Citrus Sinensis ID: 025034

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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-------26
Protein Sequence
MEGIEGESSGAGRFTLPPMRISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIYCRSSVRPQHQWPVNQKLFTMDVLYLHDKPGPDNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLVKKSPAADTTNGEDTVPVTSSQ
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccEEEEEEccccHHHHHHHcccccccccHHHHHHHHHHHHHHHHHcccccccEEEEEEcccccEEEEcccccHHHHHHHHHccccccccccccHHHHHHHHHHHHccccccccEEEEEEEEEccccccccccccccccEEEEEEEEccccccccccHHHHHHHHHHHHccccccEEEEEEcccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccEEEEEEEccHHcccHHHccccccccccHHHHHHHHHHHHHHHHHccccccEEEEEEEccccHHHcccccccHHHHHHHHHccccccccccccHHHHHHHHHHHcccccccccEEEEEEEEEcccccccccccccccEEEEEEEEEEcccccccccHHHHHHHHHHHHHcccccEEEEEEcccHHHHHHHHHHHHHcccccccccccccccHHHHccccccccccccccccccccc
Coil and Loop (DISEMBL)
megiegessgagrftlppmrisnediifcVDVDAESLVEMkstgfngkpitRLDAMKQAILLFVNsklsinpdhrFAFVTLAKTASWLRKEFSSDIESTLTAVRGisatsacgqaDLTHLFKLASHEAKKSRAQNRILRVILIYCrssvrpqhqwpvnqklfTMDVLYlhdkpgpdncpqKVYDALVDALEHvsenegyifesGQGLARILFRQMCVllshpqqrcvqddvdipkslvkkspaadttngedtvpvtssq
Flexible Loop (DISEMBL)
megiegessgagrftlppmrisnEDIIFCVDVDAESLVEMKstgfngkpiTRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASheakksraqnrILRVILIYCRssvrpqhqwpvNQKLFTMDVLYLHDKPGPDNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLvkkspaadttngedtvpvtssq
Low Complexity Region (SEG)
MEGIEGESSGAGRFTLPPMRISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIYCRSSVRPQHQWPVNQKLFTMDVLYLHDKPGPDNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLVKKSPAADTTNGEDTVPVTSSQ
Disordered region (IsUnstruct)
******************MRISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEA***RAQNRILRVILIYCRSSVRPQHQWPVNQKLFTMDVLYLHDKPGPDNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDD*****************************
Disordered Region (DISOPRED)
********************ISNEDIIFCVDVDAESL************ITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASH*A**SRAQNRILRVILIYCRSSVRPQHQWPVNQKLFTMDVLYLHDKPGPDNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDDV****************************
Disordered Region (DISEMBL)
*********GAGRFTLPPMRISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIYCRSSVRPQHQWPVNQKLFTMDVLYLHDKPGPDNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLVKK*******************
Disordered Region (DISPRO)
*************FTLPPMRISNEDIIFCVDVDAESLVEMKS*GFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIYCRSSVRPQHQWPVNQKLFTMDVLYLHDKPGPDNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLVK********************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEGIEGESSGAGRFTLPPMRISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIYCRSSVRPQHQWPVNQKLFTMDVLYLHDKPGPDNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLVKKSPAADTTNGEDTVPVTSSQ
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	259	2.2.26 [Sep-21-2011]
Q5M8J0	318	BRISC and BRCA1-A complex	yes	no	0.772	0.628	0.287	9e-13
Q6DJG6	328	BRISC and BRCA1-A complex	N/A	no	0.772	0.609	0.287	2e-12
Q08E57	332	BRISC and BRCA1-A complex	yes	no	0.764	0.596	0.269	6e-11
Q9NWV8	329	BRISC and BRCA1-A complex	yes	no	0.768	0.604	0.274	7e-11
Q5R7L2	329	BRISC and BRCA1-A complex	yes	no	0.768	0.604	0.274	7e-11
Q5XIJ6	334	BRISC and BRCA1-A complex	yes	no	0.776	0.601	0.263	1e-10
Q3UI43	333	BRISC and BRCA1-A complex	yes	no	0.772	0.600	0.262	1e-10
B0KWQ2	329	BRISC and BRCA1-A complex	yes	no	0.768	0.604	0.270	3e-10
Q6AXK4	370	BRISC and BRCA1-A complex	yes	no	0.760	0.532	0.267	2e-07

>sp|Q5M8J0|BABA1_XENTR BRISC and BRCA1-A complex member 1 OS=Xenopus tropicalis GN=babam1 PE=2 SV=1

 Score = 73.9 bits (180), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 63/219 (28%), Positives = 96/219 (43%), Gaps = 19/219 (8%)

Query: 24  EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAK 83
           E +I C+D+ +E +   K   FNG     L++ ++ I +FV +K  I+  H FA V    
Sbjct: 84  EKVIICLDL-SEEMSTQKLESFNGSKANALNSSQKMIEMFVRTKHKIDKRHEFALVVANN 142

Query: 84  TASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQN-------R 136
            A WL   F+SD     + +  +  T+ C   +L  LF L     +     N        
Sbjct: 143 EAMWLSG-FTSDPREVCSCLYDLE-TNVCESFNLEGLFNLIQQRTEFPVTDNVQTIPPPY 200

Query: 137 ILRVILIYCRSSVRPQHQWPVNQK------LFTMDVLYLHDKPGPDNCPQKVYDALVDAL 190
           ++R+ILIY R + +P      N K       F  DV+Y+H+    +    K   +    L
Sbjct: 201 VVRIILIYSRPASQPALNLTDNMKKMLQCPYFFFDVIYIHNGSEEEELRWKDIFSFFSGL 260

Query: 191 EHVSENEGYIFE-SGQGLARILFRQMCVLLSHPQQRCVQ 228
           +  S+   Y +E S  G A  L   M  LL+HP QR  Q
Sbjct: 261 D--SKGTSYKYEVSITGPALELHNCMARLLAHPLQRPFQ 297

Component of the BRCA1-A complex, a complex that specifically recognizes 'Lys-63'-linked ubiquitinated histones H2A and H2AX at DNA lesions sites, leading to target the brca1-bard1 heterodimer to sites of DNA damage at double-strand breaks (DSBs). The BRCA1-A complex also possesses deubiquitinase activity that specifically removes 'Lys-63'-linked ubiquitin on histones H2A and H2AX. In the BRCA1-A complex, it is required for the complex integrity and its localization at DSBs. Probably also plays a role as a component of the BRISC complex, a multiprotein complex that specifically cleaves 'Lys-63'-linked ubiquitin. In these 2 complexes, it is probably required to maintain the stability of BRE/BRCC45 and help the 'Lys-63'-linked deubiquitinase activity mediated by brcc3/brcc36. component.
Xenopus tropicalis (taxid: 8364)

>sp|Q6DJG6|BABA1_XENLA BRISC and BRCA1-A complex member 1 OS=Xenopus laevis GN=babam1 PE=2 SV=1

 Score = 73.6 bits (179), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 63/219 (28%), Positives = 96/219 (43%), Gaps = 19/219 (8%)

Query: 24  EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAK 83
           E +I C+D+ +E +   K   FNG     L++ ++ I +FV +K  I+  H FA V    
Sbjct: 94  EKVIICLDL-SEEMSTQKLESFNGSKANALNSSQKMIEMFVRTKHKIDKRHEFALVVANN 152

Query: 84  TASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQN-------R 136
            A WL   F+SD     + +  +  T+ C   +L  LF L     +     N        
Sbjct: 153 EAMWLSG-FTSDPREVCSCLYDLE-TNVCESFNLEGLFNLIQQRTEFPVTDNVQTIPPPY 210

Query: 137 ILRVILIYCRSSVRPQHQWPVNQK------LFTMDVLYLHDKPGPDNCPQKVYDALVDAL 190
           ++R+ILIY R + +P      N K       F  DV+Y+H+    +    K       +L
Sbjct: 211 VVRIILIYSRPASQPALALTDNMKKMLQCPYFFFDVIYIHNGSEEEELCWKDIFGFFSSL 270

Query: 191 EHVSENEGYIFE-SGQGLARILFRQMCVLLSHPQQRCVQ 228
           +  S+   Y +E S  G A  L   M  LL+HP QR  Q
Sbjct: 271 D--SKGTSYKYEVSITGPALELHNCMARLLAHPLQRPFQ 307

Component of the BRCA1-A complex, a complex that specifically recognizes 'Lys-63'-linked ubiquitinated histones H2A and H2AX at DNA lesions sites, leading to target the brca1-bard1 heterodimer to sites of DNA damage at double-strand breaks (DSBs). The BRCA1-A complex also possesses deubiquitinase activity that specifically removes 'Lys-63'-linked ubiquitin on histones H2A and H2AX. In the BRCA1-A complex, it is required for the complex integrity and its localization at DSBs. Probably also plays a role as a component of the BRISC complex, a multiprotein complex that specifically cleaves 'Lys-63'-linked ubiquitin. In these 2 complexes, it is probably required to maintain the stability of BRE/BRCC45 and help the 'Lys-63'-linked deubiquitinase activity mediated by brcc3/brcc36. component.

Xenopus laevis (taxid: 8355)

>sp|Q08E57|BABA1_BOVIN BRISC and BRCA1-A complex member 1 OS=Bos taurus GN=BABAM1 PE=2 SV=1

 Score = 68.2 bits (165), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 60/223 (26%), Positives = 102/223 (45%), Gaps = 25/223 (11%)

Query: 24  EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAK 83
           E +I C+D+ +E +   K   FNG     L+  ++ I +FV +K  I+  H FA V +  
Sbjct: 96  EKVIICLDL-SEEMALPKLESFNGSKTNALNVSQKMIEMFVRTKHKIDKSHEFALVVVND 154

Query: 84  TASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQN-------R 136
             +WL    +SD     + +  +  T++C   +L  LF L   + +    +N        
Sbjct: 155 DTAWLSG-LTSDPRELCSCLYDLE-TASCSTFNLEGLFSLIQQKTELPVTENVQTIPPPY 212

Query: 137 ILRVILIYCRSSVRPQHQW--PVNQKL----FTMDVLYLHDKPGPDNCPQKV----YDAL 186
           ++R IL+Y R   +PQ     P+ +      F  DV+Y+H+  G D   +++      A 
Sbjct: 213 VVRTILVYSRPPCQPQFSLTEPMKKMFQCPYFFFDVVYIHN--GADEKEEEMSWKDMFAF 270

Query: 187 VDALEHVSENEGYIFESG-QGLARILFRQMCVLLSHPQQRCVQ 228
           + +L+  ++   Y +E    G A  L   M  LL+HP QR  Q
Sbjct: 271 MGSLD--TKGTSYKYEVALAGPALELHNCMAKLLAHPLQRPCQ 311

Component of the BRCA1-A complex, a complex that specifically recognizes 'Lys-63'-linked ubiquitinated histones H2A and H2AX at DNA lesions sites, leading to target the BRCA1-BARD1 heterodimer to sites of DNA damage at double-strand breaks (DSBs). The BRCA1-A complex also possesses deubiquitinase activity that specifically removes 'Lys-63'-linked ubiquitin on histones H2A and H2AX. In the BRCA1-A complex, it is required for the complex integrity and its localization at DSBs. Probably also plays a role as a component of the BRISC complex, a multiprotein complex that specifically cleaves 'Lys-63'-linked ubiquitin. In these 2 complexes, it is probably required to maintain the stability of BRE/BRCC45 and help the 'Lys-63'-linked deubiquitinase activity mediated by BRCC3/BRCC36. component.

Bos taurus (taxid: 9913)

>sp|Q9NWV8|BABA1_HUMAN BRISC and BRCA1-A complex member 1 OS=Homo sapiens GN=BABAM1 PE=1 SV=1

 Score = 67.8 bits (164), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 61/222 (27%), Positives = 103/222 (46%), Gaps = 23/222 (10%)

Query: 24  EDIIFCVDVDAE-SLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLA 82
           E +I C+D+  E SL +++S  FNG     L+  ++ I +FV +K  I+  H FA V + 
Sbjct: 93  EKVIICLDLSEEMSLPKLES--FNGSKTNALNVSQKMIEMFVRTKHKIDKSHEFALVVVN 150

Query: 83  KTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQN------- 135
              +WL    +SD     + +  +  T++C   +L  LF L   + +    +N       
Sbjct: 151 DDTAWLSG-LTSDPRELCSCLYDLE-TASCSTFNLEGLFSLIQQKTELPVTENVQTIPPP 208

Query: 136 RILRVILIYCRSSVRPQHQW--PVNQKL----FTMDVLYLHD--KPGPDNCPQKVYDALV 187
            ++R IL+Y R   +PQ     P+ +      F  DV+Y+H+  +   +    K   A +
Sbjct: 209 YVVRTILVYSRPPCQPQFSLTEPMKKMFQCPYFFFDVVYIHNGTEEKEEEMSWKDMFAFM 268

Query: 188 DALEHVSENEGYIFESG-QGLARILFRQMCVLLSHPQQRCVQ 228
            +L+  ++   Y +E    G A  L   M  LL+HP QR  Q
Sbjct: 269 GSLD--TKGTSYKYEVALAGPALELHNCMAKLLAHPLQRPCQ 308

Component of the BRCA1-A complex, a complex that specifically recognizes 'Lys-63'-linked ubiquitinated histones H2A and H2AX at DNA lesions sites, leading to target the BRCA1-BARD1 heterodimer to sites of DNA damage at double-strand breaks (DSBs). The BRCA1-A complex also possesses deubiquitinase activity that specifically removes 'Lys-63'-linked ubiquitin on histones H2A and H2AX. In the BRCA1-A complex, it is required for the complex integrity and its localization at DSBs. Probably also plays a role as a component of the BRISC complex, a multiprotein complex that specifically cleaves 'Lys-63'-linked ubiquitin. In these 2 complexes, it is probably required to maintain the stability of BRE/BRCC45 and help the 'Lys-63'-linked deubiquitinase activity mediated by BRCC3/BRCC36. component.

Homo sapiens (taxid: 9606)

>sp|Q5R7L2|BABA1_PONAB BRISC and BRCA1-A complex member 1 OS=Pongo abelii GN=BABAM1 PE=2 SV=1

 Score = 67.8 bits (164), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 61/222 (27%), Positives = 103/222 (46%), Gaps = 23/222 (10%)

Query: 24  EDIIFCVDVDAE-SLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLA 82
           E +I C+D+  E SL +++S  FNG     L+  ++ I +FV +K  I+  H FA V + 
Sbjct: 93  EKVIICLDLSEEMSLPKLES--FNGSKTNALNVSQKMIEMFVRTKHKIDKSHEFALVVVN 150

Query: 83  KTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQN------- 135
              +WL    +SD     + +  +  T++C   +L  LF L   + +    +N       
Sbjct: 151 DDTAWLSG-LTSDPRELCSCLYDLE-TASCSTFNLEGLFSLIQQKTELPVTENVQTIPPP 208

Query: 136 RILRVILIYCRSSVRPQHQW--PVNQKL----FTMDVLYLHD--KPGPDNCPQKVYDALV 187
            ++R IL+Y R   +PQ     P+ +      F  DV+Y+H+  +   +    K   A +
Sbjct: 209 YVVRTILVYSRPPCQPQFSLTEPMKKMFQCPYFFFDVVYIHNGTEEKEEEMSWKDMFAFM 268

Query: 188 DALEHVSENEGYIFESG-QGLARILFRQMCVLLSHPQQRCVQ 228
            +L+  ++   Y +E    G A  L   M  LL+HP QR  Q
Sbjct: 269 GSLD--TKGTSYKYEVALAGPALELHNCMAKLLAHPLQRPCQ 308

Component of the BRCA1-A complex, a complex that specifically recognizes 'Lys-63'-linked ubiquitinated histones H2A and H2AX at DNA lesions sites, leading to target the BRCA1-BARD1 heterodimer to sites of DNA damage at double-strand breaks (DSBs). The BRCA1-A complex also possesses deubiquitinase activity that specifically removes 'Lys-63'-linked ubiquitin on histones H2A and H2AX. In the BRCA1-A complex, it is required for the complex integrity and its localization at DSBs. Probably also plays a role as a component of the BRISC complex, a multiprotein complex that specifically cleaves 'Lys-63'-linked ubiquitin. In these 2 complexes, it is probably required to maintain the stability of BRE/BRCC45 and help the 'Lys-63'-linked deubiquitinase activity mediated by BRCC3/BRCC36. component.

Pongo abelii (taxid: 9601)

>sp|Q5XIJ6|BABA1_RAT BRISC and BRCA1-A complex member 1 OS=Rattus norvegicus GN=Babam1 PE=2 SV=1

 Score = 67.4 bits (163), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 58/220 (26%), Positives = 98/220 (44%), Gaps = 19/220 (8%)

Query: 24  EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAK 83
           E +I C+D+  E  V  K   FNG     L+  ++ + +FV +K  I+  H FA V +  
Sbjct: 98  EKVIICLDLSEEMSVP-KLESFNGSRTNALNVSQKMVEMFVRTKHKIDKSHEFALVVVND 156

Query: 84  TASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQN-------R 136
            ++WL    +SD     + +  +  T++C   +L  LF L   + +    +N        
Sbjct: 157 DSAWLSG-LTSDPRELCSCLYDLE-TASCSTFNLEGLFSLIQQKTELPVTENVQTIPPPY 214

Query: 137 ILRVILIYCRSSVRPQHQW--PVNQKL----FTMDVLYLHDKP--GPDNCPQKVYDALVD 188
           ++R IL+Y R   +PQ     P+ +      F  D++Y+H  P    D+   K   A + 
Sbjct: 215 VVRTILVYSRPPCQPQFSLTEPMKKMFQCPYFFFDIIYIHSGPEEKEDDMSWKDMFAFMG 274

Query: 189 ALEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQ 228
           +L+    +  Y   +  G A  L   +  LL+HP QR  Q
Sbjct: 275 SLDTKGTSYKYAV-ALAGPALELHNCVAKLLAHPLQRPCQ 313

Component of the BRCA1-A complex, a complex that specifically recognizes 'Lys-63'-linked ubiquitinated histones H2A and H2AX at DNA lesions sites, leading to target the BRCA1-BARD1 heterodimer to sites of DNA damage at double-strand breaks (DSBs). The BRCA1-A complex also possesses deubiquitinase activity that specifically removes 'Lys-63'-linked ubiquitin on histones H2A and H2AX. In the BRCA1-A complex, it is required for the complex integrity and its localization at DSBs. Probably also plays a role as a component of the BRISC complex, a multiprotein complex that specifically cleaves 'Lys-63'-linked ubiquitin. In these 2 complexes, it is probably required to maintain the stability of BRE/BRCC45 and help the 'Lys-63'-linked deubiquitinase activity mediated by BRCC3/BRCC36. component.

Rattus norvegicus (taxid: 10116)

>sp|Q3UI43|BABA1_MOUSE BRISC and BRCA1-A complex member 1 OS=Mus musculus GN=Babam1 PE=2 SV=1

 Score = 67.0 bits (162), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 58/221 (26%), Positives = 101/221 (45%), Gaps = 21/221 (9%)

Query: 24  EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAK 83
           E +I C+D+  E  V  K   FNG     L+  ++ + +FV +K  I+  H FA V +  
Sbjct: 97  EKVIICLDLSEEMSVP-KLESFNGSRTNALNVSQKMVEMFVRTKHKIDKSHEFALVVVND 155

Query: 84  TASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQN-------R 136
            ++WL    +SD     + +  +  T++C   +L  LF L   + +    +N        
Sbjct: 156 DSAWLSG-LTSDPRELCSCLYDLE-TASCSTFNLEGLFSLIQQKTELPVTENVQTIPPPY 213

Query: 137 ILRVILIYCRSSVRPQHQW--PVNQKL----FTMDVLYLHD--KPGPDNCPQKVYDALVD 188
           ++R IL+Y R   +PQ     P+ +      F  D++Y+H+  +   ++   K   A + 
Sbjct: 214 VVRTILVYSRPPCQPQFSLTEPMKKMFQCPYFFFDIVYIHNGTEEKEEDMSWKDMFAFMG 273

Query: 189 ALEHVSENEGYIFESG-QGLARILFRQMCVLLSHPQQRCVQ 228
           +L+  ++   Y +E    G A  L   M  LL+HP QR  Q
Sbjct: 274 SLD--TKGASYKYEVALAGPALELHNCMAKLLAHPLQRPCQ 312

Component of the BRCA1-A complex, a complex that specifically recognizes 'Lys-63'-linked ubiquitinated histones H2A and H2AX at DNA lesions sites, leading to target the BRCA1-BARD1 heterodimer to sites of DNA damage at double-strand breaks (DSBs). The BRCA1-A complex also possesses deubiquitinase activity that specifically removes 'Lys-63'-linked ubiquitin on histones H2A and H2AX. In the BRCA1-A complex, it is required for the complex integrity and its localization at DSBs. Probably also plays a role as a component of the BRISC complex, a multiprotein complex that specifically cleaves 'Lys-63'-linked ubiquitin. In these 2 complexes, it is probably required to maintain the stability of BRE/BRCC45 and help the 'Lys-63'-linked deubiquitinase activity mediated by BRCC3/BRCC36. component.

Mus musculus (taxid: 10090)

>sp|B0KWQ2|BABA1_CALJA BRISC and BRCA1-A complex member 1 OS=Callithrix jacchus GN=BABAM1 PE=3 SV=2

 Score = 65.5 bits (158), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 60/222 (27%), Positives = 103/222 (46%), Gaps = 23/222 (10%)

Query: 24  EDIIFCVDVDAE-SLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLA 82
           E +I C+D+  E SL +++S  FNG     L+  ++ I +FV +K  I+  H FA V + 
Sbjct: 93  EKVIICLDLSEEMSLPKLES--FNGSKTNALNISQKMIEMFVRTKHKIDKSHEFALVVVN 150

Query: 83  KTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQN------- 135
              +WL    +SD     + +  +  T++C   +L  LF L   + +    +N       
Sbjct: 151 DDTAWLSG-LTSDPRELCSCLYDLE-TASCSTFNLEGLFSLIQQKTEFPVTENVQTIPPP 208

Query: 136 RILRVILIYCRSSVRPQHQW--PVNQKL----FTMDVLYLHD--KPGPDNCPQKVYDALV 187
            ++R IL+Y R   +PQ     P+ +      F  D++Y+H+  +   +    K   A +
Sbjct: 209 YVVRTILVYSRPPCQPQFSLTEPMKKMFQCPYFFFDLVYIHNGAEEKEEEMSWKDMFAFM 268

Query: 188 DALEHVSENEGYIFESG-QGLARILFRQMCVLLSHPQQRCVQ 228
            +L+  ++   Y +E    G A  L   M  LL+HP QR  Q
Sbjct: 269 GSLD--TKGTSYKYEVALAGPALELHNCMVKLLAHPLQRPCQ 308

Component of the BRCA1-A complex, a complex that specifically recognizes 'Lys-63'-linked ubiquitinated histones H2A and H2AX at DNA lesions sites, leading to target the BRCA1-BARD1 heterodimer to sites of DNA damage at double-strand breaks (DSBs). The BRCA1-A complex also possesses deubiquitinase activity that specifically removes 'Lys-63'-linked ubiquitin on histones H2A and H2AX. In the BRCA1-A complex, it is required for the complex integrity and its localization at DSBs. Probably also plays a role as a component of the BRISC complex, a multiprotein complex that specifically cleaves 'Lys-63'-linked ubiquitin. In these 2 complexes, it is probably required to maintain the stability of BRE/BRCC45 and help the 'Lys-63'-linked deubiquitinase activity mediated by BRCC3/BRCC36. component.

Callithrix jacchus (taxid: 9483)

>sp|Q6AXK4|BABA1_DANRE BRISC and BRCA1-A complex member 1 OS=Danio rerio GN=babam1 PE=2 SV=2

 Score = 56.6 bits (135), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 60/224 (26%), Positives = 96/224 (42%), Gaps = 27/224 (12%)

Query: 24  EDIIFCVDVDAE-SLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLA 82
           E +I C+D+  E SL +++S   NG     L+  ++ I +FV +K  I+  H FA V + 
Sbjct: 135 EKVIICLDLSEEMSLQKLES--INGSKTNALNISQKMIEMFVRTKHKIDKRHEFALVVVN 192

Query: 83  KTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQN------- 135
             A WL   F+SD     + +  +  T+ C   +L  LF +   + +  + +N       
Sbjct: 193 DDAMWLSG-FTSDPRELCSCLYDLE-TNVCESFNLEDLFNVILQKIELPQMENIQTIPPP 250

Query: 136 RILRVILIYCR----------SSVRPQHQWPVNQKLFTMDVLYLHDKPGPDNCPQKVYDA 185
            ++R +L++ R           +V+   Q P     F  DV++LH+            D 
Sbjct: 251 FVVRTLLVFSRHAGMLQFNPSDAVKKMLQSP----YFFFDVVFLHNGTEEQTEDTSWKDV 306

Query: 186 LVDALEHVSENEGYIFE-SGQGLARILFRQMCVLLSHPQQRCVQ 228
                E  ++   Y FE S  G A  L   M  LL HP QR  Q
Sbjct: 307 YASFCELDTKGMCYRFEVSLCGPAIELHNCMAKLLCHPLQRPFQ 350

Component of the BRCA1-A complex, a complex that specifically recognizes 'Lys-63'-linked ubiquitinated histones H2A and H2AX at DNA lesions sites, leading to target the brca1-bard1 heterodimer to sites of DNA damage at double-strand breaks (DSBs). The BRCA1-A complex also possesses deubiquitinase activity that specifically removes 'Lys-63'-linked ubiquitin on histones H2A and H2AX. In the BRCA1-A complex, it is required for the complex integrity and its localization at DSBs. Probably also plays a role as a component of the BRISC complex, a multiprotein complex that specifically cleaves 'Lys-63'-linked ubiquitin. In these 2 complexes, it is probably required to maintain the stability of BRE/BRCC45 and help the 'Lys-63'-linked deubiquitinase activity mediated by brcc3/brcc36. component.

Danio rerio (taxid: 7955)

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	259
255550842	262	conserved hypothetical protein [Ricinus	0.984	0.973	0.730	1e-116
225429448	294	PREDICTED: uncharacterized protein LOC10	0.992	0.874	0.727	1e-113
388507472	261	unknown [Lotus japonicus]	0.957	0.950	0.694	1e-106
224142788	259	predicted protein [Populus trichocarpa]	0.988	0.988	0.718	1e-105
449447101	257	PREDICTED: uncharacterized protein LOC10	0.988	0.996	0.696	1e-105
147822287	691	hypothetical protein VITISV_021774 [Viti	0.980	0.367	0.612	1e-104
388505792	257	unknown [Medicago truncatula]	0.969	0.976	0.680	1e-102
356514585	279	PREDICTED: uncharacterized protein LOC10	0.980	0.910	0.692	1e-102
255632772	267	unknown [Glycine max]	0.980	0.951	0.692	1e-102
297798666	264	hypothetical protein ARALYDRAFT_491398 [	0.934	0.916	0.677	1e-99

>gi|255550842|ref|XP_002516469.1| conserved hypothetical protein [Ricinus communis] gi|223544289|gb|EEF45810.1| conserved hypothetical protein [Ricinus communis]

 Score =  422 bits (1085), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 187/256 (73%), Positives = 230/256 (89%), Gaps = 1/256 (0%)

Query: 2   EGIEGESSGAGRFTLPPMRISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAIL 61
           EG +G  SG GRFTL P RI++EDI+FC+D+DAES+ EMK+TG  G+P+TRL+++KQAIL
Sbjct: 7   EGADGSGSGRGRFTLKPTRINSEDILFCIDIDAESMAEMKTTGPTGRPLTRLESIKQAIL 66

Query: 62  LFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLF 121
           LF+N+KLSINPDHRFAF TL+K+ASWLRKEFS ++ES + A+RG+SA+S+ GQADLTHLF
Sbjct: 67  LFINAKLSINPDHRFAFATLSKSASWLRKEFSGEVESAVAALRGLSASSSSGQADLTHLF 126

Query: 122 KLASHEAKKSRAQNRILRVILIYCRSSVRPQHQWPVNQKLFTMDVLYLHDKPGPDNCPQK 181
           +LA+HEAKKS AQNRILRVIL+YCRSSVRPQHQWP+NQKLFT+DV+YLHDKPGPDNCPQ+
Sbjct: 127 RLAAHEAKKSHAQNRILRVILVYCRSSVRPQHQWPINQKLFTLDVMYLHDKPGPDNCPQE 186

Query: 182 VYDALVDALEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLVKKS 241
           VYDALVD LEHVSE EGYI+E+GQG+ R+L R M +LL+HPQQRC QDD+DIPK+L K+S
Sbjct: 187 VYDALVDTLEHVSEYEGYIYETGQGV-RVLLRYMSILLAHPQQRCTQDDMDIPKALAKRS 245

Query: 242 PAADTTNGEDTVPVTS 257
           PAAD+ N ED+V V+S
Sbjct: 246 PAADSANCEDSVTVSS 261

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225429448|ref|XP_002277081.1| PREDICTED: uncharacterized protein LOC100260976 [Vitis vinifera]

 Score =  412 bits (1058), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 187/257 (72%), Positives = 221/257 (85%)

Query: 1   MEGIEGESSGAGRFTLPPMRISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAI 60
           MEG+E +SS    + L P ++ NEDI+FC+DVDAES+VEMK TG  G+PITR+D++KQAI
Sbjct: 37  MEGMEAQSSSTLAYVLKPSQLFNEDILFCIDVDAESMVEMKVTGSKGRPITRMDSIKQAI 96

Query: 61  LLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHL 120
           LLFV+SKL+IN DHRFAF  L KTASWL++EFSS+++S + A+RG+S   +CG ADLT L
Sbjct: 97  LLFVHSKLAINSDHRFAFAALGKTASWLQREFSSEVDSAIAALRGLSVDGSCGNADLTQL 156

Query: 121 FKLASHEAKKSRAQNRILRVILIYCRSSVRPQHQWPVNQKLFTMDVLYLHDKPGPDNCPQ 180
           F++A+HEAKKSRAQNRI RVILIYCRSS  PQHQWP NQKLFT+DV+YLHDKPGP+NCPQ
Sbjct: 157 FRVAAHEAKKSRAQNRIFRVILIYCRSSAPPQHQWPANQKLFTLDVVYLHDKPGPENCPQ 216

Query: 181 KVYDALVDALEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLVKK 240
           KVYDALVDALEHVSE EGYI ESGQGL R+LFR MCVLLSHPQQRC QDDVDIPKSL KK
Sbjct: 217 KVYDALVDALEHVSEYEGYIHESGQGLTRVLFRYMCVLLSHPQQRCQQDDVDIPKSLAKK 276

Query: 241 SPAADTTNGEDTVPVTS 257
            PAAD+T  E++VPV+S
Sbjct: 277 LPAADSTPAEESVPVSS 293

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388507472|gb|AFK41802.1| unknown [Lotus japonicus]

 Score =  390 bits (1003), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 173/249 (69%), Positives = 218/249 (87%), Gaps = 1/249 (0%)

Query: 10  GAGRFTLPPMRISNEDIIFCVDVDAESLVEMKS-TGFNGKPITRLDAMKQAILLFVNSKL 68
           G+ R+TL P RI NEDI+FC+D+D +SLVEMK+ TG NG+P+TRLD++KQ+ILLFV+SKL
Sbjct: 12  GSSRYTLQPSRICNEDILFCIDIDPQSLVEMKTATGHNGRPLTRLDSIKQSILLFVHSKL 71

Query: 69  SINPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEA 128
           +INPDHRFAF TL+ T SWL+K+FSSD+EST+ A+RG+SAT+   Q DLT+LF+LA+HEA
Sbjct: 72  AINPDHRFAFATLSNTVSWLKKDFSSDVESTMAAMRGLSATNISTQPDLTNLFRLAAHEA 131

Query: 129 KKSRAQNRILRVILIYCRSSVRPQHQWPVNQKLFTMDVLYLHDKPGPDNCPQKVYDALVD 188
           KKSRAQ RILRVIL YCRS+VRPQHQWPVNQKL+T+DV+YLHDKPGP+NCPQ+VYD LV+
Sbjct: 132 KKSRAQGRILRVILFYCRSNVRPQHQWPVNQKLYTLDVMYLHDKPGPENCPQEVYDTLVE 191

Query: 189 ALEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLVKKSPAADTTN 248
           ALEHVSE EGYI ESGQGLAR++FR + +LLSHPQQRC+Q+++DIPKSL KK+P  +   
Sbjct: 192 ALEHVSEYEGYILESGQGLARVVFRHVLILLSHPQQRCIQENIDIPKSLAKKAPQGEPMA 251

Query: 249 GEDTVPVTS 257
            E+  PV++
Sbjct: 252 TEENAPVST 260

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224142788|ref|XP_002324732.1| predicted protein [Populus trichocarpa] gi|222866166|gb|EEF03297.1| predicted protein [Populus trichocarpa]

 Score =  387 bits (994), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 186/259 (71%), Positives = 219/259 (84%), Gaps = 3/259 (1%)

Query: 1   MEGIEGESSGAGRFTLPPMRISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAI 60
           ME +E +SS A  ++L P RISNEDI+FC+D+  ESLVEMKSTG  GKP+TRLD++KQAI
Sbjct: 1   MEMVEADSSTAKLYSLNPNRISNEDILFCIDIGPESLVEMKSTGPGGKPLTRLDSIKQAI 60

Query: 61  LLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVRGISATSAC--GQADLT 118
           L+F+N+KLSINPDHRFAF TLAKTASWLRKEFSSD+ES   A+RG+SA SA   G  DLT
Sbjct: 61  LVFINAKLSINPDHRFAFATLAKTASWLRKEFSSDVESAAAALRGLSAASASSSGPPDLT 120

Query: 119 HLFKLASHEAKKSRAQNRILRVILIYCRSSVRPQHQWPVNQKLFTMDVLYLHDKPGPDNC 178
            LF++A+HEAKKS AQNRILRVILIYCRS V+PQHQWPV+QKLFT+DV+YLHDKPGPDNC
Sbjct: 121 QLFRVAAHEAKKSYAQNRILRVILIYCRSCVQPQHQWPVSQKLFTLDVMYLHDKPGPDNC 180

Query: 179 PQKVYDALVDALEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLV 238
           PQ+VYDALVD LEHVS+ EGYI E+GQG+ RIL R M VLLSHPQQRC QD +D+PKSL 
Sbjct: 181 PQEVYDALVDTLEHVSQYEGYIHETGQGV-RILLRYMSVLLSHPQQRCTQDMMDLPKSLT 239

Query: 239 KKSPAADTTNGEDTVPVTS 257
           K+SP  D  NGE+  P++S
Sbjct: 240 KRSPTCDPANGEEGAPISS 258

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449447101|ref|XP_004141308.1| PREDICTED: uncharacterized protein LOC101206375 [Cucumis sativus] gi|449532159|ref|XP_004173050.1| PREDICTED: uncharacterized LOC101206375 [Cucumis sativus]

 Score =  386 bits (992), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 179/257 (69%), Positives = 217/257 (84%), Gaps = 1/257 (0%)

Query: 1   MEGIEGESSGAGRFTLPPMRISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAI 60
           ME IE E  G+G ++L   R++NEDI+FC+DV+ ES VE+K+TG NG+PITR+D++KQAI
Sbjct: 1   MEAIEVERGGSG-YSLKSSRLNNEDILFCIDVNPESSVEIKTTGSNGRPITRMDSIKQAI 59

Query: 61  LLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHL 120
           LLFV++KLS+NPDHRFAF T+AK+A WL+KEFSSDI S   AVRG+ ATS C  ADLT L
Sbjct: 60  LLFVHAKLSMNPDHRFAFTTIAKSAIWLKKEFSSDIASAEAAVRGLGATSPCNHADLTSL 119

Query: 121 FKLASHEAKKSRAQNRILRVILIYCRSSVRPQHQWPVNQKLFTMDVLYLHDKPGPDNCPQ 180
           F+LA+HE++KS AQNRILR+ILIYCRSS +PQHQWP NQKLFT DV+YLH+KPGPDNCPQ
Sbjct: 120 FRLAAHESRKSTAQNRILRLILIYCRSSTQPQHQWPANQKLFTFDVIYLHEKPGPDNCPQ 179

Query: 181 KVYDALVDALEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLVKK 240
           +VYDALVDAL+HVS+ EGYIFESGQG+AR+L+R MC+LLSHPQQR   DD+DIPK L KK
Sbjct: 180 EVYDALVDALDHVSQYEGYIFESGQGVARVLYRCMCLLLSHPQQRISLDDLDIPKPLTKK 239

Query: 241 SPAADTTNGEDTVPVTS 257
            P ADT    + VPVTS
Sbjct: 240 LPPADTAPPNEVVPVTS 256

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147822287|emb|CAN66210.1| hypothetical protein VITISV_021774 [Vitis vinifera]

 Score =  383 bits (984), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 185/302 (61%), Positives = 218/302 (72%), Gaps = 48/302 (15%)

Query: 1   MEGIEGESSGAGRFTLPPMRISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAI 60
           MEG+E +SS    + L P ++ NEDI+FC+DVDAES+VEMK TG  G+PITR+D++KQAI
Sbjct: 37  MEGMEAQSSSTLAYVLKPSQLFNEDILFCIDVDAESMVEMKVTGSKGRPITRMDSIKQAI 96

Query: 61  LLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHL 120
           LLFV+SKL+IN DHRFAF  L KTASWL++EFSS+++S + A+RG+S   +CG ADLT L
Sbjct: 97  LLFVHSKLAINSDHRFAFAALGKTASWLQREFSSEVDSAIAALRGLSVDGSCGNADLTQL 156

Query: 121 FKLASHEAKKSRAQNRILRV---------------------------------------- 140
           F++A+HEAKKSRAQNRI RV                                        
Sbjct: 157 FRVAAHEAKKSRAQNRIFRVLYLRVVVENGLEYFFSQLVLYVNSTGPDSERCLILPEHIS 216

Query: 141 --------ILIYCRSSVRPQHQWPVNQKLFTMDVLYLHDKPGPDNCPQKVYDALVDALEH 192
                   ILIYCRSS  PQHQWP NQKLFT+DV+YLHDKPGP+NCPQKVYDALVDALEH
Sbjct: 217 KFYSYVFEILIYCRSSAPPQHQWPANQKLFTLDVVYLHDKPGPENCPQKVYDALVDALEH 276

Query: 193 VSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLVKKSPAADTTNGEDT 252
           VSE EGYI ESGQGL R+LFR MCVLLSHPQQRC QDDVDIPKSL KK PAAD+T  E++
Sbjct: 277 VSEYEGYIHESGQGLTRVLFRYMCVLLSHPQQRCQQDDVDIPKSLAKKLPAADSTPAEES 336

Query: 253 VP 254
           VP
Sbjct: 337 VP 338

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388505792|gb|AFK40962.1| unknown [Medicago truncatula]

 Score =  378 bits (970), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 175/257 (68%), Positives = 211/257 (82%), Gaps = 6/257 (2%)

Query: 1   MEGIEGESSGAGRFTLPPMRISNEDIIFCVDVDAESLVEMK---STGFNGKPITRLDAMK 57
           MEGIEGE S    + L P RI NEDI+FC+D+D +S+ E+K   S   NG+P TRLDA+K
Sbjct: 1   MEGIEGERSS---YKLQPSRIDNEDILFCIDIDPQSMAELKGATSGRPNGRPFTRLDAIK 57

Query: 58  QAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVRGISATSACGQADL 117
           QAI+LFVN+KL+INP HRFAF TL+ + SWLRKEFSS++EST+ A+R +SAT++  Q DL
Sbjct: 58  QAIVLFVNAKLTINPQHRFAFATLSDSVSWLRKEFSSEVESTVAAMRRLSATTSSSQPDL 117

Query: 118 THLFKLASHEAKKSRAQNRILRVILIYCRSSVRPQHQWPVNQKLFTMDVLYLHDKPGPDN 177
           T LF+LA+HEAKKSR Q RILRVIL YCRS+VRP+HQWPVNQKLFT DV+YLHDKPGPDN
Sbjct: 118 TTLFRLAAHEAKKSRMQGRILRVILFYCRSTVRPRHQWPVNQKLFTFDVMYLHDKPGPDN 177

Query: 178 CPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDDVDIPKSL 237
           CPQ++YD+LV+ALEHV+E EGYI ESGQGLAR+LFR M +LLSHPQQRC QD +DIPKSL
Sbjct: 178 CPQEIYDSLVEALEHVTEYEGYILESGQGLARVLFRHMLILLSHPQQRCAQDYMDIPKSL 237

Query: 238 VKKSPAADTTNGEDTVP 254
           V+K P A+    ED  P
Sbjct: 238 VRKVPQAEPMLTEDNAP 254

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356514585|ref|XP_003525986.1| PREDICTED: uncharacterized protein LOC100527612 [Glycine max]

 Score =  376 bits (965), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 182/263 (69%), Positives = 220/263 (83%), Gaps = 9/263 (3%)

Query: 1   MEGIEGESSGAGRFTLPPMRISNEDIIFCVDVDAESLVEMK-STGFNGKPITRLDAMKQA 59
           MEGIEG SS   R++L P RI NED++ CVDVD + LVEMK +TG NG+P+TRLD++KQA
Sbjct: 19  MEGIEGNSS---RYSLKPSRICNEDVLICVDVDPQCLVEMKGATGPNGRPLTRLDSIKQA 75

Query: 60  ILLFVNSKLSINPDHRFAFVTLAKT-ASWLRKEFSSDIESTLTAVRGISATSAC----GQ 114
           I+LFVN+KL+INP+HRFAF TL+ T  SW+RKEFSS+IESTL A+R +SA+S+     GQ
Sbjct: 76  IVLFVNAKLTINPEHRFAFATLSNTLVSWVRKEFSSEIESTLAAMRVLSASSSSSTTAGQ 135

Query: 115 ADLTHLFKLASHEAKKSRAQNRILRVILIYCRSSVRPQHQWPVNQKLFTMDVLYLHDKPG 174
            DLTHLF+LA+HEAKKSR Q RILRVIL YCRSS RP+HQWPVNQKLFT+DV+YLHDKPG
Sbjct: 136 PDLTHLFRLAAHEAKKSRLQGRILRVILFYCRSSERPKHQWPVNQKLFTLDVMYLHDKPG 195

Query: 175 PDNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDDVDIP 234
           PDNCPQ+VYD LV+ALEHVSE EGYI ESGQGLAR+LFR + +LLSHPQQRC+Q+ VDIP
Sbjct: 196 PDNCPQEVYDTLVEALEHVSEYEGYILESGQGLARVLFRHVLILLSHPQQRCIQEYVDIP 255

Query: 235 KSLVKKSPAADTTNGEDTVPVTS 257
           KS+ KK P  +    ED+ P++S
Sbjct: 256 KSIAKKPPQVEPMATEDSAPISS 278

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255632772|gb|ACU16739.1| unknown [Glycine max]

 Score =  375 bits (963), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 182/263 (69%), Positives = 220/263 (83%), Gaps = 9/263 (3%)

Query: 1   MEGIEGESSGAGRFTLPPMRISNEDIIFCVDVDAESLVEMK-STGFNGKPITRLDAMKQA 59
           MEGIEG SS   R++L P RI NED++ CVDVD + LVEMK +TG NG+P+TRLD++KQA
Sbjct: 1   MEGIEGNSS---RYSLKPSRICNEDVLICVDVDPQCLVEMKGATGPNGRPLTRLDSIKQA 57

Query: 60  ILLFVNSKLSINPDHRFAFVTLAKT-ASWLRKEFSSDIESTLTAVRGISATSAC----GQ 114
           I+LFVN+KL+INP+HRFAF TL+ T  SW+RKEFSS+IESTL A+R +SA+S+     GQ
Sbjct: 58  IVLFVNAKLTINPEHRFAFATLSNTLVSWVRKEFSSEIESTLAAMRVLSASSSSSTTAGQ 117

Query: 115 ADLTHLFKLASHEAKKSRAQNRILRVILIYCRSSVRPQHQWPVNQKLFTMDVLYLHDKPG 174
            DLTHLF+LA+HEAKKSR Q RILRVIL YCRSS RP+HQWPVNQKLFT+DV+YLHDKPG
Sbjct: 118 PDLTHLFRLAAHEAKKSRLQGRILRVILFYCRSSERPKHQWPVNQKLFTLDVMYLHDKPG 177

Query: 175 PDNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDDVDIP 234
           PDNCPQ+VYD LV+ALEHVSE EGYI ESGQGLAR+LFR + +LLSHPQQRC+Q+ VDIP
Sbjct: 178 PDNCPQEVYDTLVEALEHVSEYEGYILESGQGLARVLFRHVLILLSHPQQRCIQEYVDIP 237

Query: 235 KSLVKKSPAADTTNGEDTVPVTS 257
           KS+ KK P  +    ED+ P++S
Sbjct: 238 KSIAKKPPQVEPMATEDSAPISS 260

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297798666|ref|XP_002867217.1| hypothetical protein ARALYDRAFT_491398 [Arabidopsis lyrata subsp. lyrata] gi|297313053|gb|EFH43476.1| hypothetical protein ARALYDRAFT_491398 [Arabidopsis lyrata subsp. lyrata]

 Score =  368 bits (945), Expect = 1e-99,   Method: Compositional matrix adjust.
 Identities = 164/242 (67%), Positives = 203/242 (83%)

Query: 10  GAGRFTLPPMRISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLS 69
           GA R+ L P RI +EDI+ C+DVDAES+VEMK+TG NG+P+ R++ +KQAI+LF+++KLS
Sbjct: 12  GATRYALKPGRIKSEDILICIDVDAESMVEMKTTGTNGRPLIRMECVKQAIILFIHNKLS 71

Query: 70  INPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAK 129
           INPDHRFAF TLAK+A+WL+KEF+SD ES + ++RG+S   +  +ADLT LF+ A+ EAK
Sbjct: 72  INPDHRFAFATLAKSAAWLKKEFTSDAESAVASLRGLSGNKSSSRADLTLLFRAAAQEAK 131

Query: 130 KSRAQNRILRVILIYCRSSVRPQHQWPVNQKLFTMDVLYLHDKPGPDNCPQKVYDALVDA 189
            SRAQNRI RVILIYCRSS+RP H+WP+NQKLFT+DVLYLHDKP PDNCPQ VYD+LVDA
Sbjct: 132 ISRAQNRIFRVILIYCRSSMRPTHEWPLNQKLFTLDVLYLHDKPSPDNCPQDVYDSLVDA 191

Query: 190 LEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLVKKSPAADTTNG 249
           +EHVSE EGYIFESGQGLAR +F+ M +LLSHPQQRC QDD+DIP+SL KK P  +  N 
Sbjct: 192 VEHVSEYEGYIFESGQGLARSVFKPMSLLLSHPQQRCAQDDLDIPRSLAKKVPVTEAANA 251

Query: 250 ED 251
            D
Sbjct: 252 LD 253

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	259
TAIR|locus:2123802	264	AT4G32960 "AT4G32960" [Arabido	0.934	0.916	0.661	7.5e-89
UNIPROTKB|Q5M8J0	318	babam1 "BRISC and BRCA1-A comp	0.876	0.713	0.281	3e-13
UNIPROTKB|Q6DJG6	328	babam1 "BRISC and BRCA1-A comp	0.872	0.689	0.280	4.9e-13
RGD|1359516	334	Babam1 "BRISC and BRCA1 A comp	0.857	0.664	0.265	1.3e-11
UNIPROTKB|I3LT10	324	BABAM1 "Uncharacterized protei	0.849	0.679	0.275	1.6e-11
UNIPROTKB|Q5R7L2	329	BABAM1 "BRISC and BRCA1-A comp	0.849	0.668	0.275	1.7e-11
UNIPROTKB|E2R851	336	BABAM1 "Uncharacterized protei	0.841	0.648	0.281	2.5e-11
UNIPROTKB|Q08E57	332	BABAM1 "BRISC and BRCA1-A comp	0.845	0.659	0.274	3.2e-11
UNIPROTKB|Q9NWV8	329	BABAM1 "BRISC and BRCA1-A comp	0.768	0.604	0.274	4.4e-11
MGI|MGI:1915501	333	Babam1 "BRISC and BRCA1 A comp	0.772	0.600	0.262	8.2e-11

TAIR|locus:2123802 AT4G32960 "AT4G32960" [Arabidopsis thaliana (taxid:3702)]

 Score = 887 (317.3 bits), Expect = 7.5e-89, P = 7.5e-89
 Identities = 160/242 (66%), Positives = 201/242 (83%)

Query:    10 GAGRFTLPPMRISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLS 69
             G  R+ L P RI +EDI+ C+DVDAES+VEMK+TG NG+P+ R++ +KQAI+LF+++KLS
Sbjct:    12 GTTRYALKPGRIKSEDILICIDVDAESMVEMKTTGTNGRPLIRMECVKQAIILFIHNKLS 71

Query:    70 INPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAK 129
             INPDHRFAF TLAK+A+WL+KEF+SD ES + ++RG+S   +  +ADLT LF+ A+ EAK
Sbjct:    72 INPDHRFAFATLAKSAAWLKKEFTSDAESAVASLRGLSGNKSSSRADLTLLFRAAAQEAK 131

Query:   130 KSRAQNRILRVILIYCRSSVRPQHQWPVNQKLFTMDVLYLHDKPGPDNCPQKVYDALVDA 189
              SRAQNRI RVILIYCRSS+RP H+WP+NQKLFT+DV+YLHDKP PDNCPQ VYD+LVDA
Sbjct:   132 VSRAQNRIFRVILIYCRSSMRPTHEWPLNQKLFTLDVMYLHDKPSPDNCPQDVYDSLVDA 191

Query:   190 LEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLVKKSPAADTTNG 249
             +EHVSE EGYIFESGQGLAR +F+ M +LL+HPQQRC QDD+DIP SL KK P  +  + 
Sbjct:   192 VEHVSEYEGYIFESGQGLARSVFKPMSMLLTHPQQRCAQDDLDIPMSLAKKVPVTEAASA 251

Query:   250 ED 251
              D
Sbjct:   252 VD 253

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0006635 "fatty acid beta-oxidation" evidence=RCA

GO:0016558 "protein import into peroxisome matrix" evidence=RCA

UNIPROTKB|Q5M8J0 babam1 "BRISC and BRCA1-A complex member 1" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 185 (70.2 bits), Expect = 3.0e-13, P = 3.0e-13
 Identities = 71/252 (28%), Positives = 111/252 (44%)

Query:    14 FTLPPMRIS-NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINP 72
             F L   R++  E +I C+D+ +E +   K   FNG     L++ ++ I +FV +K  I+ 
Sbjct:    73 FQLKTPRVNCPEKVIICLDL-SEEMSTQKLESFNGSKANALNSSQKMIEMFVRTKHKIDK 131

Query:    73 DHRFAFVTLAKTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSR 132
              H FA V     A WL   F+SD     + +  +  T+ C   +L  LF L     +   
Sbjct:   132 RHEFALVVANNEAMWL-SGFTSDPREVCSCLYDLE-TNVCESFNLEGLFNLIQQRTEFPV 189

Query:   133 AQN-------RILRVILIYCRSSVRPQHQWPVNQK------LFTMDVLYLHDKPGPDNCP 179
               N        ++R+ILIY R + +P      N K       F  DV+Y+H+    +   
Sbjct:   190 TDNVQTIPPPYVVRIILIYSRPASQPALNLTDNMKKMLQCPYFFFDVIYIHNGSEEEELR 249

Query:   180 QKVYDALVDALEHVSENEGYIFE-SGQGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLV 238
              K   +    L+  S+   Y +E S  G A  L   M  LL+HP QR  Q       SL+
Sbjct:   250 WKDIFSFFSGLD--SKGTSYKYEVSITGPALELHNCMARLLAHPLQRPFQSHAAY--SLL 305

Query:   239 KK---SPAADTT 247
             ++   SP ++ T
Sbjct:   306 EEEEESPESEVT 317

GO:0005634 "nucleus" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0006302 "double-strand break repair" evidence=ISS

GO:0010212 "response to ionizing radiation" evidence=ISS

GO:0031572 "G2 DNA damage checkpoint" evidence=ISS

GO:0045739 "positive regulation of DNA repair" evidence=ISS

GO:0070531 "BRCA1-A complex" evidence=ISS

GO:0070536 "protein K63-linked deubiquitination" evidence=ISS

GO:0070552 "BRISC complex" evidence=ISS

UNIPROTKB|Q6DJG6 babam1 "BRISC and BRCA1-A complex member 1" [Xenopus laevis (taxid:8355)]

 Score = 184 (69.8 bits), Expect = 4.9e-13, P = 4.9e-13
 Identities = 71/253 (28%), Positives = 114/253 (45%)

Query:    14 FTLPPMRIS-NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINP 72
             F L   R++  E +I C+D+ +E +   K   FNG     L++ ++ I +FV +K  I+ 
Sbjct:    83 FQLKTPRVNCPEKVIICLDL-SEEMSTQKLESFNGSKANALNSSQKMIEMFVRTKHKIDK 141

Query:    73 DHRFAFVTLAKTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSR 132
              H FA V     A WL   F+SD     + +  +  T+ C   +L  LF L     +   
Sbjct:   142 RHEFALVVANNEAMWL-SGFTSDPREVCSCLYDLE-TNVCESFNLEGLFNLIQQRTEFPV 199

Query:   133 AQN-------RILRVILIYCRSSVRPQHQWPVNQK------LFTMDVLYLHDKPGPDN-C 178
               N        ++R+ILIY R + +P      N K       F  DV+Y+H+    +  C
Sbjct:   200 TDNVQTIPPPYVVRIILIYSRPASQPALALTDNMKKMLQCPYFFFDVIYIHNGSEEEELC 259

Query:   179 PQKVYDALVDALEHVSENEGYIFE-SGQGLARILFRQMCVLLSHPQQRCVQDDVDIPKSL 237
              + ++     +L+  S+   Y +E S  G A  L   M  LL+HP QR  Q       SL
Sbjct:   260 WKDIF-GFFSSLD--SKGTSYKYEVSITGPALELHNCMARLLAHPLQRPFQSHAAY--SL 314

Query:   238 VKK---SPAADTT 247
             +++   SP ++ T
Sbjct:   315 LEEEEESPESEVT 327

GO:0005634 "nucleus" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0006302 "double-strand break repair" evidence=ISS

GO:0010212 "response to ionizing radiation" evidence=ISS

GO:0031572 "G2 DNA damage checkpoint" evidence=ISS

GO:0045739 "positive regulation of DNA repair" evidence=ISS

GO:0070531 "BRCA1-A complex" evidence=ISS

GO:0070536 "protein K63-linked deubiquitination" evidence=ISS

GO:0070552 "BRISC complex" evidence=ISS

RGD|1359516 Babam1 "BRISC and BRCA1 A complex member 1" [Rattus norvegicus (taxid:10116)]

 Score = 175 (66.7 bits), Expect = 1.3e-11, P = 1.3e-11
 Identities = 65/245 (26%), Positives = 107/245 (43%)

Query:    24 EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAK 83
             E +I C+D+  E  V  K   FNG     L+  ++ + +FV +K  I+  H FA V +  
Sbjct:    98 EKVIICLDLSEEMSVP-KLESFNGSRTNALNVSQKMVEMFVRTKHKIDKSHEFALVVVND 156

Query:    84 TASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQN-------R 136
              ++WL    +SD     + +  +  T++C   +L  LF L   + +    +N        
Sbjct:   157 DSAWL-SGLTSDPRELCSCLYDLE-TASCSTFNLEGLFSLIQQKTELPVTENVQTIPPPY 214

Query:   137 ILRVILIYCRSSVRPQHQW--PVNQKL----FTMDVLYLHDKPGP--DNCPQKVYDALVD 188
             ++R IL+Y R   +PQ     P+ +      F  D++Y+H  P    D+   K   A + 
Sbjct:   215 VVRTILVYSRPPCQPQFSLTEPMKKMFQCPYFFFDIIYIHSGPEEKEDDMSWKDMFAFMG 274

Query:   189 ALEHVSENEGYIFESGQGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLVKKSPAADTTN 248
             +L+    +  Y      G A  L   +  LL+HP QR  Q       SL+++   A    
Sbjct:   275 SLDTKGTSYKYAVALA-GPALELHNCVAKLLAHPLQRPCQSHASY--SLLEEDEEAG--E 329

Query:   249 GEDTV 253
             GE TV
Sbjct:   330 GEATV 334

GO:0005634 "nucleus" evidence=ISO;ISS

GO:0005737 "cytoplasm" evidence=ISO;ISS

GO:0006302 "double-strand break repair" evidence=ISO;ISS

GO:0010212 "response to ionizing radiation" evidence=ISO;ISS

GO:0016568 "chromatin modification" evidence=IEA

GO:0031572 "G2 DNA damage checkpoint" evidence=ISO;ISS

GO:0045739 "positive regulation of DNA repair" evidence=ISO;ISS

GO:0070531 "BRCA1-A complex" evidence=ISO;ISS

GO:0070536 "protein K63-linked deubiquitination" evidence=ISO;ISS

GO:0070552 "BRISC complex" evidence=ISO;ISS

UNIPROTKB|I3LT10 BABAM1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 174 (66.3 bits), Expect = 1.6e-11, P = 1.6e-11
 Identities = 68/247 (27%), Positives = 113/247 (45%)

Query:    24 EDIIFCVDVDAE-SLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLA 82
             E +I C+D+  E SL +++S  FNG     L+  ++ I +FV +K  I+  H FA V + 
Sbjct:    88 EKVIICLDLSEEMSLPKLES--FNGSKTNALNVSQKMIEMFVRTKHKIDKSHEFALVVVN 145

Query:    83 KTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQN------- 135
                +WL    +SD     + +  +  T++C   +L  LF L   + +    +N       
Sbjct:   146 DDTAWL-SGLTSDPRELCSCLYDLE-TASCSTFNLEGLFSLIQQKTELPVTENVQTIPPP 203

Query:   136 RILRVILIYCRSSVRPQHQW--PVNQKL----FTMDVLYLHD--KPGPDNCPQKVYDALV 187
              ++R IL+Y R   +PQ     P+ +      F  DV+Y+H+  +   +    K   A +
Sbjct:   204 YVVRTILVYSRPPCQPQFSLTEPMKKMFQCPYFFFDVVYIHNGAEEKEEEMSWKDMFAFM 263

Query:   188 DALEHVSENEGYIFESG-QGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLVKKSPAADT 246
              +L+  ++   Y +E    G A  L   M  LL+HP QR  Q       SL+++   A  
Sbjct:   264 GSLD--TKGTSYKYEVALAGPALELHNCMAKLLAHPLQRPCQSHASY--SLLEEDDEA-- 317

Query:   247 TNGEDTV 253
             T  E TV
Sbjct:   318 TEVEATV 324

GO:0070552 "BRISC complex" evidence=IEA

GO:0070531 "BRCA1-A complex" evidence=IEA

GO:0045739 "positive regulation of DNA repair" evidence=IEA

UNIPROTKB|Q5R7L2 BABAM1 "BRISC and BRCA1-A complex member 1" [Pongo abelii (taxid:9601)]

 Score = 174 (66.3 bits), Expect = 1.7e-11, P = 1.7e-11
 Identities = 68/247 (27%), Positives = 113/247 (45%)

Query:    24 EDIIFCVDVDAE-SLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLA 82
             E +I C+D+  E SL +++S  FNG     L+  ++ I +FV +K  I+  H FA V + 
Sbjct:    93 EKVIICLDLSEEMSLPKLES--FNGSKTNALNVSQKMIEMFVRTKHKIDKSHEFALVVVN 150

Query:    83 KTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQN------- 135
                +WL    +SD     + +  +  T++C   +L  LF L   + +    +N       
Sbjct:   151 DDTAWL-SGLTSDPRELCSCLYDLE-TASCSTFNLEGLFSLIQQKTELPVTENVQTIPPP 208

Query:   136 RILRVILIYCRSSVRPQHQW--PVNQKL----FTMDVLYLHD--KPGPDNCPQKVYDALV 187
              ++R IL+Y R   +PQ     P+ +      F  DV+Y+H+  +   +    K   A +
Sbjct:   209 YVVRTILVYSRPPCQPQFSLTEPMKKMFQCPYFFFDVVYIHNGTEEKEEEMSWKDMFAFM 268

Query:   188 DALEHVSENEGYIFESG-QGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLVKKSPAADT 246
              +L+  ++   Y +E    G A  L   M  LL+HP QR  Q       SL+++   A  
Sbjct:   269 GSLD--TKGTSYKYEVALAGPALELHNCMAKLLAHPLQRPCQSHASY--SLLEEEDEA-- 322

Query:   247 TNGEDTV 253
             T  E TV
Sbjct:   323 TEVEATV 329

GO:0005634 "nucleus" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0006302 "double-strand break repair" evidence=ISS

GO:0010212 "response to ionizing radiation" evidence=ISS

GO:0031572 "G2 DNA damage checkpoint" evidence=ISS

GO:0045739 "positive regulation of DNA repair" evidence=ISS

GO:0070531 "BRCA1-A complex" evidence=ISS

GO:0070536 "protein K63-linked deubiquitination" evidence=ISS

GO:0070552 "BRISC complex" evidence=ISS

UNIPROTKB|E2R851 BABAM1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 173 (66.0 bits), Expect = 2.5e-11, P = 2.5e-11
 Identities = 70/249 (28%), Positives = 116/249 (46%)

Query:    24 EDIIFCVDVDAE-SLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLA 82
             E +I C+D+  E SL +++S  FNG     L+  ++ I +FV +K  I+  H FA V + 
Sbjct:   100 EKVIICLDLSEEMSLSKLES--FNGSKTNALNVSQKMIEMFVRTKHKIDKSHEFALVVVN 157

Query:    83 KTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQN------- 135
                +WL    +SD     + +  +  T++C   +L  LF L   + +    +N       
Sbjct:   158 DDIAWL-SGLTSDPRELCSCLYDLE-TASCSTFNLEGLFSLIQQKTELPVTENVQTIPPP 215

Query:   136 RILRVILIYCRSSVRPQHQW--PVNQKL----FTMDVLYLHDKPGPDNCPQKVY--D--A 185
              ++R IL+Y R   +PQ     P+ +      F  DV+Y+H+  G D   +++   D  A
Sbjct:   216 YVVRTILVYSRPPCQPQFSLTEPMKKMFQCPYFFFDVVYIHN--GADEKEEEMSWKDMFA 273

Query:   186 LVDALEHVSENEGYIFESG-QGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLVKKSPAA 244
              + +L+  ++   Y +E    G A  L   M  LL+HP QR  Q       SL+++   A
Sbjct:   274 FMGSLD--TKGTSYKYEVALAGPALELHNCMAKLLAHPLQRPCQSHASY--SLLEEDDEA 329

Query:   245 DTTNGEDTV 253
               T  E TV
Sbjct:   330 --TEVEATV 336

GO:0070552 "BRISC complex" evidence=IEA

GO:0070531 "BRCA1-A complex" evidence=IEA

GO:0045739 "positive regulation of DNA repair" evidence=IEA

UNIPROTKB|Q08E57 BABAM1 "BRISC and BRCA1-A complex member 1" [Bos taurus (taxid:9913)]

 Score = 172 (65.6 bits), Expect = 3.2e-11, P = 3.2e-11
 Identities = 68/248 (27%), Positives = 113/248 (45%)

Query:    24 EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAK 83
             E +I C+D+ +E +   K   FNG     L+  ++ I +FV +K  I+  H FA V +  
Sbjct:    96 EKVIICLDL-SEEMALPKLESFNGSKTNALNVSQKMIEMFVRTKHKIDKSHEFALVVVND 154

Query:    84 TASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQN-------R 136
               +WL    +SD     + +  +  T++C   +L  LF L   + +    +N        
Sbjct:   155 DTAWL-SGLTSDPRELCSCLYDLE-TASCSTFNLEGLFSLIQQKTELPVTENVQTIPPPY 212

Query:   137 ILRVILIYCRSSVRPQHQW--PVNQKL----FTMDVLYLHDKPGPDNCPQKVY--D--AL 186
             ++R IL+Y R   +PQ     P+ +      F  DV+Y+H+  G D   +++   D  A 
Sbjct:   213 VVRTILVYSRPPCQPQFSLTEPMKKMFQCPYFFFDVVYIHN--GADEKEEEMSWKDMFAF 270

Query:   187 VDALEHVSENEGYIFESG-QGLARILFRQMCVLLSHPQQRCVQDDVDIPKSLVKKSPAAD 245
             + +L+  ++   Y +E    G A  L   M  LL+HP QR  Q       SL+++   A 
Sbjct:   271 MGSLD--TKGTSYKYEVALAGPALELHNCMAKLLAHPLQRPCQSHASY--SLLEEDDEA- 325

Query:   246 TTNGEDTV 253
              T  E TV
Sbjct:   326 -TEVEATV 332

GO:0031572 "G2 DNA damage checkpoint" evidence=ISS

GO:0006302 "double-strand break repair" evidence=ISS

GO:0070531 "BRCA1-A complex" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0070536 "protein K63-linked deubiquitination" evidence=ISS

GO:0045739 "positive regulation of DNA repair" evidence=ISS

GO:0010212 "response to ionizing radiation" evidence=ISS

GO:0070552 "BRISC complex" evidence=ISS

GO:0016568 "chromatin modification" evidence=IEA

UNIPROTKB|Q9NWV8 BABAM1 "BRISC and BRCA1-A complex member 1" [Homo sapiens (taxid:9606)]

 Score = 171 (65.3 bits), Expect = 4.4e-11, P = 4.4e-11
 Identities = 61/222 (27%), Positives = 103/222 (46%)

Query:    24 EDIIFCVDVDAE-SLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLA 82
             E +I C+D+  E SL +++S  FNG     L+  ++ I +FV +K  I+  H FA V + 
Sbjct:    93 EKVIICLDLSEEMSLPKLES--FNGSKTNALNVSQKMIEMFVRTKHKIDKSHEFALVVVN 150

Query:    83 KTASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQN------- 135
                +WL    +SD     + +  +  T++C   +L  LF L   + +    +N       
Sbjct:   151 DDTAWL-SGLTSDPRELCSCLYDLE-TASCSTFNLEGLFSLIQQKTELPVTENVQTIPPP 208

Query:   136 RILRVILIYCRSSVRPQHQW--PVNQKL----FTMDVLYLHD--KPGPDNCPQKVYDALV 187
              ++R IL+Y R   +PQ     P+ +      F  DV+Y+H+  +   +    K   A +
Sbjct:   209 YVVRTILVYSRPPCQPQFSLTEPMKKMFQCPYFFFDVVYIHNGTEEKEEEMSWKDMFAFM 268

Query:   188 DALEHVSENEGYIFESG-QGLARILFRQMCVLLSHPQQRCVQ 228
              +L+  ++   Y +E    G A  L   M  LL+HP QR  Q
Sbjct:   269 GSLD--TKGTSYKYEVALAGPALELHNCMAKLLAHPLQRPCQ 308

GO:0016568 "chromatin modification" evidence=IEA

GO:0070552 "BRISC complex" evidence=IDA

GO:0006302 "double-strand break repair" evidence=IMP

GO:0010212 "response to ionizing radiation" evidence=IMP

GO:0031572 "G2 DNA damage checkpoint" evidence=IMP

GO:0045739 "positive regulation of DNA repair" evidence=IMP

GO:0070536 "protein K63-linked deubiquitination" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0070531 "BRCA1-A complex" evidence=IDA

MGI|MGI:1915501 Babam1 "BRISC and BRCA1 A complex member 1" [Mus musculus (taxid:10090)]

 Score = 169 (64.5 bits), Expect = 8.2e-11, P = 8.2e-11
 Identities = 58/221 (26%), Positives = 101/221 (45%)

Query:    24 EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAK 83
             E +I C+D+  E  V  K   FNG     L+  ++ + +FV +K  I+  H FA V +  
Sbjct:    97 EKVIICLDLSEEMSVP-KLESFNGSRTNALNVSQKMVEMFVRTKHKIDKSHEFALVVVND 155

Query:    84 TASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQN-------R 136
              ++WL    +SD     + +  +  T++C   +L  LF L   + +    +N        
Sbjct:   156 DSAWL-SGLTSDPRELCSCLYDLE-TASCSTFNLEGLFSLIQQKTELPVTENVQTIPPPY 213

Query:   137 ILRVILIYCRSSVRPQHQW--PVNQKL----FTMDVLYLHD--KPGPDNCPQKVYDALVD 188
             ++R IL+Y R   +PQ     P+ +      F  D++Y+H+  +   ++   K   A + 
Sbjct:   214 VVRTILVYSRPPCQPQFSLTEPMKKMFQCPYFFFDIVYIHNGTEEKEEDMSWKDMFAFMG 273

Query:   189 ALEHVSENEGYIFESG-QGLARILFRQMCVLLSHPQQRCVQ 228
             +L+  ++   Y +E    G A  L   M  LL+HP QR  Q
Sbjct:   274 SLD--TKGASYKYEVALAGPALELHNCMAKLLAHPLQRPCQ 312

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0006281 "DNA repair" evidence=IEA

GO:0006302 "double-strand break repair" evidence=ISO

GO:0006974 "response to DNA damage stimulus" evidence=IEA

GO:0010212 "response to ionizing radiation" evidence=ISO

GO:0016568 "chromatin modification" evidence=IEA

GO:0031572 "G2 DNA damage checkpoint" evidence=ISO

GO:0045739 "positive regulation of DNA repair" evidence=ISO

GO:0070531 "BRCA1-A complex" evidence=ISO

GO:0070536 "protein K63-linked deubiquitination" evidence=ISO

GO:0070552 "BRISC complex" evidence=ISO

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	259
cd00198	161	cd00198, vWFA, Von Willebrand factor type A (vWA)	0.001
pfam13519	172	pfam13519, VWA_2, von Willebrand factor type A dom	0.002

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

 Score = 38.3 bits (89), Expect = 0.001
 Identities = 28/120 (23%), Positives = 46/120 (38%), Gaps = 14/120 (11%)

Query: 25  DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKT 84
           DI+F +DV   S   M           +LD  K+A+   V+S  +  P  R   VT    
Sbjct: 2   DIVFLLDV---SG-SMGGE--------KLDKAKEALKALVSSLSASPPGDRVGLVTFGSN 49

Query: 85  ASWLRK-EFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILI 143
           A  +      +D    L A+  +      G  ++    +LA    K ++  N    +IL+
Sbjct: 50  ARVVLPLTTDTDKADLLEAIDALKKG-LGGGTNIGAALRLALELLKSAKRPNARRVIILL 108

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

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

 Score = 37.7 bits (88), Expect = 0.002
 Identities = 22/120 (18%), Positives = 40/120 (33%), Gaps = 15/120 (12%)

Query: 25  DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKT 84
           D++  +DV         S        +RL   K AI   +       P  R   +  A  
Sbjct: 1   DLVIVLDVSG-------SMNATDLKPSRLTRAKAAIADLLAR----LPGDRVGLIAFA-G 48

Query: 85  ASWLRKEFSSDIESTLTAVRGISATSAC-GQADLTHLFKLASHEAKKSRAQNRILRVILI 143
           +++L    + D  +   A+  +S      G  +L     LA      +   +    ++LI
Sbjct: 49  SAYLVLPLTDDRAALAAALPALSPRIMPGGGTNLAAALALALRLLAGAGGGSG--AIVLI 106

Length = 172

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	259
cd01452	187	VWA_26S_proteasome_subunit 26S proteasome plays a	98.54
cd01453	183	vWA_transcription_factor_IIH_type Transcription fa	98.28
cd01458	218	vWA_ku Ku70/Ku80 N-terminal domain. The Ku78 heter	98.14
PF13519	172	VWA_2: von Willebrand factor type A domain; PDB: 3	97.94
smart00327	177	VWA von Willebrand factor (vWF) type A domain. VWA	97.74
cd00198	161	vWFA Von Willebrand factor type A (vWA) domain was	97.67
cd01467	180	vWA_BatA_type VWA BatA type: Von Willebrand factor	97.66
PRK13685	326	hypothetical protein; Provisional	97.64
cd01466	155	vWA_C3HC4_type VWA C3HC4-type: Von Willebrand fact	97.61
KOG2884	259	consensus 26S proteasome regulatory complex, subun	97.59
cd01472	164	vWA_collagen von Willebrand factor (vWF) type A do	97.59
PF04056	193	Ssl1: Ssl1-like; InterPro: IPR007198 Ssl1-like pro	97.58
cd01456	206	vWA_ywmD_type VWA ywmD type:Von Willebrand factor	97.57
cd01465	170	vWA_subgroup VWA subgroup: Von Willebrand factor t	97.39
cd01480	186	vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI	97.31
TIGR03436	296	acidobact_VWFA VWFA-related Acidobacterial domain.	97.28
cd01460	266	vWA_midasin VWA_Midasin: Midasin is a member of th	97.23
cd01474	185	vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxi	97.22
cd01451	178	vWA_Magnesium_chelatase Magnesium chelatase: Mg-ch	97.14
cd01470	198	vWA_complement_factors Complement factors B and C2	97.12
cd01463	190	vWA_VGCC_like VWA Voltage gated Calcium channel li	97.12
PF13768	155	VWA_3: von Willebrand factor type A domain	97.1
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	97.06
PF00092	178	VWA: von Willebrand factor type A domain; InterPro	97.02
PF03731	224	Ku_N: Ku70/Ku80 N-terminal alpha/beta domain; Inte	97.01
cd01450	161	vWFA_subfamily_ECM Von Willebrand factor type A (v	96.91
cd01482	164	vWA_collagen_alphaI-XII-like Collagen: The extrace	96.79
COG1240	261	ChlD Mg-chelatase subunit ChlD [Coenzyme metabolis	96.59
cd01471	186	vWA_micronemal_protein Micronemal proteins: The To	96.57
cd01475	224	vWA_Matrilin VWA_Matrilin: In cartilaginous plate,	96.51
cd01477	193	vWA_F09G8-8_type VWA F09G8.8 type: Von Willebrand	96.44
cd01469	177	vWA_integrins_alpha_subunit Integrins are a class	96.34
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	96.29
cd01461	171	vWA_interalpha_trypsin_inhibitor vWA_interalpha tr	96.26
TIGR00868	863	hCaCC calcium-activated chloride channel protein 1	95.95
cd01476	163	VWA_integrin_invertebrates VWA_integrin (invertebr	95.88
TIGR03788	596	marine_srt_targ marine proteobacterial sortase tar	95.86
TIGR00578	584	ku70 ATP-dependent DNA helicase ii, 70 kDa subunit	95.59
cd01462	152	VWA_YIEM_type VWA YIEM type: Von Willebrand factor	95.49
PTZ00441	576	sporozoite surface protein 2 (SSP2); Provisional	95.13
cd01481	165	vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(V	94.76
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	94.75
cd01454	174	vWA_norD_type norD type: Denitrifying bacteria con	94.33
cd01464	176	vWA_subfamily VWA subfamily: Von Willebrand factor	93.9
cd01457	199	vWA_ORF176_type VWA ORF176 type: Von Willebrand fa	93.53
cd01473	192	vWA_CTRP CTRP for CS protein-TRAP-related protein:	93.37
KOG2807	378	consensus RNA polymerase II transcription initiati	92.82
cd01455	191	vWA_F11C1-5a_type Von Willebrand factor type A (vW	91.77
PF11265	226	Med25_VWA: Mediator complex subunit 25 von Willebr	88.06
COG5148	243	RPN10 26S proteasome regulatory complex, subunit R	86.23
cd01468	239	trunk_domain trunk domain. COPII-coated vesicles c	83.76
PF04811	243	Sec23_trunk: Sec23/Sec24 trunk domain; InterPro: I	82.34

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

Probab=98.54  E-value=1.6e-06  Score=76.39  Aligned_cols=168  Identities=18%  Similarity=0.294  Sum_probs=121.6

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecc-cceeeecccCCCHHHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAK-TASWLRKEFSSDIESTLT  101 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~d-sasWl~~~FTsd~~~i~~  101 (259)
                      -|=++||||+|.-|..+       .-..|||+..|+++..|+..|..-+|.-+.||+++++ .+.+++ +.|+|...+..
T Consensus         3 ~ea~vi~lD~S~sM~a~-------D~~PnRL~aak~~i~~~~~~f~~~np~~~vGlv~fag~~a~v~~-plT~D~~~~~~   74 (187)
T cd01452           3 LEATMICIDNSEYMRNG-------DYPPTRFQAQADAVNLICQAKTRSNPENNVGLMTMAGNSPEVLV-TLTNDQGKILS   74 (187)
T ss_pred             ceEEEEEEECCHHHHcC-------CCCCCHHHHHHHHHHHHHHHHHhcCCCccEEEEEecCCceEEEE-CCCCCHHHHHH
Confidence            48899999999987631       1344899999999999999999999999999999998 899998 99999999999


Q ss_pred             HhhccccccccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEeecC-CCCcc-cc-C--CCCCCceEEEEEeecCCCCCC
Q 025034          102 AVRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIYCRS-SVRPQ-HQ-W--PVNQKLFTMDVLYLHDKPGPD  176 (259)
Q Consensus       102 aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY~RS-~~~P~-~~-~--~~~~p~FflDVvYlHd~~~~d  176 (259)
                      +|+.++..   +..||..=.+++....+......-.-|+|+++|=. .+=|. .. .  .+++..-.+||+=+=+.  .+
T Consensus        75 ~L~~i~~~---g~~~l~~AL~~A~~~L~~~~~~~~~~rivi~v~S~~~~d~~~i~~~~~~lkk~~I~v~vI~~G~~--~~  149 (187)
T cd01452          75 KLHDVQPK---GKANFITGIQIAQLALKHRQNKNQKQRIVAFVGSPIEEDEKDLVKLAKRLKKNNVSVDIINFGEI--DD  149 (187)
T ss_pred             HHHhCCCC---CcchHHHHHHHHHHHHhcCCCcCCcceEEEEEecCCcCCHHHHHHHHHHHHHcCCeEEEEEeCCC--CC
Confidence            99988854   56677776665554444333323345878888766 33222 11 1  13455777899988544  44


Q ss_pred             CChHHHHHHHHHhhhhcCCCceeEEEcCcch
Q 025034          177 NCPQKVYDALVDALEHVSENEGYIFESGQGL  207 (259)
Q Consensus       177 nc~q~Vyd~L~~~ld~~s~~~sYi~Evg~~~  207 (259)
                      |-  +.-..|+++...  +..|-+.++-.|.
T Consensus       150 ~~--~~l~~~~~~~~~--~~~s~~~~~~~~~  176 (187)
T cd01452         150 NT--EKLTAFIDAVNG--KDGSHLVSVPPGE  176 (187)
T ss_pred             CH--HHHHHHHHHhcC--CCCceEEEeCCCC
Confidence            43  446677777753  4568888877555

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.

>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=98.28  E-value=1.9e-05  Score=68.09  Aligned_cols=135  Identities=16%  Similarity=0.284  Sum_probs=90.2

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEe-cccceeeecccCCCHHHHHHHh
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTL-AKTASWLRKEFSSDIESTLTAV  103 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L-~dsasWl~~~FTsd~~~i~~aL  103 (259)
                      +|+|+||+|.-|..    +  | -..+||+..|++++.|++.+..-+|.-+++|+++ +.++.-++ ++|+|.+.+...|
T Consensus         5 ~ivi~lD~S~SM~a----~--D-~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~a~~~~-PlT~D~~~~~~~L   76 (183)
T cd01453           5 HLIIVIDCSRSMEE----Q--D-LKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGRAEKLT-DLTGNPRKHIQAL   76 (183)
T ss_pred             EEEEEEECcHHHhc----C--C-CCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCccEEEE-CCCCCHHHHHHHh
Confidence            69999999998773    1  1 2358999999999999999888889999999999 57788887 9999999999998


Q ss_pred             hccccccccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEeec-CCCCcc-c-cC--CCCCCceEEEEEeec
Q 025034          104 RGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIYCR-SSVRPQ-H-QW--PVNQKLFTMDVLYLH  170 (259)
Q Consensus       104 ~~L~~~~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY~R-S~~~P~-~-~~--~~~~p~FflDVvYlH  170 (259)
                      +.+.  ...+..+|..-.+.+....+..... .--|+|++.+= +.+-|. . .+  .+++..-.+++|=+.
T Consensus        77 ~~~~--~~~G~t~l~~aL~~A~~~l~~~~~~-~~~~iiil~sd~~~~~~~~~~~~~~~l~~~~I~v~~IgiG  145 (183)
T cd01453          77 KTAR--ECSGEPSLQNGLEMALESLKHMPSH-GSREVLIIFSSLSTCDPGNIYETIDKLKKENIRVSVIGLS  145 (183)
T ss_pred             hccc--CCCCchhHHHHHHHHHHHHhcCCcc-CceEEEEEEcCCCcCChhhHHHHHHHHHHcCcEEEEEEec
Confidence            8761  1223345655555554444322111 12456777652 122221 1 11  133345567777775

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.

>cd01458 vWA_ku Ku70/Ku80 N-terminal domain

Probab=98.14  E-value=4.8e-05  Score=66.56  Aligned_cols=155  Identities=16%  Similarity=0.231  Sum_probs=95.9

Q ss_pred             ccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccc----------eeeeccc-
Q 025034           24 EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTA----------SWLRKEF-   92 (259)
Q Consensus        24 EkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsa----------sWl~~~F-   92 (259)
                      |-||||||+|+.|..     ..+|...+||+.+++++..|++.|....|.-+.||+..+.+.          .-++ +. 
T Consensus         2 e~ivf~iDvS~SM~~-----~~~~~~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~~~~~~i~v~~-~l~   75 (218)
T cd01458           2 ESVVFLVDVSPSMFE-----SKDGEYESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNPVGYENIYVLL-DLD   75 (218)
T ss_pred             cEEEEEEeCCHHHcC-----CCCCCCCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCcCCCCceEEee-cCC
Confidence            789999999998872     224445699999999999999999999999999999999653          1122 44 


Q ss_pred             CCCHHHHHHHhhcccccc--------ccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEeecCCCCcc----c---cC--
Q 025034           93 SSDIESTLTAVRGISATS--------ACGQADLTHLFKLASHEAKKSRAQNRILRVILIYCRSSVRPQ----H---QW--  155 (259)
Q Consensus        93 Tsd~~~i~~aL~~L~~~~--------~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY~RS~~~P~----~---~~--  155 (259)
                      +.|.+.+...+..++...        .....||...+..+.......... ..-|.|++..=-. -|.    .   .+  
T Consensus        76 ~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~aL~~a~~~~~~~~~~-~~~k~IvL~TDg~-~p~~~~~~~~~~~~~  153 (218)
T cd01458          76 TPGAERVEDLKELIEPGGLSFAGQVGDSGQVSLSDALWVCLDLFSKGKKK-KSHKRIFLFTNND-DPHGGDSIKDSQAAV  153 (218)
T ss_pred             CCCHHHHHHHHHHhhcchhhhcccCCCCCCccHHHHHHHHHHHHHhcccc-ccccEEEEECCCC-CCCCCCHHHHHHHHH
Confidence            677765555555444331        346778877777666554432222 2334444443211 121    0   00  


Q ss_pred             ---CCCCCceEEEEEeecCCCCCCCChHHHHHHHH
Q 025034          156 ---PVNQKLFTMDVLYLHDKPGPDNCPQKVYDALV  187 (259)
Q Consensus       156 ---~~~~p~FflDVvYlHd~~~~dnc~q~Vyd~L~  187 (259)
                         -+++....+.++.+-..... --+...|..+.
T Consensus       154 ~a~~l~~~gI~i~~i~i~~~~~~-f~~~~fy~~i~  187 (218)
T cd01458         154 KAEDLKDKGIELELFPLSSPGKK-FDVSKFYKDII  187 (218)
T ss_pred             HHHHHHhCCcEEEEEecCCCCCC-CChhHHHHHHh
Confidence               02333566677777443331 23667777664

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.

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

Probab=97.94  E-value=0.00017  Score=57.85  Aligned_cols=162  Identities=19%  Similarity=0.284  Sum_probs=99.1

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCCCHHHHHHHhh
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVR  104 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTsd~~~i~~aL~  104 (259)
                      +||||||.|.-|...       +...++++.+|.++..++.. .   |..+|+|+..+++..++. +||+|.+.+.+.|.
T Consensus         1 dvv~v~D~SgSM~~~-------~~~~~~~~~~~~~~~~~~~~-~---~~~~v~l~~f~~~~~~~~-~~t~~~~~~~~~l~   68 (172)
T PF13519_consen    1 DVVFVLDNSGSMNGY-------DGNRTRIDQAKDALNELLAN-L---PGDRVGLVSFSDSSRTLS-PLTSDKDELKNALN   68 (172)
T ss_dssp             EEEEEEE-SGGGGTT-------TSSS-HHHHHHHHHHHHHHH-H---TTSEEEEEEESTSCEEEE-EEESSHHHHHHHHH
T ss_pred             CEEEEEECCcccCCC-------CCCCcHHHHHHHHHHHHHHH-C---CCCEEEEEEecccccccc-cccccHHHHHHHhh
Confidence            699999999988732       23478999999999999986 2   566999999999998888 99999999999999


Q ss_pred             cccccc-ccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEeecCCCCccc---cC--CCCCCceEEEEEeecCCCCCCCC
Q 025034          105 GISATS-ACGQADLTHLFKLASHEAKKSRAQNRILRVILIYCRSSVRPQH---QW--PVNQKLFTMDVLYLHDKPGPDNC  178 (259)
Q Consensus       105 ~L~~~~-~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY~RS~~~P~~---~~--~~~~p~FflDVvYlHd~~~~dnc  178 (259)
                      .+.... ....-++..-+..+.....   ..+..-|.|++.+--  .|.-   +.  ..++....+.+|.+......   
T Consensus        69 ~~~~~~~~~~~t~~~~al~~a~~~~~---~~~~~~~~iv~iTDG--~~~~~~~~~~~~~~~~~i~i~~v~~~~~~~~---  140 (172)
T PF13519_consen   69 KLSPQGMPGGGTNLYDALQEAAKMLA---SSDNRRRAIVLITDG--EDNSSDIEAAKALKQQGITIYTVGIGSDSDA---  140 (172)
T ss_dssp             THHHHG--SSS--HHHHHHHHHHHHH---C-SSEEEEEEEEES---TTHCHHHHHHHHHHCTTEEEEEEEES-TT-E---
T ss_pred             cccccccCccCCcHHHHHHHHHHHHH---hCCCCceEEEEecCC--CCCcchhHHHHHHHHcCCeEEEEEECCCccH---
Confidence            999642 2233344433333333222   222455666666543  2221   00  13455677888887766554   


Q ss_pred             hHHHHHHHHHhhhhcCCCceeEEEcC---cchHHHHHHH
Q 025034          179 PQKVYDALVDALEHVSENEGYIFESG---QGLARILFRQ  214 (259)
Q Consensus       179 ~q~Vyd~L~~~ld~~s~~~sYi~Evg---~~~a~~L~~~  214 (259)
                       ++.+..|...      ..|-+|++.   ..+ ..+|+.
T Consensus       141 -~~~l~~la~~------tgG~~~~~~~~~~~l-~~~~~~  171 (172)
T PF13519_consen  141 -NEFLQRLAEA------TGGRYFHVDNDPEDL-DDAFQQ  171 (172)
T ss_dssp             -HHHHHHHHHH------TEEEEEEE-SSSHHH-HHHHHH
T ss_pred             -HHHHHHHHHh------cCCEEEEecCCHHHH-HHHHhc
Confidence             3444444331      235555552   333 455554

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

Probab=97.74  E-value=0.00075  Score=54.40  Aligned_cols=154  Identities=18%  Similarity=0.189  Sum_probs=98.4

Q ss_pred             ccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeeccc--CCCHHHHHH
Q 025034           24 EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEF--SSDIESTLT  101 (259)
Q Consensus        24 EkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~F--Tsd~~~i~~  101 (259)
                      =+|+||||+|..|.            -.+++.+|.++..|++.-...++..++++++.++...... ++  +++.+.+.+
T Consensus         2 ~~v~l~vD~S~SM~------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~~~~~~~~-~~~~~~~~~~~~~   68 (177)
T smart00327        2 LDVVFLLDGSGSMG------------PNRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFSDDATVLF-PLNDSRSKDALLE   68 (177)
T ss_pred             ccEEEEEeCCCccc------------hHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCceEEE-cccccCCHHHHHH
Confidence            37999999999875            1579999999999999888777899999999999877776 78  899999999


Q ss_pred             HhhccccccccCCCChhHHHHHHHHHhhhhcCC--CceEEEEEEee--cCCCCccc-cC--CCCCCceEEEEEeecCCCC
Q 025034          102 AVRGISATSACGQADLTHLFKLASHEAKKSRAQ--NRILRVILIYC--RSSVRPQH-QW--PVNQKLFTMDVLYLHDKPG  174 (259)
Q Consensus       102 aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~~~~--~~vvRVILiY~--RS~~~P~~-~~--~~~~p~FflDVvYlHd~~~  174 (259)
                      .++.+... ..+.-++..-++.+...++.....  ...-++|+|.+  .++..... ..  ..+.....+..+.+.+...
T Consensus        69 ~i~~~~~~-~~~~~~~~~al~~~~~~~~~~~~~~~~~~~~~iviitDg~~~~~~~~~~~~~~~~~~~i~i~~i~~~~~~~  147 (177)
T smart00327       69 ALASLSYK-LGGGTNLGAALQYALENLFSKSAGSRRGAPKVLILITDGESNDGGDLLKAAKELKRSGVKVFVVGVGNDVD  147 (177)
T ss_pred             HHHhcCCC-CCCCchHHHHHHHHHHHhcCcCCCCCCCCCeEEEEEcCCCCCCCccHHHHHHHHHHCCCEEEEEEccCccC
Confidence            99998852 223445666555555554322111  12245666663  22211011 00  0223346677777764331


Q ss_pred             CCCChHHHHHHHHHhhhhcCCCceeEE
Q 025034          175 PDNCPQKVYDALVDALEHVSENEGYIF  201 (259)
Q Consensus       175 ~dnc~q~Vyd~L~~~ld~~s~~~sYi~  201 (259)
                              ++.+ ..+.+- .+..|.|
T Consensus       148 --------~~~l-~~~~~~-~~~~~~~  164 (177)
T smart00327      148 --------EEEL-KKLASA-PGGVYVF  164 (177)
T ss_pred             --------HHHH-HHHhCC-CcceEEe
Confidence                    4444 234442 2445666

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.

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

Probab=97.67  E-value=0.0013  Score=51.02  Aligned_cols=107  Identities=24%  Similarity=0.352  Sum_probs=79.4

Q ss_pred             ccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCC--CHHHHHH
Q 025034           24 EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSS--DIESTLT  101 (259)
Q Consensus        24 EkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTs--d~~~i~~  101 (259)
                      .+|+|+||.|.-|.            ..+++.+|+++..++..-...++..+++++..++....+. +++.  +.+.+..
T Consensus         1 ~~v~~viD~S~Sm~------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~~~~~~~~-~~~~~~~~~~~~~   67 (161)
T cd00198           1 ADIVFLLDVSGSMG------------GEKLDKAKEALKALVSSLSASPPGDRVGLVTFGSNARVVL-PLTTDTDKADLLE   67 (161)
T ss_pred             CcEEEEEeCCCCcC------------cchHHHHHHHHHHHHHhcccCCCCcEEEEEEecCccceee-cccccCCHHHHHH
Confidence            37999999999762            2678999999999999888877899999999998776666 7776  8899999


Q ss_pred             HhhccccccccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEee
Q 025034          102 AVRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIYC  145 (259)
Q Consensus       102 aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY~  145 (259)
                      .+..+.. .....-|+...++.+........ .+...|+|++++
T Consensus        68 ~~~~~~~-~~~~~t~~~~al~~~~~~~~~~~-~~~~~~~lvvit  109 (161)
T cd00198          68 AIDALKK-GLGGGTNIGAALRLALELLKSAK-RPNARRVIILLT  109 (161)
T ss_pred             HHHhccc-CCCCCccHHHHHHHHHHHhcccC-CCCCceEEEEEe
Confidence            9998875 34466677777777765543322 233445444444

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.

>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=97.66  E-value=0.00094  Score=55.51  Aligned_cols=133  Identities=20%  Similarity=0.190  Sum_probs=83.1

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCCCHHHHHHHhh
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVR  104 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTsd~~~i~~aL~  104 (259)
                      +|+||||+|.-|...- .    + ..++++..|+++..|+..    .+..+++++++++.+.++. +++.|...+...|.
T Consensus         4 ~vv~vlD~S~SM~~~~-~----~-~~~r~~~a~~~~~~~~~~----~~~~~v~lv~f~~~~~~~~-~~~~~~~~~~~~l~   72 (180)
T cd01467           4 DIMIALDVSGSMLAQD-F----V-KPSRLEAAKEVLSDFIDR----RENDRIGLVVFAGAAFTQA-PLTLDRESLKELLE   72 (180)
T ss_pred             eEEEEEECCccccccc-C----C-CCCHHHHHHHHHHHHHHh----CCCCeEEEEEEcCCeeecc-CCCccHHHHHHHHH
Confidence            6899999999887321 1    1 347999999999999864    3678999999999988887 99999998888888


Q ss_pred             ccccccccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEe--ecCCCCccc--c--CCCCCCceEEEEEeecC
Q 025034          105 GISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIY--CRSSVRPQH--Q--WPVNQKLFTMDVLYLHD  171 (259)
Q Consensus       105 ~L~~~~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY--~RS~~~P~~--~--~~~~~p~FflDVvYlHd  171 (259)
                      .|........-++..=+..+........   ..-++|+|.  |.++.-+..  .  ...++....+.+|=+-.
T Consensus        73 ~l~~~~~~g~T~l~~al~~a~~~l~~~~---~~~~~iiliTDG~~~~g~~~~~~~~~~~~~~gi~i~~i~ig~  142 (180)
T cd01467          73 DIKIGLAGQGTAIGDAIGLAIKRLKNSE---AKERVIVLLTDGENNAGEIDPATAAELAKNKGVRIYTIGVGK  142 (180)
T ss_pred             HhhhcccCCCCcHHHHHHHHHHHHHhcC---CCCCEEEEEeCCCCCCCCCCHHHHHHHHHHCCCEEEEEEecC
Confidence            8873222223344433333333222111   112566666  555533221  1  11233445566665554

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

>PRK13685 hypothetical protein; Provisional

Probab=97.64  E-value=0.00021  Score=66.75  Aligned_cols=76  Identities=20%  Similarity=0.306  Sum_probs=65.4

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCCCHHHHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTA  102 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTsd~~~i~~a  102 (259)
                      +-+||||||+|.-|..+      + -..+||+..|+++..|+..   +.++.+++|++.++++.++. ++|+|.+.+..+
T Consensus        88 ~~~vvlvlD~S~SM~~~------D-~~p~RL~~ak~~~~~~l~~---l~~~d~vglv~Fa~~a~~~~-p~t~d~~~l~~~  156 (326)
T PRK13685         88 RAVVMLVIDVSQSMRAT------D-VEPNRLAAAQEAAKQFADE---LTPGINLGLIAFAGTATVLV-SPTTNREATKNA  156 (326)
T ss_pred             CceEEEEEECCccccCC------C-CCCCHHHHHHHHHHHHHHh---CCCCCeEEEEEEcCceeecC-CCCCCHHHHHHH
Confidence            44799999999988731      1 2348999999999999973   56788999999999999998 999999999999


Q ss_pred             hhccccc
Q 025034          103 VRGISAT  109 (259)
Q Consensus       103 L~~L~~~  109 (259)
                      |+.|...
T Consensus       157 l~~l~~~  163 (326)
T PRK13685        157 IDKLQLA  163 (326)
T ss_pred             HHhCCCC
Confidence            9999864

>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=97.61  E-value=0.00095  Score=55.36  Aligned_cols=106  Identities=20%  Similarity=0.304  Sum_probs=71.3

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCC----CHHHHH
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSS----DIESTL  100 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTs----d~~~i~  100 (259)
                      +|+|+||.|.-|..            +||+.+|+|+..+++   .+.++-+++|+++++.+.|+. +++.    +.+.+.
T Consensus         2 ~v~~vlD~S~SM~~------------~rl~~ak~a~~~l~~---~l~~~~~~~li~F~~~~~~~~-~~~~~~~~~~~~~~   65 (155)
T cd01466           2 DLVAVLDVSGSMAG------------DKLQLVKHALRFVIS---SLGDADRLSIVTFSTSAKRLS-PLRRMTAKGKRSAK   65 (155)
T ss_pred             cEEEEEECCCCCCc------------HHHHHHHHHHHHHHH---hCCCcceEEEEEecCCccccC-CCcccCHHHHHHHH
Confidence            58999999997752            289999999997776   455667899999999999997 8874    446788


Q ss_pred             HHhhccccccccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEe-ecCCC
Q 025034          101 TAVRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIY-CRSSV  149 (259)
Q Consensus       101 ~aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY-~RS~~  149 (259)
                      +.|..+.+.+   .-++..=++.+.+..+.....+..-++|||= |.++.
T Consensus        66 ~~i~~~~~~g---~T~~~~al~~a~~~~~~~~~~~~~~~iillTDG~~~~  112 (155)
T cd01466          66 RVVDGLQAGG---GTNVVGGLKKALKVLGDRRQKNPVASIMLLSDGQDNH  112 (155)
T ss_pred             HHHHhccCCC---CccHHHHHHHHHHHHhhcccCCCceEEEEEcCCCCCc
Confidence            8888876533   2244444444444433332233444566654 45443

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,

>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]

Probab=97.59  E-value=0.0039  Score=57.15  Aligned_cols=175  Identities=21%  Similarity=0.314  Sum_probs=127.4

Q ss_pred             CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecc-cceeeecccCCCHHHHH
Q 025034           22 SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAK-TASWLRKEFSSDIESTL  100 (259)
Q Consensus        22 ~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~d-sasWl~~~FTsd~~~i~  100 (259)
                      .+|-+++|||=|+-|..     |  .=.-|||..=|.||.+-..+|..=||..--+|+++.+ ++.-|. -+|+|.--|+
T Consensus         2 vlEatmi~iDNse~mrN-----g--Dy~PtRf~aQ~daVn~v~~~K~~snpEntvGiitla~a~~~vLs-T~T~d~gkil   73 (259)
T KOG2884|consen    2 VLEATMICIDNSEYMRN-----G--DYLPTRFQAQKDAVNLVCQAKLRSNPENTVGIITLANASVQVLS-TLTSDRGKIL   73 (259)
T ss_pred             CcceEEEEEeChHHhhc-----C--CCChHHHHHHHHHHHHHHHhhhcCCcccceeeEeccCCCceeee-eccccchHHH
Confidence            57999999999986552     1  1345899999999999999999999999999999998 899998 9999999999


Q ss_pred             HHhhccccccccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEeecCCCCccc-----cCCCCCCceEEEEEeecCCCCC
Q 025034          101 TAVRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIYCRSSVRPQH-----QWPVNQKLFTMDVLYLHDKPGP  175 (259)
Q Consensus       101 ~aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY~RS~~~P~~-----~~~~~~p~FflDVvYlHd~~~~  175 (259)
                      ++|.++..-+   .+|+..=.+.++.-.+..+..+.--|+|++-|-+-.=-.-     -..++.-.-.+|+|..-+-.+ 
T Consensus        74 s~lh~i~~~g---~~~~~~~i~iA~lalkhRqnk~~~~riVvFvGSpi~e~ekeLv~~akrlkk~~Vaidii~FGE~~~-  149 (259)
T KOG2884|consen   74 SKLHGIQPHG---KANFMTGIQIAQLALKHRQNKNQKQRIVVFVGSPIEESEKELVKLAKRLKKNKVAIDIINFGEAEN-  149 (259)
T ss_pred             HHhcCCCcCC---cccHHHHHHHHHHHHHhhcCCCcceEEEEEecCcchhhHHHHHHHHHHHHhcCeeEEEEEeccccc-
Confidence            9999998665   4566554444433445556667778988888754311110     011455667899998765433 


Q ss_pred             CCChHHHHHHHHHhhhhcCCCceeEEEcCcchHHHHHHH
Q 025034          176 DNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQ  214 (259)
Q Consensus       176 dnc~q~Vyd~L~~~ld~~s~~~sYi~Evg~~~a~~L~~~  214 (259)
                       | .+. .+.|.++++. +...|-+.+|..|+  .|...
T Consensus       150 -~-~e~-l~~fida~N~-~~~gshlv~Vppg~--~L~d~  182 (259)
T KOG2884|consen  150 -N-TEK-LFEFIDALNG-KGDGSHLVSVPPGP--LLSDA  182 (259)
T ss_pred             -c-HHH-HHHHHHHhcC-CCCCceEEEeCCCc--cHHHH
Confidence             2 444 4455588886 24557788999888  36553

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

Probab=97.59  E-value=0.0013  Score=54.42  Aligned_cols=104  Identities=17%  Similarity=0.267  Sum_probs=74.3

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCC-CccEEEEEecccceeeecccC--CCHHHHHH
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINP-DHRFAFVTLAKTASWLRKEFS--SDIESTLT  101 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p-~HeFAl~~L~dsasWl~~~FT--sd~~~i~~  101 (259)
                      +|+|+||.|.-|..            .+++.+|+++..++.. +.+.+ +-++++++.++++.|.. +|+  .|.+.+..
T Consensus         2 Dvv~vlD~SgSm~~------------~~~~~~k~~~~~~~~~-l~~~~~~~~~giv~Fs~~~~~~~-~~~~~~~~~~~~~   67 (164)
T cd01472           2 DIVFLVDGSESIGL------------SNFNLVKDFVKRVVER-LDIGPDGVRVGVVQYSDDPRTEF-YLNTYRSKDDVLE   67 (164)
T ss_pred             CEEEEEeCCCCCCH------------HHHHHHHHHHHHHHhh-cccCCCCeEEEEEEEcCceeEEE-ecCCCCCHHHHHH
Confidence            79999999997762            3578888888888864 44443 45999999999999998 999  89999999


Q ss_pred             HhhccccccccCCCChhHHHHHHHHHhhhh--cCCCceEEEEEEe
Q 025034          102 AVRGISATSACGQADLTHLFKLASHEAKKS--RAQNRILRVILIY  144 (259)
Q Consensus       102 aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~--~~~~~vvRVILiY  144 (259)
                      +|+.+...+  +.-++..=+..+.+.....  ...+..-|+|++.
T Consensus        68 ~l~~l~~~~--g~T~~~~al~~a~~~l~~~~~~~~~~~~~~iili  110 (164)
T cd01472          68 AVKNLRYIG--GGTNTGKALKYVRENLFTEASGSREGVPKVLVVI  110 (164)
T ss_pred             HHHhCcCCC--CCchHHHHHHHHHHHhCCcccCCCCCCCEEEEEE
Confidence            999888542  2236666666665544321  1223345666665

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.

>PF04056 Ssl1: Ssl1-like; InterPro: IPR007198 Ssl1-like proteins are 40 kDa subunits of the transcription factor II H complex

Probab=97.58  E-value=0.00062  Score=60.56  Aligned_cols=109  Identities=17%  Similarity=0.302  Sum_probs=86.5

Q ss_pred             EEeCChhhhh-hhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEeccc-ceeeecccCCCHHHHHHHhhcc
Q 025034           29 CVDVDAESLV-EMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKT-ASWLRKEFSSDIESTLTAVRGI  106 (259)
Q Consensus        29 CiD~~~E~~~-~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~ds-asWl~~~FTsd~~~i~~aL~~L  106 (259)
                      +||.|+-|.. -+        .-|||.++.++++.||+....-||--+-+++++.|. +.-+. ++++++++.+++|+.+
T Consensus         1 viD~S~~m~~~D~--------~PtRl~~~~~~l~~Fv~eff~qNPiSqlgii~~~~~~a~~ls-~lsgn~~~h~~~L~~~   71 (193)
T PF04056_consen    1 VIDMSEAMREKDL--------KPTRLQCVLKALEEFVREFFDQNPISQLGIIVMRDGRAERLS-ELSGNPQEHIEALKKL   71 (193)
T ss_pred             CeechHhHHhCcC--------CccHHHHHHHHHHHHHHHHHhcCChhheeeeeeecceeEEee-ecCCCHHHHHHHHHHh
Confidence            4899998873 22        349999999999999999999999999999999996 77776 9999999999999999


Q ss_pred             ccccccCCCChhHHHHHHHHHhhhhcCCCce-EEEEEEeecCC
Q 025034          107 SATSACGQADLTHLFKLASHEAKKSRAQNRI-LRVILIYCRSS  148 (259)
Q Consensus       107 ~~~~~~~~~DL~~LF~~i~~e~~~~~~~~~v-vRVILiY~RS~  148 (259)
                      ...+..+.+.|..=++++....+.  .|+|. =+|++|||--+
T Consensus        72 ~~~~~~G~~SLqN~Le~A~~~L~~--~p~~~srEIlvi~gSl~  112 (193)
T PF04056_consen   72 RKLEPSGEPSLQNGLEMARSSLKH--MPSHGSREILVIFGSLT  112 (193)
T ss_pred             ccCCCCCChhHHHHHHHHHHHHhh--CccccceEEEEEEeecc
Confidence            866666888888877777655432  23343 36677786543

This domain is often found associated with the C2H2 type Zn-finger (IPR007087 from INTERPRO).; GO: 0008270 zinc ion binding, 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent

>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=97.57  E-value=0.0017  Score=56.13  Aligned_cols=89  Identities=19%  Similarity=0.252  Sum_probs=63.6

Q ss_pred             CCCccccCCCCC---CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccce
Q 025034           10 GAGRFTLPPMRI---SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTAS   86 (259)
Q Consensus        10 ~~~~~~l~p~~~---~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsas   86 (259)
                      |+|.|++.+.-.   .|-+|+|+||+|.-|..      .++...+||+.+|+++..|+..   +.++.+++|+++++++.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~vv~vlD~SgSM~~------~~~~~~~rl~~ak~a~~~~l~~---l~~~~~v~lv~F~~~~~   74 (206)
T cd01456           4 GSPAFALEPVETEPQLPPNVAIVLDNSGSMRE------VDGGGETRLDNAKAALDETANA---LPDGTRLGLWTFSGDGD   74 (206)
T ss_pred             CcccccccccccccCCCCcEEEEEeCCCCCcC------CCCCcchHHHHHHHHHHHHHHh---CCCCceEEEEEecCCCC
Confidence            445555554322   47889999999998762      1223458999999999999984   67889999999998543


Q ss_pred             eee---------------cccC-CCHHHHHHHhhccc
Q 025034           87 WLR---------------KEFS-SDIESTLTAVRGIS  107 (259)
Q Consensus        87 Wl~---------------~~FT-sd~~~i~~aL~~L~  107 (259)
                      +..               .++. .+.+.+..+|..+.
T Consensus        75 ~~~~~~~~~p~~~~~~~~~~~~~~~~~~l~~~i~~i~  111 (206)
T cd01456          75 NPLDVRVLVPKGCLTAPVNGFPSAQRSALDAALNSLQ  111 (206)
T ss_pred             CCccccccccccccccccCCCCcccHHHHHHHHHhhc
Confidence            211               0222 47788888998887

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

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

Probab=97.39  E-value=0.0044  Score=50.66  Aligned_cols=86  Identities=24%  Similarity=0.342  Sum_probs=64.0

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccC--CCHHHHHHH
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFS--SDIESTLTA  102 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FT--sd~~~i~~a  102 (259)
                      +++||||+|.-|..            .+++..|+|+..++.   .+++..++++++.++.+.++. +++  .|.+.+...
T Consensus         2 ~~~~vlD~S~SM~~------------~~~~~~k~a~~~~~~---~l~~~~~v~li~f~~~~~~~~-~~~~~~~~~~l~~~   65 (170)
T cd01465           2 NLVFVIDRSGSMDG------------PKLPLVKSALKLLVD---QLRPDDRLAIVTYDGAAETVL-PATPVRDKAAILAA   65 (170)
T ss_pred             cEEEEEECCCCCCC------------hhHHHHHHHHHHHHH---hCCCCCEEEEEEecCCccEEe-cCcccchHHHHHHH
Confidence            58999999997751            248999999999887   667788999999999999987 776  477888888


Q ss_pred             hhccccccccCCCChhHHHHHHHHHhh
Q 025034          103 VRGISATSACGQADLTHLFKLASHEAK  129 (259)
Q Consensus       103 L~~L~~~~~~~~~DL~~LF~~i~~e~~  129 (259)
                      |..+...+   .-++..-++.+...++
T Consensus        66 l~~~~~~g---~T~~~~al~~a~~~~~   89 (170)
T cd01465          66 IDRLTAGG---STAGGAGIQLGYQEAQ   89 (170)
T ss_pred             HHcCCCCC---CCCHHHHHHHHHHHHH
Confidence            88887533   2245554444444443

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

>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=97.31  E-value=0.0048  Score=52.63  Aligned_cols=74  Identities=18%  Similarity=0.147  Sum_probs=57.0

Q ss_pred             CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhh-----cC-CCCccEEEEEecccceeeecccC--
Q 025034           22 SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKL-----SI-NPDHRFAFVTLAKTASWLRKEFS--   93 (259)
Q Consensus        22 ~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~-----~i-~p~HeFAl~~L~dsasWl~~~FT--   93 (259)
                      ||-+|+|+||.|.-|..            .+++..|++++.+++.=.     .+ ...-++|+++.++.+.+.. +|+  
T Consensus         1 c~~dvv~vlD~S~Sm~~------------~~~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs~~~~~~~-~l~~~   67 (186)
T cd01480           1 GPVDITFVLDSSESVGL------------QNFDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYSDQQEVEA-GFLRD   67 (186)
T ss_pred             CCeeEEEEEeCCCccch------------hhHHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEecCCceeeE-ecccc
Confidence            88999999999997762            235666666666665321     23 3347999999999999998 888  


Q ss_pred             -CCHHHHHHHhhcccc
Q 025034           94 -SDIESTLTAVRGISA  108 (259)
Q Consensus        94 -sd~~~i~~aL~~L~~  108 (259)
                       +|.+.+.++|+.+..
T Consensus        68 ~~~~~~l~~~i~~l~~   83 (186)
T cd01480          68 IRNYTSLKEAVDNLEY   83 (186)
T ss_pred             cCCHHHHHHHHHhCcc
Confidence             789999999998874

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

>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain

Probab=97.28  E-value=0.0041  Score=56.57  Aligned_cols=70  Identities=20%  Similarity=0.324  Sum_probs=61.3

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCCCHHHHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTA  102 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTsd~~~i~~a  102 (259)
                      |=.|+||||+|.-|.             ..+...|+++..|++..  +.++-++||+++++++.|+. +||+|.+.+..+
T Consensus        53 p~~vvlvlD~SgSM~-------------~~~~~a~~a~~~~l~~~--l~~~d~v~lv~f~~~~~~~~-~~t~~~~~l~~~  116 (296)
T TIGR03436        53 PLTVGLVIDTSGSMR-------------NDLDRARAAAIRFLKTV--LRPNDRVFVVTFNTRLRLLQ-DFTSDPRLLEAA  116 (296)
T ss_pred             CceEEEEEECCCCch-------------HHHHHHHHHHHHHHHhh--CCCCCEEEEEEeCCceeEee-cCCCCHHHHHHH
Confidence            557999999999775             23778899999999753  46889999999999999998 999999999999


Q ss_pred             hhcccc
Q 025034          103 VRGISA  108 (259)
Q Consensus       103 L~~L~~  108 (259)
                      |..|..
T Consensus       117 l~~l~~  122 (296)
T TIGR03436       117 LNRLKP  122 (296)
T ss_pred             HHhccC
Confidence            999986

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.

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

Probab=97.23  E-value=0.0029  Score=58.68  Aligned_cols=112  Identities=14%  Similarity=0.228  Sum_probs=78.2

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCCCHHHHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTA  102 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTsd~~~i~~a  102 (259)
                      .=.|+||||.|.-|....       ...++|+ .|..|..|+. ++..   =++|++.+++++..++ +||.|..+ .+.
T Consensus        60 ~~qIvlaID~S~SM~~~~-------~~~~ale-ak~lIs~al~-~Le~---g~vgVv~Fg~~~~~v~-Plt~d~~~-~a~  125 (266)
T cd01460          60 DYQILIAIDDSKSMSENN-------SKKLALE-SLCLVSKALT-LLEV---GQLGVCSFGEDVQILH-PFDEQFSS-QSG  125 (266)
T ss_pred             CceEEEEEecchhccccc-------ccccHHH-HHHHHHHHHH-hCcC---CcEEEEEeCCCceEeC-CCCCCchh-hHH
Confidence            457999999999888533       3446677 7778888876 2233   4999999999999998 99999998 777


Q ss_pred             hhcccc-ccccCCCChhHHHHHHHHHhhhhcCCCc---eEEEEEEeecCC
Q 025034          103 VRGISA-TSACGQADLTHLFKLASHEAKKSRAQNR---ILRVILIYCRSS  148 (259)
Q Consensus       103 L~~L~~-~~~~~~~DL~~LF~~i~~e~~~~~~~~~---vvRVILiY~RS~  148 (259)
                      ++-++. +...+.-|+..+.+.+....+....++.   .-|+|+|-+=--
T Consensus       126 ~~~l~~~~f~~~~Tni~~aL~~a~~~f~~~~~~~~s~~~~qlilLISDG~  175 (266)
T cd01460         126 PRILNQFTFQQDKTDIANLLKFTAQIFEDARTQSSSGSLWQLLLIISDGR  175 (266)
T ss_pred             HHHhCcccCCCCCCcHHHHHHHHHHHHHhhhccccccccccEEEEEECCC
Confidence            777765 3344555888888877665433311111   346766664443

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.

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

Probab=97.22  E-value=0.0038  Score=53.03  Aligned_cols=90  Identities=19%  Similarity=0.317  Sum_probs=59.7

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCCCHHHHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTA  102 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTsd~~~i~~a  102 (259)
                      +-+|+|+||.|.-|...+         ..+++.+|+.+..|.      +++.++++++.++.+.|+. +||++.+.+..+
T Consensus         4 ~~Dvv~llD~SgSm~~~~---------~~~~~~~~~l~~~~~------~~~~rvglv~Fs~~~~~~~-~l~~~~~~~~~~   67 (185)
T cd01474           4 HFDLYFVLDKSGSVAANW---------IEIYDFVEQLVDRFN------SPGLRFSFITFSTRATKIL-PLTDDSSAIIKG   67 (185)
T ss_pred             ceeEEEEEeCcCchhhhH---------HHHHHHHHHHHHHcC------CCCcEEEEEEecCCceEEE-eccccHHHHHHH
Confidence            458999999999887422         123566666666663      4779999999999999998 999998877777


Q ss_pred             hhccccccccCCCChhHHHHHHHHHh
Q 025034          103 VRGISATSACGQADLTHLFKLASHEA  128 (259)
Q Consensus       103 L~~L~~~~~~~~~DL~~LF~~i~~e~  128 (259)
                      |..|..-...+.=++..=++.+.+..
T Consensus        68 l~~l~~~~~~g~T~~~~aL~~a~~~l   93 (185)
T cd01474          68 LEVLKKVTPSGQTYIHEGLENANEQI   93 (185)
T ss_pred             HHHHhccCCCCCCcHHHHHHHHHHHH
Confidence            54443211112334444444444433

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.

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

Probab=97.14  E-value=0.011  Score=49.87  Aligned_cols=70  Identities=20%  Similarity=0.287  Sum_probs=57.8

Q ss_pred             EEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEeccc-ceeeecccCCCHHHHHHHhh
Q 025034           26 IIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKT-ASWLRKEFSSDIESTLTAVR  104 (259)
Q Consensus        26 IIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~ds-asWl~~~FTsd~~~i~~aL~  104 (259)
                      |+|+||+|.-|..           .++|+..|+++..|+..  ...++.++++++++++ +.|+. ++|.+.+.+...|+
T Consensus         3 v~lvlD~SgSM~~-----------~~rl~~ak~a~~~~~~~--~~~~~d~v~lv~F~~~~~~~~~-~~t~~~~~~~~~l~   68 (178)
T cd01451           3 VIFVVDASGSMAA-----------RHRMAAAKGAVLSLLRD--AYQRRDKVALIAFRGTEAEVLL-PPTRSVELAKRRLA   68 (178)
T ss_pred             EEEEEECCccCCC-----------ccHHHHHHHHHHHHHHH--hhcCCCEEEEEEECCCCceEEe-CCCCCHHHHHHHHH
Confidence            7899999997651           15899999999999864  3347789999999875 77887 99999999999999


Q ss_pred             ccccc
Q 025034          105 GISAT  109 (259)
Q Consensus       105 ~L~~~  109 (259)
                      .+...
T Consensus        69 ~l~~~   73 (178)
T cd01451          69 RLPTG   73 (178)
T ss_pred             hCCCC
Confidence            88754

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.

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

Probab=97.12  E-value=0.0064  Score=52.04  Aligned_cols=71  Identities=15%  Similarity=0.240  Sum_probs=56.0

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeeccc----CCCHHHHH
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEF----SSDIESTL  100 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~F----Tsd~~~i~  100 (259)
                      +|+||||+|.-|..            .+|+.+|+++..|++.=..-.++-++++++.+.++.++. ++    +.+...+.
T Consensus         2 di~~vlD~SgSM~~------------~~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs~~~~~~~-~~~~~~~~~~~~~~   68 (198)
T cd01470           2 NIYIALDASDSIGE------------EDFDEAKNAIKTLIEKISSYEVSPRYEIISYASDPKEIV-SIRDFNSNDADDVI   68 (198)
T ss_pred             cEEEEEECCCCccH------------HHHHHHHHHHHHHHHHccccCCCceEEEEEecCCceEEE-ecccCCCCCHHHHH
Confidence            69999999997752            368999999999998533333467999999999888775 44    45788899


Q ss_pred             HHhhcccc
Q 025034          101 TAVRGISA  108 (259)
Q Consensus       101 ~aL~~L~~  108 (259)
                      ++|..+..
T Consensus        69 ~~l~~~~~   76 (198)
T cd01470          69 KRLEDFNY   76 (198)
T ss_pred             HHHHhCCc
Confidence            99988864

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.

>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=97.12  E-value=0.0098  Score=50.70  Aligned_cols=87  Identities=20%  Similarity=0.235  Sum_probs=65.5

Q ss_pred             CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccC--------
Q 025034           22 SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFS--------   93 (259)
Q Consensus        22 ~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FT--------   93 (259)
                      +|=+|+||||+|.-|..            .+|+..|+++..++.   .+.++-+|+|+++++++.++. +.+        
T Consensus        12 ~p~~vv~llD~SgSM~~------------~~l~~ak~~~~~ll~---~l~~~d~v~lv~F~~~~~~~~-~~~~~~~~~~~   75 (190)
T cd01463          12 SPKDIVILLDVSGSMTG------------QRLHLAKQTVSSILD---TLSDNDFFNIITFSNEVNPVV-PCFNDTLVQAT   75 (190)
T ss_pred             CCceEEEEEECCCCCCc------------HHHHHHHHHHHHHHH---hCCCCCEEEEEEeCCCeeEEe-eecccceEecC
Confidence            68999999999997751            479999999999986   456667999999999988875 432        


Q ss_pred             -CCHHHHHHHhhccccccccCCCChhHHHHHHHHH
Q 025034           94 -SDIESTLTAVRGISATSACGQADLTHLFKLASHE  127 (259)
Q Consensus        94 -sd~~~i~~aL~~L~~~~~~~~~DL~~LF~~i~~e  127 (259)
                       .+.+.+..+|..|.+.+   .-++..-++.+.+.
T Consensus        76 ~~~~~~~~~~l~~l~~~G---~T~~~~al~~a~~~  107 (190)
T cd01463          76 TSNKKVLKEALDMLEAKG---IANYTKALEFAFSL  107 (190)
T ss_pred             HHHHHHHHHHHhhCCCCC---cchHHHHHHHHHHH
Confidence             45678888888887644   33455555545443

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.

>PF13768 VWA_3: von Willebrand factor type A domain

Probab=97.10  E-value=0.0047  Score=50.47  Aligned_cols=85  Identities=21%  Similarity=0.326  Sum_probs=57.6

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeeccc-CCCHHHHHHHh
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEF-SSDIESTLTAV  103 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~F-Tsd~~~i~~aL  103 (259)
                      +|||.||+|.-|..         .   . +.+|+|+..++++   +.+..+|.++..++++.|+...+ ..+.+.+-.++
T Consensus         2 ~vvilvD~S~Sm~g---------~---~-~~~k~al~~~l~~---L~~~d~fnii~f~~~~~~~~~~~~~~~~~~~~~a~   65 (155)
T PF13768_consen    2 DVVILVDTSGSMSG---------E---K-ELVKDALRAILRS---LPPGDRFNIIAFGSSVRPLFPGLVPATEENRQEAL   65 (155)
T ss_pred             eEEEEEeCCCCCCC---------c---H-HHHHHHHHHHHHh---CCCCCEEEEEEeCCEeeEcchhHHHHhHHHHHHHH
Confidence            69999999997662         1   2 8999999999985   88999999999999988776332 23333343444


Q ss_pred             hccccccc-cCCCChhHHHHHHH
Q 025034          104 RGISATSA-CGQADLTHLFKLAS  125 (259)
Q Consensus       104 ~~L~~~~~-~~~~DL~~LF~~i~  125 (259)
                      +.+..-.. .+.-|+..-.+.+.
T Consensus        66 ~~I~~~~~~~G~t~l~~aL~~a~   88 (155)
T PF13768_consen   66 QWIKSLEANSGGTDLLAALRAAL   88 (155)
T ss_pred             HHHHHhcccCCCccHHHHHHHHH
Confidence            44443222 45567666555443

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=97.06  E-value=0.0071  Score=61.65  Aligned_cols=107  Identities=21%  Similarity=0.219  Sum_probs=76.9

Q ss_pred             CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecc-cceeeecccCCCHHHHH
Q 025034           22 SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAK-TASWLRKEFSSDIESTL  100 (259)
Q Consensus        22 ~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~d-sasWl~~~FTsd~~~i~  100 (259)
                      .+-.||||||+|.-|.    .        +||...|+|+..|+..  ...++-+.+|++++. .+.|+. ++|++.+.+.
T Consensus       400 ~~~~vvfvvD~SGSM~----~--------~rl~~aK~a~~~ll~~--ay~~rD~v~lI~F~g~~a~~~l-ppT~~~~~~~  464 (584)
T PRK13406        400 SETTTIFVVDASGSAA----L--------HRLAEAKGAVELLLAE--AYVRRDQVALVAFRGRGAELLL-PPTRSLVRAK  464 (584)
T ss_pred             CCccEEEEEECCCCCc----H--------hHHHHHHHHHHHHHHh--hcCCCCEEEEEEECCCceeEEc-CCCcCHHHHH
Confidence            4678999999999653    1        5899999999999854  456788999999975 599998 9999999999


Q ss_pred             HHhhccccccccCCCChhHHHHHH---HHHhhhhcCCCceEEEEEE-eecCCC
Q 025034          101 TAVRGISATSACGQADLTHLFKLA---SHEAKKSRAQNRILRVILI-YCRSSV  149 (259)
Q Consensus       101 ~aL~~L~~~~~~~~~DL~~LF~~i---~~e~~~~~~~~~vvRVILi-Y~RS~~  149 (259)
                      ..|..|...+      -|.|+.-+   ++.++.....+..-++||| =||.|.
T Consensus       465 ~~L~~l~~gG------gTpL~~gL~~A~~~l~~~~~~~~~~~iVLlTDG~~n~  511 (584)
T PRK13406        465 RSLAGLPGGG------GTPLAAGLDAAAALALQVRRKGMTPTVVLLTDGRANI  511 (584)
T ss_pred             HHHhcCCCCC------CChHHHHHHHHHHHHHHhccCCCceEEEEEeCCCCCC
Confidence            9999887543      34444444   3333333323334455544 467663

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

Probab=97.02  E-value=0.016  Score=47.12  Aligned_cols=105  Identities=23%  Similarity=0.313  Sum_probs=73.8

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhh-cCCCCccEEEEEecccceeeecccCCC--HHHHHH
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKL-SINPDHRFAFVTLAKTASWLRKEFSSD--IESTLT  101 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~-~i~p~HeFAl~~L~dsasWl~~~FTsd--~~~i~~  101 (259)
                      +|+|.||.|.-|..            ..++.+|+++..|+. ++ .-++.-++++++.++++.++. +|++.  .+++.+
T Consensus         1 DivflvD~S~sm~~------------~~~~~~~~~v~~~i~-~~~~~~~~~rv~iv~f~~~~~~~~-~~~~~~~~~~~~~   66 (178)
T PF00092_consen    1 DIVFLVDTSGSMSG------------DNFEKAKQFVKSIIS-RLSISNNGTRVGIVTFSDSARVLF-SLTDYQSKNDLLN   66 (178)
T ss_dssp             EEEEEEE-STTSCH------------HHHHHHHHHHHHHHH-HSTBSTTSEEEEEEEESSSEEEEE-ETTSHSSHHHHHH
T ss_pred             CEEEEEeCCCCCch------------HHHHHHHHHHHHHHH-hhhccccccccceeeeeccccccc-ccccccccccccc
Confidence            69999999998773            347889999999999 54 677779999999999999988 88774  677888


Q ss_pred             Hh-hccccccccCCCChhHHHHHHHHHhhhh--cCCCceEEEEEEee
Q 025034          102 AV-RGISATSACGQADLTHLFKLASHEAKKS--RAQNRILRVILIYC  145 (259)
Q Consensus       102 aL-~~L~~~~~~~~~DL~~LF~~i~~e~~~~--~~~~~vvRVILiY~  145 (259)
                      .+ ..+..  ..+.-++..-++.+..+....  ...+..-++|++..
T Consensus        67 ~i~~~~~~--~~g~t~~~~aL~~a~~~l~~~~~~~r~~~~~~iiliT  111 (178)
T PF00092_consen   67 AINDSIPS--SGGGTNLGAALKFAREQLFSSNNGGRPNSPKVIILIT  111 (178)
T ss_dssp             HHHTTGGC--CBSSB-HHHHHHHHHHHTTSGGGTTGTTSEEEEEEEE
T ss_pred             cccccccc--cchhhhHHHHHhhhhhcccccccccccccccceEEEE
Confidence            87 44432  335556888888777765433  12234455555443

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 ....

>PF03731 Ku_N: Ku70/Ku80 N-terminal alpha/beta domain; InterPro: IPR005161 The Ku heterodimer (composed of Ku70 P12956 from SWISSPROT and Ku80 P13010 from SWISSPROT) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway

Probab=97.01  E-value=0.011  Score=51.52  Aligned_cols=137  Identities=13%  Similarity=0.239  Sum_probs=75.1

Q ss_pred             EEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEeccc-------------ceeeeccc
Q 025034           26 IIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKT-------------ASWLRKEF   92 (259)
Q Consensus        26 IIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~ds-------------asWl~~~F   92 (259)
                      ||||||+++.|..+...    +..  .|+.+.+++..++..|..-++.++.|++..|-.             +.-++ ++
T Consensus         2 ~vflID~s~sM~~~~~~----~~~--~l~~al~~i~~~~~~ki~~~~kD~vgvvl~gt~~t~n~~~~~~~~~i~~l~-~l   74 (224)
T PF03731_consen    2 TVFLIDVSPSMFEPSSE----SES--PLEEALKAIEDLMQQKIISSPKDEVGVVLFGTDETNNPDEDSGYENIFVLQ-PL   74 (224)
T ss_dssp             EEEEEE-SCGGGS-BTT----CS---HHHHHHHHHHHHHHHHHHTT---EEEEEEES-SS-BST-TTT-STTEEEEE-EC
T ss_pred             EEEEEECCHHHCCCCCC----cch--hHHHHHHHHHHHHHHHHcCCCCCeEEEEEEcCCCCCCcccccCCCceEEee-cC
Confidence            79999999999853311    122  999999999999999999999999999999821             12233 44


Q ss_pred             CCCHHHHHHHhhccccc--------cccCCCChhHHHHHHHHHhhh-hcCCCceEEEEEEeecCCCCcccc-------CC
Q 025034           93 SSDIESTLTAVRGISAT--------SACGQADLTHLFKLASHEAKK-SRAQNRILRVILIYCRSSVRPQHQ-------WP  156 (259)
Q Consensus        93 Tsd~~~i~~aL~~L~~~--------~~~~~~DL~~LF~~i~~e~~~-~~~~~~vvRVILiY~RS~~~P~~~-------~~  156 (259)
                      ..---+.+..|..+...        ......||...+-.+...... .....+.-|-|++..-...+..-.       +.
T Consensus        75 ~~~~~~~l~~L~~~~~~~~~~~~~~~~~~~~~l~~al~v~~~~~~~~~~~~k~~~krI~l~Td~d~p~~~~~~~~~~~~~  154 (224)
T PF03731_consen   75 DPPSAERLKELEELLKPGDKFENFFSGSDEGDLSDALWVASDMFRERTCKKKKNKKRIFLFTDNDGPHEDDDELERIIQK  154 (224)
T ss_dssp             C--BHHHHHHHHTTSHHHHHHHHHC-SSS---HHHHHHHHHHHHHCHCTTS-ECEEEEEEEES-SSTTT-CCCHHHHHHH
T ss_pred             CccCHHHHHHHHHhhcccccccccCCCCCccCHHHHHHHHHHHHHHHhhcccCCCcEEEEEeCCCCCCCCHHHHHHHHHh
Confidence            43332333333333323        234667887777666665443 133444444455555444332110       01


Q ss_pred             -----CCCCceEEEEEee
Q 025034          157 -----VNQKLFTMDVLYL  169 (259)
Q Consensus       157 -----~~~p~FflDVvYl  169 (259)
                           ++.-...+++++|
T Consensus       155 l~~~Dl~~~~i~~~~~~l  172 (224)
T PF03731_consen  155 LKAKDLQDNGIEIELFFL  172 (224)
T ss_dssp             HHHHHHHHHTEEEEEEEC
T ss_pred             hccccchhcCcceeEeec
Confidence                 2245677888888

This is the N-terminal alpha/beta domain. This domain only makes a small contribution to the dimer interface. The domain comprises a six stranded beta sheet of the Rossman fold [].; PDB: 1JEQ_A 1JEY_A.

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

Probab=96.91  E-value=0.026  Score=44.93  Aligned_cols=72  Identities=17%  Similarity=0.142  Sum_probs=58.8

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCCC--HHHHHHH
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSD--IESTLTA  102 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTsd--~~~i~~a  102 (259)
                      +|+|+||.|.-|..            ..++.+++++..|+..=..-+++=+++|++.++.+.+.. +|+++  .+.+...
T Consensus         2 di~~llD~S~Sm~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~~~~~~~-~~~~~~~~~~~~~~   68 (161)
T cd01450           2 DIVFLLDGSESVGP------------ENFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVRVEF-SLNDYKSKDDLLKA   68 (161)
T ss_pred             cEEEEEeCCCCcCH------------HHHHHHHHHHHHHHHheeeCCCceEEEEEEEcCCceEEE-ECCCCCCHHHHHHH
Confidence            68999999997762            267889999999988655555788999999999888877 88887  8888888


Q ss_pred             hhccccc
Q 025034          103 VRGISAT  109 (259)
Q Consensus       103 L~~L~~~  109 (259)
                      |..+...
T Consensus        69 i~~~~~~   75 (161)
T cd01450          69 VKNLKYL   75 (161)
T ss_pred             HHhcccC
Confidence            8887643

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

>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=96.79  E-value=0.026  Score=46.88  Aligned_cols=104  Identities=13%  Similarity=0.224  Sum_probs=68.7

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCC-CCccEEEEEecccceeeecccC--CCHHHHHH
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSIN-PDHRFAFVTLAKTASWLRKEFS--SDIESTLT  101 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~-p~HeFAl~~L~dsasWl~~~FT--sd~~~i~~  101 (259)
                      +|+|+||.|.-|..            ..+..+|+++..++.. +.+. ++.++|+++...++.... +|+  .+.+.+.+
T Consensus         2 Dv~~vlD~S~Sm~~------------~~~~~~k~~~~~l~~~-~~~~~~~~rvgli~fs~~~~~~~-~l~~~~~~~~l~~   67 (164)
T cd01482           2 DIVFLVDGSWSIGR------------SNFNLVRSFLSSVVEA-FEIGPDGVQVGLVQYSDDPRTEF-DLNAYTSKEDVLA   67 (164)
T ss_pred             CEEEEEeCCCCcCh------------hhHHHHHHHHHHHHhh-eeeCCCceEEEEEEECCCeeEEE-ecCCCCCHHHHHH
Confidence            79999999997652            3478889999998885 4454 468999999999887766 665  56788888


Q ss_pred             HhhccccccccCCCChhHHHHHHHHHhhhh--cCCCceEEEEEEe
Q 025034          102 AVRGISATSACGQADLTHLFKLASHEAKKS--RAQNRILRVILIY  144 (259)
Q Consensus       102 aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~--~~~~~vvRVILiY  144 (259)
                      +|..+...+  +.=++..=++.+.+.....  ...+..-|+|+|.
T Consensus        68 ~l~~~~~~~--g~T~~~~aL~~a~~~~~~~~~~~r~~~~k~iill  110 (164)
T cd01482          68 AIKNLPYKG--GNTRTGKALTHVREKNFTPDAGARPGVPKVVILI  110 (164)
T ss_pred             HHHhCcCCC--CCChHHHHHHHHHHHhcccccCCCCCCCEEEEEE
Confidence            888776322  1224555555444433222  1223345566664

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

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

Probab=96.59  E-value=0.026  Score=52.60  Aligned_cols=114  Identities=19%  Similarity=0.244  Sum_probs=82.2

Q ss_pred             CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEec-ccceeeecccCCCHHHHH
Q 025034           22 SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLA-KTASWLRKEFSSDIESTL  100 (259)
Q Consensus        22 ~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~-dsasWl~~~FTsd~~~i~  100 (259)
                      ...-|||+||.|.-|.. +          .||..+|.++..|.+.  .-..+-+-|++.++ +.+.|+. +.|++++.+.
T Consensus        77 ~g~lvvfvVDASgSM~~-~----------~Rm~aaKG~~~~lL~d--AYq~RdkvavI~F~G~~A~lll-~pT~sv~~~~  142 (261)
T COG1240          77 AGNLIVFVVDASGSMAA-R----------RRMAAAKGAALSLLRD--AYQRRDKVAVIAFRGEKAELLL-PPTSSVELAE  142 (261)
T ss_pred             cCCcEEEEEeCcccchh-H----------HHHHHHHHHHHHHHHH--HHHccceEEEEEecCCcceEEe-CCcccHHHHH
Confidence            35679999999998773 2          4799999999999885  56678899999999 6899998 9999999999


Q ss_pred             HHhhccccccccCCCChhHHHHHHHHHh---hhhcCCCceEEEEEEeecCCCCcc
Q 025034          101 TAVRGISATSACGQADLTHLFKLASHEA---KKSRAQNRILRVILIYCRSSVRPQ  152 (259)
Q Consensus       101 ~aL~~L~~~~~~~~~DL~~LF~~i~~e~---~~~~~~~~vvRVILiY~RS~~~P~  152 (259)
                      ..|.+|-..+..   .|..=+...+.-.   +...+.-..+=|++-=||.+..+-
T Consensus       143 ~~L~~l~~GG~T---PL~~aL~~a~ev~~r~~r~~p~~~~~~vviTDGr~n~~~~  194 (261)
T COG1240         143 RALERLPTGGKT---PLADALRQAYEVLAREKRRGPDRRPVMVVITDGRANVPIP  194 (261)
T ss_pred             HHHHhCCCCCCC---chHHHHHHHHHHHHHhhccCCCcceEEEEEeCCccCCCCC
Confidence            999999976643   3333333333322   222233445555666788664443

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

Probab=96.57  E-value=0.041  Score=46.34  Aligned_cols=92  Identities=17%  Similarity=0.170  Sum_probs=60.6

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCC----CHHHHH
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSS----DIESTL  100 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTs----d~~~i~  100 (259)
                      +|+|+||.|..|..           .++++.+|+++..|+..-..-+.+-++++++.++.+.++. +|+.    +.+.+.
T Consensus         2 Dv~~vlD~SgSm~~-----------~~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs~~~~~~~-~l~~~~~~~~~~~~   69 (186)
T cd01471           2 DLYLLVDGSGSIGY-----------SNWVTHVVPFLHTFVQNLNISPDEINLYLVTFSTNAKELI-RLSSPNSTNKDLAL   69 (186)
T ss_pred             cEEEEEeCCCCccc-----------hhhHHHHHHHHHHHHHhcccCCCceEEEEEEecCCceEEE-ECCCccccchHHHH
Confidence            69999999997762           1358899999999988643334567999999999998887 7765    345544


Q ss_pred             HHhhcccccc-ccCCCChhHHHHHHHHHh
Q 025034          101 TAVRGISATS-ACGQADLTHLFKLASHEA  128 (259)
Q Consensus       101 ~aL~~L~~~~-~~~~~DL~~LF~~i~~e~  128 (259)
                      +.++.|.... ..+.-++..=++.+....
T Consensus        70 ~~i~~l~~~~~~~G~T~l~~aL~~a~~~l   98 (186)
T cd01471          70 NAIRALLSLYYPNGSTNTTSALLVVEKHL   98 (186)
T ss_pred             HHHHHHHhCcCCCCCccHHHHHHHHHHHh
Confidence            4555443221 123345555555554433

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

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

Probab=96.51  E-value=0.018  Score=50.55  Aligned_cols=73  Identities=19%  Similarity=0.273  Sum_probs=58.9

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCC-CccEEEEEecccceeeecccC--CCHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINP-DHRFAFVTLAKTASWLRKEFS--SDIEST   99 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p-~HeFAl~~L~dsasWl~~~FT--sd~~~i   99 (259)
                      |=+|+|+||.|.-|..            ..++.+|+.+..+++. +.+++ ..++|+++.++.+.+.. +|+  .+..++
T Consensus         2 ~~DlvfllD~S~Sm~~------------~~~~~~k~f~~~l~~~-l~~~~~~~rvglv~fs~~~~~~~-~l~~~~~~~~l   67 (224)
T cd01475           2 PTDLVFLIDSSRSVRP------------ENFELVKQFLNQIIDS-LDVGPDATRVGLVQYSSTVKQEF-PLGRFKSKADL   67 (224)
T ss_pred             CccEEEEEeCCCCCCH------------HHHHHHHHHHHHHHHh-cccCCCccEEEEEEecCceeEEe-cccccCCHHHH
Confidence            4589999999997652            3588899999999974 66666 46999999999998887 887  467788


Q ss_pred             HHHhhccccc
Q 025034          100 LTAVRGISAT  109 (259)
Q Consensus       100 ~~aL~~L~~~  109 (259)
                      ..+|+.+...
T Consensus        68 ~~~i~~i~~~   77 (224)
T cd01475          68 KRAVRRMEYL   77 (224)
T ss_pred             HHHHHhCcCC
Confidence            8898888653

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.

>cd01477 vWA_F09G8-8_type VWA F09G8

Probab=96.44  E-value=0.045  Score=47.99  Aligned_cols=71  Identities=20%  Similarity=0.267  Sum_probs=53.9

Q ss_pred             CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcC--CC----CccEEEEEecccceeeecccCC-
Q 025034           22 SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSI--NP----DHRFAFVTLAKTASWLRKEFSS-   94 (259)
Q Consensus        22 ~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i--~p----~HeFAl~~L~dsasWl~~~FTs-   94 (259)
                      -+=+|+|+||.|.-|..            .+|+.+|+.|..++..=..+  ++    ..+.||++.++++.|.. +++. 
T Consensus        18 ~~~DivfvlD~S~Sm~~------------~~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs~~a~~~~-~L~d~   84 (193)
T cd01477          18 LWLDIVFVVDNSKGMTQ------------GGLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYNSNATVVA-DLNDL   84 (193)
T ss_pred             ceeeEEEEEeCCCCcch------------hhHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEccCceEEEE-ecccc
Confidence            36789999999997751            35888888887776633223  22    37999999999999998 9974 


Q ss_pred             -CHHHHHHHhhc
Q 025034           95 -DIESTLTAVRG  105 (259)
Q Consensus        95 -d~~~i~~aL~~  105 (259)
                       +.+++.++|+.
T Consensus        85 ~~~~~~~~ai~~   96 (193)
T cd01477          85 QSFDDLYSQIQG   96 (193)
T ss_pred             cCHHHHHHHHHH
Confidence             55778888874

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

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

Probab=96.34  E-value=0.084  Score=44.74  Aligned_cols=108  Identities=19%  Similarity=0.282  Sum_probs=69.2

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCC-CccEEEEEecccceeeecccC--CCHHHHHH
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINP-DHRFAFVTLAKTASWLRKEFS--SDIESTLT  101 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p-~HeFAl~~L~dsasWl~~~FT--sd~~~i~~  101 (259)
                      +|+|.||.|.-|..            ..++.+|+.+..||. ++.+++ ..++|+++.++++.-.. +|+  ++..++.+
T Consensus         2 Di~fvlD~S~S~~~------------~~f~~~k~fi~~~i~-~l~~~~~~~rvgvv~fs~~~~~~~-~l~~~~~~~~~~~   67 (177)
T cd01469           2 DIVFVLDGSGSIYP------------DDFQKVKNFLSTVMK-KLDIGPTKTQFGLVQYSESFRTEF-TLNEYRTKEEPLS   67 (177)
T ss_pred             cEEEEEeCCCCCCH------------HHHHHHHHHHHHHHH-HcCcCCCCcEEEEEEECCceeEEE-ecCccCCHHHHHH
Confidence            69999999986551            357889999999997 666765 58999999999866554 554  24567778


Q ss_pred             HhhccccccccCCCChhHHHHHHHHHhh--hhcCCCceEEEEEEe--ecCC
Q 025034          102 AVRGISATSACGQADLTHLFKLASHEAK--KSRAQNRILRVILIY--CRSS  148 (259)
Q Consensus       102 aL~~L~~~~~~~~~DL~~LF~~i~~e~~--~~~~~~~vvRVILiY--~RS~  148 (259)
                      +++.+...+  +.-++..-.+.+.++.-  .....+..-|++++.  |+++
T Consensus        68 ~i~~~~~~~--g~T~~~~AL~~a~~~l~~~~~g~R~~~~kv~illTDG~~~  116 (177)
T cd01469          68 LVKHISQLL--GLTNTATAIQYVVTELFSESNGARKDATKVLVVITDGESH  116 (177)
T ss_pred             HHHhCccCC--CCccHHHHHHHHHHHhcCcccCCCCCCCeEEEEEeCCCCC
Confidence            887765322  22445544444444431  112233456666665  4444

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.

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=96.29  E-value=0.051  Score=55.31  Aligned_cols=106  Identities=19%  Similarity=0.240  Sum_probs=72.6

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEeccc-ceeeecccCCCHHHHHHHh
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKT-ASWLRKEFSSDIESTLTAV  103 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~ds-asWl~~~FTsd~~~i~~aL  103 (259)
                      .++|+||.|.-|.    .        ++|..+|.|+..|+..  ...++-+++|++++++ +.|+. ++|.+...+...|
T Consensus       409 ~v~fvvD~SGSM~----~--------~rl~~aK~av~~Ll~~--~~~~~D~v~Li~F~~~~a~~~l-p~t~~~~~~~~~L  473 (589)
T TIGR02031       409 LLIFVVDASGSAA----V--------ARMSEAKGAVELLLGE--AYVHRDQVSLIAFRGTAAEVLL-PPSRSVEQAKRRL  473 (589)
T ss_pred             eEEEEEECCCCCC----h--------HHHHHHHHHHHHHHHh--hccCCCEEEEEEECCCCceEEC-CCCCCHHHHHHHH
Confidence            3889999999664    1        4799999999999863  3345668999999865 57887 9999999999999


Q ss_pred             hccccccccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEe-ecCC
Q 025034          104 RGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIY-CRSS  148 (259)
Q Consensus       104 ~~L~~~~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY-~RS~  148 (259)
                      ..|...+.   -+|..=+..+.+.++........-++|||= ||+|
T Consensus       474 ~~l~~gGg---TpL~~gL~~A~~~~~~~~~~~~~~~ivllTDG~~n  516 (589)
T TIGR02031       474 DVLPGGGG---TPLAAGLAAAFQTALQARSSGGTPTIVLITDGRGN  516 (589)
T ss_pred             hcCCCCCC---CcHHHHHHHHHHHHHHhcccCCceEEEEECCCCCC
Confidence            99875442   233333333444443333334445565553 5655

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.

>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=96.26  E-value=0.089  Score=42.85  Aligned_cols=71  Identities=17%  Similarity=0.381  Sum_probs=50.8

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeeccc-CCC---HHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEF-SSD---IES   98 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~F-Tsd---~~~   98 (259)
                      |=+|+|+||+|.-|.    .        .+++.+|+++..|+.   .+.+.-+|+++++++++.++...+ ..+   .+.
T Consensus         2 ~~~v~~vlD~S~SM~----~--------~~~~~~~~al~~~l~---~l~~~~~~~l~~Fs~~~~~~~~~~~~~~~~~~~~   66 (171)
T cd01461           2 PKEVVFVIDTSGSMS----G--------TKIEQTKEALLTALK---DLPPGDYFNIIGFSDTVEEFSPSSVSATAENVAA   66 (171)
T ss_pred             CceEEEEEECCCCCC----C--------hhHHHHHHHHHHHHH---hCCCCCEEEEEEeCCCceeecCcceeCCHHHHHH
Confidence            457999999999775    1        359999999999997   466677899999998876654222 233   344


Q ss_pred             HHHHhhcccc
Q 025034           99 TLTAVRGISA  108 (259)
Q Consensus        99 i~~aL~~L~~  108 (259)
                      +.+.|..+..
T Consensus        67 ~~~~l~~~~~   76 (171)
T cd01461          67 AIEYVNRLQA   76 (171)
T ss_pred             HHHHHHhcCC
Confidence            5555555654

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.

>TIGR00868 hCaCC calcium-activated chloride channel protein 1

Probab=95.95  E-value=0.1  Score=55.79  Aligned_cols=79  Identities=19%  Similarity=0.238  Sum_probs=57.8

Q ss_pred             CCCccccCCCCCCCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeee
Q 025034           10 GAGRFTLPPMRISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLR   89 (259)
Q Consensus        10 ~~~~~~l~p~~~~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~   89 (259)
                      +.|.|++.-.  .+-.|+|+||+|.-|..           -.||+.+|+|++.|+..-  +.++-+++|+++++++.|+.
T Consensus       293 ~~P~Fs~lq~--~~r~VVLVLDvSGSM~g-----------~dRL~~lkqAA~~fL~~~--l~~~DrVGLVtFsssA~vl~  357 (863)
T TIGR00868       293 PPPTFSLLKI--RQRIVCLVLDKSGSMTV-----------EDRLKRMNQAAKLFLLQT--VEKGSWVGMVTFDSAAYIKN  357 (863)
T ss_pred             CCCceeeccc--CCceEEEEEECCccccc-----------cCHHHHHHHHHHHHHHHh--CCCCCEEEEEEECCceeEee
Confidence            3455666532  22348899999997751           148999999999998754  56788999999999999997


Q ss_pred             cccCC-----CHHHHHHHhh
Q 025034           90 KEFSS-----DIESTLTAVR  104 (259)
Q Consensus        90 ~~FTs-----d~~~i~~aL~  104 (259)
                       +++.     +.+.+...|.
T Consensus       358 -pLt~Its~~dr~aL~~~L~  376 (863)
T TIGR00868       358 -ELIQITSSAERDALTANLP  376 (863)
T ss_pred             -ccccCCcHHHHHHHHHhhc
Confidence             8872     4455555554

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

>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=95.88  E-value=0.17  Score=41.30  Aligned_cols=69  Identities=22%  Similarity=0.277  Sum_probs=48.3

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCC-CCccEEEEEecc--cceeeecccC--CCHHHH
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSIN-PDHRFAFVTLAK--TASWLRKEFS--SDIEST   99 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~-p~HeFAl~~L~d--sasWl~~~FT--sd~~~i   99 (259)
                      +|+|+||+|..|...             ++..|+.+..++. ++.+. +..++|+++.++  .+.|.. +++  .+.+.+
T Consensus         2 dv~~llD~S~Sm~~~-------------~~~~~~~~~~~~~-~l~~~~~~~~v~lv~f~~~~~~~~~~-~l~~~~~~~~l   66 (163)
T cd01476           2 DLLFVLDSSGSVRGK-------------FEKYKKYIERIVE-GLEIGPTATRVALITYSGRGRQRVRF-NLPKHNDGEEL   66 (163)
T ss_pred             CEEEEEeCCcchhhh-------------HHHHHHHHHHHHH-hcCCCCCCcEEEEEEEcCCCceEEEe-cCCCCCCHHHH
Confidence            689999999987632             3344555555554 33333 369999999998  676665 665  477889


Q ss_pred             HHHhhcccc
Q 025034          100 LTAVRGISA  108 (259)
Q Consensus       100 ~~aL~~L~~  108 (259)
                      ...|..|..
T Consensus        67 ~~~i~~l~~   75 (163)
T cd01476          67 LEKVDNLRF   75 (163)
T ss_pred             HHHHHhCcc
Confidence            999988874

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.

>TIGR03788 marine_srt_targ marine proteobacterial sortase target protein

Probab=95.86  E-value=0.12  Score=52.25  Aligned_cols=74  Identities=18%  Similarity=0.404  Sum_probs=55.8

Q ss_pred             CCCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecc-cC---CCH
Q 025034           21 ISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKE-FS---SDI   96 (259)
Q Consensus        21 ~~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~-FT---sd~   96 (259)
                      ..|-.++||||.|.-|.    +        .+++..|+|+..+++   .+.+.-+|+++.+++++.|+... +.   .+.
T Consensus       269 ~~p~~vvfvlD~SgSM~----g--------~~i~~ak~al~~~l~---~L~~~d~~~ii~F~~~~~~~~~~~~~~~~~~~  333 (596)
T TIGR03788       269 VLPRELVFVIDTSGSMA----G--------ESIEQAKSALLLALD---QLRPGDRFNIIQFDSDVTLLFPVPVPATAHNL  333 (596)
T ss_pred             CCCceEEEEEECCCCCC----C--------ccHHHHHHHHHHHHH---hCCCCCEEEEEEECCcceEeccccccCCHHHH
Confidence            35778999999999765    2        347889999998887   57788899999999999887522 12   234


Q ss_pred             HHHHHHhhccccc
Q 025034           97 ESTLTAVRGISAT  109 (259)
Q Consensus        97 ~~i~~aL~~L~~~  109 (259)
                      +.+...|..|.+.
T Consensus       334 ~~a~~~i~~l~a~  346 (596)
T TIGR03788       334 ARARQFVAGLQAD  346 (596)
T ss_pred             HHHHHHHhhCCCC
Confidence            5566677777654

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).

>TIGR00578 ku70 ATP-dependent DNA helicase ii, 70 kDa subunit (ku70)

Probab=95.59  E-value=0.12  Score=52.60  Aligned_cols=143  Identities=13%  Similarity=0.178  Sum_probs=87.0

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccc---------eeeecccC
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTA---------SWLRKEFS   93 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsa---------sWl~~~FT   93 (259)
                      -|=||||||+++.|..+.    ..+...++|..+-++|.++++.|...+|+.+.|++..|-.-         .++..++.
T Consensus        10 keailflIDvs~sM~~~~----~~~~~~s~~~~al~~i~~l~q~kIis~~~D~vGivlfgT~~t~n~~~~~~i~v~~~L~   85 (584)
T TIGR00578        10 RDSLIFLVDASKAMFEES----QGEDELTPFDMSIQCIQSVYTSKIISSDKDLLAVVFYGTEKDKNSVNFKNIYVLQELD   85 (584)
T ss_pred             eeEEEEEEECCHHHcCCC----cCcCcCChHHHHHHHHHHHHHhcCCCCCCCeEEEEEEeccCCCCccCCCceEEEeeCC
Confidence            488999999999988532    12346799999999999999999999999999999998321         11122454


Q ss_pred             CCHHHHHHHhhcccccccc----------CCCChhHHHHHHHHHhhhhcCCCceEEEEEEeecCCCCcccc--------C
Q 025034           94 SDIESTLTAVRGISATSAC----------GQADLTHLFKLASHEAKKSRAQNRILRVILIYCRSSVRPQHQ--------W  155 (259)
Q Consensus        94 sd~~~i~~aL~~L~~~~~~----------~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY~RS~~~P~~~--------~  155 (259)
                      .---+.+..|++|..+...          ...+|...+-........ ....+.-|=|++..- +--|+-.        +
T Consensus        86 ~p~a~~i~~L~~l~~~~~~~~~~~~~~~~~~~~l~daL~~~~~~f~~-~~~k~~~kRI~lfTd-~D~P~~~~~~~~~~a~  163 (584)
T TIGR00578        86 NPGAKRILELDQFKGDQGPKKFRDTYGHGSDYSLSEVLWVCANLFSD-VQFRMSHKRIMLFTN-EDNPHGNDSAKASRAR  163 (584)
T ss_pred             CCCHHHHHHHHHHhhccCccchhhccCCCCCCcHHHHHHHHHHHHHh-cchhhcCcEEEEECC-CCCCCCCchhHHHHHH
Confidence            4333444555656543111          223544444444443321 122455555555553 3335421        1


Q ss_pred             C----CCCCceEEEEEeecC
Q 025034          156 P----VNQKLFTMDVLYLHD  171 (259)
Q Consensus       156 ~----~~~p~FflDVvYlHd  171 (259)
                      .    +.+-.+.++.+.|.-
T Consensus       164 ~~a~dl~~~gi~ielf~l~~  183 (584)
T TIGR00578       164 TKAGDLRDTGIFLDLMHLKK  183 (584)
T ss_pred             HHHHHHHhcCeEEEEEecCC
Confidence            0    234577788877754

Proteins in this family are involved in non-homologous end joining, a process used for the repair of double stranded DNA breaks. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Cutoff does not detect the putative ku70 homologs in yeast.

>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=95.49  E-value=0.38  Score=39.02  Aligned_cols=87  Identities=14%  Similarity=0.190  Sum_probs=59.3

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCCCHHHHHHHhh
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTAVR  104 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTsd~~~i~~aL~  104 (259)
                      +|+||||+|.-|..            +++...|.++..+...=..  +..++++++++++..+....-+++...++..|.
T Consensus         2 ~v~illD~SgSM~~------------~k~~~a~~~~~~l~~~~~~--~~~~v~li~F~~~~~~~~~~~~~~~~~~~~~l~   67 (152)
T cd01462           2 PVILLVDQSGSMYG------------APEEVAKAVALALLRIALA--ENRDTYLILFDSEFQTKIVDKTDDLEEPVEFLS   67 (152)
T ss_pred             CEEEEEECCCCCCC------------CHHHHHHHHHHHHHHHHHH--cCCcEEEEEeCCCceEEecCCcccHHHHHHHHh
Confidence            58999999997751            2577788888777764333  467899999998733322245677788888777


Q ss_pred             ccccccccCCCChhHHHHHHHHHh
Q 025034          105 GISATSACGQADLTHLFKLASHEA  128 (259)
Q Consensus       105 ~L~~~~~~~~~DL~~LF~~i~~e~  128 (259)
                      .+...   +.-|+..-++.+....
T Consensus        68 ~~~~~---ggT~l~~al~~a~~~l   88 (152)
T cd01462          68 GVQLG---GGTDINKALRYALELI   88 (152)
T ss_pred             cCCCC---CCcCHHHHHHHHHHHH
Confidence            66432   3447777776665543

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

>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional

Probab=95.13  E-value=0.23  Score=51.00  Aligned_cols=109  Identities=12%  Similarity=0.219  Sum_probs=71.3

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCC-ccEEEEEecccceeeecccCCC----HH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPD-HRFAFVTLAKTASWLRKEFSSD----IE   97 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~-HeFAl~~L~dsasWl~~~FTsd----~~   97 (259)
                      .=+|+|+||.|.-|+.           -+.++.+|+.+..||. ++.++++ -.++++++.+.+.|+. .++++    .+
T Consensus        42 ~lDIvFLLD~SgSMg~-----------~Nfle~AK~Fa~~LV~-~l~Is~D~V~VgiV~FSd~~r~vf-pL~s~~s~Dk~  108 (576)
T PTZ00441         42 EVDLYLLVDGSGSIGY-----------HNWITHVIPMLMGLIQ-QLNLSDDAINLYMSLFSNNTTELI-RLGSGASKDKE  108 (576)
T ss_pred             CceEEEEEeCCCccCC-----------ccHHHHHHHHHHHHHH-HhccCCCceEEEEEEeCCCceEEE-ecCCCccccHH
Confidence            4589999999997751           1557888999999988 4445544 5777789999999998 88654    35


Q ss_pred             HHHHHhhcccccc-ccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEe
Q 025034           98 STLTAVRGISATS-ACGQADLTHLFKLASHEAKKSRAQNRILRVILIY  144 (259)
Q Consensus        98 ~i~~aL~~L~~~~-~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY  144 (259)
                      .++.+|..|..+. ..+.-++..-++.+++.........-+.|+|+|.
T Consensus       109 ~aL~~I~sL~~~~~pgGgTnig~AL~~Aae~L~sr~~R~nvpKVVILL  156 (576)
T PTZ00441        109 QALIIVKSLRKTYLPYGKTNMTDALLEVRKHLNDRVNRENAIQLVILM  156 (576)
T ss_pred             HHHHHHHHHHhhccCCCCccHHHHHHHHHHHHhhcccccCCceEEEEE
Confidence            7778887776432 2244555555555544433222223355666665

>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=94.76  E-value=0.65  Score=39.32  Aligned_cols=89  Identities=24%  Similarity=0.277  Sum_probs=60.6

Q ss_pred             ccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCC-ccEEEEEecccceeeecccC--CCHHHHH
Q 025034           24 EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPD-HRFAFVTLAKTASWLRKEFS--SDIESTL  100 (259)
Q Consensus        24 EkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~-HeFAl~~L~dsasWl~~~FT--sd~~~i~  100 (259)
                      .||+|.||.|..+..            ..++.+|+-+..+|.. +.|.++ .++|+++.++.+.+.. +|.  .+.+++.
T Consensus         1 ~DivfllD~S~Si~~------------~~f~~~k~fi~~lv~~-f~i~~~~~rVgvv~ys~~~~~~~-~l~~~~~~~~l~   66 (165)
T cd01481           1 KDIVFLIDGSDNVGS------------GNFPAIRDFIERIVQS-LDVGPDKIRVAVVQFSDTPRPEF-YLNTHSTKADVL   66 (165)
T ss_pred             CCEEEEEeCCCCcCH------------HHHHHHHHHHHHHHhh-ccCCCCCcEEEEEEecCCeeEEE-eccccCCHHHHH
Confidence            489999999997652            3366777777777753 566655 8999999998765554 443  4788999


Q ss_pred             HHhhccccccccCCCChhHHHHHHHHH
Q 025034          101 TAVRGISATSACGQADLTHLFKLASHE  127 (259)
Q Consensus       101 ~aL~~L~~~~~~~~~DL~~LF~~i~~e  127 (259)
                      ++|+.+...+. ...+...-.+.+..+
T Consensus        67 ~~i~~i~~~~g-~~t~t~~AL~~~~~~   92 (165)
T cd01481          67 GAVRRLRLRGG-SQLNTGSALDYVVKN   92 (165)
T ss_pred             HHHHhcccCCC-CcccHHHHHHHHHHh
Confidence            99998864321 123555555555443

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.

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=94.75  E-value=0.44  Score=48.93  Aligned_cols=73  Identities=21%  Similarity=0.278  Sum_probs=59.6

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecc-cceeeecccCCCHHHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAK-TASWLRKEFSSDIESTLT  101 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~d-sasWl~~~FTsd~~~i~~  101 (259)
                      .-.|+|+||+|.-|..           .++|...|.++..|+..  ...++.+++|+++++ .+.|+. ++|++.+.+..
T Consensus       465 ~~~vv~vvD~SgSM~~-----------~~rl~~ak~a~~~ll~~--a~~~~D~v~lI~F~g~~a~~~~-p~t~~~~~~~~  530 (633)
T TIGR02442       465 GNLVIFVVDASGSMAA-----------RGRMAAAKGAVLSLLRD--AYQKRDKVALITFRGEEAEVLL-PPTSSVELAAR  530 (633)
T ss_pred             CceEEEEEECCccCCC-----------ccHHHHHHHHHHHHHHH--hhcCCCEEEEEEECCCCceEEc-CCCCCHHHHHH
Confidence            3468999999997751           15899999999999764  345678999999985 588998 99999999999


Q ss_pred             Hhhccccc
Q 025034          102 AVRGISAT  109 (259)
Q Consensus       102 aL~~L~~~  109 (259)
                      .|..|...
T Consensus       531 ~L~~l~~g  538 (633)
T TIGR02442       531 RLEELPTG  538 (633)
T ss_pred             HHHhCCCC
Confidence            99888754

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.

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

Probab=94.33  E-value=0.9  Score=37.93  Aligned_cols=73  Identities=18%  Similarity=0.362  Sum_probs=52.9

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccc------eeee-cccCCCH-
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTA------SWLR-KEFSSDI-   96 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsa------sWl~-~~FTsd~-   96 (259)
                      .|+|+||+|.-|..         .  ++++..|+|+..|+..=..  +.-+|+++++++++      .|+. ++|+... 
T Consensus         2 ~v~~llD~SgSM~~---------~--~kl~~ak~a~~~l~~~l~~--~~d~~~l~~F~~~~~~~~~~~~~~~~~~~~~~~   68 (174)
T cd01454           2 AVTLLLDLSGSMRS---------D--RRIDVAKKAAVLLAEALEA--CGVPHAILGFTTDAGGRERVRWIKIKDFDESLH   68 (174)
T ss_pred             EEEEEEECCCCCCC---------C--cHHHHHHHHHHHHHHHHHH--cCCcEEEEEecCCCCCccceEEEEecCcccccc
Confidence            37899999997761         1  7899999999999885433  56799999998763      5764 2565553 


Q ss_pred             HHHHHHhhcccccc
Q 025034           97 ESTLTAVRGISATS  110 (259)
Q Consensus        97 ~~i~~aL~~L~~~~  110 (259)
                      ..+...|..+.+.+
T Consensus        69 ~~~~~~l~~~~~~g   82 (174)
T cd01454          69 ERARKRLAALSPGG   82 (174)
T ss_pred             hhHHHHHHccCCCC
Confidence            35667777776543

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.

>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=93.90  E-value=0.2  Score=41.99  Aligned_cols=58  Identities=10%  Similarity=0.127  Sum_probs=45.1

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcC---CCCccEEEEEecccceeeecccCCC
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSI---NPDHRFAFVTLAKTASWLRKEFSSD   95 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i---~p~HeFAl~~L~dsasWl~~~FTsd   95 (259)
                      .|+|+||.|.-|..            .+++.+|+|+..|+..-..-   .++-++++++.++++.++. ++|..
T Consensus         5 ~v~~llD~SgSM~~------------~~~~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F~~~a~~~~-~l~~~   65 (176)
T cd01464           5 PIYLLLDTSGSMAG------------EPIEALNQGLQMLQSELRQDPYALESVEISVITFDSAARVIV-PLTPL   65 (176)
T ss_pred             CEEEEEECCCCCCC------------hHHHHHHHHHHHHHHHHhcChhhccccEEEEEEecCCceEec-CCccH
Confidence            48999999997652            34888999999998752211   1356899999999999998 88763

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

>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=93.53  E-value=1.2  Score=38.25  Aligned_cols=78  Identities=9%  Similarity=0.049  Sum_probs=57.1

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCCCHHHHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTA  102 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTsd~~~i~~a  102 (259)
                      +.+++|+||.|.-|..+.+     +...++++..|+++..++..=...+.+ ..+++.+.+...|+. +.+  ...+...
T Consensus         2 ~~dvv~~ID~SgSM~~~~~-----~~~~~k~~~ak~~~~~l~~~~~~~D~d-~i~l~~f~~~~~~~~-~~~--~~~v~~~   72 (199)
T cd01457           2 NRDYTLLIDKSGSMAEADE-----AKERSRWEEAQESTRALARKCEEYDSD-GITVYLFSGDFRRYD-NVN--SSKVDQL   72 (199)
T ss_pred             CcCEEEEEECCCcCCCCCC-----CCCchHHHHHHHHHHHHHHHHHhcCCC-CeEEEEecCCccccC-CcC--HHHHHHH
Confidence            4689999999998874331     124579999999999999744444444 477888888888886 665  7777777


Q ss_pred             hhccccc
Q 025034          103 VRGISAT  109 (259)
Q Consensus       103 L~~L~~~  109 (259)
                      +..+.+.
T Consensus        73 ~~~~~p~   79 (199)
T cd01457          73 FAENSPD   79 (199)
T ss_pred             HhcCCCC
Confidence            7666543

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

>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=93.37  E-value=0.98  Score=39.23  Aligned_cols=110  Identities=13%  Similarity=0.182  Sum_probs=65.6

Q ss_pred             cEEEEEeCChhhhhh-hhccCCCCCccCHhHHHHHHHHHHHHhhhcCCC-CccEEEEEecccceeeecccCC----CHHH
Q 025034           25 DIIFCVDVDAESLVE-MKSTGFNGKPITRLDAMKQAILLFVNSKLSINP-DHRFAFVTLAKTASWLRKEFSS----DIES   98 (259)
Q Consensus        25 kIIfCiD~~~E~~~~-~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p-~HeFAl~~L~dsasWl~~~FTs----d~~~   98 (259)
                      +|+|.||.|.-|... |+.        ...+.+|+.+..|.     |++ +-++|+++..+.+.+.. +|+.    |..+
T Consensus         2 Di~fllD~S~Si~~~~f~~--------~~~~f~~~lv~~l~-----i~~~~~rvgvv~fs~~~~~~~-~~~~~~~~~~~~   67 (192)
T cd01473           2 DLTLILDESASIGYSNWRK--------DVIPFTEKIINNLN-----ISKDKVHVGILLFAEKNRDVV-PFSDEERYDKNE   67 (192)
T ss_pred             cEEEEEeCCCcccHHHHHH--------HHHHHHHHHHHhCc-----cCCCccEEEEEEecCCceeEE-ecCcccccCHHH
Confidence            799999999987732 311        12455666655553     443 57999999999988877 7774    4678


Q ss_pred             HHHHhhccccc-cccCCCChhHHHHHHHHHhhhh---cCC-CceEEEEEEeecCCC
Q 025034           99 TLTAVRGISAT-SACGQADLTHLFKLASHEAKKS---RAQ-NRILRVILIYCRSSV  149 (259)
Q Consensus        99 i~~aL~~L~~~-~~~~~~DL~~LF~~i~~e~~~~---~~~-~~vvRVILiY~RS~~  149 (259)
                      ++.+|+.+... ...+.=++..-.+.+.+.....   ++. +.++ ++|--|+|+.
T Consensus        68 l~~~i~~l~~~~~~~g~T~~~~AL~~a~~~~~~~~~~r~~~~kv~-IllTDG~s~~  122 (192)
T cd01473          68 LLKKINDLKNSYRSGGETYIVEALKYGLKNYTKHGNRRKDAPKVT-MLFTDGNDTS  122 (192)
T ss_pred             HHHHHHHHHhccCCCCcCcHHHHHHHHHHHhccCCCCcccCCeEE-EEEecCCCCC
Confidence            88888887632 1122224444444443333221   111 3332 5555677764

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.

>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]

Probab=92.82  E-value=0.93  Score=43.97  Aligned_cols=112  Identities=15%  Similarity=0.274  Sum_probs=80.0

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEeccc-ceeeecccCCCHHHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKT-ASWLRKEFSSDIESTLT  101 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~ds-asWl~~~FTsd~~~i~~  101 (259)
                      --..+++||.|+-|.. +-+      .-+|+.++-|.++-||+.=.-=||--+-+|+++.|+ |.-+. ++|++++.-+.
T Consensus        60 iRhl~iviD~S~am~e-~Df------~P~r~a~~~K~le~Fv~eFFdQNPiSQigii~~k~g~A~~lt-~ltgnp~~hI~  131 (378)
T KOG2807|consen   60 IRHLYIVIDCSRAMEE-KDF------RPSRFANVIKYLEGFVPEFFDQNPISQIGIISIKDGKADRLT-DLTGNPRIHIH  131 (378)
T ss_pred             heeEEEEEEhhhhhhh-ccC------CchHHHHHHHHHHHHHHHHhccCchhheeEEEEecchhhHHH-HhcCCHHHHHH
Confidence            3468999999998883 323      348999999999999999999999999999999986 66666 99999999999


Q ss_pred             HhhccccccccCCCChhHHHHHHHHHhhhhcCCCceEE-EEEEeec
Q 025034          102 AVRGISATSACGQADLTHLFKLASHEAKKSRAQNRILR-VILIYCR  146 (259)
Q Consensus       102 aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~~~~~~vvR-VILiY~R  146 (259)
                      +|.++.+.  .+.|-|-.-.+++.  ..+..-|.++-| |++||+-
T Consensus       132 aL~~~~~~--~g~fSLqNaLe~a~--~~Lk~~p~H~sREVLii~ss  173 (378)
T KOG2807|consen  132 ALKGLTEC--SGDFSLQNALELAR--EVLKHMPGHVSREVLIIFSS  173 (378)
T ss_pred             HHhccccc--CCChHHHHHHHHHH--HHhcCCCcccceEEEEEEee
Confidence            99999832  13333322222221  122233466656 4455653

>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=91.77  E-value=0.5  Score=42.20  Aligned_cols=75  Identities=13%  Similarity=0.156  Sum_probs=50.1

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHh--hhcCCCCccEEEEEecccceeee-----cccCCCH-
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNS--KLSINPDHRFAFVTLAKTASWLR-----KEFSSDI-   96 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~--K~~i~p~HeFAl~~L~dsasWl~-----~~FTsd~-   96 (259)
                      +|+++||+|.-|.. |.  +.+|+..+||+.+|..++.|+..  |-..+   +.+   +...+.++.     ++.|.|. 
T Consensus         2 ~l~lavDlSgSM~~-~~--~~dg~~~~RL~a~k~v~~~f~~f~~~r~~D---riG---~~g~~~~~~~lt~d~p~t~d~~   72 (191)
T cd01455           2 RLKLVVDVSGSMYR-FN--GYDGRLDRSLEAVVMVMEAFDGFEDKIQYD---IIG---HSGDGPCVPFVKTNHPPKNNKE   72 (191)
T ss_pred             ceEEEEECcHhHHH-Hh--ccCCccccHHHHHHHHHHHHHHHHHhCccc---eee---ecCcccccCccccccCcccchh
Confidence            69999999999983 53  46899999999999999999853  22222   333   344444443     1334444 


Q ss_pred             --HHHHHHhhcccc
Q 025034           97 --ESTLTAVRGISA  108 (259)
Q Consensus        97 --~~i~~aL~~L~~  108 (259)
                        +.+...|..+..
T Consensus        73 ~~~~l~~~l~~~q~   86 (191)
T cd01455          73 RLETLKMMHAHSQF   86 (191)
T ss_pred             HHHHHHHHHHhccc
Confidence              567777776554

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

>PF11265 Med25_VWA: Mediator complex subunit 25 von Willebrand factor type A; InterPro: IPR021419 The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells

Probab=88.06  E-value=2.1  Score=39.28  Aligned_cols=79  Identities=10%  Similarity=0.137  Sum_probs=59.1

Q ss_pred             CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHh-----hh-cCCCCccEEEEEeccc-------ceee
Q 025034           22 SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNS-----KL-SINPDHRFAFVTLAKT-------ASWL   88 (259)
Q Consensus        22 ~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~-----K~-~i~p~HeFAl~~L~ds-------asWl   88 (259)
                      ...+||||||-.+-|.-.|+.        -+-+.+-..|+.|-..     +. .=....+|||++.+.-       ++|.
T Consensus        12 ~~~~vVfvvEgTAalgpy~~~--------Lkt~Yl~P~le~f~~g~~~e~~~~~~~~~t~y~LVvf~t~d~~~~~~v~~~   83 (226)
T PF11265_consen   12 PQAQVVFVVEGTAALGPYWNT--------LKTNYLDPILEYFNGGPIAERDFGGDYSNTEYGLVVFNTADCYPEPIVQRS   83 (226)
T ss_pred             ccceEEEEEecchhhhhhHHH--------HHHHHHHHHHHHhcCCCcccccccccCCCceEEEEEEeccCCCcccceecc
Confidence            367899999999988865542        4567888899998531     11 0135689999999953       3343


Q ss_pred             ecccCCCHHHHHHHhhcccccc
Q 025034           89 RKEFSSDIESTLTAVRGISATS  110 (259)
Q Consensus        89 ~~~FTsd~~~i~~aL~~L~~~~  110 (259)
                        ++|+|+..++..|+.|.-.+
T Consensus        84 --g~T~~~~~fl~~L~~I~f~G  103 (226)
T PF11265_consen   84 --GPTSSPQKFLQWLDAIQFSG  103 (226)
T ss_pred             --CCcCCHHHHHHHHHccCcCC
Confidence              89999999999999998754

Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain which is this one, an SD2 domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This VWA or von Willebrand factor type A domain when bound to RAR and the histone acetyltransferase CBP is responsible for recruiting Med1 to the rest of the Mediator complex [].

>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]

Probab=86.23  E-value=12  Score=34.35  Aligned_cols=174  Identities=16%  Similarity=0.239  Sum_probs=117.3

Q ss_pred             CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecc-cceeeecccCCCHHHHH
Q 025034           22 SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAK-TASWLRKEFSSDIESTL  100 (259)
Q Consensus        22 ~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~d-sasWl~~~FTsd~~~i~  100 (259)
                      .+|-+|+.||-++-|..       ..-.-||+..=|.++++-+..|.-=||...-+|+.+.+ ...-|+ -||.+..-++
T Consensus         2 vlEatvvliDNse~s~N-------gDy~ptRFeAQkd~ve~if~~K~ndnpEntiGli~~~~a~p~vls-T~T~~~gkil   73 (243)
T COG5148           2 VLEATVVLIDNSEASQN-------GDYLPTRFEAQKDAVESIFSKKFNDNPENTIGLIPLVQAQPNVLS-TPTKQRGKIL   73 (243)
T ss_pred             CcceEEEEEeChhhhhc-------CCCCcHHHHHHHHHHHHHHHHHhcCCccceeeeeecccCCcchhc-cchhhhhHHH
Confidence            57999999999886552       12455899999999999999999999999999999997 577787 9999999999


Q ss_pred             HHhhccccccccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEeecCCCCccc-----cCCCCCCceEEEEEeecCCCCC
Q 025034          101 TAVRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIYCRSSVRPQH-----QWPVNQKLFTMDVLYLHDKPGP  175 (259)
Q Consensus       101 ~aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY~RS~~~P~~-----~~~~~~p~FflDVvYlHd~~~~  175 (259)
                      +.|.++.-   .+..|+..-...++...+..+.+.-.-|.+.+-|-+-+--.=     -..++..+-.+|++++-+-.+.
T Consensus        74 t~lhd~~~---~g~a~~~~~lqiaql~lkhR~nk~q~qriVaFvgSpi~esedeLirlak~lkknnVAidii~fGE~~n~  150 (243)
T COG5148          74 TFLHDIRL---HGGADIMRCLQIAQLILKHRDNKGQRQRIVAFVGSPIQESEDELIRLAKQLKKNNVAIDIIFFGEAANM  150 (243)
T ss_pred             HHhccccc---cCcchHHHHHHHHHHHHhcccCCccceEEEEEecCcccccHHHHHHHHHHHHhcCeeEEEEehhhhhhh
Confidence            99998763   345666655554444455555555456666666543211110     0124567889999998765532


Q ss_pred             CCChHHHHHHHHHhhhhcCCCceeEEEcC-cchHHHHHHHH
Q 025034          176 DNCPQKVYDALVDALEHVSENEGYIFESG-QGLARILFRQM  215 (259)
Q Consensus       176 dnc~q~Vyd~L~~~ld~~s~~~sYi~Evg-~~~a~~L~~~m  215 (259)
                          ...|..+ |+-+.   ..+-.+||- -|. +-|++.+
T Consensus       151 ----~~l~efI-da~N~---~dsshl~~~~P~p-~ll~~~~  182 (243)
T COG5148         151 ----AGLFEFI-DATNF---SDSSHLEVKPPNP-ELLDRVL  182 (243)
T ss_pred             ----hHHHHHH-Hhhcc---ccceeeEecCCCH-HHHHhhc
Confidence                2233333 44432   345566655 666 5566643

>cd01468 trunk_domain trunk domain

Probab=83.76  E-value=3.4  Score=36.88  Aligned_cols=52  Identities=23%  Similarity=0.399  Sum_probs=37.1

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceee
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWL   88 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl   88 (259)
                      -.||+||++.+.-.    +       .-++.++++|...+.+- --+++.++||+|+++.++..
T Consensus         5 ~~vFvID~s~~ai~----~-------~~l~~~~~sl~~~l~~l-p~~~~~~igiITf~~~V~~~   56 (239)
T cd01468           5 VFVFVIDVSYEAIK----E-------GLLQALKESLLASLDLL-PGDPRARVGLITYDSTVHFY   56 (239)
T ss_pred             EEEEEEEcchHhcc----c-------cHHHHHHHHHHHHHHhC-CCCCCcEEEEEEeCCeEEEE
Confidence            46999999998531    0       12677888887777641 12499999999998766555

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

>PF04811 Sec23_trunk: Sec23/Sec24 trunk domain; InterPro: IPR006896 COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []

Probab=82.34  E-value=3.2  Score=36.94  Aligned_cols=52  Identities=15%  Similarity=0.296  Sum_probs=36.4

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceee
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWL   88 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl   88 (259)
                      -.+||||++.+.-. -          ..++.++++|...+. .+.-+++.++||++.+..+...
T Consensus         5 ~y~FvID~s~~av~-~----------g~~~~~~~sl~~~l~-~l~~~~~~~vgiitfd~~V~~y   56 (243)
T PF04811_consen    5 VYVFVIDVSYEAVQ-S----------GLLQSLIESLKSALD-SLPGDERTRVGIITFDSSVHFY   56 (243)
T ss_dssp             EEEEEEE-SHHHHH-H----------THHHHHHHHHHHHGC-TSSTSTT-EEEEEEESSSEEEE
T ss_pred             EEEEEEECchhhhh-c----------cHHHHHHHHHHHHHH-hccCCCCcEEEEEEeCCEEEEE
Confidence            47999999998441 0          237888888888884 2223599999999998766554

COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger (IPR006895 from INTERPRO), an alpha/beta trunk domain, an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes the Sec23/24 alpha/beta trunk domain, which is formed from a single, approximately 250-residue segment plugged into the beta-barrel between strands beta-1 and beta-19. The trunk has an alpha/beta fold with a vWA topology, and it forms the dimer interface, primarily involving strand beta-14 on Sec23 and Sec24; in addition, the trunk domain of Sec23 contacts Sar1.; GO: 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EGD_A 2NUP_A 3EG9_A 3EFO_A 3EGX_A 2NUT_A 1PD0_A 1PD1_A 1M2V_B 1PCX_A ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	259
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-06
2x5n_A	192	SPRPN10, 26S proteasome regulatory subunit RPN10;	7e-06

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 47.2 bits (111), Expect = 3e-06
 Identities = 43/274 (15%), Positives = 78/274 (28%), Gaps = 83/274 (30%)

Query: 16  LP-------PMRISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKL 68
           LP       P R+S   II      AES+ +  +T  N K +   D +   I   +N   
Sbjct: 318 LPREVLTTNPRRLS---II------AESIRDGLATWDNWKHVN-CDKLTTIIESSLNV-- 365

Query: 69  SINP-DHRFAFVTLA----------KTAS--WLRKEFSSDIESTLTAVRGISATSACGQA 115
            + P ++R  F  L+             S  W      SD+   +  +   S        
Sbjct: 366 -LEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI-KSDVMVVVNKLHKYSLV-EKQPK 422

Query: 116 DLT---H--LFKLASHEAKKSRAQNRIL---RVILIYCRSSVRPQ------------HQW 155
           + T        +L      +      I+    +   +    + P             H  
Sbjct: 423 ESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLK 482

Query: 156 PVNQ----KLFTMDVLYL----------HDKPGPDNCPQKVYDALVDALEHVSENEGYIF 201
            +       LF M  ++L          HD     N    + + L      +   + YI 
Sbjct: 483 NIEHPERMTLFRM--VFLDFRFLEQKIRHDST-AWNASGSILNTLQQ----LKFYKPYIC 535

Query: 202 ESGQGLARIL-----FRQMC--VLLSHPQQRCVQ 228
           ++     R++     F       L+       ++
Sbjct: 536 DNDPKYERLVNAILDFLPKIEENLICSKYTDLLR 569

>2x5n_A SPRPN10, 26S proteasome regulatory subunit RPN10; nuclear protein, nucleus, ubiquitin; 1.30A {Schizosaccharomyces pombe} Length = 192

 Score = 44.6 bits (105), Expect = 7e-06
 Identities = 19/122 (15%), Positives = 43/122 (35%), Gaps = 10/122 (8%)

Query: 24  EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAK 83
           E  +  +D     +             TR +A K  + +  N K++ NP++    +T+  
Sbjct: 3   EATMILIDNSEWMINGDYIP-------TRFEAQKDTVHMIFNQKINDNPENMCGLMTIGD 55

Query: 84  TASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILI 143
            +  +    + D    L+A+  +      G A      ++A    K    + +  R++  
Sbjct: 56  NSPQVLSTLTRDYGKFLSAMHDLPVR---GNAKFGDGIQIAQLALKHRENKIQRQRIVAF 112

Query: 144 YC 145
             
Sbjct: 113 VG 114

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	259
4b4t_W	268	RPN10, 26S proteasome regulatory subunit RPN10; hy	98.76
2x5n_A	192	SPRPN10, 26S proteasome regulatory subunit RPN10;	98.69
3ibs_A	218	Conserved hypothetical protein BATB; structural ge	97.96
1shu_X	182	Anthrax toxin receptor 2; alpha/beta rossmann fold	97.9
2x31_A	189	Magnesium-chelatase 60 kDa subunit; ligase, bacter	97.82
3n2n_F	185	Anthrax toxin receptor 1; rossmann fold; 1.80A {Ho	97.81
1jey_B	565	KU80; double-strand DNA break repair, non-homologo	97.65
1jey_A	609	KU70; double-strand DNA break repair, non-homologo	97.58
1atz_A	189	VON willebrand factor; collagen-binding, hemostasi	97.57
1ijb_A	202	VON willebrand factor; dinucleotide-binding fold,	97.48
1q0p_A	223	Complement factor B; VON willebrand factor, MAC-1,	97.46
2xgg_A	178	Microneme protein 2; A/I domain, cell adhesion, hy	97.3
4fx5_A	464	VON willebrand factor type A; structural genomics,	97.19
1v7p_C	200	Integrin alpha-2; snake venom, C-type lectin, anta	97.14
4hqf_A	281	Thrombospondin-related anonymous protein, trap; ma	97.09
2odp_A	509	Complement C2; C3/C5 convertase, complement serin	97.05
1rrk_A	497	Complement factor B; BB, hydrolase; 2.00A {Homo sa	97.03
1mf7_A	194	Integrin alpha M; cell adhesion; 1.25A {Homo sapie	96.94
2iue_A	212	Pactolus I-domain; membrane protein, CD, ITC, limb	96.93
3hrz_D	741	Complement factor B; serine protease, glycosilated	96.93
2b2x_A	223	Integrin alpha-1; computational design, antibody-a	96.82
3zqk_A	199	VON willebrand factor; blood clotting, adamts-13,	96.73
4hqo_A	266	Sporozoite surface protein 2; malaria, gliding mot	96.58
3rag_A	242	Uncharacterized protein; structural genomics, PSI-	96.44
1pt6_A	213	Integrin alpha-1; cell adhesion; 1.87A {Homo sapie	96.44
1mjn_A	179	Integrin alpha-L; rossmann fold, immune system; 1.	96.37
3fcs_B	690	Integrin beta-3; beta propeller, rossmann fold, EG	95.76
2ww8_A	893	RRGA, cell WALL surface anchor family protein; IGG	95.21
1n3y_A	198	Integrin alpha-X; alpha/beta rossmann fold, cell a	95.2
3t3p_B	472	Integrin beta-3; integrin, cell adhesion, blood cl	94.52
3k6s_B	687	Integrin beta-2; cell receptor, adhesion molecule,	93.8
3vi3_B	454	Integrin beta-1; beta propeller fold, rossman fold	92.21
3v4v_B	503	Integrin beta-7; cell adhesion, madcam-1, membrane	91.79
3k6s_A	1095	Integrin alpha-X; cell receptor, adhesion molecule	90.12

>4b4t_W RPN10, 26S proteasome regulatory subunit RPN10; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.76  E-value=1.2e-07  Score=86.20  Aligned_cols=176  Identities=14%  Similarity=0.288  Sum_probs=128.6

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCCCHHHHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTA  102 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTsd~~~i~~a  102 (259)
                      -|=+|||||+|.-|...       .-..|||+..|.|+..|+..|...+|..+.+|++...++.++..++|+|...+..+
T Consensus         3 lEAtViviD~S~SM~~~-------D~~PsRl~a~k~Av~~li~~~~~~nPed~VGLVtfag~~~~vl~plT~D~~~il~a   75 (268)
T 4b4t_W            3 LEATVLVIDNSEYSRNG-------DFPRTRFEAQIDSVEFIFQAKRNSNPENTVGLISGAGANPRVLSTFTAEFGKILAG   75 (268)
T ss_dssp             CEEEEEEECCSSTTSST-------TSSSCHHHHHHHHHHHHHHHHHHHCTTCEEEEEECCTTSCEEEEEEESCHHHHHHH
T ss_pred             ceeEEEEEECCHHHhCC-------CCCCcHHHHHHHHHHHHHHHHhhCCCcceEEEEEecCCcceeccCCcchHHHHHHH
Confidence            47799999999987621       13348999999999999999999999999999999877665544999999999999


Q ss_pred             hhccccccccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEeecCCCCccc-cCC------CCCCceEEEEEeecCCCCC
Q 025034          103 VRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIYCRSSVRPQH-QWP------VNQKLFTMDVLYLHDKPGP  175 (259)
Q Consensus       103 L~~L~~~~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY~RS~~~P~~-~~~------~~~p~FflDVvYlHd~~~~  175 (259)
                      |+.|.+.+   .-+|..=.+.++..++........-|+|++-+=...  .. ...      .++..-++|||=+=+..  
T Consensus        76 L~~l~~~G---~T~l~~gL~~A~~aLk~~~~k~~~~rIIlf~ds~~~--~~~~~l~~lak~lkk~gI~v~vIgFG~~~--  148 (268)
T 4b4t_W           76 LHDTQIEG---KLHMATALQIAQLTLKHRQNKVQHQRIVAFVCSPIS--DSRDELIRLAKTLKKNNVAVDIINFGEIE--  148 (268)
T ss_dssp             HTTCCCCS---CCCHHHHHHHHHHHHHTCSCTTSEEEEEEEECSCCS--SCHHHHHHHHHHHHHHTEEEEEEEESSCC--
T ss_pred             hhhcCcCC---CCChHHHHHHHHHHHHhcccCCCceEEEEEECCCCC--CCHHHHHHHHHHHHHcCCEEEEEEeCCCc--
Confidence            99998654   457777667777666666666778888888653321  11 011      23456789999886532  


Q ss_pred             CCChHHHHHHHHHhhhhcCCCceeEEEcCcchHHHHHHHH
Q 025034          176 DNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQM  215 (259)
Q Consensus       176 dnc~q~Vyd~L~~~ld~~s~~~sYi~Evg~~~a~~L~~~m  215 (259)
                      .|  ++...+|.++.+......||+..|--|. ..|.+.+
T Consensus       149 ~n--~~kLe~l~~~~Ng~~~~~s~~v~v~~g~-~~lsd~l  185 (268)
T 4b4t_W          149 QN--TELLDEFIAAVNNPQEETSHLLTVTPGP-RLLYENI  185 (268)
T ss_dssp             SS--CCHHHHHHHHHCSSTTTSCEEEEECCCS-SCHHHHH
T ss_pred             cc--hHHHHHHHHHhcCCCCCceeEEEeCCCC-ccHHHHH
Confidence            23  3457777777765334689999997654 2466643

>2x5n_A SPRPN10, 26S proteasome regulatory subunit RPN10; nuclear protein, nucleus, ubiquitin; 1.30A {Schizosaccharomyces pombe}

Probab=98.69  E-value=2.8e-07  Score=78.84  Aligned_cols=167  Identities=14%  Similarity=0.211  Sum_probs=110.2

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecc-cceeeecccCCCHHHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAK-TASWLRKEFSSDIESTLT  101 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~d-sasWl~~~FTsd~~~i~~  101 (259)
                      .|.|+||||+|.-|...       .-..+||+..|+++..|+..+..-+|.-+.||+++++ ++.++. ++|+|.+.+..
T Consensus         2 ~e~lvlvlD~S~SM~~~-------D~~psRl~~ak~~~~~~~~~~~~~~~~d~vGLV~fa~~~a~~~~-plT~d~~~i~~   73 (192)
T 2x5n_A            2 LEATMILIDNSEWMING-------DYIPTRFEAQKDTVHMIFNQKINDNPENMCGLMTIGDNSPQVLS-TLTRDYGKFLS   73 (192)
T ss_dssp             CEEEEEEECCSGGGGCT-------TSSSCHHHHHHHHHHHHHHHHHHHCTTCEEEEEECCTTSCCEEE-EEESCHHHHHH
T ss_pred             ceEEEEEEECCHhhccC-------CCCCCHHHHHHHHHHHHHHHHHhcCCCCeEEEEEEcCCCcEEec-CCCCCHHHHHH
Confidence            58899999999987731       1235899999999999999999899999999999998 599998 99999999999


Q ss_pred             HhhccccccccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEeecCCCC-cc-ccC---CCCCCceEEEEEeecCCCCCC
Q 025034          102 AVRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIYCRSSVR-PQ-HQW---PVNQKLFTMDVLYLHDKPGPD  176 (259)
Q Consensus       102 aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY~RS~~~-P~-~~~---~~~~p~FflDVvYlHd~~~~d  176 (259)
                      +|+.+...+   .-++..=.+.+....+........=|+|++.+=...- |. ...   .+++....+++|=+=...  .
T Consensus        74 ~L~~l~~~g---~t~l~~aL~~A~~~l~~~~~~~~~~riiil~~~~~~~~~~~~~~~a~~lk~~gi~v~~Ig~G~~~--~  148 (192)
T 2x5n_A           74 AMHDLPVRG---NAKFGDGIQIAQLALKHRENKIQRQRIVAFVGSPIVEDEKNLIRLAKRMKKNNVAIDIIHIGELQ--N  148 (192)
T ss_dssp             HHTTCCCCS---CCCHHHHHHHHHHHHHTCSCTTSEEEEEEEECSCCSSCHHHHHHHHHHHHHTTEEEEEEEESCC----
T ss_pred             HHHcCCCCC---CchHHHHHHHHHHHHHhccccCCCceEEEEEECCCCCCchhHHHHHHHHHHCCCEEEEEEeCCCC--c
Confidence            999988654   4566666666655444433233455877776432211 11 000   123445667777664332  2


Q ss_pred             CChHHHHHHHHHhhhhcCCCceeEEEcCcch
Q 025034          177 NCPQKVYDALVDALEHVSENEGYIFESGQGL  207 (259)
Q Consensus       177 nc~q~Vyd~L~~~ld~~s~~~sYi~Evg~~~  207 (259)
                      |.  + -..|++..+.  ++.|.++.+.-+.
T Consensus       149 ~~--~-l~~la~~~n~--~~~s~~~~~~~~~  174 (192)
T 2x5n_A          149 ES--A-LQHFIDAANS--SDSCHLVSIPPSP  174 (192)
T ss_dssp             -C--H-HHHHHHHHCS--TTCCEEEEECCCS
T ss_pred             cH--H-HHHHHHhccC--CCceEEEEecCcc
Confidence            22  2 4455555542  2444445655443

>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=97.96  E-value=0.00011  Score=60.92  Aligned_cols=93  Identities=18%  Similarity=0.237  Sum_probs=72.9

Q ss_pred             CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCCCHHHHHH
Q 025034           22 SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLT  101 (259)
Q Consensus        22 ~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTsd~~~i~~  101 (259)
                      .+-+|+||||.|.-|...       +...+||+.+|+++..|+..-    +..+++|++.++++.|+. ++|.|.+.+..
T Consensus        10 ~~~~iv~vlD~SgSM~~~-------d~~~~r~~~ak~~~~~~~~~~----~~~~v~lv~F~~~~~~~~-~~~~~~~~~~~   77 (218)
T 3ibs_A           10 KGVEVIIALDISNSMLAQ-------DVQPSRLEKAKRLISRLVDEL----DNDKVGMIVFAGDAFTQL-PITSDYISAKM   77 (218)
T ss_dssp             CCCEEEEEEECSGGGGCC-------SSSSCHHHHHHHHHHHHHHTC----SSCEEEEEEESSSEEEEE-EEESCHHHHHH
T ss_pred             CCCcEEEEEECCcCcccc-------cCCcCHHHHHHHHHHHHHHhC----CCCeEEEEEECCCceEeC-CCCCCHHHHHH
Confidence            567899999999987731       123589999999999999763    378999999999999998 99999999999


Q ss_pred             Hhhcccccc-ccCCCChhHHHHHHHH
Q 025034          102 AVRGISATS-ACGQADLTHLFKLASH  126 (259)
Q Consensus       102 aL~~L~~~~-~~~~~DL~~LF~~i~~  126 (259)
                      .|..|.... ..+.-++..-++.+..
T Consensus        78 ~l~~l~~~~~~~g~T~l~~al~~a~~  103 (218)
T 3ibs_A           78 FLESISPSLISKQGTAIGEAINLATR  103 (218)
T ss_dssp             HHHTCCGGGCCSCSCCHHHHHHHHHT
T ss_pred             HHHhcCcccCCCCCCcHHHHHHHHHH
Confidence            999998632 2244456555554443

>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=97.90  E-value=4.6e-05  Score=61.39  Aligned_cols=109  Identities=17%  Similarity=0.277  Sum_probs=77.2

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCCCHHHHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTA  102 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTsd~~~i~~a  102 (259)
                      |=+|+|+||.|.-|...         ...+++.+|+++..|+      +++.++++++.++++.++. ++|+|.+.+..+
T Consensus         6 ~~dvv~vlD~SgSM~~~---------~~~~~~~~~~~~~~~~------~~~~~v~lv~f~~~~~~~~-~~~~~~~~~~~~   69 (182)
T 1shu_X            6 AFDLYFVLDKSGSVANN---------WIEIYNFVQQLAERFV------SPEMRLSFIVFSSQATIIL-PLTGDRGKISKG   69 (182)
T ss_dssp             CEEEEEEEECSGGGGGG---------HHHHHHHHHHHHHHCC------CTTEEEEEEEESSSEEEEE-EEECCHHHHHHH
T ss_pred             ceeEEEEEECCCCcccC---------HHHHHHHHHHHHHHhc------CCCceEEEEEeCCCceEEE-CCCCCHHHHHHH
Confidence            56899999999988732         2347888998888884      4789999999999999998 999999999999


Q ss_pred             hhccccccccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEe--ecCC
Q 025034          103 VRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIY--CRSS  148 (259)
Q Consensus       103 L~~L~~~~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY--~RS~  148 (259)
                      |+.|......+.-++..-++.+.+....... +..-|+|++.  |+++
T Consensus        70 l~~l~~~~~~g~T~~~~al~~a~~~l~~~~~-~~~~~~iiliTDG~~~  116 (182)
T 1shu_X           70 LEDLKRVSPVGETYIHEGLKLANEQIQKAGG-LKTSSIIIALTDGKLD  116 (182)
T ss_dssp             HHHHHTCCCCSCCCHHHHHHHHHHHHHHHTG-GGSCEEEEEEECCCCC
T ss_pred             HHhcccCCCCCCchHHHHHHHHHHHHHhccC-CCCCeEEEEECCCCcC
Confidence            9988743333445666666666554433321 1233455544  4554

>2x31_A Magnesium-chelatase 60 kDa subunit; ligase, bacteriochlorophyll biosynthesis, photosynthesis; 7.50A {Rhodobacter capsulatus}

Probab=97.82  E-value=0.00014  Score=59.28  Aligned_cols=109  Identities=21%  Similarity=0.306  Sum_probs=77.5

Q ss_pred             CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecc-cceeeecccCCCHHHHH
Q 025034           22 SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAK-TASWLRKEFSSDIESTL  100 (259)
Q Consensus        22 ~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~d-sasWl~~~FTsd~~~i~  100 (259)
                      .|-+|+||||.|.-|.      +      ++++.+|+++..|+..-  ..+..+++++++++ .+.|+. ++|.|.+.+.
T Consensus         4 ~~~~vv~vlD~SgSM~------~------~~~~~~k~~~~~~~~~~--~~~~~~v~lv~f~~~~~~~~~-~~~~~~~~~~   68 (189)
T 2x31_A            4 SDRVLIFAVDASGSAA------V------ARLSEAKGAVELLLGRA--YAARDHVSLITFRGTAAQVLL-QPSRSLTQTK   68 (189)
T ss_dssp             SCCEEEEEEECCTTSC------C--------CHHHHHHHHHHHHHS--CTTTSCCCEEEESBSCCCBCT-TTCSCHHHHH
T ss_pred             CCeEEEEEEECCCCCC------c------hHHHHHHHHHHHHHHHh--cCCCcEEEEEEECCCCceEec-CCCCCHHHHH
Confidence            5678999999999764      1      58999999999999642  47889999999996 788997 9999999999


Q ss_pred             HHhhccccccccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEe--ecCCC
Q 025034          101 TAVRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIY--CRSSV  149 (259)
Q Consensus       101 ~aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY--~RS~~  149 (259)
                      ..|..|.+.+   .-++..=++.+.........+.. .|+|++.  |+++.
T Consensus        69 ~~i~~l~~~g---~T~~~~al~~a~~~l~~~~~~~~-~~~ivliTDG~~~~  115 (189)
T 2x31_A           69 RQLQGLPGGG---GTPLASGMEMAMVTAKQARSRGM-TPTIALLTDGRGNI  115 (189)
T ss_dssp             HHHHHCCCCB---CCCCHHHHHHHHHHHHTCTTTCS-SEEEEECCBSCCSS
T ss_pred             HHHhcCCCCC---CCCHHHHHHHHHHHHHhccCCCC-ceEEEEECCCCCCC
Confidence            9999998654   33555555555554443222222 3444444  45543

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

Probab=97.81  E-value=0.00027  Score=57.03  Aligned_cols=107  Identities=20%  Similarity=0.250  Sum_probs=75.0

Q ss_pred             CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCCCHHHHHH
Q 025034           22 SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLT  101 (259)
Q Consensus        22 ~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTsd~~~i~~  101 (259)
                      .|=+|+|+||.|.-|...+         ..+++.+|+++..|      ++++-++++++.++.+.++. +||+|.+.+..
T Consensus         6 ~~~div~vlD~SgSM~~~~---------~~~~~~~~~~~~~~------~~~~~~v~lv~f~~~~~~~~-~l~~~~~~~~~   69 (185)
T 3n2n_F            6 GGFDLYFILDKSGSVLHHW---------NEIYYFVEQLAHKF------ISPQLRMSFIVFSTRGTTLM-KLTEDREQIRQ   69 (185)
T ss_dssp             SEEEEEEEEECSGGGGGGH---------HHHHHHHHHHHHHC------CCTTEEEEEEEESSSEEEEE-EEECCHHHHHH
T ss_pred             CCeeEEEEEeCCCChhhhH---------HHHHHHHHHHHHHh------CCCCcEEEEEEEecCceEEe-ccCCCHHHHHH
Confidence            3668999999999886422         12456666666665      46789999999999999998 99999999999


Q ss_pred             HhhccccccccCCCChhHHHHHHHHHhhhh-cCCCceEEEEEEe
Q 025034          102 AVRGISATSACGQADLTHLFKLASHEAKKS-RAQNRILRVILIY  144 (259)
Q Consensus       102 aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~-~~~~~vvRVILiY  144 (259)
                      +|+.|......+.-++..-++.+....... ......-|+|++.
T Consensus        70 ~i~~l~~~~~~g~T~~~~al~~a~~~l~~~~~~~~~~~~~iill  113 (185)
T 3n2n_F           70 GLEELQKVLPGGDTYMHEGFERASEQIYYENRQGYRTASVIIAL  113 (185)
T ss_dssp             HHHHHHTCCCCSCCCHHHHHHHHHHHHHHHHTTCBCEEEEEEEE
T ss_pred             HHHHHhhhcCCCCccHHHHHHHHHHHHhhccccCCCCCcEEEEE
Confidence            999988543334445666555555543222 2222356666665

>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=97.65  E-value=0.00059  Score=66.67  Aligned_cols=115  Identities=16%  Similarity=0.232  Sum_probs=77.0

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccce-------------eee
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTAS-------------WLR   89 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsas-------------Wl~   89 (259)
                      -|.||||||+|..|...     ..| ..+||+.+|+++..|+..|...++..+.||++++..++             ++.
T Consensus         7 ke~iv~~iDvS~SM~~~-----d~~-~~srl~~ak~~i~~~i~~ki~~~~~D~vGlv~f~~~~~~~plt~d~~y~~i~vl   80 (565)
T 1jey_B            7 KAAVVLCMDVGFTMSNS-----IPG-IESPFEQAKKVITMFVQRQVFAENKDEIALVLFGTDGTDNPLSGGDQYQNITVH   80 (565)
T ss_dssp             CEEEEEEEECCGGGGCC-----BTT-BCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCTTTCSTTEEEE
T ss_pred             ceEEEEEEECChHhccc-----CCC-CCCcHHHHHHHHHHHHHHHhcCCCCCEEEEEEEccCCCCCccccccCCCceEEe
Confidence            38999999999987631     123 56999999999999999999999999999999996542             122


Q ss_pred             cccCCCHHHHHHHhhc-cccccccCCCChhHHHHHHHHHhhhh-cCCCceEEEEEEee
Q 025034           90 KEFSSDIESTLTAVRG-ISATSACGQADLTHLFKLASHEAKKS-RAQNRILRVILIYC  145 (259)
Q Consensus        90 ~~FTsd~~~i~~aL~~-L~~~~~~~~~DL~~LF~~i~~e~~~~-~~~~~vvRVILiY~  145 (259)
                      .+++..-..++..|.. |...  .+..+|..-..++....+.. ....+.-|+|++..
T Consensus        81 ~~l~~~~~~~l~~l~~~l~~~--~~~t~i~~al~~A~~~l~~~~~~~k~~~krIiLlT  136 (565)
T 1jey_B           81 RHLMLPDFDLLEDIESKIQPG--SQQADFLDALIVSMDVIQHETIGKKFEKRHIEIFT  136 (565)
T ss_dssp             EEEECCCHHHHHHHHTTCCCC--SSCCCHHHHHHHHHHHHHHHSSSSCCSEEEEEEEC
T ss_pred             ecCCCCCHHHHHHHHhhccCC--CccccHHHHHHHHHHHHHHHhhcccccccEEEEEe
Confidence            3555444456677776 6432  23456665555555544433 22234445555554

>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=97.58  E-value=0.00058  Score=67.56  Aligned_cols=118  Identities=13%  Similarity=0.177  Sum_probs=78.4

Q ss_pred             CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccce---------eeeccc
Q 025034           22 SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTAS---------WLRKEF   92 (259)
Q Consensus        22 ~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsas---------Wl~~~F   92 (259)
                      ..|.||||||+|..|..+     ..|...+||+.+|+++..|+..|..-++..+.||++++..++         ++..++
T Consensus        34 ~ke~ivf~IDvS~SM~~~-----d~~~~~srl~~a~~~v~~~i~~kii~~~~D~vGlVlfgt~~t~n~l~~d~i~v~~~L  108 (609)
T 1jey_A           34 GRDSLIFLVDASKAMFES-----QSEDELTPFDMSIQCIQSVYISKIISSDRDLLAVVFYGTEKDKNSVNFKNIYVLQEL  108 (609)
T ss_dssp             CEEEEEEEEECSGGGGCC-----CSSSSCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCCTTEEEEEEE
T ss_pred             CceEEEEEEECCHHHcCC-----CCCCCCChHHHHHHHHHHHHHHhhCCCCCCeEEEEEEccCCCCCcCCCCCeEEEecC
Confidence            458899999999987732     124567999999999999999999999999999999997663         444466


Q ss_pred             C-CCHHHHHHHhhcccc----------ccccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEeec
Q 025034           93 S-SDIESTLTAVRGISA----------TSACGQADLTHLFKLASHEAKKSRAQNRILRVILIYCR  146 (259)
Q Consensus        93 T-sd~~~i~~aL~~L~~----------~~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY~R  146 (259)
                      + -+.+ .+..|+.+..          .+.....+|..-+.++....+.. ...+.-|+|++..-
T Consensus       109 ~~~~~~-~ik~l~~l~~~~~~~~~~~~~g~~~~t~l~daL~~a~~~f~~~-~~k~~~k~IiL~TD  171 (609)
T 1jey_A          109 DNPGAK-RILELDQFKGQQGQKRFQDMMGHGSDYSLSEVLWVCANLFSDV-QFKMSHKRIMLFTN  171 (609)
T ss_dssp             ECCCHH-HHHHHHTTSHHHHHHHHHHHHCCSCCCCHHHHHHHHHHHHHTC-SSCEEEEEEEEEES
T ss_pred             CCCCHH-HHHHHHHHhhcccchhhhhhcCCCCCCCHHHHHHHHHHHHHhh-chhhcCCEEEEEcC
Confidence            5 3333 4444555432          12234567777766666555433 22333444444443

>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=97.57  E-value=0.0013  Score=53.81  Aligned_cols=90  Identities=13%  Similarity=0.163  Sum_probs=69.6

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCC-CCccEEEEEecccceeeeccc--CCCHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSIN-PDHRFAFVTLAKTASWLRKEF--SSDIEST   99 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~-p~HeFAl~~L~dsasWl~~~F--Tsd~~~i   99 (259)
                      +=+|+|+||.|.-|..            ++++.+|+++..|+.. +.+. .+.++|+++.++++.+.. +|  ++|.+.+
T Consensus         5 ~~div~vlD~SgSm~~------------~~~~~~k~~~~~~~~~-l~~~~~~~rv~lv~f~~~~~~~~-~l~~~~~~~~~   70 (189)
T 1atz_A            5 PLDVILLLDGSSSFPA------------SYFDEMKSFAKAFISK-ANIGPRLTQVSVLQYGSITTIDV-PWNVVPEKAHL   70 (189)
T ss_dssp             CEEEEEEEECSSSSCH------------HHHHHHHHHHHHHHHH-SCBSTTSEEEEEEEESSSEEEEE-CTTCCCCHHHH
T ss_pred             ceeEEEEEeCCCCCCh------------hhHHHHHHHHHHHHHh-cCcCCCCeEEEEEEECCcceEEE-ecCCCCCHHHH
Confidence            4589999999997762            5689999999999975 3443 348999999999999988 88  8999999


Q ss_pred             HHHhhccccccccCCCChhHHHHHHHHHh
Q 025034          100 LTAVRGISATSACGQADLTHLFKLASHEA  128 (259)
Q Consensus       100 ~~aL~~L~~~~~~~~~DL~~LF~~i~~e~  128 (259)
                      ..+|..+...+  +.-++..=++.+.+..
T Consensus        71 ~~~i~~l~~~~--g~T~~~~aL~~a~~~l   97 (189)
T 1atz_A           71 LSLVDVMQREG--GPSQIGDALGFAVRYL   97 (189)
T ss_dssp             HHHHHTCCCCC--CCCCHHHHHHHHHHHH
T ss_pred             HHHHHhCcCCC--CcchHHHHHHHHHHHH
Confidence            99999998522  3346666555555443

>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=97.48  E-value=0.0021  Score=53.53  Aligned_cols=111  Identities=11%  Similarity=0.122  Sum_probs=76.1

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCC-CccEEEEEecccceeeecccC--CCHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINP-DHRFAFVTLAKTASWLRKEFS--SDIEST   99 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p-~HeFAl~~L~dsasWl~~~FT--sd~~~i   99 (259)
                      +=+|+|+||.|.-|..            ..++.+|+++..|+.. +.+.+ ..++|+++.++++.+.. +|+  +|.+++
T Consensus        13 ~~divfvlD~SgSm~~------------~~~~~~k~~~~~~v~~-l~~~~~~~rv~vv~fs~~~~~~~-~l~~~~~~~~~   78 (202)
T 1ijb_A           13 LLDLVFLLDGSSRLSE------------AEFEVLKAFVVDMMER-LRVSQKWVRVAVVEYHDGSHAYI-GLKDRKRPSEL   78 (202)
T ss_dssp             CEEEEEEEECBTTSCH------------HHHHHHHHHHHHHHHT-BCBSTTSEEEEEEEESSSEEEEE-CTTCCCCHHHH
T ss_pred             cccEEEEEECCCCCCH------------HHHHHHHHHHHHHHHh-cccCCCceEEEEEEECCCceEEE-ecCCCCCHHHH
Confidence            6799999999997762            3478899999999983 33445 57999999999999887 888  789999


Q ss_pred             HHHhhccccccccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEe--ecCC
Q 025034          100 LTAVRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIY--CRSS  148 (259)
Q Consensus       100 ~~aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY--~RS~  148 (259)
                      .++|+.+...+. ..-++..=++.+..+.-.....+-.-|+|++.  |+++
T Consensus        79 ~~~i~~l~~~gg-~~T~~~~aL~~a~~~~~~~~~r~~~~~~iillTDG~~~  128 (202)
T 1ijb_A           79 RRIASQVKYAGS-QVASTSEVLKYTLFQIFSKIDRPEASRIALLLMASQEP  128 (202)
T ss_dssp             HHHHHTCCCCCB-SCCCHHHHHHHHHHHTSSSCSCTTSEEEEEEEECCCCC
T ss_pred             HHHHHhCcCCCC-CcCcHHHHHHHHHHHHhccCCCCCCCeEEEEEccCCCC
Confidence            999999885331 12355554454443321111123355666654  4554

>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=97.46  E-value=0.0024  Score=52.73  Aligned_cols=116  Identities=13%  Similarity=0.133  Sum_probs=80.5

Q ss_pred             CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeee---cccCCCHHH
Q 025034           22 SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLR---KEFSSDIES   98 (259)
Q Consensus        22 ~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~---~~FTsd~~~   98 (259)
                      .+=+|+|+||.|.-|..            ..++.+|+++..|+..=...++..++++++.++++.++.   ..+|.|.+.
T Consensus        14 ~~~div~vlD~SgSM~~------------~~~~~~k~~~~~~i~~l~~~~~~~~v~lv~f~~~~~~~~~~~~~~~~~~~~   81 (223)
T 1q0p_A           14 GSMNIYLVLDGSDSIGA------------SNFTGAKKSLVNLIEKVASYGVKPRYGLVTYATYPKIWVKVSEADSSNADW   81 (223)
T ss_dssp             -CEEEEEEEECSTTTCH------------HHHHHHHHHHHHHHHHHHTTTCCCEEEEEEESSSEEEEECTTSGGGGCHHH
T ss_pred             CceeEEEEEeCCCCCch------------HHHHHHHHHHHHHHHHHhcCCCCceEEEEEecCccceeeccccCCCCCHHH
Confidence            57799999999998763            238999999999998644556678999999999887775   245668899


Q ss_pred             HHHHhhcccccc--ccCCCChhHHHHHHHHHhhhhc--CC---CceEEEEEEe--ecCCC
Q 025034           99 TLTAVRGISATS--ACGQADLTHLFKLASHEAKKSR--AQ---NRILRVILIY--CRSSV  149 (259)
Q Consensus        99 i~~aL~~L~~~~--~~~~~DL~~LF~~i~~e~~~~~--~~---~~vvRVILiY--~RS~~  149 (259)
                      +.++|..|....  ..+.-++..=++.+........  .+   +..-|+|++.  |.++.
T Consensus        82 ~~~~i~~l~~~~~~~~g~T~~~~aL~~a~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~  141 (223)
T 1q0p_A           82 VTKQLNEINYEDHKLKSGTNTKKALQAVYSMMSWPDDVPPEGWNRTRHVIILMTDGLHNM  141 (223)
T ss_dssp             HHHHHHTCCTTSCSCTTCCCHHHHHHHHHHHHCCTTSSCCTTGGGCEEEEEEEECSCCCS
T ss_pred             HHHHHHhcccccccCCCCccHHHHHHHHHHHhhccccccccccccCCeEEEEECCCCCCC
Confidence            999999998642  2345566666666655543221  11   2455655554  45553

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

Probab=97.30  E-value=0.0047  Score=50.25  Aligned_cols=89  Identities=20%  Similarity=0.230  Sum_probs=68.2

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCC-CCccEEEEEecccceeeecccCC----CHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSIN-PDHRFAFVTLAKTASWLRKEFSS----DIE   97 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~-p~HeFAl~~L~dsasWl~~~FTs----d~~   97 (259)
                      +=+|+|+||.|.-|..            .+++.+|+++..|+.. +.+. ...++|+++.++++.+.. +|+.    |.+
T Consensus        17 ~~divfvlD~SgSm~~------------~~~~~~k~~~~~~i~~-l~~~~~~~rv~vv~F~~~~~~~~-~l~~~~~~~~~   82 (178)
T 2xgg_A           17 QLDICFLIDSSGSIGI------------QNFRLVKQFLHTFLMV-LPIGPEEVNNAVVTYSTDVHLQW-DLQSPNAVDKQ   82 (178)
T ss_dssp             CEEEEEEEECCTTTCH------------HHHHHHHHHHHHHHHH-SCBSTTSEEEEEEEESSSEEEEE-CTTSGGGSCHH
T ss_pred             CeeEEEEEECCCCCCH------------HHHHHHHHHHHHHHHh-cCCCCCCeEEEEEEeCCceEEEE-eCCCCCccCHH
Confidence            5789999999997752            3478899999999875 4443 348999999999999887 8887    789


Q ss_pred             HHHHHhhccccccccCCCChhHHHHHHHHH
Q 025034           98 STLTAVRGISATSACGQADLTHLFKLASHE  127 (259)
Q Consensus        98 ~i~~aL~~L~~~~~~~~~DL~~LF~~i~~e  127 (259)
                      ++.++|..+...+  +.-++..-++.+...
T Consensus        83 ~~~~~i~~l~~~~--g~T~~~~aL~~a~~~  110 (178)
T 2xgg_A           83 LAAHAVLDMPYKK--GSTNTSDGLKACKQI  110 (178)
T ss_dssp             HHHHHHHHCCCCC--CCCCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCC--CCccHHHHHHHHHHH
Confidence            9999999887322  234666666666554

>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=97.19  E-value=0.0033  Score=60.25  Aligned_cols=104  Identities=15%  Similarity=0.150  Sum_probs=75.5

Q ss_pred             CCCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccC-------
Q 025034           21 ISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFS-------   93 (259)
Q Consensus        21 ~~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FT-------   93 (259)
                      -.+=+|+|+||+|.-|..          +.++|+.+|+|+..|+.   .+.+.-+|+++++++++.++. ++|       
T Consensus        75 ~~~~dvv~VLD~SGSM~~----------~~~rl~~ak~a~~~ll~---~L~~~drv~lV~Fs~~a~~~~-p~t~~l~~~~  140 (464)
T 4fx5_A           75 GSENVEVIIIDCSGSMDY----------PRTKMMAAKEATKVAID---TLTDGAFFAVVAGTEGARVVY-PTGGQLLRAD  140 (464)
T ss_dssp             -CCEEEEEEEECCGGGGT----------TTHHHHHHHHHHHHHHH---HSCTTCEEEEEEESSSEEEEE-SSSSSCEECS
T ss_pred             CCCceEEEEEEcCcccCC----------CCchHHHHHHHHHHHHH---hCCCCCEEEEEEEcCceEEEe-cCCcccccCC
Confidence            367899999999998761          13789999999999997   466888999999999999997 876       


Q ss_pred             -CCHHHHHHHhhccccccccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEe
Q 025034           94 -SDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIY  144 (259)
Q Consensus        94 -sd~~~i~~aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY  144 (259)
                       .|.+.+..+|..|.+.+   .-++..=++.+.+....  .+.. .|.|++.
T Consensus       141 ~~~~~~l~~~I~~L~~~G---gT~l~~aL~~A~~~l~~--~~~~-~~~IILL  186 (464)
T 4fx5_A          141 YQSRAAAKEAVGRLHANG---GTAMGRWLAQAGRIFDT--APSA-IKHAILL  186 (464)
T ss_dssp             HHHHHHHHHHHHTCCCCS---CCCHHHHHHHHHHHHTT--CTTS-EEEEEEE
T ss_pred             HHHHHHHHHHHHcCCCCC---CCcHHHHHHHHHHHHhc--CCCC-CCEEEEE
Confidence             67888999999998644   23455444444444332  2233 4555444

>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=97.14  E-value=0.0082  Score=49.49  Aligned_cols=176  Identities=13%  Similarity=0.106  Sum_probs=100.2

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccC--CCHHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFS--SDIESTL  100 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FT--sd~~~i~  100 (259)
                      +=+|+|+||.|.-|.              .++.+|+++..|+..-..-.+.-++++++.++++.+.. +||  ++.+++.
T Consensus         6 ~~div~vlD~SgSm~--------------~~~~~k~~~~~~~~~l~~~~~~~rvglv~f~~~~~~~~-~l~~~~~~~~~~   70 (200)
T 1v7p_C            6 LIDVVVVCDESNSIY--------------PWDAVKNFLEKFVQGLDIGPTKTQVGLIQYANNPRVVF-NLNTYKTKEEMI   70 (200)
T ss_dssp             CEEEEEEEECCTTCC--------------CHHHHHHHHHHHHHTSCBSTTSEEEEEEEESSSEEEEE-CTTTCSSHHHHH
T ss_pred             cccEEEEEECCCCcc--------------cHHHHHHHHHHHHHhcCCCCCceEEEEEEECCCceEEE-eCCCcCCHHHHH
Confidence            348999999999654              17889999999997432223578999999999999987 888  4788899


Q ss_pred             HHhhccccccccCCCChhHHHHHHHHHhhhh--cCCCceEEEEEEe--ecCCCCccccC---CCCCCceEEEEEeecC--
Q 025034          101 TAVRGISATSACGQADLTHLFKLASHEAKKS--RAQNRILRVILIY--CRSSVRPQHQW---PVNQKLFTMDVLYLHD--  171 (259)
Q Consensus       101 ~aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~--~~~~~vvRVILiY--~RS~~~P~~~~---~~~~p~FflDVvYlHd--  171 (259)
                      ++|+.+...+. ..-++..=++.+.+..-..  ...+..-|+|++.  |+++.......   .+++....+-+|-+-.  
T Consensus        71 ~~i~~l~~~~G-~~T~~~~al~~a~~~~~~~~~g~r~~~~~~ivllTDG~~~~~~~~~~~~~~~~~~gi~i~~igvg~~~  149 (200)
T 1v7p_C           71 VATSQTSQYGG-DLTNTFGAIQYARKYAYSAASGGRRSATKVMVVVTDGESHDGSMLKAVIDQCNHDNILRFGIAVLGYL  149 (200)
T ss_dssp             HHHHHCCCCCC-SCCCHHHHHHHHHHHTTSGGGTCCTTSEEEEEEEESSCCSCGGGHHHHHHHHHHTTEEEEEEEECHHH
T ss_pred             HHHHhhhccCC-CCCcHHHHHHHHHHhhcccccCCCCCCCeEEEEEccCCCCCcccHHHHHHHHHHCCCEEEEEEecccc
Confidence            99998874321 1235656555555432111  1223455665554  55553211100   1233444445555521  


Q ss_pred             -CCCCCCChHHHHHHHHHhhhhcCCCceeEEEcC--cchHHHHHHHHHhhc
Q 025034          172 -KPGPDNCPQKVYDALVDALEHVSENEGYIFESG--QGLARILFRQMCVLL  219 (259)
Q Consensus       172 -~~~~dnc~q~Vyd~L~~~ld~~s~~~sYi~Evg--~~~a~~L~~~ma~LL  219 (259)
                       ....+  .......|. .+... .+..|+|.+.  ..+ ..+++.+..-+
T Consensus       150 ~~~~~~--~~~~~~~L~-~iA~~-~~g~~~~~~~~~~~l-~~i~~~i~~~i  195 (200)
T 1v7p_C          150 NRNALD--TKNLIKEIK-AIASI-PTERYFFNVSDEAAL-LEKAGTLGEQI  195 (200)
T ss_dssp             HHTTCC--CHHHHHHHH-HHSCS-SHHHHEEEESSSGGG-HHHHHHHHHHH
T ss_pred             cccccc--hhhHHHHHH-HHhCC-ccHhcEEEcCCHHHH-HHHHHHHHhhh
Confidence             11111  112234453 34431 1224777765  444 57777665543

>4hqf_A Thrombospondin-related anonymous protein, trap; malaria, parasite motility, I domain, TSR domain, receptor O sporozoite, vaccine target; 2.20A {Plasmodium falciparum} PDB: 4hqk_A 2bbx_A

Probab=97.09  E-value=0.005  Score=53.91  Aligned_cols=114  Identities=11%  Similarity=0.115  Sum_probs=75.0

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCCC----HHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSD----IES   98 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTsd----~~~   98 (259)
                      +=+|+|+||.|.-|...           +.++.+|+++..|+..=..-...-++||++.++++.++. +|+.+    .++
T Consensus        21 ~~div~vlD~SgSM~~~-----------~~~~~~k~~~~~~v~~l~~~~~~~rvglv~Fs~~~~~~~-~l~~~~~~~~~~   88 (281)
T 4hqf_A           21 EVDLYLLMDGSGSIRRH-----------NWVNHAVPLAMKLIQQLNLNDNAIHLYASVFSNNAREII-RLHSDASKNKEK   88 (281)
T ss_dssp             CEEEEEEEECCCCSSTH-----------HHHHHHHHHHHHHHTTCCCCTTSEEEEEEEEETTEEEEE-EECSSCSSCHHH
T ss_pred             ceeEEEEEeCCCCcCHH-----------HHHHHHHHHHHHHHHHhccCCCCcEEEEEEcCCCceEEE-EccccCccCHHH
Confidence            56899999999977621           234889999999997422222368999999999988776 77664    788


Q ss_pred             HHHHhhccccc-cccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEe--ecCC
Q 025034           99 TLTAVRGISAT-SACGQADLTHLFKLASHEAKKSRAQNRILRVILIY--CRSS  148 (259)
Q Consensus        99 i~~aL~~L~~~-~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY--~RS~  148 (259)
                      +..+|+.|... ...+.=++..-++.+..........+-.-|+|++.  |+++
T Consensus        89 l~~~i~~l~~~~~~~G~T~~~~aL~~a~~~l~~~~~r~~~~~~iillTDG~~~  141 (281)
T 4hqf_A           89 ALIIIKSLLSTNLPYGKTSLTDALLQVRKHLNDRINRENANQLVVILTDGIPD  141 (281)
T ss_dssp             HHHHHHHHHHTTGGGCSCCHHHHHHHHHHHHHTSCCCTTCEEEEEEEESSCCS
T ss_pred             HHHHHHHHhhccCCCCCccHHHHHHHHHHHHHhccCCCCCCEEEEEEecCCCC
Confidence            99999988731 12234456666666644443322222345666665  4554

>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=97.05  E-value=0.0044  Score=58.23  Aligned_cols=93  Identities=11%  Similarity=0.125  Sum_probs=72.2

Q ss_pred             CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCC----CHH
Q 025034           22 SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSS----DIE   97 (259)
Q Consensus        22 ~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTs----d~~   97 (259)
                      .+=+|+|+||.|.-|..            ..++.+|+++..|+..-....++.++||++.++++..+. +++.    |.+
T Consensus         8 ~~~divfvlD~SgSM~~------------~~~~~~k~~~~~l~~~l~~~~~~~rv~lv~f~~~~~~~~-~l~~~~~~~~~   74 (509)
T 2odp_A            8 GHLNLYLLLDASQSVSE------------NDFLIFKESASLMVDRIFSFEINVSVAIITFASEPKVLM-SVLNDNSRDMT   74 (509)
T ss_dssp             SEEEEEEEEECSTTSCH------------HHHHHHHHHHHHHHHHHHTTCCCEEEEEEEESSSEEEEE-CTTSGGGGCHH
T ss_pred             CCeeEEEEEeCCCccch------------hhHHHHHHHHHHHHHHhhccCCCceEEEEEccCCCceeE-eccCCCCCCHH
Confidence            46689999999998763            247899999999998655557889999999999999887 7776    999


Q ss_pred             HHHHHhhccccccc--cCCCChhHHHHHHHHH
Q 025034           98 STLTAVRGISATSA--CGQADLTHLFKLASHE  127 (259)
Q Consensus        98 ~i~~aL~~L~~~~~--~~~~DL~~LF~~i~~e  127 (259)
                      ++..+|+.|.....  ...=++..=++.+.+.
T Consensus        75 ~~~~~l~~l~~~~~~~~ggT~~~~aL~~a~~~  106 (509)
T 2odp_A           75 EVISSLENANYKDHENGTGTNTYAALNSVYLM  106 (509)
T ss_dssp             HHHHHHHTCCGGGGTTCCSCCHHHHHHHHHHH
T ss_pred             HHHHHHHhcccccCCCCCCccHHHHHHHHHHH
Confidence            99999999986532  1344565555555443

>1rrk_A Complement factor B; BB, hydrolase; 2.00A {Homo sapiens} SCOP: b.47.1.2 c.62.1.1 PDB: 1rs0_A* 1rtk_A* 2win_I* 1dle_A

Probab=97.03  E-value=0.0052  Score=57.32  Aligned_cols=92  Identities=12%  Similarity=0.116  Sum_probs=70.6

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeee---cccCCCHHHHHH
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLR---KEFSSDIESTLT  101 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~---~~FTsd~~~i~~  101 (259)
                      +|+|+||.|.-|..            ++++.+|+++..|+..=.......++||++.++++.++.   ..+|.|.+.+.+
T Consensus         3 div~vlD~SgSM~~------------~~~~~~k~~~~~~~~~l~~~~~~~~v~lv~f~~~~~~~~~~~~~~~~~~~~~~~   70 (497)
T 1rrk_A            3 NIYLVLDGSDSIGA------------SNFTGAKKVLVNLIEKVASYGVKPRYGLVTYATYPKIWVKVSEADSSNADWVTK   70 (497)
T ss_dssp             EEEEEEECSTTTCH------------HHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESSSEEEEECTTSGGGGCHHHHHH
T ss_pred             eEEEEEECCCCcch------------hhHHHHHHHHHHHHHHhhccCCCceEEEEEecCCceEeeccccccccCHHHHHH
Confidence            79999999997752            679999999999998654556678999999999877664   256688999999


Q ss_pred             Hhhcccccc--ccCCCChhHHHHHHHHHh
Q 025034          102 AVRGISATS--ACGQADLTHLFKLASHEA  128 (259)
Q Consensus       102 aL~~L~~~~--~~~~~DL~~LF~~i~~e~  128 (259)
                      +|..|....  ....=++..=++.+....
T Consensus        71 ~l~~l~~~~~~~~g~T~~~~al~~a~~~l   99 (497)
T 1rrk_A           71 QLNEINYEDHKLKSGTNTKKALQAVYSMM   99 (497)
T ss_dssp             HHHHCCGGGSCCTTCCCHHHHHHHHHHHH
T ss_pred             HHHhCcCccccccCccCHHHHHHHHHHHh
Confidence            999998643  234456666656555544

>1mf7_A Integrin alpha M; cell adhesion; 1.25A {Homo sapiens} SCOP: c.62.1.1 PDB: 1na5_A 1jlm_A 1ido_A 1m1u_A 3q3g_G 1n9z_A 1bhq_1 1bho_1 1idn_1 3qa3_G

Probab=96.94  E-value=0.0037  Score=51.13  Aligned_cols=109  Identities=12%  Similarity=0.181  Sum_probs=73.3

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCC--CHHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSS--DIESTL  100 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTs--d~~~i~  100 (259)
                      +=+|+|+||.|.-|..            ..++.+|+++..|+..-.  .+..++++++.++.+.++. +|+.  |.+++.
T Consensus         5 ~~div~vlD~SgSm~~------------~~~~~~k~~~~~~~~~l~--~~~~~v~vv~f~~~~~~~~-~l~~~~~~~~~~   69 (194)
T 1mf7_A            5 DSDIAFLIDGSGSIIP------------HDFRRMKEFVSTVMEQLK--KSKTLFSLMQYSEEFRIHF-TFKEFQNNPNPR   69 (194)
T ss_dssp             CEEEEEEEECCTTSCH------------HHHHHHHHHHHHHHHHHC--CTTEEEEEEEESSSEEEEE-CHHHHHHSCCHH
T ss_pred             CeeEEEEEeCCCCCCH------------HHHHHHHHHHHHHHHhcC--CCCeEEEEEEecCCceEEE-ecCCcCCHHHHH
Confidence            3589999999998763            247788999999987433  4578999999999999987 8876  445778


Q ss_pred             HHhhccccccccCCCChhHHHHHHHHHhhhh--cCCCceEEEEEEe--ecCC
Q 025034          101 TAVRGISATSACGQADLTHLFKLASHEAKKS--RAQNRILRVILIY--CRSS  148 (259)
Q Consensus       101 ~aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~--~~~~~vvRVILiY--~RS~  148 (259)
                      .+|+.+...+  +.-++..-++.+.......  ...+-.-|+|++.  |+++
T Consensus        70 ~~i~~l~~~~--g~T~~~~aL~~a~~~l~~~~~~~r~~~~~~iillTDG~~~  119 (194)
T 1mf7_A           70 SLVKPITQLL--GRTHTATGIRKVVRELFNITNGARKNAFKILVVITDGEKF  119 (194)
T ss_dssp             HHHTTCCCCC--SCBCHHHHHHHHHHTTTSGGGTCCTTSEEEEEEEESSCCB
T ss_pred             HHHHhCcCCC--CCchHHHHHHHHHHHhcCcccCCCCCCCeEEEEEcCCCCC
Confidence            8888887422  2336666566555433211  1122355666555  4554

>2iue_A Pactolus I-domain; membrane protein, CD, ITC, limbs, midas, admidas, membrane, integrin, titration, rossman fold, cell adhesion, transmembrane; NMR {Mus musculus}

Probab=96.93  E-value=0.041  Score=48.26  Aligned_cols=175  Identities=11%  Similarity=0.113  Sum_probs=114.3

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCCCHHHHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTA  102 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTsd~~~i~~a  102 (259)
                      |=+|+||+|++.-|.             .-++.+|+.+...+..=..++++.+|||....|..-...-+||+|..++.+.
T Consensus         3 pvDl~fl~D~S~SM~-------------~di~~lk~~~~~l~~~l~~~~~~~r~Gfg~f~Dk~~~~~l~lT~d~~~F~~~   69 (212)
T 2iue_A            3 SVDLYFLMGLSGSAQ-------------GHLSNVQTLGSDLLKALNEISRSGRIGFGSIVNMTFQHILKLTADSSQFQRE   69 (212)
T ss_dssp             CEEEEEEEECCGGGT-------------TTHHHHHHHHHHHHHHHHHHCSCEEEEEEEESSSCEEEEEEEESCHHHHHHH
T ss_pred             ceEEEEEEeCCCcch-------------hHHHHHHHHHHHHHHHHHhhCcCceEEEEEEEcCcceecCCcCCCHHHHHHH
Confidence            568999999999776             2378888888888865556788999999988875222223899999999999


Q ss_pred             hhcccccc--ccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEeecCCCCcccc--C---CC---CCCceEE-EEEeecC
Q 025034          103 VRGISATS--ACGQADLTHLFKLASHEAKKSRAQNRILRVILIYCRSSVRPQHQ--W---PV---NQKLFTM-DVLYLHD  171 (259)
Q Consensus       103 L~~L~~~~--~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY~RS~~~P~~~--~---~~---~~p~Ffl-DVvYlHd  171 (259)
                      +..+..++  ..+.--++.|+..+....+..= .+ .-|+|++.+=..  |++-  .   .+   ++....| |-+|.+.
T Consensus        70 v~~~~vsg~~D~PE~g~dal~qa~~c~~~i~W-r~-a~rllvl~TDa~--~H~~gDg~l~gi~~pnd~~chl~~g~y~~s  145 (212)
T 2iue_A           70 LRKQLVSGKLATPKGQLDAVVQVAICLGEIGW-RN-GTRFLVLVTDND--FHLAKDKTLGTRQNTSDGRCHLDDGMYRSR  145 (212)
T ss_dssp             HHTCCCCCCSSSSBCHHHHHHHHHHCHHHHTC-CS-SEEEEEEECSSC--BCCTTGGGGGTCCSCCCSSCCBSSSBBGGG
T ss_pred             HhhccccCCCCCCchHHHHHHHHHHhhhhccc-CC-ccEEEEEECcCC--ccccCCccccccccCCccccccCCCeeccC
Confidence            99987655  2244444555554422111111 12 568888876653  3331  1   01   1122222 3466653


Q ss_pred             CCCCCCChHHHHHHHHHhhhhcCCCceeEEEcCcchHHHHHHHHHhhccC
Q 025034          172 KPGPDNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQMCVLLSH  221 (259)
Q Consensus       172 ~~~~dnc~q~Vyd~L~~~ld~~s~~~sYi~Evg~~~a~~L~~~ma~LLaH  221 (259)
                      ...+.-....++..|.+      ++-.-||-|..+. ..+|..++.+++.
T Consensus       146 ~~~Dyps~~q~~~~l~~------~~i~~ifavt~~~-~~~Y~~l~~~i~~  188 (212)
T 2iue_A          146 GEPDYQSVVQLASKLAE------NNIQPIFVVPSRM-VKTYEKLTTFIPK  188 (212)
T ss_dssp             GSSCCCCHHHHHHHHHH------HTCEEEEEEEHHH-HHHHHHHHHHSTT
T ss_pred             cccCCCCHHHHHHHHHh------cCCcEEEEEccch-hHHHHHHHHHccc
Confidence            33333367888888854      2568899998777 5889999988753

>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=96.93  E-value=0.01  Score=58.11  Aligned_cols=115  Identities=12%  Similarity=0.136  Sum_probs=80.5

Q ss_pred             CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCC----CHH
Q 025034           22 SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSS----DIE   97 (259)
Q Consensus        22 ~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTs----d~~   97 (259)
                      .+=+|+|+||.|.-|..            ..++.+|+++..||..=..-..+-+|||++.++.+..+. +||.    |.+
T Consensus       242 ~~~div~vlD~SgSM~~------------~~~~~~k~~~~~~i~~l~~~~~~~rv~lv~f~~~~~~~~-~l~~~~~~~~~  308 (741)
T 3hrz_D          242 GSMNIYLVLDGSGSIGA------------SDFTGAKKCLVNLIEKVASYGVKPRYGLVTYATYPKIWV-KVSEADSSNAD  308 (741)
T ss_dssp             CEEEEEEEEECSTTTCH------------HHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESSSEEEEE-CTTSGGGGCHH
T ss_pred             CceeEEEEeccCCcccc------------cchHHHHHHHHHHHHhhhccCCCceEEEEEeccCCceeE-eecccCCcCHH
Confidence            46689999999998763            237789999999987533334458999999999999998 9988    999


Q ss_pred             HHHHHhhcccccc--ccCCCChhHHHHHHHHHhhhh-----cCCCceEEEEEEe--ecCCC
Q 025034           98 STLTAVRGISATS--ACGQADLTHLFKLASHEAKKS-----RAQNRILRVILIY--CRSSV  149 (259)
Q Consensus        98 ~i~~aL~~L~~~~--~~~~~DL~~LF~~i~~e~~~~-----~~~~~vvRVILiY--~RS~~  149 (259)
                      ++.++|+.|....  ..+.=++..-++.+.+.....     ...+.+-|+|++.  |+++.
T Consensus       309 ~~~~~i~~l~~~~~~~~ggT~~~~aL~~a~~~l~~~~~~~~~~~~~~~~~iillTDG~~n~  369 (741)
T 3hrz_D          309 WVTKQLNEINYEDHKLKSGTNTKKALQAVYSMMSWPDDVPPEGWNRTRHVIILMTDGLHNM  369 (741)
T ss_dssp             HHHHHHTTCCGGGGSSSCCCCHHHHHHHHHHHHCCC--CCCTTGGGEEEEEEEEECSCCCS
T ss_pred             HHHHHHHhcccccccCCCChHHHHHHHHHHHHHhhhhhccccchhccCeEEEEECCCcccc
Confidence            9999999998422  223445666555555544211     1123467787777  55553

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

Probab=96.82  E-value=0.018  Score=48.31  Aligned_cols=187  Identities=13%  Similarity=0.114  Sum_probs=97.8

Q ss_pred             cccCCCCCC--CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecc
Q 025034           14 FTLPPMRIS--NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKE   91 (259)
Q Consensus        14 ~~l~p~~~~--pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~   91 (259)
                      -+++|...|  +=+|+|+||.|.-|.              .++.+|+++..|+..-..-.+..++++++.++++.+.. +
T Consensus        11 ~~~~p~~~c~~~~div~vlD~SgSM~--------------~~~~~k~~~~~~~~~l~~~~~~~rv~lv~F~~~~~~~~-~   75 (223)
T 2b2x_A           11 NSFAPVQECSTQLDIVIVLDGSNSIY--------------PWESVIAFLNDLLKRMDIGPKQTQVGIVQYGENVTHEF-N   75 (223)
T ss_dssp             -----------CEEEEEEEECSTTCC--------------CHHHHHHHHHHHHTTSCCSTTSCCEEEEEESSSEEEEE-C
T ss_pred             cCCCCcccCCCcceEEEEEECCCChh--------------hHHHHHHHHHHHHHhcccCCCCeEEEEEEeCCCccEEE-e
Confidence            356666667  478999999999654              17889999999997322124678999999999988887 7


Q ss_pred             cC--CCHHHHHHHhhccccccccCCCChhHHHHHHHHHhhhh--cCCCceEEEEEEe--ecCCCCccccC---CCCCCce
Q 025034           92 FS--SDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKS--RAQNRILRVILIY--CRSSVRPQHQW---PVNQKLF  162 (259)
Q Consensus        92 FT--sd~~~i~~aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~--~~~~~vvRVILiY--~RS~~~P~~~~---~~~~p~F  162 (259)
                      |+  ++.+++.++|+.+...+- ..-++..-++.+....-..  ...+..-|+|++.  |+++.-.....   .+++...
T Consensus        76 l~~~~~~~~~~~~i~~l~~~gG-~~T~~~~aL~~a~~~l~~~~~~~~~~~~~~iillTDG~~~~~~~~~~~~~~~~~~gi  154 (223)
T 2b2x_A           76 LNKYSSTEEVLVAANKIVQRGG-RQTMTALGIDTARKEAFTEARGARRGVKKVMVIVTDGESHDNYRLKQVIQDCEDENI  154 (223)
T ss_dssp             TTTCCSHHHHHHHHTTCCCCCC-SSCCHHHHHHHHHHTTSSGGGTCCTTSEEEEEEEESSCCTTGGGHHHHHHHHHTTTE
T ss_pred             cCCCCCHHHHHHHHHhhhccCC-CCccHHHHHHHHHHHhcCcccCCCCCCCeEEEEEcCCCCCCCccHHHHHHHHHHCCC
Confidence            75  356788888888764321 1245655555554432111  1223345555544  45554321100   1233444


Q ss_pred             EEEEEeecCCCCCCC-ChHHHHHHHHHhhhhcCC-CceeEEEcC--cchHHHHHHHHHhhcc
Q 025034          163 TMDVLYLHDKPGPDN-CPQKVYDALVDALEHVSE-NEGYIFESG--QGLARILFRQMCVLLS  220 (259)
Q Consensus       163 flDVvYlHd~~~~dn-c~q~Vyd~L~~~ld~~s~-~~sYi~Evg--~~~a~~L~~~ma~LLa  220 (259)
                      .+-+|-+=+..+..+ -....-+.| ..+..  . ..+++|.+.  ..+ .++++.+..-+.
T Consensus       155 ~v~~igvG~~~~~~~~~~~~~~~~L-~~iA~--~p~~g~~~~~~~~~~L-~~i~~~i~~~ic  212 (223)
T 2b2x_A          155 QRFSIAILGHYNRGNLSTEKFVEEI-KSIAS--EPTEKHFFNVSDELAL-VTIVKALGERIF  212 (223)
T ss_dssp             EEEEEEECGGGC---CCCHHHHHHH-HTTSC--SSGGGTEEEESSTTGG-GGGHHHHHTTTC
T ss_pred             EEEEEEecCccccccccchhHHHHH-HHHhC--CCchhcEEEeCCHHHH-HHHHHHHHHhhc
Confidence            444444421111000 011122344 23433  2 236666665  444 577777765553

>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=96.73  E-value=0.0079  Score=49.89  Aligned_cols=74  Identities=11%  Similarity=0.116  Sum_probs=60.0

Q ss_pred             CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCC-CCccEEEEEecccceeeecccCC--CHHH
Q 025034           22 SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSIN-PDHRFAFVTLAKTASWLRKEFSS--DIES   98 (259)
Q Consensus        22 ~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~-p~HeFAl~~L~dsasWl~~~FTs--d~~~   98 (259)
                      .+-+|+|+||.|.-|..            ..++.+|+++..|+.. +.+. +.-+||+++.++.+.+.. +|+.  |.++
T Consensus        20 ~~~DivfvlD~S~Sm~~------------~~~~~~k~~~~~~~~~-l~~~~~~~rv~vv~fs~~~~~~~-~l~~~~~~~~   85 (199)
T 3zqk_A           20 MVLDVAFVLEGSDKIGE------------ADFNRSKEFMEEVIQR-MDVGQDSIHVTVLQYSYMVTVEY-PFSEAQSKGD   85 (199)
T ss_dssp             CCCEEEEEEECCTTTCH------------HHHHHHHHHHHHHHHH-SCBSTTSBEEEEEEESSSEEEEE-CTTSCCCHHH
T ss_pred             CCcCEEEEEECCCCCCH------------HHHHHHHHHHHHHHHh-cCCCCCceEEEEEEECCcccEEE-ecCCcCCHHH
Confidence            36899999999997762            3477889999888873 3343 568999999999999987 8886  8899


Q ss_pred             HHHHhhccccc
Q 025034           99 TLTAVRGISAT  109 (259)
Q Consensus        99 i~~aL~~L~~~  109 (259)
                      +..+|+.+...
T Consensus        86 ~~~~i~~l~~~   96 (199)
T 3zqk_A           86 ILQRLREIRYQ   96 (199)
T ss_dssp             HHHHHHHCCCC
T ss_pred             HHHHHHhCcCC
Confidence            99999988743

>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=96.58  E-value=0.022  Score=49.65  Aligned_cols=112  Identities=12%  Similarity=0.155  Sum_probs=71.6

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHh-HHHHHHHHHHHHhhhcCC-CCccEEEEEecccceeeecccCCC----H
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRL-DAMKQAILLFVNSKLSIN-PDHRFAFVTLAKTASWLRKEFSSD----I   96 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL-~~iK~aI~~FV~~K~~i~-p~HeFAl~~L~dsasWl~~~FTsd----~   96 (259)
                      +=+|+|+||.|.-|...            .+ +.+|+++..++..= .+. +.-++|+++.++.+.++. +|+.+    .
T Consensus        18 ~~DivfvlD~SgSM~~~------------~~~~~~k~~~~~lv~~l-~~~~~~~rvglv~Fs~~~~~~~-~l~~~~~~~~   83 (266)
T 4hqo_A           18 QVDLYLLVDGSGSIGYP------------NWITKVIPMLNGLINSL-SLSRDTINLYMNLFGSYTTELI-RLGSGQSIDK   83 (266)
T ss_dssp             CEEEEEEEECSTTTCHH------------HHHHTHHHHHHHHHHTC-CBCTTSEEEEEEEESSSEEEEE-CTTSHHHHCH
T ss_pred             ceeEEEEEECCCCcChh------------HHHHHHHHHHHHHHHHc-ccCCCCcEEEEEEecCCcceEE-ecCCCCccCH
Confidence            45899999999987631            23 36788888888643 333 579999999999998887 88865    7


Q ss_pred             HHHHHHhhccccc-cccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEe--ecCC
Q 025034           97 ESTLTAVRGISAT-SACGQADLTHLFKLASHEAKKSRAQNRILRVILIY--CRSS  148 (259)
Q Consensus        97 ~~i~~aL~~L~~~-~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY--~RS~  148 (259)
                      +.+.++|+.|... ...+.-++..=++.+..........+-.-|+|++.  |+++
T Consensus        84 ~~~~~~i~~l~~~~~~~G~T~~~~AL~~a~~~l~~~~~r~~~~~~iIllTDG~~~  138 (266)
T 4hqo_A           84 RQALSKVTELRKTYTPYGTTSMTAALDEVQKHLNDRVNREKAIQLVILMTDGVPN  138 (266)
T ss_dssp             HHHHHHHHHHHHHCCCCSCCCHHHHHHHHHHHHHTTCSCTTSEEEEEEEECSCCS
T ss_pred             HHHHHHHHHhhhccCCCCCCCHHHHHHHHHHHHhhccccCCCCeEEEEEccCCCC
Confidence            8899999988510 11123345554454433333221222244666665  4554

>3rag_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tructural genomics; 1.80A {Alicyclobacillus acidocaldarius subsp}

Probab=96.44  E-value=0.0061  Score=54.73  Aligned_cols=74  Identities=12%  Similarity=0.211  Sum_probs=58.5

Q ss_pred             CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccc----eeeecccCCCHH
Q 025034           22 SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTA----SWLRKEFSSDIE   97 (259)
Q Consensus        22 ~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsa----sWl~~~FTsd~~   97 (259)
                      .|=+|||+||.|.-|.             .+|..+|+|+..++.+--.-..+-|+|++++++..    .-+. +||++. 
T Consensus       133 ~~~~vvfLVDtSgSM~-------------~kl~~vk~al~~Ll~sl~~~~~~~~VavV~F~~~~~~~~~ll~-pfT~~~-  197 (242)
T 3rag_A          133 VALHLVVCLDTSASMR-------------DKIPTVREAVRDLALSLKVRSGPLAVSVIAFPGKGEEATRLVQ-PFSSEV-  197 (242)
T ss_dssp             SCEEEEEEEECSGGGT-------------TTHHHHHHHHHHHHHHHTTSSSCEEEEEEEESCSTTCSCEEEE-EEESSC-
T ss_pred             CCCCEEEEEECcccHH-------------HHHHHHHHHHHHHHHHHhccCCCcEEEEEEECCCCccceeecC-CCCChH-
Confidence            3568999999999664             24999999999999864333447799999999864    3444 999999 


Q ss_pred             HHHHHhhcccccc
Q 025034           98 STLTAVRGISATS  110 (259)
Q Consensus        98 ~i~~aL~~L~~~~  110 (259)
                      .+...|..|...+
T Consensus       198 ~~~~~l~~L~agG  210 (242)
T 3rag_A          198 NVAALEAELVARG  210 (242)
T ss_dssp             CHHHHHHHCCCCS
T ss_pred             HHHHHHhhCCCCC
Confidence            8888899987654

>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=96.44  E-value=0.043  Score=45.57  Aligned_cols=111  Identities=16%  Similarity=0.114  Sum_probs=72.1

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccC--CCHHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFS--SDIESTL  100 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FT--sd~~~i~  100 (259)
                      +=+|+|+||.|.-|.              .++.+|+++..|+..-..-.+..++++++.++.+.+.. +|+  .+.+++.
T Consensus         7 ~~div~vlD~SgSm~--------------~~~~~k~~~~~~~~~l~~~~~~~~v~lv~F~~~~~~~~-~l~~~~~~~~~~   71 (213)
T 1pt6_A            7 QLDIVIVLDGSNSIY--------------PWDSVTAFLNDLLKRMDIGPKQTQVGIVQYGENVTHEF-NLNKYSSTEEVL   71 (213)
T ss_dssp             CEEEEEEEECCTTCC--------------CHHHHHHHHHHHHTTSCBSTTSBEEEEEEESSSEEEEE-CTTTCSSHHHHH
T ss_pred             CccEEEEEECCCChh--------------hHHHHHHHHHHHHHhcCCCCCCeEEEEEEeCCCccEEE-eccccCCHHHHH
Confidence            568999999999654              17889999999996432224679999999999988887 774  3577888


Q ss_pred             HHhhccccccccCCCChhHHHHHHHHHhhhh--cCCCceEEEEEEe--ecCCC
Q 025034          101 TAVRGISATSACGQADLTHLFKLASHEAKKS--RAQNRILRVILIY--CRSSV  149 (259)
Q Consensus       101 ~aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~--~~~~~vvRVILiY--~RS~~  149 (259)
                      ++|..+...+. ..-++..-++.+....-..  ...+-.-|+|++.  |+++.
T Consensus        72 ~~i~~l~~~~G-~~T~~~~aL~~a~~~l~~~~~~~r~~~~~~iillTDG~~~~  123 (213)
T 1pt6_A           72 VAAKKIVQRGG-RQTMTALGTDTARKEAFTEARGARRGVKKVMVIVTDGESHD  123 (213)
T ss_dssp             HHHHTCCCCCC-SSCCHHHHHHHHHHTTTSGGGTCCTTCEEEEEEEESSCCSC
T ss_pred             HHHHhccCCCC-CcccHHHHHHHHHHHhcCcccCCCCCCCeEEEEEcCCCCCC
Confidence            88888764321 1235555555554432111  1223345555544  55554

>1mjn_A Integrin alpha-L; rossmann fold, immune system; 1.30A {Homo sapiens} SCOP: c.62.1.1 PDB: 3hi6_A 1mq8_B* 3eoa_I 3eob_I 1rd4_A* 1lfa_A 1zon_A 1zoo_A 1zop_A 1dgq_A 1xdd_A* 1xdg_A* 1xuo_A* 3e2m_A* 3bqn_B* 1cqp_A* 3bqm_B* 2ica_A* 2o7n_A* 3m6f_A* ...

Probab=96.37  E-value=0.031  Score=45.44  Aligned_cols=108  Identities=11%  Similarity=0.110  Sum_probs=66.5

Q ss_pred             ccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCC-ccEEEEEecccceeeecccCCCH--HHHH
Q 025034           24 EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPD-HRFAFVTLAKTASWLRKEFSSDI--ESTL  100 (259)
Q Consensus        24 EkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~-HeFAl~~L~dsasWl~~~FTsd~--~~i~  100 (259)
                      =+|+|+||.|.-|..            ..++.+|+++..++..   +++. .++|+++.++++.+.. +|+...  +++.
T Consensus         3 ~divfvlD~S~Sm~~------------~~~~~~k~~~~~~~~~---l~~~~~rv~vv~fs~~~~~~~-~l~~~~~~~~~~   66 (179)
T 1mjn_A            3 VDLVFLFDGSMSLQP------------DEFQKILDFMKDVMKK---CSNTSYQFAAVQFSTSYKTEF-DFSDYVKRKDPD   66 (179)
T ss_dssp             EEEEEEEECBTTCCH------------HHHHHHHHHHHHHHHH---TTTSSEEEEEEEESSSEEEEE-CHHHHHHHCCHH
T ss_pred             ccEEEEEeCCCCCCH------------HHHHHHHHHHHHHHHH---hCCCCeEEEEEEECCceeEEE-cCcccCCHHHHH
Confidence            489999999997762            2477889999999875   3555 5999999999999987 887521  1344


Q ss_pred             HHhhccccccccCCCChhHHHHHHHHHhhhh--cCCCceEEEEEEe--ecCCC
Q 025034          101 TAVRGISATSACGQADLTHLFKLASHEAKKS--RAQNRILRVILIY--CRSSV  149 (259)
Q Consensus       101 ~aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~--~~~~~vvRVILiY--~RS~~  149 (259)
                      .++..+....  ..-++..=++.+..+.-..  ...+-+-|+|++.  |+++.
T Consensus        67 ~~~~~i~~~~--g~T~~~~aL~~a~~~~~~~~~g~r~~~~~~iillTDG~~~~  117 (179)
T 1mjn_A           67 ALLKHVKHML--LLTNTFGAINYVATEVFREELGARPDATKVLIIITDGEATD  117 (179)
T ss_dssp             HHHTTCCCCC--BCCCHHHHHHHHHHHTSSGGGTCCTTSEEEEEEEESSCCSS
T ss_pred             HHHHhcccCC--CCChHHHHHHHHHHHhcccccCCCCCCCeEEEEEcCCCCCC
Confidence            4455444321  2335555555554332211  1222355665554  55553

>3fcs_B Integrin beta-3; beta propeller, rossmann fold, EGF domain, cell adhesion, DI mutation, glycoprotein, HOST-virus interaction, M phosphoprotein; HET: NAG MAN; 2.55A {Homo sapiens} PDB: 4g1e_B* 3ije_B* 4g1m_B* 1jv2_B* 1l5g_B* 1m1x_B* 1u8c_B*

Probab=95.76  E-value=0.16  Score=51.46  Aligned_cols=179  Identities=10%  Similarity=0.070  Sum_probs=111.2

Q ss_pred             CCCCCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccc-------------
Q 025034           19 MRISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTA-------------   85 (259)
Q Consensus        19 ~~~~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsa-------------   85 (259)
                      ...-|=||+|++|++.-|..             -|+.+|+.+..++..=..+.++.+|+|..+.|-.             
T Consensus       107 ~~~~pvDly~LmD~S~SM~d-------------di~~lk~l~~~l~~~l~~~t~~~r~Gfgsf~Dk~~~P~~~~~p~~~~  173 (690)
T 3fcs_B          107 VEDYPVDIYYLMDLSYSMKD-------------DLWSIQNLGTKLATQMRKLTSNLRIGFGAFVDKPVSPYMYISPPEAL  173 (690)
T ss_dssp             CBTCCEEEEEEEECSGGGHH-------------HHHHTTTTTHHHHHHHHHHCSCEEEEEEEECCCSSTTTSCCCSTTTT
T ss_pred             cCCCCccEEEEecCCcchHH-------------HHHHHHHHHHHHHHHHHhhCcCceEEeEEeeccccCCccccChhhhc
Confidence            33568899999999998773             2455566666666554457788999999998721             


Q ss_pred             -------------ee---eecccCCCHHHHHHHhhccccccccCCCChhHHHHHHHHHhhhh--cCC-CceEEEEEEeec
Q 025034           86 -------------SW---LRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKS--RAQ-NRILRVILIYCR  146 (259)
Q Consensus        86 -------------sW---l~~~FTsd~~~i~~aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~--~~~-~~vvRVILiY~R  146 (259)
                                   .|   ...+||+|+..+.+.|..+..++.-+..  +.-|+.|.|-+.-.  .-+ +-.-|+|++..-
T Consensus       174 ~~pc~~~~~~c~~~f~f~~~l~lt~~~~~f~~~v~~~~isgn~D~P--E~g~dAl~qa~~c~~~igWr~~a~rllv~~TD  251 (690)
T 3fcs_B          174 ENPCYDMKTTCLPMFGYKHVLTLTDQVTRFNEEVKKQSVSRNRDAP--EGGFDAIMQATVCDEKIGWRNDASHLLVFTTD  251 (690)
T ss_dssp             TCTTSSSSSCCCCCCSEEEEEEEESCHHHHHHHHTTCCCCCCSSSS--BCHHHHHHHHHHCHHHHTCCSSSEEEEEEEES
T ss_pred             cCCCcCCCCCCCCCccceeecccCCCHHHHHHHhhceeccCCCCCC--chHHHHHHHHhhcccccCCCCCceEEEEEECC
Confidence                         01   1127899999999999998876532211  23455555443222  122 236788888876


Q ss_pred             CCCCccccC-----C---CCCCceEEE--EEeecCCCCCCCChHHHHHHHHHhhhhcCCCceeEEEcCcchHHHHHHHHH
Q 025034          147 SSVRPQHQW-----P---VNQKLFTMD--VLYLHDKPGPDNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQMC  216 (259)
Q Consensus       147 S~~~P~~~~-----~---~~~p~FflD--VvYlHd~~~~dnc~q~Vyd~L~~~ld~~s~~~sYi~Evg~~~a~~L~~~ma  216 (259)
                      ..  +++-.     .   -++..-+||  -+|.|...-+--....++..|.+      ++-..||=|..+. ..+|+.+.
T Consensus       252 a~--~H~agDg~l~gi~~pnd~~chl~~~~~y~~s~~~DypSi~ql~~~l~~------~~i~~ifavt~~~-~~~y~~l~  322 (690)
T 3fcs_B          252 AK--THIALDGRLAGIVQPNDGQCHVGSDNHYSASTTMDYPSLGLMTEKLSQ------KNINLIFAVTENV-VNLYQNYS  322 (690)
T ss_dssp             SC--BCCTTGGGGGTCCSCCCCCCCBCTTCBBGGGGTSCCCCHHHHHHHHHH------TTCEEEEEEEGGG-HHHHHHHH
T ss_pred             Cc--cccCCCccccceecCCCcceeecCCCccccccccCCCCHHHHHHHHHH------cCCeEEEEEeCCc-hhhHHHHH
Confidence            65  33310     0   133345555  35776554333345666666643      3567788887766 47888888


Q ss_pred             hhccC
Q 025034          217 VLLSH  221 (259)
Q Consensus       217 ~LLaH  221 (259)
                      .++.-
T Consensus       323 ~~i~~  327 (690)
T 3fcs_B          323 ELIPG  327 (690)
T ss_dssp             HHSTT
T ss_pred             hhcCC
Confidence            77743

>2ww8_A RRGA, cell WALL surface anchor family protein; IGG, pilus, CNA_B, adhesin, integrin, cell adhesion; HET: EPE; 1.90A {Streptococcus pneumoniae}

Probab=95.21  E-value=0.16  Score=52.75  Aligned_cols=57  Identities=21%  Similarity=0.261  Sum_probs=43.5

Q ss_pred             CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccc
Q 025034           22 SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTA   85 (259)
Q Consensus        22 ~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsa   85 (259)
                      .|=+|||+||+|.-|.... .     ...+||+.+|+|+..|+. .+.-+++.++||++.+.++
T Consensus       223 ~~~DIVfVLD~SGSM~~~~-~-----~~~~Rl~~~K~a~~~~ld-~L~~~~~drVgLV~Fs~~a  279 (893)
T 2ww8_A          223 VPLDVVILLDNSNSMSNIR-N-----KNARRAERAGEATRSLID-KITSDSENRVALVTYASTI  279 (893)
T ss_dssp             CCEEEEEEEECCGGGCTTH-H-----HHCCHHHHHHHHHHHHHH-HHHTSTTCEEEEEEESSSB
T ss_pred             CCccEEEEEeCCCCCCCcC-c-----cchhHHHHHHHHHHHHHH-HhhcCCCcEEEEEEecCcc
Confidence            5668999999999887421 1     123589999999999994 3333578999999999754

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

Probab=95.20  E-value=0.041  Score=44.58  Aligned_cols=85  Identities=12%  Similarity=0.187  Sum_probs=56.3

Q ss_pred             ccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCC--CHHHHHH
Q 025034           24 EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSS--DIESTLT  101 (259)
Q Consensus        24 EkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTs--d~~~i~~  101 (259)
                      =+|+|+||.|.-|...            .++..|+++..++..=.  .+..++++++.++.+.... +|+.  +.+.+.+
T Consensus        10 ~div~vlD~SgSM~~~------------~~~~~~~~~~~~~~~l~--~~~~~v~lv~f~~~~~~~~-~~~~~~~~~~~~~   74 (198)
T 1n3y_A           10 QDIVFLIDGSGSISSR------------NFATMMNFVRAVISQFQ--RPSTQFSLMQFSNKFQTHF-TFEEFRRSSNPLS   74 (198)
T ss_dssp             EEEEEEEECCTTSCHH------------HHHHHHHHHHHHHTTSC--TTTEEEEEEEESSSEEEEE-CHHHHHHCSSGGG
T ss_pred             eeEEEEEECCCCCCHH------------HHHHHHHHHHHHHHhcC--CCCcEEEEEEeCCCccEEE-ecCccCCHHHHHH
Confidence            5899999999988741            24456666666665311  7889999999999988887 7754  2234566


Q ss_pred             HhhccccccccCCCChhHHHHHHH
Q 025034          102 AVRGISATSACGQADLTHLFKLAS  125 (259)
Q Consensus       102 aL~~L~~~~~~~~~DL~~LF~~i~  125 (259)
                      +|..+...  .+.-++..-++.+.
T Consensus        75 ~i~~l~~~--~g~T~~~~al~~a~   96 (198)
T 1n3y_A           75 LLASVHQL--QGFTYTATAIQNVV   96 (198)
T ss_dssp             GGTTCCCC--CSCBCHHHHHHHHH
T ss_pred             HHhcCcCC--CCCchHHHHHHHHH
Confidence            66666532  23445655555554

>3t3p_B Integrin beta-3; integrin, cell adhesion, blood clotting, fibrinogen, platele; HET: NAG BMA MAN; 2.20A {Homo sapiens} PDB: 3t3m_B* 3nig_B* 3nif_B* 3nid_B* 2vdr_B* 2vc2_B* 2vdk_B* 2vdm_B* 2vdn_B* 2vdl_B* 2vdp_B* 2vdq_B* 2vdo_B* 3fcu_B* 1txv_B* 1ty3_B* 1ty5_B* 1ty6_B* 1ty7_B* 1tye_B*

Probab=94.52  E-value=1.3  Score=43.26  Aligned_cols=179  Identities=10%  Similarity=0.077  Sum_probs=116.8

Q ss_pred             CCCCCCCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccc-----------
Q 025034           17 PPMRISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTA-----------   85 (259)
Q Consensus        17 ~p~~~~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsa-----------   85 (259)
                      ++....|=|+.|++|++.-|.-             -|+.+|+.....+..=..+.++.+++|..+.|-.           
T Consensus       105 ~~~~~ypvDLy~LmDlS~SM~d-------------dl~~lk~lg~~L~~~l~~~t~~~riGfgsFvDk~v~P~~~~~p~~  171 (472)
T 3t3p_B          105 RQVEDYPVDIYYLMDLSYSMKD-------------DLWSIQNLGTKLATQMRKLTSNLRIGFGAFVDKPVSPYMYISPPE  171 (472)
T ss_dssp             ECCSSCCEEEEEEEECSGGGHH-------------HHHHTTTHHHHHHHHHTTTCSCEEEEEEEECCCSSTTTSCCCSHH
T ss_pred             ecCCCCCceEEEEEccCcchHH-------------HHHHHHHHHHHHHHHHHhcCcCcEEEEEEeeccccCccccCChhh
Confidence            3344568899999999997772             3667777777777766678899999999998731           


Q ss_pred             ---------------ee----eecccCCCHHHHHHHhhccccccccCCCChhHHHHHHHHHhhhhc--CC-CceEEEEEE
Q 025034           86 ---------------SW----LRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSR--AQ-NRILRVILI  143 (259)
Q Consensus        86 ---------------sW----l~~~FTsd~~~i~~aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~~--~~-~~vvRVILi  143 (259)
                                     .|    .. .||+|+..+.+.+..+..++.-+.  -+.-|+.|.|-+.-.+  .+ +-.-|+|++
T Consensus       172 ~l~nPc~~~~~~c~p~f~fr~~l-~LT~d~~~F~~~V~~~~iSGn~D~--PEgg~dAl~qaavC~~~igWR~~a~rllV~  248 (472)
T 3t3p_B          172 ALENPCYDMKTTCLPMFGYKHVL-TLTDQVTRFNEEVKKQSVSRNRDA--PEGGFDAIMQATVCDEKIGWRNDASHLLVF  248 (472)
T ss_dssp             HHHCTTTTTTSCCCCCCSEEEEE-EEESCHHHHHHHHHHCCCCCCSSS--SBCHHHHHHHHHHCHHHHTCCSSSEEEEEE
T ss_pred             hhcCCCcccccCCCCCcceeEee-ccCCCHHHHHHHHhhccccCCCCC--CchHHHHHHHHhcchhhcCCCCCceEEEEE
Confidence                           11    23 789999999999999887653211  1234555554432221  22 235677776


Q ss_pred             eecCCCCcccc--C---C---CCCCceEEEE--EeecCCCCCCCChHHHHHHHHHhhhhcCCCceeEEEcCcchHHHHHH
Q 025034          144 YCRSSVRPQHQ--W---P---VNQKLFTMDV--LYLHDKPGPDNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFR  213 (259)
Q Consensus       144 Y~RS~~~P~~~--~---~---~~~p~FflDV--vYlHd~~~~dnc~q~Vyd~L~~~ld~~s~~~sYi~Evg~~~a~~L~~  213 (259)
                      .+=..  +++-  .   .   -++...+||.  +|.+...-+--....++..|.+      ++-.-||=|.... ..+|.
T Consensus       249 ~TDa~--~H~agDgkL~GIv~pnDg~CHL~~~~~Y~~s~~~DYPSv~ql~~~l~e------~nI~~IFAVt~~~-~~~Y~  319 (472)
T 3t3p_B          249 TTDAK--THIALDGRLAGIVQPNDGQCHVGSDNHYSASTTMDYPSLGLMTEKLSQ------KNINLIFAVTENV-VNLYQ  319 (472)
T ss_dssp             EESSC--BCCTTGGGGGTCCCCCCCCCCBCTTCBBTTTTTSCCCCHHHHHHHHHH------TTCEEEEEECGGG-HHHHH
T ss_pred             ECCCC--cCcCCCccccceecCCCCceEECCCCcccccccCCCCCHHHHHHHHHh------cCccEEEEEeccc-hhHHH
Confidence            66444  3431  1   1   1445677774  7877554443356666666643      3567899998777 58999


Q ss_pred             HHHhhcc
Q 025034          214 QMCVLLS  220 (259)
Q Consensus       214 ~ma~LLa  220 (259)
                      .++.|+.
T Consensus       320 ~L~~~ip  326 (472)
T 3t3p_B          320 NYSELIP  326 (472)
T ss_dssp             HHHHTST
T ss_pred             HHHHhCC
Confidence            9888873

>3k6s_B Integrin beta-2; cell receptor, adhesion molecule, cell adhesion, pyrrolidone carboxylic acid; HET: NAG MAN; 3.50A {Homo sapiens} PDB: 3k71_B* 3k72_B*

Probab=93.80  E-value=0.31  Score=49.34  Aligned_cols=181  Identities=10%  Similarity=0.108  Sum_probs=107.8

Q ss_pred             CCCCCCCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEeccc------------
Q 025034           17 PPMRISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKT------------   84 (259)
Q Consensus        17 ~p~~~~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~ds------------   84 (259)
                      ++....|=||+|++|++.-|...             |+.+|+.+..++..=..+.++.+|+|..+.|-            
T Consensus        98 ~~~~~ypvDly~LmD~S~SM~dd-------------i~~lk~l~~~l~~~l~~~t~~~r~GfgsFvDk~~~P~~~~~p~~  164 (687)
T 3k6s_B           98 RRAKGYPIDLYYLMDLSYSMLDD-------------LRNVKKLGGDLLRALNEITESGRIGFGSFVDKTVLPFVNTHPDK  164 (687)
T ss_dssp             CCCCCCCCEEEEEEECSSTTHHH-------------HHTTTTCCTTHHHHHHSSCCSCEEEEEEECCCSSTTSSCCSSTT
T ss_pred             eccCCCceeEEEEEcCCcchHHH-------------HHHHHHHHHHHHHHHHhhCcCcEEeeEEeeccccCCccccCchh
Confidence            34445688999999999988742             33444444444444345788999999999871            


Q ss_pred             -------------cee----eecccCCCHHHHHHHhhccccccccCCCChhHHHHHHHHHhh--hhcCCCceEEEEEEee
Q 025034           85 -------------ASW----LRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAK--KSRAQNRILRVILIYC  145 (259)
Q Consensus        85 -------------asW----l~~~FTsd~~~i~~aL~~L~~~~~~~~~DL~~LF~~i~~e~~--~~~~~~~vvRVILiY~  145 (259)
                                   ..|    .. .||+|+..+.+.|..+..++.-+..  +.-|+.|.|-+.  ....+.-..|+|++..
T Consensus       165 ~~~Pc~~~~~~c~~~f~f~~~l-~lt~~~~~F~~~v~~~~isgn~D~P--E~g~dAl~qa~vc~~~igWr~a~rllV~~T  241 (687)
T 3k6s_B          165 LRNPCPNKEKECQPPFAFRHVL-KLTNNSNQFQTEVGKQLISGNLDAP--EGGLDAMMQVAACPEEIGWRNVTRLLVFAT  241 (687)
T ss_dssp             TTCCCCSCCCCCCCCCSCEEEE-EEESCSHHHHHHHHTSCCCCCSSSS--CCHHHHHHHHTTCHHHHCCCSSCCEEEEEC
T ss_pred             ccCCCCCCCCCcCCcccceeec-ccCCCHHHHHHHHhhccccCCCCCC--chHHHHHHHHhhcccccCCccceEEEEEEC
Confidence                         011    22 7899999999999998876532211  235565655442  1122222778888776


Q ss_pred             cCCCCccccC-----CC---CCCceEEE-EEeecCCCCCCCChHHHHHHHHHhhhhcCCCceeEEEcCcchHHHHHHHHH
Q 025034          146 RSSVRPQHQW-----PV---NQKLFTMD-VLYLHDKPGPDNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQMC  216 (259)
Q Consensus       146 RS~~~P~~~~-----~~---~~p~FflD-VvYlHd~~~~dnc~q~Vyd~L~~~ld~~s~~~sYi~Evg~~~a~~L~~~ma  216 (259)
                      -..  +++-.     .+   ++..-+|| -+|.+...-+--....++..|.+      ++-..||=|..+. ..+|+.+.
T Consensus       242 Da~--~H~agDg~l~gi~~pndg~Chl~~~~y~~s~~~DyPS~~ql~~~l~~------~~I~~ifavt~~~-~~~y~~l~  312 (687)
T 3k6s_B          242 DDG--FHFAGDGKLGAILTPNDGRCHLEDNLYKRSNEFDYPSVGQLAHKLAE------NNIQPIFAVTSRM-VKTYEKLT  312 (687)
T ss_dssp             SSC--CCCTTGGGGGTCCCCCCSCCCCSSSBCSSGGGSCCCCGGGHHHHHHH------TTCBCCEEECGGG-HHHHHHHH
T ss_pred             CCc--cccCCCccccceecCCCCccccCCCccccccccCCCCHHHHHHHHHH------cCCeEEEEEeccc-hhhHHHHH
Confidence            554  23210     01   12222222 34555433322235556666643      3567788887666 47888888


Q ss_pred             hhccCC
Q 025034          217 VLLSHP  222 (259)
Q Consensus       217 ~LLaHP  222 (259)
                      .++.-=
T Consensus       313 ~~i~~s  318 (687)
T 3k6s_B          313 EIIPKS  318 (687)
T ss_dssp             HHSSSC
T ss_pred             hhcCCc
Confidence            887543

>3vi3_B Integrin beta-1; beta propeller fold, rossman fold, beta sandwich, fibronecti receptor, cell adhesion-immune system complex; HET: NAG BMA MAN; 2.90A {Homo sapiens} PDB: 3vi4_B*

Probab=92.21  E-value=8.9  Score=37.19  Aligned_cols=179  Identities=12%  Similarity=0.104  Sum_probs=114.2

Q ss_pred             CCCCCCCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEeccc------------
Q 025034           17 PPMRISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKT------------   84 (259)
Q Consensus        17 ~p~~~~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~ds------------   84 (259)
                      ++....|=|+.|++|++.-|.             .-|+-+|+.....+..=..+.++.+++|..+.|-            
T Consensus       116 ~~~~~yPVDLyyLmDlS~SM~-------------ddl~~lk~lg~~L~~~l~~~t~~~riGfGsFvDK~v~P~~~t~p~~  182 (454)
T 3vi3_B          116 KRAEDYPIDLYYLMDLSYSMK-------------DDLENVKSLGTDLMNEMRRITSDFRIGFGSFVEKTVMPYISTTPAK  182 (454)
T ss_dssp             ECCSCCCEEEEEEEECSGGGH-------------HHHHHHTTHHHHHHHHHTTTCSSEEEEEEEECCCSSTTTSCCSTTT
T ss_pred             ecCCCCceeEEEEecCCcchh-------------hHHHHHHHHHHHHHHHHHhcCCCeEEEEEEEeccccCCcccCChHH
Confidence            334446889999999999777             3367788888888877778889999999999872            


Q ss_pred             ------------cee----eecccCCCHHHHHHHhhccccccccCCCChhHHHHHHHHHhhhh--cCCCceEEEEEEeec
Q 025034           85 ------------ASW----LRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKS--RAQNRILRVILIYCR  146 (259)
Q Consensus        85 ------------asW----l~~~FTsd~~~i~~aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~--~~~~~vvRVILiY~R  146 (259)
                                  ..|    .. .||+|...+.+.+..+..++.-+.  -+.-|+.|.|-+.-.  .-+.-.-|+|++.+=
T Consensus       183 ~~nPC~~~~~c~~~f~fr~~l-~LT~d~~~F~~~V~~~~isGn~D~--PEgg~DAl~Qaavc~~~igWR~a~rllV~~TD  259 (454)
T 3vi3_B          183 LRNPCTSEQNCTTPFSYKNVL-SLTNKGEVFNELVGKQRISGNLDS--PEGGFDAIMQVAVCGSLIGWRNVTRLLVFSTD  259 (454)
T ss_dssp             TTCCSCSSSCCCCCCSEEEEE-EEESCHHHHHHHHTTCCCCCCSSS--SBCHHHHHHHHHHCHHHHTCCSSEEEEEEEES
T ss_pred             hcCCCcCccCCCCCcceeeee-ecCCCHHHHHHHHhhccccCCCcC--CchhHHHHHHHhccccccCCccceEEEEEECC
Confidence                        111    33 899999999999999887653211  123455555443222  222225666666554


Q ss_pred             CCCCccccC-----C---CCCCceEEE-EEeecCCCCCCCChHHHHHHHHHhhhhcCCCceeEEEcCcchHHHHHHHHHh
Q 025034          147 SSVRPQHQW-----P---VNQKLFTMD-VLYLHDKPGPDNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQMCV  217 (259)
Q Consensus       147 S~~~P~~~~-----~---~~~p~FflD-VvYlHd~~~~dnc~q~Vyd~L~~~ld~~s~~~sYi~Evg~~~a~~L~~~ma~  217 (259)
                      ..  +++-.     .   -++...+|| -+|.|...-+--....+...|.+      ++-.-||=|.... ..+|..+..
T Consensus       260 a~--fH~agDgkL~GIv~PNDg~CHL~~~~Yt~s~~~DYPSv~ql~~~l~e------~nI~~IFAVt~~~-~~~Y~~L~~  330 (454)
T 3vi3_B          260 AG--FHFAGDGKLGGIVLPNDGQCHLENNMYTMSHYYDYPSIAHLVQKLSE------NNIQTIFAVTEEF-QPVYKELKN  330 (454)
T ss_dssp             SC--BCCTTTTGGGTCCSCCCCCCCEETTEECCTTTSCCCCHHHHHHHHHH------TTEEEEEEEEGGG-HHHHHHHHH
T ss_pred             CC--cCcCCCccccceecCCCCccEeCCCcccccccCCCCCHHHHHHHHHh------cCCcEEEEEcCcc-chHHHHHHH
Confidence            43  34311     1   144556676 36766444332244555555532      4567799888776 588888888


Q ss_pred             hcc
Q 025034          218 LLS  220 (259)
Q Consensus       218 LLa  220 (259)
                      |+.
T Consensus       331 ~ip  333 (454)
T 3vi3_B          331 LIP  333 (454)
T ss_dssp             HST
T ss_pred             hCC
Confidence            874

>3v4v_B Integrin beta-7; cell adhesion, madcam-1, membrane; HET: NAG BMA MAN 0DU; 3.10A {Homo sapiens} PDB: 3v4p_B*

Probab=91.79  E-value=4.2  Score=39.93  Aligned_cols=181  Identities=12%  Similarity=0.095  Sum_probs=116.2

Q ss_pred             cCCCCCCCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEeccc-----c-----
Q 025034           16 LPPMRISNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKT-----A-----   85 (259)
Q Consensus        16 l~p~~~~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~ds-----a-----   85 (259)
                      .++....|=|+.|++|++.-|.             .-|+.+|+.....+..=..+.++.+++|..+.|-     .     
T Consensus       125 ~~~~~~yPVDLyyLmDlS~SM~-------------ddl~~lk~lg~~L~~~l~~~t~~~RiGfGsFvDK~v~P~~~~~p~  191 (503)
T 3v4v_B          125 FLRAEGYPVDLYYLMDLSYSMK-------------DDLERVRQLGHALLVRLQEVTHSVRIGFGSFVDKTVLPFVSTVPS  191 (503)
T ss_dssp             EECCSSCCEEEEEEEECSGGGH-------------HHHHHHHHSSHHHHHHHTTTCSCEEEEEEEECCCSSTTTSCCCHH
T ss_pred             EEccCCCceeEEEEEecCcchh-------------hHHHHHHHHHHHHHHHHHhhCcCcEEeeeeecccccCCcccCCHH
Confidence            3444456889999999999777             2367778777777776667899999999999872     1     


Q ss_pred             ---------------ee----eecccCCCHHHHHHHhhccccccccCCCChhHHHHHHHHHhhhh--cCCCceEEEEEEe
Q 025034           86 ---------------SW----LRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKS--RAQNRILRVILIY  144 (259)
Q Consensus        86 ---------------sW----l~~~FTsd~~~i~~aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~--~~~~~vvRVILiY  144 (259)
                                     .|    +. .||+|+....+.+..+..++.-+.  -+.-|+.|.|-+.-.  ..+.-.-|+|++-
T Consensus       192 ~l~~PC~~~~~~c~p~f~fr~~l-~LT~d~~~F~~~V~~~~iSGnlD~--PEggfDAlmQaavC~~~IgWR~a~rllV~~  268 (503)
T 3v4v_B          192 KLRHPCPTRLERCQSPFSFHHVL-SLTGDAQAFEREVGRQSVSGNLDS--PEGGFDAILQAALCQEQIGWRNVSRLLVFT  268 (503)
T ss_dssp             HHHCCSSCSSSCCCCCCSEEEEE-EEESCSHHHHHHHTTCCCCCCSSS--SBCHHHHHHHHHHCHHHHTCCSSEEEEEEE
T ss_pred             HhcCCCcCCCCCCCCCcceEEEE-EecCCHHHHHHHHhhcCccCCCCC--CchHHHHHHHHhhcccccCCCcceEEEEEE
Confidence                           11    23 789999999999998887653211  123455555443211  1221145766554


Q ss_pred             ecCCCCccccC-----C---CCCCceEEE--EEeecCCCCCCCChHHHHHHHHHhhhhcCCCceeEEEcCcchHHHHHHH
Q 025034          145 CRSSVRPQHQW-----P---VNQKLFTMD--VLYLHDKPGPDNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQ  214 (259)
Q Consensus       145 ~RS~~~P~~~~-----~---~~~p~FflD--VvYlHd~~~~dnc~q~Vyd~L~~~ld~~s~~~sYi~Evg~~~a~~L~~~  214 (259)
                      +=.  .+++-.     .   -++...+||  -+|.+...-+--....++..|.+      ++-.-||=|.... ..+|..
T Consensus       269 TDA--~fH~agDgkLaGIv~pNDg~CHL~~~~~Yt~s~~~DYPSv~ql~~kL~e------nnI~~IFAVt~~~-~~~Y~~  339 (503)
T 3v4v_B          269 SDD--TFHTAGDGKLGGIFMPSDGHCHLDSNGLYSRSTEFDYPSVGQVAQALSA------ANIQPIFAVTSAA-LPVYQE  339 (503)
T ss_dssp             ESS--CBCCTTGGGTTTCCSCCCSSCCBCTTSBBGGGGGSCCCCHHHHHHHHHH------HTEEEEEEECSSS-HHHHHH
T ss_pred             CCC--CcCcCCCccccceecCCCCCeEECCCCccccccccCCCCHHHHHHHHHh------cCCeEEEEEcccc-hhHHHH
Confidence            433  344311     1   144567777  37876554443346666666643      3567899998777 489999


Q ss_pred             HHhhccC
Q 025034          215 MCVLLSH  221 (259)
Q Consensus       215 ma~LLaH  221 (259)
                      +..|+.-
T Consensus       340 L~~~ip~  346 (503)
T 3v4v_B          340 LSKLIPK  346 (503)
T ss_dssp             HHTTSTT
T ss_pred             HHHhCCC
Confidence            9888753

>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=90.12  E-value=0.84  Score=48.25  Aligned_cols=70  Identities=11%  Similarity=0.244  Sum_probs=54.8

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCC-CccEEEEEecccceeeecccCC--CHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINP-DHRFAFVTLAKTASWLRKEFSS--DIEST   99 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p-~HeFAl~~L~dsasWl~~~FTs--d~~~i   99 (259)
                      +=+|+|+||.|.-|..            .+++.+|+++..|+..   +++ +.++|+++.++.+.... +|+.  |.+++
T Consensus       130 ~~DIvfvlD~SgSm~~------------~~f~~~k~fv~~lv~~---~~~~~~rVglV~Fs~~~~~~~-~lt~~~~~~~l  193 (1095)
T 3k6s_A          130 EQDIVFLIDGSGSISS------------RNFATMMNFVRAVISQ---FQRPSTQFSLMQFSNKFQTHF-TFEEFRRSSNP  193 (1095)
T ss_dssp             CEEEEEEEECCTTSCS------------HHHHHHHHHHHHHHHS---SCSSSEEEEEEEESSSEEEEE-CSHHHHSCSCG
T ss_pred             CccEEEEEcCCCCCCh------------hHHHHHHHHHHHHHHh---ccccccEEEEEEECCeEEEEe-cCcccCCHHHH
Confidence            4589999999997652            3578889999999873   334 48999999999999988 8885  66667


Q ss_pred             HHHhhcccc
Q 025034          100 LTAVRGISA  108 (259)
Q Consensus       100 ~~aL~~L~~  108 (259)
                      ..+|+.|..
T Consensus       194 ~~ai~~i~~  202 (1095)
T 3k6s_A          194 LSLLASVHQ  202 (1095)
T ss_dssp             GGGTTTCCC
T ss_pred             HHHHhhhhc
Confidence            777777753

---

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	259
d1jeyb2	236	c.62.1.4 (B:6-241) Ku80 subunit N-terminal domain	8e-06
d1jeya2	220	c.62.1.3 (A:34-253) Ku70 subunit N-terminal domain	7e-04

>d1jeyb2 c.62.1.4 (B:6-241) Ku80 subunit N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 236

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Ku80 subunit N-terminal domain
domain: Ku80 subunit N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.4 bits (101), Expect = 8e-06
 Identities = 21/169 (12%), Positives = 50/169 (29%), Gaps = 20/169 (11%)

Query: 24  EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAK 83
             ++ C+DV   +   M ++    +  +  +  K+ I +FV  ++        A V    
Sbjct: 3   AAVVLCMDV-GFT---MSNSIPGIE--SPFEQAKKVITMFVQRQVFAENKDEIALVL--- 53

Query: 84  TASWLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILI 143
                   F +D      +           +  +   F L      K +  ++     L 
Sbjct: 54  --------FGTDGTDNPLSGGDQYQNITVHRHLMLPDFDLLEDIESKIQPGSQQ-ADFLD 104

Query: 144 YCRSSVRPQHQWPVNQKLFTMDVLYLHDKPGPDNCPQKVYDALVDALEH 192
               S+       + +K     +    D        +   D ++ +L+ 
Sbjct: 105 ALIVSMDVIQHETIGKKFEKRHIEIFTD--LSSRFSKSQLDIIIHSLKK 151

>d1jeya2 c.62.1.3 (A:34-253) Ku70 subunit N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 220

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Ku70 subunit N-terminal domain
domain: Ku70 subunit N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.6 bits (86), Expect = 7e-04
 Identities = 29/219 (13%), Positives = 56/219 (25%), Gaps = 38/219 (17%)

Query: 24  EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAK 83
           + +IF VD        M  +    +  T  D   Q I     SK+  +     A V    
Sbjct: 3   DSLIFLVDASKA----MFESQSEDEL-TPFDMSIQCIQSVYISKIISSDRDLLAVVFYGT 57

Query: 84  TAS-------------------WLRKEFSSDIESTLTAVRGISATSACGQADLTHLFKLA 124
                                   R       +      R            L+ +  + 
Sbjct: 58  EKDKNSVNFKNIYVLQELDNPGAKRILELDQFKGQQGQKRFQDMMGHGSDYSLSEVLWVC 117

Query: 125 SHEAKKSRAQNRILRVILIYCRSSVRP----------QHQWPVNQKLFTMDVLYLHDKPG 174
           ++     + +    R++L     +                  +      +D+++L    G
Sbjct: 118 ANLFSDVQFKMSHKRIMLFTNEDNPHGNDSAKASRARTKAGDLRDTGIFLDLMHLKKPGG 177

Query: 175 PDNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFR 213
            D      Y  ++   E   E+    FE    L  +L +
Sbjct: 178 FD--ISLFYRDIISIAE--DEDLRVHFEESSKLEDLLRK 212

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	259
d1jeyb2	236	Ku80 subunit N-terminal domain {Human (Homo sapien	98.36
d1jeya2	220	Ku70 subunit N-terminal domain {Human (Homo sapien	98.06
d1shux_	181	Capillary morphogenesis protein 2 domain {Human (H	97.58
d1tyeb2	248	Integrin beta A domain {Human (Homo sapiens) [TaxI	97.26
d1ijba_	202	von Willebrand factor A1 domain, vWA1 {Human (Homo	96.93
d1atza_	184	von Willebrand factor A3 domain, vWA3 {Human (Homo	96.93
d1n3ya_	189	Integrin alpha-x beta2 {Human (Homo sapiens) [TaxI	96.83
d1v7pc_	193	Integrin alpha2-beta1 {Human (Homo sapiens) [TaxId	96.74
d1pt6a_	192	Integrin alpha1-beta1 {Human (Homo sapiens) [TaxId	96.6
d1q0pa_	209	Complement factor B domain {Human (Homo sapiens) [	96.52
d1mjna_	179	Integrin CD11a/CD18 (Leukocyte function associated	95.94
d1mf7a_	194	Integrin alpha M (CR3, CD11b/CD18, Mac-1 alpha sub	95.11
d1yvra2	174	60-kda SS-A/Ro ribonucleoprotein, RoRNP {African c	93.72
d2qtva3	271	Sec23 {Baker's yeast (Saccharomyces cerevisiae) [T	86.74

>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=98.36  E-value=2.9e-06  Score=69.26  Aligned_cols=56  Identities=16%  Similarity=0.317  Sum_probs=48.3

Q ss_pred             ccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccc
Q 025034           24 EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTA   85 (259)
Q Consensus        24 EkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsa   85 (259)
                      |-||||||+|.-|....      ...-+||+..|+++..||..|..-+|..++||++++..+
T Consensus         3 ~aiv~~lD~S~SM~~~~------~~~~srl~~ak~~~~~~v~~~~~~~~~d~vglV~f~~~~   58 (236)
T d1jeyb2           3 AAVVLCMDVGFTMSNSI------PGIESPFEQAKKVITMFVQRQVFAENKDEIALVLFGTDG   58 (236)
T ss_dssp             EEEEEEEECCGGGGCCB------TTBCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSS
T ss_pred             ceEEEEEECChhhccCC------CCCCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEcCCC
Confidence            67999999999887422      223589999999999999999999999999999999764

>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=98.06  E-value=2.4e-05  Score=63.25  Aligned_cols=181  Identities=14%  Similarity=0.198  Sum_probs=104.0

Q ss_pred             ccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccce---------eeecccCC
Q 025034           24 EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTAS---------WLRKEFSS   94 (259)
Q Consensus        24 EkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsas---------Wl~~~FTs   94 (259)
                      |-||||||+|.-|..+     ..+...++|...++|+..++..+....|..++||++.+.++.         ++..+++.
T Consensus         3 eaivf~ID~S~SM~~~-----d~~~~~s~~~~~~~~~~~~~~~~i~~~~~d~vglv~f~t~~~~~~~~~~~~~~~~~l~~   77 (220)
T d1jeya2           3 DSLIFLVDASKAMFES-----QSEDELTPFDMSIQCIQSVYISKIISSDRDLLAVVFYGTEKDKNSVNFKNIYVLQELDN   77 (220)
T ss_dssp             EEEEEEEECSGGGGCC-----CSSSSCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCCTTEEEEEEEEC
T ss_pred             eEEEEEEECCcccCcc-----ccCCCCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEEeccccccCCCcccchhhhhcccC
Confidence            5699999999988742     234677899999999999999999999999999999987643         22225555


Q ss_pred             CHHHHHHHhhccccc----------cccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEe--ecCCCCccc---c--C--
Q 025034           95 DIESTLTAVRGISAT----------SACGQADLTHLFKLASHEAKKSRAQNRILRVILIY--CRSSVRPQH---Q--W--  155 (259)
Q Consensus        95 d~~~i~~aL~~L~~~----------~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY--~RS~~~P~~---~--~--  155 (259)
                      .....+..++++...          ...+..+|..-+..+.+.......+ ..-|+|++.  |.+++..--   .  +  
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~l~~al~~a~~~~~~~~~~-~~~k~IiliTDg~~~~~~~~~~~~~~~~~  156 (220)
T d1jeya2          78 PGAKRILELDQFKGQQGQKRFQDMMGHGSDYSLSEVLWVCANLFSDVQFK-MSHKRIMLFTNEDNPHGNDSAKASRARTK  156 (220)
T ss_dssp             CCHHHHHHHHTTSHHHHHHHHHHHHCCSCCCCHHHHHHHHHHHHHTCSSC-EEEEEEEEEESCSCTTTTCHHHHHHHHHH
T ss_pred             chHHHHHhhhhhhhhhhhhhhhhcccCCCCccHHHHHHHHHHHHHhcccc-cCCcEEEEEecCCCCCCCcchhhHHHHHH
Confidence            555555555555432          1224557777776666554433222 334666665  554433221   0  0  


Q ss_pred             --CCCCCceEEEEEeecCCCCCCCChHHHHHHHHHhhhhcCCCceeEEEcCcchHHHHHHHH
Q 025034          156 --PVNQKLFTMDVLYLHDKPGPDNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQM  215 (259)
Q Consensus       156 --~~~~p~FflDVvYlHd~~~~dnc~q~Vyd~L~~~ld~~s~~~sYi~Evg~~~a~~L~~~m  215 (259)
                        .++.....+.++-+-.+...+..  ..|..+. .+.. .+..+|.+|....+ ..|.+.+
T Consensus       157 a~~~~~~gv~i~~i~ig~~~~~d~~--~f~~~~l-~~~~-~~~~~~~~~~~~~l-~~l~~~i  213 (220)
T d1jeya2         157 AGDLRDTGIFLDLMHLKKPGGFDIS--LFYRDII-SIAE-DEDLRVHFEESSKL-EDLLRKV  213 (220)
T ss_dssp             HHHHHHHTEEEEEEEBCCTTCCCTT--TTGGGTC-C---------CCCCCBCSH-HHHHHHH
T ss_pred             HHHHhhhcceEEEEEeCCCCCcchh--hhHHHHH-hhcc-cccCccccCchhhH-HHHHHHH
Confidence              02334566667666544333322  2233221 1111 12446677766555 5666655

>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=97.58  E-value=0.00042  Score=54.65  Aligned_cols=105  Identities=14%  Similarity=0.262  Sum_probs=71.6

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCCCHHHHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTA  102 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTsd~~~i~~a  102 (259)
                      |=+|+|+||.|.-|+..+             .-+|+.+..++..-  .+++-++++++.++++.++. ++++|...+...
T Consensus         5 ~~Div~llD~S~Sm~~~~-------------~~~k~~~~~~~~~~--~~~~~rvglv~fs~~~~~~~-~l~~~~~~~~~~   68 (181)
T d1shux_           5 AFDLYFVLDKSGSVANNW-------------IEIYNFVQQLAERF--VSPEMRLSFIVFSSQATIIL-PLTGDRGKISKG   68 (181)
T ss_dssp             CEEEEEEEECSGGGGGGH-------------HHHHHHHHHHHHHC--CCTTEEEEEEEESSSEEEEE-EEECCHHHHHHH
T ss_pred             ceEEEEEEeCCCCcccCH-------------HHHHHHHHHHHHHh--cCCCCEEEEEEeecceEEEE-EecCCHHHHHHH
Confidence            568999999999876433             22445555555432  45678999999999999987 999999988888


Q ss_pred             hhccccccccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEe
Q 025034          103 VRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIY  144 (259)
Q Consensus       103 L~~L~~~~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY  144 (259)
                      |..+......+.-++..-++.+.+....... +..-|+|++.
T Consensus        69 l~~l~~~~~~g~t~~~~al~~~~~~~~~~~~-~~~~~~ivli  109 (181)
T d1shux_          69 LEDLKRVSPVGETYIHEGLKLANEQIQKAGG-LKTSSIIIAL  109 (181)
T ss_dssp             HHHHHTCCCCSCCCHHHHHHHHHHHHHHHTG-GGSCEEEEEE
T ss_pred             hhhcccccCCCcchHHHHHHHHHHHhhhccc-CCCceEEEEe
Confidence            8888754444445777777766655433221 2334555555

>d1tyeb2 c.62.1.1 (B:107-354) Integrin beta A domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Integrin beta A domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.26  E-value=0.011  Score=49.80  Aligned_cols=174  Identities=11%  Similarity=0.143  Sum_probs=106.2

Q ss_pred             CCccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccc----------------
Q 025034           22 SNEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTA----------------   85 (259)
Q Consensus        22 ~pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsa----------------   85 (259)
                      -|=||+|++|++.-|.             .-++.+|+++..++..=..++++-+|||+...|..                
T Consensus         4 yPvDl~Fv~D~TgSM~-------------~~i~~vk~~i~~i~~~l~~~~~~~r~g~~~f~D~~~~p~~~~~~~~~~~~p   70 (248)
T d1tyeb2           4 YPVDIYYLMDLSYSMK-------------DDLWSIQNLGTKLATQMRKLTSNLRIGFGAFVDKPVSPYMYISPPEALENP   70 (248)
T ss_dssp             CCEEEEEEEECSGGGG-------------GGHHHHHHHHHHHHHHHHHHCSCEEEEEEEECCCSSTTTSCCCSGGGGTCG
T ss_pred             CCeeEEEEEECCcCHH-------------HHHHHHHHHHHHHHHHHHhhCcCceEEEEEEEecccCccccccchhhccCc
Confidence            3679999999999877             33788999999988765566788999999998731                


Q ss_pred             --------------eeeecccCCCHHHHHHHhhccccccc--cCCCChhHHHHHHHHHhhhhcCCCceEEEEEEeecCCC
Q 025034           86 --------------SWLRKEFSSDIESTLTAVRGISATSA--CGQADLTHLFKLASHEAKKSRAQNRILRVILIYCRSSV  149 (259)
Q Consensus        86 --------------sWl~~~FTsd~~~i~~aL~~L~~~~~--~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY~RS~~  149 (259)
                                    .... +||+|+..+.+.|..+..++.  ....-++.|-..+...-+.. -.+..-|+|++.+=.. 
T Consensus        71 ~~~~~~~~~~~f~~~~~~-~~t~d~~~f~~~l~~~~~~GggD~pE~~~~Al~~a~~~~~~i~-Wr~~a~r~viliTDA~-  147 (248)
T d1tyeb2          71 CYDMKTTCLPMFGYKHVL-TLTDQVTRFNEEVKKQSVSRNRDAPEGGFDAIMQATVCDEKIG-WRNDASHLLVFTTDAK-  147 (248)
T ss_dssp             GGGGTSCCCCCCSEEEEE-EEESCHHHHHHHHTTCCCCCCSSSSBCHHHHHHHHHHCHHHHT-CCTTSEEEEEEEESSC-
T ss_pred             cccccccccccccceecC-CCCCCHHHHHHHHhheecccCCCCcchHHHHHHHHHHHhhhCC-CCCCccEEEEEECCCC-
Confidence                          1233 789999999999999997652  24444555544332111222 1245779999887655 


Q ss_pred             CccccC-----CC---CCCceEE--EEEeecCCCCCCCChHHHHHHHHHhhhhcCCCceeEEEcCcchHHHHHHHHHhhc
Q 025034          150 RPQHQW-----PV---NQKLFTM--DVLYLHDKPGPDNCPQKVYDALVDALEHVSENEGYIFESGQGLARILFRQMCVLL  219 (259)
Q Consensus       150 ~P~~~~-----~~---~~p~Ffl--DVvYlHd~~~~dnc~q~Vyd~L~~~ld~~s~~~sYi~Evg~~~a~~L~~~ma~LL  219 (259)
                       |+...     .+   ++....+  |-.|.+....+--.+..+.+.|    ..  ++-..||=|..+. ..+|+.++++.
T Consensus       148 -~H~~~d~~l~g~~~~~d~~~~~~~~~~~~~~~~~dyps~~ql~~~l----~~--~~i~~ifavt~~~-~~~Y~~l~~~~  219 (248)
T d1tyeb2         148 -THIALDGRLAGIVQPNDGQCHVGSDNHYSASTTMDYPSLGLMTEKL----SQ--KNINLIFAVTENV-VNLYQNYSELI  219 (248)
T ss_dssp             -BCCTTGGGGGTCCSCCCCCCCBCTTSBBGGGGTSCCCCHHHHHHHH----HH--TTEEEEEEECGGG-HHHHHHHHHTS
T ss_pred             -cccccccccccccccCCCccccCCCCcccccccccCCCHHHHHHHH----HH--hCcEEEEEECchh-hHHHHHHHHhc
Confidence             33211     00   1111111  1123222111111233344444    32  3556677777666 68999999886

>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=96.93  E-value=0.0077  Score=48.36  Aligned_cols=107  Identities=11%  Similarity=0.129  Sum_probs=72.4

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCC-CccEEEEEecccceeeecccC--CCHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINP-DHRFAFVTLAKTASWLRKEFS--SDIEST   99 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p-~HeFAl~~L~dsasWl~~~FT--sd~~~i   99 (259)
                      |=+|+|+||.|.-|+.            ..++.+|+.+..++. ++.+.+ ..++|+++.++.+.-.. +|+  .+.+++
T Consensus        13 ~~Dl~fvlD~S~S~~~------------~~f~~~k~fv~~~i~-~l~~~~~~~rvavv~y~~~~~~~~-~l~~~~~~~~l   78 (202)
T d1ijba_          13 LLDLVFLLDGSSRLSE------------AEFEVLKAFVVDMME-RLRVSQKWVRVAVVEYHDGSHAYI-GLKDRKRPSEL   78 (202)
T ss_dssp             CEEEEEEEECBTTSCH------------HHHHHHHHHHHHHHH-TBCBSTTSEEEEEEEESSSEEEEE-CTTCCCCHHHH
T ss_pred             CeeEEEEEeCCCCCCH------------HHHHHHHHHHHHHHH-HhccCCCCcEEEEEEEecceeeec-CCcccchHHHH
Confidence            4699999999987652            125677888887776 334444 48999999998765444 554  678889


Q ss_pred             HHHhhccccccccCCCChhHHHHHHHHHhhhhcCCCceEEEEEEe
Q 025034          100 LTAVRGISATSACGQADLTHLFKLASHEAKKSRAQNRILRVILIY  144 (259)
Q Consensus       100 ~~aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~~~~~~vvRVILiY  144 (259)
                      .+.++.+...+. ..-+++..++.+..++-.....+..-|+++|.
T Consensus        79 ~~~i~~l~~~~g-~~~~~~~al~~~~~~~~~~~~r~~~~k~vivi  122 (202)
T d1ijba_          79 RRIASQVKYAGS-QVASTSEVLKYTLFQIFSKIDRPEASRIALLL  122 (202)
T ss_dssp             HHHHHTCCCCCB-SCCCHHHHHHHHHHHTSSSCSCTTSEEEEEEE
T ss_pred             HHHHHhhhhhhh-ccccHHHHHHHHHHHhhhhccCCCCcceEEEe
Confidence            999999885432 33467777776655543333334566666665

>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=96.93  E-value=0.008  Score=47.68  Aligned_cols=91  Identities=15%  Similarity=0.225  Sum_probs=68.7

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCC-ccEEEEEecccceeeecccC--CCHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPD-HRFAFVTLAKTASWLRKEFS--SDIEST   99 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~-HeFAl~~L~dsasWl~~~FT--sd~~~i   99 (259)
                      |=+|+|.||.|.-|..            ..++.+|.++..++. ++.+.+. .++|+++.++++.... +|+  +|.+++
T Consensus         2 PlDivfliD~S~s~~~------------~~f~~~k~~v~~~i~-~~~i~~~~~rv~vv~f~~~~~~~~-~l~~~~~~~~l   67 (184)
T d1atza_           2 PLDVILLLDGSSSFPA------------SYFDEMKSFAKAFIS-KANIGPRLTQVSVLQYGSITTIDV-PWNVVPEKAHL   67 (184)
T ss_dssp             CEEEEEEEECSSSSCH------------HHHHHHHHHHHHHHH-HSCBSTTSEEEEEEEESSSEEEEE-CTTCCCCHHHH
T ss_pred             ceEEEEEEeCCCCCCH------------HHHHHHHHHHHHHHH-hcCCCCCCcEEEEEEEeccceeec-cccccccHHHH
Confidence            4589999999997763            337888999988885 5666655 6899999998877665 664  689999


Q ss_pred             HHHhhccccccccCCCChhHHHHHHHHHhh
Q 025034          100 LTAVRGISATSACGQADLTHLFKLASHEAK  129 (259)
Q Consensus       100 ~~aL~~L~~~~~~~~~DL~~LF~~i~~e~~  129 (259)
                      .++|+.|...+  +.-++..-++.+....-
T Consensus        68 ~~~i~~l~~~g--g~t~~~~al~~~~~~~~   95 (184)
T d1atza_          68 LSLVDVMQREG--GPSQIGDALGFAVRYLT   95 (184)
T ss_dssp             HHHHHTCCCCC--CCCCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhcc--cccchhhhhhHHHHHhh
Confidence            99999997543  33577777777766553

>d1n3ya_ c.62.1.1 (A:) Integrin alpha-x beta2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Integrin alpha-x beta2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.83  E-value=0.0014  Score=51.99  Aligned_cols=103  Identities=11%  Similarity=0.202  Sum_probs=67.8

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCC-ccEEEEEecccceeeecccCC--CHHHHHH
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPD-HRFAFVTLAKTASWLRKEFSS--DIESTLT  101 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~-HeFAl~~L~dsasWl~~~FTs--d~~~i~~  101 (259)
                      +|+|+||.|.-|..            ..++.+|+++..|++   .+++. -++|+++.++++.+.. +|+.  +..++.+
T Consensus         4 DivfvlD~S~Sm~~------------~~~~~~k~~~~~~i~---~l~~~~~rv~vv~fs~~~~~~~-~l~~~~~~~~~~~   67 (189)
T d1n3ya_           4 DIVFLIDGSGSISS------------RNFATMMNFVRAVIS---QFQRPSTQFSLMQFSNKFQTHF-TFEEFRRSSNPLS   67 (189)
T ss_dssp             EEEEEEECCTTSCH------------HHHHHHHHHHHHHHT---TSCTTTEEEEEEEESSSEEEEE-CHHHHHHCSSGGG
T ss_pred             cEEEEEeCCCCCCh------------HHHHHHHHHHHHHHH---HhCCCCCEEEEEEeeccceeec-cccccccHHHHHH
Confidence            79999999997652            347788999999997   45554 4899999999988887 7763  3345556


Q ss_pred             HhhccccccccCCCChhHHHHHHHHHhhhh--cCCCceEEEEEEee
Q 025034          102 AVRGISATSACGQADLTHLFKLASHEAKKS--RAQNRILRVILIYC  145 (259)
Q Consensus       102 aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~--~~~~~vvRVILiY~  145 (259)
                      +|..+...+  +.-++..=.+.+.++.-..  ...+-+-|+|++..
T Consensus        68 ~i~~~~~~~--g~t~~~~al~~a~~~~f~~~~~~r~~~~kvivllT  111 (189)
T d1n3ya_          68 LLASVHQLQ--GFTYTATAIQNVVHRLFHASYGARRDAAKILIVIT  111 (189)
T ss_dssp             GGTTCCCCC--SCBCHHHHHHHHHTTTTSGGGTCCTTSEEEEEEEE
T ss_pred             HHHhhhhhh--hhchHHHHHHHHHHHHhhhhcCCCCCCceEEEEEe
Confidence            666655332  2235555444444433222  22345678888885

>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=96.74  E-value=0.016  Score=45.73  Aligned_cols=107  Identities=17%  Similarity=0.222  Sum_probs=72.5

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCC-ccEEEEEecccceeeecccC--CCHHHHHH
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPD-HRFAFVTLAKTASWLRKEFS--SDIESTLT  101 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~-HeFAl~~L~dsasWl~~~FT--sd~~~i~~  101 (259)
                      ||+|+||.|.-|.              .++.+|+.++.|++ +..++++ .++|+++.++.+.... +|+  .+.+++..
T Consensus         3 DivfvlD~S~Sv~--------------~f~~~k~f~~~ii~-~~~i~~~~~rv~vv~fs~~~~~~~-~l~~~~~~~~~~~   66 (193)
T d1v7pc_           3 DVVVVCDESNSIY--------------PWDAVKNFLEKFVQ-GLDIGPTKTQVGLIQYANNPRVVF-NLNTYKTKEEMIV   66 (193)
T ss_dssp             EEEEEEECCTTCC--------------CHHHHHHHHHHHHH-TSCBSTTSEEEEEEEESSSEEEEE-CTTTCSSHHHHHH
T ss_pred             EEEEEEECCCCCc--------------cHHHHHHHHHHHHH-HcccCCCccEEEEEEeecceeeee-cccchhhHHHHHH
Confidence            7999999986432              37888999999988 4566666 5899999999988876 787  47889999


Q ss_pred             HhhccccccccCCCChhHHHHHHHHHhhhhc--CCCceEEEEEEe--ecCC
Q 025034          102 AVRGISATSACGQADLTHLFKLASHEAKKSR--AQNRILRVILIY--CRSS  148 (259)
Q Consensus       102 aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~~--~~~~vvRVILiY--~RS~  148 (259)
                      +++.+.... .+.-++..-++.+..+.-...  ..+-+-|++++.  |+|+
T Consensus        67 ~i~~~~~~~-g~~t~~~~AL~~a~~~~f~~~~~~R~~~~kvvVllTDG~s~  116 (193)
T d1v7pc_          67 ATSQTSQYG-GDLTNTFGAIQYARKYAYSAASGGRRSATKVMVVVTDGESH  116 (193)
T ss_dssp             HHHHCCCCC-CSCCCHHHHHHHHHHHTTSGGGTCCTTSEEEEEEEESSCCS
T ss_pred             HHHhhhhhc-cCccchHHHHHHHHHhccccccCCCCCCceEEEEEecCCcC
Confidence            999886432 123456666666666543222  222344455443  4544

>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=96.60  E-value=0.019  Score=45.13  Aligned_cols=104  Identities=17%  Similarity=0.229  Sum_probs=67.2

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCC-ccEEEEEecccceeeecccCC--CHHHHHH
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPD-HRFAFVTLAKTASWLRKEFSS--DIESTLT  101 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~-HeFAl~~L~dsasWl~~~FTs--d~~~i~~  101 (259)
                      ||+|+||.|.-|.              .++.+|+.+..+++ ++.+.++ .++|++..++++.... +|+.  +.+++..
T Consensus         3 DivfvlD~S~S~~--------------~~~~~k~f~~~~i~-~~~i~~~~~rv~vv~fs~~~~~~~-~l~~~~~~~~~~~   66 (192)
T d1pt6a_           3 DIVIVLDGSNSIY--------------PWDSVTAFLNDLLK-RMDIGPKQTQVGIVQYGENVTHEF-NLNKYSSTEEVLV   66 (192)
T ss_dssp             EEEEEEECCTTCC--------------CHHHHHHHHHHHHT-TSCBSTTSBEEEEEEESSSEEEEE-CTTTCSSHHHHHH
T ss_pred             EEEEEEECCCCCC--------------CHHHHHHHHHHHHH-HhccCCCCcEEEEEEEeccEEEEE-eCCcchhhHHHHH
Confidence            7999999886432              26778888888776 4566665 5999999999877766 7764  7889999


Q ss_pred             HhhccccccccCCCChhHHHHHHHHHhhhhc--CCCceEEEEEEee
Q 025034          102 AVRGISATSACGQADLTHLFKLASHEAKKSR--AQNRILRVILIYC  145 (259)
Q Consensus       102 aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~~--~~~~vvRVILiY~  145 (259)
                      +++.+...+. ..-+...-.+.+..+.....  ..+-+-++|++..
T Consensus        67 ~i~~~~~~~g-~~~~~~~al~~~~~~~~~~~~g~R~~~~kviillT  111 (192)
T d1pt6a_          67 AAKKIVQRGG-RQTMTALGTDTARKEAFTEARGARRGVKKVMVIVT  111 (192)
T ss_dssp             HHHTCCCCCC-SSCCHHHHHHHHHHTTTSGGGTCCTTCEEEEEEEE
T ss_pred             HHhhhhhhhh-hccchHHHHHHHHHhhhccccCCCCCcceEEEEEe
Confidence            9998875321 12233343444443322221  2234556655553

>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=96.52  E-value=0.026  Score=44.25  Aligned_cols=109  Identities=14%  Similarity=0.143  Sum_probs=70.4

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeee---cccCCCHHHHHH
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLR---KEFSSDIESTLT  101 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~---~~FTsd~~~i~~  101 (259)
                      +|+|+||.|.-|..            ++++.+|+++..++..=.......+||+++.++++.-..   ..++.+...+..
T Consensus         3 DivfvlD~SgSm~~------------~~~~~~k~~~~~li~~l~~~~~~~rv~lv~f~~~~~~~~~l~~~~~~~~~~l~~   70 (209)
T d1q0pa_           3 NIYLVLDGSDSIGA------------SNFTGAKKSLVNLIEKVASYGVKPRYGLVTYATYPKIWVKVSEADSSNADWVTK   70 (209)
T ss_dssp             EEEEEEECSTTTCH------------HHHHHHHHHHHHHHHHHHTTTCCCEEEEEEESSSEEEEECTTSGGGGCHHHHHH
T ss_pred             CEEEEEeCCCCCCh------------HHHHHHHHHHHHHHHhcccCCCCcEEEEEEecCceeEEecCccchhhHHHHHHH
Confidence            79999999997752            357889999999885322334568999999998765333   133456778888


Q ss_pred             Hhhcccccc--ccCCCChhHHHHHHHHHhhhh-----cCCCceEEEEEEee
Q 025034          102 AVRGISATS--ACGQADLTHLFKLASHEAKKS-----RAQNRILRVILIYC  145 (259)
Q Consensus       102 aL~~L~~~~--~~~~~DL~~LF~~i~~e~~~~-----~~~~~vvRVILiY~  145 (259)
                      .|+.+....  ..+.-++..-++.+.......     ...+.+-|+|++..
T Consensus        71 ~i~~i~~~~~~~~g~t~~~~al~~a~~~~~~~~~~~~~~~~~~~kvvvl~T  121 (209)
T d1q0pa_          71 QLNEINYEDHKLKSGTNTKKALQAVYSMMSWPDDVPPEGWNRTRHVIILMT  121 (209)
T ss_dssp             HHHTCCTTSCSCTTCCCHHHHHHHHHHHHCCTTSSCCTTGGGCEEEEEEEE
T ss_pred             HHHHhhhccccCCCCchHHHHHHHHHHHHHhhhccCccccCCCceEEEEEc
Confidence            888876332  223345566555555443221     22345677777773

>d1mjna_ c.62.1.1 (A:) Integrin CD11a/CD18 (Leukocyte function associated antigen-1, LFA-1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Integrin A (or I) domain
domain: Integrin CD11a/CD18 (Leukocyte function associated antigen-1, LFA-1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.94  E-value=0.02  Score=45.01  Aligned_cols=103  Identities=12%  Similarity=0.114  Sum_probs=66.9

Q ss_pred             ccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCC-ccEEEEEecccceeeecccC--CCHHHHH
Q 025034           24 EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPD-HRFAFVTLAKTASWLRKEFS--SDIESTL  100 (259)
Q Consensus        24 EkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~-HeFAl~~L~dsasWl~~~FT--sd~~~i~  100 (259)
                      =+|+|+||.|.-|..            ..++.+|+.+..+++   .+++. .++|+++.++.+.-.. +|+  ++.+++.
T Consensus         3 ~DivfllD~S~Si~~------------~~f~~~k~f~~~~i~---~i~~~~~rvgvv~fs~~~~~~~-~l~~~~~~~~~~   66 (179)
T d1mjna_           3 VDLVFLFDGSMSLQP------------DEFQKILDFMKDVMK---KCSNTSYQFAAVQFSTSYKTEF-DFSDYVKRKDPD   66 (179)
T ss_dssp             EEEEEEEECBTTCCH------------HHHHHHHHHHHHHHH---HTTTSSEEEEEEEESSSEEEEE-CHHHHHHHCCHH
T ss_pred             eEEEEEEECCCCCCH------------HHHHHHHHHHHHHHH---HhCCCceEEEEEEEeeeeeEEe-chhhccchHHHH
Confidence            379999999987652            237788999999998   35555 5899999998877655 665  3566788


Q ss_pred             HHhhccccccccCCCChhHHHHHHHHHhhhhc--CCCceEEEEEEe
Q 025034          101 TAVRGISATSACGQADLTHLFKLASHEAKKSR--AQNRILRVILIY  144 (259)
Q Consensus       101 ~aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~~--~~~~vvRVILiY  144 (259)
                      ++|+.+...+  +.-++..-.+.+..+.-...  ..+.+-+++++-
T Consensus        67 ~~i~~i~~~~--g~t~~~~AL~~~~~~~f~~~~g~R~~~~kvvvll  110 (179)
T d1mjna_          67 ALLKHVKHML--LLTNTFGAINYVATEVFREELGARPDATKVLIII  110 (179)
T ss_dssp             HHHTTCCCCC--BCCCHHHHHHHHHHHTSSGGGTCCTTSEEEEEEE
T ss_pred             HHHhhhhccc--CcchHHHHHHHHHHHHhchhcCCCCCCCeEEEEE
Confidence            8888887433  22355554454444331111  223455665554

>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=95.11  E-value=0.036  Score=43.65  Aligned_cols=106  Identities=12%  Similarity=0.201  Sum_probs=67.0

Q ss_pred             CccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceeeecccCC--CHHHHH
Q 025034           23 NEDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSS--DIESTL  100 (259)
Q Consensus        23 pEkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTs--d~~~i~  100 (259)
                      |=+|+|.||.|..|..            ..++.+|+.+..+|. .+..+ +-+||++..++.+.-.. +|+.  +..++.
T Consensus         5 ~~DivfvlD~S~s~~~------------~~~~~~k~f~~~iv~-~l~~~-~~rv~vv~fs~~~~~~~-~l~~~~~~~~~~   69 (194)
T d1mf7a_           5 DSDIAFLIDGSGSIIP------------HDFRRMKEFVSTVME-QLKKS-KTLFSLMQYSEEFRIHF-TFKEFQNNPNPR   69 (194)
T ss_dssp             CEEEEEEEECCTTSCH------------HHHHHHHHHHHHHHH-HHCCT-TEEEEEEEESSSEEEEE-CHHHHHHSCCHH
T ss_pred             CeeEEEEEECCCCCCH------------HHHHHHHHHHHHHHH-HcCcC-CceEEEEEEeccceeEE-eccccCCHHHHH
Confidence            4589999999998763            236778999999997 34333 35899999998765433 4432  455788


Q ss_pred             HHhhccccccccCCCChhHHHHHHHHHhhhh--cCCCceEEEEEEee
Q 025034          101 TAVRGISATSACGQADLTHLFKLASHEAKKS--RAQNRILRVILIYC  145 (259)
Q Consensus       101 ~aL~~L~~~~~~~~~DL~~LF~~i~~e~~~~--~~~~~vvRVILiY~  145 (259)
                      ++|+.+...+.  .-++..-.+.+.......  ...+.+-||+++-.
T Consensus        70 ~~i~~i~~~~~--~t~~~~al~~~~~~~~~~~~~~~~~~~kvvvliT  114 (194)
T d1mf7a_          70 SLVKPITQLLG--RTHTATGIRKVVRELFNITNGARKNAFKILVVIT  114 (194)
T ss_dssp             HHHTTCCCCCS--CBCHHHHHHHHHHTTTSGGGTCCTTSEEEEEEEE
T ss_pred             HHHhhhhhhhc--cchHHHHHHHHHHHHHhhhccCCCCCceEEEEEe
Confidence            88888875432  224444444444433221  22345667776665

>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=93.72  E-value=0.32  Score=37.19  Aligned_cols=86  Identities=13%  Similarity=0.134  Sum_probs=48.9

Q ss_pred             ccEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHH-HHHHHHhhhcCCCCccEEEEEecccceeeecccCCCHHHHHHH
Q 025034           24 EDIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQA-ILLFVNSKLSINPDHRFAFVTLAKTASWLRKEFSSDIESTLTA  102 (259)
Q Consensus        24 EkIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~a-I~~FV~~K~~i~p~HeFAl~~L~dsasWl~~~FTsd~~~i~~a  102 (259)
                      -+++||||+|.-|....     .|+.   +...+.| +..++..+    +.-+++++++++++.|+...-......++..
T Consensus         6 ~~~vl~iD~SGSM~~~~-----~~~~---~~~~~~a~~~~~~~~~----~~~~~~vv~F~~~~~~~~~~~~~~~~~~~~~   73 (174)
T d1yvra2           6 KRFLLAIDVSASMNQRV-----LGSI---LNASVVAAAMCMLVAR----TEKDSHMVAFSDEMLPCPITVNMLLHEVVEK   73 (174)
T ss_dssp             CCEEEEEECSGGGGSBS-----TTSS---CBHHHHHHHHHHHHHH----HCSSEEEEEESSSEECCSCCTTSCHHHHHHH
T ss_pred             CeEEEEEECccccCCcc-----cCcc---HHHHHHHHHHHHHhhc----cCCcEEEEEecCCccccccCccchHHHHHHH
Confidence            47999999999876321     1222   3333333 34444433    2347999999999888842223345555555


Q ss_pred             hhccccccccCCCChhHHHHHHH
Q 025034          103 VRGISATSACGQADLTHLFKLAS  125 (259)
Q Consensus       103 L~~L~~~~~~~~~DL~~LF~~i~  125 (259)
                      +......    .-|+..-++.+.
T Consensus        74 ~~~~~~g----gT~i~~al~~a~   92 (174)
T d1yvra2          74 MSDITMG----STDCALPMLWAQ   92 (174)
T ss_dssp             HTTCCCS----CCCTTHHHHHHH
T ss_pred             hhccccc----cccHHHHHHHHH
Confidence            5544322    235666555443

>d2qtva3 c.62.1.2 (A:120-390) Sec23 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Trunk domain of Sec23/24
domain: Sec23
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.74  E-value=6.3  Score=32.36  Aligned_cols=47  Identities=21%  Similarity=0.409  Sum_probs=36.1

Q ss_pred             cEEEEEeCChhhhhhhhccCCCCCccCHhHHHHHHHHHHHHhhhcCCCCccEEEEEecccceee
Q 025034           25 DIIFCVDVDAESLVEMKSTGFNGKPITRLDAMKQAILLFVNSKLSINPDHRFAFVTLAKTASWL   88 (259)
Q Consensus        25 kIIfCiD~~~E~~~~~K~~~~~~~~~trL~~iK~aI~~FV~~K~~i~p~HeFAl~~L~dsasWl   88 (259)
                      -.||+||++.+..              .+..+|++|..-+.   .+.++.++||+|.+.++...
T Consensus         4 ~yvFvIDvs~~a~--------------~~~~l~~~l~~~l~---~lp~~~~VgiITfd~~v~~y   50 (271)
T d2qtva3           4 IFFFVVDLTSETE--------------NLDSLKESIITSLS---LLPPNALIGLITYGNVVQLH   50 (271)
T ss_dssp             EEEEEEECCSCHH--------------HHHHHHHHHHHHHT---TSCTTCEEEEEEESSEEEEE
T ss_pred             EEEEEEECCccHH--------------HHHHHHHHHHHHHH---hCCCCCEEEEEEECCEEEEE
Confidence            4799999998644              15677888887774   67889999999997765544