Citrus Sinensis ID: 038893

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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-----
Protein Sequence
KTTLQGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDVNTGKPIGSGLPPIGVIIGLIAGIGAVGALLVYGLQ
Secondary Structure (PSIPRED)
ccccccccHHHHccccccEEEEEcccccccccccHHHHHHcccccccEEEEEEEccccEEEEEEccccEEEEEEEcccHHHHcccccccEEEEEccccccccEEccccccHHHHHHcccccEEEEEEEcccccccccccccccccccccccHHHHHccccEEEccccEEEcccccccccccccccccccccccccccccccccccccccccccEEEEHHHHHHHHHHHHEEEccc
Secondary Structure Prediction (SSPRO)
cccccEEEccHccccccHHHEccccccccHHHHHHHHHHHHHHcccccEEEEEEcccEEEEEccccccEEEEEEcccccHHHcccccccEEEEEEcccccccccHHHcccHHHHHHcccccEEEEEEcccccEEEEccccccccccccccccHHHHHHHHHHHHHccEEEcccccHHHccccccccccccccHHcccccccccccccccccHHHHHHHHHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
kttlqglslqeskRRVSDHFLAVSktknatrsldnnkitartagasktievevdkplgltlgqkpgggvVITAVegggnaakaglksgdqvlytssffgdelwpadklgftktaiqakpdsVYFVVNrggadvdvkrlpkrpapprfgrKLTEAQKARATHICLdcgyiyflqkpfdelpdtyvcpqcqapkkrfarydvntgkpigsglppiGVIIGLIAGIGAVGALLVYGLQ
Flexible Loop (DISEMBL)
kttlqglslqeskrrvsdhflavsktknatrsldnnkitartagasktievevdkplgltlgqkpgGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAiqakpdsvYFVVNRGgadvdvkrlpkrpapprfgrkLTEAQKARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDVNTGKPIGSGLPPIGVIIGLIAGIGAVGALLVYGLQ
Low Complexity Region (SEG)
KTTLQGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDVNTGKpigsglppigviigliagigavgallvyglQ
Disordered region (IsUnstruct)
************************************************IEVEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDV********************KARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDVNTGKPIGSGLPPIGVIIGLIAGIGAVGALLVYG**
Disordered Region (DISOPRED)
*****G**LQE************************************TIEVEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVN*******************************ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDV*******SGLPPIGVIIGLIAGIGAVGALLVYGLQ
Disordered Region (DISEMBL)
KTTLQGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDVNTGKPIGSGLPPIGVIIGLIAGIGAVGALLVYGLQ
Disordered Region (DISPRO)
*****GLSLQESKR*VSD**********ATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDVNTGKPIGSGLPPIGVIIGLIAGIGAVGALLVYGLQ
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHi
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHi
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHi
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
KTTLQGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDVNTGKPIGSGLPPIGVIIGLIAGIGAVGALLVYGLQ
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	235	2.2.26 [Sep-21-2011]
P58992	69	Rubredoxin-1 OS=Chlorobiu	yes	no	0.174	0.594	0.365	0.0002

>sp|P58992|RUBR1_CHLTE Rubredoxin-1 OS=Chlorobium tepidum (strain ATCC 49652 / DSM 12025 / TLS) GN=rub1 PE=3 SV=1

 Score = 46.2 bits (108), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/52 (36%), Positives = 29/52 (55%), Gaps = 11/52 (21%)

Query: 158 RATHICLDCGYIYFLQK-----------PFDELPDTYVCPQCQAPKKRFARY 198
           +A+ +C +CGYIY   +           PFD+LPD + CP C  PK +F ++
Sbjct: 14  QASWMCAECGYIYDPAEGNLETNIRPGMPFDKLPDDWSCPVCNHPKNQFTKF 65

Serves as an electron acceptor for pyruvate ferredoxin oxidoreductase (PFOR).
Chlorobium tepidum (strain ATCC 49652 / DSM 12025 / TLS) (taxid: 194439)

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	235
356497371	274	PREDICTED: uncharacterized protein LOC10	0.991	0.850	0.838	1e-106
356538859	274	PREDICTED: uncharacterized protein LOC10	0.982	0.843	0.835	1e-106
255637964	274	unknown [Glycine max]	0.982	0.843	0.835	1e-105
359489916	274	PREDICTED: uncharacterized protein LOC10	0.995	0.854	0.821	1e-105
224146096	275	predicted protein [Populus trichocarpa]	0.995	0.850	0.808	1e-105
255557945	273	electron transporter, putative [Ricinus	0.982	0.846	0.818	1e-104
388504996	273	unknown [Medicago truncatula]	1.0	0.860	0.817	1e-100
217074094	273	unknown [Medicago truncatula]	1.0	0.860	0.817	1e-100
449451817	276	PREDICTED: uncharacterized protein LOC10	0.995	0.847	0.792	1e-99
18418200	271	rubredoxin family protein [Arabidopsis t	0.991	0.859	0.787	2e-99

>gi|356497371|ref|XP_003517534.1| PREDICTED: uncharacterized protein LOC100785369 [Glycine max]

 Score =  391 bits (1005), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 197/235 (83%), Positives = 212/235 (90%), Gaps = 2/235 (0%)

Query: 1   KTTLQGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLT 60
           KT+LQGLSL E+KR VS+ FL V     ++ +    +ITARTAGASKTIEVEVDKPLGLT
Sbjct: 42  KTSLQGLSLHEAKRGVSESFL-VENNNGSSIAGRRLEITARTAGASKTIEVEVDKPLGLT 100

Query: 61  LGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPD 120
           LGQK GGGVVITAV+GGGNAA+AGLK+GDQVLYTSSFFGDELWPADKLGFTKTAIQAKPD
Sbjct: 101 LGQKSGGGVVITAVDGGGNAARAGLKAGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPD 160

Query: 121 SVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQKPFDELP 180
           SVYFVV+RG A+VDVK+L KRPAPPRFGRKLTE QKARATHICLDCGYIY LQKPFDE P
Sbjct: 161 SVYFVVSRG-AEVDVKKLTKRPAPPRFGRKLTETQKARATHICLDCGYIYTLQKPFDEQP 219

Query: 181 DTYVCPQCQAPKKRFARYDVNTGKPIGSGLPPIGVIIGLIAGIGAVGALLVYGLQ 235
           DTY CPQCQAPKKRFARYDVNTGK IG GLPPIGVIIGL+AG+GAVGALLVYGLQ
Sbjct: 220 DTYGCPQCQAPKKRFARYDVNTGKAIGGGLPPIGVIIGLLAGVGAVGALLVYGLQ 274

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356538859|ref|XP_003537918.1| PREDICTED: uncharacterized protein LOC100816088 [Glycine max]

 Score =  388 bits (997), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 198/237 (83%), Positives = 212/237 (89%), Gaps = 6/237 (2%)

Query: 1   KTTLQGLSLQESKRRVSDHFLAVSKTKN--ATRSLDNNKITARTAGASKTIEVEVDKPLG 58
           KT+LQGLSL E+KR VS+ FL  +K  +  A R L+   I ARTAGASKTIEVEVDKPLG
Sbjct: 42  KTSLQGLSLHEAKRGVSESFLVENKNGSSIAGRRLE---IKARTAGASKTIEVEVDKPLG 98

Query: 59  LTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK 118
           LTLGQK GGGVVITAV+GGGNAA+AGLK+GDQVLYTSSFFGDELWPADKLGFTKTAIQAK
Sbjct: 99  LTLGQKSGGGVVITAVDGGGNAARAGLKAGDQVLYTSSFFGDELWPADKLGFTKTAIQAK 158

Query: 119 PDSVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQKPFDE 178
           PDSVYFVV+RG A+VDVK+L KRPAPPRFGRKLTE QKARATHICLDCGYIY LQK FDE
Sbjct: 159 PDSVYFVVSRG-AEVDVKKLTKRPAPPRFGRKLTETQKARATHICLDCGYIYTLQKSFDE 217

Query: 179 LPDTYVCPQCQAPKKRFARYDVNTGKPIGSGLPPIGVIIGLIAGIGAVGALLVYGLQ 235
            PDTY CPQCQAPKKRFARYDVNTGK IG GLPPIGVIIGL+AG+GAVGALLVYGLQ
Sbjct: 218 QPDTYGCPQCQAPKKRFARYDVNTGKAIGGGLPPIGVIIGLLAGVGAVGALLVYGLQ 274

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255637964|gb|ACU19298.1| unknown [Glycine max]

 Score =  387 bits (994), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 198/237 (83%), Positives = 212/237 (89%), Gaps = 6/237 (2%)

Query: 1   KTTLQGLSLQESKRRVSDHFLAVSKTKN--ATRSLDNNKITARTAGASKTIEVEVDKPLG 58
           KT+LQGLSL E+KR VS+ FL  +K  +  A R L+   I ARTAGASKTIEVEVDKPLG
Sbjct: 42  KTSLQGLSLHEAKRGVSESFLVENKNGSSIAGRRLE---IKARTAGASKTIEVEVDKPLG 98

Query: 59  LTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK 118
           LTLGQK GGGVVITAV+GGGNAA+AGLK+GDQVLYTSSFFGDELWPADKLGFTKTAIQAK
Sbjct: 99  LTLGQKSGGGVVITAVDGGGNAARAGLKAGDQVLYTSSFFGDELWPADKLGFTKTAIQAK 158

Query: 119 PDSVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQKPFDE 178
           PDSVYFVV+RG A+VDVK+L KRPAPPRFGRKLTE QKARATHICLDCGYIY LQK FDE
Sbjct: 159 PDSVYFVVSRG-AEVDVKKLTKRPAPPRFGRKLTETQKARATHICLDCGYIYPLQKSFDE 217

Query: 179 LPDTYVCPQCQAPKKRFARYDVNTGKPIGSGLPPIGVIIGLIAGIGAVGALLVYGLQ 235
            PDTY CPQCQAPKKRFARYDVNTGK IG GLPPIGVIIGL+AG+GAVGALLVYGLQ
Sbjct: 218 QPDTYGCPQCQAPKKRFARYDVNTGKAIGGGLPPIGVIIGLLAGVGAVGALLVYGLQ 274

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359489916|ref|XP_002275188.2| PREDICTED: uncharacterized protein LOC100263114 [Vitis vinifera] gi|297737366|emb|CBI26567.3| unnamed protein product [Vitis vinifera]

 Score =  387 bits (994), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 193/235 (82%), Positives = 206/235 (87%), Gaps = 1/235 (0%)

Query: 1   KTTLQGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLT 60
           KTT QGLSLQ++KR  S+  LA     +        +ITARTAGA+K IEVEVDKPLGLT
Sbjct: 41  KTTFQGLSLQDAKRGFSNSVLAADSRSSFASVRRGLEITARTAGAAKNIEVEVDKPLGLT 100

Query: 61  LGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPD 120
           LGQK GGGVVITAVEGGGNAAKAGLK+GDQVLYTSSFFGDELWPADKLGFTKTAIQAKPD
Sbjct: 101 LGQKSGGGVVITAVEGGGNAAKAGLKAGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPD 160

Query: 121 SVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQKPFDELP 180
           SVYFVV+RG A+VDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCG+IY L KPF+E  
Sbjct: 161 SVYFVVSRG-AEVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGFIYTLTKPFEEQS 219

Query: 181 DTYVCPQCQAPKKRFARYDVNTGKPIGSGLPPIGVIIGLIAGIGAVGALLVYGLQ 235
           D YVCPQC APKKRFARYDV TGKPIG GLPPIGVIIGL+AG+GAVGALLVYGLQ
Sbjct: 220 DAYVCPQCSAPKKRFARYDVVTGKPIGGGLPPIGVIIGLLAGVGAVGALLVYGLQ 274

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224146096|ref|XP_002325879.1| predicted protein [Populus trichocarpa] gi|222862754|gb|EEF00261.1| predicted protein [Populus trichocarpa]

 Score =  387 bits (993), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 190/235 (80%), Positives = 206/235 (87%), Gaps = 1/235 (0%)

Query: 1   KTTLQGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLT 60
           K+  QGLSLQ+ KR  SD F+  S            ++TARTAGA+KTIEVEVDKPLGLT
Sbjct: 42  KSNFQGLSLQDGKRGCSDIFMPNSSCSTLINVRTGLQVTARTAGAAKTIEVEVDKPLGLT 101

Query: 61  LGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPD 120
           LGQK GGGVVIT VEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPD
Sbjct: 102 LGQKSGGGVVITGVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPD 161

Query: 121 SVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQKPFDELP 180
           S+YFVV+RG A+VDVKRLPKRPAPPRFGRKLTEAQKARATHIC+DCG+IY LQK FDE P
Sbjct: 162 SIYFVVSRG-AEVDVKRLPKRPAPPRFGRKLTEAQKARATHICIDCGFIYTLQKSFDEQP 220

Query: 181 DTYVCPQCQAPKKRFARYDVNTGKPIGSGLPPIGVIIGLIAGIGAVGALLVYGLQ 235
           + YVCPQC+APKKRFARYDVNTG+ +G GLPPIGVIIGL+AGIGAVGALLVYGLQ
Sbjct: 221 EAYVCPQCRAPKKRFARYDVNTGRAVGGGLPPIGVIIGLVAGIGAVGALLVYGLQ 275

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255557945|ref|XP_002520001.1| electron transporter, putative [Ricinus communis] gi|223540765|gb|EEF42325.1| electron transporter, putative [Ricinus communis]

 Score =  384 bits (987), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 194/237 (81%), Positives = 210/237 (88%), Gaps = 6/237 (2%)

Query: 1   KTTLQGLSLQESKRRVSDHFLAVSKTK--NATRSLDNNKITARTAGASKTIEVEVDKPLG 58
           KTT QGLSLQ+++   S+ FLA  K    NA R L   +ITART GASKTIEVEVDKPLG
Sbjct: 41  KTTFQGLSLQDARGASSEIFLAEKKKSFSNARRGL---QITARTTGASKTIEVEVDKPLG 97

Query: 59  LTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK 118
           LTLGQK GGGVVITAV+GGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK
Sbjct: 98  LTLGQKSGGGVVITAVDGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK 157

Query: 119 PDSVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQKPFDE 178
           P+SVYFVV+RG A+VDVK+L KRPAPPRFGRKLT+ QKARATHICLDCGYIY  QK FDE
Sbjct: 158 PESVYFVVSRG-AEVDVKKLTKRPAPPRFGRKLTDTQKARATHICLDCGYIYTAQKSFDE 216

Query: 179 LPDTYVCPQCQAPKKRFARYDVNTGKPIGSGLPPIGVIIGLIAGIGAVGALLVYGLQ 235
            PDTYVCPQC+APKKRFA+YDVNTGK IG GLPPIGVIIGL+AG+GA+GALLVYGLQ
Sbjct: 217 QPDTYVCPQCRAPKKRFAKYDVNTGKAIGGGLPPIGVIIGLVAGVGAIGALLVYGLQ 273

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388504996|gb|AFK40564.1| unknown [Medicago truncatula]

 Score =  369 bits (946), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 193/236 (81%), Positives = 209/236 (88%), Gaps = 1/236 (0%)

Query: 1   KTTLQGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLT 60
           KT+L GLSL E+KR VS  FL  +K+ +++ +    +ITARTAGASKTIE EVDKPLGLT
Sbjct: 38  KTSLLGLSLHEAKRGVSGSFLGDNKSGSSSIARKRLEITARTAGASKTIEAEVDKPLGLT 97

Query: 61  LGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPD 120
           LGQK GGGVVITAVEGGGNAA+AGLKSGDQVLYTSSFFGDELWPADKLGFTKTAI AKPD
Sbjct: 98  LGQKNGGGVVITAVEGGGNAARAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAINAKPD 157

Query: 121 SVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQKPFDELP 180
           SVYFVV+RGGADVDVKRLPKRPAPPRFGRKLTE QKARATHICLDCGYIYFL K FD+ P
Sbjct: 158 SVYFVVSRGGADVDVKRLPKRPAPPRFGRKLTETQKARATHICLDCGYIYFLPKSFDDQP 217

Query: 181 DTYVCPQCQAPKKRFARYDVNTGKP-IGSGLPPIGVIIGLIAGIGAVGALLVYGLQ 235
           DTY CPQCQAPKKRFA YDVNTG+   G GLPPIGVIIGL+AG+GA GALLV+GLQ
Sbjct: 218 DTYSCPQCQAPKKRFAEYDVNTGRAIGGGGLPPIGVIIGLVAGLGAPGALLVFGLQ 273

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|217074094|gb|ACJ85407.1| unknown [Medicago truncatula]

 Score =  369 bits (946), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 193/236 (81%), Positives = 209/236 (88%), Gaps = 1/236 (0%)

Query: 1   KTTLQGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLT 60
           KT+L GLSL E+KR VS  FL  +K+ +++ +    +ITARTAGASKTIE EVDKPLGLT
Sbjct: 38  KTSLLGLSLHEAKRGVSGSFLGDNKSGSSSIARKRLEITARTAGASKTIEAEVDKPLGLT 97

Query: 61  LGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPD 120
           LGQK GGGVVITAVEGGGNAA+AGLKSGDQVLYTSSFFGDELWPADKLGFTKTAI AKPD
Sbjct: 98  LGQKNGGGVVITAVEGGGNAARAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAINAKPD 157

Query: 121 SVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQKPFDELP 180
           SVYFVV+RGGADVDVKRLPKRPAPPRFGRKLTE QKARATHICLDCGYIYFL K FD+ P
Sbjct: 158 SVYFVVSRGGADVDVKRLPKRPAPPRFGRKLTETQKARATHICLDCGYIYFLPKSFDDQP 217

Query: 181 DTYVCPQCQAPKKRFARYDVNTGKP-IGSGLPPIGVIIGLIAGIGAVGALLVYGLQ 235
           DTY CPQCQAPKKRFA YDVNTG+   G GLPPIGVIIGL+AG+GA GALLV+GLQ
Sbjct: 218 DTYSCPQCQAPKKRFAEYDVNTGRAIGGGGLPPIGVIIGLVAGLGAPGALLVFGLQ 273

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449451817|ref|XP_004143657.1| PREDICTED: uncharacterized protein LOC101215685 [Cucumis sativus] gi|449529931|ref|XP_004171951.1| PREDICTED: uncharacterized LOC101215685 [Cucumis sativus]

 Score =  368 bits (945), Expect = e-99,   Method: Compositional matrix adjust.
 Identities = 187/236 (79%), Positives = 204/236 (86%), Gaps = 2/236 (0%)

Query: 1   KTTLQGLSLQESKRRVSDHFLAV-SKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGL 59
           K+   GLS+ E+K+ VS  F A  ++ +   RS       A+TAGASKTIEVEVDKPLGL
Sbjct: 42  KSVFLGLSVAEAKKGVSHWFTAENTEAEGGKRSKGLQIRAAKTAGASKTIEVEVDKPLGL 101

Query: 60  TLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP 119
           TLGQK GGGVVITAV+GGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP
Sbjct: 102 TLGQKSGGGVVITAVDGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP 161

Query: 120 DSVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQKPFDEL 179
           DSVYFVV+RG A+VDVKRLPKRPAPPRFGRKLT+AQKA+ATHICLDCGYIY L KPFDE 
Sbjct: 162 DSVYFVVSRG-AEVDVKRLPKRPAPPRFGRKLTDAQKAKATHICLDCGYIYTLSKPFDEQ 220

Query: 180 PDTYVCPQCQAPKKRFARYDVNTGKPIGSGLPPIGVIIGLIAGIGAVGALLVYGLQ 235
           PD Y CPQC APKKRFA+YDV+TGK +G GLPPIGVI GL+AGIGAVGALLVYGLQ
Sbjct: 221 PDGYACPQCIAPKKRFAKYDVSTGKAVGGGLPPIGVIAGLVAGIGAVGALLVYGLQ 276

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18418200|ref|NP_568342.1| rubredoxin family protein [Arabidopsis thaliana] gi|10177062|dbj|BAB10504.1| unnamed protein product [Arabidopsis thaliana] gi|14334892|gb|AAK59624.1| unknown protein [Arabidopsis thaliana] gi|24030464|gb|AAN41384.1| unknown protein [Arabidopsis thaliana] gi|332005008|gb|AED92391.1| rubredoxin family protein [Arabidopsis thaliana]

 Score =  367 bits (942), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 185/235 (78%), Positives = 202/235 (85%), Gaps = 2/235 (0%)

Query: 1   KTTLQGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLT 60
           KT  QG+SL++SK+ VS+ F    +       L   +I AR A ASKTIEVEVDKPLGLT
Sbjct: 39  KTVFQGVSLEDSKKSVSEIFAVSERKIGGLNGLRRFEIKARAA-ASKTIEVEVDKPLGLT 97

Query: 61  LGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPD 120
           LGQK GGGVVIT V+GGGNAAKAGLKSGDQV+YTSSFFGDELWPADKLGFTKTAIQAKPD
Sbjct: 98  LGQKQGGGVVITGVDGGGNAAKAGLKSGDQVVYTSSFFGDELWPADKLGFTKTAIQAKPD 157

Query: 121 SVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQKPFDELP 180
           SVYFVV+RG A+VDVK+L KRPAPPRFGRKLTE QKARATHICLDCG+IY L K FDE P
Sbjct: 158 SVYFVVSRG-AEVDVKKLNKRPAPPRFGRKLTETQKARATHICLDCGFIYTLPKSFDEQP 216

Query: 181 DTYVCPQCQAPKKRFARYDVNTGKPIGSGLPPIGVIIGLIAGIGAVGALLVYGLQ 235
           DTYVCPQC APKKRFA+YDVNTGK IG GLPPIGVI+GL+AG+GAVGALLVYGLQ
Sbjct: 217 DTYVCPQCIAPKKRFAKYDVNTGKAIGGGLPPIGVIVGLLAGLGAVGALLVYGLQ 271

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

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	235
TAIR|locus:2167150	271	ENH1 "enhancer of sos3-1" [Ara	0.855	0.741	0.795	8.5e-81
TAIR|locus:2157388	154	AT5G51010 [Arabidopsis thalian	0.272	0.415	0.478	8.2e-12
TAIR|locus:2193844	335	ZKT "protein containing PDZ do	0.404	0.283	0.350	7e-08

TAIR|locus:2167150 ENH1 "enhancer of sos3-1" [Arabidopsis thaliana (taxid:3702)]

 Score = 811 (290.5 bits), Expect = 8.5e-81, P = 8.5e-81
 Identities = 163/205 (79%), Positives = 177/205 (86%)

Query:     1 KTTLQGLSLQESKRRVSDHFLAVSKTK-NATRSLDNNKITARTAGASKTIEVEVDKPLGL 59
             KT  QG+SL++SK+ VS+ F AVS+ K      L   +I AR A ASKTIEVEVDKPLGL
Sbjct:    39 KTVFQGVSLEDSKKSVSEIF-AVSERKIGGLNGLRRFEIKARAA-ASKTIEVEVDKPLGL 96

Query:    60 TLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP 119
             TLGQK GGGVVIT V+GGGNAAKAGLKSGDQV+YTSSFFGDELWPADKLGFTKTAIQAKP
Sbjct:    97 TLGQKQGGGVVITGVDGGGNAAKAGLKSGDQVVYTSSFFGDELWPADKLGFTKTAIQAKP 156

Query:   120 DSVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQKPFDEL 179
             DSVYFVV+RG A+VDVK+L KRPAPPRFGRKLTE QKARATHICLDCG+IY L K FDE 
Sbjct:   157 DSVYFVVSRG-AEVDVKKLNKRPAPPRFGRKLTETQKARATHICLDCGFIYTLPKSFDEQ 215

Query:   180 PDTYVCPQCQAPKKRFARYDVNTGK 204
             PDTYVCPQC APKKRFA+YDVNTGK
Sbjct:   216 PDTYVCPQCIAPKKRFAKYDVNTGK 240

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0046872 "metal ion binding" evidence=ISS

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0009535 "chloroplast thylakoid membrane" evidence=IDA

GO:0009534 "chloroplast thylakoid" evidence=IDA

GO:0006098 "pentose-phosphate shunt" evidence=RCA

GO:0006364 "rRNA processing" evidence=RCA

GO:0009637 "response to blue light" evidence=RCA

GO:0009657 "plastid organization" evidence=RCA

GO:0010114 "response to red light" evidence=RCA

GO:0010207 "photosystem II assembly" evidence=RCA

GO:0010218 "response to far red light" evidence=RCA

TAIR|locus:2157388 AT5G51010 [Arabidopsis thaliana (taxid:3702)]

 Score = 160 (61.4 bits), Expect = 8.2e-12, P = 8.2e-12
 Identities = 33/69 (47%), Positives = 41/69 (59%)

Query:   136 KRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRF 195
             K L K  AP RF  +++  Q     +IC DCGYIY  + PFD+LPD Y CP C APK+RF
Sbjct:    44 KSLSKSSAP-RFSMRVSSKQ----AYICRDCGYIYNDRTPFDKLPDNYFCPVCAAPKRRF 98

Query:   196 ARYDVNTGK 204
               Y  +  K
Sbjct:    99 RAYMPDVSK 107

GO:0009507 "chloroplast" evidence=ISM

GO:0046872 "metal ion binding" evidence=ISS

TAIR|locus:2193844 ZKT "protein containing PDZ domain, a K-box domain, and a TPR region" [Arabidopsis thaliana (taxid:3702)]

 Score = 140 (54.3 bits), Expect = 7.0e-08, P = 7.0e-08
 Identities = 34/97 (35%), Positives = 52/97 (53%)

Query:    47 KTIEVEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPA 105
             +T E+EV++P GL   +   GG  I A+  GG+A K G    GD+V+ TS+ FG E+WPA
Sbjct:    87 ETYEIEVEQPYGLKFRKGRDGGTYIDAILPGGSADKTGKFTVGDRVIATSAVFGTEIWPA 146

Query:   106 DKLGFTKTAIQAKPDSVYFVVN-RGGADVDVKRLPKR 141
              + G T   I+ +   +   +  R G   D   L ++
Sbjct:   147 AEYGRTMYTIRQRIGPLLMQMEKRNGKAEDTGELTEK 183


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.316   0.134   0.396    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      235       205   0.00096  111 3  11 22  0.38    33
                                                     31  0.47    35


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  3
  No. of states in DFA:  590 (63 KB)
  Total size of DFA:  154 KB (2092 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  18.86u 0.12s 18.98t   Elapsed:  00:00:01
  Total cpu time:  18.86u 0.12s 18.98t   Elapsed:  00:00:01
  Start:  Tue May 21 00:28:48 2013   End:  Tue May 21 00:28:49 2013

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0009535 "chloroplast thylakoid membrane" evidence=IDA

GO:0009611 "response to wounding" evidence=IEP

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0009534 "chloroplast thylakoid" evidence=IDA

GO:0010264 "myo-inositol hexakisphosphate biosynthetic process" evidence=RCA

GO:0015979 "photosynthesis" evidence=RCA

GO:0016117 "carotenoid biosynthetic process" evidence=RCA

---

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	235
cd00730	50	cd00730, rubredoxin, Rubredoxin; nonheme iron bind	4e-07
pfam00301	47	pfam00301, Rubredoxin, Rubredoxin	5e-07
COG1773	55	COG1773, COG1773, Rubredoxin [Energy production an	6e-07
cd00350	33	cd00350, rubredoxin_like, Rubredoxin_like; nonheme	2e-06
cd00992	82	cd00992, PDZ_signaling, PDZ domain found in a vari	2e-06
cd00136	70	cd00136, PDZ, PDZ domain, also called DHR (Dlg hom	2e-06
smart00228	85	smart00228, PDZ, Domain present in PSD-95, Dlg, an	3e-06
cd00987	90	cd00987, PDZ_serine_protease, PDZ domain of tryspi	1e-04
cd00989	79	cd00989, PDZ_metalloprotease, PDZ domain of bacter	5e-04
COG1592	166	COG1592, COG1592, Rubrerythrin [Energy production	8e-04
pfam13180	81	pfam13180, PDZ_2, PDZ domain	0.002
cd00990	80	cd00990, PDZ_glycyl_aminopeptidase, PDZ domain ass	0.002
COG0793	406	COG0793, Prc, Periplasmic protease [Cell envelope	0.003
TIGR02037	428	TIGR02037, degP_htrA_DO, periplasmic serine protea	0.003
TIGR00225	334	TIGR00225, prc, C-terminal peptidase (prc)	0.003
PRK04351	149	PRK04351, PRK04351, hypothetical protein; Provisio	0.003

>gnl|CDD|238372 cd00730, rubredoxin, Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center

 Score = 45.4 bits (108), Expect = 4e-07
 Identities = 18/46 (39%), Positives = 22/46 (47%), Gaps = 11/46 (23%)

Query: 161 HICLDCGYIY-----------FLQKPFDELPDTYVCPQCQAPKKRF 195
           + C  CGYIY               PF++LPD +VCP C A K  F
Sbjct: 2   YECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGAGKDDF 47

Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer. Length = 50

>gnl|CDD|189494 pfam00301, Rubredoxin, Rubredoxin

 Score = 45.0 bits (107), Expect = 5e-07
 Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 11/46 (23%)

Query: 161 HICLDCGYIY----------FLQK-PFDELPDTYVCPQCQAPKKRF 195
           ++C  CGY+Y               PF++LPD +VCP C APK++F
Sbjct: 2   YVCKVCGYVYDPAEGDPDNGIPPGTPFEDLPDDWVCPLCGAPKEQF 47

Length = 47

>gnl|CDD|224687 COG1773, COG1773, Rubredoxin [Energy production and conversion]

 Score = 45.0 bits (107), Expect = 6e-07
 Identities = 19/53 (35%), Positives = 25/53 (47%), Gaps = 11/53 (20%)

Query: 159 ATHICLDCGYIYFLQK-----------PFDELPDTYVCPQCQAPKKRFARYDV 200
               C  CGY+Y  +K           PF++LPD +VCP+C   KK F   D 
Sbjct: 2   KRWRCSVCGYVYDPEKGDPRCGIAPGTPFEDLPDDWVCPECGVGKKDFEMIDE 54

Length = 55

>gnl|CDD|238210 cd00350, rubredoxin_like, Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center

 Score = 43.3 bits (103), Expect = 2e-06
 Identities = 15/35 (42%), Positives = 19/35 (54%), Gaps = 6/35 (17%)

Query: 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRF 195
           ++C  CGYIY      D     +VCP C APK +F
Sbjct: 2   YVCPVCGYIY------DGEEAPWVCPVCGAPKDKF 30

The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity. Length = 33

>gnl|CDD|238492 cd00992, PDZ_signaling, PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements

 Score = 44.5 bits (106), Expect = 2e-06
 Identities = 18/47 (38%), Positives = 29/47 (61%), Gaps = 2/47 (4%)

Query: 48 TIEVEVDKPLGLTL--GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
          T+  +    LG +L  G+  GGG+ ++ VE GG A + GL+ GD++L
Sbjct: 5  TLRKDPGGGLGFSLRGGKDSGGGIFVSRVEPGGPAERGGLRVGDRIL 51

May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of PDZ domains an N-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in proteases. Length = 82

>gnl|CDD|238080 cd00136, PDZ, PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif)

 Score = 43.8 bits (104), Expect = 2e-06
 Identities = 16/38 (42%), Positives = 24/38 (63%)

Query: 55 KPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
            LG ++     GGVV+ +VE G  A +AGL++GD +L
Sbjct: 1  GGLGFSIRGGTEGGVVVLSVEPGSPAERAGLQAGDVIL 38

Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. Heterodimerization through PDZ-PDZ domain interactions adds to the domain's versatility, and PDZ domain-mediated interactions may be modulated dynamically through target phosphorylation. Some PDZ domains play a role in scaffolding supramolecular complexes. PDZ domains are found in diverse signaling proteins in bacteria, archebacteria, and eurkayotes. This CD contains two distinct structural subgroups with either a N- or C-terminal beta-strand forming the peptide-binding groove base. The circular permutation placing the strand on the N-terminus appears to be found in Eumetazoa only, while the C-terminal variant is found in all three kingdoms of life, and seems to co-occur with protease domains. PDZ domains have been named after PSD95(post synaptic density protein), DlgA (Drosophila disc large tumor suppressor), and ZO1, a mammalian tight junction protein. Length = 70

>gnl|CDD|214570 smart00228, PDZ, Domain present in PSD-95, Dlg, and ZO-1/2

 Score = 43.9 bits (104), Expect = 3e-06
 Identities = 23/51 (45%), Positives = 33/51 (64%), Gaps = 5/51 (9%)

Query: 47 KTIEVEVDK---PLGLTL--GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
          +   VE++K    LG +L  G+  GGGVV+++V  G  AAKAGL+ GD +L
Sbjct: 1  EPRLVELEKGGGGLGFSLVGGKDEGGGVVVSSVVPGSPAAKAGLRVGDVIL 51

Also called DHR (Dlg homologous region) or GLGF (relatively well conserved tetrapeptide in these domains). Some PDZs have been shown to bind C-terminal polypeptides; others appear to bind internal (non-C-terminal) polypeptides. Different PDZs possess different binding specificities. Length = 85

>gnl|CDD|238487 cd00987, PDZ_serine_protease, PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis

 Score = 39.5 bits (93), Expect = 1e-04
 Identities = 17/39 (43%), Positives = 23/39 (58%)

Query: 51 VEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGD 89
           ++   L   LG K   GV++ +V+ G  AAKAGLK GD
Sbjct: 8  QDLTPDLAEELGLKDTKGVLVASVDPGSPAAKAGLKPGD 46

May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins. Length = 90

>gnl|CDD|238489 cd00989, PDZ_metalloprotease, PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms

 Score = 37.6 bits (88), Expect = 5e-04
 Identities = 27/89 (30%), Positives = 37/89 (41%), Gaps = 18/89 (20%)

Query: 57  LGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLY-----TSSFFGDELWPADKLGFT 111
           LG   G  P    VI  V  G  AAKAGLK+GD++L        S+  ++L         
Sbjct: 3   LGFVPGG-PPIEPVIGEVVPGSPAAKAGLKAGDRILAINGQKIKSW--EDL--------- 50

Query: 112 KTAIQAKP-DSVYFVVNRGGADVDVKRLP 139
             A+Q  P   +   V R G  + +   P
Sbjct: 51  VDAVQENPGKPLTLTVERNGETITLTLTP 79

May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins. Length = 79

>gnl|CDD|224508 COG1592, COG1592, Rubrerythrin [Energy production and conversion]

 Score = 38.5 bits (90), Expect = 8e-04
 Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 7/47 (14%)

Query: 149 RKLTEAQKARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRF 195
           R L E  +     +C  CGY +       E P+  VCP C APK++F
Sbjct: 123 RGLLERLEEGKVWVCPVCGYTHE-----GEAPE--VCPICGAPKEKF 162

Length = 166

>gnl|CDD|221961 pfam13180, PDZ_2, PDZ domain

 Score = 36.1 bits (84), Expect = 0.002
 Identities = 27/82 (32%), Positives = 37/82 (45%), Gaps = 8/82 (9%)

Query: 57  LGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQ 116
           +G+ + Q  G GV + +V+ G  AAKAGLK GD +L   S  G      + L      I 
Sbjct: 3   IGVRVVQNEGTGVTVVSVKEGSPAAKAGLKPGDIIL---SIDG---KKVNSLTELIEVIL 56

Query: 117 AKP--DSVYFVVNRGGADVDVK 136
                D+V   V R G    V+
Sbjct: 57  NGKPGDTVKLTVYRDGKKKTVE 78

Length = 81

>gnl|CDD|238490 cd00990, PDZ_glycyl_aminopeptidase, PDZ domain associated with archaeal and bacterial M61 glycyl-aminopeptidases

 Score = 35.5 bits (82), Expect = 0.002
 Identities = 26/80 (32%), Positives = 36/80 (45%), Gaps = 8/80 (10%)

Query: 57  LGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQ 116
           LGLTL  K  G   +T V     A KAGL +GD+++  + +  D L   D+L   K    
Sbjct: 3   LGLTL-DKEEGLGKVTFVRDDSPADKAGLVAGDELVAVNGWRVDAL--QDRL---KEYQA 56

Query: 117 AKPDSVYFVVNRGGADVDVK 136
             P  V   V R    ++V 
Sbjct: 57  GDP--VELTVFRDDRLIEVP 74

May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand is presumed to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins. Length = 80

>gnl|CDD|223864 COG0793, Prc, Periplasmic protease [Cell envelope biogenesis, outer membrane]

 Score = 38.1 bits (89), Expect = 0.003
 Identities = 14/36 (38%), Positives = 22/36 (61%)

Query: 57  LGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
           +G+ L  +  GGV + +   G  AAKAG+K GD ++
Sbjct: 102 IGIELQMEDIGGVKVVSPIDGSPAAKAGIKPGDVII 137

Length = 406

>gnl|CDD|233695 TIGR02037, degP_htrA_DO, periplasmic serine protease, Do/DeqQ family

 Score = 38.0 bits (89), Expect = 0.003
 Identities = 28/121 (23%), Positives = 40/121 (33%), Gaps = 16/121 (13%)

Query: 52  EVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFT 111
           EV   L  +LG +   G ++  V  G  A KAGLK+GD +    S  G  +     L   
Sbjct: 242 EVTSDLAKSLGLEKQRGALVAQVLPGSPAEKAGLKAGDVIT---SVNGKPISSFADLRRA 298

Query: 112 KTAIQAKP-DSVYFVVNRGGA----DVDVKRLP------KRPAPPRFGRKLTEAQKARAT 160
              +  KP   V   + R G      V +   P        P        L+   +    
Sbjct: 299 IGTL--KPGKKVTLGILRKGKEKTITVTLGASPEEQASSSNPFLGLTVANLSPEIRKELR 356

Query: 161 H 161
            
Sbjct: 357 L 357

This family consists of a set proteins various designated DegP, heat shock protein HtrA, and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in E. coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens.// The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures [Protein fate, Protein folding and stabilization, Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 428

>gnl|CDD|232883 TIGR00225, prc, C-terminal peptidase (prc)

 Score = 37.7 bits (88), Expect = 0.003
 Identities = 22/84 (26%), Positives = 42/84 (50%), Gaps = 6/84 (7%)

Query: 13 KRRVSDHFLAVSKTKNATRSLDN---NKITARTAGA-SKTIEVEVDKPLGLTLGQKPGGG 68
          KR + +        K    SL++     ++  TA + S+T    ++  +G+ +G   G  
Sbjct: 6  KRVLDETEEIYGAIKGMLASLNDPYTRYLSPETAKSFSETTSGSLEG-IGIQVGMDDGEI 64

Query: 69 VVITAVEGGGNAAKAGLKSGDQVL 92
          V+++  EG   A KAG+K GD+++
Sbjct: 65 VIVSPFEGS-PAEKAGIKPGDKII 87

A C-terminal peptidase with different substrates in different species including processing of D1 protein of the photosystem II reaction center in higher plants and cleavage of a peptide of 11 residues from the precursor form of penicillin-binding protein in E.coli E.coli and H influenza have the most distal branch of the tree and their proteins have an N-terminal 200 amino acids that show no homology to other proteins in the database [Protein fate, Degradation of proteins, peptides, and glycopeptides, Protein fate, Protein modification and repair]. Length = 334

>gnl|CDD|235290 PRK04351, PRK04351, hypothetical protein; Provisional

 Score = 36.8 bits (86), Expect = 0.003
 Identities = 17/59 (28%), Positives = 25/59 (42%), Gaps = 3/59 (5%)

Query: 132 DVDVKRLPKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQKPFDELPDTYVCPQCQA 190
           D D K L K+   PR+   L   QK    + C  CG  Y  ++  +     Y C +C+ 
Sbjct: 85  DRDFKELLKQVGGPRYCPPLPS-QKKNYLYECQSCGQQYLRKRRIN--TKRYRCGKCRG 140

Length = 149

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	235
COG2025	313	FixB Electron transfer flavoprotein, alpha subunit	99.95
PRK03363	313	fixB putative electron transfer flavoprotein FixB;	99.94
PLN00022	356	electron transfer flavoprotein subunit alpha; Prov	99.94
PRK11916	312	electron transfer flavoprotein subunit YdiR; Provi	99.93
KOG3954	336	consensus Electron transfer flavoprotein, alpha su	99.9
PF00766	86	ETF_alpha: Electron transfer flavoprotein FAD-bind	99.77
COG1773	55	Rubredoxin [Energy production and conversion]	99.57
cd00730	50	rubredoxin Rubredoxin; nonheme iron binding domain	99.52
PF00301	47	Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubred	99.51
PRK05452	479	anaerobic nitric oxide reductase flavorubredoxin;	99.19
cd00350	33	rubredoxin_like Rubredoxin_like; nonheme iron bind	99.08
cd00729	34	rubredoxin_SM Rubredoxin, Small Modular nonheme ir	98.96
COG1592	166	Rubrerythrin [Energy production and conversion]	98.38
PF09723	42	Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR0134	96.77
TIGR02605	52	CxxC_CxxC_SSSS putative regulatory protein, FmdB f	96.62
smart00834	41	CxxC_CXXC_SSSS Putative regulatory protein. CxxC_C	96.57
PF00595	81	PDZ: PDZ domain (Also known as DHR or GLGF) Coordi	95.89
PRK03824	135	hypA hydrogenase nickel incorporation protein; Pro	95.83
cd00136	70	PDZ PDZ domain, also called DHR (Dlg homologous re	95.76
PF05191	36	ADK_lid: Adenylate kinase, active site lid; InterP	95.75
PF13180	82	PDZ_2: PDZ domain; PDB: 2L97_A 1Y8T_A 2Z9I_A 1LCY_	95.58
PRK12496	164	hypothetical protein; Provisional	95.44
PRK00398	46	rpoP DNA-directed RNA polymerase subunit P; Provis	95.12
cd00992	82	PDZ_signaling PDZ domain found in a variety of Eum	94.81
smart00531	147	TFIIE Transcription initiation factor IIE.	94.18
smart00228	85	PDZ Domain present in PSD-95, Dlg, and ZO-1/2. Als	93.93
PRK06266	178	transcription initiation factor E subunit alpha; V	93.71
PRK03681	114	hypA hydrogenase nickel incorporation protein; Val	93.6
cd00989	79	PDZ_metalloprotease PDZ domain of bacterial and pl	93.51
TIGR00373	158	conserved hypothetical protein TIGR00373. This fam	93.46
PF01155	113	HypA: Hydrogenase expression/synthesis hypA family	93.43
cd00990	80	PDZ_glycyl_aminopeptidase PDZ domain associated wi	93.3
PRK12380	113	hydrogenase nickel incorporation protein HybF; Pro	93.12
COG3357	97	Predicted transcriptional regulator containing an	92.98
TIGR00100	115	hypA hydrogenase nickel insertion protein HypA. In	92.68
PRK11823	446	DNA repair protein RadA; Provisional	92.63
cd00991	79	PDZ_archaeal_metalloprotease PDZ domain of archaea	92.6
smart00659	44	RPOLCX RNA polymerase subunit CX. present in RNA p	92.6
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	92.58
COG1545	140	Predicted nucleic-acid-binding protein containing	92.53
COG2331	82	Uncharacterized protein conserved in bacteria [Fun	91.93
cd00988	85	PDZ_CTP_protease PDZ domain of C-terminal processi	91.9
PRK00564	117	hypA hydrogenase nickel incorporation protein; Pro	91.9
cd00987	90	PDZ_serine_protease PDZ domain of tryspin-like ser	91.75
COG1996	49	RPC10 DNA-directed RNA polymerase, subunit RPC10 (	91.63
PF07295	146	DUF1451: Protein of unknown function (DUF1451); In	90.83
PF14311	55	DUF4379: Domain of unknown function (DUF4379)	90.66
KOG2906	105	consensus RNA polymerase III subunit C11 [Transcri	90.64
PF13248	26	zf-ribbon_3: zinc-ribbon domain	89.94
PRK05978	148	hypothetical protein; Provisional	89.54
PRK06260	397	threonine synthase; Validated	89.34
PRK06450	338	threonine synthase; Validated	89.34
COG1439	177	Predicted nucleic acid-binding protein, consists o	89.12
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	88.68
PF13397	105	DUF4109: Domain of unknown function (DUF4109)	88.16
PF13240	23	zinc_ribbon_2: zinc-ribbon domain	88.02
PRK00762	124	hypA hydrogenase nickel incorporation protein; Pro	87.93
PRK10779	449	zinc metallopeptidase RseP; Provisional	87.32
PRK08579	625	anaerobic ribonucleoside triphosphate reductase; P	86.84
PF09845	131	DUF2072: Zn-ribbon containing protein (DUF2072); I	86.65
PRK08271	623	anaerobic ribonucleoside triphosphate reductase; P	86.57
PF09538	108	FYDLN_acid: Protein of unknown function (FYDLN_aci	86.26
TIGR00686	109	phnA alkylphosphonate utilization operon protein P	86.11
PF12172	37	DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35	86.01
PF04641	260	Rtf2: Rtf2 RING-finger	85.78
PF03604	32	DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa	85.6
TIGR01384	104	TFS_arch transcription factor S, archaeal. There h	85.48
COG4640	465	Predicted membrane protein [Function unknown]	85.13
COG2093	64	DNA-directed RNA polymerase, subunit E'' [Transcri	84.82
PF14803	34	Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.	84.62
PRK07591	421	threonine synthase; Validated	84.52
PRK11788	389	tetratricopeptide repeat protein; Provisional	84.51
PRK10139	455	serine endoprotease; Provisional	84.33
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	84.05
TIGR00054	420	RIP metalloprotease RseP. A model that detects fra	83.72
PRK10220	111	hypothetical protein; Provisional	83.58
cd00986	79	PDZ_LON_protease PDZ domain of ATP-dependent LON s	82.85
PRK14890	59	putative Zn-ribbon RNA-binding protein; Provisiona	82.58
COG2260	59	Predicted Zn-ribbon RNA-binding protein [Translati	82.53
PF07754	24	DUF1610: Domain of unknown function (DUF1610); Int	82.51
TIGR02300	129	FYDLN_acid conserved hypothetical protein TIGR0230	82.5
PRK08270	656	anaerobic ribonucleoside triphosphate reductase; P	82.43
KOG3553	124	consensus Tax interaction protein TIP1 [Cell wall/	81.63
PF00641	30	zf-RanBP: Zn-finger in Ran binding protein and oth	81.08
PRK12775	1006	putative trifunctional 2-polyprenylphenol hydroxyl	81.0
TIGR02098	38	MJ0042_CXXC MJ0042 family finger-like domain. This	80.83
COG3364	112	Zn-ribbon containing protein [General function pre	80.56
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	80.48
PRK13130	56	H/ACA RNA-protein complex component Nop10p; Review	80.39
cd01675	555	RNR_III Class III ribonucleotide reductase. Ribonu	80.3

>COG2025 FixB Electron transfer flavoprotein, alpha subunit [Energy production and conversion]

Probab=99.95  E-value=3.4e-29  Score=230.07  Aligned_cols=106  Identities=22%  Similarity=0.230  Sum_probs=102.0

Q ss_pred             cccccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEE--------EeecCccceeeeeecCCcEEEEEeecc
Q 038893            6 GLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIE--------VEVDKPLGLTLGQKPGGGVVITAVEGG   77 (235)
Q Consensus         6 ~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~--------v~~~kplGl~~g~~~~~~vyIa~~isG   77 (235)
                      ...|++|++|||+     |||++++|+|+++++||+.|||++++|        ++.++|+|+ +|++++|+|||+.||||
T Consensus       189 ~~~L~~A~iVVsg-----GRG~gs~enf~~i~~LA~~LGa~VGaSRp~vd~gw~p~d~QVGq-TGk~V~P~LYIA~GISG  262 (313)
T COG2025         189 RVDLAEAKIVVSG-----GRGLGSKENFKLLEELADVLGAAVGASRPAVDAGWMPNDRQVGQ-TGKTVAPKLYIALGISG  262 (313)
T ss_pred             CCccccceEEEEc-----CcccCChhhhHHHHHHHHHhCceeeccHHHHhcCCCCccceecC-CCcEecccEEEEEeccc
Confidence            5679999999998     999999999999999999999999999        778899999 99999999999999999


Q ss_pred             hHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCceeeeecccc
Q 038893           78 GNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRL  138 (235)
Q Consensus        78 ~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~  138 (235)
                      +.||++||+.+                     ++|+|||+|++||||+++|||+++|++++
T Consensus       263 AiQHlaGm~~S---------------------k~IVAINkD~nAPIF~~ADyGiVgDl~~i  302 (313)
T COG2025         263 AIQHLAGMKDS---------------------KVIVAINKDPNAPIFQVADYGIVGDLFKI  302 (313)
T ss_pred             HHHHHhhcccC---------------------cEEEEEcCCCCCCccccCCeeeeeeHHHH
Confidence            99999999999                     57899999999999999999999999997

>PRK03363 fixB putative electron transfer flavoprotein FixB; Provisional

Probab=99.94  E-value=2.4e-28  Score=224.76  Aligned_cols=107  Identities=14%  Similarity=0.144  Sum_probs=100.9

Q ss_pred             ccccccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEE---------EeecCccceeeeeecCCcEEEEEee
Q 038893            5 QGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIE---------VEVDKPLGLTLGQKPGGGVVITAVE   75 (235)
Q Consensus         5 ~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~---------v~~~kplGl~~g~~~~~~vyIa~~i   75 (235)
                      ..++|++|++|||+     |||++++|||+++++||+.|||++++|         ++.++|+|+ +|++++|+|||++||
T Consensus       188 ~~v~L~~A~vVVsg-----GRG~~~~E~~~l~eeLA~~LGaavg~SRp~vd~~gW~p~~~QIGq-TGk~V~P~lYiA~GI  261 (313)
T PRK03363        188 NSVDLDKARLVVSV-----GRGIGSKENIALAEQLCKAIGAELACSRPVAENEKWMEHERYVGI-SNLMLKPELYLAVGI  261 (313)
T ss_pred             CCCCcccCCEEEEc-----CCCCCCHHHHHHHHHHHHHhCCeEEecHHHHccCCCCCHHheecC-CCCCcCccEEEEEcc
Confidence            36899999999999     999999999999999999999999999         344588998 899999999999999


Q ss_pred             cchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCceeeeecccc
Q 038893           76 GGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRL  138 (235)
Q Consensus        76 sG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~  138 (235)
                      ||++||++||+.+                     ++|+|||+||+||||+++|||+++|++++
T Consensus       262 SGaiQH~~Gm~~s---------------------~~IVAIN~Dp~APIF~~ADygiVgD~~ei  303 (313)
T PRK03363        262 SGQIQHMVGANAS---------------------QTIFAINKDKNAPIFQYADYGIVGDAVKI  303 (313)
T ss_pred             ccHHHHHhhcccC---------------------CEEEEEcCCCCCCchhhCCeeEeeeHHHH
Confidence            9999999999999                     47899999999999999999999999997

>PLN00022 electron transfer flavoprotein subunit alpha; Provisional

Probab=99.94  E-value=1.3e-27  Score=223.09  Aligned_cols=107  Identities=20%  Similarity=0.172  Sum_probs=102.3

Q ss_pred             ccccccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEE--------EeecCccceeeeeecCCcEEEEEeec
Q 038893            5 QGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIE--------VEVDKPLGLTLGQKPGGGVVITAVEG   76 (235)
Q Consensus         5 ~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~--------v~~~kplGl~~g~~~~~~vyIa~~is   76 (235)
                      +.++|++|++||++     |||++++|||+++++||+.|||++++|        ++.++|+|+ +|++++|+|||++|||
T Consensus       230 ~~~~L~~A~vVVsg-----GRGv~~~en~~l~eeLA~~LGaavGaSRp~vD~GW~p~~~QIGq-TGk~V~P~lYIA~GIS  303 (356)
T PLN00022        230 ERPDLGSAKVVVTG-----GRGLKSAENFKMLEKLADKLGGAVGASRAAVDAGFVPNDLQVGQ-TGKIVAPELYIAVGIS  303 (356)
T ss_pred             CCCCcccCCEEEEC-----CCccCCHHHHHHHHHHHHHhCCceeccHHHHhCCCCChHheecc-CCCCcCCcEEEEEecc
Confidence            35889999999999     999999999999999999999999999        667799999 9999999999999999


Q ss_pred             chHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCceeeeecccc
Q 038893           77 GGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRL  138 (235)
Q Consensus        77 G~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~  138 (235)
                      |++||++||+.+                     ++|+|||+||+||||+++|||+++|++++
T Consensus       304 GAiQH~~Gm~~s---------------------~~IVAIN~D~~APIF~~ADygIVgD~~ev  344 (356)
T PLN00022        304 GAIQHLAGMKDS---------------------KVIVAINKDADAPIFQVADYGLVADLFEA  344 (356)
T ss_pred             hHHHHHhhcccC---------------------CEEEEECCCCCCCchhhcCeeEeeeHHHH
Confidence            999999999999                     47899999999999999999999999997

>PRK11916 electron transfer flavoprotein subunit YdiR; Provisional

Probab=99.93  E-value=2.2e-27  Score=218.22  Aligned_cols=106  Identities=18%  Similarity=0.139  Sum_probs=100.1

Q ss_pred             cccccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEE---------EeecCccceeeeeecCCcEEEEEeec
Q 038893            6 GLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIE---------VEVDKPLGLTLGQKPGGGVVITAVEG   76 (235)
Q Consensus         6 ~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~---------v~~~kplGl~~g~~~~~~vyIa~~is   76 (235)
                      .++|++|++||++     |||+++++||+++++||+.|||++++|         ++.++|+|+ +|++++|+|||++|||
T Consensus       188 ~~~L~~A~vVV~~-----GrG~~~~e~~~~~~~LA~~LGaavG~SRp~vd~~gW~p~~~QIGq-TGk~V~P~lYiA~GIS  261 (312)
T PRK11916        188 SVDLSKAKRVVGV-----GRGLAAQDDLKMVHELAAVLNAEVGCSRPIAEGENWMERERYIGV-SGVLLKSDLYLTLGIS  261 (312)
T ss_pred             CCCcccCCEEEEC-----CCCCCChHHHHHHHHHHHHhCCEEEecHHHHccCCCCChhcEECC-CCCCcCccEEEEeccc
Confidence            5799999999999     999999999999999999999999999         344588998 8999999999999999


Q ss_pred             chHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCceeeeecccc
Q 038893           77 GGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRL  138 (235)
Q Consensus        77 G~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~  138 (235)
                      |+.||++||+.+                     ++|+|||+||+||||+++|||+++|++++
T Consensus       262 GAiQH~aGm~~s---------------------~~IVAIN~Dp~APIF~~ADygiVgD~~~v  302 (312)
T PRK11916        262 GQIQHMVGGNGA---------------------KVIVAINKDKNAPIFNYADYGLVGDIYKV  302 (312)
T ss_pred             cHHHHHhhcccC---------------------CEEEEECCCCCCCchhhCCeeEeeeHHHH
Confidence            999999999999                     57899999999999999999999999997

>KOG3954 consensus Electron transfer flavoprotein, alpha subunit [Energy production and conversion]

Probab=99.90  E-value=1.6e-24  Score=194.88  Aligned_cols=109  Identities=22%  Similarity=0.184  Sum_probs=99.7

Q ss_pred             ccccccccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEE--------EeecCccceeeeeecCCcEEEEEe
Q 038893            3 TLQGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIE--------VEVDKPLGLTLGQKPGGGVVITAV   74 (235)
Q Consensus         3 ~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~--------v~~~kplGl~~g~~~~~~vyIa~~   74 (235)
                      |-+--.|..|+++|+|     |||+++.|+|+++..||++|||+++++        ++-+-|+|+ .|+.+.|+|||+.|
T Consensus       209 kseRPdL~sAkvVVsG-----GR~LKs~enFkll~~LAdklgaavGAtRaaVDaGyvpNdlQiGQ-TGKIVAPeLYiAvG  282 (336)
T KOG3954|consen  209 KSERPDLTSAKVVVSG-----GRGLKSGENFKLLYDLADKLGAAVGATRAAVDAGYVPNDLQIGQ-TGKIVAPELYIAVG  282 (336)
T ss_pred             cccCCccccceEEEEC-----CcccCCcccceehHHHHHHhchhhchhhhhhccCcCCCcccccc-ccceeccceEEEEe
Confidence            3344578899999999     999999999999999999999999998        455577777 77789999999999


Q ss_pred             ecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCceeeeecccc
Q 038893           75 EGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRL  138 (235)
Q Consensus        75 isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~  138 (235)
                      |||++||.+|||.+                     ++|+|||+||+||||+++|||+++|++++
T Consensus       283 isGAIQHLAGmKDS---------------------KvIvAINkDpdAPIFqvAD~GlvgDLfki  325 (336)
T KOG3954|consen  283 ISGAIQHLAGMKDS---------------------KVIVAINKDPDAPIFQVADYGLVGDLFKI  325 (336)
T ss_pred             ccHHHHHhhcCccc---------------------eEEEEecCCCCCCceeeecccchhhHHHH
Confidence            99999999999999                     68999999999999999999999999986

>PF00766 ETF_alpha: Electron transfer flavoprotein FAD-binding domain; InterPro: IPR014731 Electron transfer flavoproteins (ETFs) serve as specific electron acceptors for primary dehydrogenases, transferring the electrons to terminal respiratory systems

Probab=99.77  E-value=2.3e-19  Score=137.55  Aligned_cols=77  Identities=17%  Similarity=0.233  Sum_probs=60.5

Q ss_pred             ccccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEE--------EeecCccceeeeeecCCcEEEEEeecch
Q 038893            7 LSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIE--------VEVDKPLGLTLGQKPGGGVVITAVEGGG   78 (235)
Q Consensus         7 ~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~--------v~~~kplGl~~g~~~~~~vyIa~~isG~   78 (235)
                      ++|++|++||+.     |||++++++|+++++||+.|||++++|        ++.++++|+ +|++++|+|||+++|||+
T Consensus         2 v~L~~A~~VV~~-----GrG~~~~e~~~l~~~LA~~lga~vg~SRp~vd~gw~p~~~qIG~-sG~~v~P~lyia~GISGa   75 (86)
T PF00766_consen    2 VDLEEAEVVVAG-----GRGVGSKENFELIEELAEALGAAVGASRPVVDAGWIPRERQIGQ-SGKTVAPKLYIAFGISGA   75 (86)
T ss_dssp             S-TCCSSEEEEE------GGG-STGGCHHHHHHHHHHT-EEEE-HHHHHTTSS-GGGBBST-TSB--T-SEEEEES----
T ss_pred             CCcccCCEEEEc-----CCCCCCHHHHHHHHHHHHHhCCchhccHHHHhCCCCchhhhcCC-CCcEEeeeeeEeecchhh
Confidence            689999999998     999999999999999999999999999        788899999 999999999999999999


Q ss_pred             HHHHhcCCcCc
Q 038893           79 NAAKAGLKSGD   89 (235)
Q Consensus        79 ~a~~~Gi~~gD   89 (235)
                      +||++||+.+|
T Consensus        76 ~qH~~Gi~~s~   86 (86)
T PF00766_consen   76 IQHLAGIKDSK   86 (86)
T ss_dssp             HHHHTTTTT-S
T ss_pred             HHHHhhhhcCC
Confidence            99999998764

They can be functionally classified into constitutive, "housekeeping" ETFs, mainly involved in the oxidation of fatty acids (Group I), and ETFs produced by some prokaryotes under specific growth conditions, receiving electrons only from the oxidation of specific substrates (Group II) []. ETFs are heterodimeric proteins composed of an alpha and beta subunit, and contain an FAD cofactor and AMP [, , , , ]. ETF consists of three domains: domains I and II are formed by the N- and C-terminal portions of the alpha subunit, respectively, while domain III is formed by the beta subunit. Domains I and III share an almost identical alpha-beta-alpha sandwich fold, while domain II forms an alpha-beta-alpha sandwich similar to that of bacterial flavodoxins. FAD is bound in a cleft between domains II and III, while domain III binds the AMP molecule. Interactions between domains I and III stabilise the protein, forming a shallow bowl where domain II resides. This entry represents the C-terminal domain of the alpha subunit of both Group I and Group II ETFs.; PDB: 1O96_D 3CLR_D 1O97_D 3CLT_D 3CLU_D 3CLS_D 2A1U_A 2A1T_R 1EFV_A 1EFP_C ....

>COG1773 Rubredoxin [Energy production and conversion]

Probab=99.57  E-value=1.6e-15  Score=107.31  Aligned_cols=43  Identities=42%  Similarity=0.929  Sum_probs=39.9

Q ss_pred             cceEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCeeeccC
Q 038893          158 RATHICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRFARYDV  200 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F~~~~~  200 (235)
                      |.+|+|++||||||++           |+|+++|++|.||.|+++|+.|+.++.
T Consensus         1 m~~~~C~~CG~vYd~e~Gdp~~gi~pgT~fedlPd~w~CP~Cg~~K~~F~~~~~   54 (55)
T COG1773           1 MKRWRCSVCGYVYDPEKGDPRCGIAPGTPFEDLPDDWVCPECGVGKKDFEMIDE   54 (55)
T ss_pred             CCceEecCCceEeccccCCccCCCCCCCchhhCCCccCCCCCCCCHhHeeeccC
Confidence            3579999999999998           899999999999999999999998764

>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center

Probab=99.52  E-value=4.1e-15  Score=103.51  Aligned_cols=39  Identities=46%  Similarity=0.971  Sum_probs=36.2

Q ss_pred             eEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCeeec
Q 038893          160 THICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRFARY  198 (235)
Q Consensus       160 ~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F~~~  198 (235)
                      +|+|++|||+||++           |+|++||++|+||+|+++|++|+.+
T Consensus         1 ~y~C~~CgyiYd~~~Gd~~~~i~pGt~f~~Lp~~w~CP~C~a~K~~F~~~   50 (50)
T cd00730           1 KYECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGAGKDDFEPL   50 (50)
T ss_pred             CcCCCCCCeEECCCCCCcccCcCCCCCHhHCCCCCCCCCCCCcHHHcEeC
Confidence            49999999999986           7999999999999999999999864

Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.

>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []

Probab=99.51  E-value=5.9e-15  Score=101.48  Aligned_cols=36  Identities=50%  Similarity=1.165  Sum_probs=29.9

Q ss_pred             eEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCe
Q 038893          160 THICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRF  195 (235)
Q Consensus       160 ~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F  195 (235)
                      +|+|++||||||++           |+|++||++|+||+|+++|++|
T Consensus         1 ky~C~~CgyvYd~~~Gd~~~~i~pGt~F~~Lp~~w~CP~C~a~K~~F   47 (47)
T PF00301_consen    1 KYQCPVCGYVYDPEKGDPENGIPPGTPFEDLPDDWVCPVCGAPKSDF   47 (47)
T ss_dssp             EEEETTTSBEEETTTBBGGGTB-TT--GGGS-TT-B-TTTSSBGGGE
T ss_pred             CcCCCCCCEEEcCCcCCcccCcCCCCCHHHCCCCCcCcCCCCccccC
Confidence            59999999999998           6999999999999999999998

The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....

>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional

Probab=99.19  E-value=8.9e-12  Score=120.56  Aligned_cols=45  Identities=29%  Similarity=0.705  Sum_probs=41.5

Q ss_pred             cccceEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCeeeccC
Q 038893          156 KARATHICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRFARYDV  200 (235)
Q Consensus       156 ~~~~~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F~~~~~  200 (235)
                      .....|+|+.|||+|||+           |+|+++|++|+||+|+++|++|+.+..
T Consensus       421 ~~~~~~~c~~c~~~yd~~~g~~~~~~~~gt~~~~lp~~~~cp~c~~~k~~f~~~~~  476 (479)
T PRK05452        421 DLGPRMQCSVCQWIYDPAKGEPMQDVAPGTPWSEVPDNFLCPECSLGKDVFDELAS  476 (479)
T ss_pred             CCCCeEEECCCCeEECCCCCCcccCCCCCCChhhCCCCCcCcCCCCcHHHhEeccc
Confidence            356789999999999997           799999999999999999999999865

>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center

Probab=99.08  E-value=6.6e-11  Score=75.44  Aligned_cols=33  Identities=42%  Similarity=1.014  Sum_probs=28.6

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeec
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARY  198 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~  198 (235)
                      .|+|++|||+|+++.      ++|+||+|++++++|+.+
T Consensus         1 ~~~C~~CGy~y~~~~------~~~~CP~Cg~~~~~F~~~   33 (33)
T cd00350           1 KYVCPVCGYIYDGEE------APWVCPVCGAPKDKFEKL   33 (33)
T ss_pred             CEECCCCCCEECCCc------CCCcCcCCCCcHHHcEEC
Confidence            499999999999842      568999999999999863

The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.

>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase

Probab=98.96  E-value=4.2e-10  Score=72.38  Aligned_cols=33  Identities=42%  Similarity=0.989  Sum_probs=28.8

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeec
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARY  198 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~  198 (235)
                      .|+|++|||+|+++    +.|+  +||+|+++++.|+.+
T Consensus         2 ~~~C~~CG~i~~g~----~~p~--~CP~Cg~~~~~F~~~   34 (34)
T cd00729           2 VWVCPVCGYIHEGE----EAPE--KCPICGAPKEKFEEF   34 (34)
T ss_pred             eEECCCCCCEeECC----cCCC--cCcCCCCchHHcEEC
Confidence            69999999999984    4566  999999999999863

In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.

>COG1592 Rubrerythrin [Energy production and conversion]

Probab=98.38  E-value=1.3e-07  Score=80.73  Aligned_cols=32  Identities=44%  Similarity=1.031  Sum_probs=28.4

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeec
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARY  198 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~  198 (235)
                      .|+|++|||+..+     +.|+  +||+|++|+..|+..
T Consensus       134 ~~vC~vCGy~~~g-----e~P~--~CPiCga~k~~F~~f  165 (166)
T COG1592         134 VWVCPVCGYTHEG-----EAPE--VCPICGAPKEKFEKF  165 (166)
T ss_pred             EEEcCCCCCcccC-----CCCC--cCCCCCChHHHhhcc
Confidence            8999999999988     4556  999999999999864

>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria

Probab=96.77  E-value=0.00097  Score=44.48  Aligned_cols=30  Identities=27%  Similarity=0.688  Sum_probs=26.8

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQA  190 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a  190 (235)
                      .|+|..||+.++...+..+ ++...||.|+.
T Consensus         5 ey~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~   34 (42)
T PF09723_consen    5 EYRCEECGHEFEVLQSISE-DDPVPCPECGS   34 (42)
T ss_pred             EEEeCCCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence            5899999999999888888 77789999988

The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.

>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family

Probab=96.62  E-value=0.0016  Score=44.64  Aligned_cols=31  Identities=19%  Similarity=0.562  Sum_probs=24.6

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      .|+|..||++|+...++++ ++...||.|++.
T Consensus         5 ey~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~~   35 (52)
T TIGR02605         5 EYRCTACGHRFEVLQKMSD-DPLATCPECGGE   35 (52)
T ss_pred             EEEeCCCCCEeEEEEecCC-CCCCCCCCCCCC
Confidence            5899999999988766555 444689999984

This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.

>smart00834 CxxC_CXXC_SSSS Putative regulatory protein

Probab=96.57  E-value=0.0018  Score=41.94  Aligned_cols=31  Identities=23%  Similarity=0.610  Sum_probs=24.1

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      .|+|+.||++|+......+ ++...||.|++.
T Consensus         5 ~y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~~   35 (41)
T smart00834        5 EYRCEDCGHTFEVLQKISD-DPLATCPECGGD   35 (41)
T ss_pred             EEEcCCCCCEEEEEEecCC-CCCCCCCCCCCc
Confidence            5899999999987655444 455689999983

CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.

>PF00595 PDZ: PDZ domain (Also known as DHR or GLGF) Coordinates are not yet available; InterPro: IPR001478 PDZ domains are found in diverse signalling proteins in bacteria, yeasts, plants, insects and vertebrates [, ]

Probab=95.89  E-value=0.017  Score=42.01  Aligned_cols=41  Identities=41%  Similarity=0.663  Sum_probs=35.0

Q ss_pred             CccceeeeeecC---CcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           55 KPLGLTLGQKPG---GGVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        55 kplGl~~g~~~~---~~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      .++|+.+....+   ..+||..+.+++.|+++|++.||.|..+.
T Consensus        10 ~~lG~~l~~~~~~~~~~~~V~~v~~~~~a~~~gl~~GD~Il~IN   53 (81)
T PF00595_consen   10 GPLGFTLRGGSDNDEKGVFVSSVVPGSPAERAGLKVGDRILEIN   53 (81)
T ss_dssp             SBSSEEEEEESTSSSEEEEEEEECTTSHHHHHTSSTTEEEEEET
T ss_pred             CCcCEEEEecCCCCcCCEEEEEEeCCChHHhcccchhhhhheeC
Confidence            689998777654   59999999999999999999999876553

PDZ domains can occur in one or multiple copies and are nearly always found in cytoplasmic proteins. They bind either the carboxyl-terminal sequences of proteins or internal peptide sequences []. In most cases, interaction between a PDZ domain and its target is constitutive, with a binding affinity of 1 to 10 microns. However, agonist-dependent activation of cell surface receptors is sometimes required to promote interaction with a PDZ protein. PDZ domain proteins are frequently associated with the plasma membrane, a compartment where high concentrations of phosphatidylinositol 4,5-bisphosphate (PIP2) are found. Direct interaction between PIP2 and a subset of class II PDZ domains (syntenin, CASK, Tiam-1) has been demonstrated. PDZ domains consist of 80 to 90 amino acids comprising six beta-strands (beta-A to beta-F) and two alpha-helices, A and B, compactly arranged in a globular structure. Peptide binding of the ligand takes place in an elongated surface groove as an anti-parallel beta-strand interacts with the beta-B strand and the B helix. The structure of PDZ domains allows binding to a free carboxylate group at the end of a peptide through a carboxylate-binding loop between the beta-A and beta-B strands.; GO: 0005515 protein binding; PDB: 3AXA_A 1WF8_A 1QAV_B 1QAU_A 1B8Q_A 1MC7_A 2KAW_A 1I16_A 1VB7_A 1WI4_A ....

>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional

Probab=95.83  E-value=0.0079  Score=49.54  Aligned_cols=35  Identities=26%  Similarity=0.649  Sum_probs=23.9

Q ss_pred             cceEEcCCCceEEeCC-----------CCCCCCC----CCCCCCCCCCCc
Q 038893          158 RATHICLDCGYIYFLQ-----------KPFDELP----DTYVCPQCQAPK  192 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~-----------tpfe~lp----ed~~CP~C~a~k  192 (235)
                      ...|+|+.||+++...           ++++-.|    ..++||.||...
T Consensus        68 p~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~  117 (135)
T PRK03824         68 EAVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRD  117 (135)
T ss_pred             ceEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCC
Confidence            4589999999999663           1222223    356899998753

>cd00136 PDZ PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif)

Probab=95.76  E-value=0.018  Score=40.36  Aligned_cols=40  Identities=40%  Similarity=0.669  Sum_probs=33.7

Q ss_pred             CccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           55 KPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      .++|+.+....+++++|..+.+++.++.+|++.||.|..+
T Consensus         1 ~~~G~~~~~~~~~~~~V~~v~~~s~a~~~gl~~GD~I~~I   40 (70)
T cd00136           1 GGLGFSIRGGTEGGVVVLSVEPGSPAERAGLQAGDVILAV   40 (70)
T ss_pred             CCccEEEecCCCCCEEEEEeCCCCHHHHcCCCCCCEEEEE
Confidence            3678877776566899999999999999999999987654

Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. Heterodimerization through PDZ-PDZ domain interactions adds to the domain's versatility, and PDZ domain-mediated interactions may be modulated dynamically through target phosphorylation. Some PDZ domains play a role in scaffolding supramolecular complexes. PDZ domains are found in diverse signaling proteins in bacteria, archebacteria, and eurkayotes. This CD contains two distinct structural subgroups with either a N- or C-terminal beta-strand forming the peptide-binding groove base. The circular permutation placing the strand on the N-terminus appears to be found in Eumetazoa only, while the C-terminal variant is found in all three kingdoms of life, and seems to co-occur with protease domains. PDZ domains have been named after PSD95(pos

>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2

Probab=95.75  E-value=0.01  Score=38.65  Aligned_cols=30  Identities=30%  Similarity=0.639  Sum_probs=22.1

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      +|.|+.||.+|.-...+..  .+..|..|+.+
T Consensus         1 Rr~C~~Cg~~Yh~~~~pP~--~~~~Cd~cg~~   30 (36)
T PF05191_consen    1 RRICPKCGRIYHIEFNPPK--VEGVCDNCGGE   30 (36)
T ss_dssp             EEEETTTTEEEETTTB--S--STTBCTTTTEB
T ss_pred             CcCcCCCCCccccccCCCC--CCCccCCCCCe
Confidence            5899999999998643333  34599999873

7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....

>PF13180 PDZ_2: PDZ domain; PDB: 2L97_A 1Y8T_A 2Z9I_A 1LCY_A 2PZD_B 2P3W_A 1VCW_C 1TE0_B 1SOZ_C 1SOT_C

Probab=95.58  E-value=0.02  Score=41.97  Aligned_cols=37  Identities=49%  Similarity=0.723  Sum_probs=29.1

Q ss_pred             cceeeeeec-CCcEEEEEeecchHHHHhcCCcCcceee
Q 038893           57 LGLTLGQKP-GGGVVITAVEGGGNAAKAGLKSGDQVLY   93 (235)
Q Consensus        57 lGl~~g~~~-~~~vyIa~~isG~~a~~~Gi~~gD~i~~   93 (235)
                      +|+.+.... ..+++|..+.+++.|+++|++.||+|..
T Consensus         3 lGv~~~~~~~~~g~~V~~V~~~spA~~aGl~~GD~I~~   40 (82)
T PF13180_consen    3 LGVTVQNLSDTGGVVVVSVIPGSPAAKAGLQPGDIILA   40 (82)
T ss_dssp             -SEEEEECSCSSSEEEEEESTTSHHHHTTS-TTEEEEE
T ss_pred             ECeEEEEccCCCeEEEEEeCCCCcHHHCCCCCCcEEEE
Confidence            566666654 3699999999999999999999998744

...

>PRK12496 hypothetical protein; Provisional

Probab=95.44  E-value=0.0098  Score=50.52  Aligned_cols=30  Identities=30%  Similarity=0.548  Sum_probs=22.2

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCe
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRF  195 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F  195 (235)
                      .|+|..||..|++.      ++...||+||++-.+.
T Consensus       127 ~~~C~gC~~~~~~~------~~~~~C~~CG~~~~r~  156 (164)
T PRK12496        127 RKVCKGCKKKYPED------YPDDVCEICGSPVKRK  156 (164)
T ss_pred             eEECCCCCccccCC------CCCCcCCCCCChhhhc
Confidence            47999999999762      2334899999975443

>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional

Probab=95.12  E-value=0.019  Score=38.65  Aligned_cols=31  Identities=29%  Similarity=0.434  Sum_probs=21.6

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPK  192 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k  192 (235)
                      |..|+|+.||..+.-.    +.-..++||-|+.+-
T Consensus         1 ~~~y~C~~CG~~~~~~----~~~~~~~Cp~CG~~~   31 (46)
T PRK00398          1 MAEYKCARCGREVELD----EYGTGVRCPYCGYRI   31 (46)
T ss_pred             CCEEECCCCCCEEEEC----CCCCceECCCCCCeE
Confidence            3479999999877552    111257999998753

>cd00992 PDZ_signaling PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements

Probab=94.81  E-value=0.052  Score=38.84  Aligned_cols=40  Identities=38%  Similarity=0.709  Sum_probs=32.8

Q ss_pred             CccceeeeeecC--CcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           55 KPLGLTLGQKPG--GGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~~~--~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      .++|+.+....+  .+++|..+.+++.++++|++.||+|..+
T Consensus        12 ~~~G~~~~~~~~~~~~~~V~~v~~~s~a~~~gl~~GD~I~~i   53 (82)
T cd00992          12 GGLGFSLRGGKDSGGGIFVSRVEPGGPAERGGLRVGDRILEV   53 (82)
T ss_pred             CCcCEEEeCcccCCCCeEEEEECCCChHHhCCCCCCCEEEEE
Confidence            678887665432  6899999999999999999999987543

May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of PDZ domains an N-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in proteases.

>smart00531 TFIIE Transcription initiation factor IIE

Probab=94.18  E-value=0.023  Score=47.15  Aligned_cols=38  Identities=21%  Similarity=0.542  Sum_probs=25.7

Q ss_pred             ccceEEcCCCceEEeCCC--CCCCCCCCCCCCCCCCCccC
Q 038893          157 ARATHICLDCGYIYFLQK--PFDELPDTYVCPQCQAPKKR  194 (235)
Q Consensus       157 ~~~~y~C~~CGyvyd~~t--pfe~lped~~CP~C~a~k~~  194 (235)
                      ....|+|+.||..|.-..  ...+.+..+.||.|+..-..
T Consensus        96 ~~~~Y~Cp~C~~~y~~~ea~~~~d~~~~f~Cp~Cg~~l~~  135 (147)
T smart00531       96 NNAYYKCPNCQSKYTFLEANQLLDMDGTFTCPRCGEELEE  135 (147)
T ss_pred             CCcEEECcCCCCEeeHHHHHHhcCCCCcEECCCCCCEEEE
Confidence            356899999998887641  12122334999999986433

>smart00228 PDZ Domain present in PSD-95, Dlg, and ZO-1/2

Probab=93.93  E-value=0.098  Score=37.24  Aligned_cols=40  Identities=48%  Similarity=0.655  Sum_probs=32.2

Q ss_pred             CccceeeeeecC--CcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           55 KPLGLTLGQKPG--GGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~~~--~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      ..+|+.+.....  ++++|..+.+++.++++|++.||.|..+
T Consensus        12 ~~~G~~~~~~~~~~~~~~i~~v~~~s~a~~~gl~~GD~I~~I   53 (85)
T smart00228       12 GGLGFSLVGGKDEGGGVVVSSVVPGSPAAKAGLKVGDVILEV   53 (85)
T ss_pred             CcccEEEECCCCCCCCEEEEEECCCCHHHHcCCCCCCEEEEE
Confidence            457776655433  6899999999999999999999987554

Also called DHR (Dlg homologous region) or GLGF (relatively well conserved tetrapeptide in these domains). Some PDZs have been shown to bind C-terminal polypeptides; others appear to bind internal (non-C-terminal) polypeptides. Different PDZs possess different binding specificities.

>PRK06266 transcription initiation factor E subunit alpha; Validated

Probab=93.71  E-value=0.027  Score=48.47  Aligned_cols=37  Identities=16%  Similarity=0.546  Sum_probs=26.9

Q ss_pred             ccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCee
Q 038893          157 ARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFA  196 (235)
Q Consensus       157 ~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~  196 (235)
                      ...-|+|+.|+..|.-.   +....+|.||.|+..-..+.
T Consensus       114 ~~~~Y~Cp~C~~rytf~---eA~~~~F~Cp~Cg~~L~~~d  150 (178)
T PRK06266        114 NNMFFFCPNCHIRFTFD---EAMEYGFRCPQCGEMLEEYD  150 (178)
T ss_pred             CCCEEECCCCCcEEeHH---HHhhcCCcCCCCCCCCeecc
Confidence            34579999999777543   23445899999998766554

>PRK03681 hypA hydrogenase nickel incorporation protein; Validated

Probab=93.60  E-value=0.061  Score=43.10  Aligned_cols=30  Identities=27%  Similarity=0.476  Sum_probs=21.4

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPK  192 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k  192 (235)
                      ....+|+.||+.|...     ....+.||.|+...
T Consensus        68 p~~~~C~~Cg~~~~~~-----~~~~~~CP~Cgs~~   97 (114)
T PRK03681         68 EAECWCETCQQYVTLL-----TQRVRRCPQCHGDM   97 (114)
T ss_pred             CcEEEcccCCCeeecC-----CccCCcCcCcCCCC
Confidence            4579999999988652     11226799998753

>cd00989 PDZ_metalloprotease PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms

Probab=93.51  E-value=0.23  Score=35.33  Aligned_cols=54  Identities=33%  Similarity=0.342  Sum_probs=36.0

Q ss_pred             ceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcC
Q 038893           58 GLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK  118 (235)
Q Consensus        58 Gl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~  118 (235)
                      |..+|.. ...+.|..+.+++.++.+|++.||+|..+-.      ++.........+++..
T Consensus         4 ~~~~g~~-~~~~~V~~v~~~s~a~~~gl~~GD~I~~ing------~~i~~~~~~~~~l~~~   57 (79)
T cd00989           4 GFVPGGP-PIEPVIGEVVPGSPAAKAGLKAGDRILAING------QKIKSWEDLVDAVQEN   57 (79)
T ss_pred             eEeccCC-ccCcEEEeECCCCHHHHcCCCCCCEEEEECC------EECCCHHHHHHHHHHC
Confidence            4444443 2458899999999999999999999876522      3444444444555443

May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.

>TIGR00373 conserved hypothetical protein TIGR00373

Probab=93.46  E-value=0.023  Score=47.91  Aligned_cols=37  Identities=16%  Similarity=0.430  Sum_probs=26.3

Q ss_pred             ccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCee
Q 038893          157 ARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFA  196 (235)
Q Consensus       157 ~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~  196 (235)
                      ...-|.|+.|+..|.-.   +.+..+|.||.||.+-..+.
T Consensus       106 ~~~~Y~Cp~c~~r~tf~---eA~~~~F~Cp~Cg~~L~~~d  142 (158)
T TIGR00373       106 NNMFFICPNMCVRFTFN---EAMELNFTCPRCGAMLDYLD  142 (158)
T ss_pred             CCCeEECCCCCcEeeHH---HHHHcCCcCCCCCCEeeecc
Confidence            45679999999766443   23445899999998755443

This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.

>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation

Probab=93.43  E-value=0.024  Score=45.24  Aligned_cols=29  Identities=34%  Similarity=0.788  Sum_probs=19.2

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPK  192 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k  192 (235)
                      ....+|..||+.|...    +  ..+.||.|+...
T Consensus        68 p~~~~C~~Cg~~~~~~----~--~~~~CP~Cgs~~   96 (113)
T PF01155_consen   68 PARARCRDCGHEFEPD----E--FDFSCPRCGSPD   96 (113)
T ss_dssp             --EEEETTTS-EEECH----H--CCHH-SSSSSS-
T ss_pred             CCcEECCCCCCEEecC----C--CCCCCcCCcCCC
Confidence            4579999999999884    1  225899998864

The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.

>cd00990 PDZ_glycyl_aminopeptidase PDZ domain associated with archaeal and bacterial M61 glycyl-aminopeptidases

Probab=93.30  E-value=0.15  Score=36.63  Aligned_cols=37  Identities=41%  Similarity=0.534  Sum_probs=31.0

Q ss_pred             cceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           57 LGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        57 lGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      +|+.+... ++++.|..+.+++.+..+|++.||+|..+
T Consensus         3 ~G~~~~~~-~~~~~V~~V~~~s~a~~aGl~~GD~I~~I   39 (80)
T cd00990           3 LGLTLDKE-EGLGKVTFVRDDSPADKAGLVAGDELVAV   39 (80)
T ss_pred             ccEEEEcc-CCcEEEEEECCCChHHHhCCCCCCEEEEE
Confidence            67766443 56799999999999999999999988665

May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand is presumed to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.

>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional

Probab=93.12  E-value=0.083  Score=42.25  Aligned_cols=29  Identities=24%  Similarity=0.699  Sum_probs=21.7

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPK  192 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k  192 (235)
                      ....+|+.||+.+...    +  ..+.||.|+.+.
T Consensus        68 p~~~~C~~Cg~~~~~~----~--~~~~CP~Cgs~~   96 (113)
T PRK12380         68 PAQAWCWDCSQVVEIH----Q--HDAQCPHCHGER   96 (113)
T ss_pred             CcEEEcccCCCEEecC----C--cCccCcCCCCCC
Confidence            4579999999888662    1  345799998753

>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]

Probab=92.98  E-value=0.048  Score=42.71  Aligned_cols=29  Identities=28%  Similarity=0.722  Sum_probs=21.5

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQA  190 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a  190 (235)
                      +..-+|+.|||+++.+.  =..|.  +||.|..
T Consensus        56 v~Pa~CkkCGfef~~~~--ik~pS--RCP~CKS   84 (97)
T COG3357          56 VRPARCKKCGFEFRDDK--IKKPS--RCPKCKS   84 (97)
T ss_pred             ecChhhcccCccccccc--cCCcc--cCCcchh
Confidence            44569999999998841  13455  9999976

>TIGR00100 hypA hydrogenase nickel insertion protein HypA

Probab=92.68  E-value=0.1  Score=41.76  Aligned_cols=29  Identities=28%  Similarity=0.539  Sum_probs=22.2

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPK  192 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k  192 (235)
                      ....+|+.||+.|...    +  ..+.||.|+.+.
T Consensus        68 p~~~~C~~Cg~~~~~~----~--~~~~CP~Cgs~~   96 (115)
T TIGR00100        68 PVECECEDCSEEVSPE----I--DLYRCPKCHGIM   96 (115)
T ss_pred             CcEEEcccCCCEEecC----C--cCccCcCCcCCC
Confidence            4478999999999773    1  246899998764

In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.

>PRK11823 DNA repair protein RadA; Provisional

Probab=92.63  E-value=0.062  Score=52.09  Aligned_cols=26  Identities=27%  Similarity=0.501  Sum_probs=20.6

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      ...|+|..|||.+-.        =-|+||.|++-
T Consensus         5 ~~~y~C~~Cg~~~~~--------~~g~Cp~C~~w   30 (446)
T PRK11823          5 KTAYVCQECGAESPK--------WLGRCPECGAW   30 (446)
T ss_pred             CCeEECCcCCCCCcc--------cCeeCcCCCCc
Confidence            347999999999854        25899999663

>cd00991 PDZ_archaeal_metalloprotease PDZ domain of archaeal zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms

Probab=92.60  E-value=0.36  Score=35.26  Aligned_cols=46  Identities=30%  Similarity=0.286  Sum_probs=33.5

Q ss_pred             CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhc
Q 038893           66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQA  117 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~  117 (235)
                      ..+++|..+.+++.++.+|++.||+|..+      +-++.+.+.....++..
T Consensus         9 ~~Gv~V~~V~~~spa~~aGL~~GDiI~~I------ng~~v~~~~d~~~~l~~   54 (79)
T cd00991           9 VAGVVIVGVIVGSPAENAVLHTGDVIYSI------NGTPITTLEDFMEALKP   54 (79)
T ss_pred             CCcEEEEEECCCChHHhcCCCCCCEEEEE------CCEEcCCHHHHHHHHhc
Confidence            45799999999999999999999998765      33444444444444543

May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.

>smart00659 RPOLCX RNA polymerase subunit CX

Probab=92.60  E-value=0.11  Score=35.21  Aligned_cols=27  Identities=26%  Similarity=0.522  Sum_probs=21.3

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      .|+|..||...+..     ..+.-+||.||+.
T Consensus         2 ~Y~C~~Cg~~~~~~-----~~~~irC~~CG~r   28 (44)
T smart00659        2 IYICGECGRENEIK-----SKDVVRCRECGYR   28 (44)
T ss_pred             EEECCCCCCEeecC-----CCCceECCCCCce
Confidence            59999999988763     2345699999874

present in RNA polymerase I, II and III

>TIGR00416 sms DNA repair protein RadA

Probab=92.58  E-value=0.056  Score=52.59  Aligned_cols=25  Identities=28%  Similarity=0.493  Sum_probs=20.2

Q ss_pred             ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      ..|+|..|||.+-.        =-|+||.|++-
T Consensus         6 ~~y~C~~Cg~~~~~--------~~g~Cp~C~~w   30 (454)
T TIGR00416         6 SKFVCQHCGADSPK--------WQGKCPACHAW   30 (454)
T ss_pred             CeEECCcCCCCCcc--------ccEECcCCCCc
Confidence            47999999998854        25899999763

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]

Probab=92.53  E-value=0.11  Score=42.94  Aligned_cols=34  Identities=24%  Similarity=0.679  Sum_probs=24.4

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCcc-Ceeecc
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKK-RFARYD  199 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~-~F~~~~  199 (235)
                      .-.-+|+.||++|-|-        .-.||.|+.+.+ .+.++.
T Consensus        27 l~g~kC~~CG~v~~PP--------r~~Cp~C~~~~~~E~vels   61 (140)
T COG1545          27 LLGTKCKKCGRVYFPP--------RAYCPKCGSETELEWVELS   61 (140)
T ss_pred             EEEEEcCCCCeEEcCC--------cccCCCCCCCCceEEEEeC
Confidence            3356999999999872        248999999853 444443

>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.93  E-value=0.033  Score=42.35  Aligned_cols=31  Identities=23%  Similarity=0.573  Sum_probs=26.0

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      .|+|..|||.||--..+.|.|. -.||.|+++
T Consensus        12 ~Y~c~~cg~~~dvvq~~~ddpl-t~ce~c~a~   42 (82)
T COG2331          12 SYECTECGNRFDVVQAMTDDPL-TTCEECGAR   42 (82)
T ss_pred             EEeecccchHHHHHHhcccCcc-ccChhhChH
Confidence            6899999999988767777776 489999884

>cd00988 PDZ_CTP_protease PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts

Probab=91.90  E-value=0.71  Score=33.28  Aligned_cols=37  Identities=49%  Similarity=0.726  Sum_probs=29.9

Q ss_pred             cceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           57 LGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        57 lGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      +|+.+.. ...+++|..+.+++.++.+|++.||.|..+
T Consensus         4 lG~~~~~-~~~~~~V~~v~~~s~a~~~gl~~GD~I~~v   40 (85)
T cd00988           4 IGLELKY-DDGGLVITSVLPGSPAAKAGIKAGDIIVAI   40 (85)
T ss_pred             EEEEEEE-cCCeEEEEEecCCCCHHHcCCCCCCEEEEE
Confidence            4555533 357799999999999999999999998765

May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.

>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional

Probab=91.90  E-value=0.11  Score=41.68  Aligned_cols=30  Identities=27%  Similarity=0.644  Sum_probs=20.5

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPK  192 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k  192 (235)
                      ....+|..||+.+...    +. ...+||.|+.+.
T Consensus        69 p~~~~C~~Cg~~~~~~----~~-~~~~CP~Cgs~~   98 (117)
T PRK00564         69 KVELECKDCSHVFKPN----AL-DYGVCEKCHSKN   98 (117)
T ss_pred             CCEEEhhhCCCccccC----Cc-cCCcCcCCCCCc
Confidence            4479999999877552    11 123599999764

>cd00987 PDZ_serine_protease PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis

Probab=91.75  E-value=0.49  Score=34.26  Aligned_cols=59  Identities=37%  Similarity=0.523  Sum_probs=38.9

Q ss_pred             CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcC--CCCceEEecCce
Q 038893           66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK--PDSVYFVVNRGG  130 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~--~~a~if~~~~~g  130 (235)
                      ..+++|..+.+++.++.+|++.||+|..+      +-++..+......++...  .+...+.+.+.|
T Consensus        23 ~~g~~V~~v~~~s~a~~~gl~~GD~I~~I------ng~~i~~~~~~~~~l~~~~~~~~i~l~v~r~g   83 (90)
T cd00987          23 TKGVLVASVDPGSPAAKAGLKPGDVILAV------NGKPVKSVADLRRALAELKPGDKVTLTVLRGG   83 (90)
T ss_pred             CCEEEEEEECCCCHHHHcCCCcCCEEEEE------CCEECCCHHHHHHHHHhcCCCCEEEEEEEECC
Confidence            45799999999999999999999988655      233444444445555443  233445544433

May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.

>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]

Probab=91.63  E-value=0.12  Score=36.07  Aligned_cols=31  Identities=26%  Similarity=0.454  Sum_probs=22.8

Q ss_pred             ccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          157 ARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       157 ~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      ++..|+|..||-.++..    ..-..-+||-|++.
T Consensus         3 ~~~~Y~C~~Cg~~~~~~----~~~~~irCp~Cg~r   33 (49)
T COG1996           3 AMMEYKCARCGREVELD----QETRGIRCPYCGSR   33 (49)
T ss_pred             ceEEEEhhhcCCeeehh----hccCceeCCCCCcE
Confidence            45689999999999642    22345699999873

>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length

Probab=90.83  E-value=0.24  Score=41.64  Aligned_cols=34  Identities=35%  Similarity=0.787  Sum_probs=24.7

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeee
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFAR  197 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~  197 (235)
                      ...|+|..|||...=.+ ++.+|.   ||.|++.  .|.+
T Consensus       110 ~G~l~C~~Cg~~~~~~~-~~~l~~---Cp~C~~~--~F~R  143 (146)
T PF07295_consen  110 PGTLVCENCGHEVELTH-PERLPP---CPKCGHT--EFTR  143 (146)
T ss_pred             CceEecccCCCEEEecC-CCcCCC---CCCCCCC--eeee
Confidence            56899999998765543 356776   9999874  4543

Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.

>PF14311 DUF4379: Domain of unknown function (DUF4379)

Probab=90.66  E-value=0.19  Score=34.83  Aligned_cols=31  Identities=23%  Similarity=0.443  Sum_probs=20.8

Q ss_pred             ccceEEcCCCceEEeCCCCCCCCCCCCCCCCC
Q 038893          157 ARATHICLDCGYIYFLQKPFDELPDTYVCPQC  188 (235)
Q Consensus       157 ~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C  188 (235)
                      ....|+|+.|||.|..... .-....-.||.|
T Consensus        25 ~~v~W~C~~Cgh~w~~~v~-~R~~~~~~CP~C   55 (55)
T PF14311_consen   25 KKVWWKCPKCGHEWKASVN-DRTRRGKGCPYC   55 (55)
T ss_pred             CEEEEECCCCCCeeEccHh-hhccCCCCCCCC
Confidence            3557999999999988521 111234479988

>KOG2906 consensus RNA polymerase III subunit C11 [Transcription]

Probab=90.64  E-value=0.27  Score=39.08  Aligned_cols=43  Identities=16%  Similarity=0.587  Sum_probs=30.9

Q ss_pred             cceEEcCCCceEEeCC---------------------CCCCCCCC-CCCCCCCCCCccCeeeccC
Q 038893          158 RATHICLDCGYIYFLQ---------------------KPFDELPD-TYVCPQCQAPKKRFARYDV  200 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~---------------------tpfe~lpe-d~~CP~C~a~k~~F~~~~~  200 (235)
                      ..++-|+.|+|+|.=+                     ..|+.+.. +-.||.|++++.+|.++..
T Consensus        19 ~~rf~C~tCpY~~~I~~ei~~r~~~~~Kevd~vlgg~~a~~nv~~t~~~Cp~Cgh~rayF~qlQt   83 (105)
T KOG2906|consen   19 CNRFSCRTCPYVFPISREISSRKYPKLKEVDDVLGGDEAWENVDQTEATCPTCGHERAYFMQLQT   83 (105)
T ss_pred             EeeEEcCCCCceeeEeeeeeccccCchhhhhhhcCCcccccchhhccCcCCCCCCCceEEEEeee
Confidence            4678999999998654                     02222211 3489999999999998744

>PF13248 zf-ribbon_3: zinc-ribbon domain

Probab=89.94  E-value=0.13  Score=30.92  Aligned_cols=23  Identities=35%  Similarity=0.756  Sum_probs=17.8

Q ss_pred             EEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      ..|+.||...++        ++..||.||++
T Consensus         3 ~~Cp~Cg~~~~~--------~~~fC~~CG~~   25 (26)
T PF13248_consen    3 MFCPNCGAEIDP--------DAKFCPNCGAK   25 (26)
T ss_pred             CCCcccCCcCCc--------ccccChhhCCC
Confidence            579999996544        35689999975

>PRK05978 hypothetical protein; Provisional

Probab=89.54  E-value=0.71  Score=38.99  Aligned_cols=27  Identities=26%  Similarity=0.600  Sum_probs=19.4

Q ss_pred             eEEcCCCc--eEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          160 THICLDCG--YIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       160 ~y~C~~CG--yvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      .-+|+.||  ..|.+   |-++.+  .||.|+.+
T Consensus        33 ~grCP~CG~G~LF~g---~Lkv~~--~C~~CG~~   61 (148)
T PRK05978         33 RGRCPACGEGKLFRA---FLKPVD--HCAACGED   61 (148)
T ss_pred             cCcCCCCCCCccccc---ccccCC--CccccCCc
Confidence            46999999  55554   334545  89999874

>PRK06260 threonine synthase; Validated

Probab=89.34  E-value=0.23  Score=47.15  Aligned_cols=27  Identities=33%  Similarity=0.817  Sum_probs=20.7

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQA  190 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a  190 (235)
                      |..++|..||+.|+..    ..  .|.||.|+.
T Consensus         1 ~~~~~C~~cg~~~~~~----~~--~~~Cp~cg~   27 (397)
T PRK06260          1 MYWLKCIECGKEYDPD----EI--IYTCPECGG   27 (397)
T ss_pred             CCEEEECCCCCCCCCC----Cc--cccCCCCCC
Confidence            3468999999999763    22  479999965

>PRK06450 threonine synthase; Validated

Probab=89.34  E-value=0.21  Score=46.65  Aligned_cols=25  Identities=24%  Similarity=0.623  Sum_probs=19.6

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      .++|..||+.|++       +..|+||.|+.+
T Consensus         3 ~~~C~~Cg~~~~~-------~~~~~C~~cg~~   27 (338)
T PRK06450          3 KEVCMKCGKERES-------IYEIRCKKCGGP   27 (338)
T ss_pred             eeEECCcCCcCCC-------cccccCCcCCCE
Confidence            5899999999954       224799999754

>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]

Probab=89.12  E-value=0.27  Score=42.68  Aligned_cols=24  Identities=29%  Similarity=0.686  Sum_probs=19.9

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      .|+|..|+.+|.+        +...||.||++
T Consensus       139 ~~rC~GC~~~f~~--------~~~~Cp~CG~~  162 (177)
T COG1439         139 RLRCHGCKRIFPE--------PKDFCPICGSP  162 (177)
T ss_pred             eEEEecCceecCC--------CCCcCCCCCCc
Confidence            5799999999974        23489999997

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=88.68  E-value=0.15  Score=48.52  Aligned_cols=23  Identities=30%  Similarity=0.700  Sum_probs=18.2

Q ss_pred             EEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      |+|..|||.+-.        =-|+||.|++-
T Consensus         1 ~~c~~cg~~~~~--------~~g~cp~c~~w   23 (372)
T cd01121           1 YVCSECGYVSPK--------WLGKCPECGEW   23 (372)
T ss_pred             CCCCCCCCCCCC--------ccEECcCCCCc
Confidence            789999998844        24799999663

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>PF13397 DUF4109: Domain of unknown function (DUF4109)

Probab=88.16  E-value=0.53  Score=37.70  Aligned_cols=38  Identities=29%  Similarity=0.567  Sum_probs=28.4

Q ss_pred             cccceEEcCCCceEEeCCC-CCCCCCCCCCCCCCCCCccC
Q 038893          156 KARATHICLDCGYIYFLQK-PFDELPDTYVCPQCQAPKKR  194 (235)
Q Consensus       156 ~~~~~y~C~~CGyvyd~~t-pfe~lped~~CP~C~a~k~~  194 (235)
                      .....|.|.. ||.+.... .=.++|+.|-||.||.+...
T Consensus        24 R~~v~Y~C~~-Gh~~~v~Fa~eAevP~~WeC~~cG~~A~~   62 (105)
T PF13397_consen   24 RQRVSYWCPN-GHETEVPFAAEAEVPATWECPRCGLPAGR   62 (105)
T ss_pred             ceEEEEECCC-CCEEeccccccCCCCCceeCCCCCCcccc
Confidence            4456899999 99887741 11369999999999987543

>PF13240 zinc_ribbon_2: zinc-ribbon domain

Probab=88.02  E-value=0.2  Score=29.48  Aligned_cols=22  Identities=36%  Similarity=0.865  Sum_probs=17.0

Q ss_pred             EcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          162 ICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       162 ~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      .|+.||...++        +...||.||++
T Consensus         1 ~Cp~CG~~~~~--------~~~fC~~CG~~   22 (23)
T PF13240_consen    1 YCPNCGAEIED--------DAKFCPNCGTP   22 (23)
T ss_pred             CCcccCCCCCC--------cCcchhhhCCc
Confidence            48999988866        23479999975

>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional

Probab=87.93  E-value=0.39  Score=38.98  Aligned_cols=34  Identities=24%  Similarity=0.633  Sum_probs=20.4

Q ss_pred             cceEEcCCCceEEeCCC-CCCCCCCCCCCCCCCCCc
Q 038893          158 RATHICLDCGYIYFLQK-PFDELPDTYVCPQCQAPK  192 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~t-pfe~lped~~CP~C~a~k  192 (235)
                      ....+| .||+.|.... +....--.+.||.|+...
T Consensus        68 p~~~~C-~Cg~~~~~~~~~~~~~~~~~~CP~Cgs~~  102 (124)
T PRK00762         68 PVEIEC-ECGYEGVVDEDEIDHYAAVIECPVCGNKR  102 (124)
T ss_pred             CeeEEe-eCcCcccccccchhccccCCcCcCCCCCC
Confidence            457999 9998876521 000000125899998654

>PRK10779 zinc metallopeptidase RseP; Provisional

Probab=87.32  E-value=2.8  Score=40.58  Aligned_cols=58  Identities=24%  Similarity=0.412  Sum_probs=41.7

Q ss_pred             cEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCC-CceEEecCcee
Q 038893           68 GVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPD-SVYFVVNRGGA  131 (235)
Q Consensus        68 ~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~-a~if~~~~~g~  131 (235)
                      ++.|..+.+|+.|+.+|++.||+|..+      +.++.++..+...++..+++ ...+.+.|.|.
T Consensus       222 ~~vV~~V~~~SpA~~AGL~~GDvIl~I------ng~~V~s~~dl~~~l~~~~~~~v~l~v~R~g~  280 (449)
T PRK10779        222 EPVLAEVQPNSAASKAGLQAGDRIVKV------DGQPLTQWQTFVTLVRDNPGKPLALEIERQGS  280 (449)
T ss_pred             CcEEEeeCCCCHHHHcCCCCCCEEEEE------CCEEcCCHHHHHHHHHhCCCCEEEEEEEECCE
Confidence            489999999999999999999999766      23455555555556655443 45667777663

>PRK08579 anaerobic ribonucleoside triphosphate reductase; Provisional

Probab=86.84  E-value=0.32  Score=49.49  Aligned_cols=25  Identities=28%  Similarity=0.554  Sum_probs=19.5

Q ss_pred             ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      ..-+|..|||.+.+        ..+.||.|+..
T Consensus       567 ~~~~C~~CG~~~~g--------~~~~CP~CGs~  591 (625)
T PRK08579        567 AITVCNKCGRSTTG--------LYTRCPRCGSE  591 (625)
T ss_pred             CCccCCCCCCccCC--------CCCcCcCCCCc
Confidence            35699999998755        25699999863

>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function

Probab=86.65  E-value=0.27  Score=40.83  Aligned_cols=36  Identities=25%  Similarity=0.600  Sum_probs=26.0

Q ss_pred             EEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeeccC
Q 038893          161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDV  200 (235)
Q Consensus       161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~~~  200 (235)
                      |+|..||.+|+...  .++=  -=||.||..|=+|.+-..
T Consensus         2 H~Ct~Cg~~f~dgs--~eil--~GCP~CGg~kF~yv~~~~   37 (131)
T PF09845_consen    2 HQCTKCGRVFEDGS--KEIL--SGCPECGGNKFQYVPEEK   37 (131)
T ss_pred             cccCcCCCCcCCCc--HHHH--ccCcccCCcceEEcCCCc
Confidence            79999999997631  0122  259999998888876544

>PRK08271 anaerobic ribonucleoside triphosphate reductase; Provisional

Probab=86.57  E-value=0.34  Score=49.25  Aligned_cols=25  Identities=32%  Similarity=0.568  Sum_probs=19.2

Q ss_pred             ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      ..-+|..|||+..+        +.+.||.|+..
T Consensus       565 ~~~iC~~CG~~~~g--------~~~~CP~CGs~  589 (623)
T PRK08271        565 KITICNDCHHIDKR--------TGKRCPICGSE  589 (623)
T ss_pred             CCccCCCCCCcCCC--------CCcCCcCCCCc
Confidence            34599999998654        35799999863

>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues

Probab=86.26  E-value=0.41  Score=38.29  Aligned_cols=29  Identities=28%  Similarity=0.754  Sum_probs=21.3

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      .+.+.|+.||..|+-.   ..-|.  +||-||+.
T Consensus         7 GtKR~Cp~CG~kFYDL---nk~Pi--vCP~CG~~   35 (108)
T PF09538_consen    7 GTKRTCPSCGAKFYDL---NKDPI--VCPKCGTE   35 (108)
T ss_pred             CCcccCCCCcchhccC---CCCCc--cCCCCCCc
Confidence            3468999999776653   34555  89999873

The function of members of this family is unknown.

>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA

Probab=86.11  E-value=0.4  Score=38.62  Aligned_cols=23  Identities=30%  Similarity=0.839  Sum_probs=16.5

Q ss_pred             EcCCCc--eEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          162 ICLDCG--YIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       162 ~C~~CG--yvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      .|+.|+  |+|..       .+.|.||.|++.
T Consensus         4 ~CP~C~seytY~d-------g~~~iCpeC~~E   28 (109)
T TIGR00686         4 PCPKCNSEYTYHD-------GTQLICPSCLYE   28 (109)
T ss_pred             cCCcCCCcceEec-------CCeeECcccccc
Confidence            588888  67744       356889999774

The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).

>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins

Probab=86.01  E-value=0.4  Score=30.65  Aligned_cols=26  Identities=38%  Similarity=0.892  Sum_probs=15.5

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      ...-+|..||.++.+       | ...||.|++.
T Consensus         9 l~~~rC~~Cg~~~~p-------P-r~~Cp~C~s~   34 (37)
T PF12172_consen    9 LLGQRCRDCGRVQFP-------P-RPVCPHCGSD   34 (37)
T ss_dssp             EEEEE-TTT--EEES----------SEETTTT--
T ss_pred             EEEEEcCCCCCEecC-------C-CcCCCCcCcc
Confidence            446799999999877       2 2589999753

The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.

>PF04641 Rtf2: Rtf2 RING-finger

Probab=85.78  E-value=0.31  Score=43.95  Aligned_cols=25  Identities=32%  Similarity=0.866  Sum_probs=16.1

Q ss_pred             CceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          166 CGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       166 CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      ||+||.+. .++++..++.||+|+.+
T Consensus       135 cG~V~s~~-alke~k~~~~Cp~c~~~  159 (260)
T PF04641_consen  135 CGCVFSEK-ALKELKKSKKCPVCGKP  159 (260)
T ss_pred             CCCEeeHH-HHHhhcccccccccCCc
Confidence            44444332 45566557899999986

>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates

Probab=85.60  E-value=0.54  Score=29.90  Aligned_cols=26  Identities=35%  Similarity=0.681  Sum_probs=17.4

Q ss_pred             EEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      |+|..||...+-.     ..+.-+||.||+.
T Consensus         1 Y~C~~Cg~~~~~~-----~~~~irC~~CG~R   26 (32)
T PF03604_consen    1 YICGECGAEVELK-----PGDPIRCPECGHR   26 (32)
T ss_dssp             EBESSSSSSE-BS-----TSSTSSBSSSS-S
T ss_pred             CCCCcCCCeeEcC-----CCCcEECCcCCCe
Confidence            7899999887642     2233599999874

Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....

>TIGR01384 TFS_arch transcription factor S, archaeal

Probab=85.48  E-value=1.2  Score=34.35  Aligned_cols=40  Identities=23%  Similarity=0.531  Sum_probs=27.9

Q ss_pred             eEEcCCCceEEeCC-----------------C------CCCCCCC-CCCCCCCCCCccCeeecc
Q 038893          160 THICLDCGYIYFLQ-----------------K------PFDELPD-TYVCPQCQAPKKRFARYD  199 (235)
Q Consensus       160 ~y~C~~CGyvyd~~-----------------t------pfe~lpe-d~~CP~C~a~k~~F~~~~  199 (235)
                      .+.|+.|||.+...                 +      ....+|. ++.||.|++....|..+.
T Consensus        16 ~~~C~~C~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cp~Cg~~~a~f~~~Q   79 (104)
T TIGR01384        16 VYVCPSCGYEKEKKPEDDYKVTEKVKHKIKETIIIREEDSETLPTTRVECPKCGHKEAYYWLLQ   79 (104)
T ss_pred             eEECcCCCCccccccccccEEEEEeccccccceeeccccccCCCcccCCCCCCCCCeeEEEEec
Confidence            68999999877641                 0      1112333 789999999998888653

There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.

>COG4640 Predicted membrane protein [Function unknown]

Probab=85.13  E-value=0.36  Score=46.76  Aligned_cols=62  Identities=19%  Similarity=0.178  Sum_probs=34.3

Q ss_pred             EcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeeccC--------CCCCCCCCCCCchhhhhHHHHHHHHHHHHhHhc
Q 038893          162 ICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDV--------NTGKPIGSGLPPIGVIIGLIAGIGAVGALLVYG  233 (235)
Q Consensus       162 ~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~~~--------~~~~~~g~~~~~~~~~~~~~~g~~~~~~~~~~~  233 (235)
                      -|+.||.--.+        ++..||+||++-..|..-.-        .....+-.-  .|+.+.+++|+...|+.++++|
T Consensus         3 fC~kcG~qk~E--------d~~qC~qCG~~~t~~~sqan~~tn~i~~trrkniskK--~ii~was~a~~lIlii~~~~fg   72 (465)
T COG4640           3 FCPKCGSQKAE--------DDVQCTQCGHKFTSRQSQANKSTNEIIQTRRKNISKK--KIIPWASGAFILILIIILFFFG   72 (465)
T ss_pred             ccccccccccc--------ccccccccCCcCCchhhhhhHHHHHHHHhhccCCccc--eeehhHHHHHHHHHHHHHHHHh
Confidence            39999954433        34579999998766654322        011111111  1455555566665555555554

>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]

Probab=84.82  E-value=0.44  Score=34.94  Aligned_cols=23  Identities=26%  Similarity=0.687  Sum_probs=18.3

Q ss_pred             EEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      --|..|.|+-+++        ...||.|+.+
T Consensus         5 kAC~~Ck~l~~~d--------~e~CP~Cgs~   27 (64)
T COG2093           5 KACKNCKRLTPED--------TEICPVCGST   27 (64)
T ss_pred             HHHhhccccCCCC--------CccCCCCCCc
Confidence            3699999999773        3479999886

>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C

Probab=84.62  E-value=0.21  Score=32.17  Aligned_cols=15  Identities=33%  Similarity=0.986  Sum_probs=10.2

Q ss_pred             ccceEEcCCCceEEe
Q 038893          157 ARATHICLDCGYIYF  171 (235)
Q Consensus       157 ~~~~y~C~~CGyvyd  171 (235)
                      ...+++|+.||||+.
T Consensus        19 ~r~R~vC~~Cg~IhY   33 (34)
T PF14803_consen   19 DRERLVCPACGFIHY   33 (34)
T ss_dssp             SS-EEEETTTTEEE-
T ss_pred             CccceECCCCCCEEe
Confidence            355788888888874

>PRK07591 threonine synthase; Validated

Probab=84.52  E-value=0.59  Score=44.89  Aligned_cols=25  Identities=36%  Similarity=0.747  Sum_probs=19.7

Q ss_pred             ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893          159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQA  190 (235)
Q Consensus       159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a  190 (235)
                      ..++|..||..|+..      +. |+||.|+.
T Consensus        17 ~~l~C~~Cg~~~~~~------~~-~~C~~cg~   41 (421)
T PRK07591         17 VALKCRECGAEYPLG------PI-HVCEECFG   41 (421)
T ss_pred             eEEEeCCCCCcCCCC------CC-ccCCCCCC
Confidence            458999999999762      22 89999964

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=84.51  E-value=0.44  Score=43.13  Aligned_cols=27  Identities=26%  Similarity=0.680  Sum_probs=21.1

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPK  192 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k  192 (235)
                      ...|.|..||+++..-        -|.||.|++--
T Consensus       352 ~p~~~c~~cg~~~~~~--------~~~c~~c~~~~  378 (389)
T PRK11788        352 KPRYRCRNCGFTARTL--------YWHCPSCKAWE  378 (389)
T ss_pred             CCCEECCCCCCCCccc--------eeECcCCCCcc
Confidence            3469999999999662        35899998743

>PRK10139 serine endoprotease; Provisional

Probab=84.33  E-value=1.8  Score=42.16  Aligned_cols=58  Identities=26%  Similarity=0.376  Sum_probs=42.0

Q ss_pred             CcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCce
Q 038893           67 GGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGG  130 (235)
Q Consensus        67 ~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g  130 (235)
                      .+++|..+.+++.|+++|++.||+|..+   -|   ++.......+.++++.++...|.+.|.|
T Consensus       390 ~Gv~V~~V~~~spA~~aGL~~GD~I~~I---ng---~~v~~~~~~~~~l~~~~~~v~l~v~R~g  447 (455)
T PRK10139        390 KGIKIDEVVKGSPAAQAGLQKDDVIIGV---NR---DRVNSIAEMRKVLAAKPAIIALQIVRGN  447 (455)
T ss_pred             CceEEEEeCCCChHHHcCCCCCCEEEEE---CC---EEcCCHHHHHHHHHhCCCeEEEEEEECC
Confidence            3699999999999999999999998655   33   3444455556666666655566666654

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=84.05  E-value=0.88  Score=44.58  Aligned_cols=30  Identities=27%  Similarity=0.639  Sum_probs=21.1

Q ss_pred             ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCee
Q 038893          159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFA  196 (235)
Q Consensus       159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~  196 (235)
                      ..|.|..|||++.-   |-     =+||.|++=-+.-+
T Consensus         6 t~f~C~~CG~~s~K---W~-----GkCp~Cg~Wns~vE   35 (456)
T COG1066           6 TAFVCQECGYVSPK---WL-----GKCPACGAWNTLVE   35 (456)
T ss_pred             cEEEcccCCCCCcc---cc-----ccCCCCCCccceEE
Confidence            57999999999843   21     18999976443333

>TIGR00054 RIP metalloprotease RseP

Probab=83.72  E-value=7.3  Score=37.45  Aligned_cols=60  Identities=28%  Similarity=0.356  Sum_probs=41.5

Q ss_pred             CcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCC-CceEEecCceee
Q 038893           67 GGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPD-SVYFVVNRGGAD  132 (235)
Q Consensus        67 ~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~-a~if~~~~~g~~  132 (235)
                      .++.|..+.+++.|+.+|++.||+|..+.   |.   +..+..+...+++..++ ...+.+.|.|..
T Consensus       203 ~g~vV~~V~~~SpA~~aGL~~GD~Iv~Vn---g~---~V~s~~dl~~~l~~~~~~~v~l~v~R~g~~  263 (420)
T TIGR00054       203 IEPVLSDVTPNSPAEKAGLKEGDYIQSIN---GE---KLRSWTDFVSAVKENPGKSMDIKVERNGET  263 (420)
T ss_pred             cCcEEEEECCCCHHHHcCCCCCCEEEEEC---CE---ECCCHHHHHHHHHhCCCCceEEEEEECCEE
Confidence            36899999999999999999999997763   33   33444445555655433 356667776643

A model that detects fragments as well matches a number of members of the PEPTIDASE FAMILY S2C. The region of match appears not to overlap the active site domain.

>PRK10220 hypothetical protein; Provisional

Probab=83.58  E-value=1  Score=36.33  Aligned_cols=25  Identities=32%  Similarity=0.829  Sum_probs=17.5

Q ss_pred             EEcCCCc--eEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893          161 HICLDCG--YIYFLQKPFDELPDTYVCPQCQAPK  192 (235)
Q Consensus       161 y~C~~CG--yvyd~~tpfe~lped~~CP~C~a~k  192 (235)
                      -.|+.|+  |+|..       .+.|.||.|++.=
T Consensus         4 P~CP~C~seytY~d-------~~~~vCpeC~hEW   30 (111)
T PRK10220          4 PHCPKCNSEYTYED-------NGMYICPECAHEW   30 (111)
T ss_pred             CcCCCCCCcceEcC-------CCeEECCcccCcC
Confidence            3588888  67744       3568899998753

>cd00986 PDZ_LON_protease PDZ domain of ATP-dependent LON serine proteases

Probab=82.85  E-value=3.2  Score=29.79  Aligned_cols=56  Identities=32%  Similarity=0.340  Sum_probs=36.4

Q ss_pred             cEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhc-CCC-CceEEecCce
Q 038893           68 GVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQA-KPD-SVYFVVNRGG  130 (235)
Q Consensus        68 ~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~-~~~-a~if~~~~~g  130 (235)
                      +++|..+.+++.|+. |++.||+|..+      +-++.........++.. .++ ...+.+.+.|
T Consensus         9 Gv~V~~V~~~s~A~~-gL~~GD~I~~I------ng~~v~~~~~~~~~l~~~~~~~~v~l~v~r~g   66 (79)
T cd00986           9 GVYVTSVVEGMPAAG-KLKAGDHIIAV------DGKPFKEAEELIDYIQSKKEGDTVKLKVKREE   66 (79)
T ss_pred             CEEEEEECCCCchhh-CCCCCCEEEEE------CCEECCCHHHHHHHHHhCCCCCEEEEEEEECC
Confidence            589999999998886 89999998766      33444544455556653 232 3344444433

Most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this bacterial subfamily of protease-associated PDZ domains a C-terminal beta-strand is thought to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.

>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional

Probab=82.58  E-value=1.3  Score=32.13  Aligned_cols=31  Identities=26%  Similarity=0.822  Sum_probs=17.6

Q ss_pred             cceEEcCCCceE--EeCCCCCCCCCCCCCCCCCC
Q 038893          158 RATHICLDCGYI--YFLQKPFDELPDTYVCPQCQ  189 (235)
Q Consensus       158 ~~~y~C~~CGyv--yd~~tpfe~lped~~CP~C~  189 (235)
                      ...+.|++||.+  |-=+ .=.++...|+||.||
T Consensus        23 ~~~F~CPnCG~~~I~RC~-~CRk~~~~Y~CP~CG   55 (59)
T PRK14890         23 AVKFLCPNCGEVIIYRCE-KCRKQSNPYTCPKCG   55 (59)
T ss_pred             cCEeeCCCCCCeeEeech-hHHhcCCceECCCCC
Confidence            357888888865  2211 111233457888886

>COG2260 Predicted Zn-ribbon RNA-binding protein [Translation, ribosomal structure and biogenesis]

Probab=82.53  E-value=0.9  Score=32.85  Aligned_cols=21  Identities=33%  Similarity=0.841  Sum_probs=15.9

Q ss_pred             eEEcCCCc-eEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          160 THICLDCG-YIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       160 ~y~C~~CG-yvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      ..+|+.|| |+..+           .||.||..
T Consensus         5 ~rkC~~cg~YTLke-----------~Cp~CG~~   26 (59)
T COG2260           5 IRKCPKCGRYTLKE-----------KCPVCGGD   26 (59)
T ss_pred             hhcCcCCCceeecc-----------cCCCCCCc
Confidence            46899999 55533           89999864

>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species

Probab=82.51  E-value=0.77  Score=27.55  Aligned_cols=8  Identities=38%  Similarity=1.119  Sum_probs=4.3

Q ss_pred             eEEcCCCc
Q 038893          160 THICLDCG  167 (235)
Q Consensus       160 ~y~C~~CG  167 (235)
                      .|.|++||
T Consensus        16 ~f~CPnCG   23 (24)
T PF07754_consen   16 PFPCPNCG   23 (24)
T ss_pred             eEeCCCCC
Confidence            45555555

It is likely to bind zinc via its four well-conserved cysteine residues.

>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300

Probab=82.50  E-value=0.85  Score=37.77  Aligned_cols=29  Identities=21%  Similarity=0.435  Sum_probs=20.8

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      .+++.|+.||..|+-.   ..-|.  +||-||..
T Consensus         7 GtKr~Cp~cg~kFYDL---nk~p~--vcP~cg~~   35 (129)
T TIGR02300         7 GTKRICPNTGSKFYDL---NRRPA--VSPYTGEQ   35 (129)
T ss_pred             CccccCCCcCcccccc---CCCCc--cCCCcCCc
Confidence            3468999999776653   24455  89999873

Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.

>PRK08270 anaerobic ribonucleoside triphosphate reductase; Provisional

Probab=82.43  E-value=0.75  Score=47.04  Aligned_cols=26  Identities=27%  Similarity=0.682  Sum_probs=19.1

Q ss_pred             ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCcc
Q 038893          159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKK  193 (235)
Q Consensus       159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~  193 (235)
                      ..-+|..|||+. +        +.|.||.||.+-+
T Consensus       625 ~~~~C~~CG~~~-g--------~~~~CP~CG~~~~  650 (656)
T PRK08270        625 TFSICPKHGYLS-G--------EHEFCPKCGEETE  650 (656)
T ss_pred             CCcccCCCCCcC-C--------CCCCCcCCcCccc
Confidence            345999999963 4        2579999997633

>KOG3553 consensus Tax interaction protein TIP1 [Cell wall/membrane/envelope biogenesis]

Probab=81.63  E-value=1.4  Score=35.52  Aligned_cols=26  Identities=35%  Similarity=0.560  Sum_probs=24.5

Q ss_pred             CCcEEEEEeecchHHHHhcCCcCcce
Q 038893           66 GGGVVITAVEGGGNAAKAGLKSGDQV   91 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~Gi~~gD~i   91 (235)
                      +-++||..+.+|+.|+.+|++..|+|
T Consensus        58 D~GiYvT~V~eGsPA~~AGLrihDKI   83 (124)
T KOG3553|consen   58 DKGIYVTRVSEGSPAEIAGLRIHDKI   83 (124)
T ss_pred             CccEEEEEeccCChhhhhcceecceE
Confidence            66899999999999999999999986

>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=81.08  E-value=1.7  Score=26.47  Aligned_cols=26  Identities=23%  Similarity=0.605  Sum_probs=18.3

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCcc
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPKK  193 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~  193 (235)
                      .|.|..|.+.=..        ....|-.|++++.
T Consensus         4 ~W~C~~C~~~N~~--------~~~~C~~C~~~rp   29 (30)
T PF00641_consen    4 DWKCPSCTFMNPA--------SRSKCVACGAPRP   29 (30)
T ss_dssp             SEEETTTTEEEES--------SSSB-TTT--BTT
T ss_pred             CccCCCCcCCchH--------HhhhhhCcCCCCc
Confidence            6999999987655        3458999999875

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....

>PRK12775 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional

Probab=81.00  E-value=0.85  Score=48.66  Aligned_cols=28  Identities=29%  Similarity=0.559  Sum_probs=22.5

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCc
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPK  192 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k  192 (235)
                      .|+|.+||.+|.+.    +.|- -.||-|+...
T Consensus       821 ~~~~~~~~~~~~~~----~~~~-~~~~~~~~~~  848 (1006)
T PRK12775        821 QWRCDDCGKVSEGF----AFPY-GMCPACGGKL  848 (1006)
T ss_pred             eeehhhhccccccc----cCCc-CcCcccccch
Confidence            69999999999993    5562 2899998863

>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain

Probab=80.83  E-value=0.96  Score=28.83  Aligned_cols=30  Identities=17%  Similarity=0.413  Sum_probs=19.3

Q ss_pred             eEEcCCCceEEeCCCCCCCCCC---CCCCCCCCCC
Q 038893          160 THICLDCGYIYFLQKPFDELPD---TYVCPQCQAP  191 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lpe---d~~CP~C~a~  191 (235)
                      ...|+.|+-.|.-..  +.+++   ..+||.|++.
T Consensus         2 ~~~CP~C~~~~~v~~--~~~~~~~~~v~C~~C~~~   34 (38)
T TIGR02098         2 RIQCPNCKTSFRVVD--SQLGANGGKVRCGKCGHV   34 (38)
T ss_pred             EEECCCCCCEEEeCH--HHcCCCCCEEECCCCCCE
Confidence            468999997765531  12222   3589999874

This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.

>COG3364 Zn-ribbon containing protein [General function prediction only]

Probab=80.56  E-value=0.45  Score=38.13  Aligned_cols=35  Identities=26%  Similarity=0.571  Sum_probs=23.5

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeec
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARY  198 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~  198 (235)
                      .|+|..||.+|+.-.  +.+-  .=||.||..|=.+.+-
T Consensus         2 pH~CtrCG~vf~~g~--~~il--~GCp~CG~nkF~yv~~   36 (112)
T COG3364           2 PHQCTRCGEVFDDGS--EEIL--SGCPKCGCNKFLYVPE   36 (112)
T ss_pred             Cceeccccccccccc--HHHH--ccCccccchheEeccc
Confidence            489999999997620  1121  2699998876555543

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=80.48  E-value=0.7  Score=44.12  Aligned_cols=25  Identities=28%  Similarity=0.802  Sum_probs=19.5

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQA  190 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a  190 (235)
                      ...|+|..|||.-.-        =.|.||.|..
T Consensus       352 ~~~YRC~~CGF~a~~--------l~W~CPsC~~  376 (389)
T COG2956         352 KPRYRCQNCGFTAHT--------LYWHCPSCRA  376 (389)
T ss_pred             cCCceecccCCccee--------eeeeCCCccc
Confidence            357999999986544        2699999965

>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed

Probab=80.39  E-value=1.2  Score=31.79  Aligned_cols=22  Identities=27%  Similarity=0.843  Sum_probs=16.1

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      .-+|..||-..-.        +  .||.||.+
T Consensus         5 mr~C~~CgvYTLk--------~--~CP~CG~~   26 (56)
T PRK13130          5 IRKCPKCGVYTLK--------E--ICPVCGGK   26 (56)
T ss_pred             ceECCCCCCEEcc--------c--cCcCCCCC
Confidence            4689999954422        2  89999876

>cd01675 RNR_III Class III ribonucleotide reductase

Probab=80.30  E-value=0.87  Score=45.54  Aligned_cols=23  Identities=43%  Similarity=1.041  Sum_probs=18.1

Q ss_pred             EEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       161 y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      .+|..|||+..+        +.|.||.||..
T Consensus       519 ~~C~~CG~~~~~--------~~~~CP~CGs~  541 (555)
T cd01675         519 DICNDCGYIGEG--------EGFKCPKCGSE  541 (555)
T ss_pred             ccCCCCCCCCcC--------CCCCCcCCCCc
Confidence            499999997644        34799999864

Ribonucleotide reductase (RNR) catalyzes the reductive synthesis of deoxyribonucleotides from their corresponding ribonucleotides. It provides the precursors necessary for DNA synthesis. RNRs are separated into three classes based on their metallocofactor usage. Class I RNRs, found in eukaryotes, bacteria, and bacteriophage, use a diiron-tyrosyl radical. Class II RNRs, found in bacteria, bacteriophage, algae and archaea, use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found in strict or facultative anaerobic bacteria, bacteriophage, and archaea, use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. Many organisms have more than one class of RNR present in their genomes. All three RNRs have a ten-stranded alpha-beta barrel domain that is structurally similar to the domain of PFL (pyruvate formate lyase). The class III enzyme from phage T4 consists of two subunits, this model covers the larger subunit w

---

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	235
6rxn_A	46	Rubredoxin; electron transfer(iron-sulfur protein)	1e-11
1s24_A	87	Rubredoxin 2; electron transport; NMR {Pseudomonas	5e-10
2v3b_B	55	Rubredoxin 2, rubredoxin; alkane degradation, iron	4e-09
1dx8_A	70	Rubredoxin; electron transport, zinc-substitution;	4e-09
4rxn_A	54	Rubredoxin; electron transfer(iron-sulfur protein)	5e-09
1yk4_A	52	Rubredoxin, RD; electron transport; 0.69A {Pyrococ	7e-09
1e8j_A	52	Rubredoxin; iron-sulfur-protein, zinc-substitution	1e-08
2kn9_A	81	Rubredoxin; metalloprotein, ssgcid, structural gen	1e-08
3k1r_A	192	Harmonin; protein-protein complex, alternative spl	9e-06
3pwf_A	170	Rubrerythrin; non heme iron peroxidases, oxidative	1e-05
3shw_A	468	Tight junction protein ZO-1; PDZ-SH3-GUK supramodu	1e-05
2krg_A	216	Na(+)/H(+) exchange regulatory cofactor NHE-RF1; a	2e-05
1g9o_A	91	NHE-RF; PDZ domain, complex, signaling protein; 1.	2e-05
1x5n_A	114	Harmonin; PDZ domain, usher syndrome 1C protein, a	3e-05
3tsz_A	391	Tight junction protein ZO-1; PDZ3-SH3-GUK, scaffol	3e-05
3r68_A	95	Na(+)/H(+) exchange regulatory cofactor NHE-RF3; P	3e-05
2he4_A	90	Na(+)/H(+) exchange regulatory cofactor NHE-RF2; p	4e-05
2jxo_A	98	Ezrin-radixin-moesin-binding phosphoprotein 50; nh	4e-05
1lko_A	191	Rubrerythrin all-iron(II) form; reduced form, DIIR	4e-05
1v5l_A	103	PDZ and LIM domain 3; actinin alpha 2 associated L	5e-05
1wi2_A	104	Riken cDNA 2700099C19; structural genomics, riken	5e-05
3tsv_A	124	Tight junction protein ZO-1; PDZ, scaffolding, JAM	5e-05
2q3g_A	89	PDZ and LIM domain protein 7; structural genomics,	5e-05
1uit_A	117	Human discs large 5 protein; PDZ domain, HDLG5, ma	6e-05
2eeg_A	94	PDZ and LIM domain protein 4; PDZ domain, structur	7e-05
2vsv_A	109	Rhophilin-2; scaffold protein, RHO GTPase binding,	8e-05
2eeh_A	100	PDZ domain-containing protein 7; structural genomi	9e-05
2kjd_A	128	Sodium/hydrogen exchange regulatory cofactor NHE-	9e-05
1rgw_A	85	ZAsp protein; PDZ, cypher, oracle, muscle, Z-DISK,	1e-04
2dls_A	93	PDZ-rhogef, RHO guanine nucleotide exchange factor	1e-04
2uzc_A	88	Human pdlim5, PDZ and LIM domain 5; metal-binding,	1e-04
3ngh_A	106	PDZ domain-containing protein 1; adaptor protein,	1e-04
1uf1_A	128	KIAA1526 protein; PDZ domain, structural genomics,	1e-04
1wf7_A	103	Enigma homologue protein; PDZ domain, structural g	1e-04
1yuz_A	202	Nigerythrin; rubrythrin, rubredoxin, hemerythrin,	1e-04
2edz_A	114	PDZ domain-containing protein 1; CFTR-associated p	2e-04
2d90_A	102	PDZ domain containing protein 1; structural genomi	2e-04
1w9e_A	166	Syntenin 1; cell adhesion, adhesion/complex, PDZ d	2e-04
1uez_A	101	KIAA1526 protein; PDZ domain, structural genomics,	2e-04
1vb7_A	94	PDZ and LIM domain 2; PDZ domain PDZ-LIM protein,	2e-04
3stj_A	345	Protease DEGQ; serine protease, PDZ domain, protea	2e-04
2f5y_A	91	Regulator of G-protein signalling 3 isoform 1; PDZ	2e-04
2pa1_A	87	PDZ and LIM domain protein 2; PDZ domain, structur	3e-04
2vsp_A	91	PDZ domain-containing protein 1; membrane, cytopla	3e-04
1te0_A	318	Protease DEGS; two domains, serine protease, PDZ,	3e-04
1ky9_A	448	Protease DO, DEGP, HTRA; protein quality control,	3e-04
2pkt_A	91	PDZ and LIM domain protein 1; PDZ domain, structur	3e-04
1m5z_A	91	GRIP, AMPA receptor interacting protein; six beta-	4e-04
4a8c_A	436	Periplasmic PH-dependent serine endoprotease DEGQ;	4e-04
1whd_A	100	RGS3, regulator of G-protein signaling 3; PDZ doma	5e-04
2eei_A	106	PDZ domain-containing protein 1; regulatory factor	5e-04
1um7_A	113	Synapse-associated protein 102; PDZ, discs large h	6e-04
2kv8_A	83	RGS12, regulator of G-protein signaling 12; PDZ do	8e-04
2ejy_A	97	55 kDa erythrocyte membrane protein; GPC, maguk, P	9e-04

>6rxn_A Rubredoxin; electron transfer(iron-sulfur protein); 1.50A {Desulfovibrio desulfuricans} SCOP: g.41.5.1 Length = 46

 Score = 56.8 bits (138), Expect = 1e-11
 Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 4/41 (9%)

Query: 159 ATHICLDCGYIYFLQK----PFDELPDTYVCPQCQAPKKRF 195
             ++C  CGY Y   +    PFD+LPD + CP C   K +F
Sbjct: 3   QKYVCNVCGYEYDPAEHDNVPFDQLPDDWCCPVCGVSKDQF 43

>1s24_A Rubredoxin 2; electron transport; NMR {Pseudomonas oleovorans} SCOP: g.41.5.1 Length = 87

 Score = 53.6 bits (129), Expect = 5e-10
 Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 14/72 (19%)

Query: 139 PKRPAPPRFGRKLTEAQKARATHICLDCGYIYFLQK-----------PFDELPDTYVCPQ 187
             +  PPR      +  KA    IC+ CG+IY                F+++PD + CP 
Sbjct: 17  LYKTQPPR---SDAQGGKAYLKWICITCGHIYDEALGDEAEGFTPGTRFEDIPDDWCCPD 73

Query: 188 CQAPKKRFARYD 199
           C A K+ +  Y+
Sbjct: 74  CGATKEDYVLYE 85

>2v3b_B Rubredoxin 2, rubredoxin; alkane degradation, iron-sulfur protein, oxidoreductase, ELE transfer, electron transport, FAD, NAD, iron; HET: FAD; 2.45A {Pseudomonas aeruginosa} Length = 55

 Score = 50.3 bits (121), Expect = 4e-09
 Identities = 12/53 (22%), Positives = 21/53 (39%), Gaps = 11/53 (20%)

Query: 159 ATHICLDCGYIYFLQK-----------PFDELPDTYVCPQCQAPKKRFARYDV 200
               C+ CG+IY                ++++P  +VCP C   K  F   ++
Sbjct: 2   RKWQCVVCGFIYDEALGLPEEGIPAGTRWEDIPADWVCPDCGVGKIDFEMIEI 54

>1dx8_A Rubredoxin; electron transport, zinc-substitution; NMR {Guillardia theta} SCOP: g.41.5.1 PDB: 1h7v_A Length = 70

 Score = 50.8 bits (122), Expect = 4e-09
 Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 11/51 (21%)

Query: 161 HICLDCGYIYFLQK-----------PFDELPDTYVCPQCQAPKKRFARYDV 200
           + C  CGYIY  +K           PF +L D+++CP C++PK +F     
Sbjct: 8   YECEACGYIYEPEKGDKFAGIPPGTPFVDLSDSFMCPACRSPKNQFKSIKK 58

>4rxn_A Rubredoxin; electron transfer(iron-sulfur protein); 1.20A {Clostridium pasteurianum} SCOP: g.41.5.1 PDB: 5rxn_A 1bfy_A 1fhh_A 1fhm_A 1irn_A 1iro_A 1r0f_A 1r0g_A 1r0h_A 1r0i_A 1r0j_A 1t9q_A 1c09_A 1b2j_A 1b13_A 1smm_A 1smu_A 1smw_A 1be7_A 1t9o_A ... Length = 54

 Score = 50.3 bits (121), Expect = 5e-09
 Identities = 15/51 (29%), Positives = 21/51 (41%), Gaps = 11/51 (21%)

Query: 160 THICLDCGYIYFLQK-----------PFDELPDTYVCPQCQAPKKRFARYD 199
            + C  CGYIY  +             F ++PD +VCP C   K  F   +
Sbjct: 3   KYTCTVCGYIYDPEDGDPDDGVNPGTDFKDIPDDWVCPLCGVGKDEFEEVE 53

>1yk4_A Rubredoxin, RD; electron transport; 0.69A {Pyrococcus abyssi} PDB: 2pya_A 1yk5_A 1bq8_A 1bq9_A* 3kyu_A 3kyv_A 3kyw_A 3kyx_A 3kyy_A 3ryg_A 3rz6_A 3rzt_A 3ss2_A 1brf_A 1caa_A 1cad_A 1vcx_A 1zrp_A 1iu5_A 1iu6_A ... Length = 52

 Score = 49.5 bits (119), Expect = 7e-09
 Identities = 20/52 (38%), Positives = 25/52 (48%), Gaps = 11/52 (21%)

Query: 159 ATHICLDCGYIYFLQK-----------PFDELPDTYVCPQCQAPKKRFARYD 199
           A   C  CGYIY   +            F++LPD +VCP C APK  F R +
Sbjct: 1   AKLSCKICGYIYDEDEGDPDNGISPGTKFEDLPDDWVCPLCGAPKSEFERIE 52

>1e8j_A Rubredoxin; iron-sulfur-protein, zinc-substitution, thermostability; NMR {Desulfovibrio gigas} SCOP: g.41.5.1 PDB: 1rdg_A 2dsx_A 1spw_A Length = 52

 Score = 49.1 bits (118), Expect = 1e-08
 Identities = 16/47 (34%), Positives = 21/47 (44%), Gaps = 11/47 (23%)

Query: 160 THICLDCGYIYFLQK-----------PFDELPDTYVCPQCQAPKKRF 195
            ++C  CGY Y   K            F++LPD + CP C A K  F
Sbjct: 3   IYVCTVCGYEYDPAKGDPDSGIKPGTKFEDLPDDWACPVCGASKDAF 49

>2kn9_A Rubredoxin; metalloprotein, ssgcid, structural genomics, seattle structural genomics center for infectious electron transport, iron; NMR {Mycobacterium tuberculosis} Length = 81

 Score = 49.7 bits (119), Expect = 1e-08
 Identities = 14/52 (26%), Positives = 21/52 (40%), Gaps = 11/52 (21%)

Query: 160 THICLDCGYIYFLQK-----------PFDELPDTYVCPQCQAPKKRFARYDV 200
              C+ CG+ Y                +D++PD + CP C A K  F   +V
Sbjct: 27  LFRCIQCGFEYDEALGWPEDGIAAGTRWDDIPDDWSCPDCGAAKSDFEMVEV 78

>3k1r_A Harmonin; protein-protein complex, alternative splicing, coiled coil, deafness, hearing, non-syndromic deafness, polymorphism; 2.30A {Homo sapiens} PDB: 2kbq_A 2kbr_A Length = 192

 Score = 44.2 bits (104), Expect = 9e-06
 Identities = 21/94 (22%), Positives = 47/94 (50%), Gaps = 7/94 (7%)

Query: 3   TLQGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIEVEV--DKPLGLT 60
            L+ +  + S+  + D    +   K     ++ +++T R +   K + ++    + LGL+
Sbjct: 45  DLKLVINEPSRLPLFDAIRPLIPLK---HQVEYDQLTPRRSRKLKEVRLDRLHPEGLGLS 101

Query: 61  L--GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
           +  G + G G+ I+ +  GG A   GL+ GD+++
Sbjct: 102 VRGGLEFGCGLFISHLIKGGQADSVGLQVGDEIV 135

>3pwf_A Rubrerythrin; non heme iron peroxidases, oxidative stress, oxidoreductase; 1.64A {Pyrococcus furiosus} PDB: 3mps_A 3pza_A 3qvd_A 1nnq_A 2hr5_A Length = 170

 Score = 43.1 bits (101), Expect = 1e-05
 Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 7/44 (15%)

Query: 156 KARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYD 199
           + +  +IC  CGY        DE P+   CP C APK++F  ++
Sbjct: 134 EIKKVYICPICGYTAV-----DEAPE--YCPVCGAPKEKFVVFE 170

>3shw_A Tight junction protein ZO-1; PDZ-SH3-GUK supramodule, cell adhesion; 2.90A {Homo sapiens} Length = 468

 Score = 44.5 bits (104), Expect = 1e-05
 Identities = 15/48 (31%), Positives = 23/48 (47%)

Query: 45 ASKTIEVEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
          + K ++      +GL L      G+ +  V     AAK GL+ GDQ+L
Sbjct: 1  SMKLVKFRKGDSVGLRLAGGNDVGIFVAGVLEDSPAAKEGLEEGDQIL 48

>2krg_A Na(+)/H(+) exchange regulatory cofactor NHE-RF1; acetylation, cell projection, disease mutation, membrane, phosphoprotein, polymorphism; NMR {Homo sapiens} Length = 216

 Score = 43.6 bits (102), Expect = 2e-05
 Identities = 21/102 (20%), Positives = 34/102 (33%), Gaps = 13/102 (12%)

Query: 57  LGLTL-GQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKT-- 113
            G  L   K   G  I +V+    A  +GL++ D+++        E+      G      
Sbjct: 22  YGFNLHSDKSKPGQFIRSVDPDSPAEASGLRAQDRIV--------EVNGVCMEGKQHGDV 73

Query: 114 --AIQAKPDSVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTE 153
             AI+A  D    +V     D   K+    P+       L  
Sbjct: 74  VSAIRAGGDETKLLVVDRETDEFFKKCRVIPSQEHLNGPLPV 115

>1g9o_A NHE-RF; PDZ domain, complex, signaling protein; 1.50A {Homo sapiens} SCOP: b.36.1.1 PDB: 1i92_A 1gq4_A 1gq5_A 2ocs_A Length = 91

 Score = 41.1 bits (97), Expect = 2e-05
 Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 1/40 (2%)

Query: 54 DKPLGLTL-GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
              G  L G+K   G  I  VE G  A KAGL +GD+++
Sbjct: 13 PNGYGFHLHGEKGKLGQYIRLVEPGSPAEKAGLLAGDRLV 52

>1x5n_A Harmonin; PDZ domain, usher syndrome 1C protein, autoimmune enteropathy-related antigen AIE-75 ,antigen NY-CO-38/NY-CO- 37, PDZ-73 protein; NMR {Homo sapiens} SCOP: b.36.1.1 PDB: 2kbs_A Length = 114

 Score = 41.3 bits (97), Expect = 3e-05
 Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 2/47 (4%)

Query: 48 TIEVEVDKPLGLTL--GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
           I +   + LG ++  G     G+ I+ V+ G  +A+ GL+ GDQ++
Sbjct: 20 FISLVGSRGLGCSISSGPIQKPGIFISHVKPGSLSAEVGLEIGDQIV 66

>3tsz_A Tight junction protein ZO-1; PDZ3-SH3-GUK, scaffolding, JAM, tight junction, cell adhesio; 2.50A {Homo sapiens} PDB: 3tsw_A 3lh5_A Length = 391

 Score = 43.3 bits (101), Expect = 3e-05
 Identities = 15/46 (32%), Positives = 22/46 (47%)

Query: 47 KTIEVEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
          K ++      +GL L      G+ +  V     AAK GL+ GDQ+L
Sbjct: 11 KLVKFRKGDSVGLRLAGGNDVGIFVAGVLEDSPAAKEGLEEGDQIL 56

>3r68_A Na(+)/H(+) exchange regulatory cofactor NHE-RF3; PDZ domain, adaptor protein, SR-BI, signaling protein; 1.30A {Mus musculus} PDB: 3r69_A* Length = 95

 Score = 40.7 bits (96), Expect = 3e-05
 Identities = 13/37 (35%), Positives = 17/37 (45%), Gaps = 1/37 (2%)

Query: 57 LGLTL-GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
           G  L       G +I  +E G  A  AGLK+ D V+
Sbjct: 18 YGFYLRAGPEQKGQIIKDIEPGSPAEAAGLKNNDLVV 54

>2he4_A Na(+)/H(+) exchange regulatory cofactor NHE-RF2; phosphorylation, structural genomics, structural genomics consortium, SGC, unknown function; 1.45A {Homo sapiens} PDB: 2ozf_A Length = 90

 Score = 40.3 bits (95), Expect = 4e-05
 Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 1/37 (2%)

Query: 57 LGLTL-GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
           G  L   K   G  I +V+ G  AA++GL++ D+++
Sbjct: 17 YGFNLHSDKSRPGQYIRSVDPGSPAARSGLRAQDRLI 53

>2jxo_A Ezrin-radixin-moesin-binding phosphoprotein 50; nherf-1, PDZ domain, PDZ2, acetylation, cell projection, membrane, polymorphism; NMR {Homo sapiens} Length = 98

 Score = 40.4 bits (95), Expect = 4e-05
 Identities = 10/37 (27%), Positives = 18/37 (48%), Gaps = 1/37 (2%)

Query: 57 LGLTL-GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
           G  L   K   G  I +V+    A  +GL++ D+++
Sbjct: 22 YGFNLHSDKSKPGQFIRSVDPDSPAEASGLRAQDRIV 58

>1lko_A Rubrerythrin all-iron(II) form; reduced form, DIIRON, four-helix bundle, rubre like, electron transport; 1.63A {Desulfovibrio vulgaris} SCOP: a.25.1.1 g.41.5.1 PDB: 1dvb_A 1jyb_A 1b71_A 1lkm_A 1lkp_A 1qyb_A 1s2z_A 1s30_A 1ryt_A Length = 191

 Score = 42.0 bits (98), Expect = 4e-05
 Identities = 15/99 (15%), Positives = 29/99 (29%), Gaps = 6/99 (6%)

Query: 103 WPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRLPKRPAPPRFGRKLTEAQKARATHI 162
           +      F + A +   + +  V        +                    ++      
Sbjct: 98  YTEMYPSFARIAREEGYEEIARVFASIAVAEEFHEKRFLDFARNIKEGRVFLREQATKWR 157

Query: 163 CLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDVN 201
           C +CGY++         P+  +CP C  PK  F    +N
Sbjct: 158 CRNCGYVHE----GTGAPE--LCPACAHPKAHFELLGIN 190

>1v5l_A PDZ and LIM domain 3; actinin alpha 2 associated LIM protein; PDZ domain, cytoskeleton, actin binding, structural genomics; NMR {Mus musculus} SCOP: b.36.1.1 Length = 103

 Score = 40.4 bits (95), Expect = 5e-05
 Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 2/53 (3%)

Query: 42 TAGASKTIEVEVDKPLGLTL--GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
          ++G+S  + +    P G  L  G      +VIT +  G  AA A L  GD +L
Sbjct: 2  SSGSSGNVVLPGPAPWGFRLSGGIDFNQPLVITRITPGSKAAAANLCPGDVIL 54

>1wi2_A Riken cDNA 2700099C19; structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: b.36.1.1 Length = 104

 Score = 40.4 bits (95), Expect = 5e-05
 Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 2/47 (4%)

Query: 48 TIEVEVDKPLGLTL--GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
          T++      LG  +  G+    G+ I+ V    +A +AGL+ GDQVL
Sbjct: 20 TLKKPPGAQLGFNIRGGKASQLGIFISKVIPDSDAHRAGLQEGDQVL 66

>3tsv_A Tight junction protein ZO-1; PDZ, scaffolding, JAM, cell adhesion; 1.99A {Homo sapiens} PDB: 3shu_A Length = 124

 Score = 40.6 bits (95), Expect = 5e-05
 Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 6/49 (12%)

Query: 47 KTIEVEVDKPLGLTLGQKPGG---GVVITAVEGGGNAAKAGLKSGDQVL 92
          K ++      +GL L    GG   G+ +  V     AAK GL+ GDQ+L
Sbjct: 31 KLVKFRKGDSVGLRLA---GGNDVGIFVAGVLEDSPAAKEGLEEGDQIL 76

>2q3g_A PDZ and LIM domain protein 7; structural genomics, structural genomics consortium, SGC; 1.11A {Homo sapiens} Length = 89

 Score = 40.0 bits (94), Expect = 5e-05
 Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 2/47 (4%)

Query: 48 TIEVEVDKPLGLTL--GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
           + +E   P G  L  G+     + I+ +  GG AA+AG+  GD VL
Sbjct: 6  KVVLEGPAPWGFRLQGGKDFNVPLSISRLTPGGKAAQAGVAVGDWVL 52

>1uit_A Human discs large 5 protein; PDZ domain, HDLG5, maguk family, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: b.36.1.1 Length = 117

 Score = 40.5 bits (95), Expect = 6e-05
 Identities = 18/55 (32%), Positives = 29/55 (52%), Gaps = 3/55 (5%)

Query: 41 RTAGASKTIEVEVDK---PLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
                +   V+V K   PLG+++     GG+ ++ V  G  A +AGL+ GDQ+L
Sbjct: 13 DRPYVEEPRHVKVQKGSEPLGISIVSGEKGGIYVSKVTVGSIAHQAGLEYGDQLL 67

>2eeg_A PDZ and LIM domain protein 4; PDZ domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 94

 Score = 39.5 bits (93), Expect = 7e-05
 Identities = 14/52 (26%), Positives = 22/52 (42%), Gaps = 2/52 (3%)

Query: 43 AGASKTIEVEVDKPLGLTL--GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
          +G   ++ +    P G  L  G+     + I+ V  G  AA A L  GD + 
Sbjct: 6  SGMPHSVTLRGPSPWGFRLVGGRDFSAPLTISRVHAGSKAALAALCPGDLIQ 57

>2vsv_A Rhophilin-2; scaffold protein, RHO GTPase binding, protein-binding, RHOB, nitration, cytoplasm, PDZ domain, CAsp8; 1.82A {Homo sapiens} Length = 109

 Score = 39.8 bits (93), Expect = 8e-05
 Identities = 13/48 (27%), Positives = 24/48 (50%), Gaps = 5/48 (10%)

Query: 47 KTIEVEVD-KPLGLTL-GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
          ++I    +   LG TL G  P   V +  ++   +A+ AG + GD ++
Sbjct: 25 RSIRFTAEEGDLGFTLRGNAP---VQVHFLDPYCSASVAGAREGDYIV 69

>2eeh_A PDZ domain-containing protein 7; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 100

 Score = 39.6 bits (93), Expect = 9e-05
 Identities = 15/47 (31%), Positives = 26/47 (55%), Gaps = 2/47 (4%)

Query: 48 TIEVEVDKPLGLTL--GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
           +E      LG ++  G + G G+ ++ VE G +A +AGL  GD++ 
Sbjct: 15 RVEKSPAGRLGFSVRGGSEHGLGIFVSKVEEGSSAERAGLCVGDKIT 61

>2kjd_A Sodium/hydrogen exchange regulatory cofactor NHE- RF1; PDZ domain, protein, acetylation, cell projection, disease mutation, membrane; NMR {Homo sapiens} Length = 128

 Score = 40.2 bits (94), Expect = 9e-05
 Identities = 10/37 (27%), Positives = 18/37 (48%), Gaps = 1/37 (2%)

Query: 57 LGLTL-GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
           G  L   K   G  I +V+    A  +GL++ D+++
Sbjct: 22 YGFNLHSDKSKPGQFIRSVDPDSPAEASGLRAQDRIV 58

>1rgw_A ZAsp protein; PDZ, cypher, oracle, muscle, Z-DISK, sarcomere, structural protein; NMR {Homo sapiens} SCOP: b.36.1.1 PDB: 1wjl_A Length = 85

 Score = 39.2 bits (92), Expect = 1e-04
 Identities = 12/47 (25%), Positives = 22/47 (46%), Gaps = 2/47 (4%)

Query: 48 TIEVEVDKPLGLTL--GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
          ++ +    P G  L  G+     + I+ +  G  AA++ L  GD V+
Sbjct: 4  SVTLTGPGPWGFRLQGGKDFNMPLTISRITPGSKAAQSQLSQGDLVV 50

>2dls_A PDZ-rhogef, RHO guanine nucleotide exchange factor 11; PDZ domain, arhgef11, KIAA0380, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2omj_A 2os6_A Length = 93

 Score = 39.2 bits (92), Expect = 1e-04
 Identities = 16/53 (30%), Positives = 31/53 (58%), Gaps = 5/53 (9%)

Query: 42 TAGASKTIEVEVD-KPLGLTL-GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
          ++G  + + ++ D    G T+ G +    V++ +V  GG A KAG+K GD+++
Sbjct: 5  SSGVQRCVIIQKDQHGFGFTVSGDRI---VLVQSVRPGGAAMKAGVKEGDRII 54

>2uzc_A Human pdlim5, PDZ and LIM domain 5; metal-binding, enigma homolog, phosphorylation, signaling PR LIM domain, PDZ domain; 1.5A {Homo sapiens} Length = 88

 Score = 38.8 bits (91), Expect = 1e-04
 Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 2/47 (4%)

Query: 48 TIEVEVDKPLGLTL--GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
          ++ +    P G  L  G+     + I++++ GG AA+A ++ GD VL
Sbjct: 6  SVSLVGPAPWGFRLQGGKDFNMPLTISSLKDGGKAAQANVRIGDVVL 52

>3ngh_A PDZ domain-containing protein 1; adaptor protein, SR-BI, signaling protein; 1.80A {Mus musculus} Length = 106

 Score = 39.3 bits (92), Expect = 1e-04
 Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 1/40 (2%)

Query: 54 DKPLGLTL-GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
           +  G  L  +K   G +I  +E G  A KAGL  GD+VL
Sbjct: 12 GQNYGFFLRIEKDTDGHLIRVIEEGSPAEKAGLLDGDRVL 51

>1uf1_A KIAA1526 protein; PDZ domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, protein binding; NMR {Homo sapiens} SCOP: b.36.1.1 Length = 128

 Score = 39.8 bits (93), Expect = 1e-04
 Identities = 21/68 (30%), Positives = 34/68 (50%), Gaps = 4/68 (5%)

Query: 29 ATRSLDNNKITARTAGASKTIEVEVD--KPLGLTL--GQKPGGGVVITAVEGGGNAAKAG 84
           +     + +     G  K + + +   + LGLT+  G + G G+ IT V+ G  A  +G
Sbjct: 4  GSSGDRRSTLHLLQGGDEKKVNLVLGDGRSLGLTIRGGAEYGLGIYITGVDPGSEAEGSG 63

Query: 85 LKSGDQVL 92
          LK GDQ+L
Sbjct: 64 LKVGDQIL 71

>1wf7_A Enigma homologue protein; PDZ domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: b.36.1.1 Length = 103

 Score = 38.9 bits (91), Expect = 1e-04
 Identities = 15/52 (28%), Positives = 30/52 (57%), Gaps = 2/52 (3%)

Query: 43 AGASKTIEVEVDKPLGLTL--GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
          +G+S ++ +    P G  L  G+     + I++++ GG A++A ++ GD VL
Sbjct: 3  SGSSGSVSLVGPAPWGFRLQGGKDFNMPLTISSLKDGGKASQAHVRIGDVVL 54

>1yuz_A Nigerythrin; rubrythrin, rubredoxin, hemerythrin, electron transfer, DIIR center, oxidoreductase; 1.40A {Desulfovibrio vulgaris subsp} SCOP: a.25.1.1 g.41.5.1 PDB: 1yv1_A 1yux_A Length = 202

 Score = 40.5 bits (94), Expect = 1e-04
 Identities = 14/38 (36%), Positives = 17/38 (44%), Gaps = 7/38 (18%)

Query: 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARY 198
           H+C  CGYI+       E  +   CP C  PK  F  Y
Sbjct: 172 HLCPICGYIHK-----GEDFE--KCPICFRPKDTFTAY 202

>2edz_A PDZ domain-containing protein 1; CFTR-associated protein of 70 kDa, Na/PI cotransporter C- terminal-associated protein, NAPI-CAP1; NMR {Mus musculus} Length = 114

 Score = 39.0 bits (91), Expect = 2e-04
 Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 1/40 (2%)

Query: 54 DKPLGLTL-GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
           +  G  L  +K   G +I  +E G  A KAGL  GD+VL
Sbjct: 24 GQNYGFFLRIEKDTDGHLIRVIEEGSPAEKAGLLDGDRVL 63

>2d90_A PDZ domain containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 102

 Score = 38.9 bits (91), Expect = 2e-04
 Identities = 13/37 (35%), Positives = 17/37 (45%), Gaps = 1/37 (2%)

Query: 57 LGLTL-GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
           G  L       G +I  +E G  A  AGLK+ D V+
Sbjct: 19 YGFYLRAGPEQKGQIIKDIEPGSPAEAAGLKNNDLVV 55

>1w9e_A Syntenin 1; cell adhesion, adhesion/complex, PDZ domain, scaffolding protein signaling protein; 1.56A {Homo sapiens} SCOP: b.36.1.1 b.36.1.1 PDB: 1n99_A 1v1t_A 1obz_A 1w9o_A 1w9q_A 1ybo_A Length = 166

 Score = 39.8 bits (93), Expect = 2e-04
 Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 5/53 (9%)

Query: 44 GASKTIEVEVDK----PLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
          GA    EV + K     +GL L      G+ +  V+    A+  GL+ GDQVL
Sbjct: 1  GAMDPREVILCKDQDGKIGLRLKSI-DNGIFVQLVQANSPASLVGLRFGDQVL 52

>1uez_A KIAA1526 protein; PDZ domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, protein binding; NMR {Homo sapiens} SCOP: b.36.1.1 Length = 101

 Score = 38.5 bits (90), Expect = 2e-04
 Identities = 16/41 (39%), Positives = 25/41 (60%), Gaps = 2/41 (4%)

Query: 54 DKPLGLTL--GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
           + LG ++  G + G G+ ++ VE G  A K GL+ GDQ+L
Sbjct: 20 HEGLGFSIRGGSEHGVGIYVSLVEPGSLAEKEGLRVGDQIL 60

>1vb7_A PDZ and LIM domain 2; PDZ domain PDZ-LIM protein, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: b.36.1.1 Length = 94

 Score = 38.0 bits (89), Expect = 2e-04
 Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 6/55 (10%)

Query: 44 GASKTIEVEV----DKPLGLTL--GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
          G+S +  + V      P G  +  G+     +++T V   G A  A L+ GD ++
Sbjct: 1  GSSGSSGLTVDVAGPAPWGFRISGGRDFHTPIIVTKVTERGKAEAADLRPGDIIV 55

>3stj_A Protease DEGQ; serine protease, PDZ domain, protease, chaperone, DEGP, DEGQ hydrolase; 2.60A {Escherichia coli} Length = 345

 Score = 40.3 bits (95), Expect = 2e-04
 Identities = 21/102 (20%), Positives = 36/102 (35%), Gaps = 7/102 (6%)

Query: 52  EVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFT 111
           E+   +          G  ++ V  G  +AKAG+K+GD +    S  G  L    +L   
Sbjct: 248 EMSADIAKAFNLDVQRGAFVSEVLPGSGSAKAGVKAGDIIT---SLNGKPLNSFAEL--R 302

Query: 112 KTAIQAKP-DSVYFVVNRGGADVDVK-RLPKRPAPPRFGRKL 151
                 +P   V   + R G  ++V+  L    +        
Sbjct: 303 SRIATTEPGTKVKLGLLRNGKPLEVEVTLDTSTSSLEHHHHH 344

>2f5y_A Regulator of G-protein signalling 3 isoform 1; PDZ domain, RGS-3, human, structural genomics, structural GE consortium, SGC, signaling protein; 2.39A {Homo sapiens} SCOP: b.36.1.1 Length = 91

 Score = 38.1 bits (89), Expect = 2e-04
 Identities = 17/48 (35%), Positives = 24/48 (50%), Gaps = 5/48 (10%)

Query: 47 KTIEVEVDKP-LGLTL-GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
          + I +   K   G T+    P   V + AV+ GG A +AGL+  D VL
Sbjct: 5  RQITIPRGKDGFGFTICCDSP---VRVQAVDSGGPAERAGLQQLDTVL 49

>2pa1_A PDZ and LIM domain protein 2; PDZ domain, structural genomics, structural genomics consort metal binding protein; 1.70A {Homo sapiens} PDB: 3pdv_A Length = 87

 Score = 38.0 bits (89), Expect = 3e-04
 Identities = 13/47 (27%), Positives = 23/47 (48%), Gaps = 2/47 (4%)

Query: 48 TIEVEVDKPLGLTL--GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
          T++V    P G  +  G+     +++T V   G A  A L+ GD ++
Sbjct: 5  TVDVAGPAPWGFRITGGRDFHTPIMVTKVAERGKAKDADLRPGDIIV 51

>2vsp_A PDZ domain-containing protein 1; membrane, cytoplasm, phosphoprotein, transport protein, CAsp; 2.60A {Homo sapiens} PDB: 2eej_A Length = 91

 Score = 37.6 bits (88), Expect = 3e-04
 Identities = 12/37 (32%), Positives = 17/37 (45%), Gaps = 1/37 (2%)

Query: 57 LGLTL-GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
           G  L   +   G  I  V+ GG A  AGL+  D ++
Sbjct: 16 YGFHLNAIRGLPGSFIKEVQKGGPADLAGLEDEDVII 52

>1te0_A Protease DEGS; two domains, serine protease, PDZ, alpha-beta protein, hydro; 2.20A {Escherichia coli} SCOP: b.36.1.4 b.47.1.1 PDB: 3gdv_A* 3gcn_A* 3gds_A* 3gdu_A* 3gco_A* 1sot_A 1soz_A 1vcw_A 2r3y_A Length = 318

 Score = 39.8 bits (94), Expect = 3e-04
 Identities = 19/93 (20%), Positives = 34/93 (36%), Gaps = 5/93 (5%)

Query: 52  EVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFT 111
           E+        G     G+V+  V   G AA AG++  D ++   S        A +    
Sbjct: 229 EIAPLHAQGGGIDQLQGIVVNEVSPDGPAANAGIQVNDLII---SVDNKPAISALETMD- 284

Query: 112 KTAIQAKPDSVYFVVNRGGADVDVK-RLPKRPA 143
           + A       +  VV R    + ++  + + PA
Sbjct: 285 QVAEIRPGSVIPVVVMRDDKQLTLQVTIQEYPA 317

>1ky9_A Protease DO, DEGP, HTRA; protein quality control, serine protease, trypsin, chaperone, PDZ, ATP-independent, temperature-regulated, periplasm; 2.80A {Escherichia coli} SCOP: b.36.1.4 b.47.1.1 PDB: 3ou0_A 4a8d_A 3otp_A 3mh7_A 3mh4_A 3mh5_A* 3mh6_A* 3cs0_A 2zle_A Length = 448

 Score = 40.0 bits (94), Expect = 3e-04
 Identities = 20/103 (19%), Positives = 39/103 (37%), Gaps = 21/103 (20%)

Query: 44  GASKTIEVEVDKP-----------LGLTLGQ----KPGGGVVITAVEGGGNAAKAGLKSG 88
           G    + +E+ +             G+   +        GVV+  V+ G  AA+ GLK G
Sbjct: 345 GKQVNVNLELQQSSQNQVDSSSIFNGIEGAEMSNKGKDQGVVVNNVKTGTPAAQIGLKKG 404

Query: 89  DQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGA 131
           D ++         +    +L   +  + +KP  +   + RG +
Sbjct: 405 DVII---GANQQAVKNIAEL---RKVLDSKPSVLALNIQRGDS 441

>2pkt_A PDZ and LIM domain protein 1; PDZ domain, structural genomics, structural genomics consort unknown function; HET: PG4; 1.50A {Homo sapiens} PDB: 2v1w_A* Length = 91

 Score = 37.7 bits (88), Expect = 3e-04
 Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 2/52 (3%)

Query: 43 AGASKTIEVEVDKPLGLTL--GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
          +  ++ I+++   P G  L  G+     + I+ V  G  AA A L  GD + 
Sbjct: 1  SMTTQQIDLQGPGPWGFRLVGGKDFEQPLAISRVTPGSKAALANLCIGDVIT 52

>1m5z_A GRIP, AMPA receptor interacting protein; six beta-strands and two alpha-helices, protein binding; NMR {Rattus norvegicus} SCOP: b.36.1.1 Length = 91

 Score = 37.7 bits (88), Expect = 4e-04
 Identities = 9/37 (24%), Positives = 15/37 (40%), Gaps = 1/37 (2%)

Query: 57 LGLTL-GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
           G ++       GV +  +   G     GLK  D++L
Sbjct: 21 FGFSVADGLLEKGVYVKNIRPAGPGDLGGLKPYDRLL 57

>4a8c_A Periplasmic PH-dependent serine endoprotease DEGQ; chaperone, hydrolase; 7.50A {Escherichia coli} PDB: 4a8a_A 4a8b_A 4a9g_A Length = 436

 Score = 39.9 bits (94), Expect = 4e-04
 Identities = 23/104 (22%), Positives = 39/104 (37%), Gaps = 5/104 (4%)

Query: 52  EVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFT 111
           E+   +          G  ++ V  G  +AKAG+K+GD +    S  G  L    +L   
Sbjct: 248 EMSADIAKAFNLDVQRGAFVSEVLPGSGSAKAGVKAGDIIT---SLNGKPLNSFAELRS- 303

Query: 112 KTAIQAKPDSVYFVVNRGGADVDVK-RLPKRPAPPRFGRKLTEA 154
           + A       V   + R G  ++V+  L    +       +T A
Sbjct: 304 RIATTEPGTKVKLGLLRNGKPLEVEVTLDTSTSSSASAEMITPA 347

>1whd_A RGS3, regulator of G-protein signaling 3; PDZ domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, signaling protein; NMR {Mus musculus} SCOP: b.36.1.1 Length = 100

 Score = 37.4 bits (87), Expect = 5e-04
 Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 5/55 (9%)

Query: 40 ARTAGASKTIEVEVDKP-LGLTL-GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
              G    I +   K   G T+    P   V + AV+ GG A +AGL+  D VL
Sbjct: 10 DPENGEKLQITIRRGKDGFGFTICCDSP---VRVQAVDSGGPAERAGLQQLDTVL 61

>2eei_A PDZ domain-containing protein 1; regulatory factor, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 106

 Score = 37.8 bits (88), Expect = 5e-04
 Identities = 10/37 (27%), Positives = 19/37 (51%), Gaps = 1/37 (2%)

Query: 57 LGLTL-GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
           G +L   +   GV +T +   G A +AG+ + D ++
Sbjct: 21 YGFSLKTVQGKKGVYMTDITPQGVAMRAGVLADDHLI 57

>1um7_A Synapse-associated protein 102; PDZ, discs large homolog 3, DLG3-human presynaptic protein, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: b.36.1.1 Length = 113

 Score = 37.4 bits (87), Expect = 6e-04
 Identities = 15/56 (26%), Positives = 29/56 (51%), Gaps = 5/56 (8%)

Query: 42 TAGASKTIEVEVDK---PLGLTL-GQKPGGGVVITAVEGGGNAAKAG-LKSGDQVL 92
             A +  ++ + K    LG  + G + G G+ ++ +  GG A  +G L+ GD++L
Sbjct: 10 GGDAREPRKIILHKGSTGLGFNIVGGEDGEGIFVSFILAGGPADLSGELRRGDRIL 65

>2kv8_A RGS12, regulator of G-protein signaling 12; PDZ domain, signaling protein; NMR {Homo sapiens} Length = 83

 Score = 36.4 bits (85), Expect = 8e-04
 Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 4/37 (10%)

Query: 57 LGLTL-GQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
           G TL GQ P    V++ V  G  A   GL++GDQ+L
Sbjct: 15 YGFTLSGQAP---CVLSCVMRGSPADFVGLRAGDQIL 48

>2ejy_A 55 kDa erythrocyte membrane protein; GPC, maguk, PDZ, membrane protein; NMR {Homo sapiens} PDB: 2ev8_A Length = 97

 Score = 36.6 bits (85), Expect = 9e-04
 Identities = 11/48 (22%), Positives = 21/48 (43%), Gaps = 5/48 (10%)

Query: 50 EVEVDK----PLGLTLGQKPGGGVVITAVEGGGNAAKAG-LKSGDQVL 92
           ++ +K    P+G+ L         +  +  GG   + G L  GD++L
Sbjct: 15 LIQFEKVTEEPMGICLKLNEKQSCTVARILHGGMIHRQGSLHVGDEIL 62

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	235
1efp_A	307	ETF, protein (electron transfer flavoprotein); ele	99.95
1efv_A	315	Electron transfer flavoprotein; electron transport	99.95
1o97_D	320	Electron transferring flavoprotein alpha-subunit;	99.95
4rxn_A	54	Rubredoxin; electron transfer(iron-sulfur protein)	99.64
2v3b_B	55	Rubredoxin 2, rubredoxin; alkane degradation, iron	99.61
1e8j_A	52	Rubredoxin; iron-sulfur-protein, zinc-substitution	99.61
1dx8_A	70	Rubredoxin; electron transport, zinc-substitution;	99.6
6rxn_A	46	Rubredoxin; electron transfer(iron-sulfur protein)	99.59
2kn9_A	81	Rubredoxin; metalloprotein, ssgcid, structural gen	99.58
1yk4_A	52	Rubredoxin, RD; electron transport; 0.69A {Pyrococ	99.58
1s24_A	87	Rubredoxin 2; electron transport; NMR {Pseudomonas	99.55
1lko_A	191	Rubrerythrin all-iron(II) form; reduced form, DIIR	98.73
3pwf_A	170	Rubrerythrin; non heme iron peroxidases, oxidative	98.73
1yuz_A	202	Nigerythrin; rubrythrin, rubredoxin, hemerythrin,	98.73
2pa1_A	87	PDZ and LIM domain protein 2; PDZ domain, structur	96.77
2kdx_A	119	HYPA, hydrogenase/urease nickel incorporation prot	96.72
3a43_A	139	HYPD, hydrogenase nickel incorporation protein HYP	96.65
1rgw_A	85	ZAsp protein; PDZ, cypher, oracle, muscle, Z-DISK,	96.6
2pkt_A	91	PDZ and LIM domain protein 1; PDZ domain, structur	96.51
2ejy_A	97	55 kDa erythrocyte membrane protein; GPC, maguk, P	96.41
2vwr_A	95	Ligand of NUMB protein X 2; protein-binding, metal	96.32
2jil_A	97	GRIP1 protein, glutamate receptor interacting prot	96.22
1wh1_A	124	KIAA1095 protein; PDZ domain, structural genomics,	96.19
2uzc_A	88	Human pdlim5, PDZ and LIM domain 5; metal-binding,	96.18
1n7e_A	97	AMPA receptor interacting protein GRIP; PDZ, prote	96.18
2fcf_A	103	Multiple PDZ domain protein; adaptor molecule, pro	96.13
1qav_A	90	Alpha-1 syntrophin (residues 77-171); beta-finger,	96.13
2db5_A	128	INAD-like protein; PDZ domain, hinadl, PALS1- asso	96.11
1kwa_A	88	Hcask/LIN-2 protein; PDZ domain, neurexin, syndeca	96.09
2q3g_A	89	PDZ and LIM domain protein 7; structural genomics,	96.08
2dmz_A	129	INAD-like protein; PDZ domain, inadl protein, hina	96.0
2o2t_A	117	Multiple PDZ domain protein; structural protein, s	95.99
2he4_A	90	Na(+)/H(+) exchange regulatory cofactor NHE-RF2; p	95.94
2rcz_A	81	Tight junction protein ZO-1; PDZ, domain-swapping,	95.89
1wf7_A	103	Enigma homologue protein; PDZ domain, structural g	95.88
1g9o_A	91	NHE-RF; PDZ domain, complex, signaling protein; 1.	95.87
1m5z_A	91	GRIP, AMPA receptor interacting protein; six beta-	95.83
1ihj_A	98	INAD; intermolecular disulfide bond, PDZ domain, s	95.79
2d90_A	102	PDZ domain containing protein 1; structural genomi	95.74
2w4f_A	97	Protein LAP4; structural protein, phosphoprotein,	95.7
1uit_A	117	Human discs large 5 protein; PDZ domain, HDLG5, ma	95.68
2iwn_A	97	Multiple PDZ domain protein; SGC, MPDZ, MUPP1, MUP	95.66
4amh_A	106	Disks large homolog 1; permutation, protein foldin	95.66
1vb7_A	94	PDZ and LIM domain 2; PDZ domain PDZ-LIM protein,	95.65
2fne_A	117	Multiple PDZ domain protein; structural protein, s	95.64
1wha_A	105	KIAA0147 protein, scribble; PDZ domain, cellular s	95.64
2opg_A	98	Multiple PDZ domain protein; structural protein, s	95.58
3cyy_A	92	Tight junction protein ZO-1; protein-ligand comple	95.58
2jxo_A	98	Ezrin-radixin-moesin-binding phosphoprotein 50; nh	95.57
3tsv_A	124	Tight junction protein ZO-1; PDZ, scaffolding, JAM	95.57
2qg1_A	92	Multiple PDZ domain protein; MPDZ, MUPP1, structur	95.54
2iwq_A	123	Multiple PDZ domain protein; SGC, MPDZ, MUPP1, MUP	95.51
2la8_A	106	Inactivation-NO-after-potential D protein, KON-TI	95.44
2i04_A	85	Membrane-associated guanylate kinase, WW and PDZ d	95.35
2dlu_A	111	INAD-like protein; PDZ domain, inadl protein, hina	95.28
1va8_A	113	Maguk P55 subfamily member 5; PDZ domain, palmitoy	95.28
1nf3_C	128	PAR-6B; semi-CRIB motif, switch I and II, PDZ doma	95.27
2ego_A	96	General receptor for phosphoinositides 1- associat	95.26
2eeh_A	100	PDZ domain-containing protein 7; structural genomi	95.26
3r68_A	95	Na(+)/H(+) exchange regulatory cofactor NHE-RF3; P	95.26
2e7k_A	91	Maguk P55 subfamily member 2; PDZ domain, MPP2 pro	95.26
2qkv_A	96	Inactivation-NO-after-potential D protein; PDZ dom	95.23
3i4w_A	104	Disks large homolog 4; alpha and beta protein, alt	95.21
3cbz_A	108	Dishevelled-2; PDZ domain, phage derived high affi	95.17
1d5g_A	96	Human phosphatase HPTP1E; protein-peptide complex,	95.16
3ngh_A	106	PDZ domain-containing protein 1; adaptor protein,	95.16
1uez_A	101	KIAA1526 protein; PDZ domain, structural genomics,	95.15
1x6d_A	119	Interleukin-16; PDZ domain, lymphocyte chemoattrac	95.13
1q7x_A	108	PDZ2B domain of PTP-BAS (HPTP1E); phosphatase, str	95.09
2lcq_A	165	Putative toxin VAPC6; PIN domain, Zn ribbon domain	95.07
2eeg_A	94	PDZ and LIM domain protein 4; PDZ domain, structur	95.07
3qik_A	101	Phosphatidylinositol 3,4,5-trisphosphate-dependen	95.06
2vz5_A	139	TAX1-binding protein 3; WNT signaling pathway, pro	95.01
2kjd_A	128	Sodium/hydrogen exchange regulatory cofactor NHE-	94.96
2awx_A	105	Synapse associated protein 97; membrane protein, s	94.93
2v90_A	96	PDZ domain-containing protein 3; membrane, protein	94.91
2g5m_B	113	Neurabin-2; spinophilin, PDZ domain, CNS, synaptic	94.89
2dm8_A	116	INAD-like protein; PDZ domain, inadl protein, hina	94.89
2r4h_A	112	Membrane-associated guanylate kinase, WW and PDZ c	94.88
2jre_A	108	C60-1 PDZ domain peptide; de novo protein; NMR {Sy	94.82
2q9v_A	90	Membrane-associated guanylate kinase, WW and PDZ c	94.77
1w9e_A	166	Syntenin 1; cell adhesion, adhesion/complex, PDZ d	94.77
1mfg_A	95	ERB-B2 interacting protein; PDZ domain, protein-pe	94.76
1wi4_A	109	Synip, syntaxin binding protein 4; syntaxin4-inter	94.74
3l4f_D	132	SH3 and multiple ankyrin repeat domains protein 1;	94.72
1um1_A	110	KIAA1849 protein, RSGI RUH-007; PDZ domain, human	94.71
1uhp_A	107	Hypothetical protein KIAA1095; PDZ domain, semapho	94.71
2djt_A	104	Unnamed protein product; PDZ domain, structural ge	94.69
2d92_A	108	INAD-like protein; PDZ domain, inadl protein, hina	94.69
2koj_A	111	Partitioning defective 3 homolog; PDZ domain, stru	94.69
1tp5_A	119	Presynaptic density protein 95; PDZ-peptide ligand	94.66
2daz_A	124	INAD-like protein; PDZ domain, inadl protein, hina	94.65
2eno_A	120	Synaptojanin-2-binding protein; mitochondrial oute	94.62
1wf8_A	107	Neurabin-I; PDZ domain, structural genomics, NPPSF	94.59
1v5l_A	103	PDZ and LIM domain 3; actinin alpha 2 associated L	94.58
2i1n_A	102	Discs, large homolog 3; DLG3, PDZ, PDZ domain, sig	94.58
3o46_A	93	Maguk P55 subfamily member 7; PDZ domain, structur	94.57
2fe5_A	94	Presynaptic protein SAP102; PDZ domain, DLG3, huma	94.54
2eaq_A	90	LIM domain only protein 7; conserved hypothetical	94.53
1wi2_A	104	Riken cDNA 2700099C19; structural genomics, riken	94.53
2yt7_A	101	Amyloid beta A4 precursor protein-binding family A	94.5
3e17_A	88	Tight junction protein ZO-2; domain swapping, alte	94.49
2byg_A	117	Channel associated protein of synapse-110; DLG2, P	94.47
2dkr_A	93	LIN-7 homolog B; LIN-7B, PDZ, structural genomics,	94.44
2gmg_A	105	Hypothetical protein PF0610; winged-helix like pro	94.43
1v62_A	117	KIAA1719 protein; structural genomics, synaptic tr	94.42
4e34_A	87	Golgi-associated PDZ and coiled-coil motif-contai	94.38
3hpk_A	125	Protein interacting with PRKCA 1; oxidized, PDZ do	94.38
1q3o_A	109	Shank1; PDZ, GKAP, peptide binding protein; 1.80A	94.34
1uf1_A	128	KIAA1526 protein; PDZ domain, structural genomics,	94.33
2z17_A	104	Pleckstrin homology SEC7 and coiled-coil domains-	94.3
1qau_A	112	Neuronal nitric oxide synthase (residues 1-130); b	94.29
1ueq_A	123	Membrane associated guanylate kinase inverted-2 (M	94.29
2vsp_A	91	PDZ domain-containing protein 1; membrane, cytopla	94.24
2jik_A	101	Synaptojanin-2 binding protein; transmembrane, out	94.21
2f5y_A	91	Regulator of G-protein signalling 3 isoform 1; PDZ	94.17
3khf_A	99	Microtubule-associated serine/threonine-protein ki	94.16
3b76_A	118	E3 ubiquitin-protein ligase LNX; PDZ, bound ligand	94.15
1x5q_A	110	LAP4 protein; PDZ domain, scribble homolog protein	94.07
2edp_A	100	Fragment, shroom family member 4; APX/shroom famil	94.04
3axa_A	106	Afadin, nectin-3, protein AF-6; PDZ domain, fusion	94.01
3k1r_A	192	Harmonin; protein-protein complex, alternative spl	93.97
1v5q_A	122	GRIP1 homolog, glutamate receptor interacting prot	93.93
3kzd_A	94	TIAM-1, T-lymphoma invasion and metastasis-inducin	93.93
2pzd_A	113	Serine protease HTRA2; PDZ domain, apoptosis, mito	93.89
2ehr_A	117	INAD-like protein; PDZ domain, inadl protein, hina	93.88
3gge_A	95	PDZ domain-containing protein GIPC2; structural ge	93.86
1ufx_A	103	KIAA1526 protein; PDZ domain, structural genomics,	93.74
1uep_A	103	Membrane associated guanylate kinase inverted-2 (M	93.7
2dls_A	93	PDZ-rhogef, RHO guanine nucleotide exchange factor	93.7
3gsl_A	196	Disks large homolog 4; PDZ domain, tandem, PSD-95,	93.68
2edz_A	114	PDZ domain-containing protein 1; CFTR-associated p	93.63
2h2b_A	107	Tight junction protein ZO-1; PDZ domain, phage der	93.61
4ayb_P	48	DNA-directed RNA polymerase; transferase, multi-su	93.56
1uju_A	111	Scribble; PDZ domain, cellular signaling, structur	93.54
2kom_A	121	Partitioning defective 3 homolog; PAR-3B, PDZ doma	93.54
1wfg_A	131	Regulating synaptic membrane exocytosis protein 2;	93.52
2eei_A	106	PDZ domain-containing protein 1; regulatory factor	93.5
2dc2_A	103	GOPC, golgi associated PDZ and coiled-coil motif c	93.48
3gsl_A	196	Disks large homolog 4; PDZ domain, tandem, PSD-95,	93.46
1ujd_A	117	KIAA0559 protein; PDZ domain, structural genomics,	93.36
2kv8_A	83	RGS12, regulator of G-protein signaling 12; PDZ do	93.32
1i16_A	130	Interleukin 16, LCF; cytokine, lymphocyte chemoatt	93.28
1wg6_A	127	Hypothetical protein (riken cDNA 2810455B10); stru	93.28
3sfj_A	104	TAX1-binding protein 3; PDZ:peptide complex, signa	93.23
2gzv_A	114	PRKCA-binding protein; protein kinase C, PDZ domai	93.22
2vsv_A	109	Rhophilin-2; scaffold protein, RHO GTPase binding,	93.19
2cs5_A	119	Tyrosine-protein phosphatase, non-receptor type 4;	93.19
2kpk_A	129	Membrane-associated guanylate kinase, WW and PDZ c	93.18
3egg_C	170	Spinophilin; PP1, serine/threonine phosphatase, po	93.14
2yub_A	118	LIMK-2, LIM domain kinase 2; PDZ domain, structura	93.11
3tsz_A	391	Tight junction protein ZO-1; PDZ3-SH3-GUK, scaffol	93.11
1r6j_A	82	Syntenin 1; PDZ, membrane protein; 0.73A {Homo sap	92.92
1v6b_A	118	Harmonin isoform A1; structural genomics, usher sy	92.89
1x5n_A	114	Harmonin; PDZ domain, usher syndrome 1C protein, a	92.81
3qe1_A	107	Sorting nexin-27, G protein-activated inward RECT	92.81
3id1_A	95	Regulator of sigma E protease; hydrolase, cell inn	92.79
2iwo_A	120	Multiple PDZ domain protein; SGC, MPDZ, MUPP1, MUP	92.77
2qt5_A	200	Glutamate receptor-interacting protein 1; PDZ-pept	92.67
1b8q_A	127	Protein (neuronal nitric oxide synthase); PDZ doma	92.45
1wfv_A	103	Membrane associated guanylate kinase inverted-2; a	92.21
1y7n_A	90	Amyloid beta A4 precursor protein-binding family A	92.18
3nfk_A	107	Tyrosine-protein phosphatase non-receptor type 4;	92.14
3h0g_I	113	DNA-directed RNA polymerases I, II, and III subuni	92.11
1vae_A	111	Rhophilin 2, rhophilin, RHO GTPase binding protein	92.03
3shw_A	468	Tight junction protein ZO-1; PDZ-SH3-GUK supramodu	91.79
2d8i_A	114	T-cell lymphoma invasion and metastasis 1 variant;	91.73
2p3w_A	112	Probable serine protease HTRA3; PDZ domain, phage	91.62
4a8c_A	436	Periplasmic PH-dependent serine endoprotease DEGQ;	91.54
1twf_L	70	ABC10-alpha, DNA-directed RNA polymerases I, II, a	91.45
1whd_A	100	RGS3, regulator of G-protein signaling 3; PDZ doma	91.39
1uew_A	114	Membrane associated guanylate kinase inverted-2 (M	91.35
1n7t_A	103	99-MER peptide of densin-180-like protein; PDZ dom	91.05
1p1d_A	196	PDZ45, glutamate receptor interacting protein; PDZ	90.96
3r0h_A	206	INAD, inactivation-NO-after-potential D protein; p	90.84
1um7_A	113	Synapse-associated protein 102; PDZ, discs large h	90.75
3bpu_A	88	Membrane-associated guanylate kinase, WW and PDZ c	90.72
2qbw_A	195	PDZ-fibronectin fusion protein; fibronectin PDZ, u	90.71
3i18_A	100	LMO2051 protein; alpha-beta protein, structural ge	90.5
2csj_A	117	TJP2 protein; PDZ domain, structural genomics, NPP	90.33
4fgm_A	597	Aminopeptidase N family protein; structural genomi	90.05
2yuy_A	126	RHO GTPase activating protein 21; PDZ domain, stru	89.58
3r0h_A	206	INAD, inactivation-NO-after-potential D protein; p	89.53
2l97_A	134	HTRA, putative serine protease; HTRA-PDZ, protein	89.46
1p1d_A	196	PDZ45, glutamate receptor interacting protein; PDZ	89.37
2lob_A	112	Golgi-associated PDZ and coiled-coil motif-contai	88.96
2i6v_A	87	General secretion pathway protein C; EPSC, GSPC, P	89.34
2kjp_A	91	Uncharacterized protein YLBL; mixed alpha-beta pro	89.21
1wif_A	126	RSGI RUH-020, riken cDNA 4930408O21; PDZ domain, s	89.16
1twf_I	122	B12.6, DNA-directed RNA polymerase II 14.2 kDa pol	88.77
2zpm_A	91	Regulator of sigma E protease; metalloproteinase,	88.74
2qt5_A	200	Glutamate receptor-interacting protein 1; PDZ-pept	88.74
3rle_A	209	Golgi reassembly-stacking protein 2; PDZ, tether,	88.03
3pv2_A	451	DEGQ; trypsin fold, PDZ domain, chaperone protease	87.95
2edv_A	96	FERM and PDZ domain-containing protein 1; cytoskel	87.48
2krg_A	216	Na(+)/H(+) exchange regulatory cofactor NHE-RF1; a	87.4
2i4s_A	105	General secretion pathway protein C; EPSC, GSPC, P	87.23
3h0g_L	63	DNA-directed RNA polymerases I, II, and III subuni	87.12
3qo6_A	348	Protease DO-like 1, chloroplastic; protease, HTRA,	86.99
1ujv_A	96	Membrane associated guanylate kinase inverted-2 (M	86.72
2kl1_A	94	YLBL protein; structure genomics, structural genom	86.44
1z87_A	263	Alpha-1-syntrophin; protein binding; NMR {Mus musc	86.41
3irb_A	145	Uncharacterized protein from DUF35 family; 1381535	86.3
1lcy_A	325	HTRA2 serine protease; apoptosis, PDZ domain, casp	86.12
2epr_A	48	POZ-, at HOOK-, and zinc finger-containing protein	85.59
3stj_A	345	Protease DEGQ; serine protease, PDZ domain, protea	85.34
1y8t_A	324	Hypothetical protein RV0983; serine protease, stru	85.26
1fc6_A	388	Photosystem II D1 protease; D1 C-terminal processi	84.75
2gnr_A	145	Conserved hypothetical protein; 13815350, structur	84.59
3v2d_5	60	50S ribosomal protein L32; ribosome associated inh	82.16
2zjr_Z	60	50S ribosomal protein L32; ribosome, large ribosom	82.09
3rle_A	209	Golgi reassembly-stacking protein 2; PDZ, tether,	81.93
2akl_A	138	PHNA-like protein PA0128; two domains, Zn binding	81.58
3k50_A	403	Putative S41 protease; structural genomics, joint	81.35
4a8c_A	436	Periplasmic PH-dependent serine endoprotease DEGQ;	80.79
2epq_A	45	POZ-, at HOOK-, and zinc finger-containing protein	80.09

>1efp_A ETF, protein (electron transfer flavoprotein); electron transport, glutaric acidemia type II; HET: FAD AMP; 2.60A {Paracoccus denitrificans} SCOP: c.26.2.3 c.31.1.2

Probab=99.95  E-value=1.4e-29  Score=230.52  Aligned_cols=107  Identities=19%  Similarity=0.166  Sum_probs=102.7

Q ss_pred             ccccccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEE--------EeecCccceeeeeecCCcEEEEEeec
Q 038893            5 QGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIE--------VEVDKPLGLTLGQKPGGGVVITAVEG   76 (235)
Q Consensus         5 ~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~--------v~~~kplGl~~g~~~~~~vyIa~~is   76 (235)
                      +..+|++|++|||+     |||++++|||+++++||++|||++++|        ++.++|+|+ +|++++|+|||++|||
T Consensus       185 ~~~~L~~A~ivVsg-----GRG~~~~e~f~~~~~LA~~Lga~vgaSR~~vd~Gw~~~~~QVGq-TGk~V~P~lYiA~GIS  258 (307)
T 1efp_A          185 DRPELTSARRVVSG-----GRGLGSKESFAIIEELADKLGAAVGASRAAVDSGYAPNDWQVGQ-TGKVVAPELYVAVGIS  258 (307)
T ss_dssp             CSCCTTTCSEEEEE-----CGGGCSSSTTHHHHHHHHHHTCEEEECHHHHHTTSSCGGGBBSS-SSBCCCCSEEEEESCC
T ss_pred             CCCCcCCCCEEEEc-----CCcCCCHHHHHHHHHHHHHhCCceeecHHHHhCCCCChhhEecc-CCcccCCceEEEEecc
Confidence            35789999999999     999999999999999999999999999        778899999 9999999999999999


Q ss_pred             chHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCceeeeecccc
Q 038893           77 GGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRL  138 (235)
Q Consensus        77 G~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~  138 (235)
                      |++||++||+.+                     ++|+|||+||+||||+++|||+++|++++
T Consensus       259 GAiQHlaGm~~s---------------------~~IVAIN~D~~ApIF~~ADygiVgDl~~v  299 (307)
T 1efp_A          259 GAIQHLAGMKDS---------------------KVIVAINKDEEAPIFQIADYGLVGDLFSV  299 (307)
T ss_dssp             CCHHHHTTTTTC---------------------SEEEEEESCTTCGGGGTCSEEEESCHHHH
T ss_pred             CcHHHHhhhccC---------------------CEEEEEeCCCCCCcccccCeEEeeeHHHH
Confidence            999999999999                     47899999999999999999999999986

>1efv_A Electron transfer flavoprotein; electron transport, glutaric acidemia type II; HET: FAD AMP; 2.10A {Homo sapiens} SCOP: c.26.2.3 c.31.1.2 PDB: 2a1u_A* 1t9g_R* 2a1t_R*

Probab=99.95  E-value=1.8e-29  Score=230.41  Aligned_cols=107  Identities=21%  Similarity=0.172  Sum_probs=102.8

Q ss_pred             ccccccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEE--------EeecCccceeeeeecCCcEEEEEeec
Q 038893            5 QGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIE--------VEVDKPLGLTLGQKPGGGVVITAVEG   76 (235)
Q Consensus         5 ~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~--------v~~~kplGl~~g~~~~~~vyIa~~is   76 (235)
                      +..+|++|++|||+     |||++++|||+++++||++|||++++|        ++.++|+|+ +|++++|+|||++|||
T Consensus       190 ~~~~L~~A~ivVsg-----GrG~~~~e~f~~~~~LA~~Lga~vgaSR~~vd~Gw~~~~~QVGq-TGk~V~P~lYiA~GIS  263 (315)
T 1efv_A          190 DRPELTGAKVVVSG-----GRGLKSGENFKLLYDLADQLHAAVGASRAAVDAGFVPNDMQVGQ-TGKIVAPELYIAVGIS  263 (315)
T ss_dssp             CSCCGGGCSEEEEE-----CGGGCSTGGGHHHHHHHHHHTCEEEECHHHHHTTSSCGGGBBST-TSBCCCCSEEEEESCC
T ss_pred             CCcCcCCCCEEEEc-----CCcCCChHHHHHHHHHHHHhCCceeecHHHHhCCCCCHHheecc-CCcccCcceEEEeccc
Confidence            35789999999999     999999999999999999999999999        778899999 9999999999999999


Q ss_pred             chHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCceeeeecccc
Q 038893           77 GGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRL  138 (235)
Q Consensus        77 G~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~  138 (235)
                      |++||++||+.+                     ++|+|||+||+||||+++|||+++|++++
T Consensus       264 GAiQHlaGm~~s---------------------~~IVAIN~D~~ApIf~~ADygiVgDl~~v  304 (315)
T 1efv_A          264 GAIQHLAGMKDS---------------------KTIVAINKDPEAPIFQVADYGIVADLFKV  304 (315)
T ss_dssp             CCHHHHTTTTTC---------------------SEEEEEESCTTCGGGGTCSEEEESCHHHH
T ss_pred             CcHHHHhhcccC---------------------CEEEEEeCCCCCCcchhcCeEEeeeHHHH
Confidence            999999999999                     47899999999999999999999999997

>1o97_D Electron transferring flavoprotein alpha-subunit; FAD binding; HET: AMP FAD; 1.6A {Methylophilus methylotrophus} SCOP: c.26.2.3 c.31.1.2 PDB: 1o95_D* 1o96_B* 1o94_D* 3clu_D* 3clt_D* 3clr_D* 3cls_D*

Probab=99.95  E-value=3e-29  Score=229.48  Aligned_cols=107  Identities=17%  Similarity=0.226  Sum_probs=102.4

Q ss_pred             ccccccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEE--------EeecCccceeeeeecCC-cEEEEEee
Q 038893            5 QGLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIE--------VEVDKPLGLTLGQKPGG-GVVITAVE   75 (235)
Q Consensus         5 ~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~--------v~~~kplGl~~g~~~~~-~vyIa~~i   75 (235)
                      +..+|++|++|||+     |||++++|||+++++||++|||++++|        ++.++|+|+ +|++++| +|||++||
T Consensus       195 ~~~~l~~A~ivVsg-----GRG~~~~e~f~~~~~LA~~Lga~vgaSR~~vd~Gw~~~~~QVGq-TGk~V~P~~lYiA~GI  268 (320)
T 1o97_D          195 NDIDITTVDFIMSI-----GRGIGEETNVEQFRELADEAGATLCCSRPIADAGWLPKSRQVGQ-SGKVVGSCKLYVAMGI  268 (320)
T ss_dssp             -CCCCSCSSEEEEE-----CGGGCSGGGHHHHHHHHHHHTCEEEECHHHHHTTSSCGGGBBST-TSBCCTTCSEEEEESC
T ss_pred             CCcCcCCCCEEEEc-----CCccCChHHHHHHHHHHHHhCCceeecHHHHhCCCCChhhEeec-CceEecccceEEEEec
Confidence            35799999999999     999999999999999999999999999        788899999 9999999 99999999


Q ss_pred             cchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCceeeeecccc
Q 038893           76 GGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRL  138 (235)
Q Consensus        76 sG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~  138 (235)
                      ||++||++||+.+                     ++|+|||+||+||||+++|||+++|++++
T Consensus       269 SGAiQHlaGm~~s---------------------~~IVAIN~D~~ApIF~~ADygiVgDl~~v  310 (320)
T 1o97_D          269 SGSIQHMAGMKHV---------------------PTIIAVNTDPGASIFTIAKYGIVADIFDI  310 (320)
T ss_dssp             CCCHHHHHHHTTC---------------------SEEEEECSCTTCGGGGTCSEEECSCHHHH
T ss_pred             cCcHHHHhhcccC---------------------CEEEEEeCCCCCCcccccCeEEeeeHHHH
Confidence            9999999999999                     47899999999999999999999999997

>4rxn_A Rubredoxin; electron transfer(iron-sulfur protein); 1.20A {Clostridium pasteurianum} SCOP: g.41.5.1 PDB: 5rxn_A 1bfy_A 1fhh_A 1fhm_A 1irn_A 1iro_A 1r0f_A 1r0g_A 1r0h_A 1r0i_A 1r0j_A 1t9q_A 1c09_A 1b2j_A 1b13_A 1smm_A 1smu_A 1smw_A 1be7_A 1t9o_A ...

Probab=99.64  E-value=6e-17  Score=113.36  Aligned_cols=43  Identities=35%  Similarity=0.814  Sum_probs=39.6

Q ss_pred             cceEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCeeeccC
Q 038893          158 RATHICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRFARYDV  200 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F~~~~~  200 (235)
                      |.+|+|++||||||++           |+|+++|++|+||+|+++|++|+.+++
T Consensus         1 m~~y~C~vCGyvYd~~~Gdp~~gi~pGt~fe~lP~dw~CP~Cg~~K~~F~~~~~   54 (54)
T 4rxn_A            1 MKKYTCTVCGYIYDPEDGDPDDGVNPGTDFKDIPDDWVCPLCGVGKDEFEEVEE   54 (54)
T ss_dssp             CCCEEETTTCCEECTTTCBGGGTBCTTCCGGGSCTTCBCTTTCCBGGGEEECCC
T ss_pred             CCceECCCCCeEECCCcCCcccCcCCCCChhHCCCCCcCcCCCCcHHHceEccC
Confidence            4689999999999986           899999999999999999999998763

>2v3b_B Rubredoxin 2, rubredoxin; alkane degradation, iron-sulfur protein, oxidoreductase, ELE transfer, electron transport, FAD, NAD, iron; HET: FAD; 2.45A {Pseudomonas aeruginosa}

Probab=99.61  E-value=3e-16  Score=110.11  Aligned_cols=43  Identities=28%  Similarity=0.767  Sum_probs=39.1

Q ss_pred             cceEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCeeeccC
Q 038893          158 RATHICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRFARYDV  200 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F~~~~~  200 (235)
                      |..|+|++||||||++           |+|+++|++|+||+|+++|++|+.++.
T Consensus         1 m~~y~C~~CGyvYd~~~Gdp~~gi~pGt~f~~lP~dw~CP~Cga~K~~F~~~~~   54 (55)
T 2v3b_B            1 MRKWQCVVCGFIYDEALGLPEEGIPAGTRWEDIPADWVCPDCGVGKIDFEMIEI   54 (55)
T ss_dssp             CCEEEETTTCCEEETTTCBTTTTBCTTCCGGGSCTTCCCTTTCCCGGGEEECC-
T ss_pred             CCcEEeCCCCeEECCCcCCcccCcCCCCChhHCCCCCcCCCCCCCHHHceeccc
Confidence            4689999999999986           799999999999999999999998753

>1e8j_A Rubredoxin; iron-sulfur-protein, zinc-substitution, thermostability; NMR {Desulfovibrio gigas} SCOP: g.41.5.1 PDB: 1rdg_A 2dsx_A 1spw_A

Probab=99.61  E-value=3.4e-16  Score=108.68  Aligned_cols=41  Identities=37%  Similarity=0.845  Sum_probs=37.6

Q ss_pred             cceEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCeeec
Q 038893          158 RATHICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRFARY  198 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F~~~  198 (235)
                      |..|+|++||||||++           |+|+++|++|+||+|+++|++|+.+
T Consensus         1 m~~y~C~~CGyvYd~~~Gdp~~gi~pGt~f~~lP~dw~CP~Cg~~K~~F~~~   52 (52)
T 1e8j_A            1 MDIYVCTVCGYEYDPAKGDPDSGIKPGTKFEDLPDDWACPVCGASKDAFEKQ   52 (52)
T ss_dssp             CCCEECSSSCCCCCTTTCCTTTTCCSSCCTTSSCTTCCCSSSCCCTTSCEEC
T ss_pred             CCcEEeCCCCeEEcCCcCCcccCcCCCCchHHCCCCCcCCCCCCcHHHcEEC
Confidence            4579999999999976           7999999999999999999999864

>1dx8_A Rubredoxin; electron transport, zinc-substitution; NMR {Guillardia theta} SCOP: g.41.5.1 PDB: 1h7v_A

Probab=99.60  E-value=4.4e-16  Score=114.21  Aligned_cols=53  Identities=30%  Similarity=0.716  Sum_probs=45.8

Q ss_pred             ccceEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCeeeccCCCCCCCCCCC
Q 038893          157 ARATHICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRFARYDVNTGKPIGSGL  210 (235)
Q Consensus       157 ~~~~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F~~~~~~~~~~~g~~~  210 (235)
                      .+..|+|++||||||++           |+|+++|++|+||+|+++|++|+.+.. .++|+--|+
T Consensus         4 ~m~~y~C~vCGyiYd~~~Gdp~~gi~pGT~f~~lPddw~CP~Cga~K~~F~~~~~-~~sgf~en~   67 (70)
T 1dx8_A            4 DEGKYECEACGYIYEPEKGDKFAGIPPGTPFVDLSDSFMCPACRSPKNQFKSIKK-VIAGFAENQ   67 (70)
T ss_dssp             CSSCEEETTTCCEECTTTCCTTTTCCSSCCGGGSCTTCBCTTTCCBGGGEEECCC-BCCCSCCCS
T ss_pred             CCceEEeCCCCEEEcCCCCCcccCcCCCCchhhCCCCCcCCCCCCCHHHceEccc-cCCChhhhc
Confidence            46789999999999986           799999999999999999999999864 567665544

>6rxn_A Rubredoxin; electron transfer(iron-sulfur protein); 1.50A {Desulfovibrio desulfuricans} SCOP: g.41.5.1

Probab=99.59  E-value=3e-16  Score=106.49  Aligned_cols=40  Identities=40%  Similarity=0.911  Sum_probs=37.3

Q ss_pred             cceEEcCCCceEEeCC----CCCCCCCCCCCCCCCCCCccCeee
Q 038893          158 RATHICLDCGYIYFLQ----KPFDELPDTYVCPQCQAPKKRFAR  197 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~----tpfe~lped~~CP~C~a~k~~F~~  197 (235)
                      |..|+|++||||||++    |+|+++|++|+||+|+++|++|+.
T Consensus         2 m~~y~C~vCGyvyd~~~Gd~t~f~~lP~dw~CP~Cg~~k~~F~~   45 (46)
T 6rxn_A            2 MQKYVCNVCGYEYDPAEHDNVPFDQLPDDWCCPVCGVSKDQFSP   45 (46)
T ss_dssp             CCCEEETTTCCEECGGGGTTCCGGGSCTTCBCTTTCCBGGGEEE
T ss_pred             CCEEECCCCCeEEeCCcCCCcchhhCCCCCcCcCCCCcHHHcEe
Confidence            5689999999999965    899999999999999999999985

>2kn9_A Rubredoxin; metalloprotein, ssgcid, structural genomics, seattle structural genomics center for infectious electron transport, iron; NMR {Mycobacterium tuberculosis}

Probab=99.58  E-value=1e-15  Score=115.11  Aligned_cols=44  Identities=32%  Similarity=0.792  Sum_probs=40.6

Q ss_pred             ccceEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCeeeccC
Q 038893          157 ARATHICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRFARYDV  200 (235)
Q Consensus       157 ~~~~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F~~~~~  200 (235)
                      ++..|+|++||||||++           |+|+++|++|+||+|+++|++|+.++.
T Consensus        24 em~~y~C~vCGyvYD~~~Gdp~~gI~pGT~fedlPddW~CPvCga~K~~F~~i~~   78 (81)
T 2kn9_A           24 DYKLFRCIQCGFEYDEALGWPEDGIAAGTRWDDIPDDWSCPDCGAAKSDFEMVEV   78 (81)
T ss_dssp             CCCEEEETTTCCEEETTTCBTTTTBCTTCCTTTSCTTCCCTTTCCCGGGEEEECC
T ss_pred             CcceEEeCCCCEEEcCCcCCcccCcCCCCChhHCCCCCcCCCCCCCHHHcEEccc
Confidence            36789999999999985           799999999999999999999999865

>1yk4_A Rubredoxin, RD; electron transport; 0.69A {Pyrococcus abyssi} PDB: 2pya_A 1yk5_A 1bq8_A 1bq9_A* 3kyu_A 3kyv_A 3kyw_A 3kyx_A 3kyy_A 3ryg_A 3rz6_A 3rzt_A 3ss2_A 1brf_A 1caa_A 1cad_A 1vcx_A 1zrp_A 1iu5_A 1iu6_A ...

Probab=99.58  E-value=8e-16  Score=106.79  Aligned_cols=40  Identities=48%  Similarity=1.036  Sum_probs=37.5

Q ss_pred             eEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCeeecc
Q 038893          160 THICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRFARYD  199 (235)
Q Consensus       160 ~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F~~~~  199 (235)
                      .|+|++||||||++           |+|+++|++|+||+|+++|++|+.++
T Consensus         2 ~~~C~~CGyvYd~~~Gdp~~gi~pGt~f~~lP~dw~CP~Cg~~K~~F~~~~   52 (52)
T 1yk4_A            2 KLSCKICGYIYDEDEGDPDNGISPGTKFEDLPDDWVCPLCGAPKSEFERIE   52 (52)
T ss_dssp             EEEESSSSCEEETTTCBGGGTBCTTCCGGGSCTTCBCTTTCCBGGGEEEEC
T ss_pred             cEEeCCCCeEECCCcCCcccCcCCCCCHhHCCCCCcCCCCCCCHHHcEECC
Confidence            69999999999986           89999999999999999999999763

>1s24_A Rubredoxin 2; electron transport; NMR {Pseudomonas oleovorans} SCOP: g.41.5.1

Probab=99.55  E-value=2.1e-15  Score=114.76  Aligned_cols=45  Identities=38%  Similarity=0.888  Sum_probs=40.9

Q ss_pred             cccceEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCeeeccC
Q 038893          156 KARATHICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRFARYDV  200 (235)
Q Consensus       156 ~~~~~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F~~~~~  200 (235)
                      ..+..|+|++||||||++           |+|+++|++|+||+|+++|++|+.+++
T Consensus        31 ~~m~~y~C~vCGyvYD~~~Gdp~~gI~pGT~fedlPddW~CPvCga~K~~F~~i~~   86 (87)
T 1s24_A           31 KAYLKWICITCGHIYDEALGDEAEGFTPGTRFEDIPDDWCCPDCGATKEDYVLYEE   86 (87)
T ss_dssp             -CCCEEEETTTTEEEETTSCCTTTTCCSCCCGGGCCTTCCCSSSCCCGGGEEECSC
T ss_pred             cCCceEECCCCCeEecCCcCCcccCcCCCCChhHCCCCCCCCCCCCCHHHhhhccc
Confidence            347899999999999986           899999999999999999999998764

>1lko_A Rubrerythrin all-iron(II) form; reduced form, DIIRON, four-helix bundle, rubre like, electron transport; 1.63A {Desulfovibrio vulgaris} SCOP: a.25.1.1 g.41.5.1 PDB: 1dvb_A 1jyb_A 1b71_A 1lkm_A 1lkp_A 1qyb_A 1s2z_A 1s30_A 1ryt_A

Probab=98.73  E-value=3.1e-09  Score=90.33  Aligned_cols=37  Identities=30%  Similarity=0.769  Sum_probs=32.4

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeeccC
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDV  200 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~~~  200 (235)
                      +..|+|++|||+|++.    ++|+  +||+|++++++|+....
T Consensus       153 ~~~~~C~~CG~~~~g~----~~p~--~CP~C~~~k~~f~~~~~  189 (191)
T 1lko_A          153 ATKWRCRNCGYVHEGT----GAPE--LCPACAHPKAHFELLGI  189 (191)
T ss_dssp             EEEEEETTTCCEEEEE----ECCS--BCTTTCCBGGGEEECCC
T ss_pred             CceEEECCCCCEeeCC----CCCC--CCCCCcCCHHHHHhHhh
Confidence            4589999999999983    6787  99999999999998654

>3pwf_A Rubrerythrin; non heme iron peroxidases, oxidative stress, oxidoreductase; 1.64A {Pyrococcus furiosus} PDB: 3mps_A 3pza_A 3qvd_A 1nnq_A 2hr5_A

Probab=98.73  E-value=5.2e-09  Score=87.82  Aligned_cols=33  Identities=42%  Similarity=0.939  Sum_probs=30.2

Q ss_pred             ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeec
Q 038893          159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARY  198 (235)
Q Consensus       159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~  198 (235)
                      ..|+|++|||||++     ++|+  +||+|++|++.|+.+
T Consensus       137 ~~~~C~~CG~i~~~-----~~p~--~CP~Cg~~~~~F~~~  169 (170)
T 3pwf_A          137 KVYICPICGYTAVD-----EAPE--YCPVCGAPKEKFVVF  169 (170)
T ss_dssp             CEEECTTTCCEEES-----CCCS--BCTTTCCBGGGCEEE
T ss_pred             CeeEeCCCCCeeCC-----CCCC--CCCCCCCCHHHceec
Confidence            57999999999996     6788  999999999999986

>1yuz_A Nigerythrin; rubrythrin, rubredoxin, hemerythrin, electron transfer, DIIR center, oxidoreductase; 1.40A {Desulfovibrio vulgaris subsp} SCOP: a.25.1.1 g.41.5.1 PDB: 1yv1_A 1yux_A

Probab=98.73  E-value=5.5e-09  Score=89.77  Aligned_cols=34  Identities=41%  Similarity=0.726  Sum_probs=29.6

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeec
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARY  198 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~  198 (235)
                      +..|+|++|||+|++     +.|  |+||+|++++++|+.+
T Consensus       169 ~~~~~C~~CG~i~~g-----~~p--~~CP~C~~~k~~F~~~  202 (202)
T 1yuz_A          169 DKFHLCPICGYIHKG-----EDF--EKCPICFRPKDTFTAY  202 (202)
T ss_dssp             CCEEECSSSCCEEES-----SCC--SBCTTTCCBGGGCEEC
T ss_pred             CcEEEECCCCCEEcC-----cCC--CCCCCCCCChHHheeC
Confidence            568999999999998     344  7999999999999864

>2pa1_A PDZ and LIM domain protein 2; PDZ domain, structural genomics, structural genomics consort metal binding protein; 1.70A {Homo sapiens} PDB: 3pdv_A

Probab=96.77  E-value=0.0055  Score=43.91  Aligned_cols=76  Identities=21%  Similarity=0.376  Sum_probs=48.3

Q ss_pred             EEEeec--Cccceeeeeec--CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceE
Q 038893           49 IEVEVD--KPLGLTLGQKP--GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYF  124 (235)
Q Consensus        49 ~~v~~~--kplGl~~g~~~--~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if  124 (235)
                      .++++.  .++|+.+....  ..+++|..+.+++.|+++|++.||+|..+-   |..+-.. ........++..++...+
T Consensus         4 ~~v~~~~~~~lG~~l~~~~~~~~g~~V~~V~~~spA~~aGL~~GD~I~~in---g~~v~~~-~~~~~~~~l~~~~~~v~l   79 (87)
T 2pa1_A            4 LTVDVAGPAPWGFRITGGRDFHTPIMVTKVAERGKAKDADLRPGDIIVAIN---GESAEGM-LHAEAQSKIRQSPSPLRL   79 (87)
T ss_dssp             EEEEECSSSCCSEEEEEEGGGTEEEEEEEECSSSHHHHTTCCTTCEEEEET---TEESTTC-CHHHHHHHHHTCCSSEEE
T ss_pred             EEEEECCCCccCEEEecccCCCCCEEEEEECCCChHHHcCCCCCCEEEEEC---CEECCCC-CHHHHHHHHHcCCCeEEE
Confidence            344443  57888776543  468999999999999999999999886543   3222210 123344445554455555


Q ss_pred             EecC
Q 038893          125 VVNR  128 (235)
Q Consensus       125 ~~~~  128 (235)
                      .+.+
T Consensus        80 ~v~R   83 (87)
T 2pa1_A           80 QLDR   83 (87)
T ss_dssp             EEEE
T ss_pred             EEEe
Confidence            5554

>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA; metallochaperone, metal-binding, metal- binding protein; NMR {Helicobacter pylori}

Probab=96.72  E-value=0.0012  Score=51.63  Aligned_cols=33  Identities=21%  Similarity=0.570  Sum_probs=25.9

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCC-CCCCCCCCccCee
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTY-VCPQCQAPKKRFA  196 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~-~CP~C~a~k~~F~  196 (235)
                      ...|+|..|||+|...    +  ... .||.|+++..++.
T Consensus        71 p~~~~C~~CG~~~e~~----~--~~~~~CP~Cgs~~~~i~  104 (119)
T 2kdx_A           71 KVELECKDCSHVFKPN----A--LDYGVCEKCHSKNVIIT  104 (119)
T ss_dssp             CCEEECSSSSCEECSC----C--STTCCCSSSSSCCCEEE
T ss_pred             cceEEcCCCCCEEeCC----C--CCCCcCccccCCCcEEe
Confidence            4589999999999873    2  235 7999999877665

>3a43_A HYPD, hydrogenase nickel incorporation protein HYPA; [NIFE] hydrogenase maturation, zinc-finger, nickel binding, metal-binding; HET: FME; 2.30A {Pyrococcus kodakaraensis} PDB: 3a44_A*

Probab=96.65  E-value=0.00075  Score=54.60  Aligned_cols=37  Identities=24%  Similarity=0.632  Sum_probs=25.8

Q ss_pred             cceEEcCCCceEEeCCC-----------CCCCCC----CCCCCCCCCCCccC
Q 038893          158 RATHICLDCGYIYFLQK-----------PFDELP----DTYVCPQCQAPKKR  194 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~t-----------pfe~lp----ed~~CP~C~a~k~~  194 (235)
                      ...|+|+.|||+|....           +++-.|    ....||.|+++.-+
T Consensus        68 p~~~~C~~CG~~~~~~~~~~~~~~~~~~~~h~~p~~~~~~~~CP~Cgs~~~~  119 (139)
T 3a43_A           68 EAVFKCRNCNYEWKLKEVKDKFDERIKEDIHFIPEVVHAFLACPKCGSHDFE  119 (139)
T ss_dssp             CCEEEETTTCCEEEGGGCTTCCSCCCGGGCCCCGGGCGGGCSCSSSSCCCEE
T ss_pred             CCcEECCCCCCEEecccccccccccccccccccccccccCCcCccccCCccE
Confidence            45899999999998753           222222    13589999987644

>1rgw_A ZAsp protein; PDZ, cypher, oracle, muscle, Z-DISK, sarcomere, structural protein; NMR {Homo sapiens} SCOP: b.36.1.1 PDB: 1wjl_A

Probab=96.60  E-value=0.0075  Score=42.80  Aligned_cols=46  Identities=26%  Similarity=0.374  Sum_probs=35.0

Q ss_pred             EEEeec--Cccceeeee--ecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           49 IEVEVD--KPLGLTLGQ--KPGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~~--kplGl~~g~--~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      ++|++.  .++|+.+..  .....++|..+.+|+.|+++|++.||+|..+
T Consensus         3 ~~v~l~~~~~~G~~l~gg~~~~~~v~V~~V~~~spA~~aGl~~GD~I~~v   52 (85)
T 1rgw_A            3 YSVTLTGPGPWGFRLQGGKDFNMPLTISRITPGSKAAQSQLSQGDLVVAI   52 (85)
T ss_dssp             EEEEECCSSCCCEEECCCGGGTSCCBEEEECTTSHHHHSSCCCCSBEEEE
T ss_pred             EEEEEeCCCccCEEEEeccCCCCCeEEEEECCCCHHHHcCCCCCCEEEEE
Confidence            345554  557776543  2345799999999999999999999988655

>2pkt_A PDZ and LIM domain protein 1; PDZ domain, structural genomics, structural genomics consort unknown function; HET: PG4; 1.50A {Homo sapiens} PDB: 2v1w_A*

Probab=96.51  E-value=0.0094  Score=43.02  Aligned_cols=71  Identities=25%  Similarity=0.287  Sum_probs=45.1

Q ss_pred             cCccceeeeee--cCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecC
Q 038893           54 DKPLGLTLGQK--PGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        54 ~kplGl~~g~~--~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      +.++|+.+...  ...+++|..+.+++.|+++|++.||+|..+-   |..+-+.... .....++...+...+.+.+
T Consensus        12 ~~~~G~~l~~~~~~~~g~~V~~V~~~spA~~aGl~~GD~I~~in---g~~v~~~~~~-~~~~~l~~~g~~v~l~v~R   84 (91)
T 2pkt_A           12 PGPWGFRLVGGKDFEQPLAISRVTPGSKAALANLCIGDVITAID---GENTSNMTHL-EAQNRIKGCTDNLTLTVAR   84 (91)
T ss_dssp             SSCCSEEEEEEGGGTEEEEEEEECTTSHHHHTTCCTTCEEEEET---TEECTTCCHH-HHHHHHHTCSSEEEEEEEE
T ss_pred             CCCCCEEEEccCCCCCCeEEEEECCCCHHHHcCCCCCCEEEEEC---CEECCCCCHH-HHHHHHHcCCCeEEEEEEE
Confidence            36788876543  2468999999999999999999999886653   3333222200 3344555533344455554

>2ejy_A 55 kDa erythrocyte membrane protein; GPC, maguk, PDZ, membrane protein; NMR {Homo sapiens} PDB: 2ev8_A

Probab=96.41  E-value=0.0081  Score=45.17  Aligned_cols=40  Identities=25%  Similarity=0.512  Sum_probs=33.6

Q ss_pred             CccceeeeeecCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           55 KPLGLTLGQKPGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .++|+.+....+.+++|..+.+|+.|+++| ++.||+|..+
T Consensus        24 ~~lG~~l~~~~~~gv~V~~V~~gspA~~aG~L~~GD~Il~I   64 (97)
T 2ejy_A           24 EPMGICLKLNEKQSCTVARILHGGMIHRQGSLHVGDEILEI   64 (97)
T ss_dssp             SCCSEEEEECTTCCEEEEEECSSSHHHHHTCCCTTCEEEEE
T ss_pred             CCeeEEEEeCCCCCEEEEEeCCCCHHHHcCCCCCCCEEEEE
Confidence            467887665455789999999999999999 9999988665

>2vwr_A Ligand of NUMB protein X 2; protein-binding, metal-binding, zinc, LNX2_human, zinc-finger, polymorphism, ring finger protein 1; 1.3A {Homo sapiens}

Probab=96.32  E-value=0.0078  Score=43.81  Aligned_cols=46  Identities=39%  Similarity=0.576  Sum_probs=35.8

Q ss_pred             EEEeecC-----ccceeeeee-cCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           49 IEVEVDK-----PLGLTLGQK-PGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~~k-----plGl~~g~~-~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .+|++.|     ++|+.+... ..++++|..+.+|+.|+++| ++.||+|..+
T Consensus         5 ~~v~l~k~~~~~~lG~~~~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~I~~v   57 (95)
T 2vwr_A            5 LQVALHKRDSGEQLGIKLVRRTDEPGVFILDLLEGGLAAQDGRLSSNDRVLAI   57 (95)
T ss_dssp             EEEEEECSSTTCCCCEEEEECSSSCSEEEEEECTTSHHHHHCCCCTTCEEEEE
T ss_pred             EEEEEEECCCCCcccEEEEeccCCCCEEEEEeCCCChHHHCCCCCCCCEEEEE
Confidence            4566654     378766432 35689999999999999999 9999988654

>2jil_A GRIP1 protein, glutamate receptor interacting protein-1; endoplasmic reticulum, postsynaptic membrane, membrane, MEMB protein; 1.5A {Homo sapiens}

Probab=96.22  E-value=0.016  Score=42.21  Aligned_cols=76  Identities=24%  Similarity=0.395  Sum_probs=47.8

Q ss_pred             EEEeec---Cccceeeeeec------CCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcC
Q 038893           49 IEVEVD---KPLGLTLGQKP------GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK  118 (235)
Q Consensus        49 ~~v~~~---kplGl~~g~~~------~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~  118 (235)
                      .+|++.   .++|+.+....      ..+++|..+.+|+.|+++| ++.||+|..+-   |..+-. .........++..
T Consensus         5 ~~v~l~k~~~~lG~~i~~~~~~~~~~~~~~~V~~V~~~spA~~aG~l~~GD~I~~in---g~~v~~-~~~~~~~~~l~~~   80 (97)
T 2jil_A            5 VEVTLHKEGNTFGFVIRGGAHDDRNKSRPVVITSVRPGGPADREGTIKPGDRLLSVD---GIRLLG-TTHAEAMSILKQC   80 (97)
T ss_dssp             EEEEEECBTTBCSEEEEEECCSCC--CEEEEEEEECTTSHHHHHCCCCTTCEEEEET---TEECSS-CCHHHHHHHHHHS
T ss_pred             EEEEEEeCCCccCEEEeCcccCCCCCCCCEEEEEECCCCHHHHCCCCCCCCEEEEEC---CEECCC-CCHHHHHHHHHcC
Confidence            445555   35888765542      4589999999999999999 99999986553   332222 0133344555553


Q ss_pred             CCCceEEecC
Q 038893          119 PDSVYFVVNR  128 (235)
Q Consensus       119 ~~a~if~~~~  128 (235)
                      .+...+.+.+
T Consensus        81 g~~v~l~v~R   90 (97)
T 2jil_A           81 GQEAALLIEY   90 (97)
T ss_dssp             CSEEEEEEEE
T ss_pred             CCeEEEEEEe
Confidence            3344455554

>1wh1_A KIAA1095 protein; PDZ domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=96.19  E-value=0.016  Score=44.60  Aligned_cols=76  Identities=21%  Similarity=0.340  Sum_probs=50.2

Q ss_pred             ccceeeeeec----CCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCC-CCceEEecCc
Q 038893           56 PLGLTLGQKP----GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP-DSVYFVVNRG  129 (235)
Q Consensus        56 plGl~~g~~~----~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~-~a~if~~~~~  129 (235)
                      .+|+.+....    ..+++|..+.+++.|+++| |+.||+|+.+-   |..+-+   ......+++..+ ....|.+.+.
T Consensus        33 ~lG~~~~~~~~~~~~~gv~V~~V~~~spA~~aG~l~~GD~I~~in---g~~v~~---~~~~~~~l~~~~g~~v~l~v~R~  106 (124)
T 1wh1_A           33 KLGLTVCYRTDDEDDIGIYISEIDPNSIAAKDGRIREGDRIIQIN---GIEVQN---REEAVALLTSEENKNFSLLIARP  106 (124)
T ss_dssp             CCCEEEECCCCCSSCCCEEEEEECSSSHHHHTCCCCTTCEEEEES---SCBCCS---HHHHHHHHTCSSCCSCCEEEEEC
T ss_pred             cccEEEEecCCCCCCCCEEEEEECCCCHHHHcCCCCCCCEEEEEC---CEECCC---HHHHHHHHHhCCCCEEEEEEEEC
Confidence            3666554432    3689999999999999999 99999987653   444433   334555666543 4556777775


Q ss_pred             eeeeeccc
Q 038893          130 GADVDVKR  137 (235)
Q Consensus       130 g~~~d~~~  137 (235)
                      +...+..-
T Consensus       107 g~~~~~~~  114 (124)
T 1wh1_A          107 ELQLDEGW  114 (124)
T ss_dssp             SSCCCCCC
T ss_pred             CEEeeccc
Confidence            54444333

>2uzc_A Human pdlim5, PDZ and LIM domain 5; metal-binding, enigma homolog, phosphorylation, signaling PR LIM domain, PDZ domain; 1.5A {Homo sapiens}

Probab=96.18  E-value=0.021  Score=40.73  Aligned_cols=46  Identities=30%  Similarity=0.445  Sum_probs=35.4

Q ss_pred             EEEeec--Cccceeeeee--cCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           49 IEVEVD--KPLGLTLGQK--PGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~~--kplGl~~g~~--~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      .+|+++  .++|+.+...  ....++|..+.+|+.|+++|++.||+|..+
T Consensus         5 ~~v~l~~~~~~G~~l~~g~~~~~~~~V~~V~~~spA~~aGl~~GD~I~~i   54 (88)
T 2uzc_A            5 YSVSLVGPAPWGFRLQGGKDFNMPLTISSLKDGGKAAQANVRIGDVVLSI   54 (88)
T ss_dssp             EEEEEESSSCCCEEEEEEGGGTEEEEEEEECTTSHHHHTTCCTTCEEEEE
T ss_pred             EEEEEcCCCcccEEEECcCCCCCCeEEEEECCCChHHHcCCCCCCEEEEE
Confidence            344443  6688776543  345799999999999999999999988665

>1n7e_A AMPA receptor interacting protein GRIP; PDZ, protein binding; 1.50A {Rattus norvegicus} SCOP: b.36.1.1 PDB: 1n7f_A

Probab=96.18  E-value=0.0091  Score=43.69  Aligned_cols=47  Identities=30%  Similarity=0.595  Sum_probs=37.0

Q ss_pred             EEEEeecC---ccceeeeeec--CCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           48 TIEVEVDK---PLGLTLGQKP--GGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        48 ~~~v~~~k---plGl~~g~~~--~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .++|++.+   ++|+.+....  ...++|..+.+|+.|+++| ++.||+|..+
T Consensus         6 ~~~v~l~~~~~~lG~~i~~~~~~~~~~~V~~V~~~spA~~aG~l~~GD~I~~v   58 (97)
T 1n7e_A            6 IYTVELKRYGGPLGITISGTEEPFDPIIISSLTKGGLAERTGAIHIGDRILAI   58 (97)
T ss_dssp             EEEEEEECTTSCCCEEEECCSSTTSCCEEEEECTTSHHHHHTCCCTTCEEEEE
T ss_pred             EEEEEEEeCCCCcCEEEEcccCCCCCEEEEEECCCCHHHHCCCCCCCCEEEEE
Confidence            36677764   4777665443  2689999999999999999 9999988665

>2fcf_A Multiple PDZ domain protein; adaptor molecule, protein linker, structural genomics, struc genomics consortium, SGC, structural protein; 1.76A {Homo sapiens} SCOP: b.36.1.1

Probab=96.13  E-value=0.022  Score=41.82  Aligned_cols=58  Identities=29%  Similarity=0.410  Sum_probs=37.7

Q ss_pred             CcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecC
Q 038893           67 GGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        67 ~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      .+++|..+.+|+.|+++| ++.||+|..+.   |..+-. .........++..++...+.+.+
T Consensus        39 ~g~~V~~V~~~spA~~aG~l~~GD~I~~in---g~~v~~-~~~~~~~~~l~~~~~~v~l~v~r   97 (103)
T 2fcf_A           39 RGIFIKHVLEDSPAGKNGTLKPGDRIVEVD---GMDLRD-ASHEQAVEAIRKAGNPVVFMVQS   97 (103)
T ss_dssp             --EEEEEECSSSHHHHHCCCCTTCEEEEET---TEECTT-CCHHHHHHHHHTCCSSEEEEEEC
T ss_pred             CCEEEEEeCCCCcHHHcCCCCCCCEEEEEC---CEECCC-CCHHHHHHHHHhCCCcEEEEEEE
Confidence            579999999999999999 99999987653   322211 01334455565555555565555

>1qav_A Alpha-1 syntrophin (residues 77-171); beta-finger, heterodimer, membrane protein-oxidoreductase CO; 1.90A {Mus musculus} SCOP: b.36.1.1 PDB: 1z86_A 2pdz_A 2vrf_A

Probab=96.13  E-value=0.0077  Score=43.40  Aligned_cols=49  Identities=24%  Similarity=0.296  Sum_probs=36.7

Q ss_pred             eeEEEEeecC----ccceeeeee--cCCcEEEEEeecchHHHHh-cCCcCcceeee
Q 038893           46 SKTIEVEVDK----PLGLTLGQK--PGGGVVITAVEGGGNAAKA-GLKSGDQVLYT   94 (235)
Q Consensus        46 ~~~~~v~~~k----plGl~~g~~--~~~~vyIa~~isG~~a~~~-Gi~~gD~i~~~   94 (235)
                      ....+|++.|    ++|+.+...  ....++|..+.+++.|+++ |++.||.|..+
T Consensus         3 ~~~~~v~l~k~~~~~lG~~i~~~~~~~~g~~V~~V~~~spA~~aggl~~GD~I~~i   58 (90)
T 1qav_A            3 LQRRRVTVRKADAGGLGISIKGGRENKMPILISKIFKGLAADQTEALFVGDAILSV   58 (90)
T ss_dssp             SSCEEEEEECCTTTCCCEEEEEEGGGTEEEEEEEECTTSHHHHTTCCCTTEEEEEE
T ss_pred             CccEEEEEEeCCCCCcCEEEEcccCCCCCEEEEEECCCCHHHhcCCCCCCCEEEEE
Confidence            3345666654    588766543  3467999999999999999 89999987554

>2db5_A INAD-like protein; PDZ domain, hinadl, PALS1- associated tight junction protein, protein associated to tight junctions, PATJ, structural genomics; NMR {Homo sapiens}

Probab=96.11  E-value=0.041  Score=42.31  Aligned_cols=94  Identities=17%  Similarity=0.217  Sum_probs=57.2

Q ss_pred             cccCchh-HHHHHHHhCCeeEEEEeecC----ccceeeeeec-----CCcEEEEEeecchHHHHhc-CCcCcceeeeccc
Q 038893           29 ATRSLDN-NKITARTAGASKTIEVEVDK----PLGLTLGQKP-----GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSF   97 (235)
Q Consensus        29 ~~~~~~~-~~~lA~~lg~~~~~~v~~~k----plGl~~g~~~-----~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~   97 (235)
                      ..++|.. ++.+++   .....+|++.|    .+|+.+....     ..++||..+.+|+.|+++| |+.||+|..+   
T Consensus         9 ~~~~~~~~~~~~~~---~~~~~~v~l~k~~~~~lG~~i~g~~~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~Il~i---   82 (128)
T 2db5_A            9 GNEDFNSVIQQMAQ---GRQIEYIDIERPSTGGLGFSVVALRSQNLGKVDIFVKDVQPGSVADRDQRLKENDQILAI---   82 (128)
T ss_dssp             CSSCHHHHHHHHHT---TCEEEEEEEECCSSSCCCCEEEEEECSSSSCEEEEEECCCTTSHHHHTCCCCSSCBEEEE---
T ss_pred             CcHhHHHHHHhhcc---cCceEEEEEEECCCCccCEEEecccCCCCCCCCEEEEEECCCCHHHHcCCCCCCCEEEEE---
Confidence            3455544 334433   33334565543    5777664322     2379999999999999999 9999998665   


Q ss_pred             cCCCccccCccchhhhhhhcCCCCceEEecC
Q 038893           98 FGDELWPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        98 fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      -|..+.........+..+....+.+.|.+.+
T Consensus        83 ng~~v~~~~~~~~~~~~l~~~~~~v~l~v~r  113 (128)
T 2db5_A           83 NHTPLDQNISHQQAIALLQQTTGSLRLIVAR  113 (128)
T ss_dssp             SSCBCSTTSCHHHHHHHHHHCCSEEEEEEEE
T ss_pred             CCEECCCCCCHHHHHHHHHcCCCeEEEEEEc
Confidence            4555541223334455555544555666666

>1kwa_A Hcask/LIN-2 protein; PDZ domain, neurexin, syndecan, receptor clustering, kinase; 1.93A {Homo sapiens} SCOP: b.36.1.1

Probab=96.09  E-value=0.0082  Score=43.61  Aligned_cols=40  Identities=23%  Similarity=0.434  Sum_probs=32.9

Q ss_pred             CccceeeeeecCCcEEEEEeecchHHHH-hcCCcCcceeee
Q 038893           55 KPLGLTLGQKPGGGVVITAVEGGGNAAK-AGLKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~~~~~vyIa~~isG~~a~~-~Gi~~gD~i~~~   94 (235)
                      .++|+.+....++.++|..+.+|+.|++ +|++.||.|..+
T Consensus        13 ~~lG~~i~~~~~~~~~I~~V~~gspA~~~agL~~GD~I~~I   53 (88)
T 1kwa_A           13 EPMGITLKMNELNHCIVARIMHGGMIHRQGTLHVGDEIREI   53 (88)
T ss_dssp             SCCCEEEECSCGGGEEEEEECTTSHHHHHTCCCTTCEEEEE
T ss_pred             CceeEEEEeCCCCCEEEEEECCCCHHHHcCCCCCCCEEEEE
Confidence            4588876654456899999999999999 779999988765

>2q3g_A PDZ and LIM domain protein 7; structural genomics, structural genomics consortium, SGC; 1.11A {Homo sapiens}

Probab=96.08  E-value=0.011  Score=42.49  Aligned_cols=46  Identities=33%  Similarity=0.470  Sum_probs=35.1

Q ss_pred             EEEeec--Cccceeeeee--cCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           49 IEVEVD--KPLGLTLGQK--PGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~~--kplGl~~g~~--~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      ++++++  .++|+.+...  ....++|..+.+|+.|+++|++.||+|..+
T Consensus         5 ~~v~~~~~~~~G~~l~gg~~~~~~v~V~~V~~~spA~~aGl~~GD~I~~i   54 (89)
T 2q3g_A            5 FKVVLEGPAPWGFRLQGGKDFNVPLSISRLTPGGKAAQAGVAVGDWVLSI   54 (89)
T ss_dssp             EEEEEESSSCCCEEEEEEGGGTEEEEEEEECTTSHHHHTTCCTTCEEEEE
T ss_pred             EEEEEcCCCcccEEEECcCCCCCCEEEEEECCCCHHHHcCCCCCCEEEEE
Confidence            445554  5678766432  355799999999999999999999988654

>2dmz_A INAD-like protein; PDZ domain, inadl protein, hinadl, PALS1- associated tight junction protein, protein associated to tight junctions, PATJ; NMR {Homo sapiens}

Probab=96.00  E-value=0.037  Score=42.53  Aligned_cols=79  Identities=16%  Similarity=0.232  Sum_probs=52.6

Q ss_pred             EEEeec----Cccceeeeee-------cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhh
Q 038893           49 IEVEVD----KPLGLTLGQK-------PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQ  116 (235)
Q Consensus        49 ~~v~~~----kplGl~~g~~-------~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn  116 (235)
                      ++|.+.    ..+|+.+...       ...++||..+.+|+.|+++| |+.||+|..+-   |..+-.. ........++
T Consensus        17 ~~v~l~~~~~~~lG~~i~~~~~~~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~I~~vn---g~~v~~~-~~~~~~~~l~   92 (129)
T 2dmz_A           17 YNVELVRKDGQSLGIRIVGYVGTSHTGEASGIYVKSVIPGSAAYHNGHIQVNDKIVAVD---GVNIQGF-ANHDVVEVLR   92 (129)
T ss_dssp             EEEEECCCTTCCCCEEEEEECCCSSSCCCCEEEEEEECTTSHHHHHTCCCSSCBEEEET---TBCCTTC-CHHHHHHHHH
T ss_pred             EEEEEEeCCCCCcCEEEEeecCCcccCCCCCEEEEEeCCCCHHHHcCCCCCCCEEEEEC---CEECCCC-CHHHHHHHHH
Confidence            456663    3577766542       34689999999999999999 99999987764   3333220 0234455565


Q ss_pred             cCCCCceEEecCcee
Q 038893          117 AKPDSVYFVVNRGGA  131 (235)
Q Consensus       117 ~~~~a~if~~~~~g~  131 (235)
                      ...+...|.+.+.+-
T Consensus        93 ~~~~~v~l~v~R~~~  107 (129)
T 2dmz_A           93 NAGQVVHLTLVRRKT  107 (129)
T ss_dssp             HCCSSEEEEEEEESS
T ss_pred             cCCCeEEEEEEeCCc
Confidence            555566777777553

>2o2t_A Multiple PDZ domain protein; structural protein, structural genomics, structural genomics consortium, SGC; 2.70A {Homo sapiens}

Probab=95.99  E-value=0.017  Score=43.58  Aligned_cols=82  Identities=27%  Similarity=0.356  Sum_probs=51.8

Q ss_pred             eeEEEEeecCc----cceeeeeec-----CCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhh
Q 038893           46 SKTIEVEVDKP----LGLTLGQKP-----GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAI  115 (235)
Q Consensus        46 ~~~~~v~~~kp----lGl~~g~~~-----~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AI  115 (235)
                      ..-.+|++.|+    +|+.+....     ..++||..+.+|+.|+++| ++.||+|..+   -|..+...........++
T Consensus        19 ~~~~~v~l~k~~~~~lG~~i~~~~~~~~~~~gv~V~~V~~~spA~~aG~l~~GD~Il~i---ng~~v~~~~~~~~~~~~l   95 (117)
T 2o2t_A           19 RHVEVFELLKPPSGGLGFSVVGLRSENRGELGIFVQEIQEGSVAHRDGRLKETDQILAI---NGQALDQTITHQQAISIL   95 (117)
T ss_dssp             SCEEEEEEECCSSSCSSCCEEEEECCC--CEEEEECCCCTTSHHHHHCCCCTTCEEEEE---TTEECCTTSCHHHHHHHH
T ss_pred             CeEEEEEEEECCCCCCCEEEeecccCCCCCCCEEEEEECCCCHHHHCCCCCCCCEEEEE---CCEECCCCCCHHHHHHHH
Confidence            34456776654    677554322     3579999999999999999 9999998665   344443111333444555


Q ss_pred             hcCCCCceEEecCce
Q 038893          116 QAKPDSVYFVVNRGG  130 (235)
Q Consensus       116 n~~~~a~if~~~~~g  130 (235)
                      ....+...|.+.+.+
T Consensus        96 ~~~~~~v~l~v~R~~  110 (117)
T 2o2t_A           96 QKAKDTVQLVIARGS  110 (117)
T ss_dssp             HHCCSEEEEEEESSC
T ss_pred             HcCCCEEEEEEEeCC
Confidence            554455556666633

>2he4_A Na(+)/H(+) exchange regulatory cofactor NHE-RF2; phosphorylation, structural genomics, structural genomics consortium, SGC, unknown function; 1.45A {Homo sapiens} PDB: 2ozf_A

Probab=95.94  E-value=0.021  Score=41.01  Aligned_cols=40  Identities=28%  Similarity=0.490  Sum_probs=32.4

Q ss_pred             Cccceeeeeec-CCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           55 KPLGLTLGQKP-GGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~~-~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      ..+|+.+.... .++++|..+.+|+.|+.+|++.||+|..+
T Consensus        15 ~g~G~~~~~~~~~~gv~V~~V~~~spA~~aGl~~GD~I~~i   55 (90)
T 2he4_A           15 QGYGFNLHSDKSRPGQYIRSVDPGSPAARSGLRAQDRLIEV   55 (90)
T ss_dssp             TBCCEEEEECSSSSSEEEEEECTTSHHHHHTCCTTCEEEEE
T ss_pred             CCccEEEEccCCCCCEEEEEECCCChHHHCCCCCCCEEEEE
Confidence            45777665543 45799999999999999999999988655

>2rcz_A Tight junction protein ZO-1; PDZ, domain-swapping, cell junction, membrane, phosphorylati domain, protein binding; 1.70A {Homo sapiens} PDB: 2jwe_A 2osg_A

Probab=95.89  E-value=0.014  Score=40.58  Aligned_cols=36  Identities=28%  Similarity=0.497  Sum_probs=29.9

Q ss_pred             CccceeeeeecCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           55 KPLGLTLGQKPGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      +++|+.+.    .+++|..+.+++.|+++| ++.||+|..+
T Consensus        13 ~~~g~~~~----~gv~V~~v~~~s~A~~aG~l~~GD~I~~i   49 (81)
T 2rcz_A           13 EEYGLRLA----SHIFVKEISQDSLAARDGNIQEGDVVLKI   49 (81)
T ss_dssp             CCCCEEEE----EEEEEEEECTTSHHHHHSSCCTTCEEEEE
T ss_pred             CCCCEEEe----CCEEEEEECCCChHHHCCCCCCCCEEEEE
Confidence            55666433    679999999999999999 9999988665

>1wf7_A Enigma homologue protein; PDZ domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: b.36.1.1

Probab=95.88  E-value=0.033  Score=41.14  Aligned_cols=79  Identities=24%  Similarity=0.263  Sum_probs=49.8

Q ss_pred             EEEeec--Cccceeeeeec--CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceE
Q 038893           49 IEVEVD--KPLGLTLGQKP--GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYF  124 (235)
Q Consensus        49 ~~v~~~--kplGl~~g~~~--~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if  124 (235)
                      ++|++.  .++|+.+....  +..++|..+.+|+.|+++|++.||+|..+   -|..+.... .-..+..+....+...+
T Consensus         7 ~~v~l~~~~~~G~~l~gg~~~~~~v~V~~V~~~spA~~aGL~~GD~I~~i---ng~~v~~~~-~~~~~~~~~~~g~~v~l   82 (103)
T 1wf7_A            7 GSVSLVGPAPWGFRLQGGKDFNMPLTISSLKDGGKASQAHVRIGDVVLSI---DGISAQGMT-HLEAQNKIKACTGSLNM   82 (103)
T ss_dssp             EEEEEESSSCCSCCEEEETTTTEEEEECCCCTTCHHHHTTCCTTCBEEEE---TTEECSSCC-HHHHHHHHHHCSSEEEE
T ss_pred             EEEEEeCCCccCEEEeccccCCCCEEEEEECCCCHHHHcCCCCCCEEEEE---CCEECCCCC-HHHHHHHHHcCCCeEEE
Confidence            445554  66887665432  34599999999999999999999998765   344332221 12333444444455667


Q ss_pred             EecCcee
Q 038893          125 VVNRGGA  131 (235)
Q Consensus       125 ~~~~~g~  131 (235)
                      .+.+.+-
T Consensus        83 ~v~R~g~   89 (103)
T 1wf7_A           83 TLQRASA   89 (103)
T ss_dssp             EECCCSC
T ss_pred             EEEeCCC
Confidence            7776543

>1g9o_A NHE-RF; PDZ domain, complex, signaling protein; 1.50A {Homo sapiens} SCOP: b.36.1.1 PDB: 1i92_A 1gq4_A 1gq5_A 2ocs_A

Probab=95.87  E-value=0.012  Score=42.43  Aligned_cols=41  Identities=34%  Similarity=0.444  Sum_probs=33.1

Q ss_pred             Cccceeeeeec-CCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           55 KPLGLTLGQKP-GGGVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        55 kplGl~~g~~~-~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      .++|+.+.... .++++|..+.+|+.|+.+|++.||.|..+-
T Consensus        14 ~g~G~~~~~~~~~~g~~V~~V~~~spA~~aGL~~GD~I~~in   55 (91)
T 1g9o_A           14 NGYGFHLHGEKGKLGQYIRLVEPGSPAEKAGLLAGDRLVEVN   55 (91)
T ss_dssp             TBCCEEEEECTTCSSEEEEEECTTSHHHHTTCCTTCEEEEET
T ss_pred             CcccEEEEecCCCCCEEEEEECCCCHHHHCCCCCCCEEEEEC
Confidence            55787665443 468999999999999999999999876543

>1m5z_A GRIP, AMPA receptor interacting protein; six beta-strands and two alpha-helices, protein binding; NMR {Rattus norvegicus} SCOP: b.36.1.1

Probab=95.83  E-value=0.021  Score=41.04  Aligned_cols=46  Identities=24%  Similarity=0.384  Sum_probs=35.1

Q ss_pred             EEEeecC-----ccceeeeeec-CCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           49 IEVEVDK-----PLGLTLGQKP-GGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~~k-----plGl~~g~~~-~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      .+|++.|     .+|+.+.... ..+++|..+.+|+.|+++|++.||+|..+
T Consensus         8 ~~v~l~k~~~~~~~G~~~~~~~~~~gv~V~~V~~~spA~~aGl~~GD~I~~v   59 (91)
T 1m5z_A            8 HKVTLYKDSGMEDFGFSVADGLLEKGVYVKNIRPAGPGDLGGLKPYDRLLQV   59 (91)
T ss_dssp             EEEEEECCTTCSSSSEEEEECTTSSCEEEEEECTTSHHHHHTCCTTCEEEEE
T ss_pred             EEEEEEECCCCCCccEEEEeccCCCCEEEEEECCCCHHHHcCCCCCCEEEEE
Confidence            3455543     5777665433 46899999999999999999999987654

>1ihj_A INAD; intermolecular disulfide bond, PDZ domain, signaling protein; 1.80A {Drosophila melanogaster} SCOP: b.36.1.1

Probab=95.79  E-value=0.034  Score=40.45  Aligned_cols=46  Identities=28%  Similarity=0.439  Sum_probs=35.0

Q ss_pred             EEEeecC----ccceeeeeec--------CCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           49 IEVEVDK----PLGLTLGQKP--------GGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~~k----plGl~~g~~~--------~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .++++.|    .+|+.+....        ..+++|..+.+++.|+++| ++.||+|..+
T Consensus         7 ~~v~l~k~~~~glG~~i~~~~~~~~~~~~~~g~~V~~V~~~spA~~aG~L~~GD~I~~i   65 (98)
T 1ihj_A            7 HMVTLDKTGKKSFGICIVRGEVKDSPNTKTTGIFIKGIVPDSPAHLCGRLKVGDRILSL   65 (98)
T ss_dssp             EEEEEECTTSSSCCEEEEEEEECCSSSCCEEEEEEEEECTTSHHHHHCSCCTTCEEEEE
T ss_pred             EEEEEEeCCCCCcCEEEeccccCCccccCCCCEEEEEECCCCHHHHcCCCCCCCEEEEE
Confidence            4566665    5777664321        2379999999999999999 9999988654

>2d90_A PDZ domain containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=95.74  E-value=0.026  Score=41.60  Aligned_cols=76  Identities=26%  Similarity=0.317  Sum_probs=48.5

Q ss_pred             EEEeec---Cccceeeeeec-CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceE
Q 038893           49 IEVEVD---KPLGLTLGQKP-GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYF  124 (235)
Q Consensus        49 ~~v~~~---kplGl~~g~~~-~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if  124 (235)
                      .+|.+.   ..+|+.+.... ..+++|..+.+|+.|+++|++.||+|..+-   |..+-+.. ....+..++...+...+
T Consensus         8 r~v~l~k~~~g~G~~l~~~~~~~g~~V~~V~~~spA~~aGl~~GD~I~~in---g~~v~~~~-~~~~~~~l~~~g~~v~l   83 (102)
T 2d90_A            8 RVVVIKKGSNGYGFYLRAGPEQKGQIIKDIEPGSPAEAAGLKNNDLVVAVN---GKSVEALD-HDGVVEMIRKGGDQTTL   83 (102)
T ss_dssp             EEEEEECCSSSSSCEEEECSSSSSEEEECCCTTSTTTTTTCCTTCEEEEES---SCBCTTSC-HHHHHHHHHHSTTEEEE
T ss_pred             EEEEEeeCCCCccEEEEeecCCCCEEEEEECCCCHHHHcCCCCCCEEEEEC---CEECCCCC-HHHHHHHHHcCCCEEEE
Confidence            345554   34787766532 467999999999999999999999987653   33332211 22344455554445556


Q ss_pred             EecC
Q 038893          125 VVNR  128 (235)
Q Consensus       125 ~~~~  128 (235)
                      .+.+
T Consensus        84 ~v~r   87 (102)
T 2d90_A           84 LVLD   87 (102)
T ss_dssp             EECS
T ss_pred             EEEE
Confidence            6654

>2w4f_A Protein LAP4; structural protein, phosphoprotein, UBL conjugation, leucine-rich repeat, alternative splicing, cytoplasm, circletail, coiled coil; 1.30A {Homo sapiens}

Probab=95.70  E-value=0.041  Score=39.82  Aligned_cols=41  Identities=32%  Similarity=0.579  Sum_probs=32.2

Q ss_pred             Cccceeeeee--------cCCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           55 KPLGLTLGQK--------PGGGVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        55 kplGl~~g~~--------~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      ..+|+.+...        ...+++|..+.+|+.|+++|++.||+|..+-
T Consensus        14 ~glG~~i~~g~~~~~~~~~~~g~~V~~V~~~spA~~aGl~~GD~I~~in   62 (97)
T 2w4f_A           14 GGLGISIAGGKGSTPYKGDDEGIFISRVSEEGPAARAGVRVGDKLLEVN   62 (97)
T ss_dssp             TBSSEEEEECTTSCCSBTTBCSEEEEEECTTSHHHHHTCCTTCEEEEET
T ss_pred             CceeEEEECCccCCcccCCCCCEEEEEECCCChHHHcCCCCCCEEEEEC
Confidence            3477765432        2468999999999999999999999886553

>1uit_A Human discs large 5 protein; PDZ domain, HDLG5, maguk family, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=95.68  E-value=0.013  Score=44.43  Aligned_cols=40  Identities=38%  Similarity=0.622  Sum_probs=34.4

Q ss_pred             CccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           55 KPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      .++|+.+....+.+++|..+.+|+.|+++|++.||+|..+
T Consensus        30 ~~lG~~~~~~~~~gv~V~~V~~~spA~~aGL~~GD~Il~v   69 (117)
T 1uit_A           30 EPLGISIVSGEKGGIYVSKVTVGSIAHQAGLEYGDQLLEF   69 (117)
T ss_dssp             CCCCEEEEECTTSCEEEEEECTTSHHHHHTCCTTCEECEE
T ss_pred             CCccEEEEccCCCCEEEEEECCCCHHHHcCCCCCCEEEEE
Confidence            4788877666567999999999999999999999988655

>2iwn_A Multiple PDZ domain protein; SGC, MPDZ, MUPP1, MUPP- 1, HOST-virus interaction, structural genomics consortium, synaptosome, tight junction; 1.35A {Homo sapiens}

Probab=95.66  E-value=0.021  Score=41.12  Aligned_cols=47  Identities=23%  Similarity=0.521  Sum_probs=36.0

Q ss_pred             EEEeecCc---cceeeeee------cCCcEEEEEeecchHHHHhc-CCcCcceeeec
Q 038893           49 IEVEVDKP---LGLTLGQK------PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTS   95 (235)
Q Consensus        49 ~~v~~~kp---lGl~~g~~------~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s   95 (235)
                      .++++.++   +|+.+...      ....++|..+.+|+.|+++| ++.||+|..+.
T Consensus         6 ~~v~l~~~~~~lG~~i~~~~~~~~~~~~~~~V~~v~~~s~A~~aG~l~~GD~I~~vn   62 (97)
T 2iwn_A            6 FDVELTKNVQGLGITIAGYIGDKKLEPSGIFVKSITKSSAVEHDGRIQIGDQIIAVD   62 (97)
T ss_dssp             EEEEEECBTTBSCEEEECCCCC----CCCCEEEEECTTCHHHHHCCCCTTCEEEEET
T ss_pred             EEEEEecCCCCCcEEEEccCCCCCCCCCCEEEEEeCCCChHHhCCCCCCCCEEEEEC
Confidence            44555543   78766554      24689999999999999999 99999887654

>4amh_A Disks large homolog 1; permutation, protein folding, structural protein; 2.30A {Homo sapiens}

Probab=95.66  E-value=0.021  Score=42.83  Aligned_cols=70  Identities=30%  Similarity=0.464  Sum_probs=47.8

Q ss_pred             Cccceeeeeec-------CCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCc--cccCccchhhhhhhcCCCCceE
Q 038893           55 KPLGLTLGQKP-------GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDEL--WPADKLGFTKTAIQAKPDSVYF  124 (235)
Q Consensus        55 kplGl~~g~~~-------~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~l--W~~~~~g~~i~AIn~~~~a~if  124 (235)
                      .++|+.+.-..       +.++||..+.+|+.|+++| ++.||+|..+.   |..+  ++..   ..+.++....+.+.|
T Consensus        13 ~~~Gf~i~gG~~~~~~~~~~gv~V~~V~~gspA~~aG~L~~GD~Il~Vn---g~~v~~~~~~---~~~~~l~~~~~~v~l   86 (106)
T 4amh_A           13 KGLGFSIAGGVGNQHWPGDNSIYVTKIIEGGAAHKDGKLQIGDKLLAVN---NVALEEVTHE---EAVTALKNTSDFVYL   86 (106)
T ss_dssp             CCSCEEEEECTTSCSBTTBCCEEEEEECTTSHHHHHCCCCTTCEEEEET---TEECSSCCHH---HHHHHHHSCCSEEEE
T ss_pred             CccCEEEEeccCCccccCCCCEEEEEECCCCHHHHCCCCCCCCEEEEEC---CEECCCCCHH---HHHHHHhCCCCeEEE
Confidence            56787665321       3479999999999999999 99999987653   3333  2222   344556555666677


Q ss_pred             EecCce
Q 038893          125 VVNRGG  130 (235)
Q Consensus       125 ~~~~~g  130 (235)
                      .+.+.+
T Consensus        87 ~v~R~~   92 (106)
T 4amh_A           87 KVAKPG   92 (106)
T ss_dssp             EEECCS
T ss_pred             EEEeCC
Confidence            777744

>1vb7_A PDZ and LIM domain 2; PDZ domain PDZ-LIM protein, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: b.36.1.1

Probab=95.65  E-value=0.021  Score=41.55  Aligned_cols=77  Identities=19%  Similarity=0.334  Sum_probs=49.1

Q ss_pred             EEEeec--Cccceeeeee--cCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceE
Q 038893           49 IEVEVD--KPLGLTLGQK--PGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYF  124 (235)
Q Consensus        49 ~~v~~~--kplGl~~g~~--~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if  124 (235)
                      .++.++  .++|+.+...  ...+++|..+.+++.|+++|++.||+|..+-   |..+-.. ........++..++...+
T Consensus         8 ~~~~~~~~~~lG~~l~~g~~~~~g~~V~~V~~~spA~~aGL~~GD~I~~in---g~~v~~~-~~~~~~~~l~~~~~~v~l   83 (94)
T 1vb7_A            8 LTVDVAGPAPWGFRISGGRDFHTPIIVTKVTERGKAEAADLRPGDIIVAIN---GQSAENM-LHAEAQSKIRQSASPLRL   83 (94)
T ss_dssp             EEEEECSSSCCSBCCEEETTTTEEEECCCBCTTSSHHHHTCCTTCEEEEET---TEECTTC-CHHHHHHHHHTCCSSEEE
T ss_pred             EEEEecCCCCccEEEecccCCCCCeEEEEECCCCHHHHCCCCCCCEEEEEC---CEECCCC-CHHHHHHHHHhCCCcEEE
Confidence            344443  5688876543  2457999999999999999999999986543   3322221 013344555555556666


Q ss_pred             EecCc
Q 038893          125 VVNRG  129 (235)
Q Consensus       125 ~~~~~  129 (235)
                      .+.|.
T Consensus        84 ~v~R~   88 (94)
T 1vb7_A           84 QLDRS   88 (94)
T ss_dssp             EEECC
T ss_pred             EEEEC
Confidence            66653

>2fne_A Multiple PDZ domain protein; structural protein, structural genomics, SGC, structural genomics consortium, unknown function; 1.83A {Homo sapiens} SCOP: b.36.1.1

Probab=95.64  E-value=0.033  Score=42.66  Aligned_cols=76  Identities=20%  Similarity=0.277  Sum_probs=49.0

Q ss_pred             EEEeec---Cccceeeeeec-----CCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCC
Q 038893           49 IEVEVD---KPLGLTLGQKP-----GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP  119 (235)
Q Consensus        49 ~~v~~~---kplGl~~g~~~-----~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~  119 (235)
                      .+|++.   .++|+.+....     +.++||..+.+|+.|+++| ++.||+|..+-   |..+-.. .....+..+....
T Consensus        27 ~~v~L~k~~~glGf~l~~g~~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~Il~Vn---g~~v~~~-~~~~~~~~l~~~~  102 (117)
T 2fne_A           27 KSITLERGPDGLGFSIVGGYGSPHGDLPIYVKTVFAKGAASEDGRLKRGDQIIAVN---GQSLEGV-THEEAVAILKRTK  102 (117)
T ss_dssp             EEEEECCBTTBTSEEEEEEEEETTEEEEEEEEEECTTSHHHHHCCCCTTCEEEEET---TEECTTC-CHHHHHHHHHHCC
T ss_pred             EEEEEEeCCCcccEEEecccCCCCCCCCEEEEEECCCChHHHcCCCCCCCEEEEEC---CEECCCC-CHHHHHHHHHcCC
Confidence            346665   45777665432     3479999999999999999 99999987653   3222211 2334445555555


Q ss_pred             CCceEEecC
Q 038893          120 DSVYFVVNR  128 (235)
Q Consensus       120 ~a~if~~~~  128 (235)
                      +.+.+.+.+
T Consensus       103 ~~v~l~v~R  111 (117)
T 2fne_A          103 GTVTLMVLS  111 (117)
T ss_dssp             SSEEEEEEE
T ss_pred             CeEEEEEEe
Confidence            556666655

>1wha_A KIAA0147 protein, scribble; PDZ domain, cellular signaling, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=95.64  E-value=0.045  Score=40.55  Aligned_cols=76  Identities=22%  Similarity=0.444  Sum_probs=47.0

Q ss_pred             EEEeec---Cccceeeeeec--------CCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhh
Q 038893           49 IEVEVD---KPLGLTLGQKP--------GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQ  116 (235)
Q Consensus        49 ~~v~~~---kplGl~~g~~~--------~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn  116 (235)
                      .++.+.   ..+|+.+....        +..+||..+.+++.|+++| |+.||+|..+-   |..+=.. .....+..+.
T Consensus         9 ~~v~l~~~~~glG~~l~~g~~~~~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~I~~vn---g~~v~~~-~~~~~~~~l~   84 (105)
T 1wha_A            9 HVACLARSERGLGFSIAGGKGSTPYRAGDAGIFVSRIAEGGAAHRAGTLQVGDRVLSIN---GVDVTEA-RHDHAVSLLT   84 (105)
T ss_dssp             EEEEECCCTTCCSCEEECCTTSCCSSTTCCSCEEEECCTTSSHHHHSSCCTTCEEEEES---SCBCTTC-CHHHHHHHHT
T ss_pred             EEEEEEeCCCccCEEEEeccCCCcccCCCCCEEEEEeCCCCHHHHcCCCCCCCEEEEEC---CEECCCC-CHHHHHHHHH
Confidence            446654   45777665422        4689999999999999999 99999986653   3222110 1333444454


Q ss_pred             cCCCCceEEecC
Q 038893          117 AKPDSVYFVVNR  128 (235)
Q Consensus       117 ~~~~a~if~~~~  128 (235)
                      ...+...|.+.+
T Consensus        85 ~~g~~v~l~v~R   96 (105)
T 1wha_A           85 AASPTIALLLER   96 (105)
T ss_dssp             SCCSCEEEEEEE
T ss_pred             cCCCeEEEEEEE
Confidence            444444455544

>2opg_A Multiple PDZ domain protein; structural protein, structural genomics, structural genomics consortium, SGC; 1.50A {Homo sapiens}

Probab=95.58  E-value=0.028  Score=40.87  Aligned_cols=47  Identities=34%  Similarity=0.553  Sum_probs=36.1

Q ss_pred             EEEeec---CccceeeeeecC---CcEEEEEeecchHHHHhc-CCcCcceeeec
Q 038893           49 IEVEVD---KPLGLTLGQKPG---GGVVITAVEGGGNAAKAG-LKSGDQVLYTS   95 (235)
Q Consensus        49 ~~v~~~---kplGl~~g~~~~---~~vyIa~~isG~~a~~~G-i~~gD~i~~~s   95 (235)
                      .+|++.   .++|+.+....+   ++++|..+.+|+.|+++| ++.||+|..+-
T Consensus         6 ~~v~l~~~~~~lG~~l~~~~~~~~~gv~V~~V~~~spA~~aG~l~~GD~I~~vn   59 (98)
T 2opg_A            6 TTIEISKGRTGLGLSIVGGSDTLLGAIIIHEVYEEGAACKDGRLWAGDQILEVN   59 (98)
T ss_dssp             EEEEEECBTTBTCEEEEECTTSTTCSEEEEEECTTSHHHHHCCCCTTCEEEEET
T ss_pred             EEEEEEECCCcccEEEecCCCCCCCCEEEEEECCCChHHhCCCCCCCCEEEEEC
Confidence            345554   458887665433   689999999999999999 99999886653

>3cyy_A Tight junction protein ZO-1; protein-ligand complex, cell junction, membrane, phosphoprot domain, tight junction, transmembrane; 2.40A {Homo sapiens}

Probab=95.58  E-value=0.019  Score=41.10  Aligned_cols=68  Identities=26%  Similarity=0.349  Sum_probs=43.4

Q ss_pred             CccceeeeeecCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCce
Q 038893           55 KPLGLTLGQKPGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGG  130 (235)
Q Consensus        55 kplGl~~g~~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g  130 (235)
                      +++|+.+.    .+++|..+.+|+.|+++| ++.||+|..+-   |..+-. ........++....+...|.+.+.|
T Consensus        15 ~~~g~~~~----~gv~V~~v~~~s~A~~aG~l~~GD~I~~in---g~~v~~-~~~~~~~~~l~~~~~~v~l~v~r~g   83 (92)
T 3cyy_A           15 EEYGLRLA----SHIFVKEISQDSLAARDGNIQEGDVVLKIN---GTVTEN-MSLTDAKTLIERSKGKLKMVVQRDE   83 (92)
T ss_dssp             SCCCEEEE----EEEEEEEECTTCHHHHSCCCCTTCEEEEET---TEECTT-CCHHHHHHHHHTTTTEEEEEEEC--
T ss_pred             CCCCEEEe----CCEEEEEECCCChHHhcCCCCCCCEEEEEC---CEECCC-CCHHHHHHHHHcCCCcEEEEEEeCC
Confidence            45676443    689999999999999999 99999987653   333320 0223344455554445556666644

>2jxo_A Ezrin-radixin-moesin-binding phosphoprotein 50; nherf-1, PDZ domain, PDZ2, acetylation, cell projection, membrane, polymorphism; NMR {Homo sapiens}

Probab=95.57  E-value=0.019  Score=41.97  Aligned_cols=41  Identities=22%  Similarity=0.388  Sum_probs=32.4

Q ss_pred             Cccceeeeeec-CCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           55 KPLGLTLGQKP-GGGVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        55 kplGl~~g~~~-~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      ..+|+.+.... .++++|..+.+++.|+++|++.||+|..+-
T Consensus        20 ~g~G~~~~~~~~~~g~~V~~V~~~spA~~aGl~~GD~I~~in   61 (98)
T 2jxo_A           20 SGYGFNLHSDKSKPGQFIRSVDPDSPAEASGLRAQDRIVEVN   61 (98)
T ss_dssp             TCCCEEEECCCSSSCEEEEEECTTSHHHHHTCCTTCEEEEET
T ss_pred             CcccEEEEecCCCCCEEEEEECCCCHHHHcCCCCCCEEEEEC
Confidence            44777654432 458999999999999999999999886553

>3tsv_A Tight junction protein ZO-1; PDZ, scaffolding, JAM, cell adhesion; 1.99A {Homo sapiens} PDB: 3shu_A

Probab=95.57  E-value=0.017  Score=44.76  Aligned_cols=42  Identities=33%  Similarity=0.497  Sum_probs=35.3

Q ss_pred             ecCccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           53 VDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        53 ~~kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      -..++|+.+....+.+++|..+.+|+.|+++|++.||+|+.+
T Consensus        37 ~~~~lG~~l~~~~~~gv~V~~V~~gspA~~aGL~~GD~Il~V   78 (124)
T 3tsv_A           37 KGDSVGLRLAGGNDVGIFVAGVLEDSPAAKEGLEEGDQILRV   78 (124)
T ss_dssp             CSSCCCEEEEECTTSCEEEEEECTTCHHHHTTCCTTEEEEEE
T ss_pred             CCCceeEEEecCCCCCEEEEEECCCCHHHHcCCCCCCEEEEE
Confidence            346788877655567899999999999999999999988655

>2qg1_A Multiple PDZ domain protein; MPDZ, MUPP1, structural genomics, structural genomics consortium, SGC, signaling protein; 1.40A {Homo sapiens}

Probab=95.54  E-value=0.023  Score=40.87  Aligned_cols=46  Identities=35%  Similarity=0.593  Sum_probs=35.3

Q ss_pred             EEEeecC----ccceeeeee-cCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           49 IEVEVDK----PLGLTLGQK-PGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~~k----plGl~~g~~-~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .+|++.|    ++|+.+... ...+++|..+.+|+.|+++| ++.||.|..+
T Consensus         6 ~~v~l~k~~~~~lG~~~~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~I~~v   57 (92)
T 2qg1_A            6 LTIGLQKKPGKGLGLSIVGKRNDTGVFVSDIVKGGIADADGRLMQGDQILMV   57 (92)
T ss_dssp             EEEEEECCTTSCCSEEEECCSSSCSCEEEEECTTSHHHHHTCCCTTCEEEEE
T ss_pred             EEEEEEeCCCCcccEEEEeccCCCCEEEEEECCCCHHHHcCCCCCCCEEEEE
Confidence            4566653    477765443 24689999999999999999 9999988654

>2iwq_A Multiple PDZ domain protein; SGC, MPDZ, MUPP1, MUPP- 1, membrane, HOST- interaction, structural genomics consortium, synaptosome, T junction; 1.80A {Homo sapiens}

Probab=95.51  E-value=0.053  Score=41.89  Aligned_cols=91  Identities=24%  Similarity=0.352  Sum_probs=48.3

Q ss_pred             chhHHHHHHHhCCeeEEEEeec--Cccceeeeee-----------cCCcEEEEEeecchHHHHhc-CCcCcceeeecccc
Q 038893           33 LDNNKITARTAGASKTIEVEVD--KPLGLTLGQK-----------PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFF   98 (235)
Q Consensus        33 ~~~~~~lA~~lg~~~~~~v~~~--kplGl~~g~~-----------~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~f   98 (235)
                      |...++..+-+.... +++...  ..+|+.+...           ...+++|..+.+|+.|+++| |+.||+|+.+-   
T Consensus        13 ~~~~d~~s~~~~p~~-v~l~k~~~~~lGi~v~~~~~~~~~~~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~Il~Vn---   88 (123)
T 2iwq_A           13 LGTENLYFQSMQPRR-VELWREPSKSLGISIVGGRGMGSRLSNGEVMRGIFIKHVLEDSPAGKNGTLKPGDRIVEVD---   88 (123)
T ss_dssp             ----------CCCEE-EEECCCTTSCCSEEEEECC---------CCCCSEEEEEECSSSHHHHHCCCCTTCEEEEET---
T ss_pred             cccccCCcccCCCEE-EEEEecCCCCccEEEEeccCccccccccCCCCCEEEEEECCCChHHHcCCCCCCCEEEEEC---
Confidence            444555555554432 233222  3477765321           13579999999999999999 99999987653   


Q ss_pred             CCCccccCccchhhhhhhcCCCCceEEecC
Q 038893           99 GDELWPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        99 G~~lW~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      |..+-. ........+++...+...+.+.+
T Consensus        89 g~~v~~-~~~~~~~~~l~~~~~~v~l~v~r  117 (123)
T 2iwq_A           89 GMDLRD-ASHEQAVEAIRKAGNPVVFMVQS  117 (123)
T ss_dssp             TEECTT-CCHHHHHHHHHHCCSSEEEEEEC
T ss_pred             CEECCC-CCHHHHHHHHHcCCCeEEEEEEE
Confidence            322211 01334455565555555666555

>2la8_A Inactivation-NO-after-potential D protein, KON-TI peptide; peptide binding protein; NMR {Drosophila melanogaster}

Probab=95.44  E-value=0.025  Score=42.63  Aligned_cols=75  Identities=24%  Similarity=0.251  Sum_probs=45.9

Q ss_pred             EEEeec----CccceeeeeecCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCCCCce
Q 038893           49 IEVEVD----KPLGLTLGQKPGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVY  123 (235)
Q Consensus        49 ~~v~~~----kplGl~~g~~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~i  123 (235)
                      .+|++.    ..+|+.+.. ...+++|..+.+|+.|+++| ++.||+|..+   -|..+-.... -.....+....+...
T Consensus         4 ~~v~L~k~~~~glG~~i~~-~~~gv~V~~V~~gspA~~aG~L~~GD~Il~I---ng~~v~~~~~-~~~~~~~~~~~~~v~   78 (106)
T 2la8_A            4 FNVDLMKKAGKELGLSLSP-NEIGCTIADLIQGQYPEIDSKLQRGDIITKF---NGDALEGLPF-QVCYALFKGANGKVS   78 (106)
T ss_dssp             EEEEECCBSSSTTCCEEEE-CSSSEEEEECCTTSCHHHHTTCCTTCEEEEE---SSCBCSSSCH-HHHHHHHHSCBSCEE
T ss_pred             EEEEEEeCCCCccCEEEEe-CCCCEEEEEECCCCHHHHCCCCCCCCEEEEE---CCEECCCCCH-HHHHHHHhCCCCeEE
Confidence            456665    346665433 34679999999999999999 9999988654   4444422111 122333444344455


Q ss_pred             EEecC
Q 038893          124 FVVNR  128 (235)
Q Consensus       124 f~~~~  128 (235)
                      +.+.+
T Consensus        79 l~v~R   83 (106)
T 2la8_A           79 MEVTR   83 (106)
T ss_dssp             EEEEE
T ss_pred             EEEEe
Confidence            55544

>2i04_A Membrane-associated guanylate kinase, WW and PDZ domain-containing protein 1; PDZ, E6 binding, tumor suppressor, peptide binding protein; 2.15A {Mus musculus}

Probab=95.35  E-value=0.032  Score=39.51  Aligned_cols=40  Identities=25%  Similarity=0.407  Sum_probs=31.2

Q ss_pred             Cccceeeee--ecCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           55 KPLGLTLGQ--KPGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~--~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      ..+|+.+..  .....++|..+.+|+.|+++| ++.||.|..+
T Consensus        11 ~g~G~~i~~~~~~~~~~~V~~v~~~spA~~aG~l~~GD~I~~v   53 (85)
T 2i04_A           11 RGFGFTVVGGDEPDEFLQIKSLVLDGPAALDGKMETGDVIVSV   53 (85)
T ss_dssp             TBSSEEEEECCSTTBCEEEEEECTTSHHHHHCCCCTTCEEEEE
T ss_pred             CCCCEEEEcccCCCCCEEEEEECCCChHHHcCCCCCCCEEEEE
Confidence            347775543  234569999999999999999 9999987654

>2dlu_A INAD-like protein; PDZ domain, inadl protein, hinadl, PALS1- associated tight junction protein, protein associated to tight junctions, PATJ; NMR {Homo sapiens}

Probab=95.28  E-value=0.018  Score=43.09  Aligned_cols=40  Identities=33%  Similarity=0.566  Sum_probs=33.5

Q ss_pred             CccceeeeeecCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           55 KPLGLTLGQKPGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      ..+|+.+....+.+++|..+.+|+.|+++| ++.||+|..+
T Consensus        26 ~~lG~~l~~~~~~g~~V~~V~~~spA~~aG~l~~GD~I~~v   66 (111)
T 2dlu_A           26 SGLGFGIVGGKTSGVVVRTIVPGGLADRDGRLQTGDHILKI   66 (111)
T ss_dssp             SCCCEEEECCSSSSBEEEEECTTSSHHHHTCCCSSCEEEEE
T ss_pred             CccCEEEeccCCCCEEEEEECCCCHHHHcCCCCCCCEEEEE
Confidence            457876655555789999999999999999 9999998665

>1va8_A Maguk P55 subfamily member 5; PDZ domain, palmitoylated 5, PALS1 protein, structural genomics, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: b.36.1.1

Probab=95.28  E-value=0.033  Score=42.08  Aligned_cols=68  Identities=29%  Similarity=0.441  Sum_probs=43.1

Q ss_pred             ccceeeeeecCCcEEEEEeecchHHHHhcC-CcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecC
Q 038893           56 PLGLTLGQKPGGGVVITAVEGGGNAAKAGL-KSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        56 plGl~~g~~~~~~vyIa~~isG~~a~~~Gi-~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      ++|+.+... +.+++|..+.+|+.|+++|+ +.||+|+.+-   |..+-.. ........++...+...+.+.+
T Consensus        38 ~lG~~i~~~-~~gv~V~~V~~~spA~~aGll~~GD~I~~vn---g~~v~~~-~~~~~~~~l~~~~~~v~l~v~r  106 (113)
T 1va8_A           38 PLGATVRNE-MDSVIISRIVKGGAAEKSGLLHEGDEVLEIN---GIEIRGK-DVNEVFDLLSDMHGTLTFVLIP  106 (113)
T ss_dssp             CCCEEEEEC-SSSEEEEEECTTSHHHHHTCCCTTCEEEEET---TEECTTC-CHHHHHHHHHHCCEEEEEEEEC
T ss_pred             ceeEEEEeC-CCCEEEEEeCCCCHHHHcCCCCCCCEEEEEC---CEECCCC-CHHHHHHHHHcCCCeEEEEEEE
Confidence            577755433 67899999999999999998 9999886652   3322110 1223444555444445555444

>1nf3_C PAR-6B; semi-CRIB motif, switch I and II, PDZ domain, GTPase binding domain, signaling protein; HET: GNP; 2.10A {Mus musculus} SCOP: b.36.1.1 PDB: 2lc6_A 1ry4_A 1x8s_A 2lc7_A 1rzx_A

Probab=95.27  E-value=0.051  Score=42.00  Aligned_cols=56  Identities=27%  Similarity=0.366  Sum_probs=39.4

Q ss_pred             CcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCc--cccCccchhhhhhhcCCCCceEEecC
Q 038893           67 GGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDEL--WPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        67 ~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~l--W~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      ++++|..+.+|+.|+++| ++.||.|..+   -|..+  +++++   ....+....+...|.+.+
T Consensus        65 ~gv~V~~V~~~spA~~aG~L~~GD~Il~v---ng~~v~~~~~~~---~~~~l~~~~~~v~l~v~r  123 (128)
T 1nf3_C           65 PGIFISRLVPGGLAQSTGLLAVNDEVLEV---NGIEVSGKSLDQ---VTDMMIANSRNLIITVRP  123 (128)
T ss_dssp             EEEEEEEECTTCHHHHHTCCCTTCEEEEE---TTEESTTCCHHH---HHHHHHHTTTSEEEEEEC
T ss_pred             CCEEEEEECCCCHHHHCCCCCCCCEEEEE---CCEECCCCCHHH---HHHHHHcCCCeEEEEEEE
Confidence            579999999999999999 9999998665   34444  44433   334444444556666655

>2ego_A General receptor for phosphoinositides 1- associated scaffold protein; PDZ domain, ligand-free, protein binding; 1.80A {Rattus norvegicus} PDB: 2egn_A 2egk_A 2pnt_A

Probab=95.26  E-value=0.021  Score=41.66  Aligned_cols=47  Identities=17%  Similarity=0.294  Sum_probs=34.5

Q ss_pred             EEEeec----Cccceeeee---------ecCCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           49 IEVEVD----KPLGLTLGQ---------KPGGGVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        49 ~~v~~~----kplGl~~g~---------~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      .+|.+.    .++|+.+..         .....++|..+.+|+.|+++|++.||+|..+-
T Consensus         6 r~v~l~k~~~~~~Gf~l~~~g~~~~~~~~~~~~~~V~~V~~~spA~~aGL~~GD~I~~in   65 (96)
T 2ego_A            6 KVLTLEKGDNQTFGFEIQTYGLHHREEQRVEMVTFVARVHESSPAQLAGLTPGDTIASVN   65 (96)
T ss_dssp             EEEEEECCTTCCCSEEEEEEEC-------CCEEEEEEEECTTCHHHHTTCCTTCEEEEET
T ss_pred             EEEEEEeCCCCCccEEEEeccccccCCCCCCCCeEEEEECCCChHHHcCCCCCCEEEEEC
Confidence            345554    357766543         12457999999999999999999999886553

>2eeh_A PDZ domain-containing protein 7; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=95.26  E-value=0.041  Score=40.39  Aligned_cols=67  Identities=27%  Similarity=0.477  Sum_probs=43.0

Q ss_pred             cceeeeeec--CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecC
Q 038893           57 LGLTLGQKP--GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        57 lGl~~g~~~--~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      +|+.+....  ..+++|..+.+++.|+++||+.||+|..+-   |..+-+.. +-..+..+.. .+...+.+.+
T Consensus        24 lG~~~~~~~~~~~gv~V~~V~~~spA~~aGL~~GD~I~~in---g~~v~~~~-~~~~~~~~~~-~~~v~l~v~R   92 (100)
T 2eeh_A           24 LGFSVRGGSEHGLGIFVSKVEEGSSAERAGLCVGDKITEVN---GLSLESTT-MGSAVKVLTS-SSRLHMMVRR   92 (100)
T ss_dssp             CSEEEECCTTTTCCEEEEEECTTSHHHHHTCCSSCEEEEET---TEECSSCC-HHHHHHHHHS-CSSEEEEEEE
T ss_pred             ccEEEEccccCCCCEEEEEECCCCHHHHcCCCCCCEEEEEC---CEECCCCC-HHHHHHhhcC-CCEEEEEEEE
Confidence            788665532  458999999999999999999999886543   33332222 2333444443 3445555554

>3r68_A Na(+)/H(+) exchange regulatory cofactor NHE-RF3; PDZ domain, adaptor protein, SR-BI, signaling protein; 1.30A {Mus musculus} SCOP: b.36.1.0 PDB: 3r69_A*

Probab=95.26  E-value=0.026  Score=40.74  Aligned_cols=41  Identities=34%  Similarity=0.511  Sum_probs=32.4

Q ss_pred             Cccceeeeeec-CCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           55 KPLGLTLGQKP-GGGVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        55 kplGl~~g~~~-~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      ..+|+.+.... ..+++|..+.+|+.|+++|++.||+|..+.
T Consensus        16 ~~~G~~l~~~~~~~~~~V~~v~~~spA~~aGl~~GD~I~~in   57 (95)
T 3r68_A           16 NGYGFYLRAGPEQKGQIIKDIEPGSPAEAAGLKNNDLVVAVN   57 (95)
T ss_dssp             TBCSCEEEEC--CCSEEEECCCTTSHHHHHTCCTTEEEEEET
T ss_pred             CcccEEEEecCCCCCEEEEEECCCCHHHHCCCCCCCEEEEEC
Confidence            45777665432 348999999999999999999999886653

>2e7k_A Maguk P55 subfamily member 2; PDZ domain, MPP2 protein, discs large homolog 2, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=95.26  E-value=0.053  Score=39.42  Aligned_cols=66  Identities=26%  Similarity=0.382  Sum_probs=43.7

Q ss_pred             ccceeeeeecCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCc-cccCccchhhhhhhcCCCCceEEecC
Q 038893           56 PLGLTLGQKPGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDEL-WPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        56 plGl~~g~~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~l-W~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      ++|+.+.. ....++|..+.+|+.|+++| ++.||.|..+   -|..+ ++.++   ....+....+...|.+.+
T Consensus        19 ~lG~~i~~-~~~~v~V~~V~~~spA~~ag~L~~GD~I~~i---ng~~v~~~~~~---~~~~l~~~~~~v~l~v~~   86 (91)
T 2e7k_A           19 HLGVTFRV-EGGELVIARILHGGMVAQQGLLHVGDIIKEV---NGQPVGSDPRA---LQELLRNASGSVILKILS   86 (91)
T ss_dssp             CCCEEEEE-SSSSEEEEEECSSSHHHHHCCCCTTCEEEEE---TTEECTTCHHH---HHHHHHTCCSSBCEEEEC
T ss_pred             cEeEEEEe-cCCCEEEEEECCCCHHHHcCCCCCCCEEEEE---CCEECCCCHHH---HHHHHHcCCCeEEEEEEE
Confidence            57775544 35789999999999999998 9999988665   35555 33333   334444434445555443

>2qkv_A Inactivation-NO-after-potential D protein; PDZ domain, scaffolding protein, membrane, sensory transduction, vision; 1.55A {Drosophila melanogaster} PDB: 2qkt_A 2qku_A

Probab=95.23  E-value=0.03  Score=41.06  Aligned_cols=38  Identities=26%  Similarity=0.329  Sum_probs=30.6

Q ss_pred             ccceeeeeecCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           56 PLGLTLGQKPGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        56 plGl~~g~~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .+|+.+.. ...+++|..+.+|+.|+++| ++.||+|..+
T Consensus        21 glG~~~~~-~~~gv~V~~V~~~spA~~aG~L~~GD~I~~I   59 (96)
T 2qkv_A           21 ELGLSLSP-NEIGCTIADLIQGQYPEIDSKLQRGDIITKF   59 (96)
T ss_dssp             CCCEEEEE-CSSSEEEEEECTTSCHHHHHHCCTTCEEEEE
T ss_pred             CccEEEEe-CCCcEEEEEeCCCChHHhcCCCCCCCEEEEE
Confidence            46765433 34679999999999999999 9999988654

>3i4w_A Disks large homolog 4; alpha and beta protein, alternative splicing, cell junction, cell membrane, lipoprotein, membrane, palmitate, phosphoprotein; 1.35A {Homo sapiens} SCOP: b.36.1.1 PDB: 3k82_A* 3jxt_A* 2he2_A 1pdr_A 2i0i_A

Probab=95.21  E-value=0.023  Score=41.75  Aligned_cols=40  Identities=35%  Similarity=0.618  Sum_probs=32.6

Q ss_pred             Cccceeeeeec-CCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           55 KPLGLTLGQKP-GGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~~-~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .++|+.+.... .+++||..+.+|+.|+++| ++.||+|..+
T Consensus        22 ~glG~~~~~~~~~~gv~V~~V~~~spA~~aG~l~~GD~I~~v   63 (104)
T 3i4w_A           22 TGLGFNIVGGEXGEGIFISFILAGGPADLSGELRKGDQILSV   63 (104)
T ss_dssp             TBTSEEEEECC-CCCEEEEEECTTSHHHHHCCCCTTEEEEEE
T ss_pred             CccCEEEECCCCCCCEEEEEECCCChHHhcCCCCCCCEEEEE
Confidence            46887665433 3489999999999999999 9999988654

>3cbz_A Dishevelled-2; PDZ domain, phage derived high affinity ligand, cytoplasm, developmental protein, phosphoprotein, WNT signaling pathway; 1.38A {Homo sapiens} PDB: 3cby_A 3cc0_A 3cbx_A 2rey_A 2f0a_A 1l6o_A 3fy5_A 2kaw_A* 1mc7_A

Probab=95.17  E-value=0.043  Score=41.21  Aligned_cols=75  Identities=24%  Similarity=0.467  Sum_probs=48.5

Q ss_pred             EEEEeec----Cccceeeeee----cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccc--cCccchhhhhhh
Q 038893           48 TIEVEVD----KPLGLTLGQK----PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWP--ADKLGFTKTAIQ  116 (235)
Q Consensus        48 ~~~v~~~----kplGl~~g~~----~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~--~~~~g~~i~AIn  116 (235)
                      .++|.+.    ..+|+.+...    ....+||..+.+|+.|+++| ++.||+|..+-   |..+-.  +++   .+..|.
T Consensus         6 ~~~v~l~k~~~~~lG~~i~g~~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~Il~Vn---g~~v~~~~~~~---~~~~l~   79 (108)
T 3cbz_A            6 IITVTLNMEKYNFLGISIVGQSNERGDGGIYIGSIMKGGAVAADGRIEPGDMLLQVN---DMNFENMSNDD---AVRVLR   79 (108)
T ss_dssp             EEEEEECHHHHCCCCEEEEEECSSTTCCEEEEEEECTTSHHHHHCCCCTTCEEEEET---TEETTSCCHHH---HHHHHH
T ss_pred             EEEEEEEeCCCCccCEEEEcCcCCCCCCCEEEEEECCCChHHhcCCCCCCCEEEEEC---CEECCCCCHHH---HHHHHH
Confidence            3456665    4588765443    25789999999999999999 99999987653   333222  333   333333


Q ss_pred             c---CCCCceEEecC
Q 038893          117 A---KPDSVYFVVNR  128 (235)
Q Consensus       117 ~---~~~a~if~~~~  128 (235)
                      .   .++...|.+.+
T Consensus        80 ~~~~~~~~v~l~v~R   94 (108)
T 3cbz_A           80 DIVHKPGPIVLTVAK   94 (108)
T ss_dssp             HHHTSSSCEEEEEEC
T ss_pred             hcccCCCeEEEEEEe
Confidence            3   24456666665

>1d5g_A Human phosphatase HPTP1E; protein-peptide complex, hydrolase; NMR {Homo sapiens} SCOP: b.36.1.1 PDB: 3lnx_A 3lny_A 3pdz_A 1vj6_A 1gm1_A 1ozi_A

Probab=95.16  E-value=0.038  Score=40.01  Aligned_cols=46  Identities=35%  Similarity=0.581  Sum_probs=35.2

Q ss_pred             EEEeec---Cccceeeeeec-----CCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           49 IEVEVD---KPLGLTLGQKP-----GGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~~---kplGl~~g~~~-----~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      ++|.+.   .++|+.+....     ..+++|..+.+|+.|+++| ++.||+|..+
T Consensus         7 ~~v~l~k~~~~lG~~i~~g~~~~~~~~g~~V~~V~~~spA~~aG~l~~GD~I~~v   61 (96)
T 1d5g_A            7 FEVELAKNDNSLGISVTGGVNTSVRHGGIYVKAVIPQGAAESDGRIHKGDRVLAV   61 (96)
T ss_dssp             EEEEEECSSSSCCEEEECCSSSCSSSSCCEEEEECTTSHHHHTTCCCTTCEEEEE
T ss_pred             EEEEEEeCCCCCCEEEECCCCCCCCcCCEEEEEeCCCChHHHcCCCCCCCEEEEE
Confidence            455553   56777665421     3589999999999999999 9999988655

>3ngh_A PDZ domain-containing protein 1; adaptor protein, SR-BI, signaling protein; 1.80A {Mus musculus} SCOP: b.36.1.0

Probab=95.16  E-value=0.026  Score=41.78  Aligned_cols=72  Identities=28%  Similarity=0.355  Sum_probs=46.2

Q ss_pred             Cccceeeeeec-CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCce
Q 038893           55 KPLGLTLGQKP-GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGG  130 (235)
Q Consensus        55 kplGl~~g~~~-~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g  130 (235)
                      .++|+.+.... ..+++|..+.+|+.|+.+|++.||+|..+.   |..+-... .......++...+...+.+.+.+
T Consensus        13 ~~~G~~l~~~~~~~g~~V~~V~~~spA~~aGl~~GD~I~~in---g~~v~~~~-~~~~~~~l~~~g~~v~l~v~r~~   85 (106)
T 3ngh_A           13 QNYGFFLRIEKDTDGHLIRVIEEGSPAEKAGLLDGDRVLRIN---GVFVDKEE-HAQVVELVRKSGNSVTLLVLDGD   85 (106)
T ss_dssp             CCCCCEEECCTTCCSCEEECCCTTSHHHHTTCCTTCEEEEET---TEECTTSC-HHHHHHHHHHTTTEEEEEEECHH
T ss_pred             CeeCEEEEEEeCCCCEEEEEeCCCCHHHHcCCCCCCEEEEEC---CEECCCCC-HHHHHHHHHhCCCEEEEEEEECC
Confidence            45666544332 357999999999999999999999987763   33331111 11344455544556667776644

>1uez_A KIAA1526 protein; PDZ domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, protein binding; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=95.15  E-value=0.035  Score=40.75  Aligned_cols=39  Identities=38%  Similarity=0.637  Sum_probs=31.9

Q ss_pred             ccceeeeeec--CCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           56 PLGLTLGQKP--GGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        56 plGl~~g~~~--~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      .+|+.+....  ..+++|..+.+++.|+++||+.||+|+.+
T Consensus        22 ~lG~~~~~~~~~~~g~~V~~V~~~spA~~aGL~~GD~I~~i   62 (101)
T 1uez_A           22 GLGFSIRGGSEHGVGIYVSLVEPGSLAEKEGLRVGDQILRV   62 (101)
T ss_dssp             CSSEEEEECTTTTCCEEEEEECTTSHHHHHTCCSSCCEEEE
T ss_pred             cccEEEeCCCCCCCCEEEEEECCCCHHHHcCCCCCCEEEEE
Confidence            5777665432  45799999999999999999999988654

>1x6d_A Interleukin-16; PDZ domain, lymphocyte chemoattractant factor (LCF), structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: b.36.1.2

Probab=95.13  E-value=0.056  Score=40.91  Aligned_cols=73  Identities=19%  Similarity=0.243  Sum_probs=47.1

Q ss_pred             Cccceeeeeec---CCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCCCCce-EEecCc
Q 038893           55 KPLGLTLGQKP---GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVY-FVVNRG  129 (235)
Q Consensus        55 kplGl~~g~~~---~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~i-f~~~~~  129 (235)
                      .++|+.+....   ..+++|..+.+++.|+++| ++.||+|..+   -|..+-.. .....+..+...++... +.+.+.
T Consensus        27 ~~lG~~i~g~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~Il~i---ng~~v~~~-~~~~~~~~l~~~~~~~~~l~v~R~  102 (119)
T 1x6d_A           27 AGLGFSLAGGADLENKVITVHRVFPNGLASQEGTIQKGNEVLSI---NGKSLKGT-THHDALAILRQAREPRQAVIVTRK  102 (119)
T ss_dssp             SCCSEEEECCSSSSCSSCEEEEECSSSHHHHHTSSCTTCBCCEE---TTEECSSC-CHHHHHHHHHHTTSSSEEEEEEEC
T ss_pred             CccCEEEeCCCCCCCCCEEEEEECCCChHHHcCCCCCCCEEEEE---CCEECCCC-CHHHHHHHHHhCCCCeEEEEEEcC
Confidence            45777654432   4579999999999999999 9999998654   34333211 22344555655555554 555554


Q ss_pred             ee
Q 038893          130 GA  131 (235)
Q Consensus       130 g~  131 (235)
                      +-
T Consensus       103 ~~  104 (119)
T 1x6d_A          103 LT  104 (119)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>1q7x_A PDZ2B domain of PTP-BAS (HPTP1E); phosphatase, structural proteomics in europe, spine, structural genomics, hydrolase; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=95.09  E-value=0.056  Score=40.12  Aligned_cols=76  Identities=26%  Similarity=0.409  Sum_probs=46.8

Q ss_pred             EEEeec---Cccceeee-----ee-----cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhh
Q 038893           49 IEVEVD---KPLGLTLG-----QK-----PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTA  114 (235)
Q Consensus        49 ~~v~~~---kplGl~~g-----~~-----~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~A  114 (235)
                      .+|++.   .++|+.+.     ..     .+.++||..+.+|+.|+++| ++.||+|..+-   |..+=.. ..-..+.+
T Consensus        11 ~~v~l~k~~~~lG~~i~~~~~~gg~~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~I~~vn---g~~v~~~-~~~~~~~~   86 (108)
T 1q7x_A           11 FEVELAKNDNSLGISVTVLFDKGGVNTSVRHGGIYVKAVIPQGAAESDGRIHKGDRVLAVN---GVSLEGA-THKQAVET   86 (108)
T ss_dssp             EEEEEESSSCSCCEEESSSSSSBCBCTTSSSCCCBEEEECTTSTHHHHTCCCSSCEEEEET---TEECBSC-TTSHHHHH
T ss_pred             EEEEEEECCCCccEEEEEeccCCCccccCCCCCEEEEEECCCChHHHCCCCCCCCEEEEEC---CEECCCC-CHHHHHHH
Confidence            445554   46887665     11     24689999999999999999 99999886653   2222110 22233444


Q ss_pred             hhcCCCCceEEecC
Q 038893          115 IQAKPDSVYFVVNR  128 (235)
Q Consensus       115 In~~~~a~if~~~~  128 (235)
                      +....+...|.+.+
T Consensus        87 ~~~~g~~v~l~v~R  100 (108)
T 1q7x_A           87 LRNTGQVVHLLLEK  100 (108)
T ss_dssp             HHHTTSEEEEEEEC
T ss_pred             HHcCCCeEEEEEEe
Confidence            54444444555555

>2lcq_A Putative toxin VAPC6; PIN domain, Zn ribbon domain, ribosome biogenesis, metal BIN protein; NMR {Pyrococcus horikoshii}

Probab=95.07  E-value=0.0078  Score=49.02  Aligned_cols=27  Identities=30%  Similarity=0.757  Sum_probs=20.9

Q ss_pred             ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      -.|+|..||++|+..      +..-.||.||++
T Consensus       131 ~~y~C~~Cg~~~~~~------~~~~~Cp~CG~~  157 (165)
T 2lcq_A          131 WRYVCIGCGRKFSTL------PPGGVCPDCGSK  157 (165)
T ss_dssp             CCEEESSSCCEESSC------CGGGBCTTTCCB
T ss_pred             EEEECCCCCCcccCC------CCCCcCCCCCCc
Confidence            369999999999762      222389999986

>2eeg_A PDZ and LIM domain protein 4; PDZ domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=95.07  E-value=0.016  Score=42.20  Aligned_cols=45  Identities=29%  Similarity=0.375  Sum_probs=34.9

Q ss_pred             EEeec--Cccceeeee--ecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           50 EVEVD--KPLGLTLGQ--KPGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        50 ~v~~~--kplGl~~g~--~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      +|++.  .++|+.+..  .....++|..+.+++.|+++|++.||+|..+
T Consensus        11 ~v~l~~~~~~G~~l~gg~~~~~~v~V~~V~~~spA~~aGl~~GD~I~~i   59 (94)
T 2eeg_A           11 SVTLRGPSPWGFRLVGGRDFSAPLTISRVHAGSKAALAALCPGDLIQAI   59 (94)
T ss_dssp             EEEECCSSCCSCCEECCTTTTSCCEECCCCSSSHHHHTTCCTTCEEEEE
T ss_pred             EEEEeCCCccCEEEECccCCCCCEEEEEECCCCHHHHcCCCCCCEEEEE
Confidence            44444  567876643  2356799999999999999999999988665

>3qik_A Phosphatidylinositol 3,4,5-trisphosphate-dependen exchanger 1 protein; PDZ domain, structural genomics consortium, SGC, hydrolase R; 2.29A {Homo sapiens}

Probab=95.06  E-value=0.034  Score=42.84  Aligned_cols=73  Identities=19%  Similarity=0.309  Sum_probs=46.8

Q ss_pred             EeecCccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCc--cccCccchhhhhhhcCCCCceEEec
Q 038893           51 VEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDEL--WPADKLGFTKTAIQAKPDSVYFVVN  127 (235)
Q Consensus        51 v~~~kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~l--W~~~~~g~~i~AIn~~~~a~if~~~  127 (235)
                      ++-...+|+.+... +....|..+.+|+.|+.+|++.||+|..+-   |..+  .+.+++-..+....+..++..|.++
T Consensus        24 ~~~~~g~G~~l~~~-~~~~~I~~V~~gSpA~~AGL~~GD~I~~In---g~~v~~~s~~dv~~~i~~~~~~g~~v~LLV~   98 (101)
T 3qik_A           24 LPQEEDYGFDIEEK-NKAVVVKSVQRGSLAEVAGLQVGRKIYSIN---EDLVFLRPFSEVESILNQSFCSRRPLRLLVA   98 (101)
T ss_dssp             CCCSSSSSEEEEEE-TTEEEEEEECTTSHHHHHTCCTTCBEEEET---TEESTTSCHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             EeCCCcccEEEEcc-CCCeEEEEECCCCHHHHcCCCCCCEEEEEC---CEEcCcCCHHHHHHHHHHhhccCCeEEEEEe
Confidence            34456788877663 667899999999999999999999876653   4332  3444444443333233444444443

>2vz5_A TAX1-binding protein 3; WNT signaling pathway, protein binding, nucleus, cytoplasm, PDZ domain; 1.74A {Homo sapiens} PDB: 3dj1_A 3diw_A 2l4s_A 2l4t_A 3gj9_A 2kg2_A 3dj3_A

Probab=95.01  E-value=0.037  Score=43.77  Aligned_cols=61  Identities=25%  Similarity=0.415  Sum_probs=39.7

Q ss_pred             CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCC-CceEEecCce
Q 038893           66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPD-SVYFVVNRGG  130 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~-a~if~~~~~g  130 (235)
                      ..+++|..+.+|+.|+++|++.||+|+.+-   |..+-. ........+++..++ ...+.+.+.|
T Consensus        63 ~~gv~V~~V~~~spA~~aGL~~GD~I~~vn---g~~v~~-~~~~~~~~~l~~~~g~~v~l~v~R~g  124 (139)
T 2vz5_A           63 DKGIYVTRVSEGGPAEIAGLQIGDKIMQVN---GWDMTM-VTHDQARKRLTKRSEEVVRLLVTRQS  124 (139)
T ss_dssp             CCCEEEEEECTTSHHHHHTCCTTCEEEEET---TEECTT-CCHHHHHHHHCCTTCSEEEEEEEECC
T ss_pred             CCCEEEEEECCCCHHHHCCCCCCCEEEEEC---CEEcCC-CCHHHHHHHHHhCCCCEEEEEEEECC
Confidence            368999999999999999999999987653   222211 013344555555443 3456665544

>2kjd_A Sodium/hydrogen exchange regulatory cofactor NHE- RF1; PDZ domain, protein, acetylation, cell projection, disease mutation, membrane; NMR {Homo sapiens}

Probab=94.96  E-value=0.043  Score=41.92  Aligned_cols=70  Identities=26%  Similarity=0.368  Sum_probs=48.0

Q ss_pred             Cccceeeeeec-CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCc--cchhhhhhhcCCCCce-EEecCce
Q 038893           55 KPLGLTLGQKP-GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADK--LGFTKTAIQAKPDSVY-FVVNRGG  130 (235)
Q Consensus        55 kplGl~~g~~~-~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~--~g~~i~AIn~~~~a~i-f~~~~~g  130 (235)
                      ..+|+.+.... .++++|..+.+++.|+++|++.||+|..+.   |..+   ..  ......+++..++..+ +.+.+.|
T Consensus        20 ~g~G~~l~~~~~~~gv~V~~V~~~spA~~aGl~~GD~I~~in---g~~v---~~~~~~~~~~~l~~~~~~~~~l~v~R~g   93 (128)
T 2kjd_A           20 SGYGFNLHSDKSKPGQFIRSVDPDSPAEASGLRAQDRIVEVN---GVCM---EGKQHGDVVSAIRAGGDETKLLVVDRET   93 (128)
T ss_dssp             SSCCEEEEECSSSCSEEEEEECTTSHHHHHTCCTTCEEEEET---TEEC---TTCCHHHHHHHHHTTCSEEEEEEECHHH
T ss_pred             CcccEEEEecCCCCCEEEEEeCCCChHHHcCCCCCCEEEEEC---CEEC---CCCCHHHHHHHHHhCCCCEEEEEEEeCC
Confidence            45777665433 458999999999999999999999987764   2222   22  3345566666655554 6666644

>2awx_A Synapse associated protein 97; membrane protein, synaptic signaling, trafficking protein; HET: HIS; 1.80A {Rattus norvegicus} PDB: 2g2l_A 2awu_A 2aww_A 3rl8_A

Probab=94.93  E-value=0.056  Score=40.01  Aligned_cols=45  Identities=31%  Similarity=0.540  Sum_probs=34.4

Q ss_pred             EEeec---Cccceeeeeec-------CCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           50 EVEVD---KPLGLTLGQKP-------GGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        50 ~v~~~---kplGl~~g~~~-------~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      +|++.   .++|+.+....       +.+++|..+.+|+.|+++| ++.||.|..+
T Consensus         6 ~v~l~k~~~glG~~i~gg~~~~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~I~~v   61 (105)
T 2awx_A            6 EIKLIKGPKGLGFSIAGGVGNQHIPGDNSIYVTKIIEGGAAHKDGKLQIGDKLLAV   61 (105)
T ss_dssp             EEEEECBTTBSSEEEEECBTSCSBTTBCCEEEEEECTTSHHHHHCCCCTTCEEEEE
T ss_pred             EEEEEECCCCCCEEEeCccCCCCCCCCCCEEEEEECCCCHHHHCCCCCCCCEEEEE
Confidence            45543   46787665432       2489999999999999999 9999988654

>2v90_A PDZ domain-containing protein 3; membrane, protein-binding; 2.00A {Homo sapiens}

Probab=94.91  E-value=0.033  Score=40.43  Aligned_cols=41  Identities=27%  Similarity=0.465  Sum_probs=32.5

Q ss_pred             Cccceeeeeec----CCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           55 KPLGLTLGQKP----GGGVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        55 kplGl~~g~~~----~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      ..+|+.+....    ..+++|..+.+|+.|+++|++.||+|..+-
T Consensus        14 ~~~G~~l~~~~~~~~~~g~~V~~V~~~spA~~aGl~~GD~I~~in   58 (96)
T 2v90_A           14 QGFGFLLREEKGLDGRPGQFLWEVDPGLPAKKAGMQAGDRLVAVA   58 (96)
T ss_dssp             TBSCEEEEEEECTTSCEEEEEEEECTTSHHHHTTCCTTEEEEEET
T ss_pred             CcccEEEEeccCCCCCCCeEEEEECCCChHHHcCCCCCCEEEEEC
Confidence            46777665532    236999999999999999999999886553

>2g5m_B Neurabin-2; spinophilin, PDZ domain, CNS, synaptic transmission, protein binding; NMR {Rattus norvegicus}

Probab=94.89  E-value=0.05  Score=40.75  Aligned_cols=78  Identities=22%  Similarity=0.422  Sum_probs=50.1

Q ss_pred             EEEeec---Cccceeeeee--------cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhh
Q 038893           49 IEVEVD---KPLGLTLGQK--------PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQ  116 (235)
Q Consensus        49 ~~v~~~---kplGl~~g~~--------~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn  116 (235)
                      .+|++.   .++|+.+...        ...++||..+.+|+.|+++| ++.||+|..+-   |..+-... .-..+.++.
T Consensus         6 ~~v~l~k~~~glG~~l~~~~~~~~~~~~~~g~~V~~V~~~s~A~~aG~l~~GD~I~~vn---g~~v~~~~-~~~~~~~~~   81 (113)
T 2g5m_B            6 FPVELEKDSEGLGISIIGMGAGADMGLEKLGIFVKTVTEGGAAHRDGRIQVNDLLVEVD---GTSLVGVT-QSFAASVLR   81 (113)
T ss_dssp             EEEECCCCSSCCCCEEEEEECCCCSSSCCEEEEEEECCTTSHHHHHTCSCTTCBEEEET---TEECSSCC-HHHHHHHHH
T ss_pred             EEEEEEeCCCCCCEEEEecCCCCcCCCCCCCEEEEEECCCCHHHHcCCCCCCCEEEEEC---CEECCCCC-HHHHHHHHh
Confidence            345554   4577765441        24689999999999999999 99999987653   33332111 223344555


Q ss_pred             cCCCCceEEecCce
Q 038893          117 AKPDSVYFVVNRGG  130 (235)
Q Consensus       117 ~~~~a~if~~~~~g  130 (235)
                      ...+...|.+.+.+
T Consensus        82 ~~g~~v~l~v~R~~   95 (113)
T 2g5m_B           82 NTKGRVRFMIGRER   95 (113)
T ss_dssp             HSCSSCEEEEEECC
T ss_pred             cCCCeEEEEEEeCC
Confidence            55566677777644

>2dm8_A INAD-like protein; PDZ domain, inadl protein, hinadl, PALS1- associated tight junction protein, protein associated to tight junctions, PATJ; NMR {Homo sapiens}

Probab=94.89  E-value=0.029  Score=42.17  Aligned_cols=70  Identities=34%  Similarity=0.443  Sum_probs=46.1

Q ss_pred             CccceeeeeecC---CcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCc--cccCccchhhhhhhcCCCCceEEecC
Q 038893           55 KPLGLTLGQKPG---GGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDEL--WPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        55 kplGl~~g~~~~---~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~l--W~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      ..+|+.+....+   ++++|..+.+|+.|+++| ++.||+|..+-   |..+  |+   ....+..+....+...|.+.+
T Consensus        28 ~glG~~l~~~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~I~~vn---g~~v~~~~---~~~~~~~l~~~~~~v~l~v~R  101 (116)
T 2dm8_A           28 SGLGLSIVGGKDTPLNAIVIHEVYEEGAAARDGRLWAGDQILEVN---GVDLRNSS---HEEAITALRQTPQKVRLVVYR  101 (116)
T ss_dssp             SCCCCCCBCCTTSSCSSEECCCCCSSSHHHHHTCCCTTCEEEEET---TEECSSSC---HHHHHHHHHTCCSEEEEEEEC
T ss_pred             CcccEEEeCCCCCCcCCEEEEEECCCChHHhCCCCCCCCEEEEEC---CEECCCCC---HHHHHHHHHhCCCeEEEEEEe
Confidence            457776654332   589999999999999999 99999987653   3333  22   223344455444555666665


Q ss_pred             ce
Q 038893          129 GG  130 (235)
Q Consensus       129 ~g  130 (235)
                      .+
T Consensus       102 ~~  103 (116)
T 2dm8_A          102 DE  103 (116)
T ss_dssp             CS
T ss_pred             CC
Confidence            33

>2r4h_A Membrane-associated guanylate kinase, WW and PDZ containing protein 1; transferase, STRU genomics, structural genomics consortium, SGC, ATP-binding; HET: HIS; 2.05A {Homo sapiens}

Probab=94.88  E-value=0.056  Score=40.72  Aligned_cols=49  Identities=20%  Similarity=0.393  Sum_probs=37.2

Q ss_pred             eeEEEEeecC---ccceeeeee--cCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           46 SKTIEVEVDK---PLGLTLGQK--PGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        46 ~~~~~v~~~k---plGl~~g~~--~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      ....+|++.|   .+|+.+...  ...+++|..+.+|+.|+++| ++.||+|..+
T Consensus        23 ~~~~~v~l~~~~~glG~~l~~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~Il~V   77 (112)
T 2r4h_A           23 MDFYTVELERGAKGFGFSLRGGREYNMDLYVLRLAEDGPAERSGKMRIGDEILEI   77 (112)
T ss_dssp             CCEEEEEEECBTTBTSEEEEECGGGTCCEEEEEECTTSHHHHTTCCCTTCEEEEE
T ss_pred             CceEEEEEEcCCCccCEEEeccccCCCCEEEEEECCCChHHHcCCCCCCCEEEEE
Confidence            3344566643   578766443  35789999999999999999 9999988654

>2jre_A C60-1 PDZ domain peptide; de novo protein; NMR {Synthetic}

Probab=94.82  E-value=0.055  Score=40.09  Aligned_cols=46  Identities=24%  Similarity=0.497  Sum_probs=35.2

Q ss_pred             EEEee--c---Cccceeeeee-------cCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           49 IEVEV--D---KPLGLTLGQK-------PGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~--~---kplGl~~g~~-------~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .++++  +   ..+|+.+...       .+.+++|..+.+|+.|+++| ++.||+|..+
T Consensus        14 ~~v~l~r~~~~~~lG~~~~~~~~~~~~~~~~gv~V~~V~~~spA~~aG~l~~GD~I~~v   72 (108)
T 2jre_A           14 YSVELFREKDTSSLGISISGMRDQSTTGEATGIYVKSLIPGSAAALDGRIEPNDKILRV   72 (108)
T ss_dssp             EEEEEECCSTTSCCSEEEECCCCCSCSSCCCCCEEEEECTTSHHHHHSSCCSSEEEEEE
T ss_pred             EEEEEEecCCCCCcCEEEEcccCCCCCCCCCCEEEEEeCCCCHHHHcCCCCCCCEEEEE
Confidence            44666  3   3477766432       24589999999999999999 9999998765

>2q9v_A Membrane-associated guanylate kinase, WW and PDZ containing protein 1; Cys Ser mutant, S genomics consortium, SGC, transferase; 2.00A {Homo sapiens}

Probab=94.77  E-value=0.06  Score=38.46  Aligned_cols=40  Identities=28%  Similarity=0.465  Sum_probs=30.6

Q ss_pred             Cccceeeeee--cCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           55 KPLGLTLGQK--PGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~--~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      ..+|+.+...  ....++|..+.+|+.|+++| ++.||+|..+
T Consensus        13 ~g~G~~~~~g~~~~~~~~V~~V~~~spA~~aG~L~~GD~I~~i   55 (90)
T 2q9v_A           13 TGFGFRILGGNEPGEPIYIGHIVPLGAADTDGRLRSGDELISV   55 (90)
T ss_dssp             TBCCEEEEECSSTTSCEEEEEECTTSHHHHHCCCCTTCEEEEE
T ss_pred             CccCEEEEccccCCCCEEEEEECCCChHHHCCCCCCCCEEEEE
Confidence            3477755432  22349999999999999999 9999987654

>1w9e_A Syntenin 1; cell adhesion, adhesion/complex, PDZ domain, scaffolding protein signaling protein; 1.56A {Homo sapiens} SCOP: b.36.1.1 b.36.1.1 PDB: 1n99_A 1v1t_A 1obz_A 1w9o_A 1w9q_A 1ybo_A

Probab=94.77  E-value=0.044  Score=43.83  Aligned_cols=50  Identities=34%  Similarity=0.455  Sum_probs=37.4

Q ss_pred             CeeEEEEeecC----ccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           45 ASKTIEVEVDK----PLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        45 ~~~~~~v~~~k----plGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      |..-.+|.+.|    .+|+.+.. .+.+++|..+.+|+.|+++|++.||+|..+-
T Consensus         2 a~~~r~v~l~k~~~~~lG~~~~~-~~~g~~V~~v~~~spA~~aGl~~GD~I~~in   55 (166)
T 1w9e_A            2 AMDPREVILCKDQDGKIGLRLKS-IDNGIFVQLVQANSPASLVGLRFGDQVLQIN   55 (166)
T ss_dssp             -CCCEEEEEECCTTSCCSEEEEE-ETTEEEEEEECTTSHHHHTTCCTTCEEEEET
T ss_pred             CCCCEEEEEEeCCCCcEeEEEEe-CCCCEEEEEECCCChHHHcCCCCCCEEEEEC
Confidence            33334555543    48885544 4688999999999999999999999987663

>1mfg_A ERB-B2 interacting protein; PDZ domain, protein-peptide complex, erbin., signaling protein; 1.25A {Homo sapiens} SCOP: b.36.1.1 PDB: 1mfl_A

Probab=94.76  E-value=0.053  Score=39.26  Aligned_cols=47  Identities=30%  Similarity=0.535  Sum_probs=35.2

Q ss_pred             eEEEEeec--Cccceeeeee----------cCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           47 KTIEVEVD--KPLGLTLGQK----------PGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        47 ~~~~v~~~--kplGl~~g~~----------~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      ...+|++.  ..+|+.+...          .+.+++|..+.+++.|++ |++.||+|..+
T Consensus         3 ~~~~v~l~~~~~lG~~i~gg~~~~~~p~~~~~~gv~V~~V~~~spA~~-gL~~GD~I~~v   61 (95)
T 1mfg_A            3 MEIRVRVEKDPELGFSISGGVGGRGNPFRPDDDGIFVTRVQPEGPASK-LLQPGDKIIQA   61 (95)
T ss_dssp             EEEEEEEECSSSCSEEEEECBTSCCCSSSTTCCCEEEEEECTTSTTTT-TCCTTCEEEEE
T ss_pred             eEEEEEECCCCCCCEEEeCCcCccCCccccCCCCEEEEEECCCCchhh-CCCCCCEEEEE
Confidence            34556655  3588776542          235899999999999999 99999987654

>1wi4_A Synip, syntaxin binding protein 4; syntaxin4-interacting protein, STXBP4 protein, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: b.36.1.1

Probab=94.74  E-value=0.057  Score=40.70  Aligned_cols=44  Identities=39%  Similarity=0.523  Sum_probs=32.9

Q ss_pred             Eeec--Cccceeeee----ecCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           51 VEVD--KPLGLTLGQ----KPGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        51 v~~~--kplGl~~g~----~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      +.+.  ..+|+.+.-    ...+.+||..+.+|+.|+++| ++.||.|..+
T Consensus        19 v~l~k~~glG~~i~gg~~~~~~~~~~V~~v~~~s~A~~aG~l~~GD~Il~V   69 (109)
T 1wi4_A           19 ITVTKETGLGLKILGGINRNEGPLVYIHEVIPGGDCYKDGRLKPGDQLVSI   69 (109)
T ss_dssp             EEECCSSCCCEEEEECSSSSSCSSEEEEEECTTSHHHHHCSCCTTCBEEEE
T ss_pred             EEEeCCCccCEEEEeccCCCCCCCEEEEEeCCCChHHHCCCCCCCCEEEEE
Confidence            4444  456765542    123579999999999999999 9999987654

>3l4f_D SH3 and multiple ankyrin repeat domains protein 1; coiled-coil, PDZ, guanine-nucleotide releasing factor, phosphoprotein, SH3 domain; 2.80A {Rattus norvegicus}

Probab=94.72  E-value=0.048  Score=42.67  Aligned_cols=27  Identities=33%  Similarity=0.489  Sum_probs=25.2

Q ss_pred             cEEEEEeecchHHHHhcCCcCcceeee
Q 038893           68 GVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        68 ~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      ++||..+.+|+.|+++|++.||+|..+
T Consensus        66 gv~V~~V~~gspA~~aGL~~GD~Il~V   92 (132)
T 3l4f_D           66 LQYLESVDEGGVAWRAGLRMGDFLIEV   92 (132)
T ss_dssp             SEEEEEECTTSGGGGGTCCTTCEEEEE
T ss_pred             CEEEEEECCCCHHHHcCCCCCCEEEEE
Confidence            699999999999999999999998765

>1um1_A KIAA1849 protein, RSGI RUH-007; PDZ domain, human cDNA, structural genomics, riken structural genomics/proteomics initiative, unknown function; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=94.71  E-value=0.064  Score=39.95  Aligned_cols=78  Identities=26%  Similarity=0.345  Sum_probs=48.6

Q ss_pred             EEEeec---Cccceeeeee-----cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCC
Q 038893           49 IEVEVD---KPLGLTLGQK-----PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP  119 (235)
Q Consensus        49 ~~v~~~---kplGl~~g~~-----~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~  119 (235)
                      .+|++.   ..+|+.+...     ..+++||..+.+++.|+++| ++.||+|..+-   |..+=.. ..-..+..+....
T Consensus        10 ~~v~l~~~~~glG~~l~~g~~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~I~~vn---g~~v~~~-~~~~~~~~~~~~~   85 (110)
T 1um1_A           10 FTVELERGPSGLGMGLIDGMHTHLGAPGLYIQTLLPGSPAAADGRLSLGDRILEVN---GSSLLGL-GYLRAVDLIRHGG   85 (110)
T ss_dssp             EEEEEECCTTCCCEEEEETTTSTTCCSSEEEEEECTTSHHHHHSCCCTTCEEEEES---SCBCSSC-CHHHHHHHHHTCC
T ss_pred             EEEEEEECCCccCEEEeCCcCCCCCCCCEEEEEECCCChHHHcCCCCCCCEEEEEC---CEECCCC-CHHHHHHHHHcCC
Confidence            445554   3477766542     24679999999999999999 99999986653   3333111 1223344444444


Q ss_pred             CCceEEecCce
Q 038893          120 DSVYFVVNRGG  130 (235)
Q Consensus       120 ~a~if~~~~~g  130 (235)
                      +...|.+.+.+
T Consensus        86 ~~v~l~v~R~~   96 (110)
T 1um1_A           86 KKMRFLVAKSD   96 (110)
T ss_dssp             SEEEEEEECCC
T ss_pred             CeEEEEEEeCC
Confidence            45556666643

>1uhp_A Hypothetical protein KIAA1095; PDZ domain, semaphorin cytoplasmic domain associated protein, structural genomics; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=94.71  E-value=0.072  Score=39.54  Aligned_cols=46  Identities=22%  Similarity=0.471  Sum_probs=34.9

Q ss_pred             EEEeecC---ccceeeeee----------cCCcEEEEEeecchHHHHh-cCCcCcceeee
Q 038893           49 IEVEVDK---PLGLTLGQK----------PGGGVVITAVEGGGNAAKA-GLKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~~k---plGl~~g~~----------~~~~vyIa~~isG~~a~~~-Gi~~gD~i~~~   94 (235)
                      ++|.+.|   ++|+.+...          ....+||..+.+++.|+++ |++.||+|..+
T Consensus        10 ~~v~l~k~~~~lG~~i~g~~~~~~~~~~~~~~gv~V~~V~~~spA~~aggL~~GD~Il~v   69 (107)
T 1uhp_A           10 LTLVLHRDSGSLGFNIIGGRPSVDNHDGSSSEGIFVSKIVDSGPAAKEGGLQIHDRIIEV   69 (107)
T ss_dssp             EEEEECCSSSCCSEEEECCCSCCCCTTSSCSCCCEEEEECSSSHHHHTTCCCSSCEEEEE
T ss_pred             EEEEEEeCCCccCEEEEcCCCCcccccccCCCCEEEEEeCCCChHHHcCCCCCCCEEEEE
Confidence            4566653   477765431          2468999999999999999 89999988654

>2djt_A Unnamed protein product; PDZ domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=94.69  E-value=0.043  Score=40.38  Aligned_cols=47  Identities=32%  Similarity=0.466  Sum_probs=35.4

Q ss_pred             EEEeec---Cccceeeeeec----CCcEEEEEeecchHHHHhc-CCcCcceeeec
Q 038893           49 IEVEVD---KPLGLTLGQKP----GGGVVITAVEGGGNAAKAG-LKSGDQVLYTS   95 (235)
Q Consensus        49 ~~v~~~---kplGl~~g~~~----~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s   95 (235)
                      .++++.   ..+|+.+....    +..++|..+.+|+.|+++| |+.||+|+.+-
T Consensus        13 ~~v~l~~~~~g~G~~l~~~~~~~~~~~v~V~~V~~~spA~~aG~l~~GD~I~~vn   67 (104)
T 2djt_A           13 FSVELVRGYAGFGLTLGGGRDVAGDTPLAVRGLLKDGPAQRCGRLEVGDLVLHIN   67 (104)
T ss_dssp             EEEEEECCSSSCCEEEECCEETTEECCCEEEEECTTCHHHHHCSCCTTCBEEEET
T ss_pred             EEEEEEeCCCCccEEEEeccCCCCCCCEEEEEECCCCHHHHcCCCCCCCEEEEEC
Confidence            345544   45777665422    4679999999999999999 99999986653

>2d92_A INAD-like protein; PDZ domain, inadl protein, hinadl, PALS1- associated tight junction protein, protein associated to tight junctions, PATJ; NMR {Homo sapiens}

Probab=94.69  E-value=0.035  Score=41.52  Aligned_cols=40  Identities=28%  Similarity=0.459  Sum_probs=32.3

Q ss_pred             Cccceeeeee------cCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           55 KPLGLTLGQK------PGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~------~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      ..+|+.+...      .+..+||..+.+|+.|+++| ++.||.|..+
T Consensus        26 ~glG~~i~~~~~~~~~~~~g~~V~~v~~~spA~~aG~L~~GD~Il~V   72 (108)
T 2d92_A           26 KGLGFSILDYQDPLDPTRSVIVIRSLVADGVAERSGGLLPGDRLVSV   72 (108)
T ss_dssp             SCCSEEEEEEECSSCTTCEEEEEEEECTTCHHHHHTCCCTTCEEEEE
T ss_pred             CccCEEEecccccCCCCCCCEEEEEECCCCHHHHCCCCCCCCEEEEE
Confidence            5688766432      24679999999999999999 9999988655

>2koj_A Partitioning defective 3 homolog; PDZ domain, structural genomics, alternative splicing, cell cycle, cell division, cell junction, coiled coil; NMR {Mus musculus} PDB: 2ogp_A

Probab=94.69  E-value=0.043  Score=40.87  Aligned_cols=68  Identities=21%  Similarity=0.410  Sum_probs=44.7

Q ss_pred             Cccceeeeeec-----CCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCc--cccCccchhhhhhhcC--CCCceE
Q 038893           55 KPLGLTLGQKP-----GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDEL--WPADKLGFTKTAIQAK--PDSVYF  124 (235)
Q Consensus        55 kplGl~~g~~~-----~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~l--W~~~~~g~~i~AIn~~--~~a~if  124 (235)
                      ..+|+.+....     ..+++|..+.+|+.|+++| ++.||+|+.+   -|..+  |+.+++   +..++..  .....|
T Consensus        22 ~glG~~~~~~~~~~~~~~g~~V~~V~~~spA~~aG~l~~GD~I~~i---ng~~v~~~~~~~~---~~~l~~~~~g~~v~l   95 (111)
T 2koj_A           22 EGLGFSITSRDVTIGGSAPIYVKNILPRGAAIQDGRLKAGDRLIEV---NGVDLAGKSQEEV---VSLLRSTKMEGTVSL   95 (111)
T ss_dssp             TBTCEEEEECSCSSSSSSCEEEEEECSSSHHHHHCSSCTTCEEEEE---TTEECTTSCHHHH---HHHHHHCCCSSEEEE
T ss_pred             CccCEEEEeccCCCCCCcCEEEEEECCCChHHHCCCCCCCCEEEEE---CCEECCCCCHHHH---HHHHHhCCCCCeEEE
Confidence            45787766543     2579999999999999999 9999998665   34444  444433   3344443  234455


Q ss_pred             EecC
Q 038893          125 VVNR  128 (235)
Q Consensus       125 ~~~~  128 (235)
                      .+.+
T Consensus        96 ~v~R   99 (111)
T 2koj_A           96 LVFR   99 (111)
T ss_dssp             EEEE
T ss_pred             EEEe
Confidence            5554

>1tp5_A Presynaptic density protein 95; PDZ-peptide ligand complex, peptide binding protein; 1.54A {Rattus norvegicus} SCOP: b.36.1.1 PDB: 1tp3_A 1tq3_A 1be9_A 1bfe_A

Probab=94.66  E-value=0.051  Score=41.07  Aligned_cols=45  Identities=31%  Similarity=0.606  Sum_probs=34.7

Q ss_pred             EEeecC---ccceeeeeec-CCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           50 EVEVDK---PLGLTLGQKP-GGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        50 ~v~~~k---plGl~~g~~~-~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      +|.+.|   .+|+.+.... ..+++|..+.+|+.|+++| ++.||+|..+
T Consensus        17 ~v~l~k~~~glG~~l~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~I~~v   66 (119)
T 1tp5_A           17 RIVIHRGSTGLGFNIVGGEDGEGIFISFILAGGPADLSGELRKGDQILSV   66 (119)
T ss_dssp             EEEEECTTSCCCEEEEECGGGCCEEEEEECTTSHHHHHSCCCTTEEEEEE
T ss_pred             EEEEEECCCCccEEEecCCCCCCEEEEEECCCCHHHHcCCCCCCCEEEEE
Confidence            455543   3777655432 3689999999999999999 9999988665

>2daz_A INAD-like protein; PDZ domain, inadl protein, hinadl, PALS1- associated tight junction protein, protein associated to tight junctions, PATJ; NMR {Homo sapiens}

Probab=94.65  E-value=0.051  Score=41.62  Aligned_cols=75  Identities=24%  Similarity=0.385  Sum_probs=48.0

Q ss_pred             EEeec---Cccceeeeeec---CCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCCCCc
Q 038893           50 EVEVD---KPLGLTLGQKP---GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSV  122 (235)
Q Consensus        50 ~v~~~---kplGl~~g~~~---~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~  122 (235)
                      +|.+.   .++|+.+....   ...++|..+.+|+.|+++| ++.||+|..+   -|..+-... .-..+..+....+..
T Consensus        28 ~v~l~k~~~glG~~l~~~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~Il~I---ng~~v~~~~-~~~~~~~~~~~~~~v  103 (124)
T 2daz_A           28 IIELEKDKNGLGLSLAGNKDRSRMSIFVVGINPEGPAAADGRMRIGDELLEI---NNQILYGRS-HQNASAIIKTAPSKV  103 (124)
T ss_dssp             EEEEECCSSCCCEEEECBSSTTSCCEEEEEECTTSHHHHHTCCCTTCEECEE---SSCBCTTSC-HHHHHHHHHHSCSEE
T ss_pred             EEEEEeCCCccCEEEeccCCCCcCCEEEEEECCCCHHHHcCCCCCCCEEEEE---CCEECCCCC-HHHHHHHHHcCCCeE
Confidence            45554   45887765432   3589999999999999999 9999988654   444441111 112234454545556


Q ss_pred             eEEecC
Q 038893          123 YFVVNR  128 (235)
Q Consensus       123 if~~~~  128 (235)
                      .|.+.+
T Consensus       104 ~l~v~R  109 (124)
T 2daz_A          104 KLVFIR  109 (124)
T ss_dssp             EEEEEE
T ss_pred             EEEEEe
Confidence            666655

>2eno_A Synaptojanin-2-binding protein; mitochondrial outer membrane protein 25, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=94.62  E-value=0.063  Score=40.75  Aligned_cols=76  Identities=20%  Similarity=0.291  Sum_probs=47.7

Q ss_pred             Eeec---Cccceeeeeec-------CCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCC
Q 038893           51 VEVD---KPLGLTLGQKP-------GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP  119 (235)
Q Consensus        51 v~~~---kplGl~~g~~~-------~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~  119 (235)
                      |.+.   ..+|+.+....       ...+||..+.+++.|+++| |+.||+|..+-   |..+-... .-..+..+....
T Consensus        21 v~l~r~~~~lG~~i~~~~~~~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~Il~vn---g~~v~~~~-~~~~~~~~~~~g   96 (120)
T 2eno_A           21 INLTRGPSGLGFNIVGGTDQQYVSNDSGIYVSRIKENGAAALDGRLQEGDKILSVN---GQDLKNLL-HQDAVDLFRNAG   96 (120)
T ss_dssp             EEEECCSSSCSEEEECCTTTCSSSSCCSEEEEEECSSSHHHHSCCSCTTCEEEEET---TEECCSCC-HHHHHHHHHHHC
T ss_pred             EEEEECCCCCCEEEecccCCccccCCCCEEEEEECCCChHHHCCCCCCCCEEEEEC---CEECCCCC-HHHHHHHHHcCC
Confidence            5554   34777665422       4589999999999999999 99999987653   32222111 113344444434


Q ss_pred             CCceEEecCce
Q 038893          120 DSVYFVVNRGG  130 (235)
Q Consensus       120 ~a~if~~~~~g  130 (235)
                      +...|.+.+.+
T Consensus        97 ~~v~l~v~R~~  107 (120)
T 2eno_A           97 YAVSLRVQHRL  107 (120)
T ss_dssp             SEEEEEEEEEE
T ss_pred             CeEEEEEEeCC
Confidence            45667776633

>1wf8_A Neurabin-I; PDZ domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=94.59  E-value=0.033  Score=41.46  Aligned_cols=45  Identities=27%  Similarity=0.506  Sum_probs=34.5

Q ss_pred             EEeec---Cccceeeeee--------cCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           50 EVEVD---KPLGLTLGQK--------PGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        50 ~v~~~---kplGl~~g~~--------~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      +|.+.   .++|+.+...        .+.++||..+.+|+.|+++| ++.||+|..+
T Consensus        12 ~v~l~k~~~glG~~i~~~~~g~~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~I~~v   68 (107)
T 1wf8_A           12 PVELEKDEDGLGISIIGMGVGADAGLEKLGIFVKTVTEGGAAQRDGRIQVNDQIVEV   68 (107)
T ss_dssp             EEEEECBTTBSCEEEEEEEESCCTTCCEEEEEEEEECTTCHHHHHCSSCTTCBEEEE
T ss_pred             EEEEEECCCcccEEEEecCCCCCCCCCCCCEEEEEeCCCCHHHHcCCCCCCCEEEEE
Confidence            35553   4678766541        24579999999999999999 9999988654

>1v5l_A PDZ and LIM domain 3; actinin alpha 2 associated LIM protein; PDZ domain, cytoskeleton, actin binding, structural genomics; NMR {Mus musculus} SCOP: b.36.1.1

Probab=94.58  E-value=0.022  Score=42.17  Aligned_cols=72  Identities=25%  Similarity=0.269  Sum_probs=45.5

Q ss_pred             ecCccceeeeeec--CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecC
Q 038893           53 VDKPLGLTLGQKP--GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        53 ~~kplGl~~g~~~--~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      -..++|+.+....  +..++|..+.+++.|+++|++.||+|..+-   |..+-. ........+++...+...+.+.+
T Consensus        13 ~~~~lG~~l~~g~~~~~~~~V~~V~~~spA~~aGL~~GD~I~~in---g~~v~~-~~~~~~~~~l~~~g~~v~l~v~R   86 (103)
T 1v5l_A           13 GPAPWGFRLSGGIDFNQPLVITRITPGSKAAAANLCPGDVILAID---GFGTES-MTHADAQDRIKAASYQLCLKIDR   86 (103)
T ss_dssp             SSSCCSBCCEEETTTTEEEECSCBCTTSTTGGGTCCTTCBEEEET---TEECSS-CCHHHHHHHHTTCCSEEECEECC
T ss_pred             CCCCcCEEEeccccCCCCeEEEEECCCCHHHHcCCCCCCEEEEEC---CEECCC-CCHHHHHHHHHhCCCeEEEEEEE
Confidence            3467888775543  357999999999999999999999886553   322221 00333444555443444455544

>2i1n_A Discs, large homolog 3; DLG3, PDZ, PDZ domain, signal transduction, structural genom structural genomics consortium, SGC, signaling protein; 1.85A {Homo sapiens} PDB: 2wl7_A 3rl7_B 1rgr_A* 1kef_A 1zok_A 1iu0_A 1iu2_A

Probab=94.58  E-value=0.049  Score=39.96  Aligned_cols=75  Identities=27%  Similarity=0.336  Sum_probs=45.8

Q ss_pred             EEeec---Cccceeeeeec-------CCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcC
Q 038893           50 EVEVD---KPLGLTLGQKP-------GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK  118 (235)
Q Consensus        50 ~v~~~---kplGl~~g~~~-------~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~  118 (235)
                      +|++.   ..+|+.+....       ..++||..+.+|+.|+++| ++.||.|..+-   |..+-.. .....+.++...
T Consensus         7 ~v~l~k~~~glG~~i~~g~~~~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~I~~vn---g~~v~~~-~~~~~~~~~~~~   82 (102)
T 2i1n_A            7 EIVLERGNSGLGFSIAGGIDNPHVPDDPGIFITKIIPGGAAAMDGRLGVNDCVLRVN---EVDVSEV-VHSRAVEALKEA   82 (102)
T ss_dssp             EEEEECBTTBTSEEEEECTTSCSSTTCCCEEEEEECTTSHHHHHCCCCTTCEEEEET---TEECSSC-CHHHHHHHHHHS
T ss_pred             EEEEEECCCcCCEEEEcccCCCCcCCCCCEEEEEECCCCHHHHCCCCCCCCEEEEEC---CEECCCC-CHHHHHHHHHcC
Confidence            34554   45777665422       4689999999999999999 99999886653   3322111 122334444443


Q ss_pred             CCCceEEecC
Q 038893          119 PDSVYFVVNR  128 (235)
Q Consensus       119 ~~a~if~~~~  128 (235)
                      .+...|.+.+
T Consensus        83 g~~v~l~v~R   92 (102)
T 2i1n_A           83 GPVVRLVVRR   92 (102)
T ss_dssp             CSEEEEEEEE
T ss_pred             CCeEEEEEEe
Confidence            3444555555

>3o46_A Maguk P55 subfamily member 7; PDZ domain, structural genomics consortium, SGC, protein BIN; 1.30A {Homo sapiens} SCOP: b.36.1.0

Probab=94.57  E-value=0.047  Score=39.46  Aligned_cols=67  Identities=19%  Similarity=0.460  Sum_probs=44.1

Q ss_pred             Cccceeeeee-cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCc--cccCccchhhhhhhcCCCCceEEec
Q 038893           55 KPLGLTLGQK-PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDEL--WPADKLGFTKTAIQAKPDSVYFVVN  127 (235)
Q Consensus        55 kplGl~~g~~-~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~l--W~~~~~g~~i~AIn~~~~a~if~~~  127 (235)
                      .++|+.+... .+..++|..+.+|+.|+++| ++.||.|..+.   |..+  ++++++   ...+....+...|.+.
T Consensus        15 ~~lG~~i~~~~~~~~~~V~~v~~gspA~~aG~L~~GD~I~~in---g~~v~~~~~~~~---~~~l~~~~~~v~l~v~   85 (93)
T 3o46_A           15 EPLGATIKKDEQTGAIIVARIMRGGAADRSGLIHVGDELREVN---GIPVEDKRPEEI---IQILAQSQGAITFKII   85 (93)
T ss_dssp             SCCCEEEEECTTTCCEEEEEECTTSHHHHHTCCCTTCEEEEET---TEESTTSCHHHH---HHHHHHCCEEEEEEEE
T ss_pred             CCccEEEEecCCCCCEEEEEECCCCHHHHcCCCCCCCEEEEEC---CEECCCCCHHHH---HHHHHhCCCeEEEEEE
Confidence            4678765543 25789999999999999999 99999886653   4444  444433   3344444444444443

>2fe5_A Presynaptic protein SAP102; PDZ domain, DLG3, human, structural genomics, structural GEN consortium, SGC, structural protein; HET: GOL; 1.10A {Homo sapiens} SCOP: b.36.1.1 PDB: 2x7z_A 2oqs_A 1qlc_A 2i0l_A

Probab=94.54  E-value=0.055  Score=38.89  Aligned_cols=45  Identities=36%  Similarity=0.544  Sum_probs=34.0

Q ss_pred             EEeec---Cccceeeeeec-------CCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           50 EVEVD---KPLGLTLGQKP-------GGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        50 ~v~~~---kplGl~~g~~~-------~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      +|++.   .++|+.+....       +.+++|..+.+|+.|+++| ++.||+|..+
T Consensus         6 ~v~l~k~~~g~G~~i~gg~~~~~~~~~~gv~V~~V~~~spA~~aG~l~~GD~I~~v   61 (94)
T 2fe5_A            6 EVNLLKGPKGLGFSIAGGIGNQHIPGDNSIYITKIIEGGAAQKDGRLQIGDRLLAV   61 (94)
T ss_dssp             EEEEECCTTCSCEEEEECBTSCSBTTBCCEEEEEECTTSHHHHHCCCCTTCEEEEE
T ss_pred             EEEEEECCCCCCEEEEcccCCCCCCCCCCEEEEEECCCChHHHcCCCCCCCEEEEE
Confidence            45553   45777665321       3479999999999999999 9999988654

>2eaq_A LIM domain only protein 7; conserved hypothetical protein, structural genomics, NPPSFA; 1.46A {Homo sapiens}

Probab=94.53  E-value=0.048  Score=39.02  Aligned_cols=38  Identities=24%  Similarity=0.406  Sum_probs=30.9

Q ss_pred             ccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           56 PLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        56 plGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      .+|+.+.. ...+++|..+.+|+.|+.+|++.||+|..+
T Consensus        18 ~lG~~~~~-~~~g~~V~~V~~~spA~~aGl~~GD~I~~i   55 (90)
T 2eaq_A           18 DFGFTIKW-DIPGIFVASVEAGSPAEFSQLQVDDEIIAI   55 (90)
T ss_dssp             CCSEEEEE-ETTEEEEEEECTTSHHHHTTCCTTCEEEEE
T ss_pred             cccEEEEe-cCCCEEEEEECCCChHHHcCCCCCCEEEEE
Confidence            47775543 356899999999999999999999987654

>1wi2_A Riken cDNA 2700099C19; structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: b.36.1.1

Probab=94.53  E-value=0.038  Score=40.99  Aligned_cols=47  Identities=34%  Similarity=0.477  Sum_probs=35.3

Q ss_pred             EEEeecC----ccceeeeee--cCCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           49 IEVEVDK----PLGLTLGQK--PGGGVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        49 ~~v~~~k----plGl~~g~~--~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      .+|.+.|    ++|+.+...  ...+++|..+.+++.|+++||+.||+|..+-
T Consensus        17 ~~v~l~k~~~~~lG~~~~~~~~~~~g~~V~~V~~~spA~~aGL~~GD~I~~in   69 (104)
T 1wi2_A           17 RIVTLKKPPGAQLGFNIRGGKASQLGIFISKVIPDSDAHRAGLQEGDQVLAVN   69 (104)
T ss_dssp             EEEEECCCTTCCCSEEEECCSSSCCCCEEEEECTTSHHHHHTCCTTCEEEEET
T ss_pred             EEEEEEeCCCCCccEEEEcccCCCCCEEEEEeCCCChHHHcCCCCCCEEEEEC
Confidence            3455553    477765543  2357999999999999999999999886653

>2yt7_A Amyloid beta A4 precursor protein-binding family A member 3; neuron-specific X11L2 protein, neuronal MUNC18-1-interacting protein 3, MINT-3; NMR {Homo sapiens}

Probab=94.50  E-value=0.076  Score=39.15  Aligned_cols=50  Identities=28%  Similarity=0.361  Sum_probs=36.1

Q ss_pred             ccceeeeeecC----CcEEEEEeecchHHHHh-cCCcCcceeeeccccCCCc--cccCcc
Q 038893           56 PLGLTLGQKPG----GGVVITAVEGGGNAAKA-GLKSGDQVLYTSSFFGDEL--WPADKL  108 (235)
Q Consensus        56 plGl~~g~~~~----~~vyIa~~isG~~a~~~-Gi~~gD~i~~~s~~fG~~l--W~~~~~  108 (235)
                      ++|+.+.....    +.++|..+.+|+.|+++ |++.||+|..+   -|..+  ++++++
T Consensus        22 ~lG~~i~~~~~~~~~~~~~V~~V~~~spA~~~ggl~~GD~I~~I---ng~~v~~~~~~~~   78 (101)
T 2yt7_A           22 GLGVALVESGWGSLLPTAVIANLLHGGPAERSGALSIGDRLTAI---NGTSLVGLPLAAC   78 (101)
T ss_dssp             CCCEEEEECCCSSSSCCEEEEEECTTSTTGGGSSCCTTCEEEEE---SSCBCTTSCHHHH
T ss_pred             ccCEEEEeCCCCCCccCEEEEEECCCCHHHHcCCCCCCCEEEEE---CCEECCCCCHHHH
Confidence            58877654322    36999999999999995 59999988654   45555  554443

>3e17_A Tight junction protein ZO-2; domain swapping, alternative promoter usage, alternative splicing, cell junction, cell membrane, disease mutation; 1.75A {Homo sapiens}

Probab=94.49  E-value=0.051  Score=39.28  Aligned_cols=57  Identities=25%  Similarity=0.364  Sum_probs=39.2

Q ss_pred             CCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCc--cccCccchhhhhhhcCCCCceEEecC
Q 038893           66 GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDEL--WPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~l--W~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      .+++||..+.+|+.|+++| ++.||+|..+.   |..+  ++++   +.+..|....+...|.+.+
T Consensus        20 ~~gv~V~~V~~gspA~~aG~L~~GD~Il~in---g~~v~~~~~~---~~~~~i~~~~~~v~L~v~~   79 (88)
T 3e17_A           20 GSQIFVKEMTRTGLATKDGNLHEGDIILKIN---GTVTENMSLT---DARKLIEKSRGKLQLVVLR   79 (88)
T ss_dssp             EEEEEEEEECTTSHHHHHCCCCTTCEEEEET---TEECTTCCHH---HHHHHHHHTTTEEEEEECC
T ss_pred             eCCEEEEEECCCCHHHHcCCCCCCCEEEEEC---CEECCCCCHH---HHHHHHHcCCCeEEEEEeC
Confidence            4589999999999999999 99999886653   3333  3333   3344455555555555554

>2byg_A Channel associated protein of synapse-110; DLG2, PDZ, PDZ domain, structural genomics, structural genom consortium, SGC, phosphorylation; 1.85A {Homo sapiens} SCOP: b.36.1.1

Probab=94.47  E-value=0.085  Score=40.24  Aligned_cols=75  Identities=24%  Similarity=0.392  Sum_probs=46.0

Q ss_pred             EEeec---Cccceeeeee-------cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcC
Q 038893           50 EVEVD---KPLGLTLGQK-------PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK  118 (235)
Q Consensus        50 ~v~~~---kplGl~~g~~-------~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~  118 (235)
                      +|.+.   ..+|+.+...       .+.+++|..+.+|+.|+++| ++.||+|..+-   |..+-. ......+..+...
T Consensus        27 ~v~l~k~~~glG~~i~gg~~~~~~~~~~gv~V~~V~~gspA~~aG~L~~GD~Il~Vn---g~~v~~-~~~~~~~~~l~~~  102 (117)
T 2byg_A           27 EIKLFKGPKGLGFSIAGGVGNQHIPGDNSIYVTKIIDGGAAQKDGRLQVGDRLLMVN---NYSLEE-VTHEEAVAILKNT  102 (117)
T ss_dssp             EEEEECBTTBSSEEEEECTTSCSBTTBCCEEEEEECTTSHHHHHCCCCTTCEEEEET---TEECTT-CCHHHHHHHHHTC
T ss_pred             EEEEEeCCCCcCEEEEcccCCCCccCCCCEEEEEECCCCHHHHcCCCCCCCEEEEEC---CEECCC-CCHHHHHHHHHcC
Confidence            35543   3577766542       13479999999999999999 99999986653   322221 1222334445444


Q ss_pred             CCCceEEecC
Q 038893          119 PDSVYFVVNR  128 (235)
Q Consensus       119 ~~a~if~~~~  128 (235)
                      .+.+.+.+.+
T Consensus       103 g~~v~l~v~R  112 (117)
T 2byg_A          103 SEVVYLKVGK  112 (117)
T ss_dssp             CSEEEEEEEE
T ss_pred             CCeEEEEEEe
Confidence            4455566555

>2dkr_A LIN-7 homolog B; LIN-7B, PDZ, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=94.44  E-value=0.047  Score=39.23  Aligned_cols=40  Identities=35%  Similarity=0.532  Sum_probs=32.4

Q ss_pred             Cccceeeee--ecCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           55 KPLGLTLGQ--KPGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~--~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .++|+.+..  ..+..++|..+.+++.|+++| ++.||+|..+
T Consensus        16 ~glG~~l~~~~~~~~~~~V~~V~~~spA~~aGgl~~GD~I~~v   58 (93)
T 2dkr_A           16 EGLGFNIMGGKEQNSPIYISRVIPGGVADRHGGLKRGDQLLSV   58 (93)
T ss_dssp             TCCCEEEECSSSSSCCCEEEEECTTSHHHHHCCCCTTCBEEEE
T ss_pred             CCccEEEecccCCCCCEEEEEECCCCHHHHcCCCCCCCEEEEE
Confidence            567876653  235689999999999999996 9999988665

>2gmg_A Hypothetical protein PF0610; winged-helix like protein with metal binding site, structura genomics, PSI, protein structure initiative; NMR {Pyrococcus furiosus} SCOP: a.4.5.82

Probab=94.43  E-value=0.016  Score=45.27  Aligned_cols=28  Identities=25%  Similarity=0.877  Sum_probs=20.4

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQA  190 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a  190 (235)
                      +..|+|..|||++...   -..|.  +||.|+.
T Consensus        65 v~p~~C~~CG~~F~~~---~~kPs--rCP~CkS   92 (105)
T 2gmg_A           65 IKPAQCRKCGFVFKAE---INIPS--RCPKCKS   92 (105)
T ss_dssp             ECCCBBTTTCCBCCCC---SSCCS--SCSSSCC
T ss_pred             EECcChhhCcCeeccc---CCCCC--CCcCCCC
Confidence            5679999999999321   12344  9999976

>1v62_A KIAA1719 protein; structural genomics, synaptic transmission, riken structural genomics/proteomics initiative, RSGI, protein binding; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=94.42  E-value=0.045  Score=41.63  Aligned_cols=68  Identities=16%  Similarity=0.299  Sum_probs=45.2

Q ss_pred             Cccceeeeeec---CCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCc--cccCccchhhhhhhcCCCCceEEecC
Q 038893           55 KPLGLTLGQKP---GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDEL--WPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        55 kplGl~~g~~~---~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~l--W~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      .++|+.+....   .+.+||..+.+|+.|+++| ++.||.|..+   -|..+  +++++   ....+....+...|.+.+
T Consensus        27 ~~lG~~i~~~~~~~~~~~~V~~V~~~spA~~aG~l~~GD~Il~I---ng~~v~~~~~~~---~~~~l~~~g~~v~l~v~r  100 (117)
T 1v62_A           27 SALGISLTTTSLRNKSVITIDRIKPASVVDRSGALHPGDHILSI---DGTSMEHCSLLE---ATKLLASISEKVRLEILP  100 (117)
T ss_dssp             CCCCCEEEEECCSSSCEEEEEECCTTSHHHHHTCCCTTCBEEEE---TTEETTSCCHHH---HHHHHHSCSSEEEEEECC
T ss_pred             CcccEEEEccCCCCCCCEEEEEECCCCHHHHcCCCCCCCEEEEE---CCEECCCCCHHH---HHHHHHhCCCeEEEEEEE
Confidence            35777655432   2459999999999999999 9999998754   34444  44443   334444444556666666

>4e34_A Golgi-associated PDZ and coiled-coil motif-contai protein; PDZ-peptide complex, protein transport-inhibitor complex; 1.40A {Homo sapiens} PDB: 4e35_A

Probab=94.38  E-value=0.041  Score=39.14  Aligned_cols=40  Identities=28%  Similarity=0.527  Sum_probs=30.6

Q ss_pred             Cccceeeeee--cCCcEEEEEeecchHHHH-hcCCcCcceeee
Q 038893           55 KPLGLTLGQK--PGGGVVITAVEGGGNAAK-AGLKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~--~~~~vyIa~~isG~~a~~-~Gi~~gD~i~~~   94 (235)
                      ..+|+.+...  ....+||..+.+|+.|++ +|++.||+|..+
T Consensus        14 ~~lG~~i~~~~~~~~~~~V~~V~~gspA~~~agl~~GD~I~~v   56 (87)
T 4e34_A           14 EGLGISITGGKEHGVPILISEIHPGQPADRCGGLHVGDAILAV   56 (87)
T ss_dssp             BCCCEEEEEEGGGTEEEEEEEECTTSHHHHHSCCCTTEEEEEE
T ss_pred             CcccEEEEccCCCCCCEEEEEECCCCHHHhcCCCCCCCEEEEE
Confidence            3577755432  234699999999999999 599999987654

>3hpk_A Protein interacting with PRKCA 1; oxidized, PDZ domain, kinase, protein binding; 2.20A {Rattus norvegicus} PDB: 3hpm_A

Probab=94.38  E-value=0.07  Score=40.80  Aligned_cols=84  Identities=20%  Similarity=0.215  Sum_probs=50.6

Q ss_pred             HHhCCeeE-EEEeecC----ccceeeeee--cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhh
Q 038893           41 RTAGASKT-IEVEVDK----PLGLTLGQK--PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTK  112 (235)
Q Consensus        41 ~~lg~~~~-~~v~~~k----plGl~~g~~--~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i  112 (235)
                      +.+|-... .++++.|    .+|+.+...  ..+.+||..+.+|+.|+++| ++.||.|..+.   |..+- ........
T Consensus        12 ~~~g~~~~~~~v~l~k~~~~~lG~~i~gg~~~~~~~~V~~v~~gspA~~aG~L~~GD~Il~in---g~~v~-~~~~~~~~   87 (125)
T 3hpk_A           12 DKLGIPTVPGKVTLQKDAQNLIGISIGGGAQYCPCLYIVQVFDNTPAALDGTVAAGDEITGVN---GRSIK-GKTKVEVA   87 (125)
T ss_dssp             --CCCCEEEEEEEEECCTTSCCCEEEEECSSCCSSEEEEEECTTSHHHHHCCCCTTCEEEEET---TEECT-TCCHHHHH
T ss_pred             cccCCcCCCeEEEEEeCCCCCcCEEEeccCCCCCCEEEEEeCCCCHHHHCCCCCCCCEEEEEC---CEECC-CCCHHHHH
Confidence            34454432 3466654    477765443  24679999999999999999 99999987764   32221 00122334


Q ss_pred             hhhhcCCCCceEEecC
Q 038893          113 TAIQAKPDSVYFVVNR  128 (235)
Q Consensus       113 ~AIn~~~~a~if~~~~  128 (235)
                      ..+....+...+.+.+
T Consensus        88 ~~l~~~~~~v~l~v~r  103 (125)
T 3hpk_A           88 KMIQEVKGEVTIHYNK  103 (125)
T ss_dssp             HHHHHSCSEEEEEEEE
T ss_pred             HHHHcCCCeEEEEEEE
Confidence            4455555556666655

>1q3o_A Shank1; PDZ, GKAP, peptide binding protein; 1.80A {Rattus norvegicus} SCOP: b.36.1.1 PDB: 1q3p_A 3qjm_A 3qjn_A 3o5n_A*

Probab=94.34  E-value=0.057  Score=40.23  Aligned_cols=27  Identities=33%  Similarity=0.489  Sum_probs=25.1

Q ss_pred             cEEEEEeecchHHHHhcCCcCcceeee
Q 038893           68 GVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        68 ~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      +++|..+.+|+.|+++|++.||+|..+
T Consensus        46 gv~V~~V~~~spA~~aGl~~GD~I~~v   72 (109)
T 1q3o_A           46 LQYLESVDEGGVAWRAGLRMGDFLIEV   72 (109)
T ss_dssp             SEEEEEECTTSHHHHTTCCTTCEEEEE
T ss_pred             CEEEEEECCCCHHHHcCCCCCCEEEEE
Confidence            799999999999999999999988665

>1uf1_A KIAA1526 protein; PDZ domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, protein binding; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=94.33  E-value=0.19  Score=38.42  Aligned_cols=77  Identities=27%  Similarity=0.446  Sum_probs=47.7

Q ss_pred             EEEeec--Cccceeeeeec--CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceE
Q 038893           49 IEVEVD--KPLGLTLGQKP--GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYF  124 (235)
Q Consensus        49 ~~v~~~--kplGl~~g~~~--~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if  124 (235)
                      .++++.  ..+|+.+....  +.+++|..+.+|+.|+++|++.||+|..+-   |..+-.... -..+..+.. .....|
T Consensus        24 v~v~~~~~~~lG~~~~~~~~~~~gv~V~~V~~~spA~~aGL~~GD~I~~vn---g~~v~~~~~-~~~~~~~~~-~~~v~l   98 (128)
T 1uf1_A           24 VNLVLGDGRSLGLTIRGGAEYGLGIYITGVDPGSEAEGSGLKVGDQILEVN---GRSFLNILH-DEAVRLLKS-SRHLIL   98 (128)
T ss_dssp             EEEECCSSCCCCEEEECCTTTTCCCEEEEECTTCHHHHHTCCTTCEEEEET---TEECSSCCH-HHHHHHHTT-CSEEEE
T ss_pred             EEEEECCCCccCEEEECcccCCCCEEEEEECCCCHHHHCCCCCCCEEEEEC---CEECCCCCH-HHHHHHHhc-CCeEEE
Confidence            334443  45787654432  347999999999999999999999987653   333322222 223333333 345666


Q ss_pred             EecCce
Q 038893          125 VVNRGG  130 (235)
Q Consensus       125 ~~~~~g  130 (235)
                      .+.+.|
T Consensus        99 ~v~R~g  104 (128)
T 1uf1_A           99 TVKDVG  104 (128)
T ss_dssp             EEECCS
T ss_pred             EEEECC
Confidence            666655

>2z17_A Pleckstrin homology SEC7 and coiled-coil domains- binding protein; PDZ domain, cytoplasm, membrane, polymorphism, protein binding; 2.70A {Homo sapiens}

Probab=94.30  E-value=0.052  Score=40.14  Aligned_cols=29  Identities=24%  Similarity=0.252  Sum_probs=25.9

Q ss_pred             CCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           66 GGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      ...++|..+.+|+.|+++||+.||+|..+
T Consensus        47 ~~~~~V~~V~~~spA~~aGl~~GD~I~~v   75 (104)
T 2z17_A           47 EMFTLICKIQEDSPAHCAGLQAGDVLANI   75 (104)
T ss_dssp             SCCEEEEEECTTSHHHHHTCCTTCBCCEE
T ss_pred             CCCeEEEEECCCChHHHcCCCCCCEEEEE
Confidence            46899999999999999999999987554

>1qau_A Neuronal nitric oxide synthase (residues 1-130); beta-finger, oxidoreductase; 1.25A {Rattus norvegicus} SCOP: b.36.1.1 PDB: 1qav_B

Probab=94.29  E-value=0.1  Score=38.88  Aligned_cols=78  Identities=22%  Similarity=0.341  Sum_probs=51.0

Q ss_pred             EEEeec----Cccceeeeeec-CCcEEEEEeecchHHHHhcC-CcCcceeeeccccCCCccccCccchhhhhhhcCC-CC
Q 038893           49 IEVEVD----KPLGLTLGQKP-GGGVVITAVEGGGNAAKAGL-KSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP-DS  121 (235)
Q Consensus        49 ~~v~~~----kplGl~~g~~~-~~~vyIa~~isG~~a~~~Gi-~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~-~a  121 (235)
                      ++|++.    ..+|+.+.... .+.++|..+.+|+.|+.+|+ +.||+|..+-   |..+-+. ........++..+ ..
T Consensus         3 ~~v~l~~~~~~glG~~~~~~~~~~~~~V~~v~~~spA~~aGll~~GD~I~~in---g~~v~~~-~~~~~~~~l~~~~g~~   78 (112)
T 1qau_A            3 ISVRLFKRKVGGLGFLVKERVSKPPVIISDLIRGGAAEQSGLIQAGDIILAVN---DRPLVDL-SYDSALEVLRGIASET   78 (112)
T ss_dssp             EEEEEECBTTTBTSEEEEECSSSSCEEEEEECTTSHHHHHTCCCTTCEEEEET---TEECTTS-CHHHHHHHHHHSCSSS
T ss_pred             EEEEEEcCCCCceeEEEEecCCCCCEEEEEeCCCChHHHcCCCCCCCEEEEEC---CEECCCC-CHHHHHHHHHhCCCCc
Confidence            455552    35888766543 46899999999999999997 9999987654   3333220 1334445565544 45


Q ss_pred             ceEEecCce
Q 038893          122 VYFVVNRGG  130 (235)
Q Consensus       122 ~if~~~~~g  130 (235)
                      ..+.+.+.|
T Consensus        79 v~l~v~R~g   87 (112)
T 1qau_A           79 HVVLILRGP   87 (112)
T ss_dssp             EEEEEEECC
T ss_pred             EEEEEEeCC
Confidence            567776655

>1ueq_A Membrane associated guanylate kinase inverted-2 (MAGI-2); atrophin-1 interacting protein 1, PDZ domain, structural genomics; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=94.29  E-value=0.062  Score=41.15  Aligned_cols=46  Identities=26%  Similarity=0.489  Sum_probs=35.0

Q ss_pred             EEEeecC---ccceeeeee--cCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           49 IEVEVDK---PLGLTLGQK--PGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~~k---plGl~~g~~--~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .+|.+.|   .+|+.+...  .+.++||..+.+++.|+++| |+.||+|+.+
T Consensus        21 ~~v~l~~~~~glG~~~~~g~~~~~gv~V~~V~~~spA~~aG~L~~GD~Il~V   72 (123)
T 1ueq_A           21 LSTTLKKSNMGFGFTIIGGDEPDEFLQVKSVIPDGPAAQDGKMETGDVIVYI   72 (123)
T ss_dssp             EEEEEECCTTSCSEEEECCSSSSCCCEEEEECTTSHHHHTSCCCTTCEEEEE
T ss_pred             EEEEEEeCCCceeEEEecccCCCCCEEEEEECCCCHHHHCCCCCCCCEEEEE
Confidence            4566553   477765532  24569999999999999999 9999988665

>2vsp_A PDZ domain-containing protein 1; membrane, cytoplasm, phosphoprotein, transport protein, CAsp; 2.60A {Homo sapiens} PDB: 2eej_A

Probab=94.24  E-value=0.032  Score=40.24  Aligned_cols=40  Identities=30%  Similarity=0.405  Sum_probs=30.6

Q ss_pred             Cccceeeeee-cCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           55 KPLGLTLGQK-PGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~-~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      ..+|+.+... ..++++|..+.+|+.|+++|++.||+|..+
T Consensus        14 ~~~G~~l~~~~~~~g~~V~~V~~~spA~~aGl~~GD~I~~i   54 (91)
T 2vsp_A           14 NGYGFHLNAIRGLPGSFIKEVQKGGPADLAGLEDEDVIIEV   54 (91)
T ss_dssp             TBTSCCCBCCTTCSCCBC-CCCTTSHHHHTTCCTTCEEEEE
T ss_pred             CcccEEEEeccCCCCeEEEEECCCChHHHcCCCCCCEEEEE
Confidence            3467755442 246899999999999999999999988655

>2jik_A Synaptojanin-2 binding protein; transmembrane, outer membrane, mitochondria distribution, PDZ, membrane, scaffold, mitochondrion, membrane protein; 1.35A {Homo sapiens} PDB: 2jin_A

Probab=94.21  E-value=0.064  Score=39.23  Aligned_cols=45  Identities=27%  Similarity=0.553  Sum_probs=34.5

Q ss_pred             EEeec---Cccceeeeeec-------CCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           50 EVEVD---KPLGLTLGQKP-------GGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        50 ~v~~~---kplGl~~g~~~-------~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      +|++.   ..+|+.+....       +.+++|..+.+|+.|+++| ++.||+|..+
T Consensus        10 ~v~l~~~~~~lG~~l~~g~~~~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~I~~v   65 (101)
T 2jik_A           10 EINLTRGPSGLGFNIVGGTDQQYVSNDSGIYVSRIKENGAAALDGRLQEGDKILSV   65 (101)
T ss_dssp             EEEEECCTTCCCEEEEECTTSCSBTTBCCEEEEEECTTSHHHHHCCCCTTCEEEEE
T ss_pred             EEEEEeCCCCCCEEEeccccCCCccCCCCEEEEEECCCCHHHHCCCCCCCCEEEEE
Confidence            35554   45777665432       3589999999999999999 9999988665

>2f5y_A Regulator of G-protein signalling 3 isoform 1; PDZ domain, RGS-3, human, structural genomics, structural GE consortium, SGC, signaling protein; 2.39A {Homo sapiens} SCOP: b.36.1.1

Probab=94.17  E-value=0.065  Score=38.65  Aligned_cols=37  Identities=38%  Similarity=0.548  Sum_probs=29.2

Q ss_pred             cceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           57 LGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        57 lGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      +|+.+.  ....++|..+.+|+.|+++|++.||+|..+-
T Consensus        16 ~G~~l~--~~~~~~V~~V~~~spA~~aGl~~GD~I~~vn   52 (91)
T 2f5y_A           16 FGFTIC--CDSPVRVQAVDSGGPAERAGLQQLDTVLQLN   52 (91)
T ss_dssp             TSEEEE--CSSSCEEEEECTTSHHHHHTCCTTCEEEEET
T ss_pred             ccEEEe--cCCCEEEEEECCCCHHHHcCCCCCCEEEEEC
Confidence            555442  2356999999999999999999999886653

>3khf_A Microtubule-associated serine/threonine-protein kinase 3; MAST3, microtubule associated serine/threonine kinase 3, PDZ domain, structural genomics; 1.20A {Homo sapiens} PDB: 2w7r_A 2kqf_A 2kyl_A 3ps4_A

Probab=94.16  E-value=0.089  Score=38.31  Aligned_cols=28  Identities=36%  Similarity=0.521  Sum_probs=25.0

Q ss_pred             cEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           68 GVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        68 ~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      +++|..+.+|+.|+.+|++.||+|..+.
T Consensus        35 g~~V~~V~~~spA~~aGl~~GD~I~~in   62 (99)
T 3khf_A           35 HHVVWSVEDGSPAQEAGLRAGDLITHIN   62 (99)
T ss_dssp             EEEEEEECTTSHHHHHTCCTTCEEEEET
T ss_pred             CeEEEEECCCCHHHHcCCCCCCEEEEEC
Confidence            5689999999999999999999887653

>3b76_A E3 ubiquitin-protein ligase LNX; PDZ, bound ligand, structural genomics, structural genomics consortium, SGC, metal-binding; 1.75A {Homo sapiens}

Probab=94.15  E-value=0.064  Score=41.28  Aligned_cols=70  Identities=23%  Similarity=0.344  Sum_probs=43.4

Q ss_pred             Cccceeeeeec-----CCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecC
Q 038893           55 KPLGLTLGQKP-----GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        55 kplGl~~g~~~-----~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      .++|+.+....     +..+||..+.+|+.|+++| ++.||+|..+-   |..+-.. .....+..+....+.+.|.+.+
T Consensus        36 ~~lGf~i~gg~~~~~~~~gv~V~~V~~gspA~~aG~L~~GD~Il~VN---g~~v~~~-~~~~~~~~l~~~~~~v~L~v~R  111 (118)
T 3b76_A           36 ESLGMTVAGGASHREWDLPIYVISVEPGGVISRDGRIKTGDILLNVD---GVELTEV-SRSEAVALLKRTSSSIVLKALE  111 (118)
T ss_dssp             CCCCEEEEECSCSTTCCCCEEEEEECTTSHHHHHCSSCTTCEEEEET---TEEGGGS-CHHHHHHHHHSCCSEEEEEEEE
T ss_pred             CccCEEEecCCCCCCCCCCEEEEEECCCCHHHHCCCCCCCCEEEEEC---CEECCCC-CHHHHHHHHHcCCCeEEEEEEE
Confidence            45777654432     3469999999999999999 99999886543   3333210 1223344444444455555554

>1x5q_A LAP4 protein; PDZ domain, scribble homolog protein, hscrib, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=94.07  E-value=0.057  Score=40.23  Aligned_cols=40  Identities=33%  Similarity=0.603  Sum_probs=31.8

Q ss_pred             ccceeeeee--------cCCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           56 PLGLTLGQK--------PGGGVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        56 plGl~~g~~--------~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      .+|+.+...        ...+++|..+.+++.|+++||+.||+|..+-
T Consensus        27 glG~~i~~g~~~~~~~~~~~g~~V~~V~~~spA~~aGL~~GD~I~~in   74 (110)
T 1x5q_A           27 GLGISIAGGKGSTPYKGDDEGIFISRVSEEGPAARAGVRVGDKLLEVN   74 (110)
T ss_dssp             SCSEEEEECTTSCCSSTTCCSEEEEEECTTSHHHHHTCCTTCEEEEET
T ss_pred             eeeEEEEccccCCccccCCCCEEEEEECCCCHHHHcCCCCCCEEEEEC
Confidence            477766431        3468999999999999999999999886543

>2edp_A Fragment, shroom family member 4; APX/shroom family member, KIAA1202 protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=94.04  E-value=0.095  Score=38.55  Aligned_cols=74  Identities=23%  Similarity=0.384  Sum_probs=45.7

Q ss_pred             EEeec--Cccceeeeee--cCCcEEEEEeecchHHHHh-cCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceE
Q 038893           50 EVEVD--KPLGLTLGQK--PGGGVVITAVEGGGNAAKA-GLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYF  124 (235)
Q Consensus        50 ~v~~~--kplGl~~g~~--~~~~vyIa~~isG~~a~~~-Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if  124 (235)
                      ++++.  .++|+.+...  ....++|..+.+++.|+++ ||+.||+|..+   -|..+...  ....+..+....+...|
T Consensus        14 ~v~~~~~~~~G~~~~gg~~~~~~v~V~~V~~~spA~~agGL~~GD~I~~i---ng~~v~~~--~~~~~~~~~~~~~~v~l   88 (100)
T 2edp_A           14 PVQLQGGAPWGFTLKGGLEHCEPLTVSKIEDGGKAALSQKMRTGDELVNI---NGTPLYGS--RQEALILIKGSFRILKL   88 (100)
T ss_dssp             EEECCSCSCCCCCEEEEGGGTEEEEECCCCTTSHHHHHTSCCTTCEEEEE---TTEECCSC--SHHHHHHHHTCCSSCEE
T ss_pred             EEEECCCCCcCEEEeccCCCCCCeEEEEECCCCHHHHcCCCCCCCEEEEE---CCEEccch--HHHHHHHHHhCCCeEEE
Confidence            34444  4677765442  3456999999999999999 89999988654   33333221  22333344443444556


Q ss_pred             EecC
Q 038893          125 VVNR  128 (235)
Q Consensus       125 ~~~~  128 (235)
                      .+.|
T Consensus        89 ~v~R   92 (100)
T 2edp_A           89 IVRR   92 (100)
T ss_dssp             EEEE
T ss_pred             EEEe
Confidence            6655

>3axa_A Afadin, nectin-3, protein AF-6; PDZ domain, fusion protein, cell adhesion; 2.78A {Mus musculus} PDB: 1xz9_A 2exg_A* 1t2m_A 2ain_A

Probab=94.01  E-value=0.065  Score=39.64  Aligned_cols=46  Identities=33%  Similarity=0.521  Sum_probs=34.7

Q ss_pred             EEEeec--Cccceeeeee-----cCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           49 IEVEVD--KPLGLTLGQK-----PGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~~--kplGl~~g~~-----~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .+|+++  ..+|+.+...     .+.++||..+.+|+.|+++| ++.||+|..+
T Consensus        13 ~~v~l~~~~glG~~i~~~~~~~~~~~gv~V~~V~~~spA~~aG~L~~GD~I~~i   66 (106)
T 3axa_A           13 ITVTLKKQNGMGLSIVAAKGAGQDKLGIYVKSVVKGGAADVDGRLAAGDQLLSV   66 (106)
T ss_dssp             EEEEEECSSSCSEEEEEEECSSCSSEEEEEEEEBTTSHHHHHCCCCTTCEEEEE
T ss_pred             EEEEECCCCccCEEEEeecCCCCCCCCEEEEEECCCCHHHHcCCCCCCCEEEEE
Confidence            345543  4577766431     34579999999999999999 9999988654

>3k1r_A Harmonin; protein-protein complex, alternative splicing, coiled coil, deafness, hearing, non-syndromic deafness, polymorphism; 2.30A {Homo sapiens} PDB: 2kbq_A 2kbr_A 2lsr_A

Probab=93.97  E-value=0.064  Score=44.16  Aligned_cols=77  Identities=27%  Similarity=0.396  Sum_probs=50.2

Q ss_pred             EEeec----Cccceeeee--ecCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCce
Q 038893           50 EVEVD----KPLGLTLGQ--KPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVY  123 (235)
Q Consensus        50 ~v~~~----kplGl~~g~--~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~i  123 (235)
                      +|++.    .++|+.+..  ....++||..+.+|+.|+++|++.||.|..+-   |..+-. -.....+..+.. .+...
T Consensus        87 ~v~l~k~~~~~lG~~i~~~~~~~~~~~V~~V~~gspA~~aGL~~GD~Il~vn---g~~v~~-~~~~~~~~~l~~-~~~v~  161 (192)
T 3k1r_A           87 EVRLDRLHPEGLGLSVRGGLEFGCGLFISHLIKGGQADSVGLQVGDEIVRIN---GYSISS-CTHEEVINLIRT-EKTVS  161 (192)
T ss_dssp             EEEEETTSTTCCCEEEEEEGGGTEEEEEEEECTTSHHHHTTCCTTEEEEEET---TEECTT-CCHHHHHHHHTS-SSEEE
T ss_pred             EEEEEeCCCCceeEEEEcccccCCCEEEEEECCCChHHHcCCCCCCEEEEEC---CEECCC-CCHHHHHHHHcC-CCeEE
Confidence            45554    357775532  23568999999999999999999999987753   332211 012334455555 66777


Q ss_pred             EEecCcee
Q 038893          124 FVVNRGGA  131 (235)
Q Consensus       124 f~~~~~g~  131 (235)
                      |.+.+.|.
T Consensus       162 l~v~r~g~  169 (192)
T 3k1r_A          162 IKVRHIGL  169 (192)
T ss_dssp             EEEEECCE
T ss_pred             EEEEECCc
Confidence            77777553

>1v5q_A GRIP1 homolog, glutamate receptor interacting protein 1A-L homolog; PDZ domain, cellular signaling, structural genomics; NMR {Mus musculus} SCOP: b.36.1.1

Probab=93.93  E-value=0.11  Score=39.58  Aligned_cols=77  Identities=19%  Similarity=0.272  Sum_probs=48.5

Q ss_pred             EEEEeec----Cccceeeeee------cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhh
Q 038893           48 TIEVEVD----KPLGLTLGQK------PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQ  116 (235)
Q Consensus        48 ~~~v~~~----kplGl~~g~~------~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn  116 (235)
                      ..+|.+.    ..+|+.+...      .+..++|..+.+++.|+++| |+.||+|+.+-   |..+-. ....+....++
T Consensus        16 ~~~v~l~k~~~~glG~~l~~~~~~~~~~~~~~~V~~V~~~spA~~aG~L~~GD~I~~in---g~~v~~-~~~~~~~~~l~   91 (122)
T 1v5q_A           16 TTEVVLTADPVTGFGIQLQGSVFATETLSSPPLISYIEADSPAERCGVLQIGDRVMAIN---GIPTED-STFEEANQLLR   91 (122)
T ss_dssp             EEEEEECCCSSSSSCEEEECCSCCSSSCSSCCEEEEECTTSHHHHSCCCCTTCCEEEET---TEESSS-SCHHHHHHHHH
T ss_pred             eEEEEEEeCCCCccCEEEecccccCCcCCCCcEEEEECCCChHHHcCCCCCCCEEEEEC---CEECCC-CCHHHHHHHHH
Confidence            3456664    3477776542      24569999999999999999 99999987653   444422 01223344444


Q ss_pred             cCC--CCceEEecC
Q 038893          117 AKP--DSVYFVVNR  128 (235)
Q Consensus       117 ~~~--~a~if~~~~  128 (235)
                      ..+  ....|.+.+
T Consensus        92 ~~~~g~~v~l~v~R  105 (122)
T 1v5q_A           92 DSSITSKVTLEIEF  105 (122)
T ss_dssp             HHTTTTCEEEEEEE
T ss_pred             hCCCCCeEEEEEEE
Confidence            432  355666665

>3kzd_A TIAM-1, T-lymphoma invasion and metastasis-inducing prote; PDZ, cell junction, cell adhesion, signaling protein, nucleotide exchange factor; 1.30A {Homo sapiens} PDB: 3kze_A

Probab=93.93  E-value=0.14  Score=38.56  Aligned_cols=39  Identities=31%  Similarity=0.468  Sum_probs=30.9

Q ss_pred             ccceeeeee---cCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           56 PLGLTLGQK---PGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        56 plGl~~g~~---~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      .+|+.+...   ...++||..+.+|+.|+++|++.||.|..+
T Consensus        21 ~~Gf~v~~~~~~~~~g~~V~~V~~~spA~~aGL~~GD~Il~v   62 (94)
T 3kzd_A           21 TYGFSLSSVEEDGIRRLYVNSVKETGLASKKGLKAGDEILEI   62 (94)
T ss_dssp             CCSEEEEEECSSSSCEEEEEEECTTSHHHHTTCCTTCEEEEE
T ss_pred             CcCEEEEecCCCCcCCeEEEEECCCCHHHHcCCCCCCEEEEE
Confidence            477766542   234799999999999999999999987554

>2pzd_A Serine protease HTRA2; PDZ domain, apoptosis, mitochondria, peptid module, hydrolase; 2.75A {Homo sapiens} SCOP: b.36.1.4

Probab=93.89  E-value=0.11  Score=38.79  Aligned_cols=59  Identities=25%  Similarity=0.357  Sum_probs=41.9

Q ss_pred             CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCcee
Q 038893           66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGA  131 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~  131 (235)
                      .++++|..+.+++.|+.+|++.||+|..+.   |..+   ........+++. .+...+.+.+.|-
T Consensus        34 ~~gv~V~~V~~~spA~~aGl~~GD~I~~in---g~~v---~~~~~~~~~l~~-~~~v~l~v~R~g~   92 (113)
T 2pzd_A           34 QHGVLIHKVILGSPAHRAGLRPGDVILAIG---EQMV---QNAEDVYEAVRT-QSQLAVQIRRGRE   92 (113)
T ss_dssp             SSCEEEEEEBTTSHHHHHTCCTTCEEEEET---TEEC---CSHHHHHHHHHH-CSSEEEEEEETTE
T ss_pred             CCCeEEEEeCCCChHHHcCCCCCCEEEEEC---CEEC---CCHHHHHHHHhC-CCeEEEEEEECCE
Confidence            478999999999999999999999987663   3333   334444455554 3556677776553

>2ehr_A INAD-like protein; PDZ domain, inadl protein, hinadl, PALS1- associated tight junction protein, protein associated to tight junctions, PATJ; NMR {Homo sapiens}

Probab=93.88  E-value=0.12  Score=38.90  Aligned_cols=58  Identities=31%  Similarity=0.402  Sum_probs=38.8

Q ss_pred             CcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecC
Q 038893           67 GGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        67 ~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      .++||..+.+++.|+++| ++.||+|..+   -|..+-... .-..+..+....+...|.+.+
T Consensus        50 ~gv~V~~V~~~spA~~aG~L~~GD~Il~v---ng~~v~~~~-~~~~~~~~~~~g~~v~l~v~r  108 (117)
T 2ehr_A           50 KGIFIKQVLEDSPAGKTNALKTGDKILEV---SGVDLQNAS-HSEAVEAIKNAGNPVVFIVQS  108 (117)
T ss_dssp             CSEEEEEECSSSTTTSSCSCCTTCEEEEE---SSCBCTTCC-HHHHHHHHHTSCSSEEEEECC
T ss_pred             CCEEEEEeCCCChHHHcCCCCCCCEEEEE---CCEECCCCC-HHHHHHHHHcCCCeEEEEEEE
Confidence            589999999999999999 9999998655   343332111 223444555544555566655

>3gge_A PDZ domain-containing protein GIPC2; structural genomics, structural genomics consort protein binding; 2.60A {Homo sapiens}

Probab=93.86  E-value=0.062  Score=40.84  Aligned_cols=44  Identities=30%  Similarity=0.415  Sum_probs=35.2

Q ss_pred             EEeec---CccceeeeeecCCcEEEEEeecchHHHHhc-CCcCcceee
Q 038893           50 EVEVD---KPLGLTLGQKPGGGVVITAVEGGGNAAKAG-LKSGDQVLY   93 (235)
Q Consensus        50 ~v~~~---kplGl~~g~~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~   93 (235)
                      +|++.   .++|+.+....++.+||..+.+|+.+++.| +++||.|..
T Consensus         8 ~V~l~K~~~~LG~tI~~~g~g~~~I~rI~~gg~a~r~g~L~vGD~I~~   55 (95)
T 3gge_A            8 EVNVYKSEDSLGLTITDNGVGYAFIKRIKDGGVIDSVKTICVGDHIES   55 (95)
T ss_dssp             EEEEECCSSCCCEEEECSSSSCCEEEEECTTSHHHHCTTCCTTCEEEE
T ss_pred             EEEEEECCCCceEEEEcCCCCcEEEEEEcCCChHHhcCCCCCCCEEEE
Confidence            45554   578887654457889999999999999999 999997643

>1ufx_A KIAA1526 protein; PDZ domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, protein binding; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=93.74  E-value=0.092  Score=39.21  Aligned_cols=46  Identities=28%  Similarity=0.403  Sum_probs=34.1

Q ss_pred             EEEeec---Cccceeeeeec---CCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           49 IEVEVD---KPLGLTLGQKP---GGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~~---kplGl~~g~~~---~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .+|.+.   .++|+.+.-..   .|.+||..+.+++.|+++| ++.||.|..+
T Consensus         8 ~~v~l~k~~~glG~~i~gg~~~~~~~~~I~~v~~~s~A~~aG~L~~GD~Il~V   60 (103)
T 1ufx_A            8 TLVRVKKSAATLGIAIEGGANTRQPLPRIVTIQRGGSAHNCGQLKVGHVILEV   60 (103)
T ss_dssp             EEEEEECCSSSCCEEEECBTTSSCSSCEEEEECTTSHHHHHCSSCTTCBCCEE
T ss_pred             EEEEEEcCCCcCCeEEECCCCCCCCcEEEEEeCCCChHHHCCCCCCCCEEEEE
Confidence            345554   45887664332   2556999999999999999 9999987654

>1uep_A Membrane associated guanylate kinase inverted-2 (MAGI-2); atrophin-1 interacting protein 1, PDZ domain, structural genomics; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=93.70  E-value=0.045  Score=40.49  Aligned_cols=40  Identities=33%  Similarity=0.625  Sum_probs=31.8

Q ss_pred             Cccceeeee--ecCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           55 KPLGLTLGQ--KPGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~--~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      ..+|+.+..  .....+||..+.+++.|+++| |+.||+|+.+
T Consensus        20 ~g~G~~i~~g~~~~~~~~V~~V~~~spA~~aG~L~~GD~Il~i   62 (103)
T 1uep_A           20 SGFGFRILGGDEPGQPILIGAVIAMGSADRDGRLHPGDELVYV   62 (103)
T ss_dssp             SSCCEEECCCCSTTSCCBEEEECTTSTTGGGTCCCTTCEEEEE
T ss_pred             CccCEEEeeecCCCCCeEEEEeCCCChHHhCCCCCCCCEEEEE
Confidence            347776544  234679999999999999999 9999988654

>2dls_A PDZ-rhogef, RHO guanine nucleotide exchange factor 11; PDZ domain, arhgef11, KIAA0380, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2omj_A 2os6_A

Probab=93.70  E-value=0.073  Score=38.58  Aligned_cols=43  Identities=33%  Similarity=0.542  Sum_probs=32.5

Q ss_pred             EEeec---CccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           50 EVEVD---KPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        50 ~v~~~---kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      ++.+.   ..+|+.+..  +.+++|..+.+++.|+++|++.||+|..+
T Consensus        11 ~v~l~~~~~~~G~~l~~--~~g~~V~~V~~~spA~~aGL~~GD~I~~i   56 (93)
T 2dls_A           11 CVIIQKDQHGFGFTVSG--DRIVLVQSVRPGGAAMKAGVKEGDRIIKV   56 (93)
T ss_dssp             EEEEECSSSSCCEEEEC--SSSCEEEEECSSSTTTTTTCCSSCEEEEE
T ss_pred             EEEEEeCCCceeEEEeC--CCCEEEEEECCCCHHHHcCCCCCCEEEEE
Confidence            45544   346664432  46799999999999999999999987654

>3gsl_A Disks large homolog 4; PDZ domain, tandem, PSD-95, DLG4, SAP-90, GLUR6, cell juncti membrane, lipoprotein, membrane, palmitate, phosphoprotein; 2.05A {Rattus norvegicus} PDB: 3zrt_A 2ka9_A

Probab=93.68  E-value=0.14  Score=40.94  Aligned_cols=74  Identities=22%  Similarity=0.378  Sum_probs=46.8

Q ss_pred             Eeec---Cccceeeeeec-------CCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCC
Q 038893           51 VEVD---KPLGLTLGQKP-------GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP  119 (235)
Q Consensus        51 v~~~---kplGl~~g~~~-------~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~  119 (235)
                      +++.   .++|+.+....       ++++||..+.+|+.|+++| ++.||.|..+-   |..+-..... ..+.++....
T Consensus         9 v~l~~~~~~lG~~i~~g~~~~~~~~~~g~~V~~V~~~spA~~aG~l~~GD~I~~vn---g~~v~~~~~~-~~~~~~~~~g   84 (196)
T 3gsl_A            9 ITLERGNSGLGFSIAGGTDNPHIGDDPSIFITKIIPGGAAAQDGRLRVNDSILFVN---EVDVREVTHS-AAVEALKEAG   84 (196)
T ss_dssp             EEEECBTTBSSEEEECCTTSCTTSSCCCEEEEEECTTSHHHHHCCCCTTCEEEEET---TEECTTCCHH-HHHHHHHTSC
T ss_pred             EEEEECCCCCCEEEEcccCCcccCCCCCEEEEEECCCChHHhcCCCCCCCEEEEEC---CEECCCCCHH-HHHHHHHhCC
Confidence            5554   56887665432       4689999999999999999 99999987653   3333221111 2233444444


Q ss_pred             CCceEEecC
Q 038893          120 DSVYFVVNR  128 (235)
Q Consensus       120 ~a~if~~~~  128 (235)
                      +.+.+.+.+
T Consensus        85 ~~v~l~v~r   93 (196)
T 3gsl_A           85 SIVRLYVMR   93 (196)
T ss_dssp             SEEEEEEEE
T ss_pred             CcEEEEEEe
Confidence            455566654

>2edz_A PDZ domain-containing protein 1; CFTR-associated protein of 70 kDa, Na/PI cotransporter C- terminal-associated protein, NAPI-CAP1; NMR {Mus musculus}

Probab=93.63  E-value=0.077  Score=39.90  Aligned_cols=72  Identities=28%  Similarity=0.348  Sum_probs=46.6

Q ss_pred             Cccceeeeee-cCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCce
Q 038893           55 KPLGLTLGQK-PGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGG  130 (235)
Q Consensus        55 kplGl~~g~~-~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g  130 (235)
                      +.+|+.+... ...+++|..+.+|+.|+++|++.||+|..+-   |..+-+. ........++...+...+.+.+.+
T Consensus        25 ~~~G~~l~~~~~~~g~~V~~V~~~spA~~aGL~~GD~I~~in---g~~v~~~-~~~~~~~~l~~~g~~v~l~v~R~~   97 (114)
T 2edz_A           25 QNYGFFLRIEKDTDGHLIRVIEEGSPAEKAGLLDGDRVLRIN---GVFVDKE-EHAQVVELVRKSGNSVTLLVLDGD   97 (114)
T ss_dssp             CCCSCEEECCTTCCSCEEECCCTTCTTGGGTCCTTCEEEEES---SSBCSSS-CHHHHHHHHHHTCSEEEEEEECHH
T ss_pred             CcccEEEEEecCCCCeEEEEeCCCChHHHcCCCCCCEEEEEC---CEECCCC-CHHHHHHHHHcCCCEEEEEEEECC
Confidence            4566644332 3467999999999999999999999987653   4444221 123344455444455667776654

>2h2b_A Tight junction protein ZO-1; PDZ domain, phage derived high affinity ligand, cell adhesio; 1.60A {Homo sapiens} PDB: 2h2c_A 2h3m_A 2rrm_A

Probab=93.61  E-value=0.1  Score=38.59  Aligned_cols=44  Identities=25%  Similarity=0.432  Sum_probs=33.0

Q ss_pred             EEeecC----ccceeeeeec--------CCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           50 EVEVDK----PLGLTLGQKP--------GGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        50 ~v~~~k----plGl~~g~~~--------~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      +|++.|    .+|+.+....        +.+++|..+.+|+.|+ +|++.||+|..+
T Consensus        10 ~v~l~k~~~~glG~~i~~~~~~~~~~~~~~gv~V~~V~~~spA~-agl~~GD~I~~v   65 (107)
T 2h2b_A           10 TVTLHRAPGFGFGIAISGGRDNPHFQSGETSIVISDVLKGGPAE-GQLQENDRVAMV   65 (107)
T ss_dssp             EEEEECBTTTBTCEEEEECTTSCCTTTCCCCEEEEEECTTSTTB-TTBCTTCEEEEE
T ss_pred             EEEEEeCCCCccCEEEecCcCCCcccCCCCCEEEEEECCCCchh-hCCCCCCEEEEE
Confidence            355543    4777665422        3489999999999999 999999988654

>4ayb_P DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2pmz_P 2wb1_P 2y0s_P 3hkz_P 2waq_P 4b1o_P 4b1p_X

Probab=93.56  E-value=0.029  Score=37.88  Aligned_cols=31  Identities=26%  Similarity=0.472  Sum_probs=21.1

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQA  190 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a  190 (235)
                      ++.|+|.-||.+++.+ ..+-+|+ -+||.||-
T Consensus         1 ~~iY~C~rCg~~fs~~-el~~lP~-IrCpyCGy   31 (48)
T 4ayb_P            1 MAVYRCGKCWKTFTDE-QLKVLPG-VRCPYCGY   31 (48)
T ss_dssp             ----CCCCTTTTCCCC-CSCCCSS-SCCTTTCC
T ss_pred             CcEEEeeccCCCccHH-HHhhCCC-cccCccCc
Confidence            3579999999998774 3444666 59999975

>1uju_A Scribble; PDZ domain, cellular signaling, structural genomics, riken structural genomics/proteomics initiative, RSGI, signaling protein; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=93.54  E-value=0.072  Score=39.81  Aligned_cols=28  Identities=32%  Similarity=0.550  Sum_probs=24.8

Q ss_pred             CcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           67 GGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        67 ~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .++||..+.+++.|+++| |+.||+|..+
T Consensus        44 ~gv~V~~V~~~spA~~aG~L~~GD~Il~v   72 (111)
T 1uju_A           44 EGIFISKVSPTGAAGRDGRLRVGLRLLEV   72 (111)
T ss_dssp             CCCEEEEECTTSHHHHHSSCCTTCBCCBB
T ss_pred             CCEEEEEECCCCHHHHcCCCCCCCEEEEE
Confidence            469999999999999999 9999987543

>2kom_A Partitioning defective 3 homolog; PAR-3B, PDZ domain, PSI, structural genomics, alternative splicing, cell cycle, cell division, cell junction; NMR {Homo sapiens}

Probab=93.54  E-value=0.088  Score=40.31  Aligned_cols=40  Identities=23%  Similarity=0.483  Sum_probs=31.6

Q ss_pred             ccceeeeeec-----CCcEEEEEeecchHHHHhc-CCcCcceeeec
Q 038893           56 PLGLTLGQKP-----GGGVVITAVEGGGNAAKAG-LKSGDQVLYTS   95 (235)
Q Consensus        56 plGl~~g~~~-----~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s   95 (235)
                      .+|+.+....     ...++|..+.+|+.|+++| ++.||+|..+-
T Consensus        42 ~lG~~l~~~~~~~~g~~gv~V~~V~~gspA~~aG~L~~GD~Il~In   87 (121)
T 2kom_A           42 GLGFSITSRDVTIGGSAPIYVKNILPRGAAIQDGRLKAGDRLIEVN   87 (121)
T ss_dssp             CCCEEEECCCCSSSSSCCEEEEEECTTSHHHHHTCCCSSSEEEEET
T ss_pred             cEeEEEEeccCCcCCCCCEEEEEECCCChHHHcCCCCCCCEEEEEC
Confidence            4676655432     2579999999999999999 99999987653

>1wfg_A Regulating synaptic membrane exocytosis protein 2; PDZ domain, RAB3-interacting molecule, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: b.36.1.1 PDB: 2css_A 1zub_A

Probab=93.52  E-value=0.077  Score=41.34  Aligned_cols=39  Identities=36%  Similarity=0.387  Sum_probs=30.9

Q ss_pred             ccceeeee--ec---CCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           56 PLGLTLGQ--KP---GGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        56 plGl~~g~--~~---~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      ++|+.+..  ..   +..+||..+.+|+.|+++| ++.||.|+.+
T Consensus        49 ~lG~~i~gg~~~~~~~~gv~V~~V~~gspA~~aG~L~~GD~Il~i   93 (131)
T 1wfg_A           49 MLGLKVVGGKMTESGRLCAFITKVKKGSLADTVGHLRPGDEVLEW   93 (131)
T ss_dssp             TTTEEEEEEEECSSSCEEEEEEEECTTSHHHHTSCCCTTCEEEEE
T ss_pred             CCCEEEecCccCCCCCCCEEEEEECCCChHHHcCCCCCCCEEEEE
Confidence            47776633  21   3489999999999999999 9999987654

>2eei_A PDZ domain-containing protein 1; regulatory factor, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=93.50  E-value=0.038  Score=40.86  Aligned_cols=40  Identities=25%  Similarity=0.395  Sum_probs=31.7

Q ss_pred             Cccceeeeee-cCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           55 KPLGLTLGQK-PGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~-~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      .++|+.+... ...++||..+.+|+.|+++|++.||+|..+
T Consensus        19 ~~~G~~l~~~~~~~g~~V~~V~~~spA~~aGl~~GD~I~~v   59 (106)
T 2eei_A           19 GSYGFSLKTVQGKKGVYMTDITPQGVAMRAGVLADDHLIEV   59 (106)
T ss_dssp             SSCSCCEECCSSCCSCEECCCCTTSHHHHHTCCSSEEEEEE
T ss_pred             CCCCEEEEeccCCCCEEEEEECCCCHHHHcCCCCCCEEEEE
Confidence            4577765432 346899999999999999999999988654

>2dc2_A GOPC, golgi associated PDZ and coiled-coil motif containing isoform B; GOPC PDZ domain, structural protein; NMR {Homo sapiens}

Probab=93.48  E-value=0.14  Score=37.83  Aligned_cols=70  Identities=24%  Similarity=0.366  Sum_probs=45.2

Q ss_pred             Cccceeeeee--cCCcEEEEEeecchHHHHh-cCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecC
Q 038893           55 KPLGLTLGQK--PGGGVVITAVEGGGNAAKA-GLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        55 kplGl~~g~~--~~~~vyIa~~isG~~a~~~-Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      ..+|+.+...  ....++|..+.+|+.|+++ |++.||.|..+-   |..+-.. ...+.+..+....+...|.+.+
T Consensus        21 ~~lG~~l~~g~~~~~~~~V~~V~~~s~A~~a~gL~~GD~Il~In---g~~v~~~-~~~~~~~~l~~~~~~v~l~v~~   93 (103)
T 2dc2_A           21 EGLGISITGGKEHGVPILISEIHPGQPADRCGGLHVGDAILAVN---GVNLRDT-KHKEAVTILSQQRGEIEFEVVY   93 (103)
T ss_dssp             SCCCEEEEEEGGGTEEEEEEEECTTSHHHHHTCCCSSEEEEEET---TEESTTS-CHHHHHHHHHHCCSEEEEEEEE
T ss_pred             CccCEEEEeccCCCCCEEEEEECCCCHHHHhCCCCCCCEEEEEC---CEECCCC-CHHHHHHHHHhCCCcEEEEEEe
Confidence            4578766543  2347999999999999996 899999886653   3333111 2223445555555566666655

>3gsl_A Disks large homolog 4; PDZ domain, tandem, PSD-95, DLG4, SAP-90, GLUR6, cell juncti membrane, lipoprotein, membrane, palmitate, phosphoprotein; 2.05A {Rattus norvegicus} PDB: 3zrt_A 2ka9_A

Probab=93.46  E-value=0.37  Score=38.43  Aligned_cols=58  Identities=28%  Similarity=0.358  Sum_probs=38.3

Q ss_pred             CcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecC
Q 038893           67 GGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        67 ~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      .++||..+.+|+.|+++| ++.||+|..+-   |..+=. ......+..+.+..+...|.+.+
T Consensus       130 ~gv~V~~V~~gs~A~~aG~L~~GD~Il~Vn---g~~v~~-~~~~~~~~~l~~~~~~v~l~v~R  188 (196)
T 3gsl_A          130 NSIYVTKIIEGGAAHKDGRLQIGDKILAVN---SVGLED-VMHEDAVAALKNTYDVVYLKVAK  188 (196)
T ss_dssp             CCEEEEEECTTSHHHHHCCCCTTCEEEEET---TEECSS-CBHHHHHHHHHSCCEEEEEEEEE
T ss_pred             CCEEEEEECCCChHHhcCCCCCCCEEEEEC---CCcCCC-CCHHHHHHHHHcCCCeEEEEEeC
Confidence            479999999999999999 99999886653   322211 11233445555555555666655

>1ujd_A KIAA0559 protein; PDZ domain, structural genomics, human cDNA, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=93.36  E-value=0.09  Score=39.86  Aligned_cols=69  Identities=25%  Similarity=0.265  Sum_probs=42.7

Q ss_pred             ccceeeeeec-------CCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEec
Q 038893           56 PLGLTLGQKP-------GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVN  127 (235)
Q Consensus        56 plGl~~g~~~-------~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~  127 (235)
                      .+|+.+....       +..+||..+.+|+.|+++| |+.||.|..+-   |..+-.. .....+..+....+...|.+.
T Consensus        31 glG~~i~g~~~~~~~~~~~g~~V~~v~~~s~A~~aG~L~~GD~Il~vn---g~~v~~~-~~~~~~~~l~~~~~~v~l~v~  106 (117)
T 1ujd_A           31 GLGIRIVGGKEIPGHSGEIGAYIAKILPGGSAEQTGKLMEGMQVLEWN---GIPLTSK-TYEEVQSIISQQSGEAEICVR  106 (117)
T ss_dssp             SCSEEEEEEEECSSSSSCEEEEEEEECTTCHHHHHSSCCTTCEEEEET---TEECTTC-CHHHHHHHHSCCSSCEEEEEE
T ss_pred             cccEEEeCCCCCCcccCCcCEEEEEECCCCHHHHcCCCCCCCEEEEEC---CEEcCCC-CHHHHHHHHhcCCCEEEEEEE
Confidence            4677654322       2379999999999999999 99999886553   3333111 012334445444445556665


Q ss_pred             C
Q 038893          128 R  128 (235)
Q Consensus       128 ~  128 (235)
                      +
T Consensus       107 R  107 (117)
T 1ujd_A          107 L  107 (117)
T ss_dssp             S
T ss_pred             E
Confidence            5

>2kv8_A RGS12, regulator of G-protein signaling 12; PDZ domain, signaling protein; NMR {Homo sapiens}

Probab=93.32  E-value=0.067  Score=37.72  Aligned_cols=43  Identities=37%  Similarity=0.549  Sum_probs=31.6

Q ss_pred             EEeecC---ccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           50 EVEVDK---PLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        50 ~v~~~k---plGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      +|.+.|   .+|+.+..  ..+++|..+.+|+.|+++|++.||+|..+
T Consensus         5 ~v~l~~~~~g~G~~~~~--~~~~~V~~V~~~spA~~aGl~~GD~I~~i   50 (83)
T 2kv8_A            5 SVEVARGRAGYGFTLSG--QAPCVLSCVMRGSPADFVGLRAGDQILAV   50 (83)
T ss_dssp             EEEECCCSSCCSCBCCC--SSSCBCCBCCTTSTTTTTTCCTTCEEEEE
T ss_pred             EEEEEeCCCcccEEEEc--CCCeEEEEeCCCChHHHcCCCCCCEEEEE
Confidence            455553   34543322  34699999999999999999999988654

>1i16_A Interleukin 16, LCF; cytokine, lymphocyte chemoattractant factor, PDZ domain; NMR {Homo sapiens} SCOP: b.36.1.2

Probab=93.28  E-value=0.07  Score=41.37  Aligned_cols=76  Identities=22%  Similarity=0.322  Sum_probs=47.3

Q ss_pred             EEEeec---Cccceeeeeec-----CCcEEEEEeecchHHHHh-cCCcCcceeeeccccCCCccccCccchhhhhhhcCC
Q 038893           49 IEVEVD---KPLGLTLGQKP-----GGGVVITAVEGGGNAAKA-GLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP  119 (235)
Q Consensus        49 ~~v~~~---kplGl~~g~~~-----~~~vyIa~~isG~~a~~~-Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~  119 (235)
                      .+|++.   .++|+.+....     +..+||..+.+|+.|+++ |++.||.|..+-   |..+-.. ...+.+..|...+
T Consensus        31 ~~v~l~k~~~glG~~i~gg~~~~~~~~~i~I~~V~~gs~A~~aggL~~GD~Il~Vn---g~~v~~~-~~~~~~~~l~~~~  106 (130)
T 1i16_A           31 CTVTLEKMSAGLGFSLEGGKGSLHGDKPLTINRIFKGAASEQSETVQPGDEILQLG---GTAMQGL-TRFEAWNIIKALP  106 (130)
T ss_dssp             EEEEEETTSSSTTEEEECCCCCSSSCCCCEEEEECSSCCCSSSCCCCTTCCEEECS---SCBGGGS-CHHHHHHHHHTSC
T ss_pred             EEEEEEcCCCccCEEEecCcCCCCCCCCEEEEEECCCCHHHHcCCCCCCCEEEEEC---CEECCCC-CHHHHHHHHHhCC
Confidence            446665   46888765432     346999999999999999 799999886553   3322111 1223344555554


Q ss_pred             CC-ceEEecC
Q 038893          120 DS-VYFVVNR  128 (235)
Q Consensus       120 ~a-~if~~~~  128 (235)
                      +. +.+.+.+
T Consensus       107 ~~~v~l~v~r  116 (130)
T 1i16_A          107 DGPVTIVIRR  116 (130)
T ss_dssp             SSEEEEEEEE
T ss_pred             CceEEEEEEe
Confidence            44 4555554

>1wg6_A Hypothetical protein (riken cDNA 2810455B10); structural genomics, PDZ domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: b.36.1.1 PDB: 2koh_A 2k1z_A 2k20_A

Probab=93.28  E-value=0.054  Score=41.95  Aligned_cols=47  Identities=30%  Similarity=0.537  Sum_probs=35.5

Q ss_pred             EEEeec----Cccceeeeeec------CCcEEEEEeecchHHHHhc-CCcCcceeeec
Q 038893           49 IEVEVD----KPLGLTLGQKP------GGGVVITAVEGGGNAAKAG-LKSGDQVLYTS   95 (235)
Q Consensus        49 ~~v~~~----kplGl~~g~~~------~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s   95 (235)
                      .++.+.    ..+|+.+....      +..+||..+.+|+.|+++| ++.||+|+.+-
T Consensus        27 ~~v~l~k~~~~glG~~i~~~~~~~~~~~~gi~V~~V~~gspA~~aG~L~~GD~Il~Vn   84 (127)
T 1wg6_A           27 LEIPLNDSGSAGLGVSLKGNKSRETGTDLGIFIKSIIHGGAAFKDGRLRMNDQLIAVN   84 (127)
T ss_dssp             EEEECSSSTTTCCCCEEEEEEETTTTEEEEEEEEECCSSSSTHHHHTSCSCCBEEEET
T ss_pred             EEEEEeeCCCCccCeEEecccCCCCCCCCCEEEEEECCCCHHHHCCCCCCCCEEEEEC
Confidence            446654    34887665432      2479999999999999999 99999886553

>3sfj_A TAX1-binding protein 3; PDZ:peptide complex, signaling protein-inhibitor complex; 1.24A {Homo sapiens} PDB: 3dj3_A

Probab=93.23  E-value=0.074  Score=39.01  Aligned_cols=29  Identities=38%  Similarity=0.664  Sum_probs=25.8

Q ss_pred             CCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           66 GGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      ..++||..+.+++.|+++|++.||+|..+
T Consensus        44 ~~gv~V~~V~~~spA~~aGl~~GD~I~~i   72 (104)
T 3sfj_A           44 DKGIYVTRVSEGGPAEIAGLQIGDKIMQV   72 (104)
T ss_dssp             CCSEEEEEECTTSHHHHHTCCTTCEEEEE
T ss_pred             CCCEEEEEECCCChHHHcCCCCCCEEEEE
Confidence            45799999999999999999999987654

>2gzv_A PRKCA-binding protein; protein kinase C, PDZ domain, structural genomics, structura genomics consortium, SGC, signaling protein; 1.12A {Homo sapiens} PDB: 2pku_A

Probab=93.22  E-value=0.1  Score=39.64  Aligned_cols=38  Identities=24%  Similarity=0.357  Sum_probs=30.9

Q ss_pred             cceeeeeec--CCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           57 LGLTLGQKP--GGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        57 lGl~~g~~~--~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      +|+.+....  .+.++|..+.+|+.|+++| ++.||+|..+
T Consensus        38 lG~~l~~~~~~~~~~~V~~V~~gspA~~aG~L~~GD~I~~I   78 (114)
T 2gzv_A           38 IGISIGGGAQYCPCLYIVQVFDNTPAALDGTVAAGDEITGV   78 (114)
T ss_dssp             CSEEEEECCC--CCEEEEEECTTSHHHHHCCCCTTCEEEEE
T ss_pred             EeEEEEeCCCCCCCEEEEEECCCChHHHCCCCCCCCEEEEE
Confidence            787665432  3479999999999999999 9999988655

>2vsv_A Rhophilin-2; scaffold protein, RHO GTPase binding, protein-binding, RHOB, nitration, cytoplasm, PDZ domain, CAsp8; 1.82A {Homo sapiens}

Probab=93.19  E-value=0.094  Score=40.04  Aligned_cols=38  Identities=26%  Similarity=0.373  Sum_probs=30.0

Q ss_pred             CccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           55 KPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      .++|+.+  .....++|..+.+|+.|+++|++.||+|+.+
T Consensus        34 ~~~G~~l--~~~~~v~V~~V~~gspA~~AGL~~GD~Il~V   71 (109)
T 2vsv_A           34 GDLGFTL--RGNAPVQVHFLDPYCSASVAGAREGDYIVSI   71 (109)
T ss_dssp             GCCCEEE--ESSSSCEEEEECTTSHHHHTTCCTTCEEEEE
T ss_pred             CceeEEE--eCCCCeEEEEECCCCHHHHcCCCCCCEEEEE
Confidence            4466544  2345689999999999999999999988665

>2cs5_A Tyrosine-protein phosphatase, non-receptor type 4; PDZ domain, ptpase, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=93.19  E-value=0.094  Score=39.65  Aligned_cols=45  Identities=22%  Similarity=0.332  Sum_probs=33.9

Q ss_pred             EEeecC----ccceeeeee--cCCcEEEEEeecchHHHHh--cCCcCcceeee
Q 038893           50 EVEVDK----PLGLTLGQK--PGGGVVITAVEGGGNAAKA--GLKSGDQVLYT   94 (235)
Q Consensus        50 ~v~~~k----plGl~~g~~--~~~~vyIa~~isG~~a~~~--Gi~~gD~i~~~   94 (235)
                      +|.+.|    ++|+.+...  ....+||..+.+|+.|+++  ||+.||+|+.+
T Consensus        18 ~v~l~k~~~~~~G~~l~gg~~~~~~v~V~~V~~~spA~~a~gGL~~GD~Il~i   70 (119)
T 2cs5_A           18 LIRMKPDENGRFGFNVKGGYDQKMPVIVSRVAPGTPADLCVPRLNEGDQVVLI   70 (119)
T ss_dssp             EEEECCCSSSCCSEEEEEEGGGTEEEEEEEECSSSTTTSSSSCCCTTCEEEEE
T ss_pred             EEEEEeCCCCCcCEEEecccCCCCCeEEEEECCCCHHHHhhcCCCCCCEEEEE
Confidence            455543    477765443  2346999999999999999  89999988654

>2kpk_A Membrane-associated guanylate kinase, WW and PDZ containing protein 1; PDZ domain, ATP-binding, cell junction, cell membrane; NMR {Homo sapiens} PDB: 2kpl_A

Probab=93.18  E-value=0.099  Score=40.38  Aligned_cols=40  Identities=25%  Similarity=0.388  Sum_probs=31.8

Q ss_pred             Cccceeeeee--cCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           55 KPLGLTLGQK--PGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~--~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      ..+|+.+...  ....++|..+.+|+.|+++| |+.||+|+.+
T Consensus        29 ~g~G~~i~g~~~~~~~v~V~~V~~~spA~~aG~L~~GD~Il~v   71 (129)
T 2kpk_A           29 RGFGFTVVGGDEPDEFLQIKSLVLDGPAALDGKMETGDVIVSV   71 (129)
T ss_dssp             SCCSEEEEEEEETTEEEEEEEECTTSHHHHHSSCCTTCEEEEE
T ss_pred             CcccEEEeCccCCCCCEEEEEECCCChHHHcCCCCCCCEEEEE
Confidence            3577765443  24469999999999999999 9999988655

>3egg_C Spinophilin; PP1, serine/threonine phosphatase, post synapti density, glutametergic receptors, carbohydrate metabolism, cycle, cell division; HET: MES; 1.85A {Rattus norvegicus} PDB: 3egh_C* 3hvq_C 2fn5_A

Probab=93.14  E-value=0.23  Score=40.71  Aligned_cols=57  Identities=19%  Similarity=0.365  Sum_probs=41.9

Q ss_pred             HHHHhCCeeEEEEeec---Cccceeeee---e-----cCCcEEEEEeecchHHHHhc-CCcCcceeeec
Q 038893           39 TARTAGASKTIEVEVD---KPLGLTLGQ---K-----PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTS   95 (235)
Q Consensus        39 lA~~lg~~~~~~v~~~---kplGl~~g~---~-----~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s   95 (235)
                      +.+........+|++.   ..+|+.+..   .     .+.++||..+.+|+.|+++| |+.||+|+.+-
T Consensus        72 ~e~~~~~~~~~~v~l~k~~~glG~~i~g~~~g~~~~~~~~gi~V~~V~~gspA~~aG~L~~GD~Il~VN  140 (170)
T 3egg_C           72 LEKRVERLELFPVELEKDSEGLGISIIGMGAGADMGLEKLGIFVKTVTEGGAAHRDGRIQVNDLLVEVD  140 (170)
T ss_dssp             HHHHHTTSEEEEEEEECBTTBSSEEEEEECSSSSCCSSSBEEEEEEECTTSHHHHHCCCCTTCEEEEET
T ss_pred             cccccCCceEEEEEEEeCCCeEeEEEEecccCCccccCCCCEEEEEECCCChHHHCCCCCCCCEEEEEC
Confidence            3344555555677765   468876654   1     24679999999999999999 99999886653

>2yub_A LIMK-2, LIM domain kinase 2; PDZ domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=93.11  E-value=0.17  Score=38.87  Aligned_cols=71  Identities=13%  Similarity=0.252  Sum_probs=43.8

Q ss_pred             ccceeeeee-----cCCcEEEEEeec--chHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecC
Q 038893           56 PLGLTLGQK-----PGGGVVITAVEG--GGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        56 plGl~~g~~-----~~~~vyIa~~is--G~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      ++|+.+..+     ...+++|..+.+  ++.|+++|++.||+|..+-   |..+-.. .+..+..+|........+.+.|
T Consensus        28 ~~G~~v~l~~~~~~~~~gv~V~~V~~~~~spA~~aGL~~GD~Il~Vn---g~~v~~~-~~~dl~~~l~~~g~~v~l~v~R  103 (118)
T 2yub_A           28 RRGFSVTVESASSNYATTVQVKEVNRMHISPNNRNAIHPGDRILEIN---GTPVRTL-RVEEVEDAIKQTSQTLQLLIEH  103 (118)
T ss_dssp             SCSSEEEEECTTSSSCCEEEEEECCTTTSCTTHHHHCCTTCCEEEES---SSBTTTS-CHHHHHHHHHCCSSCEEEEEEE
T ss_pred             CceEEEEeccccccCCCcEEEEEecCCCCChHHHcCCCCCCEEEEEC---CEECCCc-CHHHHHHHHHhCCCEEEEEEEE
Confidence            346555433     236899999999  9999999999999987664   3333222 0134444555443344566655


Q ss_pred             ce
Q 038893          129 GG  130 (235)
Q Consensus       129 ~g  130 (235)
                      .+
T Consensus       104 ~g  105 (118)
T 2yub_A          104 DP  105 (118)
T ss_dssp             CS
T ss_pred             CC
Confidence            33

>3tsz_A Tight junction protein ZO-1; PDZ3-SH3-GUK, scaffolding, JAM, tight junction, cell adhesio; 2.50A {Homo sapiens} PDB: 3tsw_A 3lh5_A

Probab=93.11  E-value=0.12  Score=47.79  Aligned_cols=42  Identities=33%  Similarity=0.518  Sum_probs=35.8

Q ss_pred             cCccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           54 DKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        54 ~kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      ..++|+.+....+.+++|..+.+|+.|+++||+.||.|..+-
T Consensus        18 ~~~lG~~i~gg~~~gi~V~~V~~gspA~~aGL~~GD~Il~Vn   59 (391)
T 3tsz_A           18 GDSVGLRLAGGNDVGIFVAGVLEDSPAAKEGLEEGDQILRVN   59 (391)
T ss_dssp             CSSCCEEEEEETTTEEEEEEECTTCHHHHTTCCTTEEEEEET
T ss_pred             CCceeEEEEecCCCCEEEEEECCCCHHHHcCCCCCCEEEEEC
Confidence            357888766556789999999999999999999999987654

>1r6j_A Syntenin 1; PDZ, membrane protein; 0.73A {Homo sapiens} SCOP: b.36.1.1 PDB: 1nte_A 1obx_A 1oby_A

Probab=92.92  E-value=0.12  Score=37.78  Aligned_cols=43  Identities=21%  Similarity=0.359  Sum_probs=30.3

Q ss_pred             eEEEEeecC----ccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           47 KTIEVEVDK----PLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        47 ~~~~v~~~k----plGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      ...++++.|    ++|+.+    .++ +|....+|+.|+++|++.||.|..+
T Consensus         4 ~~r~v~l~k~~~g~~Gf~i----~~g-~I~~v~~gspA~~aGl~~GD~Il~V   50 (82)
T 1r6j_A            4 DPRTITMHKDSTGHVGFIF----KNG-KITSIVKDSSAARNGLLTEHNICEI   50 (82)
T ss_dssp             CCEEEEEECCTTSCCCEEE----ETT-EEEEECTTSHHHHHTCCSSEEEEEE
T ss_pred             ceEEEEEEECCCCCeEEEE----ECC-EEEEecCCCHHHHcCCCCCCEEEEE
Confidence            334566643    355543    233 4899999999999999999977543

>1v6b_A Harmonin isoform A1; structural genomics, usher syndrome, USH1, riken structural genomics/proteomics initiative, RSGI, protein binding; NMR {Mus musculus} SCOP: b.36.1.1

Probab=92.89  E-value=0.18  Score=38.30  Aligned_cols=41  Identities=37%  Similarity=0.614  Sum_probs=31.6

Q ss_pred             cCccceeeeee---cCCcEEEEEeecchHHHHh-cCCcCcceeee
Q 038893           54 DKPLGLTLGQK---PGGGVVITAVEGGGNAAKA-GLKSGDQVLYT   94 (235)
Q Consensus        54 ~kplGl~~g~~---~~~~vyIa~~isG~~a~~~-Gi~~gD~i~~~   94 (235)
                      ...+|+.+...   ..+.++|..+.+|+.|+++ |++.||.|..+
T Consensus        27 ~~glG~~i~gg~~~~~~~i~I~~V~~gspA~~aggL~~GD~Il~I   71 (118)
T 1v6b_A           27 EGSLDLALEGGVDSPVGKVVVSAVYEGGAAERHGGVVKGDEIMAI   71 (118)
T ss_dssp             CSCCCCEEEEBTTSSSCSEEEEECCTTSHHHHHCSSCTTCEEEEE
T ss_pred             CCccCEEEEcccCCCCCCEEEEEECCCCHHHHcCCCCCCCEEEEE
Confidence            35677765432   2355999999999999999 79999988654

>1x5n_A Harmonin; PDZ domain, usher syndrome 1C protein, autoimmune enteropathy-related antigen AIE-75 ,antigen NY-CO-38/NY-CO- 37, PDZ-73 protein; NMR {Homo sapiens} SCOP: b.36.1.1 PDB: 2kbs_A

Probab=92.81  E-value=0.094  Score=39.26  Aligned_cols=41  Identities=29%  Similarity=0.525  Sum_probs=33.1

Q ss_pred             Cccceeeeee--cCCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           55 KPLGLTLGQK--PGGGVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        55 kplGl~~g~~--~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      .++|+.+...  ...+++|..+.+++.|+.+|++.||+|..+-
T Consensus        27 ~~lG~~l~~~~~~~~gv~V~~V~~~s~A~~aGL~~GD~Il~vn   69 (114)
T 1x5n_A           27 RGLGCSISSGPIQKPGIFISHVKPGSLSAEVGLEIGDQIVEVN   69 (114)
T ss_dssp             CCCCEEEEECCSSSCSEEEEEECTTSTTTTTTCCTTCEEEEET
T ss_pred             CceeEEEeecCCCCCCEEEEEECCCCHHHHcCCCCCCEEEEEC
Confidence            5577766542  3468999999999999999999999987653

>3id1_A Regulator of sigma E protease; hydrolase, cell inner membrane, cell membrane, membrane, metal-binding, metalloprotease, transmembrane; 1.67A {Escherichia coli k-12} PDB: 2zpl_A

Probab=92.79  E-value=0.22  Score=36.53  Aligned_cols=57  Identities=19%  Similarity=0.170  Sum_probs=38.7

Q ss_pred             cEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCC--CCceEEecCce
Q 038893           68 GVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP--DSVYFVVNRGG  130 (235)
Q Consensus        68 ~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~--~a~if~~~~~g  130 (235)
                      .-+|..+.+++.|+.+|++.||+|..+-   |..+-   .......++....  ....+.+.|.|
T Consensus         3 ~p~V~~V~~~spA~~aGl~~GD~I~~in---g~~v~---~~~d~~~~l~~~~~~~~v~l~v~R~g   61 (95)
T 3id1_A            3 RPVVGEIAANSIAAEAQIAPGTELKAVD---GIETP---DWDAVRLQLVDKIGDESTTITVAPFG   61 (95)
T ss_dssp             CCBEEEECTTSHHHHTTCCTTCEEEEET---TEECS---SHHHHHHHHHHTTTCSEEEEEEECTT
T ss_pred             CCEEEeeCCCCHHHHcCCCCCCEEEEEC---CEECC---CHHHHHHHHHHhcCCCcEEEEEEECC
Confidence            4578899999999999999999987663   33333   3334445554433  35667777755

>2iwo_A Multiple PDZ domain protein; SGC, MPDZ, MUPP1, MUPP-1, HOST-virus interaction, structural genomics consortium, synaptosome, tight junction; 1.7A {Homo sapiens} PDB: 2iwp_A

Probab=92.77  E-value=0.098  Score=40.14  Aligned_cols=70  Identities=19%  Similarity=0.250  Sum_probs=45.0

Q ss_pred             ccceeeeeec-----CCcEEEEEeecchHHHHh-cCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCc
Q 038893           56 PLGLTLGQKP-----GGGVVITAVEGGGNAAKA-GLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRG  129 (235)
Q Consensus        56 plGl~~g~~~-----~~~vyIa~~isG~~a~~~-Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~  129 (235)
                      ++|+.+....     +..+||..+.+|+.|+++ ||+.||+|+.+   -|..+-.. ..-..+..+....+...|.+.+.
T Consensus        37 ~lGf~i~gg~~~~~~~~~~~V~~V~~~spA~~aggL~~GD~Il~V---nG~~v~~~-~~~~~~~~l~~~~~~v~l~v~r~  112 (120)
T 2iwo_A           37 SLGISIAGGVGSPLGDVPIFIAMMHPTGVAAQTQKLRVGDRIVTI---CGTSTEGM-THTQAVNLLKNASGSIEMQVVAG  112 (120)
T ss_dssp             CCCEEEEEEEEETTEEEEEEEEEECTTSHHHHHTCCCTTCEEEEE---TTEECTTC-BHHHHHHHHHHCCSEEEEEEECC
T ss_pred             CCCEEEecccCCCCCCCCEEEEEECCCCHHHHhCCCCCCCEEEEE---CCEECCCC-CHHHHHHHHHcCCCeEEEEEEEC
Confidence            6777655432     347999999999999999 89999988654   33333111 12233445555555566666653

>2qt5_A Glutamate receptor-interacting protein 1; PDZ-peptide complex, PDZ tandem, alternative splicing, cell junction, cytoplasm; 2.30A {Rattus norvegicus}

Probab=92.67  E-value=0.22  Score=40.65  Aligned_cols=71  Identities=23%  Similarity=0.355  Sum_probs=44.9

Q ss_pred             ccceeeeeec------CCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecC
Q 038893           56 PLGLTLGQKP------GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        56 plGl~~g~~~------~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      ++|+.+....      ..+++|..+.+|+.|+++| ++.||+|..+-   |..+- .........+++...+...+.+.+
T Consensus       118 ~lG~~l~~g~~~~~~~~~g~~V~~v~~~s~A~~aG~l~~GD~I~~in---g~~v~-~~~~~~~~~~l~~~~~~v~l~v~R  193 (200)
T 2qt5_A          118 TFGFVIRGGAHDDRNKSRPVVITCVRPGGPADREGTIKPGDRLLSVD---GIRLL-GTTHAEAMSILKQCGQEATLLIEY  193 (200)
T ss_dssp             BCSEEEEEECCSSTTTCEEEEEEEECTTSHHHHHCCCCTTCEEEEET---TEECT-TCCHHHHHHHHHTTCSEEEEEEEE
T ss_pred             CeEEEEECCCCCCccCCCCEEEEEECCCChHHHcCCCCCCCEEEEEC---CEECC-CCCHHHHHHHHHcCCCeEEEEEEE
Confidence            3666544322      3479999999999999999 99999987653   32222 003334455565544455566666


Q ss_pred             ce
Q 038893          129 GG  130 (235)
Q Consensus       129 ~g  130 (235)
                      .+
T Consensus       194 ~~  195 (200)
T 2qt5_A          194 DV  195 (200)
T ss_dssp             EE
T ss_pred             CC
Confidence            44

>1b8q_A Protein (neuronal nitric oxide synthase); PDZ domain, NNOS, nitric oxide synthase, oxidoreductase; NMR {Rattus norvegicus} SCOP: b.36.1.1

Probab=92.45  E-value=0.15  Score=38.95  Aligned_cols=72  Identities=21%  Similarity=0.345  Sum_probs=47.2

Q ss_pred             Cccceeeeeec-CCcEEEEEeecchHHHHhcC-CcCcceeeeccccCCCccccCccchhhhhhhcCC-CCceEEecCce
Q 038893           55 KPLGLTLGQKP-GGGVVITAVEGGGNAAKAGL-KSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP-DSVYFVVNRGG  130 (235)
Q Consensus        55 kplGl~~g~~~-~~~vyIa~~isG~~a~~~Gi-~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~-~a~if~~~~~g  130 (235)
                      ..+|+.+.... ...++|..+.+|+.|+++|+ +.||+|..+-   |..+-.. ........++..+ ....+.+.+.+
T Consensus        20 ~glG~~~~~~~~~~~~~V~~V~~~spA~~aGll~~GD~I~~in---g~~v~~~-~~~~~~~~l~~~~g~~v~l~v~R~g   94 (127)
T 1b8q_A           20 GGLGFLVKERVSKPPVIISDLIRGGAAEQSGLIQAGDIILAVN---DRPLVDL-SYDSALEVLRGIASETHVVLILRGP   94 (127)
T ss_dssp             SCCSCCEEECTTSSCEEECCCSSSSSHHHHSSCCTTTCCCEET---TEECSSS-CHHHHHHHHHSCCSSCEEEEEECCC
T ss_pred             CcEeEEEEecCCCCCEEEEEeCCCCHHHHcCCCCCCCEEEEEC---CEECCCC-CHHHHHHHHHhCCCCeEEEEEEeCC
Confidence            35777655443 35899999999999999997 9999987653   3333220 1334445555544 45667777755

>1wfv_A Membrane associated guanylate kinase inverted-2; atrophin-1 interacting protein 1, activin receptor interacting protein 1; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=92.21  E-value=0.073  Score=38.90  Aligned_cols=40  Identities=18%  Similarity=0.385  Sum_probs=31.9

Q ss_pred             ccceeeeeec--CCcEEEEEeecchHHHHhc-CCcCcceeeec
Q 038893           56 PLGLTLGQKP--GGGVVITAVEGGGNAAKAG-LKSGDQVLYTS   95 (235)
Q Consensus        56 plGl~~g~~~--~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s   95 (235)
                      .+|+.+....  ...++|..+.+|+.|+++| |+.||+|..+-
T Consensus        23 g~G~~~~~~~~~~~~~~V~~V~~~spA~~aG~l~~GD~I~~vn   65 (103)
T 1wfv_A           23 GFGFSIRGGREYKMDLYVLRLAEDGPAIRNGRMRVGDQIIEIN   65 (103)
T ss_dssp             SSSBCCEEETTTTEEEECCCBCTTSHHHHHCSSCTTCEEEEET
T ss_pred             cCCEEEeccccCCCCEEEEEECCCChHHHcCCCCCCCEEEEEC
Confidence            4777665443  3479999999999999999 99999886553

>1y7n_A Amyloid beta A4 precursor protein-binding family A member 1; copper chaperone for superoxide dismutase, neuronal adaptor, protein transport; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=92.18  E-value=0.13  Score=37.51  Aligned_cols=35  Identities=26%  Similarity=0.603  Sum_probs=27.3

Q ss_pred             CccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           55 KPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      .++|+.+.   .+  +|..+.+|+.|+++|++.||+|..+
T Consensus        24 ~~lG~~~~---~G--~V~~V~~~spA~~aGL~~GD~Il~I   58 (90)
T 1y7n_A           24 YQLGFSVQ---NG--IICSLMRGGIAERGGVRVGHRIIEI   58 (90)
T ss_dssp             SCCCEEEE---TT--EEEEECTTSHHHHHTCCSSCEEEEE
T ss_pred             cccCeEec---CC--EEEEECCCCHHHHcCCCCCCEEEEE
Confidence            34666442   23  9999999999999999999987644

>3nfk_A Tyrosine-protein phosphatase non-receptor type 4; PDZ-PDZ-binding site complex, protein binding; 1.43A {Homo sapiens} SCOP: b.36.1.1 PDB: 3nfl_A 2vph_A

Probab=92.14  E-value=0.18  Score=37.18  Aligned_cols=40  Identities=25%  Similarity=0.326  Sum_probs=31.3

Q ss_pred             Cccceeeeee--cCCcEEEEEeecchHHHHhc--CCcCcceeee
Q 038893           55 KPLGLTLGQK--PGGGVVITAVEGGGNAAKAG--LKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~--~~~~vyIa~~isG~~a~~~G--i~~gD~i~~~   94 (235)
                      .++|+.+...  ....+||..+.+|+.|+++|  |+.||+|..+
T Consensus        29 ~~~G~~~~gg~~~~~~~~V~~V~~~spA~~aG~rL~~GD~Il~i   72 (107)
T 3nfk_A           29 GRFGFNVKGGYDQKMPVIVSRVAPGTPADLCVPRLNEGDQVVLI   72 (107)
T ss_dssp             SCCCEEEEEEGGGTEEEEEEEECTTSHHHHSSSCCCTTCEEEEE
T ss_pred             CCCCEEEEccCCCCCCeEEEEECCCCchHHcCCccCCCCEEEEE
Confidence            3677755332  24569999999999999999  9999987654

>3h0g_I DNA-directed RNA polymerases I, II, and III subunit rpabc5; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}

Probab=92.11  E-value=0.16  Score=39.40  Aligned_cols=41  Identities=22%  Similarity=0.486  Sum_probs=28.7

Q ss_pred             ceEEcCCCceEEeCC----------C-------------CCCCCCC-CCCCCCCCCCccCeeecc
Q 038893          159 ATHICLDCGYIYFLQ----------K-------------PFDELPD-TYVCPQCQAPKKRFARYD  199 (235)
Q Consensus       159 ~~y~C~~CGyvyd~~----------t-------------pfe~lpe-d~~CP~C~a~k~~F~~~~  199 (235)
                      ..|.|+.|||++..+          +             .+..+|. +..||.|++.+..|....
T Consensus        25 ~~~~C~~C~y~~~~~~~~v~~~~~~~~~~e~~~v~~~~~~~~tlp~~~~~Cp~C~~~~a~~~q~q   89 (113)
T 3h0g_I           25 LRLACRNCDYSEIAATSKVYRHELQSSNVENTTVSHDASTDPTLPRSDKECPRCHQHEAVFYQTH   89 (113)
T ss_dssp             CCEECSSSCCEECCSCSEEEECCCCSCSCTTCTTCTTSTTCSSSCBCCSCCSSSCCSCEEEECCC
T ss_pred             eEEECCCCCCeEEcCCCeEEEEEEecccccccceeccccccccCCCcccCCCCCCCceEEEEEEe
Confidence            479999999988653          0             1222332 368999999988887653

>1vae_A Rhophilin 2, rhophilin, RHO GTPase binding protein 2; PDZ domain, intracellular signaling cascade, signal transduction; NMR {Mus musculus} SCOP: b.36.1.1

Probab=92.03  E-value=0.25  Score=37.43  Aligned_cols=66  Identities=21%  Similarity=0.213  Sum_probs=41.6

Q ss_pred             CccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCcc--ccCccchhhhhhhcCCCC-ceEEecC
Q 038893           55 KPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELW--PADKLGFTKTAIQAKPDS-VYFVVNR  128 (235)
Q Consensus        55 kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW--~~~~~g~~i~AIn~~~~a-~if~~~~  128 (235)
                      .++|+.+  .....++|..+.+++.|+++||+.||+|+.+-   |..+-  +.+   ++...|+...+. ..|.+.+
T Consensus        26 ~~~G~~l--~~~~~v~V~~V~~~spA~~aGL~~GD~Il~In---G~~v~~~~~~---d~~~~i~~~~~~~v~l~V~~   94 (111)
T 1vae_A           26 GDLGFTL--RGNTPVQVHFLDPHCSASLAGAKEGDYIVSIQ---GVDCKWLTVS---EVMKLLKSFGGEEVEMKVVS   94 (111)
T ss_dssp             SCCSCCE--ESSSSCEECCCCTTSSHHHHHCCTTCEEEEET---TEECSSCCHH---HHHHHHHHTTTSEECEEEEC
T ss_pred             CcccEEE--eCCCCEEEEEECCCCHHHHcCCCCCCEEEEEC---CEECCCCCHH---HHHHHHHhCCCceEEEEEEe
Confidence            4566544  22356899999999999999999999987653   33332  333   334445544443 4555544

>3shw_A Tight junction protein ZO-1; PDZ-SH3-GUK supramodule, cell adhesion; 2.90A {Homo sapiens}

Probab=91.79  E-value=0.27  Score=46.84  Aligned_cols=42  Identities=33%  Similarity=0.518  Sum_probs=35.1

Q ss_pred             cCccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           54 DKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        54 ~kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      ..++|+.+......++||..+.+|+.|+++||+.||+|..+-
T Consensus        10 ~~~lG~~i~gg~~~Gi~V~~V~~gspA~~aGL~~GD~Il~VN   51 (468)
T 3shw_A           10 GDSVGLRLAGGNDVGIFVAGVLEDSPAAKEGLEEGDQILRVN   51 (468)
T ss_dssp             CSSCCEEEEEETTTEEEEEEECSSSHHHHTTCCTTEEEEEET
T ss_pred             CCccceEEEccCcCCEEEEEECCCCHHHHcCCCCCCEEEEEC
Confidence            367888664445678999999999999999999999987653

>2d8i_A T-cell lymphoma invasion and metastasis 1 variant; PDZ domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=91.73  E-value=0.12  Score=39.72  Aligned_cols=39  Identities=31%  Similarity=0.542  Sum_probs=30.3

Q ss_pred             ccceeeee-ecC--CcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           56 PLGLTLGQ-KPG--GGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        56 plGl~~g~-~~~--~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      ++|+.+.. +..  .+++|..+.+++.|+++||+.||+|..+
T Consensus        30 ~~G~~v~~~~~~~~~gv~V~~V~~~spA~~aGL~~GD~Il~I   71 (114)
T 2d8i_A           30 TYGFSLSSVEEDGIRRLYVNSVKETGLASKKGLKAGDEILEI   71 (114)
T ss_dssp             CCCCEEEEEEETTEEEEEEEECCTTSSHHHHTCCTTCCEEEE
T ss_pred             ccCEEEEecCcCCcCCEEEEEeCCCCHHHHcCCCCCCEEEEE
Confidence            46765543 222  4799999999999999999999987554

>2p3w_A Probable serine protease HTRA3; PDZ domain, phage derived high affinity ligand, protein BIND; 1.70A {Homo sapiens}

Probab=91.62  E-value=0.28  Score=36.51  Aligned_cols=58  Identities=19%  Similarity=0.381  Sum_probs=39.6

Q ss_pred             CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCce
Q 038893           66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGG  130 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g  130 (235)
                      ..+++|..+.+++.|+.+|++.||+|..+.   |..+.+   ......++.. .+...+.+.+.|
T Consensus        34 ~~gv~V~~V~~~spA~~aGl~~GD~I~~in---g~~v~~---~~~~~~~l~~-g~~v~l~v~R~g   91 (112)
T 2p3w_A           34 SSGIYVQEVAPNSPSQRGGIQDGDIIVKVN---GRPLVD---SSELQEAVLT-ESPLLLEVRRGN   91 (112)
T ss_dssp             CSSEEEEEECTTSHHHHHTCCTTCEEEEET---TEECCS---HHHHHHHHHH-CSSEEEEEEETT
T ss_pred             CCCeEEEEECCCChHHHCCCCCCCEEEEEC---CEECCC---HHHHHHHHhC-CCeEEEEEEECC
Confidence            467999999999999999999999987653   333333   3333444432 344566666655

>4a8c_A Periplasmic PH-dependent serine endoprotease DEGQ; chaperone, hydrolase; 7.50A {Escherichia coli} PDB: 4a8a_A 4a8b_A 4a9g_A

Probab=91.54  E-value=0.24  Score=46.08  Aligned_cols=67  Identities=22%  Similarity=0.317  Sum_probs=50.1

Q ss_pred             CcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCceeeeeccccC
Q 038893           67 GGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRLP  139 (235)
Q Consensus        67 ~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~p  139 (235)
                      .+++|..+.+|+.|+++|++.||+|..+-   |   .+.+.+.....+++..++...|.+.|.|-...+...|
T Consensus       363 ~gv~V~~V~~~spA~~aGL~~GD~I~~vn---g---~~v~~~~~~~~~l~~~~~~v~l~v~R~g~~~~~~~~~  429 (436)
T 4a8c_A          363 KGIKIDEVVKGSPAAQAGLQKDDVIIGVN---R---DRVNSIAEMRKVLAAKPAIIALQIVRGNESIYLLMRL  429 (436)
T ss_pred             CCEEEEEeCCCCHHHHcCCCCCCEEEEEC---C---EECCCHHHHHHHHHhCCCeEEEEEEECCEEEEEEEEe
Confidence            37999999999999999999999987763   2   3344555666777777777788888877555555443

>1twf_L ABC10-alpha, DNA-directed RNA polymerases I, II, and III 7.7 K polypeptide; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: g.41.9.2 PDB: 1i3q_L 1i6h_L 1k83_L* 1nik_L 1nt9_L 1pqv_L 1r5u_L 1r9s_L* 1r9t_L* 1sfo_L* 1twa_L* 1twc_L* 1i50_L* 1twg_L* 1twh_L* 1wcm_L 1y1v_L 1y1w_L 1y1y_L 1y77_L* ...

Probab=91.45  E-value=0.14  Score=36.97  Aligned_cols=28  Identities=25%  Similarity=0.529  Sum_probs=21.7

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQA  190 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a  190 (235)
                      ...|+|..||...+..     ..+.-+||.|++
T Consensus        26 ~v~Y~C~~CG~~~e~~-----~~d~irCp~CG~   53 (70)
T 1twf_L           26 TLKYICAECSSKLSLS-----RTDAVRCKDCGH   53 (70)
T ss_dssp             CCCEECSSSCCEECCC-----TTSTTCCSSSCC
T ss_pred             eEEEECCCCCCcceeC-----CCCCccCCCCCc
Confidence            3579999999998763     234458999988

>1whd_A RGS3, regulator of G-protein signaling 3; PDZ domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, signaling protein; NMR {Mus musculus} SCOP: b.36.1.1

Probab=91.39  E-value=0.067  Score=39.39  Aligned_cols=38  Identities=37%  Similarity=0.526  Sum_probs=30.0

Q ss_pred             ccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           56 PLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        56 plGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      .+|+.+..  ...++|..+.+++.|+++||+.||+|+.+-
T Consensus        27 g~G~~~~~--~~~~~V~~V~~~spA~~aGL~~GD~I~~vn   64 (100)
T 1whd_A           27 GFGFTICC--DSPVRVQAVDSGGPAERAGLQQLDTVLQLN   64 (100)
T ss_dssp             SSSCBCCC--SSSCBCCBCCTTSHHHHHTCCSSCEEEEET
T ss_pred             eeeEEEeC--CCCEEEEEECCCCHHHHcCCCCCCEEEEEC
Confidence            36654433  366999999999999999999999886653

>1uew_A Membrane associated guanylate kinase inverted-2 (MAGI-2); atrophin-1 interacting protein 1, PDZ domain, structural genomics; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=91.35  E-value=0.16  Score=38.08  Aligned_cols=70  Identities=20%  Similarity=0.174  Sum_probs=43.4

Q ss_pred             Cccceeeeeec---------CCcEEEEEeecchHHHH-hcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceE
Q 038893           55 KPLGLTLGQKP---------GGGVVITAVEGGGNAAK-AGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYF  124 (235)
Q Consensus        55 kplGl~~g~~~---------~~~vyIa~~isG~~a~~-~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if  124 (235)
                      .++|+.+....         .-.++|..+.+|+.|++ +||+.||+|..+-   |..+... ........++.......|
T Consensus        22 ~~lGf~l~~~~~~~~~g~~~~~~~~V~~V~~~spA~~~agL~~GD~I~~in---g~~v~~~-~~~~~~~~l~~~g~~v~l   97 (114)
T 1uew_A           22 EGFGFVIISSLNRPESGSTITVPHKIGRIIDGSPADRCAKLKVGDRILAVN---GQSIINM-PHADIVKLIKDAGLSVTL   97 (114)
T ss_dssp             SCCCEEEECCCCSCCSSCCSCCSCEEEEECTTCTTGGGSSCCTTCBEEEET---TBCTTTS-CHHHHHHHHHHTTTEEEE
T ss_pred             CCCCEEEEeecccCCCCcccccCeEEEEECCCChHHHhCCCCCCCEEEEEC---CEECCCC-CHHHHHHHHHcCCCeEEE
Confidence            35787664321         11569999999999999 9999999987653   4444331 022344445543344455


Q ss_pred             EecC
Q 038893          125 VVNR  128 (235)
Q Consensus       125 ~~~~  128 (235)
                      .+.+
T Consensus        98 ~v~r  101 (114)
T 1uew_A           98 RIIP  101 (114)
T ss_dssp             EECC
T ss_pred             EEEe
Confidence            5555

>1n7t_A 99-MER peptide of densin-180-like protein; PDZ domain, C-terminal peptide complex, high affnity ligand, signaling protein; NMR {Homo sapiens} SCOP: b.36.1.1 PDB: 2h3l_A

Probab=91.05  E-value=0.14  Score=37.56  Aligned_cols=39  Identities=28%  Similarity=0.536  Sum_probs=31.0

Q ss_pred             Cccceeeeee----------cCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           55 KPLGLTLGQK----------PGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~----------~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      .++|+.+...          .+.+++|..+.+++.|++ |++.||+|..+
T Consensus        21 ~~lG~~i~gg~~~~~~p~~~~~~gv~V~~V~~~spA~~-gL~~GD~I~~v   69 (103)
T 1n7t_A           21 PELGFSISGGVGGRGNPFRPDDDGIFVTRVQPEGPASK-LLQPGDKIIQA   69 (103)
T ss_dssp             SCCCBEEEECTTSSBCSSCSSCCSEECCCBSSSSTTSS-SCCTTCEEEEE
T ss_pred             CCccEEEEcccCCCCCccccCCCCEEEEEECCCCchHH-CCCCCCEEEEE
Confidence            4577765442          345899999999999999 99999987654

>1p1d_A PDZ45, glutamate receptor interacting protein; PDZ domain, tandem repeats, scaffold protein, protein binding; NMR {Rattus norvegicus} SCOP: b.36.1.1 b.36.1.1 PDB: 1p1e_A 1x5r_A

Probab=90.96  E-value=0.39  Score=39.14  Aligned_cols=46  Identities=26%  Similarity=0.413  Sum_probs=35.1

Q ss_pred             EEEeecC----ccceeeeee------cCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           49 IEVEVDK----PLGLTLGQK------PGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~~k----plGl~~g~~------~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .+|.+.|    .+|+.+...      ...+++|..+.+|+.|+++| ++.||+|..+
T Consensus         8 ~~v~l~~~~~~glG~~i~~~~~~~~~~~~~~~V~~v~~~spA~~aG~l~~GD~I~~v   64 (196)
T 1p1d_A            8 TEVVLTADPVTGFGIQLQGSVFATETLSSPPLISYIEADSPAERCGVLQIGDRVMAI   64 (196)
T ss_dssp             EEEEEECBTTTBCCCEEEECSSCSSSCSCSEEEEECCTTSHHHHTSCCCSSCCEEEE
T ss_pred             EEEEEEeCCCCccCEEEeCCcCCCCCCCCCEEEEEECCCCHHHHcCCCCCCCEEEEE
Confidence            4455543    477765553      24579999999999999999 9999998765

>3r0h_A INAD, inactivation-NO-after-potential D protein; protein-protein complex, PDZ domain, peptide binding protein; 2.60A {Drosophila melanogaster}

Probab=90.84  E-value=0.52  Score=38.28  Aligned_cols=71  Identities=25%  Similarity=0.277  Sum_probs=46.4

Q ss_pred             Cccceeeeee----cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCc--cccCccchhhhhhhcCCCC-ceEEe
Q 038893           55 KPLGLTLGQK----PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDEL--WPADKLGFTKTAIQAKPDS-VYFVV  126 (235)
Q Consensus        55 kplGl~~g~~----~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~l--W~~~~~g~~i~AIn~~~~a-~if~~  126 (235)
                      ..+|+.+...    ...++||..+.+|+.|+++| ++.||+|..+.   |..+  |+.... ..+.++....+. ..|.+
T Consensus        29 ~~lG~~i~~g~~~~~~~g~~V~~V~~~spA~~aG~L~~GD~Il~vn---g~~v~~~~~~~~-~~~~~~~~~~~~~v~l~v  104 (206)
T 3r0h_A           29 KPMGVIVCGGKNNHVTTGCVITHVYPEGQVAADKRLKIFDHICDIN---GTPIHVGSMTTL-KVHQLFHTTYEKAVTLTV  104 (206)
T ss_dssp             SCCCEEEECCSSSSCCSCEEEEEECTTSHHHHHCCCCTTCEEEEET---TEECCGGGSCHH-HHHHHHHSCCSSEEEEEE
T ss_pred             CCcCEEEecccCCCCCCCeEEEEECCCChHHhcCCCCCCCEEEEEC---CEEcCCCccCHH-HHHHHHHhcCCCceEEEE
Confidence            5678766432    12579999999999999999 99999987763   3333  223222 334555555555 56666


Q ss_pred             cCc
Q 038893          127 NRG  129 (235)
Q Consensus       127 ~~~  129 (235)
                      .+.
T Consensus       105 ~R~  107 (206)
T 3r0h_A          105 FRA  107 (206)
T ss_dssp             ECC
T ss_pred             Eec
Confidence            653

>1um7_A Synapse-associated protein 102; PDZ, discs large homolog 3, DLG3-human presynaptic protein, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=90.75  E-value=0.085  Score=39.18  Aligned_cols=46  Identities=26%  Similarity=0.530  Sum_probs=35.0

Q ss_pred             EEEeec---Cccceeeeeec-CCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           49 IEVEVD---KPLGLTLGQKP-GGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~~---kplGl~~g~~~-~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .+|.+.   .++|+.+.... ...++|..+.+++.|+++| |+.||+|..+
T Consensus        17 ~~v~l~k~~~glG~~l~~~~~~~gv~V~~V~~~s~A~~aG~L~~GD~Il~V   67 (113)
T 1um7_A           17 RKIILHKGSTGLGFNIVGGEDGEGIFVSFILAGGPADLSGELRRGDRILSV   67 (113)
T ss_dssp             EEEEEECCSSCSSBCCBCCSTTCCCBCCCBCSSSHHHHTTCCCTTCEEEEE
T ss_pred             EEEEEEECCCcccEEEEeccCCCCEEEEEECCCCHHHHcCCCCCCCEEEEE
Confidence            345554   35777654433 4789999999999999999 9999988654

>3bpu_A Membrane-associated guanylate kinase, WW and PDZ containing protein 1; structural genomi consortium, SGC, ATP-binding, cell junction; 1.60A {Homo sapiens}

Probab=90.72  E-value=0.35  Score=34.29  Aligned_cols=44  Identities=30%  Similarity=0.564  Sum_probs=29.7

Q ss_pred             EEEeec---Cccceeeeeec-CCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           49 IEVEVD---KPLGLTLGQKP-GGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~~---kplGl~~g~~~-~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      .++++.   ..+|+.+.... ...++|... +++.|+ +|++.||+|..+
T Consensus         5 ~~v~l~k~~~g~G~~~~~~~~~~~~~v~~v-~~spA~-aGl~~GD~I~~v   52 (88)
T 3bpu_A            5 ITVHIVKGPMGFGFTIADSPGGGGQRVKQI-VDSPRS-RGLKEGDLIVEV   52 (88)
T ss_dssp             EEEEEECBTTBSSCEEEECTTSSSEEEEEC-CC--CC-TTCCTTCEEEEE
T ss_pred             EEEEEEcCCCceeEEEEecCCCCcEEEEEe-cCChhH-hCCCCCCEEEEE
Confidence            445554   34777665543 357888875 999999 999999988655

>2qbw_A PDZ-fibronectin fusion protein; fibronectin PDZ, unknown function; 1.80A {Homo sapiens} PDB: 3ch8_A

Probab=90.71  E-value=0.37  Score=38.88  Aligned_cols=58  Identities=22%  Similarity=0.398  Sum_probs=42.1

Q ss_pred             CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecC
Q 038893           66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      +.++||..+.+|+.|++ |++.||+|..+   -|..+-... .-..+.++....+.+.|.+.|
T Consensus        23 ~~g~~V~~v~~~spA~~-gl~~GD~I~~v---ng~~v~~~~-~~~~~~~~~~~~~~v~l~v~r   80 (195)
T 2qbw_A           23 DDGIFVTRVQPEGPASK-LLQPGDKIIQA---NGYSFINIE-HGQAVSLLKTFQNTVELIIVR   80 (195)
T ss_dssp             CCSEEEEEECTTSTTTT-TCCTTCEEEEE---TTEECTTCC-HHHHHHHHHHCCSEEEEEEEE
T ss_pred             CCCEEEEEECCCChHHh-CCCCCCEEEEE---CCEECCCCC-HHHHHHHHHcCCCeEEEEEEE
Confidence            56899999999999999 99999998765   344332222 224455666666677888877

>3i18_A LMO2051 protein; alpha-beta protein, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium; 1.70A {Listeria monocytogenes} PDB: 2kjk_A 3i1e_A

Probab=90.50  E-value=0.5  Score=34.68  Aligned_cols=58  Identities=24%  Similarity=0.229  Sum_probs=39.3

Q ss_pred             CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcC-C-CCceEEecCce
Q 038893           66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK-P-DSVYFVVNRGG  130 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~-~-~a~if~~~~~g  130 (235)
                      ..+++|..+.+++.|+. |++.||+|+.+   -|..+   ........++... + ....+.+.|.|
T Consensus         6 ~~Gv~V~~V~~~spA~~-GL~~GD~I~~I---ng~~v---~~~~dl~~~l~~~~~g~~v~l~v~R~g   65 (100)
T 3i18_A            6 YDGVYVMSVKDDVPAAD-VLHAGDLITEI---DGNAF---KSSQEFIDYIHSKKVGDTVKINYKHGD   65 (100)
T ss_dssp             CCCEEEEEECTTSGGGG-TCCTTCEEEEE---TTBCC---SSHHHHHHHHHTSCTTCEEEEEEEETT
T ss_pred             CCCEEEEEeCCCCchHH-CCCCCCEEEEE---CCEEC---CCHHHHHHHHHhCCCCCEEEEEEEECC
Confidence            46899999999999995 99999998765   33333   3333445555542 2 34566666655

>2csj_A TJP2 protein; PDZ domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: b.36.1.1

Probab=90.33  E-value=0.23  Score=37.39  Aligned_cols=69  Identities=22%  Similarity=0.324  Sum_probs=43.1

Q ss_pred             Cccceeeeeec--------CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEe
Q 038893           55 KPLGLTLGQKP--------GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVV  126 (235)
Q Consensus        55 kplGl~~g~~~--------~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~  126 (235)
                      ..+|+.+....        +.++||..+.+|+.|+ +|++.||+|..+-   |..+=... .-..+.++....+...|.+
T Consensus        26 ~glG~~i~gg~~~~~~~~~~~gv~V~~V~~~spA~-~gL~~GD~I~~Vn---g~~v~~~~-~~~~~~~l~~~~~~v~l~v  100 (117)
T 2csj_A           26 RGFGIAVSGGRDNPHFENGETSIVISDVLPGGPAD-GLLQENDRVVMVN---GTPMEDVL-HSFAVQQLRKSGKIAAIVV  100 (117)
T ss_dssp             STTCEEEECCSSCCCCSSCCCBCEEEEECTTSSHH-HHBCTTCEEEEES---SCBCBTCC-HHHHHHHHHHSCSEEEEEE
T ss_pred             CccCEEEeCCcCCccccCCCCCEEEEEECCCCccc-ccCCCCCEEEEEC---CEECCCcC-HHHHHHHHhcCCCeEEEEE
Confidence            45777654421        3469999999999997 8999999886553   43331111 1123444554445566666


Q ss_pred             cC
Q 038893          127 NR  128 (235)
Q Consensus       127 ~~  128 (235)
                      .+
T Consensus       101 ~R  102 (117)
T 2csj_A          101 KR  102 (117)
T ss_dssp             EE
T ss_pred             EE
Confidence            65

>4fgm_A Aminopeptidase N family protein; structural genomics, PSI-biology, northeast structural genom consortium, NESG, peptidase_M61, PDZ; 2.39A {Idiomarina loihiensis L2TR}

Probab=90.05  E-value=0.53  Score=45.85  Aligned_cols=70  Identities=19%  Similarity=0.249  Sum_probs=47.3

Q ss_pred             cceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhc-CC-CCceEEecCceeeee
Q 038893           57 LGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQA-KP-DSVYFVVNRGGADVD  134 (235)
Q Consensus        57 lGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~-~~-~a~if~~~~~g~~~d  134 (235)
                      +|+.+... .++++|..+.+|+.|+++||+.||+|+.+-   |..+ +.+++-   .+|+. .+ +.+.+.+.|.|-...
T Consensus       487 lG~~~~~~-~~gv~V~~V~~~spA~~AGL~~GD~I~aIn---G~~v-~~~~l~---~~l~~~~~g~~v~l~v~R~g~~~~  558 (597)
T 4fgm_A          487 FGAKYKAS-PQGLDVLNVYHDESAYHAGLSAGDKIIAID---HLQA-TEQSVK---RILERYIPGDTVTIHAFRRDELMT  558 (597)
T ss_dssp             CSEEEEEE-TTEEEEEEECTTSHHHHHTCCTTCEEEEET---TEEC-CTTTHH---HHHTTCCTTCEEEEEEEETTEEEE
T ss_pred             cceEEecc-CCeEEEEEeCCCChHHHCCCCCCCEEEEEC---CEEC-CHHHHH---HHHHhcCCCCEEEEEEEECCEEEE
Confidence            77766544 457999999999999999999999997763   4444 334443   33432 23 455677777664433

>2yuy_A RHO GTPase activating protein 21; PDZ domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=89.58  E-value=0.15  Score=39.10  Aligned_cols=28  Identities=32%  Similarity=0.606  Sum_probs=25.3

Q ss_pred             CcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           67 GGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        67 ~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      ..++|..+.+|+.|+++||+.||+|+.+
T Consensus        61 ~gv~V~~V~~~spA~~aGL~~GD~I~~i   88 (126)
T 2yuy_A           61 DTIFVKQVKEGGPAFEAGLCTGDRIIKV   88 (126)
T ss_dssp             CCCCBCCCCSSSHHHHHTCCSSCCCCEE
T ss_pred             CCEEEEEECCCChHHHcCCCCCCEEEEE
Confidence            5699999999999999999999988655

>3r0h_A INAD, inactivation-NO-after-potential D protein; protein-protein complex, PDZ domain, peptide binding protein; 2.60A {Drosophila melanogaster}

Probab=89.53  E-value=0.35  Score=39.35  Aligned_cols=66  Identities=26%  Similarity=0.343  Sum_probs=42.5

Q ss_pred             ccceeeeeecCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCc--cccCccchhhhhhhcCCCCceEEecC
Q 038893           56 PLGLTLGQKPGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDEL--WPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        56 plGl~~g~~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~l--W~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      .+|+.+.. ...++||..+.+|+.|+++| ++.||+|..+-   |..+  |+++   .....++...+...|.+.|
T Consensus       126 ~lG~~~~~-~~~gv~V~~V~~gs~A~~aG~L~~GD~Il~VN---g~~v~~~~~~---~~~~~l~~~~~~v~L~V~R  194 (206)
T 3r0h_A          126 ELGLSLSP-NEIGCTIADLIQGQYPEIDSKLQRGDIITKFN---GDALEGLPFQ---VCYALFKGANGKVSMEVTR  194 (206)
T ss_dssp             CCCEEEEE-CSSCEEEEEECTTSCHHHHHHCCTTCEEEEET---TEECTTCCHH---HHHHHHHTCCSEEEEEEEE
T ss_pred             ccCeEEEc-CCceEEEEEECCCChHHHcCCCCCCCEEEEEC---CEECCCCCHH---HHHHHHHcCCCeEEEEEEe
Confidence            35654432 24679999999999999999 99999886653   3222  2222   3344455555555666555

>2l97_A HTRA, putative serine protease; HTRA-PDZ, protein binding; NMR {Streptococcus pneumoniae}

Probab=89.46  E-value=0.44  Score=37.11  Aligned_cols=59  Identities=17%  Similarity=0.218  Sum_probs=39.6

Q ss_pred             CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcC-CC-CceEEecCcee
Q 038893           66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK-PD-SVYFVVNRGGA  131 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~-~~-a~if~~~~~g~  131 (235)
                      ..+++|..+.+|+.|+ +|++.||+|+.+.   |..+   ++......++... ++ ...+.+.|.|-
T Consensus        56 ~~g~~V~~V~~~spA~-aGL~~GD~I~~in---G~~v---~~~~~l~~~l~~~~~g~~v~l~v~R~g~  116 (134)
T 2l97_A           56 TSGVIVRSVQSNMPAN-GHLEKYDVITKVD---DKEI---ASSTDLQSALYNHSIGDTIKITYYRNGK  116 (134)
T ss_dssp             CSCEEEEECSTTSGGG-TTSCSSCEEEEET---TEEC---CCHHHHHHHHHHSSTTCEEEEEEEETTE
T ss_pred             CCCEEEEEECCCCchH-HCCCCCCEEEEEC---CEEc---CCHHHHHHHHHhCCCCCEEEEEEEECCE
Confidence            4679999999999999 9999999987653   3333   2233444455543 33 45666666553

>1p1d_A PDZ45, glutamate receptor interacting protein; PDZ domain, tandem repeats, scaffold protein, protein binding; NMR {Rattus norvegicus} SCOP: b.36.1.1 b.36.1.1 PDB: 1p1e_A 1x5r_A

Probab=89.37  E-value=0.55  Score=38.23  Aligned_cols=59  Identities=24%  Similarity=0.315  Sum_probs=37.8

Q ss_pred             CCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecC
Q 038893           66 GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      ..++||..+.+|+.|+++| ++.||+|..+-   |..+-+ ........++++..+...+.+.+
T Consensus       134 ~~gv~V~~V~~~s~A~~aG~l~~GD~I~~vn---g~~v~~-~~~~~~~~~l~~~~~~v~l~v~R  193 (196)
T 1p1d_A          134 GDPLVISDIKKGSVAHRTGTLELGDKLLAID---NIRLDS-CSMEDAVQILQQCEDLVKLKIRK  193 (196)
T ss_dssp             TCCCEEEECCSSSHHHHTSCCCTTCEEEEET---TEEGGG-CCHHHHHHHHHHCTTCEEEEEEC
T ss_pred             CCCEEEEEECCCCcHHhcCCCCCCCEEEEEC---CEECCC-CCHHHHHHHHHhCCCEEEEEEEe
Confidence            4579999999999999999 99999886652   222211 00333444555444444555544

>2lob_A Golgi-associated PDZ and coiled-coil motif-contai protein; structural protein-hydrolase complex, peptide binding protei; NMR {Homo sapiens}

Probab=88.96  E-value=0.069  Score=40.65  Aligned_cols=36  Identities=28%  Similarity=0.558  Sum_probs=27.2

Q ss_pred             ccceeeeee--cCCcEEEEEeecchHHHH-hcCCcCcce
Q 038893           56 PLGLTLGQK--PGGGVVITAVEGGGNAAK-AGLKSGDQV   91 (235)
Q Consensus        56 plGl~~g~~--~~~~vyIa~~isG~~a~~-~Gi~~gD~i   91 (235)
                      ++|+.+...  ...+++|..+.+|+.|++ +|++.||+|
T Consensus        40 glG~~l~~g~~~~~gv~V~~V~~~spA~~~aGL~~GD~I   78 (112)
T 2lob_A           40 GLGISITGGKEHGVPILISEIHPGQPADRCGGLHVGDAI   78 (112)
Confidence            456544332  234799999999999999 899999854

>2i6v_A General secretion pathway protein C; EPSC, GSPC, PDZ domain, type 2 secretion system, protein transport, membrane protein; 1.63A {Vibrio cholerae} SCOP: b.36.1.5

Probab=89.34  E-value=0.3  Score=34.94  Aligned_cols=57  Identities=21%  Similarity=0.269  Sum_probs=34.7

Q ss_pred             cEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhc--CCCCceEEecCce
Q 038893           68 GVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQA--KPDSVYFVVNRGG  130 (235)
Q Consensus        68 ~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~--~~~a~if~~~~~g  130 (235)
                      +++|..+.+++.|+++|++.||+|..+   -|..+-+.+++   ..+++.  ..+...+.+.|.|
T Consensus        20 G~~V~~~~~~s~A~~aGl~~GD~I~~i---ng~~v~~~~d~---~~~~~~~~~g~~v~l~v~R~g   78 (87)
T 2i6v_A           20 GYRVSPGKDPVLFESIGLQDGDMAVAL---NGLDLTDPNVM---NTLFQSMNEMTEMSLTVERDG   78 (87)
T ss_dssp             EEEEEECSCHHHHHHTTCCTTCEEEEE---TTEETTCHHHH---HHHHHTGGGCSEEEEEEEETT
T ss_pred             EEEEEeCCCCCHHHHCCCCCCCEEEEE---CCEECCCHHHH---HHHHHhcCCCCEEEEEEEECC
Confidence            567788888888899999999988655   34444333333   333332  1234455555544

>2kjp_A Uncharacterized protein YLBL; mixed alpha-beta protein, cell membrane, hydrolase, membrane, protease, serine protease, transmembrane; NMR {Bacillus subtilis}

Probab=89.21  E-value=0.15  Score=37.46  Aligned_cols=58  Identities=19%  Similarity=0.272  Sum_probs=39.3

Q ss_pred             cEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcC-C-CCceEEecCceee
Q 038893           68 GVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK-P-DSVYFVVNRGGAD  132 (235)
Q Consensus        68 ~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~-~-~a~if~~~~~g~~  132 (235)
                      +++|..+.+|+.|+. |++.||+|..+.   |..+-   .......+++.. + ....+.+.|.|-.
T Consensus         2 Gv~V~~V~~~spA~~-GL~~GD~I~~In---G~~v~---~~~~l~~~l~~~~~g~~v~l~v~R~g~~   61 (91)
T 2kjp_A            2 GIYASSVVENMPAKG-KIEVGDKIISAD---GKNYQ---SAEKLIDYISSKKAGDKVTLKIEREEKE   61 (91)
T ss_dssp             CSSCCCCCCSSCCSS-CCCSSCEEEEET---TBCCS---SHHHHHHHHSSCCSSCEECEEEESSSCE
T ss_pred             ceEEEEECCCChHHH-cCCCCCEEEEEC---CEECC---CHHHHHHHHHcCCCCCEEEEEEEECCEE
Confidence            467888899999999 999999987653   44332   233455566654 3 3467777776643

>1wif_A RSGI RUH-020, riken cDNA 4930408O21; PDZ domain, structural genomics, mouse cDNA, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: b.36.1.1

Probab=89.16  E-value=0.16  Score=39.93  Aligned_cols=68  Identities=24%  Similarity=0.195  Sum_probs=42.8

Q ss_pred             ccceeeeeecCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcC-CC-CceEEecC
Q 038893           56 PLGLTLGQKPGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK-PD-SVYFVVNR  128 (235)
Q Consensus        56 plGl~~g~~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~-~~-a~if~~~~  128 (235)
                      -+|+.+.. .++.++|..+.+|+.|+++| ++.||+|+.+   -|..+-. .........|... ++ .+.|.+.|
T Consensus        39 glG~~i~~-~~~~v~V~~V~~gspA~~aG~L~~GD~Il~V---nG~~v~~-~s~~d~~~~l~~~~~G~~v~l~V~R  109 (126)
T 1wif_A           39 GLGLVVIQ-NGPYLQISHLINKGAAASDGILQPGDVLISV---GHANVLG-YTLREFLKLLQNITIGTVLQIKAYR  109 (126)
T ss_dssp             CCCCCEEE-ETTEEEECCCCTTSSGGGCSSSCTTCBEEEE---SSSCCTT-CCHHHHHHHHTSCCSSCEEEEEEES
T ss_pred             eEeEEEEc-CCCcEEEEEECCCCHHHHcCCCCCCCEEEEE---CCEEcCC-CCHHHHHHHHhcCCCCCEEEEEEEE
Confidence            35554332 36779999999999999999 9999998765   3444410 1223344455542 23 45566665

>1twf_I B12.6, DNA-directed RNA polymerase II 14.2 kDa polypepti; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: g.41.3.1 g.41.3.1 PDB: 1i3q_I 1i6h_I 1k83_I* 1nik_I 1nt9_I 1pqv_I 1r5u_I 1r9s_I* 1r9t_I* 1sfo_I* 1twa_I* 1twc_I* 1i50_I* 1twg_I* 1twh_I* 1wcm_I 1y1v_I 1y1w_I 1y1y_I 1y77_I* ...

Probab=88.77  E-value=0.55  Score=36.79  Aligned_cols=42  Identities=24%  Similarity=0.510  Sum_probs=29.1

Q ss_pred             cceEEcCCCceEEeCCC-----------------------CCCCCCC-CCCCCCCCCCccCeeecc
Q 038893          158 RATHICLDCGYIYFLQK-----------------------PFDELPD-TYVCPQCQAPKKRFARYD  199 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~t-----------------------pfe~lpe-d~~CP~C~a~k~~F~~~~  199 (235)
                      ...|.|+.|||.+....                       .+..+|. +..||.|++.+..|....
T Consensus        24 ~~~~~C~~C~y~~~~~~~~v~~~~~~~~~~e~~~v~~~~~~~~t~p~t~~~Cp~C~~~~a~~~q~q   89 (122)
T 1twf_I           24 RLLFECRTCSYVEEAGSPLVYRHELITNIGETAGVVQDIGSDPTLPRSDRECPKCHSRENVFFQSQ   89 (122)
T ss_dssp             EEEEECSSSSCEEECSCSEEEEEESSCCTTSSTTCCTTGGGCTTSCCCCCCCTTTCCCCEEEEECS
T ss_pred             CCEEECCcCCCeeecCccEEEEEeecccccccccccccccccccccccCCCCCCCCCCEEEEEEec
Confidence            34799999999887430                       0122332 468999999988888653

>2zpm_A Regulator of sigma E protease; metalloproteinase, membrane protein, PDZ domain, hydrolase, inner membrane, membrane, metal-binding; HET: MLY MSE; 0.98A {Escherichia coli} PDB: 3id2_A 3id3_A 3id4_A

Probab=88.74  E-value=0.31  Score=34.68  Aligned_cols=58  Identities=24%  Similarity=0.433  Sum_probs=38.6

Q ss_pred             EEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCC-CCceEEecCceee
Q 038893           69 VVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP-DSVYFVVNRGGAD  132 (235)
Q Consensus        69 vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~-~a~if~~~~~g~~  132 (235)
                      ++|..+.+++.|+.+|++.||+|..+-   |..+   ........++...+ ....+.+.|.|..
T Consensus         6 ~~V~~v~~~spA~~aGl~~GD~I~~in---g~~v---~~~~~~~~~l~~~~g~~v~l~v~R~g~~   64 (91)
T 2zpm_A            6 PVLENVQPNSAASXAGLQAGDRIVXVD---GQPL---TQWVTFVMLVRDNPGXSLALEIERQGSP   64 (91)
T ss_dssp             CBCSEECTTSHHHHTTCCTTCEEEEET---TEEC---CCHHHHHHHHHHCTTCCEEEEEEETTEE
T ss_pred             eEEEEECCCChHHhcCCCCCCEEEEEC---CeEc---CCHHHHHHHHhcCCCCeEEEEEEECCeE
Confidence            567788899999999999999987663   3333   33344455555444 3456777765633

>2qt5_A Glutamate receptor-interacting protein 1; PDZ-peptide complex, PDZ tandem, alternative splicing, cell junction, cytoplasm; 2.30A {Rattus norvegicus}

Probab=88.74  E-value=0.39  Score=39.07  Aligned_cols=68  Identities=25%  Similarity=0.391  Sum_probs=43.7

Q ss_pred             Cccceeeeee--cCCcEEEEEeecchHHHHh-cCCcCcceeeeccccCCCc--cccCccchhhhhhhcCCCCceEEecC
Q 038893           55 KPLGLTLGQK--PGGGVVITAVEGGGNAAKA-GLKSGDQVLYTSSFFGDEL--WPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        55 kplGl~~g~~--~~~~vyIa~~isG~~a~~~-Gi~~gD~i~~~s~~fG~~l--W~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      .++|+.+...  ...++||..+.+|+.|+++ ||+.||+|..+-   |..+  |++.++   ...+..-.+...|.+.+
T Consensus        19 ~~lG~~i~~~~~~~~~~~V~~v~~~spA~~aggl~~GD~I~~vn---g~~v~~~~~~~~---~~~~~~~g~~v~l~v~R   91 (200)
T 2qt5_A           19 TTLGLTVSGGIDKDGKPRVSNLRQGGIAARSDQLDVGDYIKAVN---GINLAKFRHDEI---ISLLKNVGERVVLEVEY   91 (200)
T ss_dssp             CCCCEEEECCTTSSSCSEEEEECTTSHHHHTTSCCTTCEEEEET---TEECTTSCHHHH---HHHHHTCCSEEEEEEEE
T ss_pred             CCCCEEEecccCCCCCeEEEEECCCChHHhcCCCCCCCEEEEEC---CEECCCCCHHHH---HHHHHhCCCeEEEEEec
Confidence            4577765443  3457999999999999999 899999987653   3332  333332   33443333445566654

>3rle_A Golgi reassembly-stacking protein 2; PDZ, tether, golgin, membrane protein; 1.65A {Homo sapiens} PDB: 4edj_A

Probab=88.03  E-value=4.7  Score=33.30  Aligned_cols=55  Identities=20%  Similarity=0.221  Sum_probs=38.5

Q ss_pred             CcEEEEEeecchHHHHhcCCc-CcceeeeccccCCCccccCccchhhhhhhcCCC-CceEEecC
Q 038893           67 GGVVITAVEGGGNAAKAGLKS-GDQVLYTSSFFGDELWPADKLGFTKTAIQAKPD-SVYFVVNR  128 (235)
Q Consensus        67 ~~vyIa~~isG~~a~~~Gi~~-gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~-a~if~~~~  128 (235)
                      .+++|..+.+++.|+++|++. ||+|..+-   |. +-+.+++   ..+++..++ ...|.+.+
T Consensus       112 ~Gv~V~~V~~~spA~~aGl~~~GD~I~~in---g~-v~~~~~l---~~~l~~~~g~~v~l~v~r  168 (209)
T 3rle_A          112 NVWHVLEVESNSPAALAGLRPHSDYIIGAD---TV-MNESEDL---FSLIETHEAKPLKLYVYN  168 (209)
T ss_dssp             SCEEEEEECTTSHHHHHTCCTTTEEEEEES---SC-CCSSSCH---HHHHHHTTTSCEEEEEEE
T ss_pred             cceEEEEeCCCChHHHCCCCCCCCEEEECC---CE-eCCHHHH---HHHHHhCCCCeEEEEEEE
Confidence            689999999999999999999 99998773   32 4444444   444544433 34455544

>3pv2_A DEGQ; trypsin fold, PDZ domain, chaperone protease, hydrolase; 2.15A {Legionella fallonii} PDB: 3pv3_A 3pv5_A 3pv4_A

Probab=87.95  E-value=0.61  Score=43.65  Aligned_cols=58  Identities=22%  Similarity=0.324  Sum_probs=43.0

Q ss_pred             CcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCce
Q 038893           67 GGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGG  130 (235)
Q Consensus        67 ~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g  130 (235)
                      .+++|..+.+|+.|+++|++.||+|..+-   |   .+.+.......+++...+...+.+.|.|
T Consensus       386 ~Gv~V~~V~~gspA~~aGL~~GD~I~~Vn---g---~~v~~~~~~~~~l~~~~~~v~l~v~R~g  443 (451)
T 3pv2_A          386 IGVQVVGASENSAGWRAGIRPGDIIISAN---K---KPVTDVKSLQTIAQEKKKELLVQVLRGP  443 (451)
T ss_dssp             EEEEEEEECTTSHHHHHTCCTTCEEEEET---T---EECCSHHHHHHHTTSSCSCEEEEEEETT
T ss_pred             CceEEEEECCCCHHHHcCCCCCCEEEEEC---C---EECCCHHHHHHHHhcCCCeEEEEEEECC
Confidence            47899999999999999999999987763   2   3344455556666665666667776655

>2edv_A FERM and PDZ domain-containing protein 1; cytoskeletal-associated protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=87.48  E-value=0.25  Score=36.06  Aligned_cols=43  Identities=33%  Similarity=0.498  Sum_probs=31.5

Q ss_pred             EEEeecC-----ccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           49 IEVEVDK-----PLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~~k-----plGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      .+|++.|     ++|+.+.  ....++|..+.+|+.|+ +|++.||+|..+
T Consensus        10 ~~v~l~~~~~~~~~G~~l~--~~~~~~V~~V~~~spA~-agL~~GD~Il~i   57 (96)
T 2edv_A           10 HTVKIDKDTLLQDYGFHIS--ESLPLTVVAVTAGGSAH-GKLFPGDQILQM   57 (96)
T ss_dssp             EEEEECCCSSSCSCSBCCC--SSSSCBCCCBCSSSSST-TTSCTTCBEEEE
T ss_pred             EEEEEEECCCCCcccEEEe--cCCCeEEEEECCCCchh-hCCCCCCEEEEE
Confidence            4566653     3555432  25689999999999996 999999988654

>2krg_A Na(+)/H(+) exchange regulatory cofactor NHE-RF1; acetylation, cell projection, disease mutation, membrane, phosphoprotein, polymorphism; NMR {Homo sapiens}

Probab=87.40  E-value=0.39  Score=40.92  Aligned_cols=72  Identities=25%  Similarity=0.351  Sum_probs=45.0

Q ss_pred             Cccceeeeeec-CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCc-eEEecCce
Q 038893           55 KPLGLTLGQKP-GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSV-YFVVNRGG  130 (235)
Q Consensus        55 kplGl~~g~~~-~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~-if~~~~~g  130 (235)
                      ..+|+.+.... .++++|..+.+|+.|+.+||+.||+|+.+-   |..+- ...+..++..|+...... .+.+.+.|
T Consensus        20 ~glG~~l~~~~~~~gv~V~~V~~gSpA~~aGL~~GD~Il~VN---G~~V~-~~s~~dl~~~l~~~g~~v~~l~V~R~g   93 (216)
T 2krg_A           20 SGYGFNLHSDKSKPGQFIRSVDPDSPAEASGLRAQDRIVEVN---GVCME-GKQHGDVVSAIRAGGDETKLLVVDRET   93 (216)
T ss_dssp             SSSCEEECCCSSSCSCBEEEECTTSHHHHHTCCTTCBCCEET---TEECT-TCCTHHHHHHHHHHCSEEEEEECCHHH
T ss_pred             CCceEEEEecCCCCCeEEEEeCCCChHHHcCCCCCCEEEEEC---CEECC-CCCHHHHHHHHHhcCCeEEEEEEEECC
Confidence            34777654432 358999999999999999999999987653   33332 002333344444433344 56665544

>2i4s_A General secretion pathway protein C; EPSC, GSPC, PDZ domain, type 2 secretion system, protein transport, membrane protein; 1.92A {Vibrio cholerae} SCOP: b.36.1.5

Probab=87.23  E-value=1  Score=33.31  Aligned_cols=57  Identities=21%  Similarity=0.278  Sum_probs=35.8

Q ss_pred             cEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhc-CC-CCceEEecCce
Q 038893           68 GVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQA-KP-DSVYFVVNRGG  130 (235)
Q Consensus        68 ~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~-~~-~a~if~~~~~g  130 (235)
                      +++|..+.+++.++++|++.||+|..+   -|..+-+.+++   ..+++. ++ +...+.+.|.|
T Consensus        38 G~~V~~~~pas~A~~aGl~~GDvI~~i---ng~~v~~~~d~---~~~~~~~~~g~~v~l~v~R~g   96 (105)
T 2i4s_A           38 GYRVSPGKDPVLFESIGLQDGDMAVAL---NGLDLTDPNVM---NTLFQSMNEMTEMSLTVERDG   96 (105)
T ss_dssp             EEEEEECSCTHHHHHHTCCTTCEEEEE---TTEETTSTTHH---HHHHHHHTTCSEEEEEEEETT
T ss_pred             EEEEecCCCCCHHHHcCCCCCCEEEEE---CCEECCCHHHH---HHHHHhcCCCCeEEEEEEECC
Confidence            466777778888899999999998655   44444444443   333442 22 34456666545

>3h0g_L DNA-directed RNA polymerases I, II, and III subunit rpabc4; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}

Probab=87.12  E-value=0.29  Score=34.72  Aligned_cols=29  Identities=24%  Similarity=0.561  Sum_probs=21.8

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      ...|+|..||...+-+     .-+.-+||.|+..
T Consensus        19 ~v~Y~C~~Cg~~~~l~-----~~~~iRC~~CG~R   47 (63)
T 3h0g_L           19 TMIYLCADCGARNTIQ-----AKEVIRCRECGHR   47 (63)
T ss_dssp             CCCCBCSSSCCBCCCC-----SSSCCCCSSSCCC
T ss_pred             CeEEECCCCCCeeecC-----CCCceECCCCCcE
Confidence            4579999999988763     2234599999874

>3qo6_A Protease DO-like 1, chloroplastic; protease, HTRA, PH-sensor, hydrolase, photosynthesis; 2.50A {Arabidopsis thaliana}

Probab=86.99  E-value=1.3  Score=39.53  Aligned_cols=58  Identities=31%  Similarity=0.381  Sum_probs=41.0

Q ss_pred             CcEEEEEeecchHHHHhcCCc-----------CcceeeeccccCCCccccCccchhhhhhhc-CC-CCceEEecCce
Q 038893           67 GGVVITAVEGGGNAAKAGLKS-----------GDQVLYTSSFFGDELWPADKLGFTKTAIQA-KP-DSVYFVVNRGG  130 (235)
Q Consensus        67 ~~vyIa~~isG~~a~~~Gi~~-----------gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~-~~-~a~if~~~~~g  130 (235)
                      .+++|..+.+++.|+++|++.           ||+|+.+   -|..+   +.......++.. .+ +...+.+.|.|
T Consensus       251 ~Gv~V~~V~~~spA~~AGl~~~~~~~~~~l~~GDvI~~i---ng~~v---~~~~dl~~~l~~~~~g~~v~l~v~R~g  321 (348)
T 3qo6_A          251 SGVLVLDAPPSGPAGKAGLQSTKRDGYGRLVLGDIITSV---NGTKV---SNGSDLYRILDQCKVGDEVTVEVLRGD  321 (348)
T ss_dssp             SSEEEEECCSSSHHHHHTCCCCEECSSSCEECCCEECEE---TTBCC---SSSHHHHHHHTTCCTTCEEEEEEECSS
T ss_pred             ceEEEEEecCCChHHHcCCccccccccCCCCCCCEEEEE---CCEEe---CCHHHHHHHHHhCCCcCEEEEEEEECC
Confidence            589999999999999999999           9998665   33333   333445556643 33 34667777766

>1ujv_A Membrane associated guanylate kinase inverted-2 (MAGI-2); atrophin-1 interacting protein 1, PDZ domain, structural genomics, KIAA0705 protein; NMR {Homo sapiens} SCOP: b.36.1.1

Probab=86.72  E-value=0.64  Score=33.92  Aligned_cols=73  Identities=12%  Similarity=0.226  Sum_probs=42.6

Q ss_pred             EEEeec---CccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCC--CCce
Q 038893           49 IEVEVD---KPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP--DSVY  123 (235)
Q Consensus        49 ~~v~~~---kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~--~a~i  123 (235)
                      .++.+.   ..+|+.+... ..++||..+.++  ++.+|++.||+|..+-   |..+-.. .....+..|+..+  +...
T Consensus        12 ~~v~l~~~~~g~G~~i~~~-~~Gv~V~~v~~~--a~~aGL~~GD~I~~vn---g~~v~~~-~~~~~~~~l~~~~~g~~v~   84 (96)
T 1ujv_A           12 MTLTIVKGAQGFGFTIADS-PTGQRVKQILDI--QGCPGLCEGDLIVEIN---QQNVQNL-SHTEVVDILKDCPIGSETS   84 (96)
T ss_dssp             EEEEEECCSSSSSEEEEEE-TTEEEEEEESCG--GGSTTCCSSCEEEEET---TEECSSC-CHHHHHHHHHHSCTTSEEE
T ss_pred             EEEEEEeCCCceeEEEEcC-CCCEEEEEEecc--cccCCCCCCCEEEEEC---CEECCCC-CHHHHHHHHHcCCCCCEEE
Confidence            345544   4577766433 346999999985  6889999999987653   3333111 1123344555543  3445


Q ss_pred             EEecC
Q 038893          124 FVVNR  128 (235)
Q Consensus       124 f~~~~  128 (235)
                      |.+.|
T Consensus        85 l~v~R   89 (96)
T 1ujv_A           85 LIIHR   89 (96)
T ss_dssp             EEEEC
T ss_pred             EEEEE
Confidence            55554

>2kl1_A YLBL protein; structure genomics, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium; NMR {Geobacillus thermodenitrificans}

Probab=86.44  E-value=0.44  Score=34.76  Aligned_cols=62  Identities=21%  Similarity=0.252  Sum_probs=42.2

Q ss_pred             CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcC--CCCceEEecCceeeee
Q 038893           66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK--PDSVYFVVNRGGADVD  134 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~--~~a~if~~~~~g~~~d  134 (235)
                      ..+++|..+.+++.|+. |++.||+|..+.   |..+   +.......+++..  .+...+.+.|.|...+
T Consensus         4 ~~Gv~V~~V~~~spA~~-GL~~GD~Il~In---G~~v---~~~~~l~~~l~~~~~g~~v~l~v~R~g~~~~   67 (94)
T 2kl1_A            4 AKGVYVMSVLPNMPAAG-RLEAGDRIAAID---GQPI---NTSEQIVSYVREKQAGDRVRVTFIRDRKQHE   67 (94)
T ss_dssp             CCCEECCCCCTTSTTBT-TBCTTCEEEEET---TBCC---CCHHHHHHHHHHSCTTCCEEEEEEETTEEEE
T ss_pred             CCcEEEEEECCCChHHh-CCCCCCEEEEEC---CEEC---CCHHHHHHHHHhCCCCCEEEEEEEECCEEEE
Confidence            35689999999999998 999999987654   3333   2333445566554  3466788877664433

>1z87_A Alpha-1-syntrophin; protein binding; NMR {Mus musculus}

Probab=86.41  E-value=0.59  Score=41.16  Aligned_cols=79  Identities=23%  Similarity=0.233  Sum_probs=52.3

Q ss_pred             EEEeecC----ccceeeeee--cCCcEEEEEeecchHHHH-hcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCC
Q 038893           49 IEVEVDK----PLGLTLGQK--PGGGVVITAVEGGGNAAK-AGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDS  121 (235)
Q Consensus        49 ~~v~~~k----plGl~~g~~--~~~~vyIa~~isG~~a~~-~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a  121 (235)
                      .+|.+.|    .+|+.+...  .+..+||..+.+|+.|++ +||+.||+|..+   -|..+-.. .....+..+....+.
T Consensus        79 r~V~L~k~~~~glGf~I~gg~d~~~gi~V~~V~~gspA~~~aGL~~GD~Il~V---NG~~v~~~-t~~e~v~~l~~~g~~  154 (263)
T 1z87_A           79 RRVTVRKADAGGLGISIKGGRENKMPILISKIFKGLAADQTEALFVGDAILSV---NGEDLSSA-THDEAVQALKKTGKE  154 (263)
T ss_dssp             EEECCCTTTTCCCCCEEEEETTTTEEEEEEECCTTSHHHHCTTCCSSCEEEEE---SSCBCTTS-CHHHHHHHHHHCCSC
T ss_pred             EEEEEEeCCCCCEeEEEeeccCCCCCEEEEEECCCCHHHHhCCCCCCCEEEEE---CCEECCCc-CHHHHHHHHhcCCCe
Confidence            4577654    477765443  245799999999999999 689999998765   34443221 122344455555566


Q ss_pred             ceEEecCcee
Q 038893          122 VYFVVNRGGA  131 (235)
Q Consensus       122 ~if~~~~~g~  131 (235)
                      +.|.+.+.+.
T Consensus       155 V~L~V~R~~~  164 (263)
T 1z87_A          155 VVLEVKYMKE  164 (263)
T ss_dssp             CCEEEECCSS
T ss_pred             EEEEEEeCcc
Confidence            7888877543

>3irb_A Uncharacterized protein from DUF35 family; 13815350, protein with unknown function from DUF35 family, S genomics; 1.80A {Sulfolobus solfataricus}

Probab=86.30  E-value=0.31  Score=39.21  Aligned_cols=34  Identities=18%  Similarity=0.487  Sum_probs=24.2

Q ss_pred             cccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeee
Q 038893          156 KARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFAR  197 (235)
Q Consensus       156 ~~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~  197 (235)
                      ...-.-+|..||.+|.+       | ...||.|+.....+.+
T Consensus        43 grL~~~rC~~CG~~~~P-------P-r~~Cp~C~s~~~~~ve   76 (145)
T 3irb_A           43 NKIIGSKCSKCGRIFVP-------A-RSYCEHCFVKIENYVE   76 (145)
T ss_dssp             TCCEEEECTTTCCEEES-------C-CSEETTTTEECCEEEE
T ss_pred             CeEEEEEeCCCCcEEcC-------c-hhhCcCCCCCceeeee
Confidence            33456799999999987       2 3479999875444443

>1lcy_A HTRA2 serine protease; apoptosis, PDZ domain, caspase activation, binding, hydrolase; 2.00A {Homo sapiens} SCOP: b.36.1.4 b.47.1.1

Probab=86.12  E-value=1  Score=39.86  Aligned_cols=58  Identities=28%  Similarity=0.379  Sum_probs=40.8

Q ss_pred             CcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCcee
Q 038893           67 GGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGA  131 (235)
Q Consensus        67 ~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~  131 (235)
                      .+++|..+.+|+.|+++|++.||+|..+.   |..+.+.+   +...+++. .+...+.+.|.|-
T Consensus       256 ~gv~V~~V~~~spA~~aGl~~GDvI~~in---g~~v~~~~---~l~~~l~~-~~~v~l~v~R~g~  313 (325)
T 1lcy_A          256 HGVLIHKVILGSPAHRAGLRPGDVILAIG---EQMVQNAE---DVYEAVRT-QSQLAVQIRRGRE  313 (325)
T ss_dssp             SCEEEEEECTTSHHHHHTCCTTCEEEEET---TEECCSHH---HHHHHHTT-CSSEEEEEEETTE
T ss_pred             CCeEEEEeCcCChHHHCCCCCCCEEEEEC---CEEcCCHH---HHHHHHhC-CCeEEEEEEECCE
Confidence            58999999999999999999999986553   44443333   34445554 2556667766553

>2epr_A POZ-, at HOOK-, and zinc finger-containing protein 1; C2H2, zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1

Probab=85.59  E-value=0.53  Score=29.10  Aligned_cols=32  Identities=22%  Similarity=0.237  Sum_probs=21.2

Q ss_pred             cceEEcCCCceEEeCC------CCCCCCCCCCCCCCCC
Q 038893          158 RATHICLDCGYIYFLQ------KPFDELPDTYVCPQCQ  189 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~------tpfe~lped~~CP~C~  189 (235)
                      ...|+|..||..|...      .....-...|.|+.|+
T Consensus        10 ~k~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C~   47 (48)
T 2epr_A           10 RKQVACEICGKIFRDVYHLNRHKLSHSGEKPYSSGPSS   47 (48)
T ss_dssp             CCSEEETTTTEEESSHHHHHHHGGGSCSCCCCCSCCCC
T ss_pred             CcCeeCCCCCcccCCHHHHHHHHHhcCCCCCccCCCCC
Confidence            3469999999998765      1111112347999996

>3stj_A Protease DEGQ; serine protease, PDZ domain, protease, chaperone, DEGP, DEGQ hydrolase; 2.60A {Escherichia coli}

Probab=85.34  E-value=0.96  Score=40.74  Aligned_cols=60  Identities=28%  Similarity=0.438  Sum_probs=40.9

Q ss_pred             CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcC-C-CCceEEecCcee
Q 038893           66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK-P-DSVYFVVNRGGA  131 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~-~-~a~if~~~~~g~  131 (235)
                      ..+++|..+.+|+.|+++||+.||+|+.+   -|..+   .........|... + +...+.+.|.|-
T Consensus       262 ~~G~~V~~V~~~spA~~aGL~~GDvI~~i---ng~~v---~~~~~l~~~l~~~~~g~~v~l~v~R~g~  323 (345)
T 3stj_A          262 QRGAFVSEVLPGSGSAKAGVKAGDIITSL---NGKPL---NSFAELRSRIATTEPGTKVKLGLLRNGK  323 (345)
T ss_dssp             CSSEEEEEECTTSHHHHHTCCTTCEECEE---TTEEC---SCHHHHHHHHHTSCTTCEEEEEEEETTE
T ss_pred             CceEEEEEeccCChHHHcCCCCCCEEEEE---CCEEC---CCHHHHHHHHHhcCCCCEEEEEEEECCE
Confidence            46899999999999999999999998665   23333   3333445555542 3 345566666663

>1y8t_A Hypothetical protein RV0983; serine protease, structural genomics, PSI, protein structure initiative; 2.00A {Mycobacterium tuberculosis} SCOP: b.36.1.4 b.47.1.1 PDB: 2z9i_A

Probab=85.26  E-value=1.1  Score=39.34  Aligned_cols=68  Identities=25%  Similarity=0.378  Sum_probs=45.0

Q ss_pred             cceeeeee-cCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhc-CCC-CceEEecC-ce
Q 038893           57 LGLTLGQK-PGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQA-KPD-SVYFVVNR-GG  130 (235)
Q Consensus        57 lGl~~g~~-~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~-~~~-a~if~~~~-~g  130 (235)
                      +|+.+... ...+++|..+.+|+.|+++|++.||+|..+-   |..+   ........++.. .++ ...+.+.| .|
T Consensus       231 lGi~~~~~~~~~g~~V~~v~~~spA~~aGl~~GD~I~~in---g~~v---~~~~~l~~~l~~~~~g~~v~l~v~R~~g  302 (324)
T 1y8t_A          231 LGVQVTNDKDTLGAKIVEVVAGGAAANAGVPKGVVVTKVD---DRPI---NSADALVAAVRSKAPGATVALTFQDPSG  302 (324)
T ss_dssp             CCEEEESCSSSSSEEEEEECTTSTTTTTTCCTTCEEEEET---TEEC---CSHHHHHHHHHTSCTTCEEEEEEECSSC
T ss_pred             cceEeeeccCCCceEEEEECCCChHHHcCCCCCCEEEEEC---CEEC---CCHHHHHHHHHhcCCCCEEEEEEEECCC
Confidence            77765542 3567999999999999999999999987653   3333   223334445543 333 34666666 55

>1fc6_A Photosystem II D1 protease; D1 C-terminal processing protease, serine protease, serine- lysine catalytic DYAD, PDZ domain, photosynthesis; 1.80A {Scenedesmus obliquus} SCOP: b.36.1.3 c.14.1.2 PDB: 1fc9_A 1fc7_A 1fcf_A

Probab=84.75  E-value=0.92  Score=41.25  Aligned_cols=39  Identities=33%  Similarity=0.560  Sum_probs=32.1

Q ss_pred             cceeeeee-c-CCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           57 LGLTLGQK-P-GGGVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        57 lGl~~g~~-~-~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      +|+.+... . +.+++|..+.+|+.|+++||+.||+|+.+-
T Consensus        87 iG~~~~~~~~~~~~~~V~~v~~~spA~~aGl~~GD~I~~In  127 (388)
T 1fc6_A           87 VGLEITYDGGSGKDVVVLTPAPGGPAEKAGARAGDVIVTVD  127 (388)
T ss_dssp             CSEEEEECTTCSSCEEEEEECTTSHHHHTTCCTTCEEEEET
T ss_pred             EEEEEEEeecCCCcEEEEEeCCCChHHHcCCCCCCEEEEEC
Confidence            66666543 2 478999999999999999999999998764

>2gnr_A Conserved hypothetical protein; 13815350, structural genomics, PSI, protein structure initiative; 1.80A {Sulfolobus solfataricus P2} PDB: 3irb_A

Probab=84.59  E-value=0.45  Score=38.46  Aligned_cols=35  Identities=17%  Similarity=0.475  Sum_probs=24.9

Q ss_pred             ccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeecc
Q 038893          157 ARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYD  199 (235)
Q Consensus       157 ~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~~  199 (235)
                      .....+|..||++|.+.        ...||.|+...-.+.++.
T Consensus        44 ~L~~~rC~~CG~~~fPP--------r~~Cp~C~s~~~e~v~ls   78 (145)
T 2gnr_A           44 KIIGSKCSKCGRIFVPA--------RSYCEHCFVKIENYVEIN   78 (145)
T ss_dssp             CCEEEECTTTCCEEESC--------CSEETTTTEECCEEEECC
T ss_pred             EEEEEEECCCCcEEeCC--------CCCCCCCCCCccEEEEcc
Confidence            34568999999999772        248999988744444443

>3v2d_5 50S ribosomal protein L32; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgq_4 2hgj_4 2hgu_4 2j03_5 2jl6_5 2jl8_5 2v47_5 2v49_5 2wdi_5 2wdj_5 2wdl_5 2wdn_5 2wh2_5 2wh4_5 2wrj_5 2wrl_5 2wro_5 2wrr_5 2x9s_5 2x9u_5 ...

Probab=82.16  E-value=1.1  Score=31.19  Aligned_cols=48  Identities=19%  Similarity=0.354  Sum_probs=30.4

Q ss_pred             ccccCCCCCC-cccccccchh-hcccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          135 VKRLPKRPAP-PRFGRKLTEA-QKARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       135 ~~~~p~~~a~-~~f~~k~~~~-~~~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      ++.+|++.-. .+.+++++.- -.....-.|+.||...-+         ...||.||.-
T Consensus         3 ~MAVPKrK~Sksr~~~RRsh~kl~~p~l~~c~~cGe~~~~---------H~vc~~CG~Y   52 (60)
T 3v2d_5            3 KHPVPKKKTSKARRDARRSHHALTPPTLVPCPECKAMKPP---------HTVCPECGYY   52 (60)
T ss_dssp             CCCCCSSCCCHHHHHHHGGGCCCCCCCCEECTTTCCEECT---------TSCCTTTCEE
T ss_pred             ccccCcCcCChhhcchhhccccccCCceeECCCCCCeecc---------eEEcCCCCcC
Confidence            4566655444 3334444432 223567899999998866         3589999853

>2zjr_Z 50S ribosomal protein L32; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: g.41.8.5 PDB: 1j5a_M* 1jzy_M* 1jzz_M* 1k01_M* 1nkw_Z 1ond_Z* 1sm1_Z* 1yl3_5 2b66_5 2b9n_5 2b9p_5 2zjp_Y* 2zjq_Z 1jzx_M 3cf5_Y* 3dll_Y* 3pio_Z* 3pip_Z* 1nwy_Z* 1nwx_Z* ...

Probab=82.09  E-value=1.3  Score=30.96  Aligned_cols=50  Identities=16%  Similarity=0.307  Sum_probs=31.3

Q ss_pred             ccccCCCCCC-cccccccchh-hcccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCcc
Q 038893          135 VKRLPKRPAP-PRFGRKLTEA-QKARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKK  193 (235)
Q Consensus       135 ~~~~p~~~a~-~~f~~k~~~~-~~~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~  193 (235)
                      ++.+|++.-+ .+..++++.- -.....-.|+.||...-+         ...||.||.-+.
T Consensus         3 lMAVPKrK~Sksrr~~RRsh~kl~~p~l~~c~~cG~~~~p---------H~vc~~CG~Y~g   54 (60)
T 2zjr_Z            3 KHPVPKKKTSKSKRDMRRSHHALTAPNLTECPQCHGKKLS---------HHICPNCGYYDG   54 (60)
T ss_dssp             CCSCCSSCCCTTHHHHHTTTCCCCCCCCEECTTTCCEECT---------TBCCTTTCBSSS
T ss_pred             ccccCCCCCChHHhhhhcccccccCCCceECCCCCCEeCC---------ceEcCCCCcCCC
Confidence            4566654444 3333444432 233567899999999766         359999996443

>3rle_A Golgi reassembly-stacking protein 2; PDZ, tether, golgin, membrane protein; 1.65A {Homo sapiens} PDB: 4edj_A

Probab=81.93  E-value=0.85  Score=37.87  Aligned_cols=30  Identities=20%  Similarity=0.271  Sum_probs=26.5

Q ss_pred             CCcEEEEEeecchHHHHhcCCcC-cceeeec
Q 038893           66 GGGVVITAVEGGGNAAKAGLKSG-DQVLYTS   95 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~Gi~~g-D~i~~~s   95 (235)
                      ..+++|..+.+++.|+++|++.| |+|+.+.
T Consensus        15 ~~G~~V~~V~~~SpA~~AGL~~G~D~I~~in   45 (209)
T 3rle_A           15 TEGYHVLRVQENSPGHRAGLEPFFDFIVSIN   45 (209)
T ss_dssp             SEEEEEEEECTTSHHHHTTCCTTTEEEEEET
T ss_pred             CCEEEEEEECCCCHHHHCCCCcCCeEEEEEC
Confidence            45799999999999999999999 9987653

>2akl_A PHNA-like protein PA0128; two domains, Zn binding protein, beta-strand protein, structural genomics, PSI; NMR {Pseudomonas aeruginosa PAO1} SCOP: b.34.11.2 g.41.3.5

Probab=81.58  E-value=0.32  Score=39.32  Aligned_cols=24  Identities=33%  Similarity=0.783  Sum_probs=14.8

Q ss_pred             EEcCCCc--eEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          161 HICLDCG--YIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       161 y~C~~CG--yvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      -.|+.|+  |+|+.       .+.|.||.|++.
T Consensus        28 P~CP~C~seytYeD-------g~l~vCPeC~hE   53 (138)
T 2akl_A           28 PPCPQCNSEYTYED-------GALLVCPECAHE   53 (138)
T ss_dssp             CCCTTTCCCCCEEC-------SSSEEETTTTEE
T ss_pred             CCCCCCCCcceEec-------CCeEECCccccc
Confidence            4677776  66644       245677777663

>3k50_A Putative S41 protease; structural genomics, joint center for structural genomics, JCSG, protein structure initiative; 2.00A {Bacteroides fragilis nctc 9343}

Probab=81.35  E-value=1.3  Score=41.11  Aligned_cols=28  Identities=29%  Similarity=0.475  Sum_probs=25.7

Q ss_pred             cEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           68 GVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        68 ~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      .++|..+++|+.|+++||+.||+|+.+-
T Consensus        91 ~~~V~~V~~gsPA~~AGL~~GD~I~~In  118 (403)
T 3k50_A           91 NALISYVVPGSPAEEAGLQRGHWIMMMN  118 (403)
T ss_dssp             EEEEEEECTTSHHHHTTCCTTCEEEEET
T ss_pred             eEEEEEeCCCChHHHcCCCCCCEEEEEC
Confidence            3899999999999999999999998874

>4a8c_A Periplasmic PH-dependent serine endoprotease DEGQ; chaperone, hydrolase; 7.50A {Escherichia coli} PDB: 4a8a_A 4a8b_A 4a9g_A

Probab=80.79  E-value=1.9  Score=39.92  Aligned_cols=61  Identities=28%  Similarity=0.425  Sum_probs=41.4

Q ss_pred             CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhc-CC-CCceEEecCceee
Q 038893           66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQA-KP-DSVYFVVNRGGAD  132 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~-~~-~a~if~~~~~g~~  132 (235)
                      ..+++|..+.+++.|+++|++.||+|+.+.   |..+-+   ......++.. .+ +...+.+.|.|-.
T Consensus       262 ~~G~~V~~V~~~spA~~aGL~~GD~I~~vn---G~~v~~---~~~l~~~l~~~~~g~~v~l~v~R~g~~  324 (436)
T 4a8c_A          262 QRGAFVSEVLPGSGSAKAGVKAGDIITSLN---GKPLNS---FAELRSRIATTEPGTKVKLGLLRNGKP  324 (436)
T ss_pred             CcceEEEEECCCChHHHCCCCCCCEEEEEC---CEECCC---HHHHHHHHHhcCCCCEEEEEEEECCEE
Confidence            468999999999999999999999987653   433332   3334444443 22 4566777776633

>2epq_A POZ-, at HOOK-, and zinc finger-containing protein 1; C2H2, zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1

Probab=80.09  E-value=0.28  Score=29.80  Aligned_cols=30  Identities=13%  Similarity=0.145  Sum_probs=19.4

Q ss_pred             eEEcCCCceEEeCCC------CCCCCCCCCCCCCCC
Q 038893          160 THICLDCGYIYFLQK------PFDELPDTYVCPQCQ  189 (235)
Q Consensus       160 ~y~C~~CGyvyd~~t------pfe~lped~~CP~C~  189 (235)
                      .|+|..||..+....      ....-...+.||.|+
T Consensus        10 ~~~C~~C~k~f~~~~~l~~H~~~H~~~~~~~C~~cg   45 (45)
T 2epq_A           10 PYSCPVCGLRFKRKDRMSYHVRSHDGSVGKSGPSSG   45 (45)
T ss_dssp             SSEETTTTEECSCHHHHHHHHHHHSCCCCCCCCCCC
T ss_pred             CCcCCCCCcccCCHHHHHHHHHHccCCCCCCCcCCC
Confidence            599999999886640      001112346899996

---

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	235
d6rxna_	45	g.41.5.1 (A:) Rubredoxin {Desulfovibrio desulfuric	4e-13
d1s24a_	56	g.41.5.1 (A:) Two-iron rubredoxin {Pseudomonas ole	7e-12
d1dx8a_	70	g.41.5.1 (A:) Rubredoxin {Guillardia theta [TaxId:	1e-11
d1brfa_	53	g.41.5.1 (A:) Rubredoxin {Archaeon Pyrococcus furi	1e-11
d1iroa_	53	g.41.5.1 (A:) Rubredoxin {Clostridium pasteurianum	2e-11
d2dsxa1	52	g.41.5.1 (A:1-52) Rubredoxin {Desulfovibrio gigas	2e-11
d1nnqa2	37	g.41.5.1 (A:135-171) Rubrerythrin, C-terminal doma	5e-07
d1ky9b2	88	b.36.1.4 (B:359-446) Protease Do (DegP, HtrA), C-t	2e-06
d1yuza2	36	g.41.5.1 (A:167-202) Nigerythrin, C-terminal domai	2e-06
d1lkoa2	44	g.41.5.1 (A:148-191) Rubrerythrin, C-terminal doma	3e-05
d1uita_	117	b.36.1.1 (A:) Discs large 5 protein KIAA0583 {Huma	4e-05
d1g9oa_	91	b.36.1.1 (A:) Na+/H+ exchanger regulatory factor,	5e-05
d2z9ia1	88	b.36.1.4 (A:227-314) Protease PepD {Mycobacterium	1e-04
d1n7ea_	95	b.36.1.1 (A:) Glutamate receptor-interacting prote	0.001
d2hgaa1	103	b.36.1.6 (A:23-125) Uncharacterized protein MTH136	0.002
d1p1da2	99	b.36.1.1 (A:115-213) Glutamate receptor interactin	0.002
d1kwaa_	88	b.36.1.1 (A:) Cask/Lin-2 {Human (Homo sapiens) [Ta	0.003
d1wifa_	126	b.36.1.1 (A:) hypothetical PDZ domain containing p	0.003
d1q3oa_	104	b.36.1.1 (A:) Shank1, PDZ domain {Rat (Rattus norv	0.003
d1lcya1	100	b.36.1.4 (A:226-325) Mitochondrial serine protease	0.004
d2f5ya1	77	b.36.1.1 (A:19-95) Regulator of G-protein signalin	0.004

>d6rxna_ g.41.5.1 (A:) Rubredoxin {Desulfovibrio desulfuricans, strain 27774 [TaxId: 876]} Length = 45

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Desulfovibrio desulfuricans, strain 27774 [TaxId: 876]

 Score = 59.7 bits (145), Expect = 4e-13
 Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 4/39 (10%)

Query: 161 HICLDCGYIYFLQK----PFDELPDTYVCPQCQAPKKRF 195
           ++C  CGY Y   +    PFD+LPD + CP C   K +F
Sbjct: 4   YVCNVCGYEYDPAEHDNVPFDQLPDDWCCPVCGVSKDQF 42

>d1s24a_ g.41.5.1 (A:) Two-iron rubredoxin {Pseudomonas oleovorans [TaxId: 301]} Length = 56

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Two-iron rubredoxin
species: Pseudomonas oleovorans [TaxId: 301]

 Score = 56.6 bits (137), Expect = 7e-12
 Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 11/50 (22%)

Query: 161 HICLDCGYIYFLQK-----------PFDELPDTYVCPQCQAPKKRFARYD 199
            IC+ CG+IY                F+++PD + CP C A K+ +  Y+
Sbjct: 5   WICITCGHIYDEALGDEAEGFTPGTRFEDIPDDWCCPDCGATKEDYVLYE 54

>d1dx8a_ g.41.5.1 (A:) Rubredoxin {Guillardia theta [TaxId: 55529]} Length = 70

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Guillardia theta [TaxId: 55529]

 Score = 56.7 bits (137), Expect = 1e-11
 Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 11/48 (22%)

Query: 159 ATHICLDCGYIYFLQK-----------PFDELPDTYVCPQCQAPKKRF 195
             + C  CGYIY  +K           PF +L D+++CP C++PK +F
Sbjct: 6   GKYECEACGYIYEPEKGDKFAGIPPGTPFVDLSDSFMCPACRSPKNQF 53

>d1brfa_ g.41.5.1 (A:) Rubredoxin {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 53

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

 Score = 55.8 bits (135), Expect = 1e-11
 Identities = 20/52 (38%), Positives = 25/52 (48%), Gaps = 11/52 (21%)

Query: 159 ATHICLDCGYIYFLQK-----------PFDELPDTYVCPQCQAPKKRFARYD 199
           A  +C  CGYIY                F+ELPD +VCP C APK  F + +
Sbjct: 1   AKWVCKICGYIYDEDAGDPDNGISPGTKFEELPDDWVCPICGAPKSEFEKLE 52

>d1iroa_ g.41.5.1 (A:) Rubredoxin {Clostridium pasteurianum [TaxId: 1501]} Length = 53

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Clostridium pasteurianum [TaxId: 1501]

 Score = 55.5 bits (134), Expect = 2e-11
 Identities = 15/52 (28%), Positives = 22/52 (42%), Gaps = 11/52 (21%)

Query: 159 ATHICLDCGYIYFLQK-----------PFDELPDTYVCPQCQAPKKRFARYD 199
             + C  CGYIY  +             F ++PD +VCP C   K +F   +
Sbjct: 2   KKYTCTVCGYIYNPEDGDPDNGVNPGTDFKDIPDDWVCPLCGVGKDQFEEVE 53

>d2dsxa1 g.41.5.1 (A:1-52) Rubredoxin {Desulfovibrio gigas [TaxId: 879]} Length = 52

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Desulfovibrio gigas [TaxId: 879]

 Score = 55.1 bits (133), Expect = 2e-11
 Identities = 16/46 (34%), Positives = 21/46 (45%), Gaps = 11/46 (23%)

Query: 161 HICLDCGYIYFLQK-----------PFDELPDTYVCPQCQAPKKRF 195
           ++C  CGY Y   K            F++LPD + CP C A K  F
Sbjct: 4   YVCTVCGYEYDPAKGDPDSGIKPGTKFEDLPDDWACPVCGASKDAF 49

>d1nnqa2 g.41.5.1 (A:135-171) Rubrerythrin, C-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 37

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubrerythrin, C-terminal domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

 Score = 42.8 bits (101), Expect = 5e-07
 Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 7/39 (17%)

Query: 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYD 199
           +IC  CGY        DE P+   CP C APK++F  ++
Sbjct: 6   YICPICGYTAV-----DEAPE--YCPVCGAPKEKFVVFE 37

>d1ky9b2 b.36.1.4 (B:359-446) Protease Do (DegP, HtrA), C-terminal domains {Escherichia coli [TaxId: 562]} Length = 88

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: HtrA-like serine proteases
domain: Protease Do (DegP, HtrA), C-terminal domains
species: Escherichia coli [TaxId: 562]

 Score = 42.9 bits (101), Expect = 2e-06
 Identities = 19/75 (25%), Positives = 32/75 (42%), Gaps = 7/75 (9%)

Query: 57  LGLTLGQKPGG-GVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAI 115
            G  +  K    GVV+  V+ G  AA+ GLK GD ++         +    +L   +  +
Sbjct: 14  EGAEMSNKGKDQGVVVNNVKTGTPAAQIGLKKGDVII---GANQQAVKNIAEL---RKVL 67

Query: 116 QAKPDSVYFVVNRGG 130
            +KP  +   + RG 
Sbjct: 68  DSKPSVLALNIQRGD 82

>d1yuza2 g.41.5.1 (A:167-202) Nigerythrin, C-terminal domain {Desulfovibrio vulgaris [TaxId: 881]} Length = 36

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Nigerythrin, C-terminal domain
species: Desulfovibrio vulgaris [TaxId: 881]

 Score = 41.2 bits (97), Expect = 2e-06
 Identities = 14/38 (36%), Positives = 17/38 (44%), Gaps = 7/38 (18%)

Query: 161 HICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARY 198
           H+C  CGYI+       E  +   CP C  PK  F  Y
Sbjct: 6   HLCPICGYIHK-----GEDFE--KCPICFRPKDTFTAY 36

>d1lkoa2 g.41.5.1 (A:148-191) Rubrerythrin, C-terminal domain {Desulfovibrio vulgaris [TaxId: 881]} Length = 44

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubrerythrin, C-terminal domain
species: Desulfovibrio vulgaris [TaxId: 881]

 Score = 38.1 bits (89), Expect = 3e-05
 Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 6/40 (15%)

Query: 162 ICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDVN 201
            C +CGY++         P+  +CP C  PK  F    +N
Sbjct: 10  RCRNCGYVHE----GTGAPE--LCPACAHPKAHFELLGIN 43

>d1uita_ b.36.1.1 (A:) Discs large 5 protein KIAA0583 {Human (Homo sapiens) [TaxId: 9606]} Length = 117

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Discs large 5 protein KIAA0583
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.6 bits (92), Expect = 4e-05
 Identities = 19/96 (19%), Positives = 41/96 (42%), Gaps = 5/96 (5%)

Query: 47  KTIEVEVD-KPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPA 105
           + ++V+   +PLG+++     GG+ ++ V  G  A +AGL+ GDQ+L     F      +
Sbjct: 21  RHVKVQKGSEPLGISIVSGEKGGIYVSKVTVGSIAHQAGLEYGDQLLE----FNGINLRS 76

Query: 106 DKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRLPKR 141
                 +  I  + D++  +         +    + 
Sbjct: 77  ATEQQARLIIGQQCDTITILAQYNPHVHQLSSHSRS 112

>d1g9oa_ b.36.1.1 (A:) Na+/H+ exchanger regulatory factor, NHERF {Human (Homo sapiens) [TaxId: 9606]} Length = 91

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Na+/H+ exchanger regulatory factor, NHERF
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.6 bits (90), Expect = 5e-05
 Identities = 23/88 (26%), Positives = 36/88 (40%), Gaps = 6/88 (6%)

Query: 47  KTIEVEVD-KPLGLTL-GQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWP 104
           +   +E      G  L G+K   G  I  VE G  A KAGL +GD+++      G+ +  
Sbjct: 5   RLCCLEKGPNGYGFHLHGEKGKLGQYIRLVEPGSPAEKAGLLAGDRLV---EVNGENVEK 61

Query: 105 ADKLGFTKTAIQAKPDSVYFVVNRGGAD 132
                     I+A  ++V  +V     D
Sbjct: 62  ETHQQVVS-RIRAALNAVRLLVVDPETD 88

>d2z9ia1 b.36.1.4 (A:227-314) Protease PepD {Mycobacterium tuberculosis [TaxId: 1773]} Length = 88

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: HtrA-like serine proteases
domain: Protease PepD
species: Mycobacterium tuberculosis [TaxId: 1773]

 Score = 37.6 bits (87), Expect = 1e-04
 Identities = 19/76 (25%), Positives = 24/76 (31%), Gaps = 7/76 (9%)

Query: 57  LGLTLG-QKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAI 115
           LG+ +   K   G  I  V  GG AA AG+  G  V          +  AD L       
Sbjct: 5   LGVQVTNDKDTLGAKIVEVVAGGAAANAGVPKGVVVT---KVDDRPINSADAL--VAAVR 59

Query: 116 QAKP-DSVYFVVNRGG 130
              P  +V        
Sbjct: 60  SKAPGATVALTFQDPS 75

>d1n7ea_ b.36.1.1 (A:) Glutamate receptor-interacting protein 1, GRIP1 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 95

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Glutamate receptor-interacting protein 1, GRIP1
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 35.2 bits (81), Expect = 0.001
 Identities = 22/90 (24%), Positives = 43/90 (47%), Gaps = 14/90 (15%)

Query: 49  IEVEVDK---PLGLTL--GQKPGGGVVITAVEGGGNAAKAG-LKSGDQVLYTS--SFFGD 100
             VE+ +   PLG+T+   ++P   ++I+++  GG A + G +  GD++L  +  S  G 
Sbjct: 5   YTVELKRYGGPLGITISGTEEPFDPIIISSLTKGGLAERTGAIHIGDRILAINSSSLKGK 64

Query: 101 ELWPADKLGFTKTAIQAKPDSVYFVVNRGG 130
            L  A  L      +Q   ++V   + +  
Sbjct: 65  PLSEAIHL------LQMAGETVTLKIKKQT 88

>d2hgaa1 b.36.1.6 (A:23-125) Uncharacterized protein MTH1368 {Methanobacterium thermoautotrophicum [TaxId: 145262]} Length = 103

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: MTH1368 C-terminal domain-like
domain: Uncharacterized protein MTH1368
species: Methanobacterium thermoautotrophicum [TaxId: 145262]

 Score = 34.6 bits (79), Expect = 0.002
 Identities = 13/82 (15%), Positives = 28/82 (34%), Gaps = 7/82 (8%)

Query: 68  GVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP-DSVYFVV 126
           GV I +V  G  A+K  L  G  +        + +  ++   ++         + +    
Sbjct: 4   GVQIDSVVPGSPASKV-LTPGLVIESI-----NGMPTSNLTTYSAALKTISVGEVINITT 57

Query: 127 NRGGADVDVKRLPKRPAPPRFG 148
           ++G   +   R P   +    G
Sbjct: 58  DQGTFHLKTGRNPNNSSRAYMG 79

>d1p1da2 b.36.1.1 (A:115-213) Glutamate receptor interacting protein {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 99

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Glutamate receptor interacting protein
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 34.1 bits (78), Expect = 0.002
 Identities = 22/95 (23%), Positives = 43/95 (45%), Gaps = 17/95 (17%)

Query: 45  ASKTIEVEVDK----PLGLTL----GQKPGGGVVITAVEGGGNAAKAG-LKSGDQV--LY 93
           +S T  V++ K     LG+T+     +KPG  +VI+ ++ G  A + G L+ GD++  + 
Sbjct: 8   SSGTFHVKLPKKHSVELGITISSPSSRKPGDPLVISDIKKGSVAHRTGTLELGDKLLAID 67

Query: 94  TSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNR 128
                   +  A ++      +Q   D V   + +
Sbjct: 68  NIRLDSCSMEDAVQI------LQQCEDLVKLKIRK 96

>d1kwaa_ b.36.1.1 (A:) Cask/Lin-2 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Cask/Lin-2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.6 bits (77), Expect = 0.003
 Identities = 8/39 (20%), Positives = 16/39 (41%)

Query: 48 TIEVEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLK 86
            +   D+P+G+TL        ++  +  GG   + G  
Sbjct: 6  QFQKNTDEPMGITLKMNELNHCIVARIMHGGMIHRQGTL 44

>d1wifa_ b.36.1.1 (A:) hypothetical PDZ domain containing protein Uqcrc2 (4930408O21Rik) {Mouse (Mus musculus) [TaxId: 10090]} Length = 126

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: hypothetical PDZ domain containing protein Uqcrc2 (4930408O21Rik)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 34.6 bits (79), Expect = 0.003
 Identities = 24/116 (20%), Positives = 40/116 (34%), Gaps = 9/116 (7%)

Query: 22  AVSKTKNATRSLDNNKITARTAGASKTIEVEVDKP-LGLTLGQKPGGGVVITAVEGGGNA 80
             S +KN    L   K +  +       ++ V    LGL + Q  G  + I+ +   G A
Sbjct: 4   GSSGSKNEKEQLSKAKASVSSLNKVIQTKLTVGNLGLGLVVIQN-GPYLQISHLINKGAA 62

Query: 81  AKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP--DSVYFVVNRGGADV 133
           A  G L+ GD ++      G        L      +Q       +     RG  ++
Sbjct: 63  ASDGILQPGDVLIS----VGHANVLGYTLREFLKLLQNITIGTVLQIKAYRGFLEI 114

>d1q3oa_ b.36.1.1 (A:) Shank1, PDZ domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 104

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Shank1, PDZ domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 33.8 bits (77), Expect = 0.003
 Identities = 10/42 (23%), Positives = 17/42 (40%)

Query: 51 VEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
                   T          + +V+ GG A +AGL+ GD ++
Sbjct: 27 KAQTPIEEFTPTPAFPALQYLESVDEGGVAWRAGLRMGDFLI 68

>d1lcya1 b.36.1.4 (A:226-325) Mitochondrial serine protease HtrA2 {Human (Homo sapiens) [TaxId: 9606]} Length = 100

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: HtrA-like serine proteases
domain: Mitochondrial serine protease HtrA2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.8 bits (77), Expect = 0.004
 Identities = 20/91 (21%), Positives = 37/91 (40%), Gaps = 9/91 (9%)

Query: 48  TIEVEVDKPLGLTLGQKPG--GGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPA 105
           T+   +   L L     P    GV+I  V  G  A +AGL+ GD +L   +     +  A
Sbjct: 10  TLSPSILAELQLREPSFPDVQHGVLIHKVILGSPAHRAGLRPGDVIL---AIGEQMVQNA 66

Query: 106 DKLGFTKTAIQAKPDSVYFVVNRGGADVDVK 136
           + +     A++ +   +   + RG   + + 
Sbjct: 67  EDV---YEAVRTQ-SQLAVQIRRGRETLTLY 93

>d2f5ya1 b.36.1.1 (A:19-95) Regulator of G-protein signaling 3, RGS3 {Human (Homo sapiens) [TaxId: 9606]} Length = 77

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Regulator of G-protein signaling 3, RGS3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.9 bits (75), Expect = 0.004
 Identities = 13/43 (30%), Positives = 20/43 (46%), Gaps = 1/43 (2%)

Query: 51 VEVDK-PLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVL 92
          + + +   G          V + AV+ GG A +AGL+  D VL
Sbjct: 1  ITIPRGKDGFGFTICCDSPVRVQAVDSGGPAERAGLQQLDTVL 43

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	235
d3clsd2	123	C-terminal domain of the electron transfer flavopr	99.95
d1efva2	124	C-terminal domain of the electron transfer flavopr	99.95
d1iroa_	53	Rubredoxin {Clostridium pasteurianum [TaxId: 1501]	99.66
d6rxna_	45	Rubredoxin {Desulfovibrio desulfuricans, strain 27	99.65
d1s24a_	56	Two-iron rubredoxin {Pseudomonas oleovorans [TaxId	99.64
d1brfa_	53	Rubredoxin {Archaeon Pyrococcus furiosus [TaxId: 2	99.64
d1dx8a_	70	Rubredoxin {Guillardia theta [TaxId: 55529]}	99.63
d2dsxa1	52	Rubredoxin {Desulfovibrio gigas [TaxId: 879]}	99.61
d1nnqa2	37	Rubrerythrin, C-terminal domain {Archaeon Pyrococc	99.1
d1lkoa2	44	Rubrerythrin, C-terminal domain {Desulfovibrio vul	99.07
d1yuza2	36	Nigerythrin, C-terminal domain {Desulfovibrio vulg	99.04
d1rgwa_	85	Zasp (Cypher, Oracle 1) {Human (Homo sapiens) [Tax	97.06
d1kwaa_	88	Cask/Lin-2 {Human (Homo sapiens) [TaxId: 9606]}	96.71
d1um1a_	110	Hypothetical protein KIAA1849 {Human (Homo sapiens	96.65
d1x5qa1	97	Scribble (KIAA0147) {Human (Homo sapiens) [TaxId:	96.6
d1ihja_	94	Inad {Fruit fly (Drosophila melanogaster) [TaxId:	96.57
d1rgra_	93	Synaptic protein PSD-95 {Rat (Rattus norvegicus) [	96.55
d2f0aa1	92	Segment polarity protein dishevelled homolog Dvl-2	96.52
d1n7ea_	95	Glutamate receptor-interacting protein 1, GRIP1 {R	96.49
d1w9ea1	85	Syntenin 1 {Human (Homo sapiens) [TaxId: 9606]}	96.49
d2fe5a1	92	Synapse-associated protein 102 {Human (Homo sapien	96.42
d1uita_	117	Discs large 5 protein KIAA0583 {Human (Homo sapien	96.23
d1wf8a1	94	Neurabin-i {Human (Homo sapiens) [TaxId: 9606]}	96.22
d1m5za_	91	Glutamate receptor interacting protein {Rat (Rattu	96.16
d2fcfa1	96	Multiple PDZ domain protein {Human (Homo sapiens)	96.12
d1ozia_	99	Phosphatase hPTP1e {Mouse (Mus musculus) [TaxId: 1	96.09
d2z9ia1	88	Protease PepD {Mycobacterium tuberculosis [TaxId:	96.05
d2ak3a2	37	Microbial and mitochondrial ADK, insert "zinc fing	96.04
d1vb7a_	94	PDZ-LIM protein mystique {Mouse (Mus musculus) [Ta	95.87
d1qava_	90	Syntrophin {Mouse (Mus musculus) [TaxId: 10090]}	95.77
d2fnea1	88	Multiple PDZ domain protein {Human (Homo sapiens)	95.69
d1whaa_	105	Scribble (KIAA0147) {Human (Homo sapiens) [TaxId:	95.69
d1wi2a_	104	PDZ domain containing protein 11, Pdzk11 {Mouse (M	95.64
d1q3oa_	104	Shank1, PDZ domain {Rat (Rattus norvegicus) [TaxId	95.64
d1qaua_	112	Neuronal nitric oxide synthase, NNOS {Rat (Rattus	95.57
d2gmga1	105	Hypothetical protein PF0610 {Pyrococcus furiosus [	95.47
d1uhpa_	107	Hypothetical protein KIAA1095 {Human (Homo sapiens	95.46
d1fc6a3	92	Photosystem II D1 C-terminal processing protease {	95.44
d1ky9b2	88	Protease Do (DegP, HtrA), C-terminal domains {Esch	95.37
d1e4va2	35	Microbial and mitochondrial ADK, insert "zinc fing	95.33
d1zina2	35	Microbial and mitochondrial ADK, insert "zinc fing	95.31
d1va8a1	100	Maguk p55 subfamily member 5 {Mouse (Mus musculus)	95.3
d1t2ma1	92	Afadin {Human (Homo sapiens) [TaxId: 9606]}	95.3
d1rzxa_	98	GTPase-binding domain of the cell polarity protein	95.29
d1g9oa_	91	Na+/H+ exchanger regulatory factor, NHERF {Human (	95.26
d1wi4a1	96	Syntaxin binding protein 4 {Mouse (Mus musculus) [	95.23
d1x45a1	85	Amyloid beta A4 precursor protein-binding family A	95.19
d1x5na1	101	Harmonin {Human (Homo sapiens) [TaxId: 9606]}	95.19
d1tp5a1	102	Synaptic protein PSD-95 {Rat (Rattus norvegicus) [	95.17
d1r6ja_	82	Syntenin 1 {Human (Homo sapiens) [TaxId: 9606]}	95.13
d1akya2	38	Microbial and mitochondrial ADK, insert "zinc fing	95.1
d1ujda_	117	Hypothetical protein KIAA0559 {Human (Homo sapiens	95.07
d1s3ga2	35	Microbial and mitochondrial ADK, insert "zinc fing	95.0
d1ueza_	101	KIAA1526 protein {Human (Homo sapiens) [TaxId: 960	94.77
d1wf7a_	103	Enigma homolog ENH {Mouse (Mus musculus) [TaxId: 1	94.71
d1v6ba_	118	Harmonin {Mouse (Mus musculus) [TaxId: 10090]}	94.6
d2f5ya1	77	Regulator of G-protein signaling 3, RGS3 {Human (H	94.53
d1x6da1	107	Interleukin 16 {Human (Homo sapiens) [TaxId: 9606]	94.46
d1uewa_	114	Membrane associated guanylate kinase inverted-2 (M	94.39
d1uepa_	103	Membrane associated guanylate kinase inverted-2 (M	94.35
d1y7na1	79	Amyloid beta A4 precursor protein-binding family A	94.34
d1lcya1	100	Mitochondrial serine protease HtrA2 {Human (Homo s	94.28
d1v62a_	117	Glutamate receptor interacting protein 2, GRIP2 (K	94.23
d2cssa1	108	Regulating synaptic membrane exocytosis protein 1,	94.21
d2hgaa1	103	Uncharacterized protein MTH1368 {Methanobacterium	94.15
d1uf1a_	128	KIAA1526 protein {Human (Homo sapiens) [TaxId: 960	94.09
d1p1da2	99	Glutamate receptor interacting protein {Rat (Rattu	94.09
d1ufxa_	103	KIAA1526 protein {Human (Homo sapiens) [TaxId: 960	94.0
d1v5la_	103	Alpha-actinin-2 associated LIM protein {Mouse (Mus	94.0
d1ujua_	111	Scribble (KIAA0147) {Human (Homo sapiens) [TaxId:	93.99
d2csja1	104	Tight junction protein ZO-2, Tjp2 {Mouse (Mus musc	93.95
d1wh1a_	124	Hypothetical protein KIAA1095 {Human (Homo sapiens	93.71
d1wg6a_	127	Partitioning-defective 3-like protein, PAR3-L (RIK	93.53
d1wfva_	103	Membrane associated guanylate kinase inverted-2 (M	93.39
d1x5ra1	99	Glutamate receptor interacting protein 2, GRIP2 (K	93.31
d1i16a_	130	Interleukin 16 {Human (Homo sapiens) [TaxId: 9606]	93.21
d1sota1	99	Stress sensor protease DegS, C-terminal domain {Es	93.1
d1ueqa_	123	Membrane associated guanylate kinase inverted-2 (M	92.96
d1wifa_	126	hypothetical PDZ domain containing protein Uqcrc2	92.71
d2cs5a1	106	Tyrosine-protein phosphatase non-receptor type 4,	92.44
d1ky9a1	94	Protease Do (DegP, HtrA), C-terminal domains {Esch	91.94
d1vaea_	111	Rhophilin-2 {Mouse (Mus musculus) [TaxId: 10090]}	91.44
d1v5qa_	122	Glutamate receptor interacting protein {Mouse (Mus	90.12
d1k32a1	91	Tricorn protease {Archaeon Thermoplasma acidophilu	90.06
d1ozha1	179	Catabolic acetolactate synthase {Klebsiella pneumo	89.41
d2ji7a1	175	Oxalyl-CoA decarboxylase {Oxalobacter formigenes [	87.6
d2gnra1	137	Hypothetical protein SSO2064 {Sulfolobus solfatari	87.54
d2akla2	38	Hypothetical protein PA0128, N-terminal domain {Ps	87.08
d1q6za1	160	Benzoylformate decarboxylase {Pseudomonas putida [	87.03
d2h3la1	103	Erbin {Human (Homo sapiens) [TaxId: 9606]}	86.61
d2ez9a1	183	Pyruvate oxidase {Lactobacillus plantarum [TaxId:	85.72
d2i6va1	87	General secretion pathway protein C, EpsC {Vibrio	85.5
d1zpda1	175	Pyruvate decarboxylase {Zymomonas mobilis [TaxId:	84.42
d1vd4a_	62	Transcription initiation factor TFIIE-alpha {Human	83.22
d2djia1	177	Pyruvate oxidase {Aerococcus viridans [TaxId: 1377	81.64
d2apob1	55	Ribosome biogenesis protein Nop10 {Archaeon Methan	81.09

>d3clsd2 c.31.1.2 (D:196-318) C-terminal domain of the electron transfer flavoprotein alpha subunit {Methylophilus methylotrophus [TaxId: 17]}

class: Alpha and beta proteins (a/b)
fold: DHS-like NAD/FAD-binding domain
superfamily: DHS-like NAD/FAD-binding domain
family: C-terminal domain of the electron transfer flavoprotein alpha subunit
domain: C-terminal domain of the electron transfer flavoprotein alpha subunit
species: Methylophilus methylotrophus [TaxId: 17]

Probab=99.95  E-value=7.4e-30  Score=203.41  Aligned_cols=106  Identities=16%  Similarity=0.199  Sum_probs=101.2

Q ss_pred             cccccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEE--------EeecCccceeeeeec-CCcEEEEEeec
Q 038893            6 GLSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIE--------VEVDKPLGLTLGQKP-GGGVVITAVEG   76 (235)
Q Consensus         6 ~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~--------v~~~kplGl~~g~~~-~~~vyIa~~is   76 (235)
                      .++|++|+++|++     |||++++++|+++++||+.|||++++|        ++.++|+|+ +|+++ +|+|||++|||
T Consensus         1 dvdL~~A~vVV~~-----GrG~~~~e~~~~~~eLA~~lga~vg~SRp~vd~gw~~~~~qIG~-sG~~v~~P~lYia~GIS   74 (123)
T d3clsd2           1 DIDITTVDFIMSI-----GRGIGEETNVEQFRELADEAGATLCCSCPIADAGWLPKSRQVGQ-SGKVVGSCKLYVAMGIS   74 (123)
T ss_dssp             SCCTTSCSEEEEE-----CGGGCSGGGHHHHHHHHHHHTCEEEECHHHHHTTSSCGGGBBSS-SSBCCTTCSEEEEESCC
T ss_pred             CCCcccCCEEEEC-----CCCCCCHHHHHHHHHHHHHhhcceeeccHHHHcCCCChhheEec-CCccccCCcEEEEEccc
Confidence            4789999999998     999999999999999999999999999        778899999 99998 79999999999


Q ss_pred             chHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCceeeeecccc
Q 038893           77 GGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRL  138 (235)
Q Consensus        77 G~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~  138 (235)
                      |+.||++||+.+                     ++|+|||+||+||||+++|||+++|++++
T Consensus        75 Ga~QH~~Gm~~s---------------------~~IVAIN~D~~ApIf~~adygiVgD~~ev  115 (123)
T d3clsd2          75 GSIQHMAGMKHV---------------------PTIIAVNTDPGASIFTIAKYGIVADIFDI  115 (123)
T ss_dssp             CCHHHHHHHTTC---------------------SEEEEECSCTTCGGGGTCSEEECSCHHHH
T ss_pred             chHHHHHhccCC---------------------CEEEEEcCCCCCCchhhCCEEEEeeHHHH
Confidence            999999999999                     47899999999999999999999999986

>d1efva2 c.31.1.2 (A:208-331) C-terminal domain of the electron transfer flavoprotein alpha subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: DHS-like NAD/FAD-binding domain
superfamily: DHS-like NAD/FAD-binding domain
family: C-terminal domain of the electron transfer flavoprotein alpha subunit
domain: C-terminal domain of the electron transfer flavoprotein alpha subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=1.8e-29  Score=201.52  Aligned_cols=105  Identities=22%  Similarity=0.188  Sum_probs=101.0

Q ss_pred             ccccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEE--------EeecCccceeeeeecCCcEEEEEeecch
Q 038893            7 LSLQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIE--------VEVDKPLGLTLGQKPGGGVVITAVEGGG   78 (235)
Q Consensus         7 ~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~--------v~~~kplGl~~g~~~~~~vyIa~~isG~   78 (235)
                      .+|++|++||++     |||++++++|+++++||+.|||++++|        ++.++|+|+ +|++++|+|||++||||+
T Consensus         3 ~dl~~A~ivV~~-----GrG~~~~e~~~~~~~lA~~lga~vg~SR~~vd~gw~~~~~qIG~-SG~~V~P~lyia~GISGa   76 (124)
T d1efva2           3 PELTGAKVVVSG-----GRGLKSGENFKLLYDLADQLHAAVGASRAAVDAGFVPNDMQVGQ-TGKIVAPELYIAVGISGA   76 (124)
T ss_dssp             CCGGGCSEEEEE-----CGGGCSTGGGHHHHHHHHHHTCEEEECHHHHHTTSSCGGGBBST-TSBCCCCSEEEEESCCCC
T ss_pred             CCccCCCEEEEC-----CCCcCCHHHHHHHHHHHHHhCCeeeEeehhhhCCCcccceeecc-cceEeCCcEEEEecchhH
Confidence            579999999998     999999999999999999999999999        778899999 999999999999999999


Q ss_pred             HHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCceeeeecccc
Q 038893           79 NAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRL  138 (235)
Q Consensus        79 ~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~  138 (235)
                      .||++||+.++                     +|+|||+||+||||+++|||+++|++++
T Consensus        77 ~QH~~Gi~~s~---------------------~IvAIN~D~~ApIf~~aD~giVgD~~ev  115 (124)
T d1efva2          77 IQHLAGMKDSK---------------------TIVAINKDPEAPIFQVADYGIVADLFKV  115 (124)
T ss_dssp             HHHHTTTTTCS---------------------EEEEEESCTTCGGGGTCSEEEESCHHHH
T ss_pred             HHHHhhccCCC---------------------EEEEEeCCCCCCccccCCEEEeccHHHH
Confidence            99999999994                     7899999999999999999999999986

>d1iroa_ g.41.5.1 (A:) Rubredoxin {Clostridium pasteurianum [TaxId: 1501]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Clostridium pasteurianum [TaxId: 1501]

Probab=99.66  E-value=1.4e-17  Score=114.44  Aligned_cols=42  Identities=36%  Similarity=0.868  Sum_probs=39.2

Q ss_pred             cceEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCeeecc
Q 038893          158 RATHICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRFARYD  199 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F~~~~  199 (235)
                      |.+|+|++||||||++           |+|++||++|+||+|+++|++|+.++
T Consensus         1 M~ky~C~~CgyiYd~~~Gd~~~gi~pGT~F~~LP~dw~CP~C~a~K~~F~~ie   53 (53)
T d1iroa_           1 MKKYTCTVCGYIYNPEDGDPDNGVNPGTDFKDIPDDWVCPLCGVGKDQFEEVE   53 (53)
T ss_dssp             CCCEEETTTCCEECTTTCBGGGTBCTTCCGGGSCTTCBCTTTCCBGGGEEECC
T ss_pred             CCCeEcCCCCcEECcccCCcccCCCCCCCHHHCCCCCCCcCCCCcHHHcEECC
Confidence            5689999999999997           79999999999999999999999874

>d6rxna_ g.41.5.1 (A:) Rubredoxin {Desulfovibrio desulfuricans, strain 27774 [TaxId: 876]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Desulfovibrio desulfuricans, strain 27774 [TaxId: 876]

Probab=99.65  E-value=1.7e-17  Score=110.45  Aligned_cols=40  Identities=40%  Similarity=0.911  Sum_probs=37.6

Q ss_pred             cceEEcCCCceEEeCC----CCCCCCCCCCCCCCCCCCccCeee
Q 038893          158 RATHICLDCGYIYFLQ----KPFDELPDTYVCPQCQAPKKRFAR  197 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~----tpfe~lped~~CP~C~a~k~~F~~  197 (235)
                      |.+|+|++||||||++    |+|++||++|+||+|+++|++|++
T Consensus         1 M~~y~C~~CgyiYd~~~Gdgt~Fe~LP~dw~CP~C~a~K~~F~P   44 (45)
T d6rxna_           1 MQKYVCNVCGYEYDPAEHDNVPFDQLPDDWCCPVCGVSKDQFSP   44 (45)
T ss_dssp             CCCEEETTTCCEECGGGGTTCCGGGSCTTCBCTTTCCBGGGEEE
T ss_pred             CCCeEeCCCCeEECcccCCCCCHHHCCCCCCCcCCCCcHHHccc
Confidence            5689999999999986    899999999999999999999986

>d1s24a_ g.41.5.1 (A:) Two-iron rubredoxin {Pseudomonas oleovorans [TaxId: 301]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Two-iron rubredoxin
species: Pseudomonas oleovorans [TaxId: 301]

Probab=99.64  E-value=5.1e-17  Score=112.73  Aligned_cols=43  Identities=35%  Similarity=0.885  Sum_probs=40.2

Q ss_pred             cceEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCeeeccC
Q 038893          158 RATHICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRFARYDV  200 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F~~~~~  200 (235)
                      +.+|+|++|||+||++           |+|++||++|+||+|+++|++|+.+++
T Consensus         2 ~kky~C~~CgyiYdp~~Gd~~~gi~pGT~F~~LP~dw~CP~C~a~K~~F~~~ee   55 (56)
T d1s24a_           2 YLKWICITCGHIYDEALGDEAEGFTPGTRFEDIPDDWCCPDCGATKEDYVLYEE   55 (56)
T ss_dssp             CCEEEETTTTEEEETTSCCTTTTCCSCCCGGGCCTTCCCSSSCCCGGGEEECSC
T ss_pred             CccEECCCCCcEECcccCCcccCcCCCCChhhCCCCCCCcCCCCcHHHceEccc
Confidence            4589999999999987           799999999999999999999999876

>d1brfa_ g.41.5.1 (A:) Rubredoxin {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=99.64  E-value=4.4e-17  Score=111.95  Aligned_cols=42  Identities=48%  Similarity=1.024  Sum_probs=39.2

Q ss_pred             ceEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCeeeccC
Q 038893          159 ATHICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRFARYDV  200 (235)
Q Consensus       159 ~~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F~~~~~  200 (235)
                      ++|+|++||||||++           |+|++||++|+||+|+++|++|+.+++
T Consensus         1 aky~C~~CgyiYd~~~Gd~~~gi~pGT~f~dLP~dw~CP~C~a~K~~F~~~ed   53 (53)
T d1brfa_           1 AKWVCKICGYIYDEDAGDPDNGISPGTKFEELPDDWVCPICGAPKSEFEKLED   53 (53)
T ss_dssp             CEEEETTTCCEEETTTCBGGGTBCTTCCGGGSCTTCBCTTTCCBGGGEEESCC
T ss_pred             CceECCCCCcEECcccCCcccCCCCCCCHHHCCCCCCCcCCCCcHHHceEccC
Confidence            479999999999998           799999999999999999999998864

>d1dx8a_ g.41.5.1 (A:) Rubredoxin {Guillardia theta [TaxId: 55529]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Guillardia theta [TaxId: 55529]

Probab=99.63  E-value=8.7e-17  Score=116.15  Aligned_cols=53  Identities=30%  Similarity=0.716  Sum_probs=45.9

Q ss_pred             ccceEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCeeeccCCCCCCCCCCC
Q 038893          157 ARATHICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRFARYDVNTGKPIGSGL  210 (235)
Q Consensus       157 ~~~~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F~~~~~~~~~~~g~~~  210 (235)
                      ...+|+|++||||||++           |+|++||++|+||+|+++|++|+.+++ ...|+--|+
T Consensus         4 ~~~ky~C~~CgyiYDp~~GD~~~gI~pGT~F~dLP~dW~CP~Cga~K~~F~~~~~-~~agf~~N~   67 (70)
T d1dx8a_           4 DEGKYECEACGYIYEPEKGDKFAGIPPGTPFVDLSDSFMCPACRSPKNQFKSIKK-VIAGFAENQ   67 (70)
T ss_dssp             CSSCEEETTTCCEECTTTCCTTTTCCSSCCGGGSCTTCBCTTTCCBGGGEEECCC-BCCCSCCCS
T ss_pred             cCCeEEcCCCCeEECcccCCcccCCCCCCChHHCCCCCCCcCCCCcHHHheEccc-ccCChHHhc
Confidence            45689999999999998           799999999999999999999999977 456665443

>d2dsxa1 g.41.5.1 (A:1-52) Rubredoxin {Desulfovibrio gigas [TaxId: 879]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Desulfovibrio gigas [TaxId: 879]

Probab=99.61  E-value=1.1e-16  Score=109.47  Aligned_cols=40  Identities=38%  Similarity=0.880  Sum_probs=37.8

Q ss_pred             cceEEcCCCceEEeCC-----------CCCCCCCCCCCCCCCCCCccCeee
Q 038893          158 RATHICLDCGYIYFLQ-----------KPFDELPDTYVCPQCQAPKKRFAR  197 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~-----------tpfe~lped~~CP~C~a~k~~F~~  197 (235)
                      |.+|+|++|||+||++           |+|++||++|+||+|+++|++|+.
T Consensus         1 M~~y~C~~CgyiYdp~~Gd~~~gi~pGT~F~~LP~~w~CP~C~a~K~~F~k   51 (52)
T d2dsxa1           1 MDIYVCTVCGYEYDPAKGDPDSGIKPGTKFEDLPDDWACPVCGASKDAFEK   51 (52)
T ss_dssp             CCCEEETTTCCEECTTTCBGGGTBCTTCCGGGSCTTCBCTTTCCBGGGEEE
T ss_pred             CCeEEeCCCCeEECcccCCcccCCCCCCCHHHCCCCCCCcCCCCcHHHhcc
Confidence            5689999999999998           799999999999999999999985

>d1nnqa2 g.41.5.1 (A:135-171) Rubrerythrin, C-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubrerythrin, C-terminal domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=99.10  E-value=2.5e-11  Score=77.18  Aligned_cols=34  Identities=41%  Similarity=0.937  Sum_probs=30.6

Q ss_pred             ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeecc
Q 038893          159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYD  199 (235)
Q Consensus       159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~~  199 (235)
                      ..|+|++|||+|.+     ++|+  +||+|+++++.|+.++
T Consensus         4 ~~~~C~vCG~i~~g-----~~P~--~CPvCg~~~~~F~~~e   37 (37)
T d1nnqa2           4 KVYICPICGYTAVD-----EAPE--YCPVCGAPKEKFVVFE   37 (37)
T ss_dssp             CEEECTTTCCEEES-----CCCS--BCTTTCCBGGGSEEEC
T ss_pred             cEEECCCCCCEecC-----CCCC--cCCCCCCcHHHcEEcC
Confidence            47999999999998     5777  8999999999999864

>d1lkoa2 g.41.5.1 (A:148-191) Rubrerythrin, C-terminal domain {Desulfovibrio vulgaris [TaxId: 881]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubrerythrin, C-terminal domain
species: Desulfovibrio vulgaris [TaxId: 881]

Probab=99.07  E-value=1.7e-11  Score=80.69  Aligned_cols=38  Identities=32%  Similarity=0.782  Sum_probs=33.1

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeeccCC
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARYDVN  201 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~~~~  201 (235)
                      ...|+|++|||+|++.    ++|+  .||+|+++++.|+...++
T Consensus         6 ~~~W~C~~CGyi~~g~----~aP~--~CPvC~~p~~~Fe~~~en   43 (44)
T d1lkoa2           6 ATKWRCRNCGYVHEGT----GAPE--LCPACAHPKAHFELLGIN   43 (44)
T ss_dssp             EEEEEETTTCCEEEEE----ECCS--BCTTTCCBGGGEEECCCC
T ss_pred             CeEEEcCCCCcEEECC----CCCC--cCCCCCCcHHHHeecccC
Confidence            4589999999999994    6777  999999999999987653

>d1yuza2 g.41.5.1 (A:167-202) Nigerythrin, C-terminal domain {Desulfovibrio vulgaris [TaxId: 881]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Nigerythrin, C-terminal domain
species: Desulfovibrio vulgaris [TaxId: 881]

Probab=99.04  E-value=7e-11  Score=74.64  Aligned_cols=33  Identities=42%  Similarity=0.806  Sum_probs=29.4

Q ss_pred             ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCeeec
Q 038893          159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRFARY  198 (235)
Q Consensus       159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F~~~  198 (235)
                      ..|+|++|||+|.+     +.|+  +||+|+++++.|+.+
T Consensus         4 ~~~vC~vCGyi~~g-----~~Pe--~CPvCg~~~~~F~~f   36 (36)
T d1yuza2           4 KFHLCPICGYIHKG-----EDFE--KCPICFRPKDTFTAY   36 (36)
T ss_dssp             CEEECSSSCCEEES-----SCCS--BCTTTCCBGGGCEEC
T ss_pred             CEEECCCCCCEeeC-----CCCC--cCCCCCCcHHHcCcC
Confidence            47999999999998     5677  899999999999864

>d1rgwa_ b.36.1.1 (A:) Zasp (Cypher, Oracle 1) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Zasp (Cypher, Oracle 1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.06  E-value=0.0008  Score=47.74  Aligned_cols=76  Identities=17%  Similarity=0.237  Sum_probs=50.7

Q ss_pred             EEEeec--Cccceeeee--ecCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceE
Q 038893           49 IEVEVD--KPLGLTLGQ--KPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYF  124 (235)
Q Consensus        49 ~~v~~~--kplGl~~g~--~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if  124 (235)
                      ++|++.  .|+|+.+.-  .....+||..+.+|+.|+++|++.||.|..+--.-= .-|++   .+.+..|....+...|
T Consensus         3 ~~V~l~~~~~~Gf~i~gg~~~~~~v~V~~v~~gs~A~~~~L~~GD~Il~VNg~~v-~~~s~---~ev~~~i~~~~~~v~L   78 (85)
T d1rgwa_           3 YSVTLTGPGPWGFRLQGGKDFNMPLTISRITPGSKAAQSQLSQGDLVVAIDGVNT-DTMTH---LEAQNKIKSASYNLSL   78 (85)
T ss_dssp             EEEEECCSSCCCEEECCCGGGTSCCBEEEECTTSHHHHSSCCCCSBEEEETTEEC-TTCCH---HHHHHHHTTCSSCEEE
T ss_pred             EEEEecCCCCCCEEEEeecCCCCCEEEEEecCCChHHhCCCCCCCEEEEECCEEC-CCCCH---HHHHHHHHcCCCEEEE
Confidence            677775  678887653  234569999999999999999999998866522210 11222   2344556555666667


Q ss_pred             EecC
Q 038893          125 VVNR  128 (235)
Q Consensus       125 ~~~~  128 (235)
                      .+.|
T Consensus        79 ~V~R   82 (85)
T d1rgwa_          79 TLQK   82 (85)
T ss_dssp             EEES
T ss_pred             EEEE
Confidence            7665

>d1kwaa_ b.36.1.1 (A:) Cask/Lin-2 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Cask/Lin-2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.71  E-value=0.00072  Score=48.30  Aligned_cols=40  Identities=25%  Similarity=0.492  Sum_probs=34.5

Q ss_pred             CccceeeeeecCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           55 KPLGLTLGQKPGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .++|+.+....++.+||..+.+|+.|+++| |++||.|..+
T Consensus        13 ~~lG~~l~~~~~~~~~I~~v~~gg~A~~~g~l~~GD~Il~I   53 (88)
T d1kwaa_          13 EPMGITLKMNELNHCIVARIMHGGMIHRQGTLHVGDEIREI   53 (88)
T ss_dssp             SCCCEEEECSCGGGEEEEEECTTSHHHHHTCCCTTCEEEEE
T ss_pred             CCccEEEEEcCCCCEEEEEECCCCHHHHcCCCccCcEEEEE
Confidence            478988766667899999999999999999 9999987655

>d1um1a_ b.36.1.1 (A:) Hypothetical protein KIAA1849 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Hypothetical protein KIAA1849
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.65  E-value=0.0035  Score=46.09  Aligned_cols=76  Identities=26%  Similarity=0.353  Sum_probs=52.2

Q ss_pred             EEEeecC---ccceeeeee-----cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCC
Q 038893           49 IEVEVDK---PLGLTLGQK-----PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP  119 (235)
Q Consensus        49 ~~v~~~k---plGl~~g~~-----~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~  119 (235)
                      ++|++.|   .+|+.+...     ..+.+||..+.+|+.|+++| |++||.|..+-   |..+ ......+++..|++.+
T Consensus        10 ~~V~l~k~~~glG~~i~~~~~~~~~~~~i~V~~v~~gg~A~~~G~L~~GD~Il~IN---g~~v-~~~~~~ev~~llk~~~   85 (110)
T d1um1a_          10 FTVELERGPSGLGMGLIDGMHTHLGAPGLYIQTLLPGSPAAADGRLSLGDRILEVN---GSSL-LGLGYLRAVDLIRHGG   85 (110)
T ss_dssp             EEEEEECCTTCCCEEEEETTTSTTCCSSEEEEEECTTSHHHHHSCCCTTCEEEEES---SCBC-SSCCHHHHHHHHHTCC
T ss_pred             EEEEEEECCCCCCEEEEeecCCCCCCCCEEEEEECCCCHHHHcCCCccCCEEEEEC---CEEC-CCCCHHHHHHHHHcCC
Confidence            5677753   577765432     24579999999999999999 99999987763   3222 2222334556667667


Q ss_pred             CCceEEecC
Q 038893          120 DSVYFVVNR  128 (235)
Q Consensus       120 ~a~if~~~~  128 (235)
                      +.+.|.+.+
T Consensus        86 ~~v~l~v~r   94 (110)
T d1um1a_          86 KKMRFLVAK   94 (110)
T ss_dssp             SEEEEEEEC
T ss_pred             CeEEEEEEe
Confidence            777777765

>d1x5qa1 b.36.1.1 (A:8-104) Scribble (KIAA0147) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Scribble (KIAA0147)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.60  E-value=0.003  Score=45.52  Aligned_cols=76  Identities=25%  Similarity=0.390  Sum_probs=46.3

Q ss_pred             EEEeecC---ccceeeee--------ecCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhc
Q 038893           49 IEVEVDK---PLGLTLGQ--------KPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQA  117 (235)
Q Consensus        49 ~~v~~~k---plGl~~g~--------~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~  117 (235)
                      .++++.|   .+|+.+.-        ...+.+||..+.+|+.|+++||++||.|..+-   |..+- .-..-..+..++.
T Consensus        10 ~~v~l~k~~~glG~~i~gg~~~~~~~~~~~~i~V~~V~~gg~A~~~GL~~GD~Il~VN---g~~v~-~~~~~~~~~~l~~   85 (97)
T d1x5qa1          10 LTLTILRQTGGLGISIAGGKGSTPYKGDDEGIFISRVSEEGPAARAGVRVGDKLLEVN---GVALQ-GAEHHEAVEALRG   85 (97)
T ss_dssp             EEEEEECSSSSCSEEEEECTTSCCSSTTCCSEEEEEECTTSHHHHHTCCTTCEEEEET---TEECT-TCCHHHHHHHHHS
T ss_pred             EEEEEEeCCCeeCEEEEeccCCCCccCCCCCEEEEEECCCChhHhhcccCCCEEEEEC---CEECC-CCCHHHHHHHHhC
Confidence            3455543   37776642        13467999999999999999999999876552   32221 1112233445555


Q ss_pred             CCCCceEEecC
Q 038893          118 KPDSVYFVVNR  128 (235)
Q Consensus       118 ~~~a~if~~~~  128 (235)
                      ..+...|.+.|
T Consensus        86 ~~~~v~l~v~R   96 (97)
T d1x5qa1          86 AGTAVQMRVWR   96 (97)
T ss_dssp             CCSEEEEEEEE
T ss_pred             CCCEEEEEEEE
Confidence            55555555543

>d1ihja_ b.36.1.1 (A:) Inad {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Inad
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.57  E-value=0.0021  Score=45.98  Aligned_cols=77  Identities=18%  Similarity=0.162  Sum_probs=51.2

Q ss_pred             EEEeec----Cccceeeeee--------cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhh
Q 038893           49 IEVEVD----KPLGLTLGQK--------PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAI  115 (235)
Q Consensus        49 ~~v~~~----kplGl~~g~~--------~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AI  115 (235)
                      .+|++.    .++|+.+...        ...++||..+.+|+.|+++| +++||.|..+--.-= .-|++   ...+..|
T Consensus         5 ~~V~L~k~~~~~lG~~i~gg~~~~~~~~~~~gi~I~~v~~gs~A~~~G~L~~GD~Il~VNg~~v-~~~~~---~~~~~ll   80 (94)
T d1ihja_           5 HMVTLDKTGKKSFGICIVRGEVKDSPNTKTTGIFIKGIVPDSPAHLCGRLKVGDRILSLNGKDV-RNSTE---QAVIDLI   80 (94)
T ss_dssp             EEEEEECTTSSSCCEEEEEEEECCSSSCCEEEEEEEEECTTSHHHHHCSCCTTCEEEEETTEEC-TTCCH---HHHHHHH
T ss_pred             EEEEEEeCCCCCcCEEEeccccCCCCccCCCCEEEEEECCCCHHHHhCCCChhcEEEEECCEEC-CCCCH---HHHHHHH
Confidence            456665    3588776431        12359999999999999999 999999877632111 11233   3345566


Q ss_pred             hcCCCCceEEecCc
Q 038893          116 QAKPDSVYFVVNRG  129 (235)
Q Consensus       116 n~~~~a~if~~~~~  129 (235)
                      .+.++...|.+++|
T Consensus        81 ~~~~~~v~L~V~R~   94 (94)
T d1ihja_          81 KEADFKIELEIQTF   94 (94)
T ss_dssp             HHSCSEEEEEEEEC
T ss_pred             HcCCCEEEEEEEeC
Confidence            66677788888775

>d1rgra_ b.36.1.1 (A:) Synaptic protein PSD-95 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Synaptic protein PSD-95
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.55  E-value=0.0025  Score=45.52  Aligned_cols=75  Identities=23%  Similarity=0.378  Sum_probs=50.0

Q ss_pred             EEeec---Cccceeeee-------ecCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcC
Q 038893           50 EVEVD---KPLGLTLGQ-------KPGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK  118 (235)
Q Consensus        50 ~v~~~---kplGl~~g~-------~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~  118 (235)
                      +|++.   ..+|+.+.-       ...+.+||..+.+|+.|+++| ++.||.|..+-   |..+ ......+.+..|.+.
T Consensus         4 ~V~l~k~~~glG~~i~gg~~~~~~~~~~gi~I~~V~~gg~A~~~G~L~~GD~Il~VN---g~~v-~~~s~~e~~~~l~~~   79 (93)
T d1rgra_           4 EITLERGNSGLGFSIAGGTDNPHIGDDPSIFITKIIPGGAAAQDGRLRVNDSILFVN---EVDV-REVTHSAAVEALKEA   79 (93)
T ss_dssp             EEEEECCSSCCSEEECCCSSSCSCTTCCCCCEEEECTTSHHHHHCCCCTTCEEEEET---TEEC-SSSCHHHHHHHHHHT
T ss_pred             EEEEEeCCCcCCEEEEeecCCCCcCCCCCEEEEEECCCChHHhcCCCCcCcEEEEEC---CEEC-CCCCHHHHHHHHHcC
Confidence            45554   457876631       135689999999999999999 99999987763   2222 112233445666666


Q ss_pred             CCCceEEecC
Q 038893          119 PDSVYFVVNR  128 (235)
Q Consensus       119 ~~a~if~~~~  128 (235)
                      ++.+.|.+.|
T Consensus        80 ~~~v~L~v~R   89 (93)
T d1rgra_          80 GSIVRLYVMR   89 (93)
T ss_dssp             TTEEEEEEEC
T ss_pred             CCEEEEEEEe
Confidence            6677777655

>d2f0aa1 b.36.1.1 (A:251-342) Segment polarity protein dishevelled homolog Dvl-2 {African clawed frog (Xenopus laevis) [TaxId: 8355]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Segment polarity protein dishevelled homolog Dvl-2
species: African clawed frog (Xenopus laevis) [TaxId: 8355]

Probab=96.52  E-value=0.0024  Score=45.81  Aligned_cols=78  Identities=24%  Similarity=0.370  Sum_probs=50.9

Q ss_pred             EEeecC----ccceeeeee----cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCCC
Q 038893           50 EVEVDK----PLGLTLGQK----PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPD  120 (235)
Q Consensus        50 ~v~~~k----plGl~~g~~----~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~  120 (235)
                      +|++.|    .+|+.+.-.    .++.+||..+.+|+.|+++| +++||.|..+--.-= +-++++++=.++.....+++
T Consensus         4 tV~l~k~~~~~lGi~i~gg~~~~~~~~i~I~~I~~gg~A~~~G~L~~GD~Il~VNg~~l-~~~s~~eav~llk~~~~~~~   82 (92)
T d2f0aa1           4 TVTLNMEKYNFLGISIVGQSNERGDGGIYIGSIMKGGAVAADGRIEPGDMLLQVNDINF-ENMSNDDAVRVLRDIVHKPG   82 (92)
T ss_dssp             EEEECHHHHCSCCEEEECCCCTTSCCCEEEEEEBTTSHHHHHCCCCTTCEEEEETTEEC-TTCCHHHHHHHHHHHHHSSS
T ss_pred             EEEEEeCCCCccCEEEEccCCCCCCCCEEEEEECCCCcHHHcCCCCCccEEEEECCEEC-CCCCHHHHHHHHHhccCCCC
Confidence            455543    488876432    24689999999999999999 999999877632211 12344444344444445566


Q ss_pred             CceEEecC
Q 038893          121 SVYFVVNR  128 (235)
Q Consensus       121 a~if~~~~  128 (235)
                      ...|.+++
T Consensus        83 ~v~L~V~R   90 (92)
T d2f0aa1          83 PIVLTVAK   90 (92)
T ss_dssp             CEEEEEEC
T ss_pred             cEEEEEEe
Confidence            67777765

>d1n7ea_ b.36.1.1 (A:) Glutamate receptor-interacting protein 1, GRIP1 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Glutamate receptor-interacting protein 1, GRIP1
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.49  E-value=0.0022  Score=46.27  Aligned_cols=74  Identities=24%  Similarity=0.470  Sum_probs=50.1

Q ss_pred             EEEeecC---ccceeeeee--cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCC--CccccCccchhhhhhhcCCC
Q 038893           49 IEVEVDK---PLGLTLGQK--PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGD--ELWPADKLGFTKTAIQAKPD  120 (235)
Q Consensus        49 ~~v~~~k---plGl~~g~~--~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~--~lW~~~~~g~~i~AIn~~~~  120 (235)
                      ++|+++|   ++|+.+...  ....+||..+.+|+.|+++| +++||.|..+   -|.  .-|++++   .+..|++-.+
T Consensus         5 ~tV~l~k~~~~lG~~i~g~~~~~~~v~I~~I~~g~~A~~~g~L~~GD~Il~I---Ng~~v~~~~~~e---v~~~l~~~~~   78 (95)
T d1n7ea_           5 YTVELKRYGGPLGITISGTEEPFDPIIISSLTKGGLAERTGAIHIGDRILAI---NSSSLKGKPLSE---AIHLLQMAGE   78 (95)
T ss_dssp             EEEEEECTTSCCCEEEECCSSTTSCCEEEEECTTSHHHHHTCCCTTCEEEEE---TTEECTTCCHHH---HHHHHHTCCS
T ss_pred             EEEEEEECCCcEeEEEEecccCCCCEEEEEECCCChHHhcCCCCCCCEEEEE---CCEECCCCCHHH---HHHHHHcCCC
Confidence            7888876   688877532  34569999999999999999 9999988665   222  2233333   3334444455


Q ss_pred             CceEEecC
Q 038893          121 SVYFVVNR  128 (235)
Q Consensus       121 a~if~~~~  128 (235)
                      ...|.+.+
T Consensus        79 ~v~l~v~r   86 (95)
T d1n7ea_          79 TVTLKIKK   86 (95)
T ss_dssp             EEEEEEEC
T ss_pred             eEEEEEEE
Confidence            66666655

>d1w9ea1 b.36.1.1 (A:110-194) Syntenin 1 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Syntenin 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.49  E-value=0.0017  Score=45.85  Aligned_cols=39  Identities=33%  Similarity=0.525  Sum_probs=33.6

Q ss_pred             CccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           55 KPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      .++|+.+... ++++||..+.+|+.|+++|++.||.|..+
T Consensus        14 ~~lG~~l~~~-~~g~~V~~v~~gspA~~aGL~~GD~Il~V   52 (85)
T d1w9ea1          14 GKIGLRLKSI-DNGIFVQLVQANSPASLVGLRFGDQVLQI   52 (85)
T ss_dssp             SCCSEEEEEE-TTEEEEEEECTTSHHHHTTCCTTCEEEEE
T ss_pred             CCEeEEEEeC-CCCEEEEEECCCCHHHHcCCCCccEEEEE
Confidence            4688877654 56899999999999999999999988665

>d2fe5a1 b.36.1.1 (A:223-314) Synapse-associated protein 102 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Synapse-associated protein 102
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.42  E-value=0.0043  Score=44.23  Aligned_cols=75  Identities=28%  Similarity=0.423  Sum_probs=49.0

Q ss_pred             EEeec---Cccceeeeee-------cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcC
Q 038893           50 EVEVD---KPLGLTLGQK-------PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAK  118 (235)
Q Consensus        50 ~v~~~---kplGl~~g~~-------~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~  118 (235)
                      +|++.   .++|+.+.-.       .+..+||..+.+|+.|+++| +++||.|..+   -|..+ ..-...+.+..|.+-
T Consensus         4 ~V~L~k~~~glG~~i~gg~~~~~~~~~~gi~I~~v~~gg~A~~~G~L~~GD~Il~V---Ng~~v-~~~~~~e~~~~lk~~   79 (92)
T d2fe5a1           4 EVNLLKGPKGLGFSIAGGIGNQHIPGDNSIYITKIIEGGAAQKDGRLQIGDRLLAV---NNTNL-QDVRHEEAVASLKNT   79 (92)
T ss_dssp             EEEEECCTTCSCEEEEECBTSCSBTTBCCEEEEEECTTSHHHHHCCCCTTCEEEEE---TTEEC-TTCBHHHHHHHHHTC
T ss_pred             EEEEEECCCccCEEEEeecCCccCCCCCCEEEEEECCCCChhhcCCCCCCCEEEEe---CCeec-CCCCHHHHHHHHHcC
Confidence            45554   4477765311       24679999999999999999 9999988665   22222 112233445666666


Q ss_pred             CCCceEEecC
Q 038893          119 PDSVYFVVNR  128 (235)
Q Consensus       119 ~~a~if~~~~  128 (235)
                      ++...|.+.+
T Consensus        80 ~~~v~L~v~R   89 (92)
T d2fe5a1          80 SDMVYLKVAK   89 (92)
T ss_dssp             CSEEEEEEEC
T ss_pred             CCEEEEEEEC
Confidence            6677777766

>d1uita_ b.36.1.1 (A:) Discs large 5 protein KIAA0583 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Discs large 5 protein KIAA0583
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.23  E-value=0.0025  Score=47.64  Aligned_cols=70  Identities=24%  Similarity=0.354  Sum_probs=47.5

Q ss_pred             CccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecC
Q 038893           55 KPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        55 kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      .++|+.+.-..++.+||..+.+|+.|+++||+.||.|..+--.-= .-|+++   +.+..+....+.+.+.+.+
T Consensus        30 ~glG~~i~gg~~~gi~V~~V~~gs~A~~~gL~~GD~Il~INg~~v-~~~~~~---~~~~~l~~~~~~v~l~v~~   99 (117)
T d1uita_          30 EPLGISIVSGEKGGIYVSKVTVGSIAHQAGLEYGDQLLEFNGINL-RSATEQ---QARLIIGQQCDTITILAQY   99 (117)
T ss_dssp             CCCCEEEEECTTSCEEEEEECTTSHHHHHTCCTTCEECEETTEET-TTCCHH---HHHHHTTSCCSEEEEEECC
T ss_pred             CccCEEEEccCCCCEEEEEEecCChHHhCCCCCCCEeeeECCccc-CCCCHH---HHHHHHHCCCCeEEEEEEE
Confidence            579988766667899999999999999999999998866543211 112222   2334455555555665554

>d1wf8a1 b.36.1.1 (A:8-101) Neurabin-i {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Neurabin-i
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.22  E-value=0.0036  Score=44.80  Aligned_cols=74  Identities=27%  Similarity=0.501  Sum_probs=48.3

Q ss_pred             EEEeec---Cccceeeee-e-------cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCc--cccCccchhhhh
Q 038893           49 IEVEVD---KPLGLTLGQ-K-------PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDEL--WPADKLGFTKTA  114 (235)
Q Consensus        49 ~~v~~~---kplGl~~g~-~-------~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~l--W~~~~~g~~i~A  114 (235)
                      ++|++.   .++|+.+.- .       .+..+||..+.+|+.|+++| +++||.|..+-   |..+  ++++   +.+..
T Consensus         4 ~~V~L~k~~~glG~~i~g~~~~~~~~~~~~gi~V~~v~~gg~A~~~G~L~~GD~Il~VN---g~~v~~~~~~---~~~~~   77 (94)
T d1wf8a1           4 FPVELEKDEDGLGISIIGMGVGADAGLEKLGIFVKTVTEGGAAQRDGRIQVNDQIVEVD---GISLVGVTQN---FAATV   77 (94)
T ss_dssp             EEEEEECBTTBSCEEEEEEEESCCTTCCEEEEEEEEECTTCHHHHHCSSCTTCBEEEET---TEECBSCCHH---HHHHH
T ss_pred             EEEEEEeCCCCcCEEEEeccCCCCCCcCCCCEEEEEECCCChHHHcCCCCcCCEEEEEC---CEECCCCCHH---HHHHH
Confidence            456665   457776531 1       23469999999999999999 99999887663   2211  2222   33455


Q ss_pred             hhcCCCCceEEecC
Q 038893          115 IQAKPDSVYFVVNR  128 (235)
Q Consensus       115 In~~~~a~if~~~~  128 (235)
                      +++-++...|.+.+
T Consensus        78 l~~~~~~v~L~V~R   91 (94)
T d1wf8a1          78 LRNTKGNVRFVIGR   91 (94)
T ss_dssp             HHHCCSEEEEEEEE
T ss_pred             HHcCCCeEEEEEEe
Confidence            66666666666654

>d1m5za_ b.36.1.1 (A:) Glutamate receptor interacting protein {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Glutamate receptor interacting protein
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.16  E-value=0.0042  Score=44.39  Aligned_cols=67  Identities=18%  Similarity=0.286  Sum_probs=46.4

Q ss_pred             ccceeeeee-cCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCc--cccCccchhhhhhhcCCCCceEEecC
Q 038893           56 PLGLTLGQK-PGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDEL--WPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        56 plGl~~g~~-~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~l--W~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      .+|+.+... ..+++||..+.+|+.|+++|++.||.|+.+   -|..+  |++.   ..+..|.+.++...|.+.|
T Consensus        20 ~~Gf~i~~~~~~~g~~V~~V~~~g~A~~~gL~~GD~Il~V---Ng~~v~~~t~~---~~~~~l~~~~~~v~L~v~R   89 (91)
T d1m5za_          20 DFGFSVADGLLEKGVYVKNIRPAGPGDLGGLKPYDRLLQV---NHVRTRDFDCC---LVVPLIAESGNKLDLVISR   89 (91)
T ss_dssp             SSSEEEEECTTSSCEEEEEECTTSHHHHHTCCTTCEEEEE---TTEECTTCCHH---HHHHHHHTSTTEEEEEEEE
T ss_pred             ceeEEEeccCCCCCEEEEEECCCChhHhCcCCCCCEEEEE---CCEECCCCCHH---HHHHHHHCCCCEEEEEEEE
Confidence            478876543 467899999999999999999999987543   23222  3332   3455566666667676665

>d2fcfa1 b.36.1.1 (A:1148-1243) Multiple PDZ domain protein {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Multiple PDZ domain protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.12  E-value=0.0089  Score=42.74  Aligned_cols=59  Identities=29%  Similarity=0.386  Sum_probs=39.8

Q ss_pred             CCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecC
Q 038893           66 GGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      .+++||..+.+|+.|+++| +++||.|..+-   |..+- .-...+.+..|.+.++...|.+.+
T Consensus        35 ~~gi~V~~v~~~s~A~~~G~L~~GD~Il~VN---g~~v~-~~t~~ea~~~lk~~~~~v~L~V~r   94 (96)
T d2fcfa1          35 MRGIFIKHVLEDSPAGKNGTLKPGDRIVEVD---GMDLR-DASHEQAVEAIRKAGNPVVFMVQS   94 (96)
T ss_dssp             ---EEEEEECSSSHHHHHCCCCTTCEEEEET---TEECT-TCCHHHHHHHHHTCCSSEEEEEEC
T ss_pred             CCCEEEEEECCCCHHHHcCCCcCCCEEEEEC---CEECC-CCCHHHHHHHHHcCCCeEEEEEEE
Confidence            4689999999999999999 99999987762   22221 112234456666667777777765

>d1ozia_ b.36.1.1 (A:) Phosphatase hPTP1e {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Phosphatase hPTP1e
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.09  E-value=0.0048  Score=44.31  Aligned_cols=77  Identities=25%  Similarity=0.396  Sum_probs=50.6

Q ss_pred             EEEEeec---Cccceeeeee----------cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhh
Q 038893           48 TIEVEVD---KPLGLTLGQK----------PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKT  113 (235)
Q Consensus        48 ~~~v~~~---kplGl~~g~~----------~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~  113 (235)
                      .++|++.   .++|+.+...          ..+.+||..+.+|+.|+++| +++||.|..+-   |..+- .-...+.+.
T Consensus         5 ~~~V~L~k~~~~lG~~i~~~~~~~g~~~~~~~~~i~V~~V~~gg~A~~~G~L~~GD~Il~VN---g~~v~-~~s~~~a~~   80 (99)
T d1ozia_           5 TFEVELAKTDGSLGISVTVLFDKGGVNTSVRHGGIYVKAIIPKGAAESDGRIHKGDRVLAVN---GVSLE-GATHKQAVE   80 (99)
T ss_dssp             EEEEEEECCSSSCSEEEESCCSSSCSSCSSSCCCEEEEEECSSSHHHHHTCCCTTCEEEEET---TEECS-SCCHHHHHH
T ss_pred             EEEEEEEECCCCCcEEEEeeccCCCcccccCCCCEEEEEECCCChHHhcCCCCccCEEEEEC---CEEcC-CCCHHHHHH
Confidence            4567765   3577765321          24579999999999999999 99999887653   22221 112233455


Q ss_pred             hhhcCCCCceEEecC
Q 038893          114 AIQAKPDSVYFVVNR  128 (235)
Q Consensus       114 AIn~~~~a~if~~~~  128 (235)
                      .|..-.+.+.|.++|
T Consensus        81 ~lk~~~~~v~L~v~R   95 (99)
T d1ozia_          81 TLRNTGQVVHLLLEK   95 (99)
T ss_dssp             HHHHSCSEEEEEEEC
T ss_pred             HHHCCCCeEEEEEEe
Confidence            666666667777665

>d2z9ia1 b.36.1.4 (A:227-314) Protease PepD {Mycobacterium tuberculosis [TaxId: 1773]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: HtrA-like serine proteases
domain: Protease PepD
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.05  E-value=0.0025  Score=45.04  Aligned_cols=38  Identities=34%  Similarity=0.441  Sum_probs=32.0

Q ss_pred             cceeeeee-cCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           57 LGLTLGQK-PGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        57 lGl~~g~~-~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      ||+++... ...++||..+.+|+.|+++||+.||+|+.+
T Consensus         5 LGv~~~~~~~~~Gv~V~~V~~~spA~~aGl~~GD~I~~i   43 (88)
T d2z9ia1           5 LGVQVTNDKDTLGAKIVEVVAGGAAANAGVPKGVVVTKV   43 (88)
T ss_dssp             CCEEEECCC-CCSEEEEEECTTSTTGGGTCCTTCEEEEE
T ss_pred             EeEEEEecCCCCcEEEEEECCCCHHHHcCCCCCCEEEEe
Confidence            67777665 356899999999999999999999988665

>d2ak3a2 g.41.2.1 (A:125-161) Microbial and mitochondrial ADK, insert "zinc finger" domain {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Microbial and mitochondrial ADK, insert "zinc finger" domain
family: Microbial and mitochondrial ADK, insert "zinc finger" domain
domain: Microbial and mitochondrial ADK, insert "zinc finger" domain
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=96.04  E-value=0.0028  Score=39.20  Aligned_cols=31  Identities=16%  Similarity=0.103  Sum_probs=24.1

Q ss_pred             ceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          159 ATHICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       159 ~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      .+|+|+.||.+|.-...+...  +..|..|+.+
T Consensus         1 sR~vc~~cG~~Yh~~~~pPk~--~g~CD~cg~~   31 (37)
T d2ak3a2           1 ARWIHPGSGRVYNIEFNPPKT--MGIDDLTGEP   31 (37)
T ss_dssp             CEEEETTTTEEEETTTBCCSS--TTBCTTTCCB
T ss_pred             CceeeCCcCChhhhccCCccc--cCCccCCCCc
Confidence            379999999999987544444  4599999874

>d1vb7a_ b.36.1.1 (A:) PDZ-LIM protein mystique {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: PDZ-LIM protein mystique
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.87  E-value=0.004  Score=44.82  Aligned_cols=76  Identities=18%  Similarity=0.302  Sum_probs=49.9

Q ss_pred             EEEeec--Cccceeeeee--cCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceE
Q 038893           49 IEVEVD--KPLGLTLGQK--PGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYF  124 (235)
Q Consensus        49 ~~v~~~--kplGl~~g~~--~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if  124 (235)
                      .+|++.  .|+|+.+.-.  ....+||..+.+|+.|+++|+++||.|..+--   ..+- .-...+.+..|+...+...|
T Consensus         8 ~tv~~~g~~~~Gf~i~gg~d~~~~i~V~~v~~gs~A~~~gL~~GD~Il~VNg---~~v~-~~~~~~~~~~l~~~~~~v~L   83 (94)
T d1vb7a_           8 LTVDVAGPAPWGFRISGGRDFHTPIIVTKVTERGKAEAADLRPGDIIVAING---QSAE-NMLHAEAQSKIRQSASPLRL   83 (94)
T ss_dssp             EEEEECSSSCCSBCCEEETTTTEEEECCCBCTTSSHHHHTCCTTCEEEEETT---EECT-TCCHHHHHHHHHTCCSSEEE
T ss_pred             EEEEEECCCcCCEEEEeeccCCCCEEEEeccCCChhhhCCCCCCCEEEEECC---EECC-CCCHHHHHHHHHcCCCeEEE
Confidence            456654  7888876543  34569999999999999999999998866532   2111 11122344556666667777


Q ss_pred             EecC
Q 038893          125 VVNR  128 (235)
Q Consensus       125 ~~~~  128 (235)
                      .+.|
T Consensus        84 ~V~R   87 (94)
T d1vb7a_          84 QLDR   87 (94)
T ss_dssp             EEEC
T ss_pred             EEEE
Confidence            7665

>d1qava_ b.36.1.1 (A:) Syntrophin {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Syntrophin
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.77  E-value=0.0057  Score=43.67  Aligned_cols=76  Identities=21%  Similarity=0.156  Sum_probs=49.0

Q ss_pred             EEEeecC----ccceeeeee--cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCCCC
Q 038893           49 IEVEVDK----PLGLTLGQK--PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDS  121 (235)
Q Consensus        49 ~~v~~~k----plGl~~g~~--~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a  121 (235)
                      .+|++.|    ++|+.+.-.  ....+||..+.+|+.|+++| ++.||.|..+-..-= .-|+++   +.+..|.+..+.
T Consensus         6 r~V~l~k~~~~~lG~~i~gg~~~~~~i~V~~V~~~~~A~~~G~L~~GD~Il~INg~~v-~~~~~~---~~~~~l~~~~~~   81 (90)
T d1qava_           6 RRVTVRKADAGGLGISIKGGRENKMPILISKIFKGLAADQTEALFVGDAILSVNGEDL-SSATHD---EAVQALKKTGKE   81 (90)
T ss_dssp             EEEEEECCTTTCCCEEEEEEGGGTEEEEEEEECTTSHHHHTTCCCTTEEEEEETTEEC-TTCCHH---HHHHHHHTCCSE
T ss_pred             EEEEEEeCCCCccCEEEEccccCCCCEEEEEEcCCCceeeCCCCCccCEEEEECCEEC-CCCCHH---HHHHHHHhCCCe
Confidence            4566543    688887643  34579999999999999999 999998765532211 112222   334555555666


Q ss_pred             ceEEecC
Q 038893          122 VYFVVNR  128 (235)
Q Consensus       122 ~if~~~~  128 (235)
                      ..|.+.+
T Consensus        82 v~l~v~~   88 (90)
T d1qava_          82 VVLEVKY   88 (90)
T ss_dssp             EEEEEEE
T ss_pred             EEEEEEE
Confidence            6666654

>d2fnea1 b.36.1.1 (A:1955-2042) Multiple PDZ domain protein {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Multiple PDZ domain protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.69  E-value=0.016  Score=40.85  Aligned_cols=74  Identities=19%  Similarity=0.279  Sum_probs=48.2

Q ss_pred             EEEeecC---ccceeeeee-----cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCC
Q 038893           49 IEVEVDK---PLGLTLGQK-----PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP  119 (235)
Q Consensus        49 ~~v~~~k---plGl~~g~~-----~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~  119 (235)
                      .+|++.|   ++|+.+...     .+..+||..+.+++.|+++| +++||.|..+   -|. -+......+.+..|++.+
T Consensus         4 ~~V~l~K~~~~lG~~i~~g~~~~~~~~~i~I~~v~~~g~A~~~g~l~~GD~Il~I---Ng~-~v~~~~~~~v~~~l~~~~   79 (88)
T d2fnea1           4 KSITLERGPDGLGFSIVGGYGSPHGDLPIYVKTVFAKGAASEDGRLKRGDQIIAV---NGQ-SLEGVTHEEAVAILKRTK   79 (88)
T ss_dssp             EEEEECCBTTBTSEEEEEEEEETTEEEEEEEEEECTTSHHHHHCCCCTTCEEEEE---TTE-ECTTCCHHHHHHHHHHCC
T ss_pred             EEEEEEeCCCccCEEEEeccCCCCCCcCEEEEEEcCCChHHHhCCCcCCcEEEEE---CCE-ECCCCCHHHHHHHHHcCC
Confidence            4566654   588877532     13469999999999999999 9999987554   222 222233344556666666


Q ss_pred             CCceEEe
Q 038893          120 DSVYFVV  126 (235)
Q Consensus       120 ~a~if~~  126 (235)
                      +...|.+
T Consensus        80 ~~v~L~V   86 (88)
T d2fnea1          80 GTVTLMV   86 (88)
T ss_dssp             SSEEEEE
T ss_pred             CcEEEEE
Confidence            6655543

>d1whaa_ b.36.1.1 (A:) Scribble (KIAA0147) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Scribble (KIAA0147)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.69  E-value=0.019  Score=41.81  Aligned_cols=76  Identities=21%  Similarity=0.433  Sum_probs=50.0

Q ss_pred             EEEeec---Cccceeeee--------ecCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhh
Q 038893           49 IEVEVD---KPLGLTLGQ--------KPGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQ  116 (235)
Q Consensus        49 ~~v~~~---kplGl~~g~--------~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn  116 (235)
                      ..+.+.   +.+|+.+.-        ..+..+||..+.+|+.|+++| +++||.|..+-   |..+- .-...+.+..|.
T Consensus         9 ~~v~l~k~~~glGf~i~gg~~~~~~~~~~~gi~V~~v~~gs~A~~~G~L~~GD~Il~IN---g~~v~-~~~~~ev~~~l~   84 (105)
T d1whaa_           9 HVACLARSERGLGFSIAGGKGSTPYRAGDAGIFVSRIAEGGAAHRAGTLQVGDRVLSIN---GVDVT-EARHDHAVSLLT   84 (105)
T ss_dssp             EEEEECCCTTCCSCEEECCTTSCCSSTTCCSCEEEECCTTSSHHHHSSCCTTCEEEEES---SCBCT-TCCHHHHHHHHT
T ss_pred             EEEEEEECCCccCEEEEeccCCcccccCCCCEEEEEEcCCCchhhcCCccCCCEEEEEC---CEEcC-CCcHHHHHHHHH
Confidence            345554   458876642        124579999999999999999 99999987652   32221 122334455666


Q ss_pred             cCCCCceEEecC
Q 038893          117 AKPDSVYFVVNR  128 (235)
Q Consensus       117 ~~~~a~if~~~~  128 (235)
                      +.++...|.+.+
T Consensus        85 ~~~~~v~l~v~R   96 (105)
T d1whaa_          85 AASPTIALLLER   96 (105)
T ss_dssp             SCCSCEEEEEEE
T ss_pred             cCCCeEEEEEEE
Confidence            666677777765

>d1wi2a_ b.36.1.1 (A:) PDZ domain containing protein 11, Pdzk11 {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: PDZ domain containing protein 11, Pdzk11
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.64  E-value=0.0076  Score=43.95  Aligned_cols=46  Identities=35%  Similarity=0.510  Sum_probs=34.9

Q ss_pred             EEeecC----ccceeeee--ecCCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           50 EVEVDK----PLGLTLGQ--KPGGGVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        50 ~v~~~k----plGl~~g~--~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      +|++.|    ++|+.+..  .....+||..+.+|+.|+++|++.||.|..+-
T Consensus        18 ~V~l~r~~~~~lGf~i~gg~~~~~gi~V~~V~~~s~A~~~GL~~GD~Il~VN   69 (104)
T d1wi2a_          18 IVTLKKPPGAQLGFNIRGGKASQLGIFISKVIPDSDAHRAGLQEGDQVLAVN   69 (104)
T ss_dssp             EEEECCCTTCCCSEEEECCSSSCCCCEEEEECTTSHHHHHTCCTTCEEEEET
T ss_pred             EEEEEeCCCCCcceEEEccccCCCCEEEEEECCCChhHhcccccCCEEEEEC
Confidence            455553    47776543  23557999999999999999999999887653

>d1q3oa_ b.36.1.1 (A:) Shank1, PDZ domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Shank1, PDZ domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.64  E-value=0.011  Score=42.68  Aligned_cols=29  Identities=31%  Similarity=0.443  Sum_probs=25.5

Q ss_pred             CCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           66 GGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      .+.+||..+.+|+.|+++||+.||.|..+
T Consensus        42 ~~~~~I~~v~~g~~A~~aGL~~GD~Il~I   70 (104)
T d1q3oa_          42 PALQYLESVDEGGVAWRAGLRMGDFLIEV   70 (104)
T ss_dssp             CSSEEEEEECTTSHHHHTTCCTTCEEEEE
T ss_pred             CCCEEEEEECCCCHHHHcCCCCCCEEEEE
Confidence            34689999999999999999999987654

>d1qaua_ b.36.1.1 (A:) Neuronal nitric oxide synthase, NNOS {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Neuronal nitric oxide synthase, NNOS
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.57  E-value=0.0065  Score=44.33  Aligned_cols=74  Identities=20%  Similarity=0.262  Sum_probs=47.4

Q ss_pred             EEEeec----Cccceeeeee-cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCCCCc
Q 038893           49 IEVEVD----KPLGLTLGQK-PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSV  122 (235)
Q Consensus        49 ~~v~~~----kplGl~~g~~-~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~  122 (235)
                      .+|++-    ..+|+.+... .++.+||..+.+|+.|+++| +++||.|..+--.-= .-|+++   +....|+..++..
T Consensus         3 ~~V~l~k~~~~glG~~i~~~~~~~~i~I~~v~~ggpA~~~G~L~~GD~Il~INg~~v-~~~s~~---e~~~~l~~~~~~~   78 (112)
T d1qaua_           3 ISVRLFKRKVGGLGFLVKERVSKPPVIISDLIRGGAAEQSGLIQAGDIILAVNDRPL-VDLSYD---SALEVLRGIASET   78 (112)
T ss_dssp             EEEEEECBTTTBTSEEEEECSSSSCEEEEEECTTSHHHHHTCCCTTCEEEEETTEEC-TTSCHH---HHHHHHHHSCSSS
T ss_pred             EEEEEEECCCCcEeEEEEeecCCCCEEEEEEcCCCHHHHhhhcccccEeEEECCcCc-cCCCHH---HHHHHHHcCCCCc
Confidence            345553    2478876653 36789999999999999999 999999877631100 112333   3345566555554


Q ss_pred             eEEe
Q 038893          123 YFVV  126 (235)
Q Consensus       123 if~~  126 (235)
                      .+.+
T Consensus        79 ~~~l   82 (112)
T d1qaua_          79 HVVL   82 (112)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            4444

>d2gmga1 a.4.5.82 (A:1-105) Hypothetical protein PF0610 {Pyrococcus furiosus [TaxId: 2261]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: PF0610-like
domain: Hypothetical protein PF0610
species: Pyrococcus furiosus [TaxId: 2261]

Probab=95.47  E-value=0.0028  Score=47.61  Aligned_cols=28  Identities=25%  Similarity=0.934  Sum_probs=21.1

Q ss_pred             cceEEcCCCceEEeCCCCCCCCCCCCCCCCCCC
Q 038893          158 RATHICLDCGYIYFLQKPFDELPDTYVCPQCQA  190 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a  190 (235)
                      +..-+|+.|||+++..  + .-|.  +||.|..
T Consensus        65 v~Pp~CrkCGfvFr~~--~-kkPS--RCP~CKS   92 (105)
T d2gmga1          65 IKPAQCRKCGFVFKAE--I-NIPS--RCPKCKS   92 (105)
T ss_dssp             ECCCBBTTTCCBCCCC--S-SCCS--SCSSSCC
T ss_pred             EeChhhhhcCCeeccc--C-CCCC--CCCCCCC
Confidence            4456999999999653  1 3456  9999976

>d1uhpa_ b.36.1.1 (A:) Hypothetical protein KIAA1095 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Hypothetical protein KIAA1095
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.46  E-value=0.011  Score=43.26  Aligned_cols=76  Identities=20%  Similarity=0.368  Sum_probs=49.3

Q ss_pred             EEEeecC---ccceeeee----------ecCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhh
Q 038893           49 IEVEVDK---PLGLTLGQ----------KPGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTA  114 (235)
Q Consensus        49 ~~v~~~k---plGl~~g~----------~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~A  114 (235)
                      .+|++.|   .+|+.+.-          ..++.+||..+.+|+.|+++| ++.||.|..+-   |..+- .....+.+..
T Consensus        10 ~~V~l~k~~~~lGf~i~GG~~~~~~~~~~~~~gi~V~~V~~gs~A~~~G~L~~GD~Il~VN---g~~v~-~~t~~eav~~   85 (107)
T d1uhpa_          10 LTLVLHRDSGSLGFNIIGGRPSVDNHDGSSSEGIFVSKIVDSGPAAKEGGLQIHDRIIEVN---GRDLS-RATHDQAVEA   85 (107)
T ss_dssp             EEEEECCSSSCCSEEEECCCSCCCCTTSSCSCCCEEEEECSSSHHHHTTCCCSSCEEEEET---TEECT-TCCHHHHHHH
T ss_pred             EEEEEEECCCccCEEEEecccCCCcccccCCCCEEEEEECCCCHHHHhCCCcceeEEeEEC---CEECC-CCCHHHHHHH
Confidence            5677754   47776642          125679999999999999999 99999886542   22221 1122234555


Q ss_pred             hhcCCCCceEEecC
Q 038893          115 IQAKPDSVYFVVNR  128 (235)
Q Consensus       115 In~~~~a~if~~~~  128 (235)
                      |.+-++...|.+.+
T Consensus        86 lk~~~~~v~l~v~r   99 (107)
T d1uhpa_          86 FKTAKEPIVVQVLR   99 (107)
T ss_dssp             HHHCCSSEEEEEEE
T ss_pred             HHhCCCcEEEEEEE
Confidence            66666667776655

>d1fc6a3 b.36.1.3 (A:157-248) Photosystem II D1 C-terminal processing protease {Algae (Scenedesmus obliquus) [TaxId: 3088]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: Tail specific protease PDZ domain
domain: Photosystem II D1 C-terminal processing protease
species: Algae (Scenedesmus obliquus) [TaxId: 3088]

Probab=95.44  E-value=0.0083  Score=42.73  Aligned_cols=39  Identities=33%  Similarity=0.577  Sum_probs=30.7

Q ss_pred             cceeeeee--cCCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           57 LGLTLGQK--PGGGVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        57 lGl~~g~~--~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      +|+++...  ....++|....+|+.|+++||++||.|..+-
T Consensus         7 iGi~i~~~~~~~~~v~V~~v~~gsPA~~AGl~~GD~I~~In   47 (92)
T d1fc6a3           7 VGLEITYDGGSGKDVVVLTPAPGGPAEKAGARAGDVIVTVD   47 (92)
T ss_dssp             CSEEEEECTTCSSCEEEEEECTTSHHHHTTCCTTCEEEEET
T ss_pred             EEEEEEEcCCCCceEEEEEecCCCChhHHhhHcCCcceecC
Confidence            45555443  2457999999999999999999999886653

>d1ky9b2 b.36.1.4 (B:359-446) Protease Do (DegP, HtrA), C-terminal domains {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: HtrA-like serine proteases
domain: Protease Do (DegP, HtrA), C-terminal domains
species: Escherichia coli [TaxId: 562]

Probab=95.37  E-value=0.0036  Score=44.34  Aligned_cols=60  Identities=27%  Similarity=0.468  Sum_probs=43.3

Q ss_pred             cCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCce
Q 038893           65 PGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGG  130 (235)
Q Consensus        65 ~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g  130 (235)
                      ...+++|..+.+|+.|+++|++.||+|..+-      -.+...+.....++++.++...|.+.|.+
T Consensus        23 ~~~Gv~V~~V~~~spA~~aGl~~GDvI~~in------g~~v~~~~~~~~~l~~~~~~v~l~v~R~~   82 (88)
T d1ky9b2          23 KDQGVVVNNVKTGTPAAQIGLKKGDVIIGAN------QQAVKNIAELRKVLDSKPSVLALNIQRGD   82 (88)
T ss_dssp             TTSCCCBCCCCSSCTTGGGTCCSSCEEEEET------TEECSSHHHHHHHTTTCCSCCCEEEESSS
T ss_pred             CCCeEEEEEECCCCHHHHcCCCCCcEEEEEC------CEEcCCHHHHHHHHHhCCCEEEEEEEECC
Confidence            3567999999999999999999999886653      23344454555666666666666666644

>d1e4va2 g.41.2.1 (A:122-156) Microbial and mitochondrial ADK, insert "zinc finger" domain {Escherichia coli [TaxId: 562]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Microbial and mitochondrial ADK, insert "zinc finger" domain
family: Microbial and mitochondrial ADK, insert "zinc finger" domain
domain: Microbial and mitochondrial ADK, insert "zinc finger" domain
species: Escherichia coli [TaxId: 562]

Probab=95.33  E-value=0.0075  Score=36.72  Aligned_cols=30  Identities=7%  Similarity=0.007  Sum_probs=23.5

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      +|.|+.||.+|.-...+...  +..|..|+.+
T Consensus         2 Rr~c~~cG~~Yh~~~~PPk~--~g~CD~cg~~   31 (35)
T d1e4va2           2 RRVHAPSGRVYHVKFNPPKV--EGKDDVTGEE   31 (35)
T ss_dssp             EEEETTTTEEEETTTBCCSS--TTBCTTTCCB
T ss_pred             ccCCcCcCChhhhccCcccc--CCcccCCCCE
Confidence            68999999999987433333  5599999875

>d1zina2 g.41.2.1 (A:126-160) Microbial and mitochondrial ADK, insert "zinc finger" domain {Bacillus stearothermophilus [TaxId: 1422]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Microbial and mitochondrial ADK, insert "zinc finger" domain
family: Microbial and mitochondrial ADK, insert "zinc finger" domain
domain: Microbial and mitochondrial ADK, insert "zinc finger" domain
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=95.31  E-value=0.007  Score=36.88  Aligned_cols=30  Identities=30%  Similarity=0.582  Sum_probs=23.5

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      +|.|+.||-+|.-...+...  +.+|..|+.+
T Consensus         2 Rr~C~~CG~~Yh~~~~pPk~--~g~CD~cG~~   31 (35)
T d1zina2           2 RRICRNCGATYHLIFHPPAK--PGVCDKCGGE   31 (35)
T ss_dssp             EEEETTTCCEEETTTBCCSS--TTBCTTTCCB
T ss_pred             ccCCcCcCchhccccCCCCC--CCcCCCCCCC
Confidence            68999999999987544444  4599999874

>d1va8a1 b.36.1.1 (A:8-107) Maguk p55 subfamily member 5 {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Maguk p55 subfamily member 5
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.30  E-value=0.017  Score=41.81  Aligned_cols=67  Identities=27%  Similarity=0.342  Sum_probs=44.2

Q ss_pred             CccceeeeeecCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEe
Q 038893           55 KPLGLTLGQKPGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVV  126 (235)
Q Consensus        55 kplGl~~g~~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~  126 (235)
                      .++|+.+.. ....+||..+.+|+.|+++| |+.||.|..+--.-= .-|+   ..+.+..|+..++.+.|++
T Consensus        30 ~~lG~~v~~-~~~~i~I~~V~~gs~A~~~g~l~~GD~Il~VNg~~v-~~~~---~~~~~~ll~~~~~~v~L~v   97 (100)
T d1va8a1          30 IPLGATVRN-EMDSVIISRIVKGGAAEKSGLLHEGDEVLEINGIEI-RGKD---VNEVFDLLSDMHGTLTFVL   97 (100)
T ss_dssp             CCCCEEEEE-CSSSEEEEEECTTSHHHHHTCCCTTCEEEEETTEEC-TTCC---HHHHHHHHHHCCEEEEEEE
T ss_pred             CCccEEEEe-cCCCEEEEEECCCChhhhhcccCccCEEEEECCEEE-cCCC---HHHHHHHHHcCCCeEEEEE
Confidence            457776633 35679999999999999999 999998876642111 1222   2344555555555555554

>d1t2ma1 b.36.1.1 (A:2-93) Afadin {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Afadin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.30  E-value=0.021  Score=40.51  Aligned_cols=73  Identities=25%  Similarity=0.394  Sum_probs=47.4

Q ss_pred             EEeec--Cccceeeeee-----cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCc--cccCccchhhhhhhcCC
Q 038893           50 EVEVD--KPLGLTLGQK-----PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDEL--WPADKLGFTKTAIQAKP  119 (235)
Q Consensus        50 ~v~~~--kplGl~~g~~-----~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~l--W~~~~~g~~i~AIn~~~  119 (235)
                      +|+++  ..+|+.+...     ...++||..+.+|+.|+++| +++||.|..+-   |..+  |+++   +.+..+.+.+
T Consensus         7 ~v~l~~~~glG~~i~g~~~~~~~~~gi~V~~v~~gg~A~~~G~L~~GD~Il~VN---g~~v~~~s~~---ea~~~l~~~~   80 (92)
T d1t2ma1           7 TVTLKKQNGMGLSIVAAKGAGQDKLGIYVKSVVKGGAADVDGRLAAGDQLLSVD---GRSLVGLSQE---RAAELMTRTS   80 (92)
T ss_dssp             EEEEECSSSCCEEEEEECCSSCCSCEEEEEEECTTSHHHHHTCCCSSEEEEEET---TEECTTCCHH---HHHHHHHSCC
T ss_pred             EEEEeCCCccCEEEEeecCCCCCCCCEEEEEEcCCChHHhcCCCCcccEeeeeC---CeecCCCCHH---HHHHHHHcCC
Confidence            45555  4466655332     23479999999999999999 99999886542   2222  2332   3455566666


Q ss_pred             CCceEEecC
Q 038893          120 DSVYFVVNR  128 (235)
Q Consensus       120 ~a~if~~~~  128 (235)
                      +.+.|.+.+
T Consensus        81 ~~v~L~v~R   89 (92)
T d1t2ma1          81 SVVTLEVAK   89 (92)
T ss_dssp             SEEEEEEEE
T ss_pred             CeEEEEEEe
Confidence            666666665

>d1rzxa_ b.36.1.1 (A:) GTPase-binding domain of the cell polarity protein par6 (Par-6B) {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: GTPase-binding domain of the cell polarity protein par6 (Par-6B)
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=95.29  E-value=0.0078  Score=43.50  Aligned_cols=40  Identities=33%  Similarity=0.548  Sum_probs=31.6

Q ss_pred             Cccceeeeee-----------cCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           55 KPLGLTLGQK-----------PGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~-----------~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      +|+|+.+...           ..+++||..+.+|+.|+++| +++||.|..+
T Consensus        15 ~~lG~~i~gg~~~~~~~~~~~~~~gi~I~~v~~gg~A~~~G~l~~GD~Il~V   66 (98)
T d1rzxa_          15 KPLGFYIRDGTSVRVTASGLEKQPGIFISRLVPGGLAESTGLLAVNDEVIEV   66 (98)
T ss_dssp             SCCSEEEEEEEEEECCSSSCEEEEEEEEEEECTTCHHHHHTCCCTTCEEEEE
T ss_pred             CcccEEEecccCCCccccCccCCCCEEEEEECCCChHHhcCcCCCCcEEeeE
Confidence            5788755431           24579999999999999999 9999987655

>d1g9oa_ b.36.1.1 (A:) Na+/H+ exchanger regulatory factor, NHERF {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Na+/H+ exchanger regulatory factor, NHERF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.26  E-value=0.011  Score=42.24  Aligned_cols=40  Identities=35%  Similarity=0.439  Sum_probs=32.4

Q ss_pred             Cccceeeeee-cCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           55 KPLGLTLGQK-PGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~-~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      ..+|+.+... ....+||..+.+|+.|+++|++.||.|..+
T Consensus        14 ~g~Gf~i~~~~~~~~~~V~~V~~g~~A~~aGl~~GD~Il~V   54 (91)
T d1g9oa_          14 NGYGFHLHGEKGKLGQYIRLVEPGSPAEKAGLLAGDRLVEV   54 (91)
T ss_dssp             TBCCEEEEECTTCSSEEEEEECTTSHHHHTTCCTTCEEEEE
T ss_pred             CeeeEEEEecCCCCCEEEEEEcCCCHHHHcCCCCCCEEEEE
Confidence            5588776443 466899999999999999999999987543

>d1wi4a1 b.36.1.1 (A:8-103) Syntaxin binding protein 4 {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Syntaxin binding protein 4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.23  E-value=0.017  Score=41.44  Aligned_cols=41  Identities=39%  Similarity=0.531  Sum_probs=31.9

Q ss_pred             cCccceeeee----ecCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           54 DKPLGLTLGQ----KPGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        54 ~kplGl~~g~----~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      +..+|+.+.-    ...+.+||..+.+|+.|+++| ++.||.|..+
T Consensus        17 ~~glG~~i~gg~~~~~~~~i~V~~v~~gg~A~~~G~L~~GD~Il~V   62 (96)
T d1wi4a1          17 ETGLGLKILGGINRNEGPLVYIHEVIPGGDCYKDGRLKPGDQLVSI   62 (96)
T ss_dssp             SSCCCEEEEECSSSSSCSSEEEEEECTTSHHHHHCSCCTTCBEEEE
T ss_pred             CCccCEEEEeccCCCCCCCEEEEEEeCCCccccCCCCCCCCEEEEE
Confidence            3457776642    135679999999999999999 9999977554

>d1x45a1 b.36.1.1 (A:8-92) Amyloid beta A4 precursor protein-binding family A member 1 (APBA1, X11) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Amyloid beta A4 precursor protein-binding family A member 1 (APBA1, X11)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.19  E-value=0.0097  Score=42.07  Aligned_cols=39  Identities=33%  Similarity=0.498  Sum_probs=31.3

Q ss_pred             Cccceeeee----ecCCcEEEEEeecchHHHHhc-CCcCcceee
Q 038893           55 KPLGLTLGQ----KPGGGVVITAVEGGGNAAKAG-LKSGDQVLY   93 (235)
Q Consensus        55 kplGl~~g~----~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~   93 (235)
                      .++|+.+-.    ...+.+||..+.+|+.|+++| ++.||.|..
T Consensus        10 ~~LGi~i~~~~~~~~~~~i~I~~v~~gg~A~~~G~l~~GD~Il~   53 (85)
T d1x45a1          10 EILGVVIVESGWGSILPTVIIANMMHGGPAEKSGKLNIGDQIMS   53 (85)
T ss_dssp             SCCCEEEECCTTTSSSCCCEEEEECTTCHHHHHCSCCTTCEEEE
T ss_pred             CccCEEEEeCCCCCCCCCEEEEEeCCCCHHHHcCCCCcCCEEEE
Confidence            468886633    235689999999999999999 999997643

>d1x5na1 b.36.1.1 (A:8-108) Harmonin {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Harmonin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.19  E-value=0.0071  Score=44.13  Aligned_cols=40  Identities=30%  Similarity=0.522  Sum_probs=33.2

Q ss_pred             Cccceeeee--ecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           55 KPLGLTLGQ--KPGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~--~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      .++|+.+..  ...+++||..+.+|+.|+++|++.||.|..+
T Consensus        20 ~glG~~i~~g~~~~~gi~V~~V~~gs~A~~~gL~~GD~Il~V   61 (101)
T d1x5na1          20 RGLGCSISSGPIQKPGIFISHVKPGSLSAEVGLEIGDQIVEV   61 (101)
T ss_dssp             CCCCEEEEECCSSSCSEEEEEECTTSTTTTTTCCTTCEEEEE
T ss_pred             CcccEEEeccCCCCCCEEEEEECCCChHHhCCCCcccEEEEE
Confidence            678877654  3456899999999999999999999988664

>d1tp5a1 b.36.1.1 (A:302-403) Synaptic protein PSD-95 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Synaptic protein PSD-95
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.17  E-value=0.01  Score=43.32  Aligned_cols=45  Identities=31%  Similarity=0.586  Sum_probs=36.1

Q ss_pred             EEeec---Cccceeeeee-cCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           50 EVEVD---KPLGLTLGQK-PGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        50 ~v~~~---kplGl~~g~~-~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .|++.   .++|+.+... ..+++||..+.+|+.|+++| +++||.|..+
T Consensus        12 ~V~l~k~~~glG~~i~~~~~~~gv~V~~v~~gs~A~~~G~l~~GD~Il~I   61 (102)
T d1tp5a1          12 RIVIHRGSTGLGFNIVGGEDGEGIFISFILAGGPADLSGELRKGDQILSV   61 (102)
T ss_dssp             EEEEECTTSCCCEEEEECGGGCCEEEEEECTTSHHHHHSCCCTTEEEEEE
T ss_pred             EEEEEeCCCcccEEEEeccCCCCEEEEEecCCchHHHcCCCcccCEEEEE
Confidence            45554   4688887654 35689999999999999999 9999988655

>d1r6ja_ b.36.1.1 (A:) Syntenin 1 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Syntenin 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.13  E-value=0.011  Score=41.48  Aligned_cols=48  Identities=23%  Similarity=0.284  Sum_probs=33.2

Q ss_pred             CeeEEEEeecCc-cceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           45 ASKTIEVEVDKP-LGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        45 ~~~~~~v~~~kp-lGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      +..-.+|++.|. -| .+|-...+. +|..+.+|+.|+++|++.||.|..+
T Consensus         2 ~~~pr~V~l~k~~~g-~~Gf~i~~g-~V~~v~~g~~A~~~Gl~~GD~Il~I   50 (82)
T d1r6ja_           2 AMDPRTITMHKDSTG-HVGFIFKNG-KITSIVKDSSAARNGLLTEHNICEI   50 (82)
T ss_dssp             TTCCEEEEEECCTTS-CCCEEEETT-EEEEECTTSHHHHHTCCSSEEEEEE
T ss_pred             CCCCEEEEEEeCCCC-CcCEEEEEE-EEEEECCCChHHhcCcCCCCEEEEe
Confidence            344456777653 22 244444444 6999999999999999999987554

>d1akya2 g.41.2.1 (A:131-168) Microbial and mitochondrial ADK, insert "zinc finger" domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Microbial and mitochondrial ADK, insert "zinc finger" domain
family: Microbial and mitochondrial ADK, insert "zinc finger" domain
domain: Microbial and mitochondrial ADK, insert "zinc finger" domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.10  E-value=0.0091  Score=36.96  Aligned_cols=30  Identities=10%  Similarity=-0.153  Sum_probs=23.2

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      ++.|+.||.+|.-.+.+...  +..|..|+.+
T Consensus         2 Rr~C~~cG~~Yh~~~~ppk~--~g~CD~cg~~   31 (38)
T d1akya2           2 RLIHPASGRSYHKIFNPPKE--DMKDDVTGEA   31 (38)
T ss_dssp             EEECTTTCCEEETTTBCCSS--TTBCTTTCCB
T ss_pred             ccCCcCccchhhhhccCcCc--CCccCCCCCE
Confidence            68999999999987544333  4599999863

>d1ujda_ b.36.1.1 (A:) Hypothetical protein KIAA0559 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Hypothetical protein KIAA0559
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.07  E-value=0.018  Score=42.77  Aligned_cols=58  Identities=26%  Similarity=0.301  Sum_probs=41.5

Q ss_pred             CcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecC
Q 038893           67 GGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        67 ~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      ..+||..+.+|+.|+++| ++.||.|..+-   |..+ ..-...+++..|++.++.+.|.+.+
T Consensus        49 ~gi~I~~V~~gs~A~~~G~L~~GD~Il~IN---g~~v-~~~s~~e~~~~i~~~~~~v~l~v~r  107 (117)
T d1ujda_          49 IGAYIAKILPGGSAEQTGKLMEGMQVLEWN---GIPL-TSKTYEEVQSIISQQSGEAEICVRL  107 (117)
T ss_dssp             EEEEEEEECTTCHHHHHSSCCTTCEEEEET---TEEC-TTCCHHHHHHHHSCCSSCEEEEEES
T ss_pred             cCEEEEEECCCCHHHHcCCCCCCCEEEEEC---CEEC-CCCcHHHHHHHHHcCCCeEEEEEEE
Confidence            369999999999999999 99999987652   2211 2222334456677777777787776

>d1s3ga2 g.41.2.1 (A:126-160) Microbial and mitochondrial ADK, insert "zinc finger" domain {Bacillus globisporus [TaxId: 1459]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Microbial and mitochondrial ADK, insert "zinc finger" domain
family: Microbial and mitochondrial ADK, insert "zinc finger" domain
domain: Microbial and mitochondrial ADK, insert "zinc finger" domain
species: Bacillus globisporus [TaxId: 1459]

Probab=95.00  E-value=0.0089  Score=36.36  Aligned_cols=30  Identities=23%  Similarity=0.310  Sum_probs=23.3

Q ss_pred             eEEcCCCceEEeCCCCCCCCCCCCCCCCCCCC
Q 038893          160 THICLDCGYIYFLQKPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       160 ~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~  191 (235)
                      +|.|+.||-+|.-.+.+..  .+.+|..|+.+
T Consensus         2 R~~C~~CG~~Yh~~~~pPk--~~g~CD~cg~~   31 (35)
T d1s3ga2           2 RRICKVCGTSYHLLFNPPQ--VEGKCDKDGGE   31 (35)
T ss_dssp             EEEETTTCCEEETTTBCCS--BTTBCTTTCCB
T ss_pred             ccCCcCcCchhccccCCCC--CCCccCCCCCC
Confidence            6899999999988754333  35699999864

>d1ueza_ b.36.1.1 (A:) KIAA1526 protein {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: KIAA1526 protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.77  E-value=0.016  Score=42.10  Aligned_cols=39  Identities=38%  Similarity=0.624  Sum_probs=31.2

Q ss_pred             ccceeeeee--cCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           56 PLGLTLGQK--PGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        56 plGl~~g~~--~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      ++|+.+...  ....+||..+.+|+.|+++|+++||.|..+
T Consensus        22 glG~~i~gg~~~~~~i~V~~v~~gg~A~~~gL~~GD~Il~I   62 (101)
T d1ueza_          22 GLGFSIRGGSEHGVGIYVSLVEPGSLAEKEGLRVGDQILRV   62 (101)
T ss_dssp             CSSEEEEECTTTTCCEEEEEECTTSHHHHHTCCSSCCEEEE
T ss_pred             eeCEEEEecccCCCCEEEEEECCCChHHhcCCCCCcEEEEE
Confidence            488876532  345799999999999999999999987544

>d1wf7a_ b.36.1.1 (A:) Enigma homolog ENH {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Enigma homolog ENH
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.71  E-value=0.037  Score=40.11  Aligned_cols=72  Identities=24%  Similarity=0.297  Sum_probs=50.2

Q ss_pred             EeecCccceeeeee--cCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCc--cccCccchhhhhhhcCCCCceEEe
Q 038893           51 VEVDKPLGLTLGQK--PGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDEL--WPADKLGFTKTAIQAKPDSVYFVV  126 (235)
Q Consensus        51 v~~~kplGl~~g~~--~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~l--W~~~~~g~~i~AIn~~~~a~if~~  126 (235)
                      +.-.+|+|+.+.-.  .+..+||..+.+|+.|+..+|++||.|..+   -|..+  |+++.   .+..|....+...|.+
T Consensus        11 ~~g~~g~Gf~i~gg~d~~~~v~V~~v~~g~~a~~~~L~~GD~Il~I---Ng~~v~~~t~~e---av~li~~~~~~v~L~v   84 (103)
T d1wf7a_          11 LVGPAPWGFRLQGGKDFNMPLTISSLKDGGKASQAHVRIGDVVLSI---DGISAQGMTHLE---AQNKIKACTGSLNMTL   84 (103)
T ss_dssp             EESSSCCSCCEEEETTTTEEEEECCCCTTCHHHHTTCCTTCBEEEE---TTEECSSCCHHH---HHHHHHHCSSEEEEEE
T ss_pred             EECCCCccEEEEcccCCCCCEEEEecCCCChHHHCCCCCCCEEEEE---CCEECCCCCHHH---HHHHHHcCCCeEEEEE
Confidence            33457888876544  345699999999999999999999998665   33332  33333   3445566677777777


Q ss_pred             cC
Q 038893          127 NR  128 (235)
Q Consensus       127 ~~  128 (235)
                      .+
T Consensus        85 ~R   86 (103)
T d1wf7a_          85 QR   86 (103)
T ss_dssp             CC
T ss_pred             EE
Confidence            76

>d1v6ba_ b.36.1.1 (A:) Harmonin {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Harmonin
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.60  E-value=0.018  Score=43.07  Aligned_cols=41  Identities=37%  Similarity=0.614  Sum_probs=33.9

Q ss_pred             cCccceeeeee---cCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           54 DKPLGLTLGQK---PGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        54 ~kplGl~~g~~---~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      +.++|+.+.-.   ..+.+||..+.+|+.|+++| |+.||.|..+
T Consensus        27 ~~~lG~~i~gg~d~~~~~v~I~~v~~gg~A~~~G~L~~GD~Il~V   71 (118)
T d1v6ba_          27 EGSLDLALEGGVDSPVGKVVVSAVYEGGAAERHGGVVKGDEIMAI   71 (118)
T ss_dssp             CSCCCCEEEEBTTSSSCSEEEEECCTTSHHHHHCSSCTTCEEEEE
T ss_pred             CCCCCEEEEeeecCCCCCEEEEEECCCChHHhcCCCCCCCEEeeE
Confidence            46799877543   24579999999999999999 9999988665

>d2f5ya1 b.36.1.1 (A:19-95) Regulator of G-protein signaling 3, RGS3 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Regulator of G-protein signaling 3, RGS3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.53  E-value=0.02  Score=39.45  Aligned_cols=38  Identities=37%  Similarity=0.517  Sum_probs=30.1

Q ss_pred             CccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           55 KPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      ..+|+.+.  .+..+||..+.+|+.|+++|++.||.|..+
T Consensus         8 ~g~Gf~l~--~~~~~~V~~V~~gspA~~aGL~~GD~Il~V   45 (77)
T d2f5ya1           8 DGFGFTIC--CDSPVRVQAVDSGGPAERAGLQQLDTVLQL   45 (77)
T ss_dssp             TBTSEEEE--CSSSCEEEEECTTSHHHHHTCCTTCEEEEE
T ss_pred             CcccEEEE--CCCCEEEEEECCCCHHHHcCCCCCCEEEEE
Confidence            45776553  244699999999999999999999987544

>d1x6da1 b.36.1.2 (A:8-114) Interleukin 16 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: Interleukin 16
domain: Interleukin 16
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.46  E-value=0.017  Score=42.02  Aligned_cols=40  Identities=25%  Similarity=0.398  Sum_probs=32.4

Q ss_pred             Cccceeeee---ecCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           55 KPLGLTLGQ---KPGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~---~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .++|+.+..   ...+.+||..+.+|+.|+++| +++||.|..+
T Consensus        20 ~~lG~~i~gg~~~~~~~i~V~~v~~gs~A~~~g~L~~GD~Il~V   63 (107)
T d1x6da1          20 AGLGFSLAGGADLENKVITVHRVFPNGLASQEGTIQKGNEVLSI   63 (107)
T ss_dssp             SCCSEEEECCSSSSCSSCEEEEECSSSHHHHHTSSCTTCBCCEE
T ss_pred             CccCEEEeeccCCCCCCEEEEEECCCCHHHHcCCCCcCCEEEEE
Confidence            458877643   235789999999999999999 9999987655

>d1uewa_ b.36.1.1 (A:) Membrane associated guanylate kinase inverted-2 (MAGI-2, KIAA0705) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Membrane associated guanylate kinase inverted-2 (MAGI-2, KIAA0705)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.39  E-value=0.064  Score=39.01  Aligned_cols=77  Identities=19%  Similarity=0.174  Sum_probs=48.9

Q ss_pred             EEEEeecC----ccceeeeee---------cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhh
Q 038893           48 TIEVEVDK----PLGLTLGQK---------PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKT  113 (235)
Q Consensus        48 ~~~v~~~k----plGl~~g~~---------~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~  113 (235)
                      ..+|.+.|    ++|+.+-..         ....+||..+.+|+.|+++| +++||.|..+   -|..+- .-....++.
T Consensus        11 ~~~V~l~r~~~~~lGf~l~~g~~~~~~~~~~~~~~~I~~I~~gg~A~~~G~L~~GD~Il~V---Ng~~v~-~~~~~ev~~   86 (114)
T d1uewa_          11 TSDVVIHRKENEGFGFVIISSLNRPESGSTITVPHKIGRIIDGSPADRCAKLKVGDRILAV---NGQSII-NMPHADIVK   86 (114)
T ss_dssp             CEEEEEECCTTSCCCEEEECCCCSCCSSCCSCCSCEEEEECTTCTTGGGSSCCTTCBEEEE---TTBCTT-TSCHHHHHH
T ss_pred             eEEEEEEeCCCCCCCEEEeeecccCCCCccCcCCEEEEEECCCCHHHhhccCCcCcEEeEe---CCcccC-CCcHHHHHH
Confidence            34566643    467655321         23459999999999999999 9999998765   333221 112223455


Q ss_pred             hhhcCCCCceEEecC
Q 038893          114 AIQAKPDSVYFVVNR  128 (235)
Q Consensus       114 AIn~~~~a~if~~~~  128 (235)
                      .|.+.++.+.|.+.+
T Consensus        87 ll~~~~~~v~l~V~r  101 (114)
T d1uewa_          87 LIKDAGLSVTLRIIP  101 (114)
T ss_dssp             HHHHTTTEEEEEECC
T ss_pred             HHHcCCCeEEEEEEe
Confidence            555556677777765

>d1uepa_ b.36.1.1 (A:) Membrane associated guanylate kinase inverted-2 (MAGI-2, KIAA0705) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Membrane associated guanylate kinase inverted-2 (MAGI-2, KIAA0705)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.35  E-value=0.015  Score=42.23  Aligned_cols=45  Identities=31%  Similarity=0.615  Sum_probs=34.4

Q ss_pred             EEeec---Cccceeeee--ecCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           50 EVEVD---KPLGLTLGQ--KPGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        50 ~v~~~---kplGl~~g~--~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      +|++.   ..+|+.+.-  .....+||..+.+|+.|+++| +++||.|..+
T Consensus        12 ~V~l~k~~~glG~~i~gg~~~~~~i~V~~v~~g~~A~~~G~L~~GD~Il~V   62 (103)
T d1uepa_          12 DVHLRRMESGFGFRILGGDEPGQPILIGAVIAMGSADRDGRLHPGDELVYV   62 (103)
T ss_dssp             CCEEESSSSSCCEEECCCCSTTSCCBEEEECTTSTTGGGTCCCTTCEEEEE
T ss_pred             EEEEEeCCceEeEEEEecccCCCcEEEEEECCCChHHHcCCCCcCCEEEEE
Confidence            45554   448876643  234569999999999999999 9999987665

>d1y7na1 b.36.1.1 (A:12-90) Amyloid beta A4 precursor protein-binding family A member 1 (APBA1, X11) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Amyloid beta A4 precursor protein-binding family A member 1 (APBA1, X11)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.34  E-value=0.022  Score=39.48  Aligned_cols=25  Identities=24%  Similarity=0.583  Sum_probs=22.2

Q ss_pred             EEEEeecchHHHHhcCCcCcceeee
Q 038893           70 VITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        70 yIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      +|..+.+|+.|+++|++.||.|..+
T Consensus        23 ~V~~V~~gs~A~~~gL~~GD~Il~I   47 (79)
T d1y7na1          23 IICSLMRGGIAERGGVRVGHRIIEI   47 (79)
T ss_dssp             EEEEECTTSHHHHHTCCSSCEEEEE
T ss_pred             EEEEEcCCCHHHHCCCCCCCEEEEE
Confidence            7999999999999999999976443

>d1lcya1 b.36.1.4 (A:226-325) Mitochondrial serine protease HtrA2 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: HtrA-like serine proteases
domain: Mitochondrial serine protease HtrA2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.28  E-value=0.042  Score=38.92  Aligned_cols=63  Identities=24%  Similarity=0.286  Sum_probs=42.8

Q ss_pred             cCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecCceeeee
Q 038893           65 PGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNRGGADVD  134 (235)
Q Consensus        65 ~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d  134 (235)
                      ...+++|..+.+++.|+++|++.||+|..+   -|..+=   ...+.+.+++. .+...+.+.|.|-..+
T Consensus        29 ~~~Gv~V~~V~~~spA~~aGl~~GDiI~~i---ng~~V~---s~~dl~~~l~~-g~~v~l~v~R~g~~~~   91 (100)
T d1lcya1          29 VQHGVLIHKVILGSPAHRAGLRPGDVILAI---GEQMVQ---NAEDVYEAVRT-QSQLAVQIRRGRETLT   91 (100)
T ss_dssp             CSSCEEEEEECTTSHHHHHTCCTTCEEEEE---TTEECC---SHHHHHHHHTT-CSSEEEEEEETTEEEE
T ss_pred             CCCcEEEEEECCCchHhhcCCCCCcEEEEE---CCEEcC---CHHHHHHHhcC-CCEEEEEEEECCEEEE
Confidence            356899999999999999999999998665   344443   33344555643 3345567777664433

>d1v62a_ b.36.1.1 (A:) Glutamate receptor interacting protein 2, GRIP2 (KIAA1719) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Glutamate receptor interacting protein 2, GRIP2 (KIAA1719)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.23  E-value=0.046  Score=40.30  Aligned_cols=75  Identities=20%  Similarity=0.306  Sum_probs=48.3

Q ss_pred             EEeecC----ccceeeeee---cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCCCC
Q 038893           50 EVEVDK----PLGLTLGQK---PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDS  121 (235)
Q Consensus        50 ~v~~~k----plGl~~g~~---~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a  121 (235)
                      .|++.|    ++|+.+...   ..+.+||..+.+|+.|+++| |++||.|..+-   |..+ ..-...+.+..|.+-.+.
T Consensus        18 ~V~l~k~~~~~lGi~i~~~~~~~~~gi~V~~I~~gg~A~~~G~L~~GD~Il~VN---g~~v-~~~~~~~v~~~l~~~~~~   93 (117)
T d1v62a_          18 MVEIVKTPGSALGISLTTTSLRNKSVITIDRIKPASVVDRSGALHPGDHILSID---GTSM-EHCSLLEATKLLASISEK   93 (117)
T ss_dssp             EEEEECCTTCCCCCEEEEECCSSSCEEEEEECCTTSHHHHHTCCCTTCBEEEET---TEET-TSCCHHHHHHHHHSCSSE
T ss_pred             EEEEEcCCCCCcCEEEEeeccCCCCCEEEEEECCCCHHHHcCCCChhheeeeEC---CEec-CCCCHHHHHHHHHcCCCc
Confidence            455543    577766542   35789999999999999999 99999987652   2211 122233444555555556


Q ss_pred             ceEEecC
Q 038893          122 VYFVVNR  128 (235)
Q Consensus       122 ~if~~~~  128 (235)
                      +.|.+.+
T Consensus        94 v~l~v~~  100 (117)
T d1v62a_          94 VRLEILP  100 (117)
T ss_dssp             EEEEECC
T ss_pred             EEEEEEE
Confidence            6666655

>d2cssa1 b.36.1.1 (A:8-115) Regulating synaptic membrane exocytosis protein 1, RIMS1 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Regulating synaptic membrane exocytosis protein 1, RIMS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.21  E-value=0.018  Score=42.19  Aligned_cols=40  Identities=38%  Similarity=0.423  Sum_probs=31.0

Q ss_pred             Cccceeeee--e---cCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           55 KPLGLTLGQ--K---PGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~--~---~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .++|+.+.-  .   .+..+||..+.+|+.|+++| ++.||.|..+
T Consensus        30 ~~lG~~i~gg~~~~~~~~gi~V~~v~~gg~A~~~g~L~~GD~Il~V   75 (108)
T d2cssa1          30 ALLGLKVVGGKMTDLGRLGAFITKVKKGSLADVVGHLRAGDEVLEW   75 (108)
T ss_dssp             SCSSEEEEEEEECTTSSEEEEEEEECTTSHHHHTSCCCTTCEEEEE
T ss_pred             CCcCEEEeccCCCCCCCcCEEEEEECCCCchhhcCCCCcCCEEEEE
Confidence            458877632  1   13479999999999999999 9999987544

>d2hgaa1 b.36.1.6 (A:23-125) Uncharacterized protein MTH1368 {Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: MTH1368 C-terminal domain-like
domain: Uncharacterized protein MTH1368
species: Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=94.15  E-value=0.063  Score=38.75  Aligned_cols=69  Identities=22%  Similarity=0.267  Sum_probs=51.3

Q ss_pred             cEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhc-CCCC-ceEEecCceeeeeccccCCCCC
Q 038893           68 GVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQA-KPDS-VYFVVNRGGADVDVKRLPKRPA  143 (235)
Q Consensus        68 ~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~-~~~a-~if~~~~~g~~~d~~~~p~~~a  143 (235)
                      +|||..+.+|+.|+. +|+.||+|..+   -|..+   +.....+.+|+. +++. ..+.+.|.+..+++...|..+.
T Consensus         4 Gv~V~~V~~~sPA~~-~L~~GD~I~~i---ng~~v---~~~~~l~~~i~~~~~G~~v~l~v~R~~~~~~l~~~p~~~~   74 (103)
T d2hgaa1           4 GVQIDSVVPGSPASK-VLTPGLVIESI---NGMPT---SNLTTYSAALKTISVGEVINITTDQGTFHLKTGRNPNNSS   74 (103)
T ss_dssp             CEEEEEECSSSGGGG-TSCTTCEEEEE---TTEEC---SSHHHHHHHHTTCCTTCEEEEEETTEEEEEECCBCSSSCC
T ss_pred             cEEEEEECCCChHHh-cCCCCCEEEEE---CCEEc---CCHHHHHHHHhhCCCCCEEEEEEEECCEEEEEEeccCCCC
Confidence            699999999999987 59999998665   33333   345566778876 4555 6699999888888877765443

>d1uf1a_ b.36.1.1 (A:) KIAA1526 protein {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: KIAA1526 protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.09  E-value=0.026  Score=42.57  Aligned_cols=46  Identities=41%  Similarity=0.618  Sum_probs=35.3

Q ss_pred             EEEeec----Cccceeeee--ecCCcEEEEEeecchHHHHhcCCcCcceeee
Q 038893           49 IEVEVD----KPLGLTLGQ--KPGGGVVITAVEGGGNAAKAGLKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~~----kplGl~~g~--~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~   94 (235)
                      .+|++.    .++|+.+.-  .....+||..+.+|+.|+++|++.||.|..+
T Consensus        22 ~~v~l~~~~~~~lGf~i~gg~~~~~gv~V~~V~~g~~A~~~gL~~GD~Il~I   73 (128)
T d1uf1a_          22 KKVNLVLGDGRSLGLTIRGGAEYGLGIYITGVDPGSEAEGSGLKVGDQILEV   73 (128)
T ss_dssp             EEEEEECCSSCCCCEEEECCTTTTCCCEEEEECTTCHHHHHTCCTTCEEEEE
T ss_pred             EEEEEEECCCCccCEEEEeeccCCCCEEEEEECCCChHHhcCCCCCCEEEEE
Confidence            455553    457776643  2344799999999999999999999998766

>d1p1da2 b.36.1.1 (A:115-213) Glutamate receptor interacting protein {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Glutamate receptor interacting protein
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.09  E-value=0.031  Score=40.03  Aligned_cols=76  Identities=26%  Similarity=0.406  Sum_probs=48.8

Q ss_pred             EEEeecC----ccceeeeee----cCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCC
Q 038893           49 IEVEVDK----PLGLTLGQK----PGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP  119 (235)
Q Consensus        49 ~~v~~~k----plGl~~g~~----~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~  119 (235)
                      ++|++.|    ++|+.+...    ....+||..+.+|+.|+++| ++.||.|..+-   |..+- .-...+.+..+.+.+
T Consensus        12 ~~V~l~k~~~~~lG~~v~~~~~~~~~~~i~V~~v~~gg~A~~~G~L~~GD~Il~VN---g~~v~-~~s~~e~~~ll~~~~   87 (99)
T d1p1da2          12 FHVKLPKKHSVELGITISSPSSRKPGDPLVISDIKKGSVAHRTGTLELGDKLLAID---NIRLD-SCSMEDAVQILQQCE   87 (99)
T ss_dssp             EEEEECCCSSCCCCCEEECSCSSSTTCCCEEEECCSSSHHHHTSCCCTTCEEEEET---TEEGG-GCCHHHHHHHHHHCT
T ss_pred             EEEEEEECCCCccCEEEEecCCCCCCCCEEEEEEcCCchhhhcCCCCCCCEEEeeC---CEECC-CCCHHHHHHHHHcCC
Confidence            4566543    477766432    23469999999999999999 99999875542   21110 112234456666666


Q ss_pred             CCceEEecC
Q 038893          120 DSVYFVVNR  128 (235)
Q Consensus       120 ~a~if~~~~  128 (235)
                      +...|.+.+
T Consensus        88 ~~v~L~V~r   96 (99)
T d1p1da2          88 DLVKLKIRK   96 (99)
T ss_dssp             TCEEEEEEC
T ss_pred             CeEEEEEEe
Confidence            667777665

>d1ufxa_ b.36.1.1 (A:) KIAA1526 protein {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: KIAA1526 protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.00  E-value=0.028  Score=40.85  Aligned_cols=40  Identities=28%  Similarity=0.418  Sum_probs=32.3

Q ss_pred             Cccceeeeee---cCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           55 KPLGLTLGQK---PGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~~---~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .++|+.+.-.   ..+.+||..+.+|+.|+++| +++||.|..+
T Consensus        17 ~~lG~~i~gg~~~~~~~~~I~~i~~gg~A~~~G~L~~GD~Il~V   60 (103)
T d1ufxa_          17 ATLGIAIEGGANTRQPLPRIVTIQRGGSAHNCGQLKVGHVILEV   60 (103)
T ss_dssp             SSCCEEEECBTTSSCSSCEEEEECTTSHHHHHCSSCTTCBCCEE
T ss_pred             CccCEEEeeecCCCCCCEEEEEEcCCcchhhcCCCCCCCEEEEE
Confidence            4688877532   34569999999999999999 9999987654

>d1v5la_ b.36.1.1 (A:) Alpha-actinin-2 associated LIM protein {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Alpha-actinin-2 associated LIM protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.00  E-value=0.023  Score=41.38  Aligned_cols=75  Identities=25%  Similarity=0.295  Sum_probs=49.9

Q ss_pred             EEeecCccceeeeeec--CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEec
Q 038893           50 EVEVDKPLGLTLGQKP--GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVN  127 (235)
Q Consensus        50 ~v~~~kplGl~~g~~~--~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~  127 (235)
                      .+.=..|+|+.+....  +..+||..+.+|+.|+.+|+++||.|..+--..= .-|+++   +.+..|..-.+.+.|.+.
T Consensus        10 ~~~g~~~~Gf~l~gg~d~~~~i~V~~v~~g~~A~~~~L~~GD~Il~VNg~~v-~~~~~~---e~v~ll~~~~~~v~l~V~   85 (103)
T d1v5la_          10 VLPGPAPWGFRLSGGIDFNQPLVITRITPGSKAAAANLCPGDVILAIDGFGT-ESMTHA---DAQDRIKAASYQLCLKID   85 (103)
T ss_dssp             EEESSSCCSBCCEEETTTTEEEECSCBCTTSTTGGGTCCTTCBEEEETTEEC-SSCCHH---HHHHHHTTCCSEEECEEC
T ss_pred             EEECCCCCCEEEEeecCCCCCEEEEEccCCChHHhCCCCCCCEEEEECCEEC-CCCCHH---HHHHHHHcCCCEEEEEEE
Confidence            3455689999876643  4459999999999999999999999877622111 123332   234445555566677766


Q ss_pred             C
Q 038893          128 R  128 (235)
Q Consensus       128 ~  128 (235)
                      |
T Consensus        86 R   86 (103)
T d1v5la_          86 R   86 (103)
T ss_dssp             C
T ss_pred             E
Confidence            6

>d1ujua_ b.36.1.1 (A:) Scribble (KIAA0147) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Scribble (KIAA0147)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.99  E-value=0.02  Score=41.98  Aligned_cols=29  Identities=31%  Similarity=0.532  Sum_probs=25.4

Q ss_pred             CCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           66 GGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      ...+||..+.+|+.|+++| +++||.|..+
T Consensus        43 ~~gi~I~~v~~gg~A~~~G~L~~GD~Il~V   72 (111)
T d1ujua_          43 DEGIFISKVSPTGAAGRDGRLRVGLRLLEV   72 (111)
T ss_dssp             CCCCEEEEECTTSHHHHHSSCCTTCBCCBB
T ss_pred             CCCEEEEEECCCChHHHcCCCccceeeeee
Confidence            4679999999999999999 9999986443

>d2csja1 b.36.1.1 (A:8-111) Tight junction protein ZO-2, Tjp2 {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Tight junction protein ZO-2, Tjp2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.95  E-value=0.059  Score=38.88  Aligned_cols=75  Identities=23%  Similarity=0.262  Sum_probs=47.3

Q ss_pred             EEEeecC----ccceeeeee--------cCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhh
Q 038893           49 IEVEVDK----PLGLTLGQK--------PGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQ  116 (235)
Q Consensus        49 ~~v~~~k----plGl~~g~~--------~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn  116 (235)
                      ++|++.|    ++|+.+...        ....+||..+.+|+.|+ .+++.||.|..+--.-= .-|+++   ..+..|+
T Consensus         9 ~tV~l~k~~~~~~G~~i~gg~~~~~~~~~~~~i~V~~v~~gs~A~-~~L~~GD~Il~INg~~v-~~~~~~---ev~~ll~   83 (104)
T d2csja1           9 YTVTLQKDSKRGFGIAVSGGRDNPHFENGETSIVISDVLPGGPAD-GLLQENDRVVMVNGTPM-EDVLHS---FAVQQLR   83 (104)
T ss_dssp             EEEEEECCSSSTTCEEEECCSSCCCCSSCCCBCEEEEECTTSSHH-HHBCTTCEEEEESSCBC-BTCCHH---HHHHHHH
T ss_pred             EEEEEEeCCCCCcCEEEEcccCCCccccCCCCEEEEEECCCChhh-cCCCCCCEEEEECCEEC-CCCCHH---HHHHHHH
Confidence            4566553    477765321        24579999999999997 67999999877622111 112333   3344555


Q ss_pred             cCCCCceEEecC
Q 038893          117 AKPDSVYFVVNR  128 (235)
Q Consensus       117 ~~~~a~if~~~~  128 (235)
                      ...+...|.+.+
T Consensus        84 ~~~~~v~l~V~R   95 (104)
T d2csja1          84 KSGKIAAIVVKR   95 (104)
T ss_dssp             HSCSEEEEEEEE
T ss_pred             cCCCEEEEEEEe
Confidence            556677777766

>d1wh1a_ b.36.1.1 (A:) Hypothetical protein KIAA1095 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Hypothetical protein KIAA1095
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.71  E-value=0.038  Score=41.21  Aligned_cols=39  Identities=31%  Similarity=0.555  Sum_probs=31.4

Q ss_pred             ccceeeeee----cCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           56 PLGLTLGQK----PGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        56 plGl~~g~~----~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .+|+.+.-.    .+.++||..+.+|+.|+++| ++.||.|..+
T Consensus        33 ~lG~~i~~~~~~~~~~gi~V~~v~~gg~A~~~g~L~~GD~Il~I   76 (124)
T d1wh1a_          33 KLGLTVCYRTDDEDDIGIYISEIDPNSIAAKDGRIREGDRIIQI   76 (124)
T ss_dssp             CCCEEEECCCCCSSCCCEEEEEECSSSHHHHTCCCCTTCEEEEE
T ss_pred             cccEEEEecCCCCCCCCEEEEEECCCChhhhhcccCCCCEEEEE
Confidence            378766432    35679999999999999999 9999987654

>d1wg6a_ b.36.1.1 (A:) Partitioning-defective 3-like protein, PAR3-L (RIKEN cDNA 2810455b10) {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Partitioning-defective 3-like protein, PAR3-L (RIKEN cDNA 2810455b10)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.53  E-value=0.028  Score=42.44  Aligned_cols=45  Identities=31%  Similarity=0.545  Sum_probs=33.6

Q ss_pred             EEeecC----ccceeeeee------cCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           50 EVEVDK----PLGLTLGQK------PGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        50 ~v~~~k----plGl~~g~~------~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      +|++.+    .+|+.+.-.      .+..+||..+.+|+.|+++| +++||.|..+
T Consensus        28 ~v~l~~~~~~glG~~i~gg~~~~~~~~~~i~V~~v~~gg~A~~~G~L~~GD~Il~V   83 (127)
T d1wg6a_          28 EIPLNDSGSAGLGVSLKGNKSRETGTDLGIFIKSIIHGGAAFKDGRLRMNDQLIAV   83 (127)
T ss_dssp             EEECSSSTTTCCCCEEEEEEETTTTEEEEEEEEECCSSSSTHHHHTSCSCCBEEEE
T ss_pred             EEEEccCCCCcEeEEEEeecCCCCCCcCCEEEEEECCCCchhccCCCCCCCEEEeE
Confidence            455543    388876421      13479999999999999999 9999987554

>d1wfva_ b.36.1.1 (A:) Membrane associated guanylate kinase inverted-2 (MAGI-2, KIAA0705) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Membrane associated guanylate kinase inverted-2 (MAGI-2, KIAA0705)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.39  E-value=0.018  Score=41.90  Aligned_cols=76  Identities=16%  Similarity=0.255  Sum_probs=51.1

Q ss_pred             EEEeec---Cccceeeee--ecCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCCCCc
Q 038893           49 IEVEVD---KPLGLTLGQ--KPGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSV  122 (235)
Q Consensus        49 ~~v~~~---kplGl~~g~--~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~  122 (235)
                      ++|++.   .++|+.+..  .....+||..+.+|+.|+++| |++||.|..+--..= .-++++   +++..|+..++.+
T Consensus        13 ~~v~l~k~~~glG~~i~gg~~~~~~i~I~~v~~gg~A~~~g~L~~GD~Il~INg~~v-~~~s~~---ev~~~l~~~~~~v   88 (103)
T d1wfva_          13 FTVDMEKGAKGFGFSIRGGREYKMDLYVLRLAEDGPAIRNGRMRVGDQIIEINGEST-RDMTHA---RAIELIKSGGRRV   88 (103)
T ss_dssp             EECCEECCTTSSSBCCEEETTTTEEEECCCBCTTSHHHHHCSSCTTCEEEEETTEEC-SSCCHH---HHHHHHHHHCSEE
T ss_pred             EEEEEEeCCCccCEEEEeeccCCCCEEEEEEcCCChHHhcCCCCCCCEEEEECCEEC-CCCcHH---HHHHHHHcCCCEE
Confidence            345554   458887643  335579999999999999999 999999877643211 122333   4455666667777


Q ss_pred             eEEecC
Q 038893          123 YFVVNR  128 (235)
Q Consensus       123 if~~~~  128 (235)
                      .|.+.+
T Consensus        89 ~l~v~R   94 (103)
T d1wfva_          89 RLLLKR   94 (103)
T ss_dssp             CEEEEC
T ss_pred             EEEEEE
Confidence            777766

>d1x5ra1 b.36.1.1 (A:8-106) Glutamate receptor interacting protein 2, GRIP2 (KIAA1719) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Glutamate receptor interacting protein 2, GRIP2 (KIAA1719)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.31  E-value=0.04  Score=39.61  Aligned_cols=40  Identities=28%  Similarity=0.414  Sum_probs=31.8

Q ss_pred             Cccceeeee------ecCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           55 KPLGLTLGQ------KPGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        55 kplGl~~g~------~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .++|+.+.-      .....+||..+.+|+.|+++| ++.||.|..+
T Consensus        20 ~~lG~~i~gg~~~~~~~~~~~~V~~i~~~s~A~~~G~l~~GD~Il~I   66 (99)
T d1x5ra1          20 SGFGLQLQGGIFATETLSSPPLVCFIEPDSPAERCGLLQVGDRVLSI   66 (99)
T ss_dssp             TCCCEEEECCSCSSSBCSSCCEEEEECTTSHHHHTSSCCTTCBCSEE
T ss_pred             CCcCEEEEEeccCCCCCCCCEEEEEECCCChHHHcCCCCCCCEEEEE
Confidence            468887642      235679999999999999999 9999986544

>d1i16a_ b.36.1.2 (A:) Interleukin 16 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: Interleukin 16
domain: Interleukin 16
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.21  E-value=0.026  Score=42.34  Aligned_cols=76  Identities=22%  Similarity=0.306  Sum_probs=48.0

Q ss_pred             EEEeecC---ccceeeee-----ecCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCccccCccchhhhhhhcCC
Q 038893           49 IEVEVDK---PLGLTLGQ-----KPGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKP  119 (235)
Q Consensus        49 ~~v~~~k---plGl~~g~-----~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~  119 (235)
                      ++|+++|   .+|+.+.-     ..+..+||..+.+|+.|+++| |++||.|..+--   .. +..-...+.+..|..-+
T Consensus        31 ~~V~l~k~~~glG~~i~gg~~~~~~~~~i~V~~v~~gg~A~~~G~L~~GD~Il~VNg---~~-~~~~t~~eav~~l~~~~  106 (130)
T d1i16a_          31 CTVTLEKMSAGLGFSLEGGKGSLHGDKPLTINRIFKGAASEQSETVQPGDEILQLGG---TA-MQGLTRFEAWNIIKALP  106 (130)
T ss_dssp             EEEEEETTSSSTTEEEECCCCCSSSCCCCEEEEECSSCCCSSSCCCCTTCCEEECSS---CB-GGGSCHHHHHHHHHTSC
T ss_pred             EEEEEEeCCCccCEEEeeccCCCCCCCCEEEEEECCCChHHhcCCcccCceeeeECC---ee-cCCCcHHHHHHHHHcCC
Confidence            4566653   48877642     124569999999999999999 999998765432   11 12222333455565544


Q ss_pred             C-CceEEecC
Q 038893          120 D-SVYFVVNR  128 (235)
Q Consensus       120 ~-a~if~~~~  128 (235)
                      + .+.|.+.+
T Consensus       107 ~~~v~l~v~r  116 (130)
T d1i16a_         107 DGPVTIVIRR  116 (130)
T ss_dssp             SSEEEEEEEE
T ss_pred             CCeEEEEEEc
Confidence            3 55666655

>d1sota1 b.36.1.4 (A:255-353) Stress sensor protease DegS, C-terminal domain {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: HtrA-like serine proteases
domain: Stress sensor protease DegS, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=93.10  E-value=0.02  Score=41.08  Aligned_cols=59  Identities=25%  Similarity=0.315  Sum_probs=35.4

Q ss_pred             CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhh-hcCCCC-ceEEecCce
Q 038893           66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAI-QAKPDS-VYFVVNRGG  130 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AI-n~~~~a-~if~~~~~g  130 (235)
                      ..+++|..+.+++.|+++|++.||+|+.   +-|..+-+   .......| +.+++. ..|.+.|.|
T Consensus        25 ~~Gv~V~~V~~~spA~~aGl~~GDiI~~---ing~~v~~---~~~l~~~l~~~~~g~~v~l~v~R~g   85 (99)
T d1sota1          25 LQGIVVNEVSPDGPAANAGIQVNDLIIS---VDNKPAIS---ALETMDQVAEIRPGSVIPVVVMRDD   85 (99)
T ss_dssp             --CEECCCCCSSSTTTSSSCCTTCEECB---SSSSBCCC---SHHHHHHHHHSCTTCEEEECC----
T ss_pred             CCccEEEEecCCCCHHHcCCCcceEEEE---ECCEeccc---HHHHHHHHHcCCCCCEEEEEEEECC
Confidence            4579999999999999999999998743   33444433   34444444 334433 445555544

>d1ueqa_ b.36.1.1 (A:) Membrane associated guanylate kinase inverted-2 (MAGI-2, KIAA0705) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Membrane associated guanylate kinase inverted-2 (MAGI-2, KIAA0705)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.96  E-value=0.045  Score=40.91  Aligned_cols=46  Identities=24%  Similarity=0.472  Sum_probs=35.1

Q ss_pred             EEEeec---Cccceeeee--ecCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           49 IEVEVD---KPLGLTLGQ--KPGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~~---kplGl~~g~--~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .++++.   ..+|+.+..  ..+..+||..+.+|+.|+++| |++||.|..+
T Consensus        21 ~~v~l~k~~~glG~~i~gg~~~~~~i~I~~v~~gg~A~~~g~L~~GD~Il~I   72 (123)
T d1ueqa_          21 LSTTLKKSNMGFGFTIIGGDEPDEFLQVKSVIPDGPAAQDGKMETGDVIVYI   72 (123)
T ss_dssp             EEEEEECCTTSCSEEEECCSSSSCCCEEEEECTTSHHHHTSCCCTTCEEEEE
T ss_pred             EEEEEEECCCeeCEEEEeecCCCCCEEEEEECCCCHHHHcCCCeeCCEEEEE
Confidence            345543   568876644  345679999999999999999 9999987544

>d1wifa_ b.36.1.1 (A:) hypothetical PDZ domain containing protein Uqcrc2 (4930408O21Rik) {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: hypothetical PDZ domain containing protein Uqcrc2 (4930408O21Rik)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.71  E-value=0.031  Score=42.18  Aligned_cols=74  Identities=22%  Similarity=0.270  Sum_probs=46.6

Q ss_pred             EEEeecC-ccceeeee-ecCCcEEEEEeecchHHHHhc-CCcCcceeeeccccCCCc--cccCccchhhhhhhcCC--CC
Q 038893           49 IEVEVDK-PLGLTLGQ-KPGGGVVITAVEGGGNAAKAG-LKSGDQVLYTSSFFGDEL--WPADKLGFTKTAIQAKP--DS  121 (235)
Q Consensus        49 ~~v~~~k-plGl~~g~-~~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~s~~fG~~l--W~~~~~g~~i~AIn~~~--~a  121 (235)
                      +++++.+ +.|+.|.- ..++.+||..+++|+.|+++| |+.||.|..+-   |..+  |+++   +.+..|...+  ..
T Consensus        29 ~~v~l~~g~~GlG~~i~~~~~~i~V~~v~~gg~A~~~G~l~~GD~Il~In---g~~v~~~~~~---e~~~llr~~~~g~~  102 (126)
T d1wifa_          29 IQTKLTVGNLGLGLVVIQNGPYLQISHLINKGAAASDGILQPGDVLISVG---HANVLGYTLR---EFLKLLQNITIGTV  102 (126)
T ss_dssp             EEEEEECCTTCCCCCEEEETTEEEECCCCTTSSGGGCSSSCTTCBEEEES---SSCCTTCCHH---HHHHHHTSCCSSCE
T ss_pred             EEEEEeeCCCcEEEEEEecCCcEEEEEECCCChHHHcCCCCCCCEEEEEC---CEEeEeccHH---HHHHHHhCCCCCCE
Confidence            4566653 44443332 235679999999999999999 99999886652   3222  2222   3344455433  46


Q ss_pred             ceEEecC
Q 038893          122 VYFVVNR  128 (235)
Q Consensus       122 ~if~~~~  128 (235)
                      +.|.+.|
T Consensus       103 v~L~v~R  109 (126)
T d1wifa_         103 LQIKAYR  109 (126)
T ss_dssp             EEEEEES
T ss_pred             EEEEEEe
Confidence            6777776

>d2cs5a1 b.36.1.1 (A:8-113) Tyrosine-protein phosphatase non-receptor type 4, PTPN4 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Tyrosine-protein phosphatase non-receptor type 4, PTPN4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.44  E-value=0.032  Score=40.53  Aligned_cols=39  Identities=26%  Similarity=0.364  Sum_probs=30.8

Q ss_pred             ccceeeeee--cCCcEEEEEeecchHHHHh--cCCcCcceeee
Q 038893           56 PLGLTLGQK--PGGGVVITAVEGGGNAAKA--GLKSGDQVLYT   94 (235)
Q Consensus        56 plGl~~g~~--~~~~vyIa~~isG~~a~~~--Gi~~gD~i~~~   94 (235)
                      ++|+.+.-.  ....+||..+.+|+.|+++  |++.||.|..+
T Consensus        21 ~lG~~l~gg~d~~~~i~V~~v~~g~~A~~~~g~L~~GD~Il~V   63 (106)
T d2cs5a1          21 RFGFNVKGGYDQKMPVIVSRVAPGTPADLCVPRLNEGDQVVLI   63 (106)
T ss_dssp             CCSEEEEEEGGGTEEEEEEEECSSSTTTSSSSCCCTTCEEEEE
T ss_pred             CccEEEEeeecCCCCEEEEEEcCCCcchhccCCCCCCCEEEEE
Confidence            588876533  3456999999999999986  59999987655

>d1ky9a1 b.36.1.4 (A:260-353) Protease Do (DegP, HtrA), C-terminal domains {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: HtrA-like serine proteases
domain: Protease Do (DegP, HtrA), C-terminal domains
species: Escherichia coli [TaxId: 562]

Probab=91.94  E-value=0.03  Score=39.64  Aligned_cols=59  Identities=22%  Similarity=0.346  Sum_probs=38.3

Q ss_pred             CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhc-CC-CCceEEecCce
Q 038893           66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQA-KP-DSVYFVVNRGG  130 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~-~~-~a~if~~~~~g  130 (235)
                      ..++||..+.+|+.|+++|++.||+|..+   -|..+   .........++. ++ +...+.+.|.|
T Consensus        26 ~~Gv~V~~V~~~spA~~aGl~~gDvI~~i---~g~~v---~~~~~l~~~l~~~~~g~~v~l~v~R~g   86 (94)
T d1ky9a1          26 QRGAFVSQVLPNSSAAKAGIKAGDVITSL---NGKPI---SSFAALRAQVGTMPVGSKLTLGLLRDG   86 (94)
T ss_dssp             CCSEECCCCTTCSSSTTTTCCTTCEECBS---SSSBC---CSSHHHHHHTTSSBTTCCCEEEEESSS
T ss_pred             CCCcEEEECCCChhHHHhCCCcccEEEEE---CCEEe---CCHHHHHHHHHhCCCCCEEEEEEEECC
Confidence            35799999999999999999999987544   33333   333333444433 23 33456666655

>d1vaea_ b.36.1.1 (A:) Rhophilin-2 {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Rhophilin-2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.44  E-value=0.041  Score=40.39  Aligned_cols=39  Identities=28%  Similarity=0.343  Sum_probs=30.2

Q ss_pred             CccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeec
Q 038893           55 KPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTS   95 (235)
Q Consensus        55 kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s   95 (235)
                      ..+|+.+.  .+..+||..+.+|+.|+++||+.||.|..+-
T Consensus        26 ~g~Gf~i~--g~~~v~V~~V~~~spA~~~GL~~GD~Il~IN   64 (111)
T d1vaea_          26 GDLGFTLR--GNTPVQVHFLDPHCSASLAGAKEGDYIVSIQ   64 (111)
T ss_dssp             SCCSCCEE--SSSSCEECCCCTTSSHHHHHCCTTCEEEEET
T ss_pred             CccCEEEE--CCccEEEEEEcCCChHHhcccCcccEEEEEC
Confidence            34555432  2446999999999999999999999887653

>d1v5qa_ b.36.1.1 (A:) Glutamate receptor interacting protein {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Glutamate receptor interacting protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.12  E-value=0.19  Score=37.32  Aligned_cols=46  Identities=26%  Similarity=0.413  Sum_probs=34.5

Q ss_pred             EEEeecC----ccceeeeee------cCCcEEEEEeecchHHHHhc-CCcCcceeee
Q 038893           49 IEVEVDK----PLGLTLGQK------PGGGVVITAVEGGGNAAKAG-LKSGDQVLYT   94 (235)
Q Consensus        49 ~~v~~~k----plGl~~g~~------~~~~vyIa~~isG~~a~~~G-i~~gD~i~~~   94 (235)
                      .+|.+.|    .+|+++.-.      ....+||..+.+|+.|++.| +++||.|..+
T Consensus        17 ~ev~l~k~~~~glGf~i~gg~~~~~~~~~~i~V~~I~~gg~A~~~G~L~~GD~Il~I   73 (122)
T d1v5qa_          17 TEVVLTADPVTGFGIQLQGSVFATETLSSPPLISYIEADSPAERCGVLQIGDRVMAI   73 (122)
T ss_dssp             EEEEECCCSSSSSCEEEECCSCCSSSCSSCCEEEEECTTSHHHHSCCCCTTCCEEEE
T ss_pred             EEEEEecCCCCccCEEEecccCCCccCCCCeEEEEECCCCHHHHhCCCCcCCEEEEE
Confidence            3466653    377765432      23459999999999999999 8999988766

>d1k32a1 b.36.1.3 (A:763-853) Tricorn protease {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: Tail specific protease PDZ domain
domain: Tricorn protease
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=90.06  E-value=0.3  Score=34.41  Aligned_cols=37  Identities=14%  Similarity=0.198  Sum_probs=28.9

Q ss_pred             cceeeeeecCCcEEEEEeecc--------hHHHHhcC-CcCcceeee
Q 038893           57 LGLTLGQKPGGGVVITAVEGG--------GNAAKAGL-KSGDQVLYT   94 (235)
Q Consensus        57 lGl~~g~~~~~~vyIa~~isG--------~~a~~~Gi-~~gD~i~~~   94 (235)
                      ||..+... +..+.|..+.+|        +.|+++|+ |.||+|+.+
T Consensus         3 lG~d~~~~-~~~~~I~~i~~G~~~~~~~~sPa~~aGl~k~GD~I~~I   48 (91)
T d1k32a1           3 IACDFKLD-GDHYVVAKAYAGDYSNEGEKSPIFEYGIDPTGYLIEDI   48 (91)
T ss_dssp             CSEEEEEE-TTEEEEEEECBSCTTSTTCBCGGGGGTCCCTTCEEEEE
T ss_pred             ccEEEEEE-CCeEEEEEEecCCCCCcccCChhHhcCCCCCCCEEEEE
Confidence            44444433 678999999998        89999998 899988766

>d1ozha1 c.31.1.3 (A:188-366) Catabolic acetolactate synthase {Klebsiella pneumoniae [TaxId: 573]}

class: Alpha and beta proteins (a/b)
fold: DHS-like NAD/FAD-binding domain
superfamily: DHS-like NAD/FAD-binding domain
family: Pyruvate oxidase and decarboxylase, middle domain
domain: Catabolic acetolactate synthase
species: Klebsiella pneumoniae [TaxId: 573]

Probab=89.41  E-value=0.076  Score=41.40  Aligned_cols=119  Identities=13%  Similarity=0.045  Sum_probs=68.7

Q ss_pred             ccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEEeec-chHHHHhcCCc
Q 038893            9 LQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITAVEG-GGNAAKAGLKS   87 (235)
Q Consensus         9 ~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~~is-G~~a~~~Gi~~   87 (235)
                      |.+|++.|    |.+|+|....+..+.+.+||+.+|+.+..+   ..-.|. +-.+ ++..|+...-. |..+...-++.
T Consensus        17 L~~AkrPv----ii~G~g~~~~~a~~~l~~lae~~giPv~tt---~~~~g~-~~~~-~~~~~~G~~g~~~~~~~~~~~~~   87 (179)
T d1ozha1          17 IAQAKNPI----FLLGLMASQPENSKALRRLLETSHIPVTST---YQAAGA-VNQD-NFSRFAGRVGLFNNQAGDRLLQL   87 (179)
T ss_dssp             HHHCSSEE----EEECGGGGSGGGHHHHHHHHHHHCCCEEEC---GGGTTT-CCTT-TCTTEEEECSSBTTCHHHHHHHH
T ss_pred             HHhCCCEE----EEEchhhChhhHHHHHHHHHHhccceEEee---cccccc-cccc-cccccccccCccccHHHhhhhcc
Confidence            45566542    234888888888999999999999998422   112222 2221 33444444322 22222233788


Q ss_pred             CcceeeeccccCC---CccccCccchhhhhhhcCCCCceE-EecCceeeeecccc
Q 038893           88 GDQVLYTSSFFGD---ELWPADKLGFTKTAIQAKPDSVYF-VVNRGGADVDVKRL  138 (235)
Q Consensus        88 gD~i~~~s~~fG~---~lW~~~~~g~~i~AIn~~~~a~if-~~~~~g~~~d~~~~  138 (235)
                      .|.|..+.+.|.+   ..|...  ...++-|+.|+...-- .-.++++++|.+..
T Consensus        88 aDlvl~vG~~~~~~~~~~~~~~--~~kvI~id~d~~~i~~~~~~d~~i~gD~~~~  140 (179)
T d1ozha1          88 ADLVICIGYSPVEYEPAMWNSG--NATLVHIDVLPAYEERNYTPDVELVGDIAGT  140 (179)
T ss_dssp             CSEEEEESCCGGGSCGGGTCCS--CSEEEEEESSCCCCBTTBCCSEEEESCHHHH
T ss_pred             ccceEEEccccccccccccccc--cccEEEEecchhhcCCccCCCeEEEeCHHHH
Confidence            9999998776543   445433  2345666666643211 12366788887764

>d2ji7a1 c.31.1.3 (A:195-369) Oxalyl-CoA decarboxylase {Oxalobacter formigenes [TaxId: 847]}

class: Alpha and beta proteins (a/b)
fold: DHS-like NAD/FAD-binding domain
superfamily: DHS-like NAD/FAD-binding domain
family: Pyruvate oxidase and decarboxylase, middle domain
domain: Oxalyl-CoA decarboxylase
species: Oxalobacter formigenes [TaxId: 847]

Probab=87.60  E-value=0.048  Score=42.37  Aligned_cols=114  Identities=12%  Similarity=0.011  Sum_probs=65.0

Q ss_pred             ccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEEeecchHHHHhcCCcC
Q 038893            9 LQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSG   88 (235)
Q Consensus         9 ~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~g   88 (235)
                      |.+|++.|    |..|.|....+..+.+.+||+.+|+.+-.+   ..--|+ +..+ .|. |      ++......++..
T Consensus        16 L~~A~rPv----ii~G~g~~~~~a~~~l~~lae~~~iPv~~t---~~~~g~-~~~~-h~~-~------~~~~~~~~l~~a   79 (175)
T d2ji7a1          16 IKNAKRPV----IMLGKGAAYAQCDDEIRALVEETGIPFLPM---GMAKGL-LPDN-HPQ-S------AAATRAFALAQC   79 (175)
T ss_dssp             HHTCSSCE----EEECHHHHHTTCHHHHHHHHHHHTCCEEEC---TTTBTT-BCTT-CTT-B------CGGGHHHHHHHC
T ss_pred             HHhCCCEE----EEECCCccccccHHHHHHHhhhceeeeecc---cccccc-CCCc-ccc-c------ccccccceeecc
Confidence            34555543    234788887888899999999999998433   111222 2111 111 1      111112237889


Q ss_pred             cceeeeccccCCCc---cccCcc--chhhhhhhcCCCCce-EEecCceeeeecccc
Q 038893           89 DQVLYTSSFFGDEL---WPADKL--GFTKTAIQAKPDSVY-FVVNRGGADVDVKRL  138 (235)
Q Consensus        89 D~i~~~s~~fG~~l---W~~~~~--g~~i~AIn~~~~a~i-f~~~~~g~~~d~~~~  138 (235)
                      |.|..+.+.|+..+   |+....  ...++.|+.|+...- ..-.++++++|.+..
T Consensus        80 Dlii~vG~~~~~~~~~~~~~~~~~~~~kvI~Id~d~~~i~~~~~~~l~i~~D~~~~  135 (175)
T d2ji7a1          80 DVCVLIGARLNWLMQHGKGKTWGDELKKYVQIDIQANEMDSNQPIAAPVVGDIKSA  135 (175)
T ss_dssp             SEEEEESCCSSGGGGGGCSGGGTTSCCEEEEEESCGGGTTSSSCCSEEEESCHHHH
T ss_pred             cceeeeeccCCcccccccccccCCccceEEEEeccchhhccccCcCceEEEcHHHH
Confidence            99999998887543   222211  223567777764321 123466788886653

>d2gnra1 b.40.4.15 (A:8-144) Hypothetical protein SSO2064 {Sulfolobus solfataricus [TaxId: 2287]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: SSO2064-like
domain: Hypothetical protein SSO2064
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=87.54  E-value=0.11  Score=39.43  Aligned_cols=32  Identities=19%  Similarity=0.507  Sum_probs=23.6

Q ss_pred             cccceEEcCCCceEEeCCCCCCCCCCCCCCCCCCCCccCe
Q 038893          156 KARATHICLDCGYIYFLQKPFDELPDTYVCPQCQAPKKRF  195 (235)
Q Consensus       156 ~~~~~y~C~~CGyvyd~~tpfe~lped~~CP~C~a~k~~F  195 (235)
                      +.....+|..||+++.+.        ...||.|+......
T Consensus        35 grL~~~~C~~CG~v~~Pp--------r~~Cp~C~s~~~e~   66 (137)
T d2gnra1          35 NKIIGSKCSKCGRIFVPA--------RSYCEHCFVKIENY   66 (137)
T ss_dssp             TCCEEEECTTTCCEEESC--------CSEETTTTEECCEE
T ss_pred             CeEEEEEcCCCCCEEeCc--------cccCCCCCCCccee
Confidence            345578999999999882        35799997755443

>d2akla2 g.41.3.5 (A:3-40) Hypothetical protein PA0128, N-terminal domain {Pseudomonas aeruginosa [TaxId: 287]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: PhnA zinc-binding domain
domain: Hypothetical protein PA0128, N-terminal domain
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=87.08  E-value=0.064  Score=33.07  Aligned_cols=22  Identities=36%  Similarity=0.878  Sum_probs=12.7

Q ss_pred             EcCCCc--eEEeCCCCCCCCCCCCCCCCCCC
Q 038893          162 ICLDCG--YIYFLQKPFDELPDTYVCPQCQA  190 (235)
Q Consensus       162 ~C~~CG--yvyd~~tpfe~lped~~CP~C~a  190 (235)
                      .|+.|+  |+|..       ..-++||.|++
T Consensus         5 ~CP~C~seytYed-------g~l~vCPeC~h   28 (38)
T d2akla2           5 PCPQCNSEYTYED-------GALLVCPECAH   28 (38)
T ss_dssp             CCTTTCCCCCEEC-------SSSEEETTTTE
T ss_pred             cCCCCCCcceEcC-------CCEEECCcccC
Confidence            466666  55543       23456777765

>d1q6za1 c.31.1.3 (A:182-341) Benzoylformate decarboxylase {Pseudomonas putida [TaxId: 303]}

class: Alpha and beta proteins (a/b)
fold: DHS-like NAD/FAD-binding domain
superfamily: DHS-like NAD/FAD-binding domain
family: Pyruvate oxidase and decarboxylase, middle domain
domain: Benzoylformate decarboxylase
species: Pseudomonas putida [TaxId: 303]

Probab=87.03  E-value=0.039  Score=41.92  Aligned_cols=112  Identities=13%  Similarity=-0.010  Sum_probs=62.0

Q ss_pred             cccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEEeecchHHHHhcCCcCcceeeeccccCCC
Q 038893           22 AVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDE  101 (235)
Q Consensus        22 ~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~  101 (235)
                      ..|.|+...+..+.+.+||+++|+.+-.+  ...-.++ +  ..+...|+..+-.+..+...-++..|.|..+.+.+++.
T Consensus        25 i~G~g~~~~~~~~~l~~lae~l~~pv~~t--~~~~~~~-~--~~~~p~~~G~~~~~~~~~~~~l~~aDlil~lG~~l~~~   99 (160)
T d1q6za1          25 VLGPDVDAANANADCVMLAERLKAPVWVA--PSAPRCP-F--PTRHPCFRGLMPAGIAAISQLLEGHDVVLVIGAPVFRY   99 (160)
T ss_dssp             EECHHHHHTTCHHHHHHHHHHHTCCEEEC--SSCSBCC-S--CTTSTTEEEECCSCHHHHHHHHTTCSEEEEESSCTTCC
T ss_pred             EECcCccccccchHHHHHHHhcCceEEee--ccccccc-c--cccccccccccccCcHHHHHHHhcCCeEEEEecccccc
Confidence            34888888889999999999999976322  1111111 1  11223444443233333333489999999998765442


Q ss_pred             cc----ccCccchhhhhhhcCCCCceEEecCceeeeecccc
Q 038893          102 LW----PADKLGFTKTAIQAKPDSVYFVVNRGGADVDVKRL  138 (235)
Q Consensus       102 lW----~~~~~g~~i~AIn~~~~a~if~~~~~g~~~d~~~~  138 (235)
                      .+    +...-+..++-|+.|+......-.+.++++|+...
T Consensus       100 ~~~~~~~~~~~~~~ii~v~~d~~~~~~~~~~~~i~~D~~~~  140 (160)
T d1q6za1         100 HQYDPGQYLKPGTRLISVTCDPLEAARAPMGDAIVADIGAM  140 (160)
T ss_dssp             CSCCCSCSSCTTCEEEEEESCHHHHHHCSSSEEEESCHHHH
T ss_pred             cccccccccccCceEEEeeCCHHHhCCCCCCeeEEeCHHHH
Confidence            21    11112234566666654332222345666776653

>d2h3la1 b.36.1.1 (A:1310-1412) Erbin {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: PDZ domain
domain: Erbin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.61  E-value=0.18  Score=36.36  Aligned_cols=58  Identities=21%  Similarity=0.422  Sum_probs=36.8

Q ss_pred             CCcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhcCCCCceEEecC
Q 038893           66 GGGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQAKPDSVYFVVNR  128 (235)
Q Consensus        66 ~~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~~~~a~if~~~~  128 (235)
                      ++.+||..+.+|+.|+.. +++||.|..+--.   .+ ..-...+.+..|.+-++...|.+.|
T Consensus        42 ~~gI~I~~V~~gs~A~~~-L~~GD~Il~VNg~---~v-~~~t~~eav~~l~~~~~~v~L~V~R   99 (103)
T d2h3la1          42 DDGIFVTRVQPEGPASKL-LQPGDKIIQANGY---SF-INIEHGQAVSLLKTFQNTVELIIVR   99 (103)
T ss_dssp             CCSEEEEEECTTSTTTTT-CCTTCEEEEETTE---EC-SSCCHHHHHHHHHHCCSEEEEEEEE
T ss_pred             CCCEEEEEeCCCChHHhc-cCCCCEEEEECCE---EC-CCCCHHHHHHHHHhCCCeEEEEEEE
Confidence            467999999999999875 9999988665221   11 0111223344555556666666654

>d2ez9a1 c.31.1.3 (A:183-365) Pyruvate oxidase {Lactobacillus plantarum [TaxId: 1590]}

class: Alpha and beta proteins (a/b)
fold: DHS-like NAD/FAD-binding domain
superfamily: DHS-like NAD/FAD-binding domain
family: Pyruvate oxidase and decarboxylase, middle domain
domain: Pyruvate oxidase
species: Lactobacillus plantarum [TaxId: 1590]

Probab=85.72  E-value=0.11  Score=40.84  Aligned_cols=112  Identities=13%  Similarity=0.025  Sum_probs=59.8

Q ss_pred             ccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEE------EeecCccceeeeeecCCcEEEEE-eecchHHH
Q 038893            9 LQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIE------VEVDKPLGLTLGQKPGGGVVITA-VEGGGNAA   81 (235)
Q Consensus         9 ~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~------v~~~kplGl~~g~~~~~~vyIa~-~isG~~a~   81 (235)
                      |.+|++.|    |.+|.|..  +.-+.+.+||+.+|+.+..+      ++-+.|+            |+.. +..|..+.
T Consensus        27 L~~A~rPv----ii~G~G~~--~a~~~l~~lae~~~~Pv~tt~~~~g~~~~~hp~------------~~G~~G~~~~~~~   88 (183)
T d2ez9a1          27 LLAAERPL----IYYGIGAR--KAGKELEQLSKTLKIPLMSTYPAKGIVADRYPA------------YLGSANRVAQKPA   88 (183)
T ss_dssp             HHHCSSEE----EEECGGGT--TCHHHHHHHHHHHTCCEEECGGGTTSSCTTCTT------------BCCCCSSSSCHHH
T ss_pred             HHhCCCeE----EEEcCCcc--cchHHHHHHhhccceEEEeeccccccccccCcc------------ccccccccccHHH
Confidence            44555543    23466764  34477999999999998543      2222331            2211 11233333


Q ss_pred             HhcCCcCcceeeeccccCCCc-cccCccchhhhhhhcCCCCceE-EecCceeeeecccc
Q 038893           82 KAGLKSGDQVLYTSSFFGDEL-WPADKLGFTKTAIQAKPDSVYF-VVNRGGADVDVKRL  138 (235)
Q Consensus        82 ~~Gi~~gD~i~~~s~~fG~~l-W~~~~~g~~i~AIn~~~~a~if-~~~~~g~~~d~~~~  138 (235)
                      ..-|+..|.|..+.+.|...- ++.-.-...++-|+.|+...-- .-.+.++++|++..
T Consensus        89 ~~~i~~aDlil~vG~~l~~~~~~~~~~~~~~iI~Id~d~~~i~~~~~~~~~i~~D~~~~  147 (183)
T d2ez9a1          89 NEALAQADVVLFVGNNYPFAEVSKAFKNTRYFLQIDIDPAKLGKRHKTDIAVLADAQKT  147 (183)
T ss_dssp             HHHHHHCSEEEEESCCCTTTTTTTTTTTCSEEEEEESCGGGTTSSSCCSEEEESCHHHH
T ss_pred             HhhhhccCceEEeecccCcccceeecccccchheeeccHHHHhhcCCCCeEEEECHHHH
Confidence            334788999988877665411 1111112345666766643321 22456788886653

>d2i6va1 b.36.1.5 (A:219-305) General secretion pathway protein C, EpsC {Vibrio cholerae [TaxId: 666]}

class: All beta proteins
fold: PDZ domain-like
superfamily: PDZ domain-like
family: EpsC C-terminal domain-like
domain: General secretion pathway protein C, EpsC
species: Vibrio cholerae [TaxId: 666]

Probab=85.50  E-value=0.24  Score=34.51  Aligned_cols=61  Identities=20%  Similarity=0.200  Sum_probs=37.5

Q ss_pred             CcEEEEEeecchHHHHhcCCcCcceeeeccccCCCccccCccchhhhhhhc-C-CCCceEEecCceeee
Q 038893           67 GGVVITAVEGGGNAAKAGLKSGDQVLYTSSFFGDELWPADKLGFTKTAIQA-K-PDSVYFVVNRGGADV  133 (235)
Q Consensus        67 ~~vyIa~~isG~~a~~~Gi~~gD~i~~~s~~fG~~lW~~~~~g~~i~AIn~-~-~~a~if~~~~~g~~~  133 (235)
                      .+++|..+.+++.++++|++.||+|..+   -|..+=+.++   ....++. + .+...|.+.|.|-..
T Consensus        19 ~G~~v~~v~~~s~~~~aGl~~GDiI~~i---ng~~v~~~~~---~~~~~~~~~~~~~~~l~v~R~g~~~   81 (87)
T d2i6va1          19 LGYRVSPGKDPVLFESIGLQDGDMAVAL---NGLDLTDPNV---MNTLFQSMNEMTEMSLTVERDGQQH   81 (87)
T ss_dssp             EEEEEEECSCHHHHHHTTCCTTCEEEEE---TTEETTCHHH---HHHHHHTGGGCSEEEEEEEETTEEE
T ss_pred             EEEEEecCCCCCHHHHCCCCCCCEEEEE---CCEEeecHHH---HHHHHHhhccccccEEEEEECCEEE
Confidence            4678899999999999999999987543   3333322233   3333322 2 233456666666443

>d1zpda1 c.31.1.3 (A:188-362) Pyruvate decarboxylase {Zymomonas mobilis [TaxId: 542]}

class: Alpha and beta proteins (a/b)
fold: DHS-like NAD/FAD-binding domain
superfamily: DHS-like NAD/FAD-binding domain
family: Pyruvate oxidase and decarboxylase, middle domain
domain: Pyruvate decarboxylase
species: Zymomonas mobilis [TaxId: 542]

Probab=84.42  E-value=0.36  Score=37.17  Aligned_cols=84  Identities=12%  Similarity=0.122  Sum_probs=50.1

Q ss_pred             ccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEEE--eecchHHHHhcCC
Q 038893            9 LQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVITA--VEGGGNAAKAGLK   86 (235)
Q Consensus         9 ~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa~--~isG~~a~~~Gi~   86 (235)
                      |.+|++.|    |.+|.|+...+..+.+.+||+++|+.+..+ .  .--|+ +..  +-..|+..  +.-|..+-..-++
T Consensus        19 l~~AkrPv----Ii~G~g~~~~~a~~~l~~lae~~~~Pv~tt-~--~gkg~-i~e--~~p~~~G~~~G~~~~~~~~~~~~   88 (175)
T d1zpda1          19 IANRDKVA----VLVGSKLRAAGAEEAAVKFTDALGGAVATM-A--AAKSF-FPE--ENALYIGTSWGEVSYPGVEKTMK   88 (175)
T ss_dssp             HTTCSCEE----EEECTTTTTTTCHHHHHHHHHHHCCCEEEE-G--GGTTS-SCT--TSTTEEEEECGGGSCTTHHHHHH
T ss_pred             HHcCCCEE----EEECcCccccchHHHHHHHHHhhceeEEec-c--ccccC-CCc--ccccccCCcccccchHHHHHHHh
Confidence            34555542    235888888888899999999999999533 1  11222 211  12234332  1112222233378


Q ss_pred             cCcceeeeccccCCCc
Q 038893           87 SGDQVLYTSSFFGDEL  102 (235)
Q Consensus        87 ~gD~i~~~s~~fG~~l  102 (235)
                      ..|.|..+.+.|.+..
T Consensus        89 ~aDlvl~lG~~~~d~~  104 (175)
T d1zpda1          89 EADAVIALAPVFNDYS  104 (175)
T ss_dssp             HCSEEEEESCCCBTTT
T ss_pred             cCceEEEEcCccCccc
Confidence            8999999999887643

>d1vd4a_ g.41.3.1 (A:) Transcription initiation factor TFIIE-alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zinc beta-ribbon
family: Transcriptional factor domain
domain: Transcription initiation factor TFIIE-alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.22  E-value=0.087  Score=35.66  Aligned_cols=34  Identities=26%  Similarity=0.591  Sum_probs=24.8

Q ss_pred             cceEEcCCCceEEeCC---CCCCCCCCCCCCCCCCCC
Q 038893          158 RATHICLDCGYIYFLQ---KPFDELPDTYVCPQCQAP  191 (235)
Q Consensus       158 ~~~y~C~~CGyvyd~~---tpfe~lped~~CP~C~a~  191 (235)
                      .+.|+|+.|+..|...   .-++.....+.|-.|+..
T Consensus        12 ~~~y~Cp~C~~~ys~Lda~~L~d~~~~~F~C~~C~~e   48 (62)
T d1vd4a_          12 RASFKCPVCSSTFTDLEANQLFDPMTGTFRCTFCHTE   48 (62)
T ss_dssp             SSEEECSSSCCEEEHHHHHHHEETTTTEEBCSSSCCB
T ss_pred             CCceECCCCCCCcchhhHHHhcCcCCCeEEecCCCCE
Confidence            5679999999999875   112223356899999874

>d2djia1 c.31.1.3 (A:187-363) Pyruvate oxidase {Aerococcus viridans [TaxId: 1377]}

class: Alpha and beta proteins (a/b)
fold: DHS-like NAD/FAD-binding domain
superfamily: DHS-like NAD/FAD-binding domain
family: Pyruvate oxidase and decarboxylase, middle domain
domain: Pyruvate oxidase
species: Aerococcus viridans [TaxId: 1377]

Probab=81.64  E-value=0.23  Score=38.34  Aligned_cols=83  Identities=19%  Similarity=0.075  Sum_probs=44.0

Q ss_pred             ccccceeeecccccccCCcccccCchhHHHHHHHhCCeeEEEEeecCccceeeeeecCCcEEEE-EeecchHHHHhcCCc
Q 038893            9 LQESKRRVSDHFLAVSKTKNATRSLDNNKITARTAGASKTIEVEVDKPLGLTLGQKPGGGVVIT-AVEGGGNAAKAGLKS   87 (235)
Q Consensus         9 ~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~lA~~lg~~~~~~v~~~kplGl~~g~~~~~~vyIa-~~isG~~a~~~Gi~~   87 (235)
                      |.+|++.|    |.+|.|....  -+.+.+||+.+|+.+-.+.   .-.|+ +..+ . ..|+. .+..|......-|+.
T Consensus        18 l~~Ak~Pv----ii~G~g~~~a--~~~l~~lae~l~~Pv~~t~---~~~g~-ip~~-h-p~~~G~~g~~~~~~~~~~l~~   85 (177)
T d2djia1          18 LNNSKRPV----IYAGIGTMGH--GPAVQELARKIKAPVITTG---KNFET-FEWD-F-EALTGSTYRVGWKPANETILE   85 (177)
T ss_dssp             HHTCSSEE----EEECGGGTTC--HHHHHHHHHHHTCCEEECT---TCGGG-SCTT-C-TTBCCCSSSSSCHHHHHHHHH
T ss_pred             HHhCCCEE----EEECcChhhH--HHHHHHhhhccceEEEecc---ccccc-cccc-c-cccccccccccChhhhhhhhc
Confidence            45566553    2336665432  3579999999999984331   11121 1111 1 12221 112233333333788


Q ss_pred             CcceeeeccccCCCcc
Q 038893           88 GDQVLYTSSFFGDELW  103 (235)
Q Consensus        88 gD~i~~~s~~fG~~lW  103 (235)
                      .|.|..+.+.|....|
T Consensus        86 aDlvi~lG~~~~~~~~  101 (177)
T d2djia1          86 ADTVLFAGSNFPFSEV  101 (177)
T ss_dssp             CSEEEEESCCCTTTTT
T ss_pred             cCceEEeeccCCCccc
Confidence            9999999887755443

>d2apob1 g.41.16.1 (B:403-457) Ribosome biogenesis protein Nop10 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Nop10-like SnoRNP
family: Nucleolar RNA-binding protein Nop10-like
domain: Ribosome biogenesis protein Nop10
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=81.09  E-value=0.38  Score=31.68  Aligned_cols=24  Identities=25%  Similarity=0.776  Sum_probs=16.8

Q ss_pred             cceEEcCCCce-EEeCCCCCCCCCCCCCCCCCCCCc
Q 038893          158 RATHICLDCGY-IYFLQKPFDELPDTYVCPQCQAPK  192 (235)
Q Consensus       158 ~~~y~C~~CGy-vyd~~tpfe~lped~~CP~C~a~k  192 (235)
                      +..-+|+.||. +..         +  .||.||.+.
T Consensus         2 ~klrkC~~C~~YTL~---------~--~CP~CG~~t   26 (55)
T d2apob1           2 MRMKKCPKCGLYTLK---------E--ICPKCGEKT   26 (55)
T ss_dssp             CCCEECTTTCCEESS---------S--BCSSSCSBC
T ss_pred             cceeeCCcccceecc---------c--cCcCCCCcc
Confidence            34579999994 432         2  899998753