
T 2b2x_A           77 NK----YSSTEEVLVAA----NKIVQRGGRQTMTALGIDTARKEAFTEARGARRGVKKVMVIVTDGESHD-NYRLKQVIQ  147 (223)
T ss_dssp             TT----CCSHHHHHHHH----TTCCCCCCSSCCHHHHHHHHHHTTSSGGGTCCTTSEEEEEEEESSCCTT-GGGHHHHHH
T ss_pred             CC----CCCHHHHHHHH----HhhhccCCCCccHHHHHHHHHHHhcCcccCCCCCCCeEEEEEcCCCCCC-CccHHHHHH
Confidence            31    13455555443    34443 46 49999999999875 221    122457889999999888 33344444 


Q ss_pred             --hcCCcEEEEEeecCC
Q 018644          196 --SSYPLSIVLVGVGDG  210 (352)
Q Consensus       196 --S~~PlSIiiVGVG~~  210 (352)
                        .+..+-|..||||+.
T Consensus       148 ~~~~~gi~v~~igvG~~  164 (223)
T 2b2x_A          148 DCEDENIQRFSIAILGH  164 (223)
T ss_dssp             HHHTTTEEEEEEEECGG
T ss_pred             HHHHCCCEEEEEEecCc
Confidence              667889999999964

>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=97.22  E-value=0.0026  Score=56.23  Aligned_cols=129  Identities=19%  Similarity=0.271  Sum_probs=84.0

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccC---CC-ccceeeecCCCCCCCCcccC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSF  123 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd---~d-~ip~~GFGa~~~~~~~~f~~  123 (352)
                      .+.+++.||-|.|=+                      .++.+...+..++..++   .+ .+-++.|+....   ..|++
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            477888899887621                      14555556666666664   55 999999997532   23555


Q ss_pred             CCCCCCCCCHHHHHHHHHhhCCcee-eec-CCCcHHHHHHHHHHH-HH----cCCceEEEEEEeCCccCCccHHHHHHH-
Q 018644          124 QENDSPCQGFEHVLECYRKNVPNVQ-YFG-PTSYAPMVEAAVDIV-EE----SGGLHHVLVIITSGQVATGSQQEQETI-  195 (352)
Q Consensus       124 ~~~~p~~~G~~gvl~~Y~~~l~~v~-l~g-Pt~fapiI~~a~~~a-~~----~~~~Y~VLlIitDG~i~d~~~~~~~~i-  195 (352)
                      +.    ....+.++++-..    +. ..| -|+...-|++|.+.. ..    ....-.++++||||.-++ .....+++ 
T Consensus        62 ~~----~~~~~~~~~~i~~----l~~~~G~~T~~~~aL~~a~~~l~~~~~~~r~~~~~~iillTDG~~~~-~~~~~~~~~  132 (213)
T 1pt6_A           62 NK----YSSTEEVLVAAKK----IVQRGGRQTMTALGTDTARKEAFTEARGARRGVKKVMVIVTDGESHD-NHRLKKVIQ  132 (213)
T ss_dssp             TT----CSSHHHHHHHHHT----CCCCCCSSCCHHHHHHHHHHTTTSGGGTCCTTCEEEEEEEESSCCSC-SHHHHHHHH
T ss_pred             cc----cCCHHHHHHHHHh----ccCCCCCcccHHHHHHHHHHHhcCcccCCCCCCCeEEEEEcCCCCCC-CccHHHHHH
Confidence            21    1345566554443    33 356 499999999988752 21    123467889999999888 34344444 


Q ss_pred             --hcCCcEEEEEeecCC
Q 018644          196 --SSYPLSIVLVGVGDG  210 (352)
Q Consensus       196 --S~~PlSIiiVGVG~~  210 (352)
                        .+..+-|..||||+.
T Consensus       133 ~~~~~gi~i~~igig~~  149 (213)
T 1pt6_A          133 DCEDENIQRFSIAILGS  149 (213)
T ss_dssp             HHHHTTEEEEEEEECHH
T ss_pred             HHHHCCCEEEEEEeccc
Confidence              567889999999963

>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=97.14  E-value=0.00077  Score=67.56  Aligned_cols=146  Identities=14%  Similarity=0.237  Sum_probs=94.7

Q ss_pred             CceeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhcccccc---CCC-ccceeeecCCCCCCCCcc
Q 018644           46 KVRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF---DGD-CIRCYGFGDDTTRDEGVF  121 (352)
Q Consensus        46 l~~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~y---d~d-~ip~~GFGa~~~~~~~~f  121 (352)
                      .+.+++++.||-|.|=+                    ...+++|...+..+++.+   ..+ .+-+..|+....   .+|
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                    123566666666666555   667 999999987532   234


Q ss_pred             cCCCCCCCCCCHHHHHHHHHhhCCceeee-----cCCCcHHHHHHHHHHHHHcC-----------CceEEEEEEeCCccC
Q 018644          122 SFQENDSPCQGFEHVLECYRKNVPNVQYF-----GPTSYAPMVEAAVDIVEESG-----------GLHHVLVIITSGQVA  185 (352)
Q Consensus       122 ~~~~~~p~~~G~~gvl~~Y~~~l~~v~l~-----gPt~fapiI~~a~~~a~~~~-----------~~Y~VLlIitDG~i~  185 (352)
                      +++.  +.-...+.++++-.    +++..     |-|+...-|+.|.+..+...           ..=.++++||||.-+
T Consensus        64 ~l~~--~~~~~~~~~~~~l~----~l~~~~~~~~ggT~~~~aL~~a~~~l~~~~~~~~~~~~~~~~~~~~iillTDG~~~  137 (509)
T 2odp_A           64 SVLN--DNSRDMTEVISSLE----NANYKDHENGTGTNTYAALNSVYLMMNNQMRLLGMETMAWQEIRHAIILLTDGKSN  137 (509)
T ss_dssp             CTTS--GGGGCHHHHHHHHH----TCCGGGGTTCCSCCHHHHHHHHHHHHHHHHHHHCTTSHHHHTEEEEEEEESCSCCC
T ss_pred             eccC--CCCCCHHHHHHHHH----hcccccCCCCCCccHHHHHHHHHHHHhhcccccccccccccccceEEEEECCCCcc
Confidence            4431  12224555554433    34333     78999999999988764321           123688999999776


Q ss_pred             Cc--cHHHHHHH-h--------cCCcEEEEEeecC--CCcchhccccC
Q 018644          186 TG--SQQEQETI-S--------SYPLSIVLVGVGD--GPWESIQKFHD  220 (352)
Q Consensus       186 d~--~~~~~~~i-S--------~~PlSIiiVGVG~--~~f~~m~~LD~  220 (352)
                      +-  ..+..+.+ .        +..+.|..||||+  .+...|++|-+
T Consensus       138 ~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~iGvG~~~~~~~~L~~iA~  185 (509)
T 2odp_A          138 MGGSPKTAVDHIREILNINQKRNDYLDIYAIGVGKLDVDWRELNELGS  185 (509)
T ss_dssp             SSSCTHHHHHHHHHHTTCCSTTGGGEEEEEEEESSSCCCHHHHHHHSC
T ss_pred             CCCChhHHHHHHHHHhhccccccCceEEEEEEcCCCcccHHHHHhhcc
Confidence            41  12223333 1        5678999999998  68888888865

>4b4t_W RPN10, 26S proteasome regulatory subunit RPN10; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.13  E-value=0.0014  Score=61.62  Aligned_cols=158  Identities=12%  Similarity=0.124  Sum_probs=96.6

Q ss_pred             cceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhcccccc---CCC-ccceeeecCCCCCCCCcccCCCC
Q 018644           51 LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF---DGD-CIRCYGFGDDTTRDEGVFSFQEN  126 (352)
Q Consensus        51 ~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~y---d~d-~ip~~GFGa~~~~~~~~f~~~~~  126 (352)
                      .+|.||-|.|=.. |              ...+|.++.+..++-.++..+   ++. .+-+..|++......  .+++  
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            4678898877421 0              124688887777776666643   445 888888976532111  1221  


Q ss_pred             CCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHc--CCceEEEEEEeCCccCCccHHHHHHH---hcCCcE
Q 018644          127 DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES--GGLHHVLVIITSGQVATGSQQEQETI---SSYPLS  201 (352)
Q Consensus       127 ~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~--~~~Y~VLlIitDG~i~d~~~~~~~~i---S~~PlS  201 (352)
                          .....++    ..+.+++..|-|++..-|+.|....+..  ...-..+||+|||.+++-..+..+++   .+.-++
T Consensus        67 ----~D~~~il----~aL~~l~~~G~T~l~~gL~~A~~aLk~~~~k~~~~rIIlf~ds~~~~~~~~l~~lak~lkk~gI~  138 (268)
T 4b4t_W           67 ----AEFGKIL----AGLHDTQIEGKLHMATALQIAQLTLKHRQNKVQHQRIVAFVCSPISDSRDELIRLAKTLKKNNVA  138 (268)
T ss_dssp             ----SCHHHHH----HHHTTCCCCSCCCHHHHHHHHHHHHHTCSCTTSEEEEEEEECSCCSSCHHHHHHHHHHHHHHTEE
T ss_pred             ----chHHHHH----HHhhhcCcCCCCChHHHHHHHHHHHHhcccCCCceEEEEEECCCCCCCHHHHHHHHHHHHHcCCE
Confidence                2344453    4566788999999999999999998754  23455568889998776334444444   444555


Q ss_pred             EEEEeec--CCCcchhccccCCCCCcceeeEeeecc
Q 018644          202 IVLVGVG--DGPWESIQKFHDKIPALQFDNFHFVNF  235 (352)
Q Consensus       202 IiiVGVG--~~~f~~m~~LD~~~~~r~rDnvqFV~f  235 (352)
                      |=|||+|  +.+-+.|+.|=+......-|+-+||..
T Consensus       139 v~vIgFG~~~~n~~kLe~l~~~~Ng~~~~~s~~v~v  174 (268)
T 4b4t_W          139 VDIINFGEIEQNTELLDEFIAAVNNPQEETSHLLTV  174 (268)
T ss_dssp             EEEEEESSCCSSCCHHHHHHHHHCSSTTTSCEEEEE
T ss_pred             EEEEEeCCCccchHHHHHHHHHhcCCCCCceeEEEe
Confidence            5566665  556677888732222222355566554

>2x5n_A SPRPN10, 26S proteasome regulatory subunit RPN10; nuclear protein, nucleus, ubiquitin; 1.30A {Schizosaccharomyces pombe}

Probab=97.13  E-value=0.0033  Score=55.89  Aligned_cols=158  Identities=12%  Similarity=0.133  Sum_probs=95.9

Q ss_pred             ccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhcccccc---CCC-ccceeeecCCCCCCCCcccCCC
Q 018644           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF---DGD-CIRCYGFGDDTTRDEGVFSFQE  125 (352)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~y---d~d-~ip~~GFGa~~~~~~~~f~~~~  125 (352)
                      .++++||.|.|=.             ..  +..+|..+.|...+-.++..|   ... .+-+..|++...+  -+.+++.
T Consensus         4 ~lvlvlD~S~SM~-------------~~--D~~psRl~~ak~~~~~~~~~~~~~~~~d~vGLV~fa~~~a~--~~~plT~   66 (192)
T 2x5n_A            4 ATMILIDNSEWMI-------------NG--DYIPTRFEAQKDTVHMIFNQKINDNPENMCGLMTIGDNSPQ--VLSTLTR   66 (192)
T ss_dssp             EEEEEECCSGGGG-------------CT--TSSSCHHHHHHHHHHHHHHHHHHHCTTCEEEEEECCTTSCC--EEEEEES
T ss_pred             EEEEEEECCHhhc-------------cC--CCCCCHHHHHHHHHHHHHHHHHhcCCCCeEEEEEEcCCCcE--EecCCCC
Confidence            4678899887632             11  123688888888777766544   344 8999999874221  1223332


Q ss_pred             CCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcC--Cce-EEEEEEeCCccCCccHHHHHHH---hcCC
Q 018644          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG--GLH-HVLVIITSGQVATGSQQEQETI---SSYP  199 (352)
Q Consensus       126 ~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~--~~Y-~VLlIitDG~i~d~~~~~~~~i---S~~P  199 (352)
                            ..+.++    +.+..+...|-|++..-|+.|.+..++..  ... -|+|+++|+.-.| ..+..+++   .+..
T Consensus        67 ------d~~~i~----~~L~~l~~~g~t~l~~aL~~A~~~l~~~~~~~~~~riiil~~~~~~~~-~~~~~~~a~~lk~~g  135 (192)
T 2x5n_A           67 ------DYGKFL----SAMHDLPVRGNAKFGDGIQIAQLALKHRENKIQRQRIVAFVGSPIVED-EKNLIRLAKRMKKNN  135 (192)
T ss_dssp             ------CHHHHH----HHHTTCCCCSCCCHHHHHHHHHHHHHTCSCTTSEEEEEEEECSCCSSC-HHHHHHHHHHHHHTT
T ss_pred             ------CHHHHH----HHHHcCCCCCCchHHHHHHHHHHHHHhccccCCCceEEEEEECCCCCC-chhHHHHHHHHHHCC
Confidence                  344443    44445778899999999999998877642  223 3445555544334 34444444   6778


Q ss_pred             cEEEEEeecCCCcch-hccccCCCCCcceeeEeeecchh
Q 018644          200 LSIVLVGVGDGPWES-IQKFHDKIPALQFDNFHFVNFTA  237 (352)
Q Consensus       200 lSIiiVGVG~~~f~~-m~~LD~~~~~r~rDnvqFV~f~~  237 (352)
                      +.|.+||+|..+... |+.|=+...  .-|+-+||...+
T Consensus       136 i~v~~Ig~G~~~~~~~l~~la~~~n--~~~~s~~~~~~~  172 (192)
T 2x5n_A          136 VAIDIIHIGELQNESALQHFIDAAN--SSDSCHLVSIPP  172 (192)
T ss_dssp             EEEEEEEESCC---CHHHHHHHHHC--STTCCEEEEECC
T ss_pred             CEEEEEEeCCCCccHHHHHHHHhcc--CCCceEEEEecC
Confidence            899999999876532 777643211  126677775444

>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=97.09  E-value=0.00017  Score=52.82  Aligned_cols=43  Identities=9%  Similarity=0.114  Sum_probs=37.3

Q ss_pred             CCcccCcccCCCCeee--cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018644          305 AQRCCICCEDEKDTAF--ECGHMSCIKCALRM----PQCPFCREEITTR  347 (352)
Q Consensus       305 ~~~C~IC~~~~~~~~~--pCGH~~C~~C~~~~----~~CP~CR~~i~~~  347 (352)
                      ...|+||++...++++  +|||.+|+.|+.++    ..||++++++...
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            4689999999999875  79999999999987    5699999998653

>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=97.06  E-value=0.006  Score=53.31  Aligned_cols=128  Identities=14%  Similarity=0.131  Sum_probs=85.0

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccC---CC-ccceeeecCCCCCCCCcccC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSF  123 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd---~d-~ip~~GFGa~~~~~~~~f~~  123 (352)
                      .+++++.||-|.|=+                      .++++...+..++..++   .+ .+-++.|+....   ..|+|
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            467888888876621                      15666666777777776   45 999999987532   24666


Q ss_pred             CCCCCCCCCHHHHHHHHHhhCCceee-ec-CCCcHHHHHHHHHH-HHHc----CCceEEEEEEeCCccCCccHHHHHHH-
Q 018644          124 QENDSPCQGFEHVLECYRKNVPNVQY-FG-PTSYAPMVEAAVDI-VEES----GGLHHVLVIITSGQVATGSQQEQETI-  195 (352)
Q Consensus       124 ~~~~p~~~G~~gvl~~Y~~~l~~v~l-~g-Pt~fapiI~~a~~~-a~~~----~~~Y~VLlIitDG~i~d~~~~~~~~i-  195 (352)
                      +.    ....+.++++-.+    +.. .| -|+...-|+.|.+. ....    ...-.++|+||||.-+| .....+++ 
T Consensus        61 ~~----~~~~~~~~~~i~~----l~~~~G~~T~~~~al~~a~~~~~~~~~g~r~~~~~~ivllTDG~~~~-~~~~~~~~~  131 (200)
T 1v7p_C           61 NT----YKTKEEMIVATSQ----TSQYGGDLTNTFGAIQYARKYAYSAASGGRRSATKVMVVVTDGESHD-GSMLKAVID  131 (200)
T ss_dssp             TT----CSSHHHHHHHHHH----CCCCCCSCCCHHHHHHHHHHHTTSGGGTCCTTSEEEEEEEESSCCSC-GGGHHHHHH
T ss_pred             CC----cCCHHHHHHHHHh----hhccCCCCCcHHHHHHHHHHhhcccccCCCCCCCeEEEEEccCCCCC-cccHHHHHH
Confidence            41    2355666655443    333 35 59999999999885 2221    12357889999999888 33333333 


Q ss_pred             --hcCCcEEEEEeecC
Q 018644          196 --SSYPLSIVLVGVGD  209 (352)
Q Consensus       196 --S~~PlSIiiVGVG~  209 (352)
                        .+..+.|..||||+
T Consensus       132 ~~~~~gi~i~~igvg~  147 (200)
T 1v7p_C          132 QCNHDNILRFGIAVLG  147 (200)
T ss_dssp             HHHHTTEEEEEEEECH
T ss_pred             HHHHCCCEEEEEEecc
Confidence              66789999999963

>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=97.04  E-value=0.00057  Score=59.51  Aligned_cols=141  Identities=16%  Similarity=0.221  Sum_probs=88.2

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccC-CC-ccceeeecCCCCCCCCcccCCC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD-GD-CIRCYGFGDDTTRDEGVFSFQE  125 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd-~d-~ip~~GFGa~~~~~~~~f~~~~  125 (352)
                      .+++++.||-|.|=+                    ...++++...+..++..++ .+ .+-++.|+....   ..|+++.
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            478889999887732                    1245566666666666665 45 999999988642   2354432


Q ss_pred             -CCCCCCCHHHHHHHHHhhCCcee-eecCCCcHHHHHHHHHHH-HH-c---CCceEEEEEEeCCccC-Ccc--HHHHHHH
Q 018644          126 -NDSPCQGFEHVLECYRKNVPNVQ-YFGPTSYAPMVEAAVDIV-EE-S---GGLHHVLVIITSGQVA-TGS--QQEQETI  195 (352)
Q Consensus       126 -~~p~~~G~~gvl~~Y~~~l~~v~-l~gPt~fapiI~~a~~~a-~~-~---~~~Y~VLlIitDG~i~-d~~--~~~~~~i  195 (352)
                       .+.  .   .+    .+.+.++. ..|-|+...-|+.|.+.. .. .   ...-.++++||||..+ |..  .+..+.+
T Consensus        62 ~~~~--~---~~----~~~i~~l~~~~g~T~~~~aL~~a~~~l~~~~~~~r~~~~~~iillTDG~~~~d~~~~~~~~~~~  132 (194)
T 1mf7_A           62 FQNN--P---NP----RSLVKPITQLLGRTHTATGIRKVVRELFNITNGARKNAFKILVVITDGEKFGDPLGYEDVIPEA  132 (194)
T ss_dssp             HHHS--C---CH----HHHHTTCCCCCSCBCHHHHHHHHHHTTTSGGGTCCTTSEEEEEEEESSCCBSCSSCGGGTHHHH
T ss_pred             cCCH--H---HH----HHHHHhCcCCCCCchHHHHHHHHHHHhcCcccCCCCCCCeEEEEEcCCCCCCCchhhHHHHHHH
Confidence             010  1   22    22334444 478999999999988632 21 1   1235788999999887 631  2223333


Q ss_pred             hcCCcEEEEEeecCCC-----cchhccccC
Q 018644          196 SSYPLSIVLVGVGDGP-----WESIQKFHD  220 (352)
Q Consensus       196 S~~PlSIiiVGVG~~~-----f~~m~~LD~  220 (352)
                      .+..+.|..||||+..     ...|+.+-+
T Consensus       133 ~~~gi~v~~igvG~~~~~~~~~~~L~~iA~  162 (194)
T 1mf7_A          133 DREGVIRYVIGVGDAFRSEKSRQELNTIAS  162 (194)
T ss_dssp             HHTTEEEEEEEESGGGCSHHHHHHHHHHSC
T ss_pred             HHCCCEEEEEEecccccccccHHHHHHHhC
Confidence            5678999999999753     455555544

>2x31_A Magnesium-chelatase 60 kDa subunit; ligase, bacteriochlorophyll biosynthesis, photosynthesis; 7.50A {Rhodobacter capsulatus}

Probab=96.96  E-value=0.0002  Score=62.05  Aligned_cols=141  Identities=13%  Similarity=0.184  Sum_probs=85.1

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC-ccceeeecCCCCCCCCcccCCCC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQEN  126 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~~  126 (352)
                      ..++++.||-|.|=.  |               .....-.+++..+..-+  +..+ .+-++.|+....  ..++++.  
T Consensus         5 ~~~vv~vlD~SgSM~--~---------------~~~~~~k~~~~~~~~~~--~~~~~~v~lv~f~~~~~--~~~~~~~--   61 (189)
T 2x31_A            5 DRVLIFAVDASGSAA--V---------------ARLSEAKGAVELLLGRA--YAARDHVSLITFRGTAA--QVLLQPS--   61 (189)
T ss_dssp             CCEEEEEEECCTTSC--C-----------------CHHHHHHHHHHHHHS--CTTTSCCCEEEESBSCC--CBCTTTC--
T ss_pred             CeEEEEEEECCCCCC--c---------------hHHHHHHHHHHHHHHHh--cCCCcEEEEEEECCCCc--eEecCCC--
Confidence            467889999988731  1               11233344444443222  3556 999999996322  1123332  


Q ss_pred             CCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcC--CceEEEEEEeCCccCCccH----------HHHHH
Q 018644          127 DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESG--GLHHVLVIITSGQVATGSQ----------QEQET  194 (352)
Q Consensus       127 ~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~--~~Y~VLlIitDG~i~d~~~----------~~~~~  194 (352)
                          .+.+.+.+    .+..+...|-|++..-|+.+.+..++..  ..-.++++||||..++-..          +..+.
T Consensus        62 ----~~~~~~~~----~i~~l~~~g~T~~~~al~~a~~~l~~~~~~~~~~~ivliTDG~~~~~~~~~~~~~~~~~~~~~~  133 (189)
T 2x31_A           62 ----RSLTQTKR----QLQGLPGGGGTPLASGMEMAMVTAKQARSRGMTPTIALLTDGRGNIALDGTANRELAGEQATKV  133 (189)
T ss_dssp             ----SCHHHHHH----HHHHCCCCBCCCCHHHHHHHHHHHHTCTTTCSSEEEEECCBSCCSSCCTHHHHHGGGTCCCEEE
T ss_pred             ----CCHHHHHH----HHhcCCCCCCCCHHHHHHHHHHHHHhccCCCCceEEEEECCCCCCCCCCccccccchhHHHHHH
Confidence                24455433    3344567899999999999999887542  2356889999998765210          01111


Q ss_pred             H---hcCCcEEEEEeecCCCcchhcccc
Q 018644          195 I---SSYPLSIVLVGVGDGPWESIQKFH  219 (352)
Q Consensus       195 i---S~~PlSIiiVGVG~~~f~~m~~LD  219 (352)
                      +   .+..+.|+.||+|+.+...|++|-
T Consensus       134 ~~~~~~~gi~v~~ig~g~~~~~~L~~iA  161 (189)
T 2x31_A          134 ARAIRASGMPAVIIDTAMRPNPALVDLA  161 (189)
T ss_dssp             EECTGGGGSCCTHHHHHHSSCSSSCSTT
T ss_pred             HHHHHHcCCeEEEEecCCCCHHHHHHHH
Confidence            2   345678888999987655555553

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=96.76  E-value=0.0006  Score=54.84  Aligned_cols=41  Identities=27%  Similarity=0.565  Sum_probs=30.9

Q ss_pred             cccCcccCCCCe-ee-cCCCCCchhhhhc-----CCCCCCCccccCCe
Q 018644          307 RCCICCEDEKDT-AF-ECGHMSCIKCALR-----MPQCPFCREEITTR  347 (352)
Q Consensus       307 ~C~IC~~~~~~~-~~-pCGH~~C~~C~~~-----~~~CP~CR~~i~~~  347 (352)
                      -|.+|--..+.- .+ ||.|.||..|+..     ...||+||.+|...
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rV   50 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRI   50 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEE
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeee
Confidence            477776544442 23 9999999999965     36799999999875

>1rrk_A Complement factor B; BB, hydrolase; 2.00A {Homo sapiens} SCOP: b.47.1.2 c.62.1.1 PDB: 1rs0_A* 1rtk_A* 2win_I* 1dle_A

Probab=96.69  E-value=0.0026  Score=63.35  Aligned_cols=147  Identities=11%  Similarity=0.083  Sum_probs=90.9

Q ss_pred             eccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccc---cCCC-ccceeeecCCCCCCCCcccCC
Q 018644           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVL---FDGD-CIRCYGFGDDTTRDEGVFSFQ  124 (352)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~---yd~d-~ip~~GFGa~~~~~~~~f~~~  124 (352)
                      +++++.||-|.|=+                    .+.++.|...+..++..   +..+ .+-++.|+....   ..+.++
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            57888999887732                    14455555555555554   4556 999999987532   124332


Q ss_pred             CCCCCCCCHHHHHHHHHhhCCce-eeecCCCcHHHHHHHHHHHHHc--------CCceEEEEEEeCCccCCc--cHHHHH
Q 018644          125 ENDSPCQGFEHVLECYRKNVPNV-QYFGPTSYAPMVEAAVDIVEES--------GGLHHVLVIITSGQVATG--SQQEQE  193 (352)
Q Consensus       125 ~~~p~~~G~~gvl~~Y~~~l~~v-~l~gPt~fapiI~~a~~~a~~~--------~~~Y~VLlIitDG~i~d~--~~~~~~  193 (352)
                        .+.-...+.+.++-.+.-..- ...|-|+...-|+.|.+.....        ...-.++++||||.-++-  ..+..+
T Consensus        59 --~~~~~~~~~~~~~l~~l~~~~~~~~g~T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~~~~~~~~  136 (497)
T 1rrk_A           59 --EADSSNADWVTKQLNEINYEDHKLKSGTNTKKALQAVYSMMSWPDDVPPEGWNRTRHVIILMTDGLHNMGGDPITVID  136 (497)
T ss_dssp             --SGGGGCHHHHHHHHHHCCGGGSCCTTCCCHHHHHHHHHHHHCCC------CGGGCEEEEEEEECSCCCSSSCTHHHHH
T ss_pred             --cccccCHHHHHHHHHhCcCccccccCccCHHHHHHHHHHHhhhhhccccccccccceEEEEEeCCCcccCCChhHHHH
Confidence              233345566665554433221 2467899999999998886311        123468899999977631  233333


Q ss_pred             HHhcC-------------CcEEEEEeecC-CCcchhccccC
Q 018644          194 TISSY-------------PLSIVLVGVGD-GPWESIQKFHD  220 (352)
Q Consensus       194 ~iS~~-------------PlSIiiVGVG~-~~f~~m~~LD~  220 (352)
                      .+.++             .+-|..||||+ .+...|++|-.
T Consensus       137 ~~~~~~~~~~~~~~~~~~~i~v~~igvG~~~~~~~L~~iA~  177 (497)
T 1rrk_A          137 EIRDLLYIGKDRKNPREDYLDVYVFGVGPLVNQVNINALAS  177 (497)
T ss_dssp             HHHHHTTCSSCC-CCCGGGEEEEEEECSSSCCHHHHHHHSC
T ss_pred             HHHHHhhhhcccccchhcCeeEEEecCCCccCHHHHHHHhc
Confidence            33222             68899999997 56777777754

>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=96.58  E-value=0.002  Score=56.59  Aligned_cols=137  Identities=12%  Similarity=0.158  Sum_probs=89.2

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccC---CC-ccceeeecCCCCCCCCcccC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSF  123 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd---~d-~ip~~GFGa~~~~~~~~f~~  123 (352)
                      .+++.+.||-|.|=+                    .+.++++...+-.++..++   ++ .+-+..|+....   ..|+|
T Consensus        21 ~~DivfvlD~S~Sm~--------------------~~~~~~~k~~~~~~~~~l~~~~~~~rv~vv~fs~~~~---~~~~l   77 (199)
T 3zqk_A           21 VLDVAFVLEGSDKIG--------------------EADFNRSKEFMEEVIQRMDVGQDSIHVTVLQYSYMVT---VEYPF   77 (199)
T ss_dssp             CCEEEEEEECCTTTC--------------------HHHHHHHHHHHHHHHHHSCBSTTSBEEEEEEESSSEE---EEECT
T ss_pred             CcCEEEEEECCCCCC--------------------HHHHHHHHHHHHHHHHhcCCCCCceEEEEEEECCccc---EEEec
Confidence            478888888876632                    1345666666667777774   55 999999998642   24555


Q ss_pred             CCCCCCCCCHHHHHHHHHhhCCceee-ecC-CCcHHHHHHHHHHH-HH-c---CCceEEEEEEeCCccCCccHHHHHHHh
Q 018644          124 QENDSPCQGFEHVLECYRKNVPNVQY-FGP-TSYAPMVEAAVDIV-EE-S---GGLHHVLVIITSGQVATGSQQEQETIS  196 (352)
Q Consensus       124 ~~~~p~~~G~~gvl~~Y~~~l~~v~l-~gP-t~fapiI~~a~~~a-~~-~---~~~Y~VLlIitDG~i~d~~~~~~~~iS  196 (352)
                      +.    ....+.++++-.+    ++. .|. |+...-|+.+.+.. .. .   ...-.++++||||...|...   +  .
T Consensus        78 ~~----~~~~~~~~~~i~~----l~~~gg~~T~~~~aL~~a~~~l~~~~~g~r~~~~~~iillTDG~~~d~v~---~--~  144 (199)
T 3zqk_A           78 SE----AQSKGDILQRLRE----IRYQGGNRTNTGLALRYLSDHSFLVSQGDREQAPNLVYMVTGNPASDEIK---R--L  144 (199)
T ss_dssp             TS----CCCHHHHHHHHHH----CCCCCCSCCCHHHHHHHCCCCCTCGGGTCCTTSCEEEEEEECSCCSSCCC---C--C
T ss_pred             CC----cCCHHHHHHHHHh----CcCCCCCcChHHHHHHHHHHHhhCcccCCCCCCCeEEEEEeCCCCchHHH---H--H
Confidence            42    2345666655544    333 454 99888888877632 11 1   12236889999998776311   1  1


Q ss_pred             cCCcEEEEEeec-CCCcchhccccC
Q 018644          197 SYPLSIVLVGVG-DGPWESIQKFHD  220 (352)
Q Consensus       197 ~~PlSIiiVGVG-~~~f~~m~~LD~  220 (352)
                      ...+.|..|||| +.+.+.|+++-.
T Consensus       145 ~~~v~v~~iGiG~~~~~~~L~~iA~  169 (199)
T 3zqk_A          145 PGDIQVVPIGVGPNANVQELERIGW  169 (199)
T ss_dssp             CTTEEEEEEEESTTCCHHHHHHHHT
T ss_pred             hCCCEEEEEEcCCCCCHHHHHHHhC
Confidence            246889999999 778888888865

>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=96.04  E-value=0.011  Score=61.76  Aligned_cols=148  Identities=11%  Similarity=0.108  Sum_probs=89.5

Q ss_pred             ceeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC-ccceeeecCCCCCCCCcccCCC
Q 018644           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD-CIRCYGFGDDTTRDEGVFSFQE  125 (352)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d-~ip~~GFGa~~~~~~~~f~~~~  125 (352)
                      ..+++++.||-|.|=+             .    .....-.+++..+.+-|..++.. +|-+.-|+....   .+++|+.
T Consensus       242 ~~~div~vlD~SgSM~-------------~----~~~~~~k~~~~~~i~~l~~~~~~~rv~lv~f~~~~~---~~~~l~~  301 (741)
T 3hrz_D          242 GSMNIYLVLDGSGSIG-------------A----SDFTGAKKCLVNLIEKVASYGVKPRYGLVTYATYPK---IWVKVSE  301 (741)
T ss_dssp             CEEEEEEEEECSTTTC-------------H----HHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESSSEE---EEECTTS
T ss_pred             CceeEEEEeccCCccc-------------c----cchHHHHHHHHHHHHhhhccCCCceEEEEEeccCCc---eeEeecc
Confidence            3688999999887742             0    00123344444444444445555 899999987532   2355542


Q ss_pred             CCCCCCCHHHHHHHHHhhCCcee-----eecCCCcHHHHHHHHHHHH---H-----cCCceEEEEEEeCCccCCc--cHH
Q 018644          126 NDSPCQGFEHVLECYRKNVPNVQ-----YFGPTSYAPMVEAAVDIVE---E-----SGGLHHVLVIITSGQVATG--SQQ  190 (352)
Q Consensus       126 ~~p~~~G~~gvl~~Y~~~l~~v~-----l~gPt~fapiI~~a~~~a~---~-----~~~~Y~VLlIitDG~i~d~--~~~  190 (352)
                      .  .-...+.++++-    .++.     ..|-|+...-|++|.+...   .     ....=.++|+||||.-++-  -.+
T Consensus       302 ~--~~~~~~~~~~~i----~~l~~~~~~~~ggT~~~~aL~~a~~~l~~~~~~~~~~~~~~~~~iillTDG~~n~g~~p~~  375 (741)
T 3hrz_D          302 A--DSSNADWVTKQL----NEINYEDHKLKSGTNTKKALQAVYSMMSWPDDVPPEGWNRTRHVIILMTDGLHNMGGDPIT  375 (741)
T ss_dssp             G--GGGCHHHHHHHH----TTCCGGGGSSSCCCCHHHHHHHHHHHHCCC--CCCTTGGGEEEEEEEEECSCCCSSSCTHH
T ss_pred             c--CCcCHHHHHHHH----HhcccccccCCCChHHHHHHHHHHHHHhhhhhccccchhccCeEEEEECCCccccCCCchH
Confidence            1  112445555444    4444     6789999999999988762   1     0123478899999965520  122


Q ss_pred             HHHHH-------------hcCCcEEEEEeecC-CCcchhccccC
Q 018644          191 EQETI-------------SSYPLSIVLVGVGD-GPWESIQKFHD  220 (352)
Q Consensus       191 ~~~~i-------------S~~PlSIiiVGVG~-~~f~~m~~LD~  220 (352)
                      ..+.|             .+..+.|..||||+ .+...|++|-.
T Consensus       376 ~~~~i~~~~~~~~~a~~~~~~gi~i~~igvG~~~~~~~L~~ia~  419 (741)
T 3hrz_D          376 VIDEIRDLLYIGKDRKNPREDYLDVYVFGVGPLVNQVNINALAS  419 (741)
T ss_dssp             HHHHHHHHTTCSSCTTCCCGGGEEEEEEECSSSCCHHHHHHHSC
T ss_pred             HHHHHHHHhhcccccccccccCeeEEEEeCCCcCCHHHHHHHhc
Confidence            22222             23468899999997 67777777764

>1mjn_A Integrin alpha-L; rossmann fold, immune system; 1.30A {Homo sapiens} SCOP: c.62.1.1 PDB: 3hi6_A 1mq8_B* 3eoa_I 3eob_I 1rd4_A* 1lfa_A 1zon_A 1zoo_A 1zop_A 1dgq_A 1xdd_A* 1xdg_A* 1xuo_A* 3e2m_A* 3bqn_B* 1cqp_A* 3bqm_B* 2ica_A* 2o7n_A* 3m6f_A* ...

Probab=95.52  E-value=0.051  Score=46.62  Aligned_cols=138  Identities=17%  Similarity=0.206  Sum_probs=82.6

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCC-C-ccceeeecCCCCCCCCcccCCC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDG-D-CIRCYGFGDDTTRDEGVFSFQE  125 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~-d-~ip~~GFGa~~~~~~~~f~~~~  125 (352)
                      .+++++.||-|.|=+                    ...++++...+..++..++. + .+-+..|+....   ..|+|+.
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            367888999887732                    12355666666666666654 4 899999998542   2354431


Q ss_pred             CCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHH-HHHc----CCceEEEEEEeCCccCCccHHHHHHHhcCCc
Q 018644          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDI-VEES----GGLHHVLVIITSGQVATGSQQEQETISSYPL  200 (352)
Q Consensus       126 ~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~-a~~~----~~~Y~VLlIitDG~i~d~~~~~~~~iS~~Pl  200 (352)
                      .. .-..++.+    .+.++.  +.|-|+...-|+.|.+. ....    ...-.++++||||.-+|- ..   .....-+
T Consensus        59 ~~-~~~~~~~~----~~~i~~--~~g~T~~~~aL~~a~~~~~~~~~g~r~~~~~~iillTDG~~~~~-~~---~~~~~~i  127 (179)
T 1mjn_A           59 YV-KRKDPDAL----LKHVKH--MLLLTNTFGAINYVATEVFREELGARPDATKVLIIITDGEATDS-GN---IDAAKDI  127 (179)
T ss_dssp             HH-HHCCHHHH----HTTCCC--CCBCCCHHHHHHHHHHHTSSGGGTCCTTSEEEEEEEESSCCSSC-SC---CGGGTTS
T ss_pred             cC-CHHHHHHH----HHhccc--CCCCChHHHHHHHHHHHhcccccCCCCCCCeEEEEEcCCCCCCC-cc---hHHHCCC
Confidence            00 00122222    223333  35889999999988753 2211    123578899999998773 21   1134567


Q ss_pred             EEEEEeecCCCc-----chhcccc
Q 018644          201 SIVLVGVGDGPW-----ESIQKFH  219 (352)
Q Consensus       201 SIiiVGVG~~~f-----~~m~~LD  219 (352)
                      -|..||||+..-     ..|+.+=
T Consensus       128 ~i~~igvG~~~~~~~~~~~L~~iA  151 (179)
T 1mjn_A          128 IRYIIGIGKHFQTKESQETLHKFA  151 (179)
T ss_dssp             EEEEEEESGGGCSHHHHHTTGGGS
T ss_pred             EEEEEEccccccccccHHHHHHHh
Confidence            899999997532     4555553

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster}

Probab=95.39  E-value=0.0049  Score=59.96  Aligned_cols=45  Identities=31%  Similarity=0.632  Sum_probs=34.7

Q ss_pred             ccCCcccCcccCCCC-ee-------e-cCCCCCchhhhhcC---------------CCCCCCccccCCe
Q 018644          303 AEAQRCCICCEDEKD-TA-------F-ECGHMSCIKCALRM---------------PQCPFCREEITTR  347 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~-~~-------~-pCGH~~C~~C~~~~---------------~~CP~CR~~i~~~  347 (352)
                      ....+|.||++...+ ..       - .|||.|-..|+.++               ..||.||++|+..
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            456899999986555 11       1 79999999999765               2499999998754

>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=95.34  E-value=0.018  Score=63.82  Aligned_cols=139  Identities=19%  Similarity=0.275  Sum_probs=90.7

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC--ccceeeecCCCCCCCCcccCCC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD--CIRCYGFGDDTTRDEGVFSFQE  125 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d--~ip~~GFGa~~~~~~~~f~~~~  125 (352)
                      .+++.+.||-|.|=+                    .+.++++...+..+++.|+.+  ++-+..|+....   ..|+|+.
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            478888888776621                    245777778888888888876  999999988642   2355532


Q ss_pred             --CCCCCCCHHHHHHHHHhhCCce-eeecCCCcHHHHHHHHHHHH-Hc----CCceEEEEEEeCCcc-CCccHHHHHHH-
Q 018644          126 --NDSPCQGFEHVLECYRKNVPNV-QYFGPTSYAPMVEAAVDIVE-ES----GGLHHVLVIITSGQV-ATGSQQEQETI-  195 (352)
Q Consensus       126 --~~p~~~G~~gvl~~Y~~~l~~v-~l~gPt~fapiI~~a~~~a~-~~----~~~Y~VLlIitDG~i-~d~~~~~~~~i-  195 (352)
                        +..   .+       .+++..+ .+.|-|+...-|++|.+... ..    ...-.|+|+||||.- +| .....+++ 
T Consensus       187 ~~~~~---~l-------~~ai~~i~~~gG~T~~g~AL~~a~~~lf~~~~g~R~~~~kviIllTDG~~~~d-~~~~~~~a~  255 (1095)
T 3k6s_A          187 FRRSS---NP-------LSLLASVHQLQGFTYTATAIQNVVHRLFHASYGARRDAAKILIVITDGKKEGD-SLDYKDVIP  255 (1095)
T ss_dssp             HHSCS---CG-------GGGTTTCCCCCSCBCHHHHHHHHHTTTTSTTTTCCSSSEEEEEEEESSCCBSC-SSCHHHHHH
T ss_pred             cCCHH---HH-------HHHHhhhhcccCCChHHHHHHHHHHhhccccccCCCCCCeEEEEEeCCCcCCC-chhHHHHHH
Confidence              111   11       1223333 45788999999988876432 11    123478899999998 45 23333333 


Q ss_pred             --hcCCcEEEEEeecCC-----CcchhccccC
Q 018644          196 --SSYPLSIVLVGVGDG-----PWESIQKFHD  220 (352)
Q Consensus       196 --S~~PlSIiiVGVG~~-----~f~~m~~LD~  220 (352)
                        .+.-+.|..||||+.     +.+.|+++-+
T Consensus       256 ~~r~~GI~i~aIGVG~~~~~~~d~~eL~~IAs  287 (1095)
T 3k6s_A          256 MADAAGIIRYAIGVGLAFQNRNSWKELNDIAS  287 (1095)
T ss_dssp             HHHHHCEEECCEEBSSGGGSTTSSHHHHTTSC
T ss_pred             HHHHCCCEEEEEecccccccccCHHHHHHHHc
Confidence              445778999999987     6777777754

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=94.97  E-value=0.024  Score=43.04  Aligned_cols=45  Identities=22%  Similarity=0.561  Sum_probs=36.1

Q ss_pred             ccCCcccCcccCCCCeee--cCCCCCchhhhhcC------CCCCCCccccCCe
Q 018644          303 AEAQRCCICCEDEKDTAF--ECGHMSCIKCALRM------PQCPFCREEITTR  347 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~~~--pCGH~~C~~C~~~~------~~CP~CR~~i~~~  347 (352)
                      .....|.||++....-..  .|+|.|=..|+.++      ..||+||......
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            345899999998776444  89999999999855      5799999987653

>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=94.53  E-value=0.14  Score=53.15  Aligned_cols=147  Identities=12%  Similarity=0.187  Sum_probs=89.9

Q ss_pred             ccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccc----cCCCccceeeecCCCCCC----CCcc
Q 018644           50 KLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVL----FDGDCIRCYGFGDDTTRD----EGVF  121 (352)
Q Consensus        50 ~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~----yd~d~ip~~GFGa~~~~~----~~~f  121 (352)
                      .++++||.+.|=.             ..+.+...++.+.|++.+..+++.    -..|.+-++.||...+..    .+++
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 SLIFLVDASKAMF-------------ESQSEDELTPFDMSIQCIQSVYISKIISSDRDLLAVVFYGTEKDKNSVNFKNIY  103 (609)
T ss_dssp             EEEEEEECSGGGG-------------CCCSSSSCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCCTTEE
T ss_pred             EEEEEEECCHHHc-------------CCCCCCCCChHHHHHHHHHHHHHHhhCCCCCCeEEEEEEccCCCCCcCCCCCeE
Confidence            4789999986632             110012468999999999998885    344599999999976422    2333


Q ss_pred             cCCC-CCCCCCCHHHHHHHHHhhCC---------ceeeecCCCcHHHHHHHHHHHHHcCCc--eEEEEEEeCCccC-Ccc
Q 018644          122 SFQE-NDSPCQGFEHVLECYRKNVP---------NVQYFGPTSYAPMVEAAVDIVEESGGL--HHVLVIITSGQVA-TGS  188 (352)
Q Consensus       122 ~~~~-~~p~~~G~~gvl~~Y~~~l~---------~v~l~gPt~fapiI~~a~~~a~~~~~~--Y~VLlIitDG~i~-d~~  188 (352)
                      -+.+ +.+   +.+ .++..++.+.         .+.....|.+...|..|+++.+....+  --++++||||.-. +..
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 111   222 2222232221         011245799999999999988765333  3588999999642 201


Q ss_pred             H----HHHHHH---hcCCcEEEEEeecCCC-cc
Q 018644          189 Q----QEQETI---SSYPLSIVLVGVGDGP-WE  213 (352)
Q Consensus       189 ~----~~~~~i---S~~PlSIiiVGVG~~~-f~  213 (352)
                      .    +...+.   .++-+.|.+||||..+ |+
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            1    222222   7789999999999653 54

>1jey_B KU80; double-strand DNA break repair, non-homologous END-joining, protein/nucleic acid complex, alpha/beta domain, beta barrel; HET: DNA; 2.50A {Homo sapiens} SCOP: b.131.1.2 c.62.1.4 PDB: 1jeq_B*

Probab=94.44  E-value=0.12  Score=53.11  Aligned_cols=142  Identities=13%  Similarity=0.138  Sum_probs=88.5

Q ss_pred             eccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccc---cCCC-ccceeeecCCCCCC-------
Q 018644           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVL---FDGD-CIRCYGFGDDTTRD-------  117 (352)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~---yd~d-~ip~~GFGa~~~~~-------  117 (352)
                      -.++++||.+.|=.             .. +....+..+.|...+..+++.   .... .+-++.||...+..       
T Consensus         8 e~iv~~iDvS~SM~-------------~~-d~~~~srl~~ak~~i~~~i~~ki~~~~~D~vGlv~f~~~~~~~plt~d~~   73 (565)
T 1jey_B            8 AAVVLCMDVGFTMS-------------NS-IPGIESPFEQAKKVITMFVQRQVFAENKDEIALVLFGTDGTDNPLSGGDQ   73 (565)
T ss_dssp             EEEEEEEECCGGGG-------------CC-BTTBCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCTTTC
T ss_pred             eEEEEEEECChHhc-------------cc-CCCCCCcHHHHHHHHHHHHHHHhcCCCCCEEEEEEEccCCCCCccccccC
Confidence            56899999987632             11 011468999999999988883   4444 99999999865321       


Q ss_pred             -CCcccCCCCCCCCCCHHHHHHHHHhhCCceeee-cCCCcHHHHHHHHHHHHHc--CCce--EEEEEEeCCccCCccHHH
Q 018644          118 -EGVFSFQENDSPCQGFEHVLECYRKNVPNVQYF-GPTSYAPMVEAAVDIVEES--GGLH--HVLVIITSGQVATGSQQE  191 (352)
Q Consensus       118 -~~~f~~~~~~p~~~G~~gvl~~Y~~~l~~v~l~-gPt~fapiI~~a~~~a~~~--~~~Y--~VLlIitDG~i~d~~~~~  191 (352)
                       .+++-+.+-.  .... .+++...+   .++.+ +.|.+...|..|++..++.  ..++  -++++||||.-+--..+.
T Consensus        74 y~~i~vl~~l~--~~~~-~~l~~l~~---~l~~~~~~t~i~~al~~A~~~l~~~~~~~k~~~krIiLlTDg~~~~~~~~~  147 (565)
T 1jey_B           74 YQNITVHRHLM--LPDF-DLLEDIES---KIQPGSQQADFLDALIVSMDVIQHETIGKKFEKRHIEIFTDLSSRFSKSQL  147 (565)
T ss_dssp             STTEEEEEEEE--CCCH-HHHHHHHT---TCCCCSSCCCHHHHHHHHHHHHHHHSSSSCCSEEEEEEECCCCSCCCCTTH
T ss_pred             CCceEEeecCC--CCCH-HHHHHHHh---hccCCCccccHHHHHHHHHHHHHHHhhcccccccEEEEEeCCCCCCCHHHH
Confidence             1221111100  0111 34444333   23344 6899999999999988765  3334  578999999644101233


Q ss_pred             HHHH---hcCCcEEE-EEeecCC
Q 018644          192 QETI---SSYPLSIV-LVGVGDG  210 (352)
Q Consensus       192 ~~~i---S~~PlSIi-iVGVG~~  210 (352)
                      .+++   .+.-+.|. +||+|..
T Consensus       148 ~~~a~~l~~~gI~i~~vig~g~~  170 (565)
T 1jey_B          148 DIIIHSLKKCDISLQFFLPFSLG  170 (565)
T ss_dssp             HHHHHHHHHTTEEEEEEESSCCC
T ss_pred             HHHHHHHHhcCcEEEEEeccCCC
Confidence            3333   77889999 8999854

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=94.13  E-value=0.022  Score=41.23  Aligned_cols=44  Identities=25%  Similarity=0.560  Sum_probs=32.1

Q ss_pred             ccCCcccCcccCCCCeee-cCCC-----CCchhhhhcC------CCCCCCccccCC
Q 018644          303 AEAQRCCICCEDEKDTAF-ECGH-----MSCIKCALRM------PQCPFCREEITT  346 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~~~-pCGH-----~~C~~C~~~~------~~CP~CR~~i~~  346 (352)
                      ++...|.||++...+..+ ||.+     .+=..|+.++      ..||+||..+.-
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            456789999987655555 8754     3556788876      579999998753

>1yvr_A RO autoantigen, 60-kDa SS-A/RO ribonucleoprotein, 60 kDa; heat repeat, VON willebrand factor A, rossmann fold, midas motif', RNA binding protein; 1.95A {Xenopus laevis} SCOP: a.118.25.1 c.62.1.5 PDB: 1yvp_A 2i91_A

Probab=93.99  E-value=0.24  Score=50.42  Aligned_cols=135  Identities=15%  Similarity=0.164  Sum_probs=77.5

Q ss_pred             ceeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCCccceeeecCCCCCCCCcccCCCC
Q 018644           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQEN  126 (352)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d~ip~~GFGa~~~~~~~~f~~~~~  126 (352)
                      ...+++++||-|+|=..  . ..          .... .+.++.-.++ .+..-..|.+-++.|+....    ..+++++
T Consensus       367 ~~~~v~lvvD~SgSM~~--~-~~----------~~~l-~~~~~Aa~l~-~~~~~~~d~vglv~Fs~~~~----~~~~t~~  427 (538)
T 1yvr_A          367 TGKRFLLAIDVSASMNQ--R-VL----------GSIL-NASVVAAAMC-MLVARTEKDSHMVAFSDEML----PCPITVN  427 (538)
T ss_dssp             CCCCEEEEEECSGGGGS--B-ST----------TSSC-BHHHHHHHHH-HHHHHHCSSEEEEEESSSEE----CCSCCTT
T ss_pred             CCceEEEEEECccccCC--C-CC----------CCcH-HHHHHHHHHH-HHHhccCCceEEEEECCCce----EcCCCCc
Confidence            34788999999888432  1 00          0111 2333322222 22222334788889986321    2334332


Q ss_pred             CCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcCCceEEEEEEeCCccCCcc---HHHHHHH---hcCCc
Q 018644          127 DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGS---QQEQETI---SSYPL  200 (352)
Q Consensus       127 ~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~~~Y~VLlIitDG~i~d~~---~~~~~~i---S~~Pl  200 (352)
                          .++..+++.-..    + ..|-|+++..|..+.+.    ....-++|+||||..++-.   .+..+.+   .+.++
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                246666654432    2 57889999988887765    2345688999999765411   1222233   36788


Q ss_pred             EEEEEeecCCCcc
Q 018644          201 SIVLVGVGDGPWE  213 (352)
Q Consensus       201 SIiiVGVG~~~f~  213 (352)
                      .+++||+|..+..
T Consensus       495 ~l~~igig~~~~~  507 (538)
T 1yvr_A          495 KLIVCAMTSNGFS  507 (538)
T ss_dssp             EEEEEECSSSSEE
T ss_pred             EEEEEEecCCCCc
Confidence            8999999987654

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=89.30  E-value=0.12  Score=40.38  Aligned_cols=30  Identities=27%  Similarity=0.591  Sum_probs=23.8

Q ss_pred             cCCcccCcccC-CCCee---ecCCCCCchhhhhc
Q 018644          304 EAQRCCICCED-EKDTA---FECGHMSCIKCALR  333 (352)
Q Consensus       304 ~~~~C~IC~~~-~~~~~---~pCGH~~C~~C~~~  333 (352)
                      ++..|.||.+. ..+++   +.|+|.||..|+..
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            45789999974 44544   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=85.24  E-value=0.39  Score=37.02  Aligned_cols=31  Identities=35%  Similarity=0.808  Sum_probs=26.4

Q ss_pred             ccCCcccCcccCCCCeee-cC----CCCCchhhhhc
Q 018644          303 AEAQRCCICCEDEKDTAF-EC----GHMSCIKCALR  333 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~~~-pC----GH~~C~~C~~~  333 (352)
                      .....|.+|.++..+.-| .|    +|.||..|.+.
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            456899999999999888 77    57799999884

>2nvo_A RO sixty-related protein, RSR; alpha helical repeats, VON willebrand factor A domain, beta- RNA binding protein; 1.89A {Deinococcus radiodurans}

Probab=81.03  E-value=2.4  Score=43.08  Aligned_cols=137  Identities=12%  Similarity=0.102  Sum_probs=77.4

Q ss_pred             ceeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCCccceeeecCCCCCCCCcccCCCC
Q 018644           47 VRYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQEN  126 (352)
Q Consensus        47 ~~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d~ip~~GFGa~~~~~~~~f~~~~~  126 (352)
                      ...+++|+||-|+|=.+.      + ...    ....+ ..++-..++-++.. ..|.+-++.|++....    .+++++
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            347889999999884310      0 000    11234 34444455544333 3336777889874221    123322


Q ss_pred             CCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcCCceEEEEEEeCCccCCccHHHHHHH------hcCCc
Q 018644          127 DSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGSQQEQETI------SSYPL  200 (352)
Q Consensus       127 ~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~~~Y~VLlIitDG~i~d~~~~~~~~i------S~~Pl  200 (352)
                          .++.++++.-   ...  ..|-|+++..|+.+.+    ...+.-+++|||||+.++-.....+++      .+.++
T Consensus       424 ----~~l~~~l~~l---~~~--~~ggTdi~~~l~~a~~----~~~~~~~vIliTD~~~~~g~~~~~~al~~~r~~~~~~~  490 (535)
T 2nvo_A          424 ----DTLESAMQKA---QSV--SFGGTDCAQPILWAAQ----ERLDVDTFVVYTDNETWAGQVHPTVALDQYAQKMGRAP  490 (535)
T ss_dssp             ----CCHHHHHHHT---CCS--SBCCCCTTHHHHHHHH----TTCCCSEEEEEESSCCCCCSSCHHHHHHHHHHHHSCCC
T ss_pred             ----hhHHHHHHHH---hhC--CCCCccHHHHHHHHHH----hcCCCCEEEEEeCCCccCCCCCHHHHHHHHHHhhCCCC
Confidence                4555554432   222  3689999988876633    334567889999997654211122233      46799


Q ss_pred             EEEEEeecCCCcc
Q 018644          201 SIVLVGVGDGPWE  213 (352)
Q Consensus       201 SIiiVGVG~~~f~  213 (352)
                      .+++||||.....
T Consensus       491 klv~i~l~~~~~~  503 (535)
T 2nvo_A          491 KLIVVGLTATEFS  503 (535)
T ss_dssp             EEEEEETTCSCCC
T ss_pred             eEEEEeccCCCcc
Confidence            9999999986433

---

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	352
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-	4e-06
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	5e-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 = 46.5 bits (110), Expect = 1e-07
 Identities = 19/54 (35%), Positives = 23/54 (42%), Gaps = 6/54 (11%)

Query: 304 EAQRCCICCEDEKDTAF-ECGHMSCIKC-----ALRMPQCPFCREEITTRRRVY 351
             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: 303 AEAQRCCICCEDEKDTAF--ECGHMSCIKCALRM----PQCPFCREEITT 346
             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 = 41.4 bits (97), Expect = 4e-06
 Identities = 13/47 (27%), Positives = 16/47 (34%), Gaps = 2/47 (4%)

Query: 301 EVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALR-MPQCPFCREEIT 345
           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 = 39.1 bits (91), Expect = 5e-05
 Identities = 16/59 (27%), Positives = 19/59 (32%), Gaps = 6/59 (10%)

Query: 300 AEVAEAQRCCICCEDEKDTA-FECGHMSCIKCALRM-----PQCPFCREEITTRRRVYP 352
           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: 307 RCCICCEDEKDTAF-ECGHMSCIKCALRM-------PQCPFCREEITTR 347
            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: 304 EAQRCCICCEDEKD-----TAFECGHMSCIKCALRM----PQCPFCREEIT 345
           +   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	352
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	98.92
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	98.92
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	98.84
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	98.8
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.72
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	98.69
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	98.68
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.61
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	98.59
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.58
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	98.56
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	98.52
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.05
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	97.99
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	97.95
d1shux_	181	Capillary morphogenesis protein 2 domain {Human (H	97.94
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	97.83
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	97.32
d1atza_	184	von Willebrand factor A3 domain, vWA3 {Human (Homo	97.31
d1jeya2	220	Ku70 subunit N-terminal domain {Human (Homo sapien	97.05
d1v7pc_	193	Integrin alpha2-beta1 {Human (Homo sapiens) [TaxId	96.95
d1q0pa_	209	Complement factor B domain {Human (Homo sapiens) [	96.82
d1pt6a_	192	Integrin alpha1-beta1 {Human (Homo sapiens) [TaxId	96.54
d1mf7a_	194	Integrin alpha M (CR3, CD11b/CD18, Mac-1 alpha sub	96.46
d1ijba_	202	von Willebrand factor A1 domain, vWA1 {Human (Homo	96.42
d1jeyb2	236	Ku80 subunit N-terminal domain {Human (Homo sapien	95.84
d1n3ya_	189	Integrin alpha-x beta2 {Human (Homo sapiens) [TaxI	95.75
d1mjna_	179	Integrin CD11a/CD18 (Leukocyte function associated	94.81
d1yvra2	174	60-kda SS-A/Ro ribonucleoprotein, RoRNP {African c	93.0
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	83.1

>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=98.92  E-value=1.7e-10  Score=87.74  Aligned_cols=46  Identities=41%  Similarity=0.947  Sum_probs=39.4

Q ss_pred             CCcccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCCeeec
Q 018644          305 AQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITTRRRV  350 (352)
Q Consensus       305 ~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~~i~i  350 (352)
                      ...|+||++...++++ +|||.||..|+.++     ..||+||..+...-.+
T Consensus        23 ~~~C~IC~~~~~~~~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~i   74 (79)
T d1fbva4          23 FQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI   74 (79)
T ss_dssp             TTBCTTTSSSBCCEECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCCCS
T ss_pred             CCCCccCCCcCCCeEEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCcee
Confidence            3579999999999888 99999999999765     4699999999886443

>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=98.92  E-value=2.6e-10  Score=81.27  Aligned_cols=44  Identities=27%  Similarity=0.577  Sum_probs=39.0

Q ss_pred             cCCcccCcccCCCCeee-cCCCCCchhhhhcC-CCCCCCccccCCe
Q 018644          304 EAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-PQCPFCREEITTR  347 (352)
Q Consensus       304 ~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-~~CP~CR~~i~~~  347 (352)
                      +..+|+||++...++++ ||||.||..|+.+. ..||+||+++...
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            44799999999999887 99999999999887 5799999998754

>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=98.84  E-value=2.8e-10  Score=88.10  Aligned_cols=47  Identities=32%  Similarity=0.611  Sum_probs=40.9

Q ss_pred             cccccCCcccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018644          300 AEVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITT  346 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~  346 (352)
                      .++.+...|+||++...+++. +|||.||+.|+.++     ..||+||.++..
T Consensus        18 ~d~~~~l~C~IC~~~~~~pv~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~   70 (86)
T d1rmda2          18 AHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFP   70 (86)
T ss_dssp             HHHHHHTBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             hhhccCcCCccCCcchhcceecCCCChhhHHHHHHHHhhCCCcCcccCCCCCh
Confidence            455567899999999999988 99999999999865     579999998864

>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=81.18  Aligned_cols=45  Identities=36%  Similarity=0.809  Sum_probs=37.7

Q ss_pred             CCcccCcccCCCCe-ee-cCCCCCchhhhhcC----CCCCCCccccCCeee
Q 018644          305 AQRCCICCEDEKDT-AF-ECGHMSCIKCALRM----PQCPFCREEITTRRR  349 (352)
Q Consensus       305 ~~~C~IC~~~~~~~-~~-pCGH~~C~~C~~~~----~~CP~CR~~i~~~i~  349 (352)
                      ..+|+||++...+. +. +|||.||..|+.++    .+||+||.++.....
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            45799999988764 44 99999999999977    689999999987543

>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=98.72  E-value=1.2e-09  Score=86.58  Aligned_cols=46  Identities=35%  Similarity=0.845  Sum_probs=39.2

Q ss_pred             ccccCCcccCcccCCCCeee-cCCCCCchhhhhcC-------CCCCCCccccCC
Q 018644          301 EVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-------PQCPFCREEITT  346 (352)
Q Consensus       301 ~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-------~~CP~CR~~i~~  346 (352)
                      .+.+...|+||++...+++. +|||.||..|+.++       ..||+||.++..
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 99999999998754       379999998864

>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=98.69  E-value=2.4e-09  Score=78.18  Aligned_cols=43  Identities=26%  Similarity=0.629  Sum_probs=34.0

Q ss_pred             cCCcccCcccC---CCC--eee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018644          304 EAQRCCICCED---EKD--TAF-ECGHMSCIKCALRM-----PQCPFCREEITT  346 (352)
Q Consensus       304 ~~~~C~IC~~~---~~~--~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~  346 (352)
                      ++..|+||++.   ..+  +++ +|||.||..|+.++     ..||+||+++..
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            46799999974   122  344 99999999999876     469999999865

>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=98.68  E-value=2.9e-09  Score=83.46  Aligned_cols=47  Identities=21%  Similarity=0.596  Sum_probs=40.6

Q ss_pred             cccccCCcccCcccCCCCee-e-cCCCCCchhhhhcC--CCCCCCccccCC
Q 018644          300 AEVAEAQRCCICCEDEKDTA-F-ECGHMSCIKCALRM--PQCPFCREEITT  346 (352)
Q Consensus       300 ~~~~~~~~C~IC~~~~~~~~-~-pCGH~~C~~C~~~~--~~CP~CR~~i~~  346 (352)
                      ..+.+...|+||++...+++ + +|||.||..|+.++  .+||.||.++..
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            45677899999999999986 4 89999999999887  569999998765

>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=98.61  E-value=1e-08  Score=72.53  Aligned_cols=44  Identities=25%  Similarity=0.730  Sum_probs=35.5

Q ss_pred             cccCCcccCcccCCCC---ee-e-cCCCCCchhhhhcC----CCCCCCccccC
Q 018644          302 VAEAQRCCICCEDEKD---TA-F-ECGHMSCIKCALRM----PQCPFCREEIT  345 (352)
Q Consensus       302 ~~~~~~C~IC~~~~~~---~~-~-pCGH~~C~~C~~~~----~~CP~CR~~i~  345 (352)
                      .++..+|+||++...+   +. + +|||.||..|+.++    ..||+||.++.
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            3567789999997654   33 4 69999999999987    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=98.59  E-value=7.5e-09  Score=78.26  Aligned_cols=46  Identities=15%  Similarity=0.065  Sum_probs=40.4

Q ss_pred             ccccCCcccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018644          301 EVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITT  346 (352)
Q Consensus       301 ~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~  346 (352)
                      ++.+...|+||++..++++. +|||.||+.|+.++     ..||.||+++..
T Consensus         3 eiP~~l~CpIc~~l~~dPv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~   54 (80)
T d2c2la2           3 DIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQ   54 (80)
T ss_dssp             CCCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CCCccccCcCcCchhhhhcccCCcCeecHHHHHHHHhcCCccCCCccccccc
Confidence            34578999999999999988 99999999998875     469999999865

>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=98.58  E-value=6.1e-09  Score=72.73  Aligned_cols=41  Identities=29%  Similarity=0.583  Sum_probs=32.5

Q ss_pred             CcccCcccCCCC----eee-cCCCCCchhhhhcC-----CCCCCCccccCC
Q 018644          306 QRCCICCEDEKD----TAF-ECGHMSCIKCALRM-----PQCPFCREEITT  346 (352)
Q Consensus       306 ~~C~IC~~~~~~----~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~  346 (352)
                      ++|+||++....    +.. +|||.||..|+.++     .+||+||+++..
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 89999999999876     359999999864

>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=98.56  E-value=8e-09  Score=73.16  Aligned_cols=42  Identities=10%  Similarity=0.123  Sum_probs=37.2

Q ss_pred             CcccCcccCCCCeee--cCCCCCchhhhhcC----CCCCCCccccCCe
Q 018644          306 QRCCICCEDEKDTAF--ECGHMSCIKCALRM----PQCPFCREEITTR  347 (352)
Q Consensus       306 ~~C~IC~~~~~~~~~--pCGH~~C~~C~~~~----~~CP~CR~~i~~~  347 (352)
                      +.|+||++...+++.  .|||.||++|+.++    ..||+||+++...
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    6899999998763

>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=98.52  E-value=1.5e-08  Score=76.18  Aligned_cols=47  Identities=26%  Similarity=0.322  Sum_probs=40.7

Q ss_pred             ccccCCcccCcccCCCCeee-cCCCCCchhhhhcC-----CCCCCCccccCCe
Q 018644          301 EVAEAQRCCICCEDEKDTAF-ECGHMSCIKCALRM-----PQCPFCREEITTR  347 (352)
Q Consensus       301 ~~~~~~~C~IC~~~~~~~~~-pCGH~~C~~C~~~~-----~~CP~CR~~i~~~  347 (352)
                      +..++..|+||++...+++. +|||.||+.|+.++     ..||.||.++...
T Consensus         4 eiP~~l~CpIc~~~m~dPV~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~   56 (78)
T d1t1ha_           4 EFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             CCSSSSSCTTTSCCCSSEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             CCCccCCCcCcCchhhCceEccCCCcchHHHHHHHHHHCCCCCCcccccCCcc
Confidence            34578999999999999987 99999999999864     4599999998763

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.05  E-value=5.2e-07  Score=71.98  Aligned_cols=42  Identities=31%  Similarity=0.666  Sum_probs=32.0

Q ss_pred             CCcccCcccCCCC------------------eee-cCCCCCchhhhhcC---------CCCCCCccccCC
Q 018644          305 AQRCCICCEDEKD------------------TAF-ECGHMSCIKCALRM---------PQCPFCREEITT  346 (352)
Q Consensus       305 ~~~C~IC~~~~~~------------------~~~-pCGH~~C~~C~~~~---------~~CP~CR~~i~~  346 (352)
                      +..|+||++...+                  +.+ +|||.||..|+..+         .+||+||..+..
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            4579999985432                  234 99999999999875         259999987644

>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=97.99  E-value=1.3e-06  Score=68.30  Aligned_cols=46  Identities=15%  Similarity=0.054  Sum_probs=39.9

Q ss_pred             ccccCCcccCcccCCCCeee-cCCC-CCchhhhhcC----CCCCCCccccCC
Q 018644          301 EVAEAQRCCICCEDEKDTAF-ECGH-MSCIKCALRM----PQCPFCREEITT  346 (352)
Q Consensus       301 ~~~~~~~C~IC~~~~~~~~~-pCGH-~~C~~C~~~~----~~CP~CR~~i~~  346 (352)
                      +..+...|+||.+...++|. +||| .||+.|+.++    ..||+||+++..
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            45578999999999999987 8876 5999999986    569999999875

>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=97.95  E-value=1.4e-06  Score=66.65  Aligned_cols=25  Identities=28%  Similarity=0.583  Sum_probs=22.6

Q ss_pred             cCCCCCchhhhhcC----CCCCCCccccC
Q 018644          321 ECGHMSCIKCALRM----PQCPFCREEIT  345 (352)
Q Consensus       321 pCGH~~C~~C~~~~----~~CP~CR~~i~  345 (352)
                      +|||.|+..|+.++    ..||+||++..
T Consensus        56 ~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~   84 (88)
T d3dplr1          56 VCNHAFHFHCISRWLKTRQVCPLDNREWE   84 (88)
T ss_dssp             TTSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             cccCcccHHHHHHHHHHCCcCCCCCCccc
Confidence            99999999999987    67999999865

>d1shux_ c.62.1.1 (X:) Capillary morphogenesis protein 2 domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Capillary morphogenesis protein 2 domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.94  E-value=1.4e-05  Score=67.40  Aligned_cols=142  Identities=15%  Similarity=0.183  Sum_probs=92.9

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCC-C-ccceeeecCCCCCCCCcccCCC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDG-D-CIRCYGFGDDTTRDEGVFSFQE  125 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~-d-~ip~~GFGa~~~~~~~~f~~~~  125 (352)
                      .+.+++.||-|.|-+                     +.+++....+..++..|.. + .+-+.-|+...   ..+|+++.
T Consensus         5 ~~Div~llD~S~Sm~---------------------~~~~~~k~~~~~~~~~~~~~~~rvglv~fs~~~---~~~~~l~~   60 (181)
T d1shux_           5 AFDLYFVLDKSGSVA---------------------NNWIEIYNFVQQLAERFVSPEMRLSFIVFSSQA---TIILPLTG   60 (181)
T ss_dssp             CEEEEEEEECSGGGG---------------------GGHHHHHHHHHHHHHHCCCTTEEEEEEEESSSE---EEEEEEEC
T ss_pred             ceEEEEEEeCCCCcc---------------------cCHHHHHHHHHHHHHHhcCCCCEEEEEEeecce---EEEEEecC
Confidence            478899999664421                     1234445555555666655 4 89999998853   22466642


Q ss_pred             CCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHc--CCceEEEEEEeCCccCCccHH-HHHHH---hcCC
Q 018644          126 NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES--GGLHHVLVIITSGQVATGSQQ-EQETI---SSYP  199 (352)
Q Consensus       126 ~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~--~~~Y~VLlIitDG~i~d~~~~-~~~~i---S~~P  199 (352)
                            ..+.+.+. .+.++.+...|-|+...-++.+.+..+..  .....++++||||..++.... ..+..   .+.-
T Consensus        61 ------~~~~~~~~-l~~l~~~~~~g~t~~~~al~~~~~~~~~~~~~~~~~~ivliTDG~~~~~~~~~~~~~~~~~k~~g  133 (181)
T d1shux_          61 ------DRGKISKG-LEDLKRVSPVGETYIHEGLKLANEQIQKAGGLKTSSIIIALTDGKLDGLVPSYAEKEAKISRSLG  133 (181)
T ss_dssp             ------CHHHHHHH-HHHHHTCCCCSCCCHHHHHHHHHHHHHHHTGGGSCEEEEEEECCCCCTTHHHHHHHHHHHHHHTT
T ss_pred             ------CHHHHHHH-hhhcccccCCCcchHHHHHHHHHHHhhhcccCCCceEEEEecCCCCCCCccHHHHHHHHHHHHCC
Confidence                  22223222 23345567788999999999998877643  234678899999998773222 12222   5678


Q ss_pred             cEEEEEeecCCCcchhccccC
Q 018644          200 LSIVLVGVGDGPWESIQKFHD  220 (352)
Q Consensus       200 lSIiiVGVG~~~f~~m~~LD~  220 (352)
                      +.|+.||||+.+-..|+.+-+
T Consensus       134 v~v~~vgig~~~~~~L~~ia~  154 (181)
T d1shux_         134 ASVYCVGVLDFEQAQLERIAD  154 (181)
T ss_dssp             CEEEEEECSSCCHHHHHHHSS
T ss_pred             CEEEEEEeCccCHHHHHHHhC
Confidence            999999999888888887765

>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=97.83  E-value=2.5e-06  Score=60.48  Aligned_cols=44  Identities=23%  Similarity=0.490  Sum_probs=35.3

Q ss_pred             ccCCcccCcccCCCCeee-cC-----CCCCchhhhhcC------CCCCCCccccCC
Q 018644          303 AEAQRCCICCEDEKDTAF-EC-----GHMSCIKCALRM------PQCPFCREEITT  346 (352)
Q Consensus       303 ~~~~~C~IC~~~~~~~~~-pC-----GH~~C~~C~~~~------~~CP~CR~~i~~  346 (352)
                      ++...|.||++...+... ||     +|.|+..|+.++      .+||+||+++..
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            466889999997766554 65     499999999986      469999998753

>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=97.32  E-value=2.7e-05  Score=59.48  Aligned_cols=40  Identities=20%  Similarity=0.487  Sum_probs=30.1

Q ss_pred             cCCcccCcccCCCC---eee-cCCCCCchhhhhcC------------CCCCCCccc
Q 018644          304 EAQRCCICCEDEKD---TAF-ECGHMSCIKCALRM------------PQCPFCREE  343 (352)
Q Consensus       304 ~~~~C~IC~~~~~~---~~~-pCGH~~C~~C~~~~------------~~CP~CR~~  343 (352)
                      ....|+||++....   +.+ +|||.||..|+...            .+||.|+-+
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            45689999997643   345 89999999998753            259986543

>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=97.31  E-value=0.0013  Score=55.30  Aligned_cols=141  Identities=14%  Similarity=0.162  Sum_probs=94.4

Q ss_pred             eccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccC---CC-ccceeeecCCCCCCCCcccCC
Q 018644           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSFQ  124 (352)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd---~d-~ip~~GFGa~~~~~~~~f~~~  124 (352)
                      +.+++.||-|.|-+                    ...++++...+-+++..|+   .+ .+-+..||....   ..|+|+
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            67888999776632                    1346777777777888885   34 799999987532   235554


Q ss_pred             CCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHc-----CCceEEEEEEeCCccCCccHHHHHHHhcCC
Q 018644          125 ENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES-----GGLHHVLVIITSGQVATGSQQEQETISSYP  199 (352)
Q Consensus       125 ~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~-----~~~Y~VLlIitDG~i~d~~~~~~~~iS~~P  199 (352)
                      .    ....+.++++-.+ ++  ..+|.|+....++.+.+..-..     ...--|+++||||.-+|-..+..+.+-+.-
T Consensus        60 ~----~~~~~~l~~~i~~-l~--~~gg~t~~~~al~~~~~~~~~~~~g~R~~~~kvvvlltdg~~~d~~~~~a~~lk~~g  132 (184)
T d1atza_          60 V----VPEKAHLLSLVDV-MQ--REGGPSQIGDALGFAVRYLTSEMHGARPGASKAVVILVTDVSVDSVDAAADAARSNR  132 (184)
T ss_dssp             C----CCCHHHHHHHHHT-CC--CCCCCCCHHHHHHHHHHHHHSCCTTCCTTSEEEEEEEECSCCSSCCHHHHHHHHHTT
T ss_pred             c----cccHHHHHHHHHh-hh--hcccccchhhhhhHHHHHhhhhhcCCCCCCceEEEEEEecCccchhhHHHHHHHHcC
Confidence            2    2355666554433 22  2568999999999999887532     123568899999987764444445554457


Q ss_pred             cEEEEEeecC-CCcchhcccc
Q 018644          200 LSIVLVGVGD-GPWESIQKFH  219 (352)
Q Consensus       200 lSIiiVGVG~-~~f~~m~~LD  219 (352)
                      +-|+.||||+ .+-..|+.+-
T Consensus       133 i~v~~igiG~~~~~~~L~~ia  153 (184)
T d1atza_         133 VTVFPIGIGDRYDAAQLRILA  153 (184)
T ss_dssp             EEEEEEEESSSSCHHHHHHHT
T ss_pred             cEEEEEEeCCcCCHHHHHHHh
Confidence            8899999997 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=97.05  E-value=0.0017  Score=55.30  Aligned_cols=149  Identities=13%  Similarity=0.163  Sum_probs=85.4

Q ss_pred             cceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhcccccc----CCCccceeeecCCCCCCC----Cc--
Q 018644           51 LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF----DGDCIRCYGFGDDTTRDE----GV--  120 (352)
Q Consensus        51 ~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~y----d~d~ip~~GFGa~~~~~~----~~--  120 (352)
                      +++.||-|.|=             +..+......+++.|+.++-.+++.+    ..|++-++.||...+...    ++  
T Consensus         5 ivf~ID~S~SM-------------~~~d~~~~~s~~~~~~~~~~~~~~~~i~~~~~d~vglv~f~t~~~~~~~~~~~~~~   71 (220)
T d1jeya2           5 LIFLVDASKAM-------------FESQSEDELTPFDMSIQCIQSVYISKIISSDRDLLAVVFYGTEKDKNSVNFKNIYV   71 (220)
T ss_dssp             EEEEEECSGGG-------------GCCCSSSSCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCCTTEEE
T ss_pred             EEEEEECCccc-------------CccccCCCCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEEeccccccCCCcccchhh
Confidence            67899988762             21111234577888888888888776    444999999998754221    11  


Q ss_pred             -ccCCCCCCCCCCHHHHHHHHHhhCC---------ceeeecCCCcHHHHHHHHHHHHHcCCc--eEEEEEEeCCccC---
Q 018644          121 -FSFQENDSPCQGFEHVLECYRKNVP---------NVQYFGPTSYAPMVEAAVDIVEESGGL--HHVLVIITSGQVA---  185 (352)
Q Consensus       121 -f~~~~~~p~~~G~~gvl~~Y~~~l~---------~v~l~gPt~fapiI~~a~~~a~~~~~~--Y~VLlIitDG~i~---  185 (352)
                       ++++  .+   . ...++..+....         .....|.|++...|..|.+..++...+  .-++++||||+-+   
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         123457899999999999988764322  3578899999743   


Q ss_pred             CccHHHHHHH------hcCCcEEEEEeecCC-CcchhccccC
Q 018644          186 TGSQQEQETI------SSYPLSIVLVGVGDG-PWESIQKFHD  220 (352)
Q Consensus       186 d~~~~~~~~i------S~~PlSIiiVGVG~~-~f~~m~~LD~  220 (352)
                      | .....+++      ...-+.|-.+|||.. +|+ ++.|+.
T Consensus       146 ~-~~~~~~~~~~a~~~~~~gv~i~~i~ig~~~~~d-~~~f~~  185 (220)
T d1jeya2         146 D-SAKASRARTKAGDLRDTGIFLDLMHLKKPGGFD-ISLFYR  185 (220)
T ss_dssp             C-HHHHHHHHHHHHHHHHHTEEEEEEEBCCTTCCC-TTTTGG
T ss_pred             c-chhhHHHHHHHHHHhhhcceEEEEEeCCCCCcc-hhhhHH
Confidence            2 12222222      334666777777744 344 334433

>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=96.95  E-value=0.0047  Score=51.86  Aligned_cols=114  Identities=13%  Similarity=0.092  Sum_probs=74.3

Q ss_pred             HHHHHHHHhccccccC---CC-ccceeeecCCCCCCCCcccCCCCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHH
Q 018644           86 YQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEA  161 (352)
Q Consensus        86 Yq~ai~~ig~vl~~yd---~d-~ip~~GFGa~~~~~~~~f~~~~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~  161 (352)
                      ++++.+.+-++++.|+   ++ .+-+.-||....   ..|+|+.    -...++++++=.+..+.  -+|.|+...-|+.
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            5556666677788886   34 899999998643   3466652    23566776655443221  2357999999999


Q ss_pred             HHHHHH--Hc---CCceEEEEEEeCCccCCccHHHHHHH---hcCCcEEEEEeecC
Q 018644          162 AVDIVE--ES---GGLHHVLVIITSGQVATGSQQEQETI---SSYPLSIVLVGVGD  209 (352)
Q Consensus       162 a~~~a~--~~---~~~Y~VLlIitDG~i~d~~~~~~~~i---S~~PlSIiiVGVG~  209 (352)
                      |.+..-  ..   .+.-.|+++||||..+| .....++.   .+.-+-++-||||+
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            888642  11   12246888999999888 34444444   56677777888875

>d1q0pa_ c.62.1.1 (A:) Complement factor B domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Complement factor B domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.82  E-value=0.0015  Score=55.06  Aligned_cols=147  Identities=12%  Similarity=0.067  Sum_probs=87.4

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhcccccc---CCC-ccceeeecCCCCCCCCcccC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF---DGD-CIRCYGFGDDTTRDEGVFSF  123 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~y---d~d-~ip~~GFGa~~~~~~~~f~~  123 (352)
                      ++++++.+|-|.|=+                    .+.++++...+-.++..|   +.. .+-+..||....   ..++|
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            478899999987732                    234566656666666655   455 899999997532   12444


Q ss_pred             CCCCCCCCCHHHHHHHHHhh-CCceeeecCCCcHHHHHHHHHHHHHc--------CCceEEEEEEeCCccCCc--cHHHH
Q 018644          124 QENDSPCQGFEHVLECYRKN-VPNVQYFGPTSYAPMVEAAVDIVEES--------GGLHHVLVIITSGQVATG--SQQEQ  192 (352)
Q Consensus       124 ~~~~p~~~G~~gvl~~Y~~~-l~~v~l~gPt~fapiI~~a~~~a~~~--------~~~Y~VLlIitDG~i~d~--~~~~~  192 (352)
                      +.  ........+.++-.++ .......|-|+...-|+.+.+.....        ...-.|++++|||.-++.  .....
T Consensus        58 ~~--~~~~~~~~l~~~i~~i~~~~~~~~g~t~~~~al~~a~~~~~~~~~~~~~~~~~~~kvvvl~TDG~~~~~~~~~~~~  135 (209)
T d1q0pa_          58 SE--ADSSNADWVTKQLNEINYEDHKLKSGTNTKKALQAVYSMMSWPDDVPPEGWNRTRHVIILMTDGLHNMGGDPITVI  135 (209)
T ss_dssp             TS--GGGGCHHHHHHHHHTCCTTSCSCTTCCCHHHHHHHHHHHHCCTTSSCCTTGGGCEEEEEEEECSCCCSSSCTHHHH
T ss_pred             cc--chhhHHHHHHHHHHHhhhccccCCCCchHHHHHHHHHHHHHhhhccCccccCCCceEEEEEcCCCccCCCChHHHH
Confidence            32  1123344444333332 12334678899999999998876432        112468899999987652  11111


Q ss_pred             HHH-------------hcCCcEEEEEeecC-CCcchhcccc
Q 018644          193 ETI-------------SSYPLSIVLVGVGD-GPWESIQKFH  219 (352)
Q Consensus       193 ~~i-------------S~~PlSIiiVGVG~-~~f~~m~~LD  219 (352)
                      +.+             ....+.|+.||||+ .+...|+.+=
T Consensus       136 ~~~~~~~~~~~~~~~~~~~gi~i~~vgvg~~~~~~~L~~iA  176 (209)
T d1q0pa_         136 DEIRDLLYIGKDRKNPREDYLDVYVFGVGPLVNQVNINALA  176 (209)
T ss_dssp             HHHHHHTTCSCBTTBCCGGGEEEEEEECSSCCCHHHHHHHS
T ss_pred             HHHHHhhhhHHHHHHHHhcCCceEEecCCccCCHHHHHHHH
Confidence            111             11236788899984 4666666664

>d1pt6a_ c.62.1.1 (A:) Integrin alpha1-beta1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Integrin alpha1-beta1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.54  E-value=0.011  Score=49.31  Aligned_cols=114  Identities=20%  Similarity=0.256  Sum_probs=72.6

Q ss_pred             HHHHHHHHhccccccC---CC-ccceeeecCCCCCCCCcccCCCCCCCCCCHHHHHHHHHhhCCceeeec-CCCcHHHHH
Q 018644           86 YQEVIYITGKELVLFD---GD-CIRCYGFGDDTTRDEGVFSFQENDSPCQGFEHVLECYRKNVPNVQYFG-PTSYAPMVE  160 (352)
Q Consensus        86 Yq~ai~~ig~vl~~yd---~d-~ip~~GFGa~~~~~~~~f~~~~~~p~~~G~~gvl~~Y~~~l~~v~l~g-Pt~fapiI~  160 (352)
                      ++++.+.+-.++..|+   ++ .+-+.-||....   ..|+|+.    ....+.++++-.+...   ..| .++-+--++
T Consensus        17 ~~~~k~f~~~~i~~~~i~~~~~rv~vv~fs~~~~---~~~~l~~----~~~~~~~~~~i~~~~~---~~g~~~~~~~al~   86 (192)
T d1pt6a_          17 WDSVTAFLNDLLKRMDIGPKQTQVGIVQYGENVT---HEFNLNK----YSSTEEVLVAAKKIVQ---RGGRQTMTALGTD   86 (192)
T ss_dssp             HHHHHHHHHHHHTTSCBSTTSBEEEEEEESSSEE---EEECTTT----CSSHHHHHHHHHTCCC---CCCSSCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCCcEEEEEEEeccEE---EEEeCCc----chhhHHHHHHHhhhhh---hhhhccchHHHHH
Confidence            6677777777888885   34 899999987542   2466643    1345677666555332   334 466666666


Q ss_pred             HHHHHHH--HcC---CceEEEEEEeCCccCCccHHHHHHH---hcCCcEEEEEeecCC
Q 018644          161 AAVDIVE--ESG---GLHHVLVIITSGQVATGSQQEQETI---SSYPLSIVLVGVGDG  210 (352)
Q Consensus       161 ~a~~~a~--~~~---~~Y~VLlIitDG~i~d~~~~~~~~i---S~~PlSIiiVGVG~~  210 (352)
                      .+.+..-  ..+   +.=.|+|+||||..+| .....+++   -+.-+-|+.||||..
T Consensus        87 ~~~~~~~~~~~g~R~~~~kviillTDG~~~d-~~~~~~~a~~lk~~gi~v~~igvg~~  143 (192)
T d1pt6a_          87 TARKEAFTEARGARRGVKKVMVIVTDGESHD-NHRLKKVIQDCEDENIQRFSIAILGS  143 (192)
T ss_dssp             HHHHTTTSGGGTCCTTCEEEEEEEESSCCSC-SHHHHHHHHHHHHTTEEEEEEEECHH
T ss_pred             HHHHhhhccccCCCCCcceEEEEEecCCCCc-chhhHHHHHHHHHCCCeEEEEEEecc
Confidence            6655421  111   1236888999999888 45555544   567889999999843

>d1mf7a_ c.62.1.1 (A:) Integrin alpha M (CR3, CD11b/CD18, Mac-1 alpha subunit) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Integrin alpha M (CR3, CD11b/CD18, Mac-1 alpha subunit)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.46  E-value=0.00063  Score=57.54  Aligned_cols=141  Identities=18%  Similarity=0.210  Sum_probs=88.8

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC--ccceeeecCCCCCCCCcccCCC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD--CIRCYGFGDDTTRDEGVFSFQE  125 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d--~ip~~GFGa~~~~~~~~f~~~~  125 (352)
                      .++++++||-|.|-+                    ...++++++.+..++..++.+  .+-+..|+....   ..|+|+.
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            478999999887732                    134777888888888888766  899999987642   2355531


Q ss_pred             CCCCCCCHHHHHHHHHhhCCcee-eecCCCcHHHHHHHHHHHHH--c---CCceEEEEEEeCCccCCccHHHHHHH---h
Q 018644          126 NDSPCQGFEHVLECYRKNVPNVQ-YFGPTSYAPMVEAAVDIVEE--S---GGLHHVLVIITSGQVATGSQQEQETI---S  196 (352)
Q Consensus       126 ~~p~~~G~~gvl~~Y~~~l~~v~-l~gPt~fapiI~~a~~~a~~--~---~~~Y~VLlIitDG~i~d~~~~~~~~i---S  196 (352)
                      .    ...+++++    .+.++. .+|-|+...-|+++.+....  .   ...=.|++|||||..++......+++   .
T Consensus        62 ~----~~~~~~~~----~i~~i~~~~~~t~~~~al~~~~~~~~~~~~~~~~~~~kvvvliTDG~~~~~~~~~~~~~~~~~  133 (194)
T d1mf7a_          62 F----QNNPNPRS----LVKPITQLLGRTHTATGIRKVVRELFNITNGARKNAFKILVVITDGEKFGDPLGYEDVIPEAD  133 (194)
T ss_dssp             H----HHSCCHHH----HHTTCCCCCSCBCHHHHHHHHHHTTTSGGGTCCTTSEEEEEEEESSCCBSCSSCGGGTHHHHH
T ss_pred             c----CCHHHHHH----HHhhhhhhhccchHHHHHHHHHHHHHhhhccCCCCCceEEEEEecCCCCCCchhHHHHHHHHH
Confidence            0    01112333    333343 46778888888888776521  1   12236889999998765212222333   6


Q ss_pred             cCCcEEEEEeecCC--Ccchhcccc
Q 018644          197 SYPLSIVLVGVGDG--PWESIQKFH  219 (352)
Q Consensus       197 ~~PlSIiiVGVG~~--~f~~m~~LD  219 (352)
                      +.-+-|+.||||+.  ....+++|.
T Consensus       134 ~~gv~i~~VGi~~~~~~~~~~~~L~  158 (194)
T d1mf7a_         134 REGVIRYVIGVGDAFRSEKSRQELN  158 (194)
T ss_dssp             HTTEEEEEEEESGGGCSHHHHHHHH
T ss_pred             HcCCeeEEEecCCcccccccHHHHH
Confidence            67889999999976  344555554

>d1ijba_ c.62.1.1 (A:) von Willebrand factor A1 domain, vWA1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: von Willebrand factor A1 domain, vWA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.42  E-value=0.0087  Score=50.69  Aligned_cols=141  Identities=7%  Similarity=0.059  Sum_probs=89.2

Q ss_pred             eccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhcccccc---CCC-ccceeeecCCCCCCCCcccCC
Q 018644           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF---DGD-CIRCYGFGDDTTRDEGVFSFQ  124 (352)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~y---d~d-~ip~~GFGa~~~~~~~~f~~~  124 (352)
                      +++++.||-|.|=+                    ...++.+.+.+..++..|   ..+ ++-+.-||....   ..|+|+
T Consensus        14 ~Dl~fvlD~S~S~~--------------------~~~f~~~k~fv~~~i~~l~~~~~~~rvavv~y~~~~~---~~~~l~   70 (202)
T d1ijba_          14 LDLVFLLDGSSRLS--------------------EAEFEVLKAFVVDMMERLRVSQKWVRVAVVEYHDGSH---AYIGLK   70 (202)
T ss_dssp             EEEEEEEECBTTSC--------------------HHHHHHHHHHHHHHHHTBCBSTTSEEEEEEEESSSEE---EEECTT
T ss_pred             eeEEEEEeCCCCCC--------------------HHHHHHHHHHHHHHHHHhccCCCCcEEEEEEEeccee---eecCCc
Confidence            88999999776632                    123455555666677777   445 899999988642   236664


Q ss_pred             CCCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHc---CCceEEEEEEeCCccCCcc-HHHHHHH---hc
Q 018644          125 ENDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES---GGLHHVLVIITSGQVATGS-QQEQETI---SS  197 (352)
Q Consensus       125 ~~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~---~~~Y~VLlIitDG~i~d~~-~~~~~~i---S~  197 (352)
                      .    ...-+.+.+..++. +. .-++.|+-...|+.+.+..-..   ...--++++||||...+.. +...+++   .+
T Consensus        71 ~----~~~~~~l~~~i~~l-~~-~~g~~~~~~~al~~~~~~~~~~~~r~~~~k~vivitdg~~~~~~~~~~~~~~~~l~~  144 (202)
T d1ijba_          71 D----RKRPSELRRIASQV-KY-AGSQVASTSEVLKYTLFQIFSKIDRPEASRIALLLMASQEPQRMSRNFVRYVQGLKK  144 (202)
T ss_dssp             C----CCCHHHHHHHHHTC-CC-CCBSCCCHHHHHHHHHHHTSSSCSCTTSEEEEEEEECCCCCGGGCTTHHHHHHHHHH
T ss_pred             c----cchHHHHHHHHHhh-hh-hhhccccHHHHHHHHHHHhhhhccCCCCcceEEEecccCCCcccchHHHHHHHHHHH
Confidence            2    23456666655553 22 1234678888888887765322   1345688999999875521 2233333   66


Q ss_pred             CCcEEEEEeec-CCCcchhccc
Q 018644          198 YPLSIVLVGVG-DGPWESIQKF  218 (352)
Q Consensus       198 ~PlSIiiVGVG-~~~f~~m~~L  218 (352)
                      ..+-|+.|||| +.+-..|+.+
T Consensus       145 ~gv~i~~Vgig~~~~~~~L~~i  166 (202)
T d1ijba_         145 KKVIVIPVGIGPHANLKQIRLI  166 (202)
T ss_dssp             TTEEEEEEEESTTSCHHHHHHH
T ss_pred             cCCeEEEEEeCCcCCHHHHHHH
Confidence            78999999998 4455666666

>d1jeyb2 c.62.1.4 (B:6-241) Ku80 subunit N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Ku80 subunit N-terminal domain
domain: Ku80 subunit N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.84  E-value=0.024  Score=48.03  Aligned_cols=149  Identities=11%  Similarity=0.064  Sum_probs=84.3

Q ss_pred             cceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhcccccc---CCC-ccceeeecCCCCCCCCc----cc
Q 018644           51 LIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLF---DGD-CIRCYGFGDDTTRDEGV----FS  122 (352)
Q Consensus        51 ~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~y---d~d-~ip~~GFGa~~~~~~~~----f~  122 (352)
                      ++++||.+.|=.             .. ++...+.++.|.+.+..+++..   ++. ++-+..||...+.....    +.
T Consensus         5 iv~~lD~S~SM~-------------~~-~~~~~srl~~ak~~~~~~v~~~~~~~~~d~vglV~f~~~~t~~~~~~~~~~~   70 (236)
T d1jeyb2           5 VVLCMDVGFTMS-------------NS-IPGIESPFEQAKKVITMFVQRQVFAENKDEIALVLFGTDGTDNPLSGGDQYQ   70 (236)
T ss_dssp             EEEEEECCGGGG-------------CC-BTTBCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCTTTCST
T ss_pred             EEEEEECChhhc-------------cC-CCCCCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEcCCCcccccccccccc
Confidence            678899887732             11 1234689999999999998876   555 99999999875432110    00


Q ss_pred             -CCC-CCCCCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHc--CCc--eEEEEEEeCCccC--C-ccHHHHH
Q 018644          123 -FQE-NDSPCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEES--GGL--HHVLVIITSGQVA--T-GSQQEQE  193 (352)
Q Consensus       123 -~~~-~~p~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~--~~~--Y~VLlIitDG~i~--d-~~~~~~~  193 (352)
                       ... ........ +.++........  -.+.+.+.--|..|++.....  +.+  --++++||||+-+  + ......+
T Consensus        71 ~i~~~~~~~~~~~-~~~~~~~~~~~~--~~~~~~~~~al~~a~~~~~~~~~~~~~~~r~IiL~TDG~~~~~~~~~~~~a~  147 (236)
T d1jeyb2          71 NITVHRHLMLPDF-DLLEDIESKIQP--GSQQADFLDALIVSMDVIQHETIGKKFEKRHIEIFTDLSSRFSKSQLDIIIH  147 (236)
T ss_dssp             TEEEEEEEECCCH-HHHHHHHTTCCC--CSSCCCHHHHHHHHHHHHHHHSSSSCCSEEEEEEECCCCSCCCCTTHHHHHH
T ss_pred             eEEEEeccccchh-hHHHHHhhhccc--cccccchhHHHHHHHHHHHHhhhcccccccEEEEEecCCCCcChHHHHHHHH
Confidence             000 00011122 233322222221  234688888888888877643  112  2466889999642  2 0122223


Q ss_pred             HHhcCCcEEEEEeecCCCcchhc
Q 018644          194 TISSYPLSIVLVGVGDGPWESIQ  216 (352)
Q Consensus       194 ~iS~~PlSIiiVGVG~~~f~~m~  216 (352)
                      .+.+.-+.|-+||+|..+.....
T Consensus       148 ~l~~~~I~i~~ig~g~~~~~~~~  170 (236)
T d1jeyb2         148 SLKKCDISLQFFLPFSLGKEDGS  170 (236)
T ss_dssp             HHHHTTEEEEEEESSCCC-----
T ss_pred             HHHHcCCEEEEEecCCcCCCccc
Confidence            33677889999999977655443

>d1n3ya_ c.62.1.1 (A:) Integrin alpha-x beta2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Integrin alpha-x beta2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.75  E-value=0.0041  Score=51.96  Aligned_cols=132  Identities=17%  Similarity=0.197  Sum_probs=82.0

Q ss_pred             eeccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC--ccceeeecCCCCCCCCcccCCC
Q 018644           48 RYKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD--CIRCYGFGDDTTRDEGVFSFQE  125 (352)
Q Consensus        48 ~~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d--~ip~~GFGa~~~~~~~~f~~~~  125 (352)
                      +..+++.||-|.|=+                    ...++++...+-.++..++.+  .+-+.-||....   ..|+|+.
T Consensus         2 e~DivfvlD~S~Sm~--------------------~~~~~~~k~~~~~~i~~l~~~~~rv~vv~fs~~~~---~~~~l~~   58 (189)
T d1n3ya_           2 EQDIVFLIDGSGSIS--------------------SRNFATMMNFVRAVISQFQRPSTQFSLMQFSNKFQ---THFTFEE   58 (189)
T ss_dssp             CEEEEEEEECCTTSC--------------------HHHHHHHHHHHHHHHTTSCTTTEEEEEEEESSSEE---EEECHHH
T ss_pred             CccEEEEEeCCCCCC--------------------hHHHHHHHHHHHHHHHHhCCCCCEEEEEEeeccce---eeccccc
Confidence            467888999776621                    234777888888888889866  799999988643   1244431


Q ss_pred             CCCCCCCHHHHHHHHHhhCCcee-eecCCCcHHHHHHHHHHHH--Hc--CCce-EEEEEEeCCccCCccHHHHHHH---h
Q 018644          126 NDSPCQGFEHVLECYRKNVPNVQ-YFGPTSYAPMVEAAVDIVE--ES--GGLH-HVLVIITSGQVATGSQQEQETI---S  196 (352)
Q Consensus       126 ~~p~~~G~~gvl~~Y~~~l~~v~-l~gPt~fapiI~~a~~~a~--~~--~~~Y-~VLlIitDG~i~d~~~~~~~~i---S  196 (352)
                      .    ...+.+    .+.+..+. ..|.|+...-|+.+.+...  ..  ...+ .++||||||..++......+++   -
T Consensus        59 ~----~~~~~~----~~~i~~~~~~~g~t~~~~al~~a~~~~f~~~~~~r~~~~kvivllTDG~~~~~~~~~~~~~~~~~  130 (189)
T d1n3ya_          59 F----RRSSNP----LSLLASVHQLQGFTYTATAIQNVVHRLFHASYGARRDAAKILIVITDGKKEGDSLDYKDVIPMAD  130 (189)
T ss_dssp             H----HHCSSG----GGGGTTCCCCCSCBCHHHHHHHHHTTTTSGGGTCCTTSEEEEEEEESSCCBSCSSCHHHHHHHHH
T ss_pred             c----ccHHHH----HHHHHhhhhhhhhchHHHHHHHHHHHHhhhhcCCCCCCceEEEEEecCCCCCCcccHHHHHHHHH
Confidence            0    000111    22333333 5678888887777765432  11  1122 5888999998765323344444   5


Q ss_pred             cCCcEEEEEeecCC
Q 018644          197 SYPLSIVLVGVGDG  210 (352)
Q Consensus       197 ~~PlSIiiVGVG~~  210 (352)
                      +.-+-|+.||+|+.
T Consensus       131 ~~gv~i~~Vgig~~  144 (189)
T d1n3ya_         131 AAGIIRYAIGVGLA  144 (189)
T ss_dssp             HTTCEEEEEEESGG
T ss_pred             HCCCceEEEecccc
Confidence            57889999999864

>d1mjna_ c.62.1.1 (A:) Integrin CD11a/CD18 (Leukocyte function associated antigen-1, LFA-1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Integrin CD11a/CD18 (Leukocyte function associated antigen-1, LFA-1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.81  E-value=0.013  Score=48.50  Aligned_cols=127  Identities=16%  Similarity=0.181  Sum_probs=81.1

Q ss_pred             eccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCC--ccceeeecCCCCCCCCcccCCCC
Q 018644           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGD--CIRCYGFGDDTTRDEGVFSFQEN  126 (352)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d--~ip~~GFGa~~~~~~~~f~~~~~  126 (352)
                      +++.+.||-|.|=+                    ...++++...+-.++..+..+  .+-+.-||.....   .|+|+..
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            67888999887632                    234777777788888888766  8999999875421   2555310


Q ss_pred             CCCCCCHHHHHHHHHhhCCcee-eecCCCcHHHHHHHHHHH-HHc----CCceEEEEEEeCCccCCccHHHHHHHhcCCc
Q 018644          127 DSPCQGFEHVLECYRKNVPNVQ-YFGPTSYAPMVEAAVDIV-EES----GGLHHVLVIITSGQVATGSQQEQETISSYPL  200 (352)
Q Consensus       127 ~p~~~G~~gvl~~Y~~~l~~v~-l~gPt~fapiI~~a~~~a-~~~----~~~Y~VLlIitDG~i~d~~~~~~~~iS~~Pl  200 (352)
                          ...+.+.+    .+.+++ ..|-|+...-|+.+.+.. ...    .+.=.|+++||||..+|. .   ...+..-+
T Consensus        60 ----~~~~~~~~----~i~~i~~~~g~t~~~~AL~~~~~~~f~~~~g~R~~~~kvvvllTDG~s~d~-~---~~~~~~~i  127 (179)
T d1mjna_          60 ----VKRKDPDA----LLKHVKHMLLLTNTFGAINYVATEVFREELGARPDATKVLIIITDGEATDS-G---NIDAAKDI  127 (179)
T ss_dssp             ----HHHCCHHH----HHTTCCCCCBCCCHHHHHHHHHHHTSSGGGTCCTTSEEEEEEEESSCCSSC-S---CCGGGTTS
T ss_pred             ----cchHHHHH----HHhhhhcccCcchHHHHHHHHHHHHhchhcCCCCCCCeEEEEEECCCCccc-c---hHHHHhcC
Confidence                11122333    333443 467899999888887643 111    122478889999998873 1   11145577


Q ss_pred             EEEEEeecCC
Q 018644          201 SIVLVGVGDG  210 (352)
Q Consensus       201 SIiiVGVG~~  210 (352)
                      -+..||||..
T Consensus       128 ~~~~igvg~~  137 (179)
T d1mjna_         128 IRYIIGIGKH  137 (179)
T ss_dssp             EEEEEEESGG
T ss_pred             ccceEEeccc
Confidence            8888999875

>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=93.00  E-value=0.29  Score=39.47  Aligned_cols=134  Identities=13%  Similarity=0.149  Sum_probs=74.3

Q ss_pred             eccceEEEccCCCCCCCCCCCCCCCcccccCCCCCchHHHHHHHHhccccccCCCccceeeecCCCCCCCCcccCCCCCC
Q 018644           49 YKLIFGIDFTASNLWAGKFSFENESLHTIVDGDTLNPYQEVIYITGKELVLFDGDCIRCYGFGDDTTRDEGVFSFQENDS  128 (352)
Q Consensus        49 ~~~~vaIDfT~SN~~~g~~~~~~~SLH~~~~~~~~N~Yq~ai~~ig~vl~~yd~d~ip~~GFGa~~~~~~~~f~~~~~~p  128 (352)
                      ..++++||-|.|=++  ..           ........+.|+......+.  ..+.+-++.|+....+    .+..+.  
T Consensus         6 ~~~vl~iD~SGSM~~--~~-----------~~~~~~~~~~a~~~~~~~~~--~~~~~~vv~F~~~~~~----~~~~~~--   64 (174)
T d1yvra2           6 KRFLLAIDVSASMNQ--RV-----------LGSILNASVVAAAMCMLVAR--TEKDSHMVAFSDEMLP----CPITVN--   64 (174)
T ss_dssp             CCEEEEEECSGGGGS--BS-----------TTSSCBHHHHHHHHHHHHHH--HCSSEEEEEESSSEEC----CSCCTT--
T ss_pred             CeEEEEEECccccCC--cc-----------cCccHHHHHHHHHHHHHhhc--cCCcEEEEEecCCccc----cccCcc--
Confidence            468899999988431  10           01224555555443333332  2236777899885321    222221  


Q ss_pred             CCCCHHHHHHHHHhhCCceeeecCCCcHHHHHHHHHHHHHcCCceEEEEEEeCCccCCcc---HHHHHHH---hcCCcEE
Q 018644          129 PCQGFEHVLECYRKNVPNVQYFGPTSYAPMVEAAVDIVEESGGLHHVLVIITSGQVATGS---QQEQETI---SSYPLSI  202 (352)
Q Consensus       129 ~~~G~~gvl~~Y~~~l~~v~l~gPt~fapiI~~a~~~a~~~~~~Y~VLlIitDG~i~d~~---~~~~~~i---S~~PlSI  202 (352)
                        ..+.++++.-    ... ..|-|+++..|+.+.+    ...++-++++||||+.+.-.   .+..+..   .+-|.-+
T Consensus        65 --~~~~~~~~~~----~~~-~~ggT~i~~al~~a~~----~~~~~~~ivllTDg~~~~g~~~~~~~l~~y~~~~~~~~~~  133 (174)
T d1yvra2          65 --MLLHEVVEKM----SDI-TMGSTDCALPMLWAQK----TNTAADIFIVFTDCETNVEDVHPATALKQYREKMGIPAKL  133 (174)
T ss_dssp             --SCHHHHHHHH----TTC-CCSCCCTTHHHHHHHH----TTCCCSEEEEEECCCCCSSSCCHHHHHHHHHHHHTCCCEE
T ss_pred             --chHHHHHHHh----hcc-ccccccHHHHHHHHHh----hhccCCEEEEEeCCCccCCCCCHHHHHHHHHHHcCCCcEE
Confidence              3466665432    222 2455888877766543    34456788999999865311   1111222   4568899


Q ss_pred             EEEeecCCCcch
Q 018644          203 VLVGVGDGPWES  214 (352)
Q Consensus       203 iiVGVG~~~f~~  214 (352)
                      ++|+++...+..
T Consensus       134 ~~i~l~~~g~~~  145 (174)
T d1yvra2         134 IVCAMTSNGFSI  145 (174)
T ss_dssp             EEEECSSSSEES
T ss_pred             EEEECcCCCCcc
Confidence            999987765553

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.10  E-value=0.23  Score=35.56  Aligned_cols=30  Identities=37%  Similarity=0.823  Sum_probs=25.5

Q ss_pred             cCCcccCcccCCCCeee-cC----CCCCchhhhhc
Q 018644          304 EAQRCCICCEDEKDTAF-EC----GHMSCIKCALR  333 (352)
Q Consensus       304 ~~~~C~IC~~~~~~~~~-pC----GH~~C~~C~~~  333 (352)
                      ....|.+|.++..|.-| .|    +|.||..|...
T Consensus         7 ~~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~   41 (80)
T d2cs3a1           7 GPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRE   41 (80)
T ss_dssp             CSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHH
T ss_pred             CceeeeeehhhhcCCceEeCCCCcCCceeccccHH
Confidence            34789999999999888 77    57799999874