Psyllid ID: psy10055

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120----
Protein Sequence
MSENRNCTALCSDCQYCHYSVENSVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEISVVRAISMRVRGSRKKLRLIECEDGAGMDPPSRELIIGDRQTGKTALAIDTIINQKR
Secondary Structure (PSIPRED)
ccccccEEEEccccccEEEEccccccccccccccEEEcccEEEEEcccccccccccccccccccEEEEEEEcccEEEccccccccHHcccccccccccccEEEEccccccHHHEEHHHHHcccc
Secondary Structure Prediction (SSPRO)
ccccccccEcccccHHHEEEEcccccccccccccccccEEEEEcccccEEEEcccccccccccHHHEEHHHHEEEEEEcccccEEEEEEccccccccccEcEEEEcccccHHHHHHHHHHHcHH
Coil and Loop (DISEMBL)
msenrnctalcsdcqychysvensvldpceehdpckhggicistdsgpicecrnldfegiyceKVEISVVRAISMRVrgsrkklrliecedgagmdppsreliigdrqtgkTALAIDTIINQKR
Flexible Loop (DISEMBL)
MSENRNCTALCSDCQYCHYSVENSVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEisvvraismrvrgsrkklrliecedgagmdppsreliigdrqtgktalaidtiinqkr
Low Complexity Region (SEG)
MSENRNCTALCSDCQYCHYSVENSVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEISVVRAISMRVRGSRKKLRLIECEDGAGMDPPSRELIIGDRQTGKTALAIDTIINQKR
Disordered region (IsUnstruct)
******CTALCSDCQYCHYSVENSVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEISVVRAISMRVRGSRKKLRLIECE***********LIIG*****KTALAIDTI*****
Disordered Region (DISOPRED)
****RNCTALCSDCQYCHYSVENSVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEISVVRAISMRVRGSRKKLRLIECEDGAGMDPPSRELIIGDRQTGKTALAIDTIINQK*
Disordered Region (DISEMBL)
********ALCSDCQYCHYSVENSVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEISVVRAISMRVRGSRKKLRLIECEDGAGMDPPSRELIIGDRQTGKTALAIDTIINQKR
Disordered Region (DISPRO)
*****NCTALCSDCQYCHYSVENSVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEISVVRAISMRVRGSRKKLRLIECEDGAGMDPPSRELIIGDRQTGKTALAIDTIINQKR
Transmembrane Helix (TMHMM)
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Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSENRNCTALCSDCQYCHYSVENSVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEISVVRAISMRVRGSRKKLRLIECEDGAGMDPPSRELIIGDRQTGKTALAIDTIINQKR
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	124	2.2.26 [Sep-21-2011]
P35381	552	ATP synthase subunit alph	no	N/A	0.201	0.045	1.0	2e-07
Q9XXK1	538	ATP synthase subunit alph	yes	N/A	0.201	0.046	0.96	4e-07
A0LDA2	507	ATP synthase subunit alph	yes	N/A	0.201	0.049	0.96	5e-07
O51874	510	ATP synthase subunit alph	yes	N/A	0.201	0.049	0.96	5e-07
B8D6S5	512	ATP synthase subunit alph	yes	N/A	0.201	0.048	0.96	7e-07
P57122	512	ATP synthase subunit alph	yes	N/A	0.201	0.048	0.96	7e-07
B8D8H1	512	ATP synthase subunit alph	yes	N/A	0.201	0.048	0.96	7e-07
P08428	545	ATP synthase subunit alph	N/A	N/A	0.201	0.045	0.92	9e-07
P15999	553	ATP synthase subunit alph	yes	N/A	0.201	0.045	0.92	9e-07
Q5R546	553	ATP synthase subunit alph	yes	N/A	0.201	0.045	0.92	9e-07

>sp|P35381|ATPA_DROME ATP synthase subunit alpha, mitochondrial OS=Drosophila melanogaster GN=blw PE=1 SV=2

 Score = 54.3 bits (129), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 25/25 (100%), Positives = 25/25 (100%)

Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKTALAIDTIINQKR
Sbjct: 206 RELIIGDRQTGKTALAIDTIINQKR 230

Mitochondrial membrane ATP synthase (F(1)F(0) ATP synthase or Complex V) produces ATP from ADP in the presence of a proton gradient across the membrane which is generated by electron transport complexes of the respiratory chain. F-type ATPases consist of two structural domains, F(1) - containing the extramembraneous catalytic core, and F(0) - containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation. Subunits alpha and beta form the catalytic core in F(1). Rotation of the central stalk against the surrounding alpha(3)beta(3) subunits leads to hydrolysis of ATP in three separate catalytic sites on the beta subunits. Subunit alpha does not bear the catalytic high-affinity ATP-binding sites.
Drosophila melanogaster (taxid: 7227)

>sp|Q9XXK1|ATPA_CAEEL ATP synthase subunit alpha, mitochondrial OS=Caenorhabditis elegans GN=H28O16.1 PE=1 SV=1

 Score = 53.5 bits (127), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 24/25 (96%), Positives = 25/25 (100%)

Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKTA+AIDTIINQKR
Sbjct: 192 RELIIGDRQTGKTAIAIDTIINQKR 216

Mitochondrial membrane ATP synthase (F(1)F(0) ATP synthase or Complex V) produces ATP from ADP in the presence of a proton gradient across the membrane which is generated by electron transport complexes of the respiratory chain. F-type ATPases consist of two structural domains, F(1) - containing the extramembraneous catalytic core, and F(0) - containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation. Subunits alpha and beta form the catalytic core in F(1). Rotation of the central stalk against the surrounding alpha(3)beta(3) subunits leads to hydrolysis of ATP in three separate catalytic sites on the beta subunits. Subunit alpha does not bear the catalytic high-affinity ATP-binding sites.

Caenorhabditis elegans (taxid: 6239)

>sp|A0LDA2|ATPA_MAGSM ATP synthase subunit alpha OS=Magnetococcus sp. (strain MC-1) GN=atpA PE=3 SV=1

 Score = 53.1 bits (126), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 24/25 (96%), Positives = 25/25 (100%)

Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKTA+AIDTIINQKR
Sbjct: 164 RELIIGDRQTGKTAVAIDTIINQKR 188

Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit.

Magnetococcus sp. (strain MC-1) (taxid: 156889)

EC: 3

EC: .

EC: 6

EC: .

EC: 3

EC: .

EC: 1

EC: 4

>sp|O51874|ATPA_BUCAP ATP synthase subunit alpha OS=Buchnera aphidicola subsp. Schizaphis graminum (strain Sg) GN=atpA PE=3 SV=2

 Score = 53.1 bits (126), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 24/25 (96%), Positives = 25/25 (100%)

Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKTALAIDTIINQK+
Sbjct: 164 RELIIGDRQTGKTALAIDTIINQKK 188

Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit.

Buchnera aphidicola subsp. Schizaphis graminum (strain Sg) (taxid: 198804)

EC: 3

EC: .

EC: 6

EC: .

EC: 3

EC: .

EC: 1

EC: 4

>sp|B8D6S5|ATPA_BUCAT ATP synthase subunit alpha OS=Buchnera aphidicola subsp. Acyrthosiphon pisum (strain Tuc7) GN=atpA PE=3 SV=1

 Score = 52.4 bits (124), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 24/25 (96%), Positives = 25/25 (100%)

Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKTALAIDTIINQK+
Sbjct: 164 RELIIGDRQTGKTALAIDTIINQKQ 188

Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit.

Buchnera aphidicola subsp. Acyrthosiphon pisum (strain Tuc7) (taxid: 561501)

EC: 3

EC: .

EC: 6

EC: .

EC: 3

EC: .

EC: 1

EC: 4

>sp|P57122|ATPA_BUCAI ATP synthase subunit alpha OS=Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) GN=atpA PE=3 SV=1

 Score = 52.4 bits (124), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 24/25 (96%), Positives = 25/25 (100%)

Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKTALAIDTIINQK+
Sbjct: 164 RELIIGDRQTGKTALAIDTIINQKQ 188

Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit.

Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) (taxid: 107806)

EC: 3

EC: .

EC: 6

EC: .

EC: 3

EC: .

EC: 1

EC: 4

>sp|B8D8H1|ATPA_BUCA5 ATP synthase subunit alpha OS=Buchnera aphidicola subsp. Acyrthosiphon pisum (strain 5A) GN=atpA PE=3 SV=1

 Score = 52.4 bits (124), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 24/25 (96%), Positives = 25/25 (100%)

Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKTALAIDTIINQK+
Sbjct: 164 RELIIGDRQTGKTALAIDTIINQKQ 188

Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit.

Buchnera aphidicola subsp. Acyrthosiphon pisum (strain 5A) (taxid: 563178)

EC: 3

EC: .

EC: 6

EC: .

EC: 3

EC: .

EC: 1

EC: 4

>sp|P08428|ATPA_XENLA ATP synthase subunit alpha, mitochondrial OS=Xenopus laevis GN=atp5a PE=2 SV=1

 Score = 52.4 bits (124), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 23/25 (92%), Positives = 25/25 (100%)

Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKT++AIDTIINQKR
Sbjct: 208 RELIIGDRQTGKTSIAIDTIINQKR 232

Mitochondrial membrane ATP synthase (F(1)F(0) ATP synthase or Complex V) produces ATP from ADP in the presence of a proton gradient across the membrane which is generated by electron transport complexes of the respiratory chain. F-type ATPases consist of two structural domains, F(1) - containing the extramembraneous catalytic core, and F(0) - containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation. Subunits alpha and beta form the catalytic core in F(1). Rotation of the central stalk against the surrounding alpha(3)beta(3) subunits leads to hydrolysis of ATP in three separate catalytic sites on the beta subunits. Subunit alpha does not bear the catalytic high-affinity ATP-binding sites.

Xenopus laevis (taxid: 8355)

>sp|P15999|ATPA_RAT ATP synthase subunit alpha, mitochondrial OS=Rattus norvegicus GN=Atp5a1 PE=1 SV=2

 Score = 52.4 bits (124), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 23/25 (92%), Positives = 25/25 (100%)

Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKT++AIDTIINQKR
Sbjct: 207 RELIIGDRQTGKTSIAIDTIINQKR 231

Mitochondrial membrane ATP synthase (F(1)F(0) ATP synthase or Complex V) produces ATP from ADP in the presence of a proton gradient across the membrane which is generated by electron transport complexes of the respiratory chain. F-type ATPases consist of two structural domains, F(1) - containing the extramembraneous catalytic core, and F(0) - containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation. Subunits alpha and beta form the catalytic core in F(1). Rotation of the central stalk against the surrounding alpha(3)beta(3) subunits leads to hydrolysis of ATP in three separate catalytic sites on the beta subunits. Subunit alpha does not bear the catalytic high-affinity ATP-binding sites.

Rattus norvegicus (taxid: 10116)

>sp|Q5R546|ATPA_PONAB ATP synthase subunit alpha, mitochondrial OS=Pongo abelii GN=ATP5A1 PE=2 SV=1

 Score = 52.4 bits (124), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 23/25 (92%), Positives = 25/25 (100%)

Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKT++AIDTIINQKR
Sbjct: 207 RELIIGDRQTGKTSIAIDTIINQKR 231

Mitochondrial membrane ATP synthase (F(1)F(0) ATP synthase or Complex V) produces ATP from ADP in the presence of a proton gradient across the membrane which is generated by electron transport complexes of the respiratory chain. F-type ATPases consist of two structural domains, F(1) - containing the extramembraneous catalytic core, and F(0) - containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation. Subunits alpha and beta form the catalytic core in F(1). Rotation of the central stalk against the surrounding alpha(3)beta(3) subunits leads to hydrolysis of ATP in three separate catalytic sites on the beta subunits. Subunit alpha does not bear the catalytic high-affinity ATP-binding sites.

Pongo abelii (taxid: 9601)

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	124
347971168	2023	AGAP004066-PA [Anopheles gambiae str. PE	0.354	0.021	0.704	1e-14
198452303	1837	GA20059 [Drosophila pseudoobscura pseudo	0.354	0.023	0.704	8e-14
195113751	1819	GI21979 [Drosophila mojavensis] gi|19391	0.354	0.024	0.704	8e-14
194765350	1840	GF23380 [Drosophila ananassae] gi|190615	0.354	0.023	0.704	8e-14
195399564	1797	GJ14339 [Drosophila virilis] gi|19414194	0.354	0.024	0.704	8e-14
195054006	1852	GH22245 [Drosophila grimshawi] gi|193895	0.354	0.023	0.704	9e-14
146217117	1840	neurexin [Drosophila melanogaster]	0.306	0.020	0.789	1e-13
195444236	1867	GK11702 [Drosophila willistoni] gi|19416	0.306	0.020	0.789	2e-13
442620475	1525	neurexin 1, isoform G [Drosophila melano	0.306	0.024	0.789	2e-13
442620473	1847	neurexin 1, isoform F [Drosophila melano	0.306	0.020	0.789	2e-13

>gi|347971168|ref|XP_309618.5| AGAP004066-PA [Anopheles gambiae str. PEST] gi|333466618|gb|EAA05336.6| AGAP004066-PA [Anopheles gambiae str. PEST]

 Score = 84.0 bits (206), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 31/44 (70%), Positives = 38/44 (86%)

Query: 21  VENSVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEK 64
           +  +V D CE HDPC+HGGICISTDSGPICECRN+++EG YCE+
Sbjct: 411 LRTNVTDACERHDPCQHGGICISTDSGPICECRNVEYEGTYCER 454

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|198452303|ref|XP_001358713.2| GA20059 [Drosophila pseudoobscura pseudoobscura] gi|198131873|gb|EAL27856.2| GA20059 [Drosophila pseudoobscura pseudoobscura]

 Score = 80.9 bits (198), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 31/44 (70%), Positives = 37/44 (84%)

Query: 21  VENSVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEK 64
           V  +  D CE +DPC+HGGICISTDSGPICECRNL+++G YCEK
Sbjct: 300 VRGNTTDACERNDPCQHGGICISTDSGPICECRNLEYDGQYCEK 343

Source: Drosophila pseudoobscura pseudoobscura

Species: Drosophila pseudoobscura

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195113751|ref|XP_002001431.1| GI21979 [Drosophila mojavensis] gi|193918025|gb|EDW16892.1| GI21979 [Drosophila mojavensis]

 Score = 80.9 bits (198), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 31/44 (70%), Positives = 37/44 (84%)

Query: 21  VENSVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEK 64
           V  +  D CE +DPC+HGGICISTDSGPICECRNL+++G YCEK
Sbjct: 292 VRGNTTDACERNDPCQHGGICISTDSGPICECRNLEYDGQYCEK 335

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194765350|ref|XP_001964790.1| GF23380 [Drosophila ananassae] gi|190615062|gb|EDV30586.1| GF23380 [Drosophila ananassae]

 Score = 80.9 bits (198), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 31/44 (70%), Positives = 37/44 (84%)

Query: 21  VENSVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEK 64
           V  +  D CE +DPC+HGGICISTDSGPICECRNL+++G YCEK
Sbjct: 320 VRGNTTDACERNDPCQHGGICISTDSGPICECRNLEYDGQYCEK 363

Source: Drosophila ananassae

Species: Drosophila ananassae

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195399564|ref|XP_002058389.1| GJ14339 [Drosophila virilis] gi|194141949|gb|EDW58357.1| GJ14339 [Drosophila virilis]

 Score = 80.9 bits (198), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 31/44 (70%), Positives = 37/44 (84%)

Query: 21  VENSVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEK 64
           V  +  D CE +DPC+HGGICISTDSGPICECRNL+++G YCEK
Sbjct: 295 VRGNTTDACERNDPCQHGGICISTDSGPICECRNLEYDGQYCEK 338

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195054006|ref|XP_001993917.1| GH22245 [Drosophila grimshawi] gi|193895787|gb|EDV94653.1| GH22245 [Drosophila grimshawi]

 Score = 80.9 bits (198), Expect = 9e-14,   Method: Composition-based stats.
 Identities = 31/44 (70%), Positives = 37/44 (84%)

Query: 21  VENSVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEK 64
           V  +  D CE +DPC+HGGICISTDSGPICECRNL+++G YCEK
Sbjct: 312 VRGNTTDACERNDPCQHGGICISTDSGPICECRNLEYDGQYCEK 355

Source: Drosophila grimshawi

Species: Drosophila grimshawi

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|146217117|gb|ABQ10624.1| neurexin [Drosophila melanogaster]

 Score = 80.1 bits (196), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 30/38 (78%), Positives = 35/38 (92%)

Query: 27  DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEK 64
           D CE +DPC+HGGICISTDSGPICECRNL+++G YCEK
Sbjct: 311 DACERNDPCQHGGICISTDSGPICECRNLEYDGQYCEK 348

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195444236|ref|XP_002069775.1| GK11702 [Drosophila willistoni] gi|194165860|gb|EDW80761.1| GK11702 [Drosophila willistoni]

 Score = 80.1 bits (196), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 30/38 (78%), Positives = 35/38 (92%)

Query: 27  DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEK 64
           D CE +DPC+HGGICISTDSGPICECRNL+++G YCEK
Sbjct: 329 DACERNDPCQHGGICISTDSGPICECRNLEYDGQYCEK 366

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|442620475|ref|NP_001262841.1| neurexin 1, isoform G [Drosophila melanogaster] gi|440217754|gb|AGB96221.1| neurexin 1, isoform G [Drosophila melanogaster]

 Score = 80.1 bits (196), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 30/38 (78%), Positives = 35/38 (92%)

Query: 27  DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEK 64
           D CE +DPC+HGGICISTDSGPICECRNL+++G YCEK
Sbjct: 311 DACERNDPCQHGGICISTDSGPICECRNLEYDGQYCEK 348

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|442620473|ref|NP_001262840.1| neurexin 1, isoform F [Drosophila melanogaster] gi|440217753|gb|AGB96220.1| neurexin 1, isoform F [Drosophila melanogaster]

 Score = 80.1 bits (196), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 30/38 (78%), Positives = 35/38 (92%)

Query: 27  DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEK 64
           D CE +DPC+HGGICISTDSGPICECRNL+++G YCEK
Sbjct: 311 DACERNDPCQHGGICISTDSGPICECRNLEYDGQYCEK 348

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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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	124
FB|FBgn0038975	1840	Nrx-1 "Neurexin 1" [Drosophila	0.306	0.020	0.789	2.6e-13
UNIPROTKB|Q9DDH7	110	ATP5A1 "Uncharacterized protei	0.201	0.227	0.92	3.8e-07
UNIPROTKB|K7ENJ4	199	ATP5A1 "ATP synthase subunit a	0.201	0.125	0.92	4.6e-07
UNIPROTKB|K7EK77	207	ATP5A1 "ATP synthase subunit a	0.201	0.120	0.92	5.5e-07
FB|FBgn0011211	552	blw "bellwether" [Drosophila m	0.201	0.045	1.0	1.3e-06
WB|WBGene00010419	538	H28O16.1d.6 [Caenorhabditis el	0.201	0.046	0.96	2e-06
ZFIN|ZDB-GENE-060201-1	551	atp5a1 "ATP synthase, H+ trans	0.201	0.045	0.96	2.1e-06
UNIPROTKB|H9L3E5	397	H9L3E5 "ATP synthase subunit a	0.201	0.062	0.92	2.7e-06
UNIPROTKB|K7EK63	449	ATP5A1 "ATP synthase subunit a	0.201	0.055	0.92	3.3e-06
UNIPROTKB|K7ENP3	531	ATP5A1 "ATP synthase subunit a	0.201	0.047	0.92	4.2e-06

FB|FBgn0038975 Nrx-1 "Neurexin 1" [Drosophila melanogaster (taxid:7227)]

 Score = 190 (71.9 bits), Expect = 2.6e-13, P = 2.6e-13
 Identities = 30/38 (78%), Positives = 35/38 (92%)

Query:    27 DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEK 64
             D CE +DPC+HGGICISTDSGPICECRNL+++G YCEK
Sbjct:   311 DACERNDPCQHGGICISTDSGPICECRNLEYDGQYCEK 348

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

GO:0007268 "synaptic transmission" evidence=IDA

GO:0050808 "synapse organization" evidence=IDA

GO:0008306 "associative learning" evidence=IDA

GO:0007416 "synapse assembly" evidence=IDA

GO:0031594 "neuromuscular junction" evidence=IDA

UNIPROTKB|Q9DDH7 ATP5A1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 116 (45.9 bits), Expect = 3.8e-07, P = 3.8e-07
 Identities = 23/25 (92%), Positives = 25/25 (100%)

Query:   100 RELIIGDRQTGKTALAIDTIINQKR 124
             RELIIGDRQTGKT++AIDTIINQKR
Sbjct:    66 RELIIGDRQTGKTSIAIDTIINQKR 90

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|K7ENJ4 ATP5A1 "ATP synthase subunit alpha, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 116 (45.9 bits), Expect = 4.6e-07, P = 4.6e-07
 Identities = 23/25 (92%), Positives = 25/25 (100%)

Query:   100 RELIIGDRQTGKTALAIDTIINQKR 124
             RELIIGDRQTGKT++AIDTIINQKR
Sbjct:   118 RELIIGDRQTGKTSIAIDTIINQKR 142

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|K7EK77 ATP5A1 "ATP synthase subunit alpha, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 116 (45.9 bits), Expect = 5.5e-07, P = 5.5e-07
 Identities = 23/25 (92%), Positives = 25/25 (100%)

Query:   100 RELIIGDRQTGKTALAIDTIINQKR 124
             RELIIGDRQTGKT++AIDTIINQKR
Sbjct:   157 RELIIGDRQTGKTSIAIDTIINQKR 181

GO:0005524 "ATP binding" evidence=IEA

GO:0046034 "ATP metabolic process" evidence=IEA

GO:0015992 "proton transport" evidence=IEA

FB|FBgn0011211 blw "bellwether" [Drosophila melanogaster (taxid:7227)]

 Score = 121 (47.7 bits), Expect = 1.3e-06, P = 1.3e-06
 Identities = 25/25 (100%), Positives = 25/25 (100%)

Query:   100 RELIIGDRQTGKTALAIDTIINQKR 124
             RELIIGDRQTGKTALAIDTIINQKR
Sbjct:   206 RELIIGDRQTGKTALAIDTIINQKR 230

GO:0007286 "spermatid development" evidence=IMP

GO:0008553 "hydrogen-exporting ATPase activity, phosphorylative mechanism" evidence=ISS;NAS

GO:0040007 "growth" evidence=IMP

GO:0015992 "proton transport" evidence=ISS;NAS

GO:0000275 "mitochondrial proton-transporting ATP synthase complex, catalytic core F(1)" evidence=ISS

GO:0046933 "proton-transporting ATP synthase activity, rotational mechanism" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0015986 "ATP synthesis coupled proton transport" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0046961 "proton-transporting ATPase activity, rotational mechanism" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0006911 "phagocytosis, engulfment" evidence=IMP

GO:0005811 "lipid particle" evidence=IDA

GO:0005875 "microtubule associated complex" evidence=IDA

WB|WBGene00010419 H28O16.1d.6 [Caenorhabditis elegans (taxid:6239)]

 Score = 119 (46.9 bits), Expect = 2.0e-06, P = 2.0e-06
 Identities = 24/25 (96%), Positives = 25/25 (100%)

Query:   100 RELIIGDRQTGKTALAIDTIINQKR 124
             RELIIGDRQTGKTA+AIDTIINQKR
Sbjct:   192 RELIIGDRQTGKTAIAIDTIINQKR 216

GO:0005524 "ATP binding" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0016820 "hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances" evidence=IEA

GO:0033178 "proton-transporting two-sector ATPase complex, catalytic domain" evidence=IEA

GO:0015992 "proton transport" evidence=IEA

GO:0046034 "ATP metabolic process" evidence=IEA

GO:0015986 "ATP synthesis coupled proton transport" evidence=IEA

GO:0045261 "proton-transporting ATP synthase complex, catalytic core F(1)" evidence=IEA

GO:0046933 "proton-transporting ATP synthase activity, rotational mechanism" evidence=IEA

GO:0046961 "proton-transporting ATPase activity, rotational mechanism" evidence=IEA

GO:0040010 "positive regulation of growth rate" evidence=IMP

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0009790 "embryo development" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0008340 "determination of adult lifespan" evidence=IMP

GO:0006915 "apoptotic process" evidence=IMP

GO:0005739 "mitochondrion" evidence=IDA

ZFIN|ZDB-GENE-060201-1 atp5a1 "ATP synthase, H+ transporting, mitochondrial F1 complex, alpha subunit 1, cardiac muscle" [Danio rerio (taxid:7955)]

 Score = 119 (46.9 bits), Expect = 2.1e-06, P = 2.1e-06
 Identities = 24/25 (96%), Positives = 25/25 (100%)

Query:   100 RELIIGDRQTGKTALAIDTIINQKR 124
             RELIIGDRQTGKTA+AIDTIINQKR
Sbjct:   206 RELIIGDRQTGKTAIAIDTIINQKR 230

GO:0033178 "proton-transporting two-sector ATPase complex, catalytic domain" evidence=IEA

GO:0046933 "proton-transporting ATP synthase activity, rotational mechanism" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0015992 "proton transport" evidence=IEA

GO:0045261 "proton-transporting ATP synthase complex, catalytic core F(1)" evidence=IEA

GO:0046961 "proton-transporting ATPase activity, rotational mechanism" evidence=IEA

GO:0015986 "ATP synthesis coupled proton transport" evidence=IEA

GO:0016820 "hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances" evidence=IEA

GO:0046034 "ATP metabolic process" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0006811 "ion transport" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006754 "ATP biosynthetic process" evidence=IEA

UNIPROTKB|H9L3E5 H9L3E5 "ATP synthase subunit alpha" [Gallus gallus (taxid:9031)]

 Score = 116 (45.9 bits), Expect = 2.7e-06, P = 2.7e-06
 Identities = 23/25 (92%), Positives = 25/25 (100%)

Query:   100 RELIIGDRQTGKTALAIDTIINQKR 124
             RELIIGDRQTGKT++AIDTIINQKR
Sbjct:   209 RELIIGDRQTGKTSIAIDTIINQKR 233

GO:0015986 "ATP synthesis coupled proton transport" evidence=IEA

GO:0046933 "proton-transporting ATP synthase activity, rotational mechanism" evidence=IEA

GO:0046961 "proton-transporting ATPase activity, rotational mechanism" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0045261 "proton-transporting ATP synthase complex, catalytic core F(1)" evidence=IEA

UNIPROTKB|K7EK63 ATP5A1 "ATP synthase subunit alpha" [Homo sapiens (taxid:9606)]

 Score = 116 (45.9 bits), Expect = 3.3e-06, P = 3.3e-06
 Identities = 23/25 (92%), Positives = 25/25 (100%)

Query:   100 RELIIGDRQTGKTALAIDTIINQKR 124
             RELIIGDRQTGKT++AIDTIINQKR
Sbjct:   103 RELIIGDRQTGKTSIAIDTIINQKR 127

GO:0015986 "ATP synthesis coupled proton transport" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0046933 "proton-transporting ATP synthase activity, rotational mechanism" evidence=IEA

GO:0046961 "proton-transporting ATPase activity, rotational mechanism" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0045261 "proton-transporting ATP synthase complex, catalytic core F(1)" evidence=IEA

UNIPROTKB|K7ENP3 ATP5A1 "ATP synthase subunit alpha" [Homo sapiens (taxid:9606)]

 Score = 116 (45.9 bits), Expect = 4.2e-06, P = 4.2e-06
 Identities = 23/25 (92%), Positives = 25/25 (100%)

Query:   100 RELIIGDRQTGKTALAIDTIINQKR 124
             RELIIGDRQTGKT++AIDTIINQKR
Sbjct:   185 RELIIGDRQTGKTSIAIDTIINQKR 209

GO:0015986 "ATP synthesis coupled proton transport" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0046933 "proton-transporting ATP synthase activity, rotational mechanism" evidence=IEA

GO:0046961 "proton-transporting ATPase activity, rotational mechanism" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0045261 "proton-transporting ATP synthase complex, catalytic core F(1)" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	124
PRK09281	502	PRK09281, PRK09281, F0F1 ATP synthase subunit alph	3e-16
COG0056	504	COG0056, AtpA, F0F1-type ATP synthase, alpha subun	2e-14
cd01132	274	cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, c	7e-14
CHL00059	485	CHL00059, atpA, ATP synthase CF1 alpha subunit	1e-13
PRK13343	502	PRK13343, PRK13343, F0F1 ATP synthase subunit alph	2e-13
TIGR00962	501	TIGR00962, atpA, proton translocating ATP synthase	2e-12
PRK07165	507	PRK07165, PRK07165, F0F1 ATP synthase subunit alph	2e-11
TIGR03324	497	TIGR03324, alt_F1F0_F1_al, alternate F1F0 ATPase,	2e-10
PTZ00185	574	PTZ00185, PTZ00185, ATPase alpha subunit; Provisio	2e-07
pfam00006	213	pfam00006, ATP-synt_ab, ATP synthase alpha/beta fa	1e-05
cd00054	38	cd00054, EGF_CA, Calcium-binding EGF-like domain,	1e-04
pfam00008	32	pfam00008, EGF, EGF-like domain	0.003
smart00179	39	smart00179, EGF_CA, Calcium-binding EGF-like domai	0.003

>gnl|CDD|236448 PRK09281, PRK09281, F0F1 ATP synthase subunit alpha; Validated

 Score = 72.8 bits (180), Expect = 3e-16
 Identities = 23/24 (95%), Positives = 24/24 (100%)

Query: 100 RELIIGDRQTGKTALAIDTIINQK 123
           RELIIGDRQTGKTA+AIDTIINQK
Sbjct: 164 RELIIGDRQTGKTAIAIDTIINQK 187

Length = 502

>gnl|CDD|223134 COG0056, AtpA, F0F1-type ATP synthase, alpha subunit [Energy production and conversion]

 Score = 67.6 bits (166), Expect = 2e-14
 Identities = 23/25 (92%), Positives = 24/25 (96%)

Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKTA+AIDTIINQK 
Sbjct: 164 RELIIGDRQTGKTAIAIDTIINQKG 188

Length = 504

>gnl|CDD|238552 cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, central domain

 Score = 65.4 bits (160), Expect = 7e-14
 Identities = 23/25 (92%), Positives = 24/25 (96%)

Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKTA+AIDTIINQK 
Sbjct: 71  RELIIGDRQTGKTAIAIDTIINQKG 95

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic. Length = 274

>gnl|CDD|176999 CHL00059, atpA, ATP synthase CF1 alpha subunit

 Score = 65.4 bits (160), Expect = 1e-13
 Identities = 21/24 (87%), Positives = 23/24 (95%)

Query: 100 RELIIGDRQTGKTALAIDTIINQK 123
           RELIIGDRQTGKTA+A DTI+NQK
Sbjct: 143 RELIIGDRQTGKTAVATDTILNQK 166

Length = 485

>gnl|CDD|183987 PRK13343, PRK13343, F0F1 ATP synthase subunit alpha; Provisional

 Score = 64.6 bits (158), Expect = 2e-13
 Identities = 22/24 (91%), Positives = 23/24 (95%)

Query: 100 RELIIGDRQTGKTALAIDTIINQK 123
           RELIIGDRQTGKTA+AID IINQK
Sbjct: 164 RELIIGDRQTGKTAIAIDAIINQK 187

Length = 502

>gnl|CDD|233211 TIGR00962, atpA, proton translocating ATP synthase, F1 alpha subunit

 Score = 62.0 bits (151), Expect = 2e-12
 Identities = 23/24 (95%), Positives = 24/24 (100%)

Query: 100 RELIIGDRQTGKTALAIDTIINQK 123
           RELIIGDRQTGKTA+AIDTIINQK
Sbjct: 163 RELIIGDRQTGKTAVAIDTIINQK 186

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. The alpha-subunit contains a highly conserved adenine-specific noncatalytic nucleotide-binding domain. The conserved amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton translocating ATP synthase F1, alpha subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), B subunit [Energy metabolism, ATP-proton motive force interconversion]. Length = 501

>gnl|CDD|235951 PRK07165, PRK07165, F0F1 ATP synthase subunit alpha; Validated

 Score = 58.8 bits (143), Expect = 2e-11
 Identities = 20/25 (80%), Positives = 23/25 (92%)

Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKT +A++TIINQK 
Sbjct: 145 RELIIGDRQTGKTHIALNTIINQKN 169

Length = 507

>gnl|CDD|132367 TIGR03324, alt_F1F0_F1_al, alternate F1F0 ATPase, F1 subunit alpha

 Score = 56.3 bits (136), Expect = 2e-10
 Identities = 21/24 (87%), Positives = 24/24 (100%)

Query: 100 RELIIGDRQTGKTALAIDTIINQK 123
           RELI+GDRQTGKTA+AIDTI+NQK
Sbjct: 164 RELILGDRQTGKTAIAIDTILNQK 187

A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 alpha subunit of this apparent second ATP synthase. Length = 497

>gnl|CDD|140212 PTZ00185, PTZ00185, ATPase alpha subunit; Provisional

 Score = 47.7 bits (113), Expect = 2e-07
 Identities = 19/25 (76%), Positives = 23/25 (92%)

Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELI+GDRQTGKT++A+ TIINQ R
Sbjct: 191 RELIVGDRQTGKTSIAVSTIINQVR 215

Length = 574

>gnl|CDD|215651 pfam00006, ATP-synt_ab, ATP synthase alpha/beta family, nucleotide-binding domain

 Score = 42.1 bits (100), Expect = 1e-05
 Identities = 10/24 (41%), Positives = 10/24 (41%)

Query: 100 RELIIGDRQTGKTALAIDTIINQK 123
           R  I G   TGKT L      N K
Sbjct: 17  RIGIFGGSGTGKTVLLGMIARNAK 40

This family includes the ATP synthase alpha and beta subunits, the ATP synthase associated with flagella and the termination factor Rho. Length = 213

>gnl|CDD|238011 cd00054, EGF_CA, Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins

 Score = 36.5 bits (85), Expect = 1e-04
 Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 1/37 (2%)

Query: 27 DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCE 63
          D C   +PC++GG C++T     C C    + G  CE
Sbjct: 3  DECASGNPCQNGGTCVNTVGSYRCSCPP-GYTGRNCE 38

Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the N-terminus of particular EGF-like domains; calcium-binding may be crucial for numerous protein-protein interactions. Six conserved core cysteines form three disulfide bridges as in non calcium-binding EGF domains, whose structures are very similar. EGF_CA can be found in tandem repeat arrangements. Length = 38

>gnl|CDD|215652 pfam00008, EGF, EGF-like domain

 Score = 32.8 bits (75), Expect = 0.003
 Identities = 11/24 (45%), Positives = 15/24 (62%)

Query: 29 CEEHDPCKHGGICISTDSGPICEC 52
          C  ++PC +GG C+ T  G  CEC
Sbjct: 1  CSPNNPCSNGGTCVDTPGGYTCEC 24

There is no clear separation between noise and signal. pfam00053 is very similar, but has 8 instead of 6 conserved cysteines. Includes some cytokine receptors. The EGF domain misses the N-terminus regions of the Ca2+ binding EGF domains (this is the main reason of discrepancy between swiss-prot domain start/end and Pfam). The family is hard to model due to many similar but different sub-types of EGF domains. Pfam certainly misses a number of EGF domains. Length = 32

>gnl|CDD|214542 smart00179, EGF_CA, Calcium-binding EGF-like domain

 Score = 33.0 bits (76), Expect = 0.003
 Identities = 14/37 (37%), Positives = 20/37 (54%)

Query: 27 DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCE 63
          D C   +PC++GG C++T     CEC     +G  CE
Sbjct: 3  DECASGNPCQNGGTCVNTVGSYRCECPPGYTDGRNCE 39

Length = 39

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	124
COG0056	504	AtpA F0F1-type ATP synthase, alpha subunit [Energy	99.36
PTZ00185	574	ATPase alpha subunit; Provisional	98.62
PF00008	32	EGF: EGF-like domain This is a sub-family of the P	98.62
PRK07165	507	F0F1 ATP synthase subunit alpha; Validated	98.51
KOG1353|consensus	340		98.51
CHL00059	485	atpA ATP synthase CF1 alpha subunit	98.46
smart00179	39	EGF_CA Calcium-binding EGF-like domain.	98.39
KOG1219|consensus	4289		98.37
TIGR03324	497	alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit a	98.37
PRK13343	502	F0F1 ATP synthase subunit alpha; Provisional	98.29
cd00054	38	EGF_CA Calcium-binding EGF-like domain, present in	98.22
TIGR00962	501	atpA proton translocating ATP synthase, F1 alpha s	98.15
PRK09281	502	F0F1 ATP synthase subunit alpha; Validated	98.12
KOG1219|consensus	4289		98.12
cd00053	36	EGF Epidermal growth factor domain, found in epide	97.85
smart00181	35	EGF Epidermal growth factor-like domain.	97.74
PF07645	42	EGF_CA: Calcium-binding EGF domain; InterPro: IPR0	97.69
KOG4289|consensus	2531		97.52
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	97.5
KOG3516|consensus	1306		97.49
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	97.48
KOG3514|consensus	1591		97.45
KOG4289|consensus	2531		97.43
CHL00060	494	atpB ATP synthase CF1 beta subunit	97.21
KOG3516|consensus	1306		97.15
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.09
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	96.9
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	96.55
PRK04196	460	V-type ATP synthase subunit B; Provisional	96.53
PF07974	32	EGF_2: EGF-like domain; InterPro: IPR013111 A sequ	96.5
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	96.39
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	96.35
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	96.14
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	96.04
PF12661	13	hEGF: Human growth factor-like EGF; PDB: 2YGQ_A 2E	95.99
PRK12678	672	transcription termination factor Rho; Provisional	95.98
PRK09376	416	rho transcription termination factor Rho; Provisio	95.36
PRK12608	380	transcription termination factor Rho; Provisional	95.25
PF12947	36	EGF_3: EGF domain; InterPro: IPR024731 This entry	94.59
KOG1225|consensus	525		93.86
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	93.4
KOG4260|consensus	350		92.83
PHA03099	139	epidermal growth factor-like protein (EGF-like pro	92.62
PF14670	36	FXa_inhibition: Coagulation Factor Xa inhibitory s	92.22
cd01128	249	rho_factor Transcription termination factor rho is	91.79
PHA02887	126	EGF-like protein; Provisional	91.77
PRK02118	436	V-type ATP synthase subunit B; Provisional	91.65
PF13555	62	AAA_29: P-loop containing region of AAA domain	91.27
KOG1214|consensus	1289		91.14
KOG1217|consensus	487		90.65
PF13476	202	AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V	90.61
PRK06936	439	type III secretion system ATPase; Provisional	90.16
TIGR01042	591	V-ATPase_V1_A V-type (H+)-ATPase V1, A subunit. Th	90.15
PRK08149	428	ATP synthase SpaL; Validated	89.49
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	88.71
KOG1217|consensus	487		88.56
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	88.05
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	87.95
PRK05973	237	replicative DNA helicase; Provisional	87.94
PRK05922	434	type III secretion system ATPase; Validated	87.79
PRK08533	230	flagellar accessory protein FlaH; Reviewed	87.62
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	87.52
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	87.29
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	86.94
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	86.78
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	86.34
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	86.31
cd01394	218	radB RadB. The archaeal protein radB shares simila	86.25
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	86.16
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	86.08
PF12662	24	cEGF: Complement Clr-like EGF-like	86.06
TIGR03497	413	FliI_clade2 flagellar protein export ATPase FliI.	85.83
PF07475	171	Hpr_kinase_C: HPr Serine kinase C-terminal domain;	85.65
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	85.55
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	85.48
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	85.42
TIGR01026	440	fliI_yscN ATPase FliI/YscN family. This family of	85.39
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	85.36
cd03269	210	ABC_putative_ATPase This subfamily is involved in	85.33
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	85.31
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	85.3
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	85.08
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	84.96
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	84.91
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	84.88
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	84.88
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	84.77
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	84.66
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	84.62
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	84.42
KOG3514|consensus	1591		84.36
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	84.32
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	84.31
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	84.31
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	84.24
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	84.19
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	84.13
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	84.1
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	84.04
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	84.0
TIGR01043	578	ATP_syn_A_arch ATP synthase archaeal, A subunit. A	83.99
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	83.98
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	83.95
TIGR02546	422	III_secr_ATP type III secretion apparatus H+-trans	83.86
cd03270	226	ABC_UvrA_I The excision repair protein UvrA domain	83.75
PRK14262	250	phosphate ABC transporter ATP-binding protein; Pro	83.75
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	83.75
PRK06820	440	type III secretion system ATPase; Validated	83.73
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	83.72
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	83.71
PHA00729	226	NTP-binding motif containing protein	83.71
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	83.7
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	83.62
PRK14255	252	phosphate ABC transporter ATP-binding protein; Pro	83.61
PRK04328	249	hypothetical protein; Provisional	83.59
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	83.57
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	83.5
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	83.49
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	83.46
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	83.4
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	83.37
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	83.34
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	83.29
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	83.28
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	83.25
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	83.23
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	83.22
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	83.21
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	83.18
PRK08116	268	hypothetical protein; Validated	83.18
TIGR02236	310	recomb_radA DNA repair and recombination protein R	83.11
PRK09354	349	recA recombinase A; Provisional	83.06
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	82.98
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	82.96
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	82.95
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	82.88
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	82.88
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	82.81
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	82.76
PRK07594	433	type III secretion system ATPase SsaN; Validated	82.71
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	82.69
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	82.69
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	82.66
PRK14272	252	phosphate ABC transporter ATP-binding protein; Pro	82.66
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	82.61
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	82.6
cd00983	325	recA RecA is a bacterial enzyme which has roles in	82.53
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	82.46
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	82.38
PRK10908	222	cell division protein FtsE; Provisional	82.34
cd03216	163	ABC_Carb_Monos_I This family represents the domain	82.33
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	82.33
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	82.29
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	82.23
PRK04301	317	radA DNA repair and recombination protein RadA; Va	82.22
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	82.11
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	82.11
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	82.1
cd03215	182	ABC_Carb_Monos_II This family represents domain II	82.08
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	82.04
TIGR00767	415	rho transcription termination factor Rho. Members	81.96
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	81.94
CHL00131	252	ycf16 sulfate ABC transporter protein; Validated	81.94
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	81.93
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	81.88
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	81.74
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	81.74
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	81.72
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	81.7
PRK14251	251	phosphate ABC transporter ATP-binding protein; Pro	81.69
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	81.67
PRK09984	262	phosphonate/organophosphate ester transporter subu	81.66
PRK10418	254	nikD nickel transporter ATP-binding protein NikD;	81.64
PRK14243	264	phosphate transporter ATP-binding protein; Provisi	81.61
KOG0989|consensus	346		81.56
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	81.39
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	81.37
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	81.35
TIGR03873	256	F420-0_ABC_ATP proposed F420-0 ABC transporter, AT	81.31
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	81.24
PRK14239	252	phosphate transporter ATP-binding protein; Provisi	81.15
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	81.01
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	81.0
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	80.93
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	80.93
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	80.93
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	80.88
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	80.87
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	80.82
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	80.8
PRK14253	249	phosphate ABC transporter ATP-binding protein; Pro	80.8
PRK14248	268	phosphate ABC transporter ATP-binding protein; Pro	80.74
COG1157	441	FliI Flagellar biosynthesis/type III secretory pat	80.66
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	80.66
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	80.65
cd01475	224	vWA_Matrilin VWA_Matrilin: In cartilaginous plate,	80.59
PRK10419	268	nikE nickel transporter ATP-binding protein NikE;	80.58
PRK14235	267	phosphate transporter ATP-binding protein; Provisi	80.58
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	80.56
PRK14270	251	phosphate ABC transporter ATP-binding protein; Pro	80.53
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	80.52
PRK14266	250	phosphate ABC transporter ATP-binding protein; Pro	80.5
cd03246	173	ABCC_Protease_Secretion This family represents the	80.49
PRK14238	271	phosphate transporter ATP-binding protein; Provisi	80.48
PRK06921	266	hypothetical protein; Provisional	80.48
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	80.43
PRK05642	234	DNA replication initiation factor; Validated	80.42
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	80.4
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	80.4
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	80.35
PRK10253	265	iron-enterobactin transporter ATP-binding protein;	80.29
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	80.29
PRK08903	227	DnaA regulatory inactivator Hda; Validated	80.29
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	80.26
PRK14265	274	phosphate ABC transporter ATP-binding protein; Pro	80.19
PRK14261	253	phosphate ABC transporter ATP-binding protein; Pro	80.19
PRK13548	258	hmuV hemin importer ATP-binding subunit; Provision	80.18
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	80.09
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	80.07
cd03248	226	ABCC_TAP TAP, the Transporter Associated with Anti	80.01

>COG0056 AtpA F0F1-type ATP synthase, alpha subunit [Energy production and conversion]

Probab=99.36  E-value=2.1e-13  Score=116.03  Aligned_cols=52  Identities=56%  Similarity=0.656  Sum_probs=46.5

Q ss_pred             eccceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhccC
Q psy10055         71 RAISMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQKR  124 (124)
Q Consensus        71 ~~~~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~~  124 (124)
                      .+|++..|++++.|+.  +.-++.  |+|   ||||||+||||||||+||+|||||||+
T Consensus       132 ~Apgv~~RksV~ePlqTGikaIDa--miPIGRGQRELIIGDRQTGKTaIAidtIiNQk~  188 (504)
T COG0056         132 KAPGVMDRKSVNEPLQTGIKAIDA--LIPIGRGQRELIIGDRQTGKTAIAIDTIINQKG  188 (504)
T ss_pred             ccCceecccccCchhhhhhHHHhh--hcccCCCceEEEeccCcCCcchhhHHHHHhccc
Confidence            4688899999998887  666777  888   999999999999999999999999984

>PTZ00185 ATPase alpha subunit; Provisional

Probab=98.62  E-value=2.2e-08  Score=87.31  Aligned_cols=50  Identities=48%  Similarity=0.603  Sum_probs=42.7

Q ss_pred             ccceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         72 AISMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        72 ~~~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      ++.+..|..+..++.  +.-++.  |.|   |||++||||+|+|||+||||+||||+
T Consensus       160 ap~~~~R~~v~epL~TGIkaID~--LiPIGRGQR~lIfGd~GtGKTtLAld~IinQ~  214 (574)
T PTZ00185        160 APNIVSRSPVNYNLLTGFKAVDT--MIPIGRGQRELIVGDRQTGKTSIAVSTIINQV  214 (574)
T ss_pred             CcChhhcCCCCCcCcCCceeeec--cccccCCCEEEeecCCCCChHHHHHHHHHhhh
Confidence            456667777776665  888888  666   99999999999999999999999997

>PF00008 EGF: EGF-like domain This is a sub-family of the Pfam entry This is a sub-family of the Pfam entry; InterPro: IPR006209 A sequence of about thirty to forty amino-acid residues long found in the sequence of epidermal growth factor (EGF) has been shown [, , , , ] to be present, in a more or less conserved form, in a large number of other, mostly animal proteins

Probab=98.62  E-value=3.1e-08  Score=55.65  Aligned_cols=31  Identities=35%  Similarity=0.897  Sum_probs=27.6

Q ss_pred             CCCCCCCCCCeeeeCC-CCceEEecCCCeeccc
Q psy10055         30 EEHDPCKHGGICISTD-SGPICECRNLDFEGIY   61 (124)
Q Consensus        30 ~~~nPC~ngG~C~~~~-~~y~C~C~~tg~~G~~   61 (124)
                      -.++||+|+|+|++.. ++|.|.|++ ||+|++
T Consensus         1 C~~~~C~n~g~C~~~~~~~y~C~C~~-G~~G~~   32 (32)
T PF00008_consen    1 CSSNPCQNGGTCIDLPGGGYTCECPP-GYTGKR   32 (32)
T ss_dssp             TTTTSSTTTEEEEEESTSEEEEEEBT-TEESTT
T ss_pred             CCCCcCCCCeEEEeCCCCCEEeECCC-CCccCC
Confidence            0588999999999988 899999999 999974

The list of proteins currently known to contain one or more copies of an EGF-like pattern is large and varied. The functional significance of EGF domains in what appear to be unrelated proteins is not yet clear. However, a common feature is that these repeats are found in the extracellular domain of membrane-bound proteins or in proteins known to be secreted (exception: prostaglandin G/H synthase). The EGF domain includes six cysteine residues which have been shown (in EGF) to be involved in disulphide bonds. The main structure is a two-stranded beta-sheet followed by a loop to a C-terminal short two-stranded sheet. Subdomains between the conserved cysteines vary in length.; GO: 0005515 protein binding; PDB: 1WHE_A 1CCF_A 1APO_A 1WHF_A 2VJ3_A 1TOZ_A 4D90_B 3CFW_A 1EDM_B 1IXA_A ....

>PRK07165 F0F1 ATP synthase subunit alpha; Validated

Probab=98.51  E-value=6e-08  Score=84.03  Aligned_cols=51  Identities=47%  Similarity=0.552  Sum_probs=41.8

Q ss_pred             ccceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhccC
Q psy10055         72 AISMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQKR  124 (124)
Q Consensus        72 ~~~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~~  124 (124)
                      ++.+..|..+..++.  +.-++.  |.|   |||++||||+|+|||++|+|+|+||++
T Consensus       114 ap~~~~R~~v~epL~TGIkaID~--l~pigrGQR~~Ifg~~gtGKT~lal~~I~~q~~  169 (507)
T PRK07165        114 AHGLMTVKTLNEQLYTGIIAIDL--LIPIGKGQRELIIGDRQTGKTHIALNTIINQKN  169 (507)
T ss_pred             CCCchhhCCCCceeecCchhhhh--cCCcccCCEEEeecCCCCCccHHHHHHHHHhcC
Confidence            455566666666655  777777  666   999999999999999999999999974

>KOG1353|consensus

Probab=98.51  E-value=2e-08  Score=81.31  Aligned_cols=36  Identities=69%  Similarity=0.995  Sum_probs=32.2

Q ss_pred             eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhccC
Q psy10055         87 IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQKR  124 (124)
Q Consensus        87 ~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~~  124 (124)
                      ..+.+.  ++|   +||||+||||++|||+||+|||+|||.
T Consensus       135 ~KAvds--lVpigRgqrELiIgdRqTGkTsla~dTI~nqk~  173 (340)
T KOG1353|consen  135 LKAVDS--LVPIGRGQRELIIGDRQTGKTSLAIDTILNQKR  173 (340)
T ss_pred             hhHhhc--eeeeccCceEEEeccccCCceeeeehhhhhhhh
Confidence            566666  777   999999999999999999999999983

>CHL00059 atpA ATP synthase CF1 alpha subunit

Probab=98.46  E-value=1.2e-07  Score=81.76  Aligned_cols=51  Identities=53%  Similarity=0.578  Sum_probs=42.3

Q ss_pred             ccceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhccC
Q psy10055         72 AISMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQKR  124 (124)
Q Consensus        72 ~~~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~~  124 (124)
                      .|.+..|..+..++.  +.-++.  |.|   |||++|||++|+|||+||+|+|+||++
T Consensus       112 ap~~~~R~~v~epl~TGI~aID~--l~pigrGQR~~I~g~~g~GKt~Lal~~I~~q~~  167 (485)
T CHL00059        112 APGIISRRSVYEPLQTGLIAIDS--MIPIGRGQRELIIGDRQTGKTAVATDTILNQKG  167 (485)
T ss_pred             CCCchhccCCCcccccCceeecc--ccccccCCEEEeecCCCCCHHHHHHHHHHhccc
Confidence            456666777766665  788888  656   999999999999999999999999974

>smart00179 EGF_CA Calcium-binding EGF-like domain

Probab=98.39  E-value=3.7e-07  Score=51.46  Aligned_cols=36  Identities=39%  Similarity=1.046  Sum_probs=32.2

Q ss_pred             cCCCCCC-CCCCCCCeeeeCCCCceEEecCCCee-ccccc
Q psy10055         26 LDPCEEH-DPCKHGGICISTDSGPICECRNLDFE-GIYCE   63 (124)
Q Consensus        26 ~d~C~~~-nPC~ngG~C~~~~~~y~C~C~~tg~~-G~~Ce   63 (124)
                      +++| .. +||.++++|++..++|.|.|++ +|. |..|+
T Consensus         2 ~~~C-~~~~~C~~~~~C~~~~g~~~C~C~~-g~~~g~~C~   39 (39)
T smart00179        2 IDEC-ASGNPCQNGGTCVNTVGSYRCECPP-GYTDGRNCE   39 (39)
T ss_pred             cccC-cCCCCcCCCCEeECCCCCeEeECCC-CCccCCcCC
Confidence            5788 56 8999999999999999999999 999 88874

>KOG1219|consensus

Probab=98.37  E-value=2.7e-07  Score=89.95  Aligned_cols=64  Identities=28%  Similarity=0.584  Sum_probs=36.1

Q ss_pred             CCCCCCCCCCCCCeeeeCC-CCceEEecCCCeeccccccCccceeeccceeeccccccceeeEeccC
Q psy10055         27 DPCEEHDPCKHGGICISTD-SGPICECRNLDFEGIYCEKVEISVVRAISMRVRGSRKKLRLIECEDG   92 (124)
Q Consensus        27 d~C~~~nPC~ngG~C~~~~-~~y~C~C~~tg~~G~~Ce~~~~~~~~~~~~~~r~~~~~~~~~~C~~~   92 (124)
                      +.| +.+||||||+|...+ ++|.|.||+ .|+|.+||.+...|..+||+....|......+.|.+-
T Consensus      3865 d~C-~~npCqhgG~C~~~~~ggy~CkCps-qysG~~CEi~~epC~snPC~~GgtCip~~n~f~CnC~ 3929 (4289)
T KOG1219|consen 3865 DPC-NDNPCQHGGTCISQPKGGYKCKCPS-QYSGNHCEIDLEPCASNPCLTGGTCIPFYNGFLCNCP 3929 (4289)
T ss_pred             ccc-ccCcccCCCEecCCCCCceEEeCcc-cccCcccccccccccCCCCCCCCEEEecCCCeeEeCC
Confidence            556 466666666665444 456666666 6666666666666655666555555544444333333

>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha

Probab=98.37  E-value=2.9e-07  Score=79.69  Aligned_cols=51  Identities=49%  Similarity=0.606  Sum_probs=41.7

Q ss_pred             ccceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhccC
Q psy10055         72 AISMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQKR  124 (124)
Q Consensus        72 ~~~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~~  124 (124)
                      .|.+..|..+..++.  +.-++.  |.|   |||++|||++|+|||+||+|+|+||++
T Consensus       133 ~p~~~~R~~v~epl~TGI~aID~--l~pigrGQR~~Ifg~~g~GKT~Lal~~I~~q~~  188 (497)
T TIGR03324       133 APPIMDRAPVTVPLQTGLKVIDA--LIPIGRGQRELILGDRQTGKTAIAIDTILNQKG  188 (497)
T ss_pred             CcCccccCCCCchhhcCCEEEec--cCCcccCCEEEeecCCCCCHHHHHHHHHHHhcC
Confidence            345566666666555  788888  656   999999999999999999999999974

A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 alpha subunit of this apparent second ATP synthase.

>PRK13343 F0F1 ATP synthase subunit alpha; Provisional

Probab=98.29  E-value=4.8e-07  Score=78.43  Aligned_cols=51  Identities=53%  Similarity=0.629  Sum_probs=41.5

Q ss_pred             ccceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhccC
Q psy10055         72 AISMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQKR  124 (124)
Q Consensus        72 ~~~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~~  124 (124)
                      .|.+..|..+..++.  +.-++.  |.|   |||++|||++|+|||+||+|+|+||+.
T Consensus       133 ap~~~~R~~v~epl~TGIkaID~--l~pigrGQR~~I~g~~g~GKt~Lal~~i~~~~~  188 (502)
T PRK13343        133 APAIIERDFVTEPLQTGIKVVDA--LIPIGRGQRELIIGDRQTGKTAIAIDAIINQKD  188 (502)
T ss_pred             CcChhhcCCCCcccccCCceecc--ccccccCCEEEeeCCCCCCccHHHHHHHHhhcC
Confidence            455556666666655  777777  656   999999999999999999999999974

>cd00054 EGF_CA Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins

Probab=98.22  E-value=1.6e-06  Score=48.02  Aligned_cols=36  Identities=36%  Similarity=1.015  Sum_probs=31.9

Q ss_pred             cCCCCCC-CCCCCCCeeeeCCCCceEEecCCCeeccccc
Q psy10055         26 LDPCEEH-DPCKHGGICISTDSGPICECRNLDFEGIYCE   63 (124)
Q Consensus        26 ~d~C~~~-nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce   63 (124)
                      +++| .. +||.++++|.+..++|.|.|++ +|.|..|+
T Consensus         2 ~~~C-~~~~~C~~~~~C~~~~~~~~C~C~~-g~~g~~C~   38 (38)
T cd00054           2 IDEC-ASGNPCQNGGTCVNTVGSYRCSCPP-GYTGRNCE   38 (38)
T ss_pred             cccC-CCCCCcCCCCEeECCCCCeEeECCC-CCcCCcCC
Confidence            5778 56 7999999999999999999999 99998874

Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the N-terminus of particular EGF-like domains; calcium-binding may be crucial for numerous protein-protein interactions. Six conserved core cysteines form three disulfide bridges as in non calcium-binding EGF domains, whose structures are very similar. EGF_CA can be found in tandem repeat arrangements.

>TIGR00962 atpA proton translocating ATP synthase, F1 alpha subunit

Probab=98.15  E-value=1.6e-06  Score=75.22  Aligned_cols=51  Identities=59%  Similarity=0.664  Sum_probs=40.9

Q ss_pred             ccceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhccC
Q psy10055         72 AISMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQKR  124 (124)
Q Consensus        72 ~~~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~~  124 (124)
                      .|.+..|..+..++.  +.-++.  |.|   |||++|||++|+|||+||+|+|+||++
T Consensus       132 ~p~~~~R~~i~~pl~TGi~aID~--l~pigrGQr~~I~g~~g~GKt~Lal~~i~~~~~  187 (501)
T TIGR00962       132 APGVMERKSVHEPLQTGIKAIDA--MIPIGRGQRELIIGDRQTGKTAVAIDTIINQKD  187 (501)
T ss_pred             CCChhhcCCcCceeccCCceeec--cCCcccCCEEEeecCCCCCccHHHHHHHHhhcC
Confidence            345566666666555  677777  555   999999999999999999999999973

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. The alpha-subunit contains a highly conserved adenine-specific noncatalytic nucleotide-binding domain. The conserved amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton translocating ATP synthase F1, alpha subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), B subunit.

>PRK09281 F0F1 ATP synthase subunit alpha; Validated

Probab=98.12  E-value=2.3e-06  Score=74.27  Aligned_cols=51  Identities=59%  Similarity=0.655  Sum_probs=40.8

Q ss_pred             ccceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhccC
Q psy10055         72 AISMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQKR  124 (124)
Q Consensus        72 ~~~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~~  124 (124)
                      .+.+..|.....++.  +.-++.  |.|   |||++|||++|+|||+||+|+|+||++
T Consensus       133 ~p~~~~R~~~~~~l~TGi~~ID~--l~pigrGQr~~Ifg~~g~GKt~lal~~i~~~~~  188 (502)
T PRK09281        133 APGVIDRKSVHEPLQTGIKAIDA--MIPIGRGQRELIIGDRQTGKTAIAIDTIINQKG  188 (502)
T ss_pred             CcCccccCCccceeecCCeeeec--ccccccCcEEEeecCCCCCchHHHHHHHHHhcC
Confidence            345556666666555  777777  555   999999999999999999999999973

>KOG1219|consensus

Probab=98.12  E-value=2.8e-06  Score=83.29  Aligned_cols=70  Identities=26%  Similarity=0.553  Sum_probs=61.4

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccC-ccceeeccceeeccccccceeeEeccCCCcC
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKV-EISVVRAISMRVRGSRKKLRLIECEDGAGMD   96 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~-~~~~~~~~~~~~r~~~~~~~~~~C~~~~~mv   96 (124)
                      +..+| .++||.+||+|+...++|.|.||. +|+|.+||.. .++|..++|.....+.+.+..|-|.+..+..
T Consensus      3902 ~~epC-~snPC~~GgtCip~~n~f~CnC~~-gyTG~~Ce~~Gi~eCs~n~C~~gg~C~n~~gsf~CncT~g~~ 3972 (4289)
T KOG1219|consen 3902 DLEPC-ASNPCLTGGTCIPFYNGFLCNCPN-GYTGKRCEARGISECSKNVCGTGGQCINIPGSFHCNCTPGIL 3972 (4289)
T ss_pred             ccccc-cCCCCCCCCEEEecCCCeeEeCCC-CccCceeecccccccccccccCCceeeccCCceEeccChhHh
Confidence            66889 699999999999999999999999 9999999998 8888888888888888888877777765554

>cd00053 EGF Epidermal growth factor domain, found in epidermal growth factor (EGF) presents in a large number of proteins, mostly animal; the list of proteins currently known to contain one or more copies of an EGF-like pattern is large and varied; the functional significance of EGF-like domains in what appear to be unrelated proteins is not yet clear; a common feature is that these repeats are found in the extracellular domain of membrane-bound proteins or in proteins known to be secreted (exception: prostaglandin G/H synthase); the domain includes six cysteine residues which have been shown to be involved in disulfide bonds; the main structure is a two-stranded beta-sheet followed by a loop to a C-terminal short two-stranded sheet; Subdomains between the conserved cysteines vary in length; the region between the 5th and 6th cysteine contains two conserved glycines of which at least one is present in most EGF-like domains; a subset of these bind calcium

Probab=97.85  E-value=2.2e-05  Score=42.62  Aligned_cols=31  Identities=35%  Similarity=0.946  Sum_probs=27.8

Q ss_pred             CCCCCCCCeeeeCCCCceEEecCCCeecc-ccc
Q psy10055         32 HDPCKHGGICISTDSGPICECRNLDFEGI-YCE   63 (124)
Q Consensus        32 ~nPC~ngG~C~~~~~~y~C~C~~tg~~G~-~Ce   63 (124)
                      .++|.++++|++..+.|.|.|+. +|.|. .|+
T Consensus         5 ~~~C~~~~~C~~~~~~~~C~C~~-g~~g~~~C~   36 (36)
T cd00053           5 SNPCSNGGTCVNTPGSYRCVCPP-GYTGDRSCE   36 (36)
T ss_pred             CCCCCCCCEEecCCCCeEeECCC-CCcccCCcC
Confidence            67899999999999999999999 99998 663

>smart00181 EGF Epidermal growth factor-like domain

Probab=97.74  E-value=3.7e-05  Score=42.58  Aligned_cols=32  Identities=38%  Similarity=1.014  Sum_probs=27.9

Q ss_pred             CCCC-CCCCCCCeeeeCCCCceEEecCCCeec-cccc
Q psy10055         29 CEEH-DPCKHGGICISTDSGPICECRNLDFEG-IYCE   63 (124)
Q Consensus        29 C~~~-nPC~ngG~C~~~~~~y~C~C~~tg~~G-~~Ce   63 (124)
                      | .. +||.++ +|++..++|.|.|++ ||.| +.|+
T Consensus         2 C-~~~~~C~~~-~C~~~~~~~~C~C~~-g~~g~~~C~   35 (35)
T smart00181        2 C-ASGGPCSNG-TCINTPGSYTCSCPP-GYTGDKRCE   35 (35)
T ss_pred             C-CCcCCCCCC-EEECCCCCeEeECCC-CCccCCccC
Confidence            5 45 689999 999999999999999 9999 7774

>PF07645 EGF_CA: Calcium-binding EGF domain; InterPro: IPR001881 A sequence of about forty amino-acid residues found in epidermal growth factor (EGF) has been shown [, , , , , ] to be present in a large number of membrane-bound and extracellular, mostly animal, proteins

Probab=97.69  E-value=5.4e-05  Score=44.51  Aligned_cols=33  Identities=30%  Similarity=0.829  Sum_probs=28.1

Q ss_pred             ccCCCCC-CCCCCCCCeeeeCCCCceEEecCCCee
Q psy10055         25 VLDPCEE-HDPCKHGGICISTDSGPICECRNLDFE   58 (124)
Q Consensus        25 ~~d~C~~-~nPC~ngG~C~~~~~~y~C~C~~tg~~   58 (124)
                      ++|+|.. .++|..++.|+++.++|.|.|++ ||.
T Consensus         1 DidEC~~~~~~C~~~~~C~N~~Gsy~C~C~~-Gy~   34 (42)
T PF07645_consen    1 DIDECAEGPHNCPENGTCVNTEGSYSCSCPP-GYE   34 (42)
T ss_dssp             ESSTTTTTSSSSSTTSEEEEETTEEEEEEST-TEE
T ss_pred             CccccCCCCCcCCCCCEEEcCCCCEEeeCCC-CcE
Confidence            4788842 33699999999999999999999 997

Many of these proteins require calcium for their biological function and a calcium-binding site has been found at the N terminus of some EGF-like domains []. Calcium-binding may be crucial for numerous protein-protein interactions. For human coagulation factor IX it has been shown [] that the calcium-ligands form a pentagonal bipyramid. The first, third and fourth conserved negatively charged or polar residues are side chain ligands. The latter is possibly hydroxylated (see aspartic acid and asparagine hydroxylation site) []. A conserved aromatic residue, as well as the second conserved negative residue, are thought to be involved in stabilising the calcium-binding site. As in non-calcium binding EGF-like domains, there are six conserved cysteines and the structure of both types is very similar as calcium-binding induces only strictly local structural changes []. +------------------+ +---------+ | | | | nxnnC-x(3,14)-C-x(3,7)-CxxbxxxxaxC-x(1,6)-C-x(8,13)-Cx | | +------------------+ 'n': negatively charged or polar residue [DEQN] 'b': possibly beta-hydroxylated residue [DN] 'a': aromatic amino acid 'C': cysteine, involved in disulphide bond 'x': any amino acid. ; GO: 0005509 calcium ion binding; PDB: 2VJ3_A 1TOZ_A 1LMJ_A 1UZQ_A 1UZK_A 1UZJ_B 1UZP_A 1EMO_A 1EMN_A 2RR0_A ....

>KOG4289|consensus

Probab=97.52  E-value=8.4e-05  Score=71.09  Aligned_cols=68  Identities=29%  Similarity=0.535  Sum_probs=49.3

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCccc--eeeccceeecccccccee-eEeccCCC
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEIS--VVRAISMRVRGSRKKLRL-IECEDGAG   94 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~~~--~~~~~~~~~r~~~~~~~~-~~C~~~~~   94 (124)
                      .+|.| -++||.|+|+|..-.++|+|.|.+ +|+|.+||.+...  |+...++....+++.+.. +.|.+..+
T Consensus      1238 eiDlC-Ys~pC~nng~C~srEggYtCeCrp-g~tGehCEvs~~agrCvpGvC~nggtC~~~~nggf~c~Cp~g 1308 (2531)
T KOG4289|consen 1238 EIDLC-YSGPCGNNGRCRSREGGYTCECRP-GFTGEHCEVSARAGRCVPGVCKNGGTCVNLLNGGFCCHCPYG 1308 (2531)
T ss_pred             hhHhh-hcCCCCCCCceEEecCceeEEecC-CccccceeeecccCccccceecCCCEEeecCCCceeccCCCc
Confidence            34889 799999999999999999999999 9999999987543  343445444445544333 44444433

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=97.50  E-value=9.3e-05  Score=59.96  Aligned_cols=47  Identities=62%  Similarity=0.732  Sum_probs=35.4

Q ss_pred             eeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         75 MRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        75 ~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      +.-|.....++.  +.-++.  |.|   |||.+|||+.++|||+||+++|+||+
T Consensus        43 ~~~R~~i~e~L~TGI~~ID~--l~pigrGQr~~Ifg~~g~GKt~L~l~~i~~~~   94 (274)
T cd01132          43 IIPRKSVNEPLQTGIKAIDA--MIPIGRGQRELIIGDRQTGKTAIAIDTIINQK   94 (274)
T ss_pred             hhhcCCcccccccCCEEeec--cCCcccCCEEEeeCCCCCCccHHHHHHHHHhc
Confidence            344444444443  566666  444   99999999999999999999999986

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.

>KOG3516|consensus

Probab=97.49  E-value=0.00017  Score=67.73  Aligned_cols=66  Identities=23%  Similarity=0.503  Sum_probs=50.8

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCcccee-----------eccceeecccc-ccceeeEecc
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEISVV-----------RAISMRVRGSR-KKLRLIECED   91 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~~~~~-----------~~~~~~~r~~~-~~~~~~~C~~   91 (124)
                      ..|.| .+|||+|||.|..+|..|.|.|..|||.|..|+...++..           ...-+...+.. ..|+.+.|..
T Consensus       544 i~drC-lPN~CehgG~C~Qs~~~f~C~C~~TGY~GatCHtsi~e~SCeay~~~~~t~~~~~iD~DGsGpl~Pl~v~C~~  621 (1306)
T KOG3516|consen  544 ISDRC-LPNPCEHGGKCSQSWDDFECNCELTGYKGATCHTSIYELSCEAYKNIGQTSGNFLIDSDGSGPLEPLQVYCNI  621 (1306)
T ss_pred             ccccc-CCccccCCCcccccccceeEeccccccccccccCCCcchhhHHhhhhccccceEEEccCCCCcccceEEEEec
Confidence            45889 6999999999999999999999988999999998765431           12233444444 5577788884

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=97.48  E-value=8.9e-05  Score=60.14  Aligned_cols=49  Identities=22%  Similarity=0.209  Sum_probs=37.4

Q ss_pred             ccceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         72 AISMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        72 ~~~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      ++.+..|.....++.  +.-++.  |.|   |||++|||++|+|||+|+.+ |++|+
T Consensus        40 ap~~~~R~~i~e~l~TGIkaID~--l~pig~GQR~gIfgg~GvGKt~L~~~-i~~~~   93 (276)
T cd01135          40 PINPVARIYPEEMIQTGISAIDG--MNTLVRGQKIPIFSGSGLPHNELAAQ-IARQA   93 (276)
T ss_pred             CcCchhcCCcccccccCcEeeec--ccccccCCEEEeecCCCCChhHHHHH-HHHhh
Confidence            355555655655554  777877  555   99999999999999999998 66664

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

>KOG3514|consensus

Probab=97.45  E-value=8e-05  Score=69.51  Aligned_cols=38  Identities=39%  Similarity=0.917  Sum_probs=35.7

Q ss_pred             CCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCc
Q psy10055         28 PCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVE   66 (124)
Q Consensus        28 ~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~   66 (124)
                      .| ++|||+|+|+|.+.|+.|.|+|..|+|.|+.|+.+.
T Consensus       625 ~C-~~nPC~N~g~C~egwNrfiCDCs~T~~~G~~CerE~  662 (1591)
T KOG3514|consen  625 IC-ESNPCQNGGKCSEGWNRFICDCSGTGFEGRTCEREA  662 (1591)
T ss_pred             cc-CCCcccCCCCccccccccccccccCcccCcccccee
Confidence            69 799999999999999999999999899999998763

>KOG4289|consensus

Probab=97.43  E-value=0.00014  Score=69.71  Aligned_cols=40  Identities=30%  Similarity=0.661  Sum_probs=36.8

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCc
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVE   66 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~   66 (124)
                      ..+.| ++.+|+|+|+|++.|++|+|+||. +|.|+.|++.+
T Consensus      1500 rk~fC-dsg~C~n~g~CvnrWg~~~C~CP~-~fggk~c~~~m 1539 (2531)
T KOG4289|consen 1500 RKNFC-DSGQCSNGGTCVNRWGGFSCECPL-GFGGKGCCQGM 1539 (2531)
T ss_pred             hhccc-CCCccCCCCeeecccCcEeecCcc-ccCCcchhhcc
Confidence            45789 699999999999999999999999 99999998875

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=97.21  E-value=0.00027  Score=61.46  Aligned_cols=49  Identities=20%  Similarity=0.222  Sum_probs=37.8

Q ss_pred             cceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         73 ISMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        73 ~~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      +.+..|.....++.  +.-++.  |.|   |||++|||++|+|||+|+.++|.||+
T Consensus       133 p~~~~R~~i~e~L~TGIraID~--l~pigkGQR~gIfgg~GvGKs~L~~~~~~~~~  186 (494)
T CHL00060        133 PAFIQLDTKLSIFETGIKVVDL--LAPYRRGGKIGLFGGAGVGKTVLIMELINNIA  186 (494)
T ss_pred             cCchhcccccceeecCceeeec--cCCcccCCEEeeecCCCCChhHHHHHHHHHHH
Confidence            34444555554444  778887  555   99999999999999999999999964

>KOG3516|consensus

Probab=97.15  E-value=0.00033  Score=65.78  Aligned_cols=46  Identities=28%  Similarity=0.755  Sum_probs=39.3

Q ss_pred             cccccccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCc
Q psy10055         20 SVENSVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVE   66 (124)
Q Consensus        20 ~v~~~~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~   66 (124)
                      +|.......| .+.||+|||.|++.+.+|+|+|..|.|.|+.|..++
T Consensus       949 gv~~GC~GhC-ss~~C~NGG~Cvery~gytCDCs~Tay~Gp~Cs~ei  994 (1306)
T KOG3516|consen  949 GVSPGCEGHC-SSYPCLNGGHCVERYDGYTCDCSRTAYDGPFCSKEI  994 (1306)
T ss_pred             cccCCCcccc-ccccccCCCEEEEecCceeeccccCcCCCCcccccc
Confidence            3444455679 688999999999999999999998899999998874

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=97.09  E-value=0.00044  Score=56.01  Aligned_cols=49  Identities=20%  Similarity=0.266  Sum_probs=37.0

Q ss_pred             cceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         73 ISMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        73 ~~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      +.+..|.....++.  +.-++.  |.|   |||++||+++|+|||+|+.+.+.|++
T Consensus        41 p~~~~R~~~~e~L~TGIr~ID~--l~pig~GQr~~If~~~G~GKTtLa~~i~~~i~   94 (274)
T cd01133          41 PEFVEQSTKTEILETGIKVIDL--LAPYAKGGKIGLFGGAGVGKTVLIMELINNIA   94 (274)
T ss_pred             CCchhhcCcCcccccCceeeec--cCCcccCCEEEEecCCCCChhHHHHHHHHHHH
Confidence            34444444444443  677777  555   99999999999999999999999875

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=96.90  E-value=0.0008  Score=57.91  Aligned_cols=49  Identities=24%  Similarity=0.302  Sum_probs=37.1

Q ss_pred             cceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         73 ISMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        73 ~~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      +.+..|.....++.  +.-++.  |.|   |||++|||++|+|||+|+.++|.||+
T Consensus       110 p~~~~R~~i~e~L~TGIr~ID~--l~pigkGQr~~Ifg~~G~GKt~l~~~~~~~~~  163 (449)
T TIGR03305       110 PTLTRRSSKSEVFETGIKAIDV--LVPLERGGKAGLFGGAGVGKTVLLTEMIHNMV  163 (449)
T ss_pred             CCchhcccCCcccccCceeecc--ccccccCCEEEeecCCCCChhHHHHHHHHHHH
Confidence            44445555544444  566666  444   99999999999999999999999975

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=96.55  E-value=0.0022  Score=55.37  Aligned_cols=48  Identities=23%  Similarity=0.232  Sum_probs=35.8

Q ss_pred             cceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         73 ISMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        73 ~~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      +.+..|.....++.  +.-++.  |.|   |||++|||++|+|||+|+.+ |++|.
T Consensus       113 ~~~~~R~~~~~~l~TGi~~ID~--l~pig~GQR~gIfgg~G~GKs~L~~~-ia~~~  165 (458)
T TIGR01041       113 INPYAREYPEEFIQTGISAIDG--MNTLVRGQKLPIFSGSGLPHNELAAQ-IARQA  165 (458)
T ss_pred             CChhhcCCCCCcCCCCeEEEEc--cCccccCCEEEeeCCCCCCHHHHHHH-HHHhh
Confidence            33444555554443  777887  555   99999999999999999998 77764

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PRK04196 V-type ATP synthase subunit B; Provisional

Probab=96.53  E-value=0.0022  Score=55.26  Aligned_cols=48  Identities=21%  Similarity=0.225  Sum_probs=36.3

Q ss_pred             ccceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhc
Q psy10055         72 AISMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQ  122 (124)
Q Consensus        72 ~~~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q  122 (124)
                      ++.+..|....+++.  +.-++.  |.|   |||++|||++|+|||+|+.+ |++|
T Consensus       114 ap~~l~R~~i~epl~TGi~~ID~--l~pig~GQR~gIfgg~G~GKs~L~~~-ia~~  166 (460)
T PRK04196        114 PINPVAREYPEEFIQTGISAIDG--LNTLVRGQKLPIFSGSGLPHNELAAQ-IARQ  166 (460)
T ss_pred             CCChhhcCCCCccccCCeEEEec--cCcccCCCEEEeeCCCCCCccHHHHH-HHHh
Confidence            344555666655554  777777  555   99999999999999999988 6665

>PF07974 EGF_2: EGF-like domain; InterPro: IPR013111 A sequence of about thirty to forty amino-acid residues long found in the sequence of epidermal growth factor (EGF) has been shown [, , , , ] to be present, in a more or less conserved form, in a large number of other, mostly animal proteins

Probab=96.50  E-value=0.0034  Score=35.26  Aligned_cols=27  Identities=30%  Similarity=0.800  Sum_probs=23.4

Q ss_pred             CCCCCCCeeeeCCCCceEEecCCCeecccc
Q psy10055         33 DPCKHGGICISTDSGPICECRNLDFEGIYC   62 (124)
Q Consensus        33 nPC~ngG~C~~~~~~y~C~C~~tg~~G~~C   62 (124)
                      ..|.+.|+|+..  ..+|.|.+ +|+|+.|
T Consensus         6 ~~C~~~G~C~~~--~g~C~C~~-g~~G~~C   32 (32)
T PF07974_consen    6 NICSGHGTCVSP--CGRCVCDS-GYTGPDC   32 (32)
T ss_pred             CccCCCCEEeCC--CCEEECCC-CCcCCCC
Confidence            469999999876  56999999 9999987

The list of proteins currently known to contain one or more copies of an EGF-like pattern is large and varied. The functional significance of EGF domains in what appear to be unrelated proteins is not yet clear. However, a common feature is that these repeats are found in the extracellular domain of membrane-bound proteins or in proteins known to be secreted (exception: prostaglandin G/H synthase). The EGF domain includes six cysteine residues which have been shown (in EGF) to be involved in disulphide bonds. The main structure is a two-stranded beta-sheet followed by a loop to a C-terminal short two-stranded sheet. Subdomains between the conserved cysteines vary in length. This entry contains EGF domains found in a variety of extracellular and membrane proteins

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=96.39  E-value=0.0026  Score=55.02  Aligned_cols=35  Identities=29%  Similarity=0.325  Sum_probs=30.6

Q ss_pred             eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         87 IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        87 ~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      +.-++.  |.|   |||++||+++|+|||+|+.+++.|++
T Consensus       132 iraID~--l~pigkGQR~gIfa~~GvGKt~Ll~~i~~~~~  169 (463)
T PRK09280        132 IKVIDL--LAPYAKGGKIGLFGGAGVGKTVLIQELINNIA  169 (463)
T ss_pred             Ceeecc--cCCcccCCEEEeecCCCCChhHHHHHHHHHHH
Confidence            677777  445   99999999999999999999999874

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=96.35  E-value=0.0033  Score=54.45  Aligned_cols=48  Identities=19%  Similarity=0.131  Sum_probs=35.6

Q ss_pred             cceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         73 ISMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        73 ~~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      +.+..|.....++.  +.-++.  |.|   |||++||+++|+|||+|+.+ |++|.
T Consensus       113 ~~~~~R~~i~e~l~TGI~aID~--l~~ig~GQRigIfagsGvGKs~L~~~-i~~~~  165 (466)
T TIGR01040       113 INPYARIYPEEMIQTGISAIDV--MNSIARGQKIPIFSAAGLPHNEIAAQ-ICRQA  165 (466)
T ss_pred             CChhHcCCCCCeeecCcEEEec--cCccccCCeeeeecCCCCCHHHHHHH-HHHhh
Confidence            34445555555444  777777  545   99999999999999999987 77664

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=96.14  E-value=0.0044  Score=53.63  Aligned_cols=48  Identities=23%  Similarity=0.277  Sum_probs=36.0

Q ss_pred             ceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         74 SMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        74 ~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      .+..|.....++.  +.-++.  |.|   |||.+||+++|+|||+|+.+++.|++
T Consensus       116 ~~~~R~~~~e~l~TGiraID~--l~pig~GQr~~If~~~G~GKt~L~~~~~~~~~  168 (461)
T TIGR01039       116 SFEEQSTKVEILETGIKVIDL--LAPYAKGGKIGLFGGAGVGKTVLIQELINNIA  168 (461)
T ss_pred             ChhHcCCcccccccCceeecc--cCCcccCCEEEeecCCCCChHHHHHHHHHHHH
Confidence            3344444444433  677777  545   99999999999999999999999864

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=96.04  E-value=0.0057  Score=52.87  Aligned_cols=48  Identities=21%  Similarity=0.315  Sum_probs=36.0

Q ss_pred             ceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         74 SMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        74 ~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      .+..|.....++.  +.-++.  |.|   |||.+||++.|+|||+|..+.+.|++
T Consensus       116 ~~~~R~~~~e~l~TGir~ID~--l~pigkGQR~gIfa~~G~GKt~Ll~~~~~~~~  168 (461)
T PRK12597        116 PLAEQDTSTEILETGIKVIDL--LCPIAKGGKTGLFGGAGVGKTVLMMELIFNIS  168 (461)
T ss_pred             ChhhcCCcCcceecCCeeecc--cCccccCCEEEeecCCCCChhHHHHHHHHHHH
Confidence            3344444444443  677777  445   99999999999999999999999874

>PF12661 hEGF: Human growth factor-like EGF; PDB: 2YGQ_A 2E26_A 3A7Q_A 2YGP_A 2YGO_A 1HRE_A 1HAE_A 1HAF_A 1HRF_A

Probab=95.99  E-value=0.0052  Score=28.09  Aligned_cols=13  Identities=31%  Similarity=1.025  Sum_probs=10.8

Q ss_pred             eEEecCCCeecccc
Q psy10055         49 ICECRNLDFEGIYC   62 (124)
Q Consensus        49 ~C~C~~tg~~G~~C   62 (124)
                      .|.|++ ||+|++|
T Consensus         1 ~C~C~~-G~~G~~C   13 (13)
T PF12661_consen    1 TCQCPP-GWTGPNC   13 (13)
T ss_dssp             EEEE-T-TEETTTT
T ss_pred             CccCcC-CCcCCCC
Confidence            589999 9999987

>PRK12678 transcription termination factor Rho; Provisional

Probab=95.98  E-value=0.0043  Score=55.52  Aligned_cols=34  Identities=29%  Similarity=0.379  Sum_probs=28.3

Q ss_pred             eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         87 IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        87 ~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      ..-++.  |.|   |||++|+++.++|||+|+.+ |+||+
T Consensus       404 iRvIDl--l~PIGkGQR~LIvgpp~aGKTtLL~~-IAn~i  440 (672)
T PRK12678        404 TRVIDL--IMPIGKGQRGLIVSPPKAGKTTILQN-IANAI  440 (672)
T ss_pred             ceeeee--ecccccCCEeEEeCCCCCCHHHHHHH-HHHHH
Confidence            566777  445   99999999999999999876 88764

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=95.36  E-value=0.011  Score=50.59  Aligned_cols=34  Identities=32%  Similarity=0.383  Sum_probs=26.7

Q ss_pred             eeeEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHh
Q psy10055         85 RLIECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        85 ~~~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      ....-++.  |.|   |||++|+|+.++|||+||-+ |.|
T Consensus       155 ~~~rvID~--l~PIGkGQR~lIvgppGvGKTTLaK~-Ian  191 (416)
T PRK09376        155 LSTRIIDL--IAPIGKGQRGLIVAPPKAGKTVLLQN-IAN  191 (416)
T ss_pred             cceeeeee--ecccccCceEEEeCCCCCChhHHHHH-HHH
Confidence            34566666  445   99999999999999999877 444

>PRK12608 transcription termination factor Rho; Provisional

Probab=95.25  E-value=0.014  Score=49.40  Aligned_cols=20  Identities=35%  Similarity=0.481  Sum_probs=19.5

Q ss_pred             CCceeEeccCCCCchhhhHH
Q psy10055         98 PSRELIIGDRQTGKTALAID  117 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~~  117 (124)
                      |||++|+|+.|+|||+|+.+
T Consensus       133 GQR~LIvG~pGtGKTTLl~~  152 (380)
T PRK12608        133 GQRGLIVAPPRAGKTVLLQQ  152 (380)
T ss_pred             CceEEEECCCCCCHHHHHHH
Confidence            99999999999999999988

>PF12947 EGF_3: EGF domain; InterPro: IPR024731 This entry represents an EGF domain found in the the C terminus of malarial parasite merozoite surface protein 1 [], as well as other proteins

Probab=94.59  E-value=0.03  Score=32.13  Aligned_cols=27  Identities=26%  Similarity=0.711  Sum_probs=20.9

Q ss_pred             CCCCCCCeeeeCCCCceEEecCCCeecc
Q psy10055         33 DPCKHGGICISTDSGPICECRNLDFEGI   60 (124)
Q Consensus        33 nPC~ngG~C~~~~~~y~C~C~~tg~~G~   60 (124)
                      ..|....+|.+..+.|.|.|.+ ||.|.
T Consensus         6 ~~C~~nA~C~~~~~~~~C~C~~-Gy~Gd   32 (36)
T PF12947_consen    6 GGCHPNATCTNTGGSYTCTCKP-GYEGD   32 (36)
T ss_dssp             GGS-TTCEEEE-TTSEEEEE-C-EEECC
T ss_pred             CCCCCCcEeecCCCCEEeECCC-CCccC
Confidence            4577889999999999999999 99863

; PDB: 2NPR_A 1N1I_C 1B9W_A 1YO8_A 2RHP_A.

>KOG1225|consensus

Probab=93.86  E-value=0.11  Score=45.82  Aligned_cols=56  Identities=25%  Similarity=0.683  Sum_probs=40.0

Q ss_pred             CCCcccccCC--------CCccccccccccccCC--CCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCc
Q psy10055          3 ENRNCTALCS--------DCQYCHYSVENSVLDP--CEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVE   66 (124)
Q Consensus         3 ~~~~~~~~~~--------~~~~c~~~v~~~~~d~--C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~   66 (124)
                      +.+.|+..|+        .|+ |..++...+-++  |  +++|..++.|++.    .|.|++ +|.|+.|+...
T Consensus       248 ~~~~C~~~c~~~g~c~~G~CI-C~~Gf~G~dC~e~~C--p~~cs~~g~~~~g----~CiC~~-g~~G~dCs~~~  313 (525)
T KOG1225|consen  248 STIYCPGGCTGRGQCVEGRCI-CPPGFTGDDCDELVC--PVDCSGGGVCVDG----ECICNP-GYSGKDCSIRR  313 (525)
T ss_pred             ccccCCCCCcccceEeCCeEe-CCCCCcCCCCCcccC--CcccCCCceecCC----EeecCC-Ccccccccccc
Confidence            3667888877        455 777777665444  6  5558777777664    899999 89999987543

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=93.40  E-value=0.068  Score=45.19  Aligned_cols=34  Identities=21%  Similarity=0.198  Sum_probs=27.0

Q ss_pred             eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         87 IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        87 ~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      .+-++.  |.|   |||.+|+|+.|+|||+|+. .|++|+
T Consensus       145 irvID~--l~Pi~kGqr~~I~G~~G~GKT~L~~-~Iak~~  181 (369)
T cd01134         145 QRVLDT--LFPVVKGGTAAIPGPFGCGKTVIQQ-SLSKYS  181 (369)
T ss_pred             chhhhc--cccccCCCEEEEECCCCCChHHHHH-HHHhCC
Confidence            455555  444   9999999999999999996 577775

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.

>KOG4260|consensus

Probab=92.83  E-value=0.049  Score=44.86  Aligned_cols=46  Identities=24%  Similarity=0.643  Sum_probs=40.3

Q ss_pred             CCcccccccccc-----ccCCCC-CCCCCCCCCeeeeCCCCceEEecCCCeec
Q psy10055         13 DCQYCHYSVENS-----VLDPCE-EHDPCKHGGICISTDSGPICECRNLDFEG   59 (124)
Q Consensus        13 ~~~~c~~~v~~~-----~~d~C~-~~nPC~ngG~C~~~~~~y~C~C~~tg~~G   59 (124)
                      +|.-|..+|+++     ++|+|. ++.||...-+|+++.++|.|.+.+ ||.+
T Consensus       218 ~C~kCkkGW~lde~gCvDvnEC~~ep~~c~~~qfCvNteGSf~C~dk~-Gy~~  269 (350)
T KOG4260|consen  218 GCSKCKKGWKLDEEGCVDVNECQNEPAPCKAHQFCVNTEGSFKCEDKE-GYKK  269 (350)
T ss_pred             ChhhhcccceecccccccHHHHhcCCCCCChhheeecCCCceEecccc-cccC
Confidence            788999999997     778882 277899999999999999999998 8875

>PHA03099 epidermal growth factor-like protein (EGF-like protein); Provisional

Probab=92.62  E-value=0.086  Score=38.78  Aligned_cols=32  Identities=38%  Similarity=0.944  Sum_probs=26.4

Q ss_pred             CCCCCCCCeeeeCC--CCceEEecCCCeeccccccC
Q psy10055         32 HDPCKHGGICISTD--SGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        32 ~nPC~ngG~C~~~~--~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      .+-|.|| +|.-..  ..+.|.|+. ||+|.+||..
T Consensus        50 ~~YClHG-~C~yI~dl~~~~CrC~~-GYtGeRCEh~   83 (139)
T PHA03099         50 DGYCLHG-DCIHARDIDGMYCRCSH-GYTGIRCQHV   83 (139)
T ss_pred             CCEeECC-EEEeeccCCCceeECCC-Ccccccccce
Confidence            4568897 897444  689999999 9999999875

>PF14670 FXa_inhibition: Coagulation Factor Xa inhibitory site; PDB: 3Q3K_B 1NFY_B 1LQD_A 1G2L_B 1IQF_L 2UWP_B 2VH6_B 3KQC_L 2P93_L 2BQW_A

Probab=92.22  E-value=0.14  Score=29.40  Aligned_cols=18  Identities=28%  Similarity=0.822  Sum_probs=15.3

Q ss_pred             eeeeCCCCceEEecCCCee
Q psy10055         40 ICISTDSGPICECRNLDFE   58 (124)
Q Consensus        40 ~C~~~~~~y~C~C~~tg~~   58 (124)
                      +|++.+++|.|.|++ ||.
T Consensus        11 ~C~~~~g~~~C~C~~-Gy~   28 (36)
T PF14670_consen   11 ICVNTPGSYRCSCPP-GYK   28 (36)
T ss_dssp             EEEEETTSEEEE-ST-TEE
T ss_pred             CCccCCCceEeECCC-CCE
Confidence            688999999999999 985

...

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=91.79  E-value=0.13  Score=40.90  Aligned_cols=23  Identities=30%  Similarity=0.449  Sum_probs=20.0

Q ss_pred             cCCCCceeEeccCCCCchhhhHH
Q psy10055         95 MDPPSRELIIGDRQTGKTALAID  117 (124)
Q Consensus        95 mvp~~r~li~g~~~~g~t~~~~~  117 (124)
                      +-.|||.+|+|+.|+|||+++-.
T Consensus        13 i~~Gqr~~I~G~~G~GKTTLlr~   35 (249)
T cd01128          13 IGKGQRGLIVAPPKAGKTTLLQS   35 (249)
T ss_pred             cCCCCEEEEECCCCCCHHHHHHH
Confidence            44799999999999999998744

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>PHA02887 EGF-like protein; Provisional

Probab=91.77  E-value=0.14  Score=37.14  Aligned_cols=32  Identities=31%  Similarity=0.844  Sum_probs=24.9

Q ss_pred             CCCCCCCCeeeeC--CCCceEEecCCCeeccccccC
Q psy10055         32 HDPCKHGGICIST--DSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        32 ~nPC~ngG~C~~~--~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      .+-|.| |+|.-.  ...+.|.|+. ||+|.+|++.
T Consensus        91 k~YCiH-G~C~yI~dL~epsCrC~~-GYtG~RCE~v  124 (126)
T PHA02887         91 NDFCIN-GECMNIIDLDEKFCICNK-GYTGIRCDEV  124 (126)
T ss_pred             hCEeeC-CEEEccccCCCceeECCC-CcccCCCCcc
Confidence            345786 599744  3678999999 9999999864

>PRK02118 V-type ATP synthase subunit B; Provisional

Probab=91.65  E-value=0.18  Score=43.52  Aligned_cols=34  Identities=21%  Similarity=0.127  Sum_probs=27.8

Q ss_pred             eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         87 IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        87 ~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      ++-++.  |.|   |||+.||+++|+|||+| +..|.+|.
T Consensus       128 IkaID~--l~pl~rGQkigIF~gaGvgk~~L-~~~ia~~~  164 (436)
T PRK02118        128 IPMIDV--FNTLVESQKIPIFSVSGEPYNAL-LARIALQA  164 (436)
T ss_pred             cEEeec--ccccccCCEEEEEeCCCCCHHHH-HHHHHHhh
Confidence            566666  444   99999999999999998 77788875

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=91.27  E-value=0.16  Score=32.50  Aligned_cols=20  Identities=40%  Similarity=0.635  Sum_probs=16.4

Q ss_pred             ceeEeccCCCCchhhhHHHHH
Q psy10055        100 RELIIGDRQTGKTALAIDTII  120 (124)
Q Consensus       100 r~li~g~~~~g~t~~~~~~~~  120 (124)
                      --+|.|+++.|||+| +|+|.
T Consensus        25 ~tli~G~nGsGKSTl-lDAi~   44 (62)
T PF13555_consen   25 VTLITGPNGSGKSTL-LDAIQ   44 (62)
T ss_pred             EEEEECCCCCCHHHH-HHHHH
Confidence            578999999999987 56653

>KOG1214|consensus

Probab=91.14  E-value=0.2  Score=46.85  Aligned_cols=39  Identities=23%  Similarity=0.652  Sum_probs=33.4

Q ss_pred             cccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeec--ccccc
Q psy10055         24 SVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEG--IYCEK   64 (124)
Q Consensus        24 ~~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G--~~Ce~   64 (124)
                      .+.|+| .++-|....+|++++++|.|.|.+ ||.|  ..|-.
T Consensus       825 ~dvDeC-~psrChp~A~CyntpgsfsC~C~p-Gy~GDGf~CVP  865 (1289)
T KOG1214|consen  825 TDVDEC-SPSRCHPAATCYNTPGSFSCRCQP-GYYGDGFQCVP  865 (1289)
T ss_pred             cccccc-CccccCCCceEecCCCcceeeccc-CccCCCceecC
Confidence            377999 699999999999999999999999 9975  44433

>KOG1217|consensus

Probab=90.65  E-value=0.24  Score=40.13  Aligned_cols=36  Identities=31%  Similarity=0.822  Sum_probs=32.0

Q ss_pred             ccCCCCCCC-CCCCCCeeeeCCCCceEEecCCCeecccc
Q psy10055         25 VLDPCEEHD-PCKHGGICISTDSGPICECRNLDFEGIYC   62 (124)
Q Consensus        25 ~~d~C~~~n-PC~ngG~C~~~~~~y~C~C~~tg~~G~~C   62 (124)
                      +++.| ... +|.++++|++..+.|.|.|++ +|.|..|
T Consensus       270 ~~~~C-~~~~~c~~~~~C~~~~~~~~C~C~~-g~~g~~~  306 (487)
T KOG1217|consen  270 DVDSC-ALIASCPNGGTCVNVPGSYRCTCPP-GFTGRLC  306 (487)
T ss_pred             ecccc-CCCCccCCCCeeecCCCcceeeCCC-CCCCCCC
Confidence            56889 466 499999999999889999999 9999998

>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A

Probab=90.61  E-value=0.18  Score=36.46  Aligned_cols=21  Identities=29%  Similarity=0.624  Sum_probs=17.4

Q ss_pred             CCceeEeccCCCCchhhhHHHH
Q psy10055         98 PSRELIIGDRQTGKTALAIDTI  119 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~~~~  119 (124)
                      +.--+|+|.+++|||+|+ ++|
T Consensus        19 ~g~~vi~G~Ng~GKStil-~ai   39 (202)
T PF13476_consen   19 PGLNVIYGPNGSGKSTIL-EAI   39 (202)
T ss_dssp             SEEEEEEESTTSSHHHHH-HHH
T ss_pred             CCcEEEECCCCCCHHHHH-HHH
Confidence            357789999999999997 555

>PRK06936 type III secretion system ATPase; Provisional

Probab=90.16  E-value=0.27  Score=42.39  Aligned_cols=50  Identities=18%  Similarity=0.149  Sum_probs=33.0

Q ss_pred             cceeecccccccee--eEeccC-CCcCCCCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         73 ISMRVRGSRKKLRL--IECEDG-AGMDPPSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        73 ~~~~~r~~~~~~~~--~~C~~~-~~mvp~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      +.+..|.....++.  +.-++. +.+..|||..|+|.++.|||+| +..|.+|.
T Consensus       134 p~p~~R~~i~~~l~TGi~vid~l~~i~~Gq~~~I~G~sG~GKStL-l~~Ia~~~  186 (439)
T PRK06936        134 PAPMSRRLIETPLSLGVRVIDGLLTCGEGQRMGIFAAAGGGKSTL-LASLIRSA  186 (439)
T ss_pred             CChHHccccCCCCcCCcceeeeeEEecCCCEEEEECCCCCChHHH-HHHHhcCC
Confidence            33444444444333  233333 3345699999999999999999 78888764

>TIGR01042 V-ATPase_V1_A V-type (H+)-ATPase V1, A subunit

Probab=90.15  E-value=0.22  Score=44.46  Aligned_cols=41  Identities=20%  Similarity=0.141  Sum_probs=30.3

Q ss_pred             eecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHH
Q psy10055         76 RVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDT  118 (124)
Q Consensus        76 ~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~  118 (124)
                      ..|.....++.  ..-++.  |.|   |||.+|+|+.|+|||+|..+.
T Consensus       201 ~~R~~~~~PL~TG~RvID~--lfPi~kGqr~~I~gg~G~GKT~l~~~l  246 (591)
T TIGR01042       201 TEKLPANTPLLTGQRVLDA--LFPCVQGGTTAIPGAFGCGKTVISQSL  246 (591)
T ss_pred             hhccCCCCccccchhhhhh--ccchhcCCeEEEEcCCCcCHHHHHHHH
Confidence            33344444444  566666  556   999999999999999999873

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>PRK08149 ATP synthase SpaL; Validated

Probab=89.49  E-value=0.26  Score=42.32  Aligned_cols=29  Identities=24%  Similarity=0.319  Sum_probs=24.6

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      .+..|||..|+|.++.|||+| ++.|++|.
T Consensus       147 ~i~~Gq~i~I~G~sG~GKTTL-l~~i~~~~  175 (428)
T PRK08149        147 TCGVGQRMGIFASAGCGKTSL-MNMLIEHS  175 (428)
T ss_pred             eEecCCEEEEECCCCCChhHH-HHHHhcCC
Confidence            355699999999999999999 67887764

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=88.71  E-value=0.36  Score=36.63  Aligned_cols=29  Identities=38%  Similarity=0.500  Sum_probs=25.6

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      .|+..++--++.|+.|+|||++++..+.+
T Consensus        14 GGip~gs~~li~G~~GsGKT~l~~q~l~~   42 (226)
T PF06745_consen   14 GGIPKGSVVLISGPPGSGKTTLALQFLYN   42 (226)
T ss_dssp             TSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCCCCcEEEEEeCCCCCcHHHHHHHHHH
Confidence            46777999999999999999999987765

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>KOG1217|consensus

Probab=88.56  E-value=0.39  Score=38.89  Aligned_cols=48  Identities=33%  Similarity=0.842  Sum_probs=37.1

Q ss_pred             cccccccc----ccCCCC-CCCCCCCCCeeeeCCCCceEEecCCCeeccccccC
Q psy10055         17 CHYSVENS----VLDPCE-EHDPCKHGGICISTDSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        17 c~~~v~~~----~~d~C~-~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      |..++.+.    ..+.|. ...+|++++.|.+..+.|.|.|++ +|.|..|+..
T Consensus       156 C~~g~~~~~~~~~~~~C~~~~~~c~~~~~C~~~~~~~~C~c~~-~~~~~~~~~~  208 (487)
T KOG1217|consen  156 CTEGYEGEPCETDLDECIQYSSPCQNGGTCVNTGGSYLCSCPP-GYTGSTCETT  208 (487)
T ss_pred             eCCCcccccccccccccccCCCCcCCCcccccCCCCeeEeCCC-CccCCcCcCC
Confidence            55555553    115783 255699999999999999999999 9999999875

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=88.05  E-value=0.51  Score=35.52  Aligned_cols=29  Identities=24%  Similarity=0.412  Sum_probs=25.6

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      -++..++-..|.|+.+.|||++|+..+.+
T Consensus        14 GG~~~g~v~~I~G~~GsGKT~l~~~ia~~   42 (226)
T cd01393          14 GGIPTGRITEIFGEFGSGKTQLCLQLAVE   42 (226)
T ss_pred             CCCcCCcEEEEeCCCCCChhHHHHHHHHH
Confidence            46778999999999999999999988765

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=87.95  E-value=0.5  Score=35.75  Aligned_cols=29  Identities=28%  Similarity=0.416  Sum_probs=25.6

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      -++..+..-.|.|..++|||++|+..+.+
T Consensus        14 GGi~~g~i~~i~G~~GsGKT~l~~~l~~~   42 (235)
T cd01123          14 GGIETGSITEIFGEFGSGKTQLCHQLAVT   42 (235)
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            36777899999999999999999998866

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>PRK05973 replicative DNA helicase; Provisional

Probab=87.94  E-value=0.51  Score=37.42  Aligned_cols=28  Identities=21%  Similarity=0.335  Sum_probs=25.4

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      ||.+++-.+|.|..|+|||++|+..+.+
T Consensus        60 Gl~~Gsl~LIaG~PG~GKT~lalqfa~~   87 (237)
T PRK05973         60 QLKPGDLVLLGARPGHGKTLLGLELAVE   87 (237)
T ss_pred             CCCCCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            6888999999999999999999988765

>PRK05922 type III secretion system ATPase; Validated

Probab=87.79  E-value=0.39  Score=41.36  Aligned_cols=28  Identities=21%  Similarity=0.366  Sum_probs=24.1

Q ss_pred             cCCCCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         95 MDPPSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        95 mvp~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      +..|||..|+|.++.|||+| +.+|.+|.
T Consensus       154 I~~GqrigI~G~nG~GKSTL-L~~Ia~~~  181 (434)
T PRK05922        154 LGKGQRIGVFSEPGSGKSSL-LSTIAKGS  181 (434)
T ss_pred             EcCCcEEEEECCCCCChHHH-HHHHhccC
Confidence            35599999999999999999 78887764

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=87.62  E-value=0.63  Score=36.17  Aligned_cols=30  Identities=37%  Similarity=0.470  Sum_probs=25.1

Q ss_pred             CCCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      +.++.+++.-+++|+.|+|||++|+..+.+
T Consensus        18 ~ggi~~g~~~~i~G~~G~GKTtl~~~~~~~   47 (230)
T PRK08533         18 GGGIPAGSLILIEGDESTGKSILSQRLAYG   47 (230)
T ss_pred             CCCCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            445777999999999999999999876653

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=87.52  E-value=0.37  Score=41.52  Aligned_cols=36  Identities=17%  Similarity=0.259  Sum_probs=26.3

Q ss_pred             eEeccCC-CcCCCCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         87 IECEDGA-GMDPPSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        87 ~~C~~~~-~mvp~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      +.-++.. .+..|||..|+|.+|.|||+|+ +.|.++.
T Consensus       143 i~aID~ll~I~~GQ~igI~G~sGaGKSTLl-~~I~g~~  179 (434)
T PRK07196        143 VNAINGLLTIGKGQRVGLMAGSGVGKSVLL-GMITRYT  179 (434)
T ss_pred             eeeccceEeEecceEEEEECCCCCCccHHH-HHHhccc
Confidence            3444443 2345999999999999999985 7777653

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=87.29  E-value=0.59  Score=35.44  Aligned_cols=29  Identities=21%  Similarity=0.277  Sum_probs=24.9

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      -++.+++--+|.|..++|||++|...+.+
T Consensus        15 GGi~~G~~~~i~G~~G~GKT~l~~~~~~~   43 (229)
T TIGR03881        15 GGIPRGFFVAVTGEPGTGKTIFCLHFAYK   43 (229)
T ss_pred             CCCcCCeEEEEECCCCCChHHHHHHHHHH
Confidence            36778999999999999999999886654

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=86.94  E-value=0.53  Score=37.15  Aligned_cols=30  Identities=23%  Similarity=0.205  Sum_probs=26.2

Q ss_pred             CCCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      +-|+.+++-.++.|..|+|||++|+..+.+
T Consensus        30 ~GGip~gs~~lI~G~pGtGKT~l~~qf~~~   59 (259)
T TIGR03878        30 LGGIPAYSVINITGVSDTGKSLMVEQFAVT   59 (259)
T ss_pred             CCCeECCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            346778999999999999999999998775

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=86.78  E-value=0.62  Score=36.00  Aligned_cols=30  Identities=23%  Similarity=0.341  Sum_probs=26.3

Q ss_pred             CCCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      +-|+.+++-.++.|+.++|||++|+..+.+
T Consensus        15 ~GG~~~gs~~lI~G~pGsGKT~la~~~l~~   44 (237)
T TIGR03877        15 HGGIPERNVVLLSGGPGTGKSIFSQQFLWN   44 (237)
T ss_pred             cCCCcCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            347888999999999999999999988765

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>TIGR02012 tigrfam_recA protein RecA

Probab=86.34  E-value=0.61  Score=38.61  Aligned_cols=29  Identities=31%  Similarity=0.428  Sum_probs=25.9

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      -|+..+.-.+|+|..++|||+||+..+.+
T Consensus        50 GGlp~G~iteI~G~~GsGKTtLaL~~~~~   78 (321)
T TIGR02012        50 GGLPRGRIIEIYGPESSGKTTLALHAIAE   78 (321)
T ss_pred             CCCcCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            46777888899999999999999998876

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=86.31  E-value=0.55  Score=40.59  Aligned_cols=48  Identities=13%  Similarity=0.045  Sum_probs=30.7

Q ss_pred             ceeecccccccee--eEeccCC-CcCCCCceeEeccCCCCchhhhHHHHHhc
Q psy10055         74 SMRVRGSRKKLRL--IECEDGA-GMDPPSRELIIGDRQTGKTALAIDTIINQ  122 (124)
Q Consensus        74 ~~~~r~~~~~~~~--~~C~~~~-~mvp~~r~li~g~~~~g~t~~~~~~~~~q  122 (124)
                      .+..|.....++.  +.-++.. .+..+||..|+|.+|.|||+|. ..|.++
T Consensus       131 ~~~~R~~~~~~l~TGir~ID~l~~i~~Gqri~I~G~sG~GKTtLL-~~I~~~  181 (442)
T PRK08927        131 PAHSRARVGEPLDLGVRALNTFLTCCRGQRMGIFAGSGVGKSVLL-SMLARN  181 (442)
T ss_pred             ChHHcCCcccccccceEEEeeeeEEcCCCEEEEECCCCCCHHHHH-HHHHhc
Confidence            3334444433333  4444442 2345999999999999999995 666655

>cd01394 radB RadB

Probab=86.25  E-value=0.7  Score=34.76  Aligned_cols=29  Identities=28%  Similarity=0.456  Sum_probs=25.0

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      .++..++--+|.|..++|||++|+..+.+
T Consensus        14 GGi~~g~i~~i~G~~GsGKT~l~~~~a~~   42 (218)
T cd01394          14 GGVERGTVTQVYGPPGTGKTNIAIQLAVE   42 (218)
T ss_pred             CCccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            46777888899999999999999998765

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=86.16  E-value=0.45  Score=36.63  Aligned_cols=24  Identities=17%  Similarity=0.315  Sum_probs=21.0

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+
T Consensus        23 s~~i~~Ge~~~i~G~nGsGKSTLl   46 (250)
T PRK14247         23 NLEIPDNTITALMGPSGSGKSTLL   46 (250)
T ss_pred             eeEEcCCCEEEEECCCCCCHHHHH
Confidence            455678999999999999999986

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=86.08  E-value=0.71  Score=33.70  Aligned_cols=27  Identities=30%  Similarity=0.331  Sum_probs=23.4

Q ss_pred             cC-CCCceeEeccCCCCchhhhHHHHHh
Q psy10055         95 MD-PPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        95 mv-p~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      +. .++--+|.|..++|||+++++.+..
T Consensus        28 ~~~~g~l~~i~g~~g~GKT~~~~~l~~~   55 (193)
T PF13481_consen   28 LLPRGELTLIAGPPGSGKTTLALQLAAA   55 (193)
T ss_dssp             EE-TTSEEEEEECSTSSHHHHHHHHHHH
T ss_pred             cccCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            44 5889999999999999999998764

>PF12662 cEGF: Complement Clr-like EGF-like

Probab=86.06  E-value=0.44  Score=25.10  Aligned_cols=16  Identities=31%  Similarity=0.883  Sum_probs=12.3

Q ss_pred             CceEEecCCCee----ccccc
Q psy10055         47 GPICECRNLDFE----GIYCE   63 (124)
Q Consensus        47 ~y~C~C~~tg~~----G~~Ce   63 (124)
                      +|.|.|++ ||.    |..|+
T Consensus         1 sy~C~C~~-Gy~l~~d~~~C~   20 (24)
T PF12662_consen    1 SYTCSCPP-GYQLSPDGRSCE   20 (24)
T ss_pred             CEEeeCCC-CCcCCCCCCccc
Confidence            58999999 985    55663

>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI

Probab=85.83  E-value=0.57  Score=40.02  Aligned_cols=29  Identities=21%  Similarity=0.235  Sum_probs=24.0

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      .+..+||.+|+|..+.|||+|. ..|++|.
T Consensus       133 ~i~~Gqri~I~G~sG~GKTtLl-~~i~~~~  161 (413)
T TIGR03497       133 TIGKGQRVGIFAGSGVGKSTLL-GMIARNA  161 (413)
T ss_pred             EEcCCCEEEEECCCCCCHHHHH-HHHhCCC
Confidence            3456999999999999999994 7777653

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>PF07475 Hpr_kinase_C: HPr Serine kinase C-terminal domain; InterPro: IPR011104 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []

Probab=85.65  E-value=0.58  Score=35.70  Aligned_cols=24  Identities=33%  Similarity=0.393  Sum_probs=21.3

Q ss_pred             CCCceeEeccCCCCchhhhHHHHH
Q psy10055         97 PPSRELIIGDRQTGKTALAIDTII  120 (124)
Q Consensus        97 p~~r~li~g~~~~g~t~~~~~~~~  120 (124)
                      .+.-.||.|+++.|||++|++.|-
T Consensus        17 ~G~GVLi~G~SG~GKS~lAl~Li~   40 (171)
T PF07475_consen   17 GGVGVLITGPSGIGKSELALELIK   40 (171)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467789999999999999999875

Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents the C-terminal kinase domain of Hpr Serine/threonine kinase PtsK. This kinase is the sensor in a multicomponent phosphorelay system in control of carbon catabolic repression in bacteria []. This kinase in unusual in that it recognises the tertiary structure of its target and is a member of a novel family unrelated to any previously described protein phosphorylating enzymes []. X-ray analysis of the full-length crystalline enzyme from Staphylococcus xylosus at a resolution of 1.95 A shows the enzyme to consist of two clearly separated domains that are assembled in a hexameric structure resembling a three-bladed propeller [].; GO: 0000155 two-component sensor activity, 0004672 protein kinase activity, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0006109 regulation of carbohydrate metabolic process; PDB: 2QMH_C 1KKM_B 1KKL_C 1JB1_A 3TQF_B 1KNX_B 1KO7_A.

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=85.55  E-value=0.46  Score=34.91  Aligned_cols=24  Identities=17%  Similarity=0.344  Sum_probs=20.8

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|+
T Consensus        20 ~~~i~~G~~~~i~G~nGsGKSTLl   43 (178)
T cd03229          20 SLNIEAGEIVALLGPSGSGKSTLL   43 (178)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH
Confidence            455678999999999999999975

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=85.48  E-value=0.49  Score=35.46  Aligned_cols=24  Identities=21%  Similarity=0.241  Sum_probs=20.7

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|+
T Consensus        22 s~~i~~G~~~~l~G~nGsGKSTLl   45 (214)
T TIGR02673        22 SLHIRKGEFLFLTGPSGAGKTTLL   45 (214)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH
Confidence            344668999999999999999987

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=85.42  E-value=0.82  Score=33.53  Aligned_cols=22  Identities=36%  Similarity=0.520  Sum_probs=17.7

Q ss_pred             CCceeEeccCCCCchhhhHHHH
Q psy10055         98 PSRELIIGDRQTGKTALAIDTI  119 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~~~~  119 (124)
                      .+--+++|.|+.|||++.-..+
T Consensus        20 ~~~~~l~G~rg~GKTsLl~~~~   41 (234)
T PF01637_consen   20 SQHILLYGPRGSGKTSLLKEFI   41 (234)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHH
T ss_pred             CcEEEEEcCCcCCHHHHHHHHH
Confidence            5677899999999999865444

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>TIGR01026 fliI_yscN ATPase FliI/YscN family

Probab=85.39  E-value=0.79  Score=39.45  Aligned_cols=28  Identities=21%  Similarity=0.228  Sum_probs=23.5

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHHHhc
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTIINQ  122 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~~~q  122 (124)
                      .+..|||..|+|.++.|||+|. +.|+++
T Consensus       159 ~i~~Gq~~~I~G~sG~GKStLl-~~I~~~  186 (440)
T TIGR01026       159 TVGKGQRIGIFAGSGVGKSTLL-GMIARN  186 (440)
T ss_pred             ccCCCcEEEEECCCCCCHHHHH-HHHhCC
Confidence            3456999999999999999994 777765

This family of ATPases demonstrates extensive homology with ATP synthase F1, beta subunit. It is a mixture of members with two different protein functions. The first group is exemplified by Salmonella typhimurium FliI protein. It is needed for flagellar assembly, its ATPase activity is required for flagellation, and it may be involved in a specialized protein export pathway that proceeds without signal peptide cleavage. The second group of proteins function in the export of virulence proteins; exemplified by Yersinia sp. YscN protein an ATPase involved in the type III secretory pathway for the antihost Yops proteins.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=85.36  E-value=0.43  Score=35.66  Aligned_cols=23  Identities=26%  Similarity=0.379  Sum_probs=19.8

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-.|+|.+|.|||+|+
T Consensus        22 ~~i~~G~~~~l~G~nGsGKSTLl   44 (211)
T cd03225          22 LTIKKGEFVLIVGPNGSGKSTLL   44 (211)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHH
Confidence            34568999999999999999985

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=85.33  E-value=0.46  Score=35.58  Aligned_cols=24  Identities=17%  Similarity=0.173  Sum_probs=20.6

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        20 ~~~i~~G~~~~i~G~nGsGKSTLl   43 (210)
T cd03269          20 SFSVEKGEIFGLLGPNGAGKTTTI   43 (210)
T ss_pred             EEEEcCCcEEEEECCCCCCHHHHH
Confidence            344678999999999999999985

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=85.31  E-value=0.49  Score=34.94  Aligned_cols=23  Identities=17%  Similarity=0.268  Sum_probs=20.1

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-.|+|.+|.|||+|.
T Consensus        13 l~i~~Ge~~~i~G~nGsGKSTLl   35 (190)
T TIGR01166        13 FAAERGEVLALLGANGAGKSTLL   35 (190)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHH
Confidence            44668999999999999999986

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=85.30  E-value=0.47  Score=35.74  Aligned_cols=24  Identities=21%  Similarity=0.333  Sum_probs=20.8

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|.
T Consensus        25 sl~i~~G~~~~i~G~nGsGKSTLl   48 (221)
T TIGR02211        25 SLSIGKGEIVAIVGSSGSGKSTLL   48 (221)
T ss_pred             EEEEcCCcEEEEECCCCCCHHHHH
Confidence            455678999999999999999975

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=85.08  E-value=0.48  Score=35.59  Aligned_cols=24  Identities=21%  Similarity=0.342  Sum_probs=20.4

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+
T Consensus        24 s~~i~~G~~~~l~G~nGsGKSTLl   47 (218)
T cd03255          24 SLSIEKGEFVAIVGPSGSGKSTLL   47 (218)
T ss_pred             EEEEcCCCEEEEEcCCCCCHHHHH
Confidence            344668999999999999999975

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=84.96  E-value=0.47  Score=36.84  Aligned_cols=24  Identities=29%  Similarity=0.385  Sum_probs=20.8

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+
T Consensus        26 s~~i~~Ge~~~i~G~nGsGKSTLl   49 (258)
T PRK11701         26 SFDLYPGEVLGIVGESGSGKTTLL   49 (258)
T ss_pred             eEEEeCCCEEEEECCCCCCHHHHH
Confidence            345678999999999999999985

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=84.91  E-value=0.53  Score=35.84  Aligned_cols=24  Identities=25%  Similarity=0.432  Sum_probs=20.7

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|+
T Consensus        21 s~~i~~Ge~~~i~G~nGsGKSTLl   44 (241)
T cd03256          21 SLSINPGEFVALIGPSGAGKSTLL   44 (241)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH
Confidence            345678999999999999999985

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=84.88  E-value=0.54  Score=35.89  Aligned_cols=27  Identities=30%  Similarity=0.438  Sum_probs=22.0

Q ss_pred             CCCcCCCCceeEeccCCCCchhhhHHHH
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALAIDTI  119 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~~~~~  119 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+ .+|
T Consensus        22 s~~i~~Ge~~~l~G~nGsGKSTLl-~~l   48 (243)
T TIGR02315        22 NLNINPGEFVAIIGPSGAGKSTLL-RCI   48 (243)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH-HHH
Confidence            445678999999999999999985 444

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=84.88  E-value=0.73  Score=38.24  Aligned_cols=27  Identities=22%  Similarity=0.277  Sum_probs=23.2

Q ss_pred             cCCCCceeEeccCCCCchhhhHHHHHhc
Q psy10055         95 MDPPSRELIIGDRQTGKTALAIDTIINQ  122 (124)
Q Consensus        95 mvp~~r~li~g~~~~g~t~~~~~~~~~q  122 (124)
                      +..+||..|+|.++.|||+| +..|.++
T Consensus        66 i~~Gqri~I~G~sG~GKTtL-l~~Ia~~   92 (326)
T cd01136          66 VGKGQRLGIFAGSGVGKSTL-LGMIARG   92 (326)
T ss_pred             EcCCcEEEEECCCCCChHHH-HHHHhCC
Confidence            45699999999999999999 6777765

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=84.77  E-value=1.1  Score=38.29  Aligned_cols=31  Identities=16%  Similarity=0.097  Sum_probs=24.3

Q ss_pred             cCCCcCCCCceeEeccCCCCchhhhHHHHHhc
Q psy10055         91 DGAGMDPPSRELIIGDRQTGKTALAIDTIINQ  122 (124)
Q Consensus        91 ~~~~mvp~~r~li~g~~~~g~t~~~~~~~~~q  122 (124)
                      ..+.+..+||..|+|.++.|||+|+ ..|.++
T Consensus       133 ~~~~i~~Gq~i~I~G~sG~GKTtLl-~~I~~~  163 (418)
T TIGR03498       133 TFLPLCRGQRLGIFAGSGVGKSTLL-SMLARN  163 (418)
T ss_pred             eeccccCCcEEEEECCCCCChHHHH-HHHhCC
Confidence            3445667999999999999999995 555543

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=84.66  E-value=0.56  Score=35.17  Aligned_cols=24  Identities=25%  Similarity=0.375  Sum_probs=20.4

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+
T Consensus        20 s~~i~~Ge~~~i~G~nGsGKSTLl   43 (213)
T cd03259          20 SLTVEPGEFLALLGPSGCGKTTLL   43 (213)
T ss_pred             eEEEcCCcEEEEECCCCCCHHHHH
Confidence            344568999999999999999985

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=84.62  E-value=0.93  Score=30.07  Aligned_cols=22  Identities=41%  Similarity=0.501  Sum_probs=17.7

Q ss_pred             CCceeEeccCCCCchhhhHHHH
Q psy10055         98 PSRELIIGDRQTGKTALAIDTI  119 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~~~~  119 (124)
                      +.--+|.|..|+|||+++....
T Consensus        19 ~~~v~i~G~~G~GKT~l~~~i~   40 (151)
T cd00009          19 PKNLLLYGPPGTGKTTLARAIA   40 (151)
T ss_pred             CCeEEEECCCCCCHHHHHHHHH
Confidence            4567899999999999876543

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=84.42  E-value=0.55  Score=35.30  Aligned_cols=24  Identities=13%  Similarity=0.288  Sum_probs=20.5

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|.
T Consensus        23 sl~i~~Ge~~~i~G~nGsGKSTLl   46 (216)
T TIGR00960        23 NFHITKGEMVFLVGHSGAGKSTFL   46 (216)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH
Confidence            344668999999999999999985

>KOG3514|consensus

Probab=84.36  E-value=0.63  Score=44.58  Aligned_cols=38  Identities=29%  Similarity=0.820  Sum_probs=34.2

Q ss_pred             CCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccC
Q psy10055         27 DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        27 d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      ..| ..+.|.|.|.|+..|.+|.|.|..|.|+|+.|...
T Consensus      1019 t~c-~~~acanhG~c~q~w~~~~c~csmtS~~Gp~C~d~ 1056 (1591)
T KOG3514|consen 1019 TTC-SEDACANHGVCIQQWNGIACDCSMTSYSGPRCNDP 1056 (1591)
T ss_pred             ccc-chhhhhccceeeeeecceeeeccccccCCCccCCC
Confidence            567 57889999999999999999999889999999865

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=84.32  E-value=0.56  Score=35.92  Aligned_cols=24  Identities=21%  Similarity=0.311  Sum_probs=20.6

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+
T Consensus        22 s~~i~~Ge~~~i~G~nGsGKSTLl   45 (239)
T cd03296          22 SLDIPSGELVALLGPSGSGKTTLL   45 (239)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH
Confidence            445678999999999999999975

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=84.31  E-value=0.58  Score=35.83  Aligned_cols=24  Identities=17%  Similarity=0.181  Sum_probs=20.6

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        23 sl~i~~Ge~~~l~G~nGsGKSTLl   46 (241)
T PRK10895         23 SLTVNSGEIVGLLGPNGAGKTTTF   46 (241)
T ss_pred             eEEEcCCcEEEEECCCCCCHHHHH
Confidence            345678999999999999999975

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=84.31  E-value=0.98  Score=34.19  Aligned_cols=29  Identities=21%  Similarity=0.415  Sum_probs=25.2

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      -++..+.-.+|.|..++|||++|+..+.+
T Consensus        18 GGi~~g~i~~i~G~~GsGKT~l~~~la~~   46 (225)
T PRK09361         18 GGFERGTITQIYGPPGSGKTNICLQLAVE   46 (225)
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            46777888899999999999999988765

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=84.24  E-value=0.74  Score=39.30  Aligned_cols=27  Identities=19%  Similarity=0.207  Sum_probs=22.7

Q ss_pred             cCCCCceeEeccCCCCchhhhHHHHHhc
Q psy10055         95 MDPPSRELIIGDRQTGKTALAIDTIINQ  122 (124)
Q Consensus        95 mvp~~r~li~g~~~~g~t~~~~~~~~~q  122 (124)
                      +..|||.+|+|.++.|||+|. +.|.++
T Consensus       134 i~~Gq~~~I~G~sG~GKTtLl-~~I~~~  160 (411)
T TIGR03496       134 VGRGQRMGIFAGSGVGKSTLL-GMMARY  160 (411)
T ss_pred             EecCcEEEEECCCCCCHHHHH-HHHhcC
Confidence            456999999999999999995 677654

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=84.19  E-value=0.56  Score=35.52  Aligned_cols=24  Identities=21%  Similarity=0.295  Sum_probs=20.6

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|+
T Consensus        20 sl~i~~Ge~~~i~G~nGsGKSTLl   43 (227)
T cd03260          20 SLDIPKGEITALIGPSGCGKSTLL   43 (227)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH
Confidence            344668999999999999999985

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1

Probab=84.13  E-value=0.54  Score=35.88  Aligned_cols=24  Identities=17%  Similarity=0.357  Sum_probs=20.6

Q ss_pred             CCcCCCCceeEeccCCCCchhhhH
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~  116 (124)
                      +.+.+|+.-+|+|.+|.|||+|+-
T Consensus        24 ~~i~~Ge~~~l~G~nGsGKSTLl~   47 (238)
T cd03249          24 LTIPPGKTVALVGSSGCGKSTVVS   47 (238)
T ss_pred             EEecCCCEEEEEeCCCCCHHHHHH
Confidence            445689999999999999999863

In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=84.10  E-value=0.55  Score=35.27  Aligned_cols=23  Identities=22%  Similarity=0.294  Sum_probs=19.9

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-+|+|.+|.|||+|.
T Consensus        26 l~i~~Ge~~~i~G~nGsGKSTLl   48 (218)
T cd03266          26 FTVKPGEVTGLLGPNGAGKTTTL   48 (218)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHH
Confidence            44568999999999999999986

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=84.04  E-value=0.57  Score=35.74  Aligned_cols=23  Identities=26%  Similarity=0.297  Sum_probs=20.0

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-.|+|.+|.|||+|+
T Consensus        21 ~~i~~Ge~~~l~G~nGsGKSTLl   43 (235)
T cd03261          21 LDVRRGEILAIIGPSGSGKSTLL   43 (235)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHH
Confidence            44668999999999999999975

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=84.00  E-value=0.73  Score=39.91  Aligned_cols=26  Identities=15%  Similarity=0.221  Sum_probs=21.2

Q ss_pred             cCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         95 MDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        95 mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      +..|||.+|+|++|+|||+|+ ..|.+
T Consensus       159 i~~GqrigI~G~sG~GKSTLL-~~I~~  184 (444)
T PRK08972        159 VGKGQRMGLFAGSGVGKSVLL-GMMTR  184 (444)
T ss_pred             EcCCCEEEEECCCCCChhHHH-HHhcc
Confidence            456999999999999999995 44443

>TIGR01043 ATP_syn_A_arch ATP synthase archaeal, A subunit

Probab=83.99  E-value=0.68  Score=41.36  Aligned_cols=28  Identities=25%  Similarity=0.164  Sum_probs=23.1

Q ss_pred             eEeccCCCcCC---CCceeEeccCCCCchhhhH
Q psy10055         87 IECEDGAGMDP---PSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        87 ~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~  116 (124)
                      .+-++.  |.|   |||.+|+|+.|+|||++.-
T Consensus       210 iRvID~--l~Pi~kGqr~~I~gg~G~GKT~l~~  240 (578)
T TIGR01043       210 QRILDT--FFPIAKGGTAAIPGPFGSGKTVTQH  240 (578)
T ss_pred             chhhhc--cccccCCCEEEEecCCCCCHHHHHH
Confidence            566666  555   9999999999999999843

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=83.98  E-value=0.57  Score=34.47  Aligned_cols=24  Identities=21%  Similarity=0.311  Sum_probs=20.5

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|++-+|.|.+|.|||++.
T Consensus        19 ~~~i~~G~~~~l~G~nGsGKStLl   42 (180)
T cd03214          19 SLSIEAGEIVGILGPNGAGKSTLL   42 (180)
T ss_pred             EEEECCCCEEEEECCCCCCHHHHH
Confidence            444678999999999999999974

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=83.95  E-value=0.65  Score=34.82  Aligned_cols=24  Identities=25%  Similarity=0.362  Sum_probs=20.6

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|+
T Consensus        19 sl~i~~Ge~~~l~G~nGsGKSTLl   42 (213)
T cd03235          19 SFEVKPGEFLAIVGPNGAGKSTLL   42 (213)
T ss_pred             eeEEcCCCEEEEECCCCCCHHHHH
Confidence            345668999999999999999986

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase

Probab=83.86  E-value=1  Score=38.55  Aligned_cols=48  Identities=19%  Similarity=0.150  Sum_probs=31.4

Q ss_pred             eeecccccccee--eEeccCC-CcCCCCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         75 MRVRGSRKKLRL--IECEDGA-GMDPPSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        75 ~~~r~~~~~~~~--~~C~~~~-~mvp~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      +..|.....++.  +.-++.. .+..+||..|+|.++.|||+| +..|.++.
T Consensus       119 ~~~R~~i~~~l~tG~~~id~l~~i~~Gq~~~I~G~sG~GKStL-l~~I~~~~  169 (422)
T TIGR02546       119 PMSRQPIDQPLPTGVRAIDGLLTCGEGQRIGIFAGAGVGKSTL-LGMIARGA  169 (422)
T ss_pred             HHHccCcccccCCCceeehhhccccCCCEEEEECCCCCChHHH-HHHHhCCC
Confidence            334444444333  3334443 235599999999999999999 77777653

>cd03270 ABC_UvrA_I The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=83.75  E-value=1  Score=34.60  Aligned_cols=28  Identities=32%  Similarity=0.436  Sum_probs=22.8

Q ss_pred             CCCcCCCCceeEeccCCCCchhhhHHHH
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALAIDTI  119 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~~~~~  119 (124)
                      ++.+.+|+.-.|+|.+|.|||+|+..+|
T Consensus        15 sl~i~~Ge~~~l~G~sGsGKSTL~~~~i   42 (226)
T cd03270          15 DVDIPRNKLVVITGVSGSGKSSLAFDTI   42 (226)
T ss_pred             eeecCCCcEEEEEcCCCCCHHHHHHHHH
Confidence            3445679999999999999999985554

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional

Probab=83.75  E-value=0.65  Score=35.75  Aligned_cols=24  Identities=29%  Similarity=0.252  Sum_probs=20.8

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+
T Consensus        23 ~~~i~~Ge~~~i~G~nGsGKSTLl   46 (250)
T PRK14262         23 TMKIFKNQITAIIGPSGCGKTTLL   46 (250)
T ss_pred             eEeecCCCEEEEECCCCCCHHHHH
Confidence            445678999999999999999986

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=83.75  E-value=0.56  Score=35.04  Aligned_cols=23  Identities=17%  Similarity=0.353  Sum_probs=19.9

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-+|+|.+|.|||+|.
T Consensus        22 l~i~~G~~~~i~G~nGsGKSTLl   44 (214)
T cd03292          22 ISISAGEFVFLVGPSGAGKSTLL   44 (214)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHH
Confidence            44568999999999999999975

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>PRK06820 type III secretion system ATPase; Validated

Probab=83.73  E-value=0.79  Score=39.57  Aligned_cols=49  Identities=20%  Similarity=0.184  Sum_probs=31.1

Q ss_pred             cceeecccccccee--eEeccCC-CcCCCCceeEeccCCCCchhhhHHHHHhc
Q psy10055         73 ISMRVRGSRKKLRL--IECEDGA-GMDPPSRELIIGDRQTGKTALAIDTIINQ  122 (124)
Q Consensus        73 ~~~~~r~~~~~~~~--~~C~~~~-~mvp~~r~li~g~~~~g~t~~~~~~~~~q  122 (124)
                      +.+..|.....++.  +.-++.. .+..|||.+|+|..+.|||+|+ ..|.+|
T Consensus       135 p~p~~R~~~~~~l~TGi~aID~l~~i~~Gqri~I~G~sG~GKStLl-~~I~~~  186 (440)
T PRK06820        135 PSPLTRQPIEQMLTTGIRAIDGILSCGEGQRIGIFAAAGVGKSTLL-GMLCAD  186 (440)
T ss_pred             CChhhcCCchhhccCCCceecceEEecCCCEEEEECCCCCChHHHH-HHHhcc
Confidence            33344444433333  3444442 2345999999999999999995 677655

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=83.72  E-value=0.66  Score=35.21  Aligned_cols=25  Identities=20%  Similarity=0.252  Sum_probs=21.1

Q ss_pred             CCCcCCCCceeEeccCCCCchhhhH
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~~  116 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+-
T Consensus        20 s~~i~~Ge~~~l~G~nGsGKSTLl~   44 (230)
T TIGR03410        20 SLEVPKGEVTCVLGRNGVGKTTLLK   44 (230)
T ss_pred             eeEECCCCEEEEECCCCCCHHHHHH
Confidence            3456789999999999999999863

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=83.71  E-value=0.62  Score=34.80  Aligned_cols=24  Identities=25%  Similarity=0.285  Sum_probs=20.5

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        20 ~~~i~~Ge~~~i~G~nGsGKSTLl   43 (205)
T cd03226          20 SLDLYAGEIIALTGKNGAGKTTLA   43 (205)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH
Confidence            344668999999999999999985

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PHA00729 NTP-binding motif containing protein

Probab=83.71  E-value=0.67  Score=36.69  Aligned_cols=20  Identities=30%  Similarity=0.556  Sum_probs=17.5

Q ss_pred             CceeEeccCCCCchhhhHHH
Q psy10055         99 SRELIIGDRQTGKTALAIDT  118 (124)
Q Consensus        99 ~r~li~g~~~~g~t~~~~~~  118 (124)
                      ...+|+|..|+|||++|.-.
T Consensus        18 ~nIlItG~pGvGKT~LA~aL   37 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKV   37 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            37899999999999999764

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=83.70  E-value=0.61  Score=34.93  Aligned_cols=24  Identities=21%  Similarity=0.256  Sum_probs=20.5

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|++-.|+|.+|.|||+|.
T Consensus        20 sl~i~~Ge~~~i~G~nGsGKSTLl   43 (201)
T cd03231          20 SFTLAAGEALQVTGPNGSGKTTLL   43 (201)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH
Confidence            344568999999999999999984

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=83.62  E-value=0.63  Score=35.37  Aligned_cols=24  Identities=25%  Similarity=0.232  Sum_probs=20.8

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        25 s~~i~~Ge~~~l~G~nGsGKSTLl   48 (233)
T cd03258          25 SLSVPKGEIFGIIGRSGAGKSTLI   48 (233)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH
Confidence            345678999999999999999985

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14255 phosphate ABC transporter ATP-binding protein; Provisional

Probab=83.61  E-value=0.65  Score=35.78  Aligned_cols=24  Identities=17%  Similarity=0.278  Sum_probs=20.8

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|+
T Consensus        25 s~~i~~Ge~~~l~G~nGsGKSTLl   48 (252)
T PRK14255         25 DLDFNQNEITALIGPSGCGKSTYL   48 (252)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH
Confidence            445678999999999999999975

>PRK04328 hypothetical protein; Provisional

Probab=83.59  E-value=1.1  Score=35.05  Aligned_cols=29  Identities=24%  Similarity=0.369  Sum_probs=25.6

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      .++.+++-.++.|+.++|||.+|+..+.+
T Consensus        18 GGip~gs~ili~G~pGsGKT~l~~~fl~~   46 (249)
T PRK04328         18 GGIPERNVVLLSGGPGTGKSIFSQQFLWN   46 (249)
T ss_pred             CCCcCCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            46777999999999999999999988765

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=83.57  E-value=0.67  Score=35.48  Aligned_cols=23  Identities=17%  Similarity=0.300  Sum_probs=20.1

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-+|+|.+|.|||+|+
T Consensus        23 l~i~~Ge~~~i~G~nGsGKSTLl   45 (242)
T PRK11124         23 LDCPQGETLVLLGPSGAGKSSLL   45 (242)
T ss_pred             eEEcCCCEEEEECCCCCCHHHHH
Confidence            44568999999999999999986

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=83.50  E-value=0.62  Score=36.47  Aligned_cols=17  Identities=35%  Similarity=0.479  Sum_probs=14.8

Q ss_pred             ceeEeccCCCCchhhhH
Q psy10055        100 RELIIGDRQTGKTALAI  116 (124)
Q Consensus       100 r~li~g~~~~g~t~~~~  116 (124)
                      .-+|+|..|+|||++|-
T Consensus        44 ~vll~GppGtGKTtlA~   60 (261)
T TIGR02881        44 HMIFKGNPGTGKTTVAR   60 (261)
T ss_pred             eEEEEcCCCCCHHHHHH
Confidence            45799999999999994

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=83.49  E-value=0.65  Score=35.80  Aligned_cols=24  Identities=17%  Similarity=0.224  Sum_probs=20.5

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        24 s~~i~~Ge~~~l~G~nGsGKSTLl   47 (253)
T PRK14267         24 DLKIPQNGVFALMGPSGCGKSTLL   47 (253)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH
Confidence            344668999999999999999985

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=83.46  E-value=0.67  Score=34.97  Aligned_cols=25  Identities=16%  Similarity=0.076  Sum_probs=20.9

Q ss_pred             CCCcCCCCceeEeccCCCCchhhhH
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~~  116 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.-
T Consensus        20 s~~i~~Ge~~~i~G~nGsGKSTLl~   44 (220)
T cd03265          20 SFRVRRGEIFGLLGPNGAGKTTTIK   44 (220)
T ss_pred             eEEECCCCEEEEECCCCCCHHHHHH
Confidence            3456689999999999999999863

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=83.40  E-value=1  Score=35.16  Aligned_cols=30  Identities=33%  Similarity=0.427  Sum_probs=27.1

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHhc
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIINQ  122 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~q  122 (124)
                      .++-.+..-++.|.-++|||++++..+.++
T Consensus        18 GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~   47 (260)
T COG0467          18 GGLPRGSVVLITGPPGTGKTIFALQFLYEG   47 (260)
T ss_pred             CCCcCCcEEEEEcCCCCcHHHHHHHHHHHH
Confidence            567779999999999999999999998875

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=83.37  E-value=0.86  Score=34.12  Aligned_cols=23  Identities=30%  Similarity=0.377  Sum_probs=17.9

Q ss_pred             CCCceeEeccCCCCchhhhHHHH
Q psy10055         97 PPSRELIIGDRQTGKTALAIDTI  119 (124)
Q Consensus        97 p~~r~li~g~~~~g~t~~~~~~~  119 (124)
                      .++--+|+|..|+|||+||.-.+
T Consensus        46 ~~~~l~l~G~~G~GKThLa~ai~   68 (178)
T PF01695_consen   46 NGENLILYGPPGTGKTHLAVAIA   68 (178)
T ss_dssp             C--EEEEEESTTSSHHHHHHHHH
T ss_pred             cCeEEEEEhhHhHHHHHHHHHHH
Confidence            36668899999999999998654

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=83.34  E-value=0.65  Score=35.52  Aligned_cols=24  Identities=29%  Similarity=0.441  Sum_probs=20.5

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|+
T Consensus        21 s~~i~~Ge~~~l~G~nGsGKSTLl   44 (240)
T PRK09493         21 DLNIDQGEVVVIIGPSGSGKSTLL   44 (240)
T ss_pred             eEEEcCCcEEEEECCCCCCHHHHH
Confidence            344668999999999999999985

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=83.29  E-value=0.64  Score=35.53  Aligned_cols=24  Identities=21%  Similarity=0.324  Sum_probs=20.7

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+
T Consensus        21 s~~i~~Ge~~~i~G~nGsGKSTLl   44 (236)
T TIGR03864        21 SFTVRPGEFVALLGPNGAGKSTLF   44 (236)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH
Confidence            344678999999999999999985

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=83.28  E-value=0.73  Score=34.94  Aligned_cols=24  Identities=17%  Similarity=0.170  Sum_probs=20.4

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|.
T Consensus        20 s~~i~~Ge~~~l~G~nGsGKSTLl   43 (232)
T cd03218          20 SLSVKQGEIVGLLGPNGAGKTTTF   43 (232)
T ss_pred             eeEecCCcEEEEECCCCCCHHHHH
Confidence            344668999999999999999984

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>TIGR00416 sms DNA repair protein RadA

Probab=83.25  E-value=1  Score=38.75  Aligned_cols=31  Identities=35%  Similarity=0.454  Sum_probs=26.5

Q ss_pred             cCCCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         91 DGAGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        91 ~~~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      -+-++.+++-.+|.|+.++|||++++...-+
T Consensus        87 LgGGi~~GsvilI~G~pGsGKTTL~lq~a~~  117 (454)
T TIGR00416        87 LGGGIVPGSLILIGGDPGIGKSTLLLQVACQ  117 (454)
T ss_pred             hcCCccCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            3457889999999999999999999987554

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)).

>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork

Probab=83.23  E-value=1.2  Score=34.70  Aligned_cols=28  Identities=32%  Similarity=0.528  Sum_probs=23.9

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      ||.|++--+|-|..+.|||++|+..+.|
T Consensus        15 G~~~g~L~vi~a~pg~GKT~~~l~ia~~   42 (259)
T PF03796_consen   15 GLRPGELTVIAARPGVGKTAFALQIALN   42 (259)
T ss_dssp             SB-TT-EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCcCcEEEEEecccCCchHHHHHHHHH
Confidence            6889999999999999999999998876

Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=83.22  E-value=0.69  Score=35.53  Aligned_cols=23  Identities=35%  Similarity=0.452  Sum_probs=20.1

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-+|+|.+|.|||+|+
T Consensus        24 ~~i~~Ge~~~i~G~nGsGKSTLl   46 (250)
T PRK11264         24 LEVKPGEVVAIIGPSGSGKTTLL   46 (250)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHH
Confidence            44568999999999999999986

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=83.21  E-value=0.64  Score=35.15  Aligned_cols=24  Identities=33%  Similarity=0.422  Sum_probs=20.5

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|++-+|+|.+|.|||+|.
T Consensus        31 s~~i~~Ge~~~i~G~nGsGKSTLl   54 (214)
T PRK13543         31 DFHVDAGEALLVQGDNGAGKTTLL   54 (214)
T ss_pred             eEEECCCCEEEEEcCCCCCHHHHH
Confidence            344668999999999999999985

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=83.18  E-value=0.63  Score=34.81  Aligned_cols=24  Identities=17%  Similarity=0.228  Sum_probs=20.4

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        20 s~~i~~Ge~~~l~G~nGsGKSTLl   43 (213)
T cd03301          20 NLDIADGEFVVLLGPSGCGKTTTL   43 (213)
T ss_pred             EEEEcCCcEEEEECCCCCCHHHHH
Confidence            344568999999999999999986

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>PRK08116 hypothetical protein; Validated

Probab=83.18  E-value=0.81  Score=36.49  Aligned_cols=20  Identities=50%  Similarity=0.518  Sum_probs=16.7

Q ss_pred             eeEeccCCCCchhhhHHHHHh
Q psy10055        101 ELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus       101 ~li~g~~~~g~t~~~~~~~~~  121 (124)
                      -+|.|+.|+|||+||. +|.|
T Consensus       117 l~l~G~~GtGKThLa~-aia~  136 (268)
T PRK08116        117 LLLWGSVGTGKTYLAA-CIAN  136 (268)
T ss_pred             EEEECCCCCCHHHHHH-HHHH
Confidence            6799999999999987 4444

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=83.11  E-value=1.2  Score=35.76  Aligned_cols=30  Identities=23%  Similarity=0.492  Sum_probs=25.7

Q ss_pred             CCCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      +-++..++-.+|+|..++|||++++....|
T Consensus        89 ~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~  118 (310)
T TIGR02236        89 GGGIETQAITEVFGEFGSGKTQICHQLAVN  118 (310)
T ss_pred             cCCCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            345666888899999999999999998877

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>PRK09354 recA recombinase A; Provisional

Probab=83.06  E-value=1  Score=37.73  Aligned_cols=29  Identities=31%  Similarity=0.437  Sum_probs=25.6

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      -|+..+.-.+|+|..++|||+||+..+.+
T Consensus        55 GGip~G~IteI~G~~GsGKTtLal~~~~~   83 (349)
T PRK09354         55 GGLPRGRIVEIYGPESSGKTTLALHAIAE   83 (349)
T ss_pred             CCCcCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            46766888889999999999999999887

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=82.98  E-value=0.73  Score=34.40  Aligned_cols=24  Identities=25%  Similarity=0.344  Sum_probs=20.1

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        20 s~~i~~G~~~~l~G~nGsGKSTLl   43 (213)
T cd03262          20 DLTVKKGEVVVIIGPSGSGKSTLL   43 (213)
T ss_pred             eEEECCCCEEEEECCCCCCHHHHH
Confidence            344568999999999999999874

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=82.96  E-value=0.69  Score=35.65  Aligned_cols=24  Identities=25%  Similarity=0.371  Sum_probs=20.5

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        23 sl~i~~Ge~~~i~G~nGsGKSTLl   46 (253)
T TIGR02323        23 SFDLYPGEVLGIVGESGSGKSTLL   46 (253)
T ss_pred             eEEEeCCcEEEEECCCCCCHHHHH
Confidence            344568999999999999999975

Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=82.95  E-value=0.82  Score=34.24  Aligned_cols=24  Identities=21%  Similarity=0.371  Sum_probs=20.7

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|++-.|+|.+|.|||+|.
T Consensus        20 s~~i~~Ge~~~i~G~nGsGKStLl   43 (200)
T cd03217          20 NLTIKKGEVHALMGPNGSGKSTLA   43 (200)
T ss_pred             ceEECCCcEEEEECCCCCCHHHHH
Confidence            455678999999999999999864

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=82.88  E-value=0.65  Score=34.51  Aligned_cols=24  Identities=25%  Similarity=0.389  Sum_probs=20.0

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|.
T Consensus        18 s~~i~~Ge~~~i~G~nGsGKSTLl   41 (206)
T TIGR03608        18 NLTIEKGKMYAIIGESGSGKSTLL   41 (206)
T ss_pred             EEEEeCCcEEEEECCCCCCHHHHH
Confidence            334568999999999999999975

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=82.88  E-value=0.74  Score=36.00  Aligned_cols=24  Identities=21%  Similarity=0.288  Sum_probs=20.7

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+
T Consensus        31 s~~i~~Ge~~~i~G~nGsGKSTLl   54 (265)
T PRK10575         31 SLTFPAGKVTGLIGHNGSGKSTLL   54 (265)
T ss_pred             eeEEcCCCEEEEECCCCCCHHHHH
Confidence            345668999999999999999985

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=82.81  E-value=0.71  Score=34.57  Aligned_cols=21  Identities=19%  Similarity=0.246  Sum_probs=17.2

Q ss_pred             CCceeEeccCCCCchhhhHHH
Q psy10055         98 PSRELIIGDRQTGKTALAIDT  118 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~~~  118 (124)
                      +.--+++|..|+|||++|.-.
T Consensus        38 ~~~lll~G~~G~GKT~la~~~   58 (226)
T TIGR03420        38 DRFLYLWGESGSGKSHLLQAA   58 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHH
Confidence            445778999999999999653

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=82.76  E-value=0.69  Score=34.61  Aligned_cols=25  Identities=20%  Similarity=0.232  Sum_probs=21.5

Q ss_pred             cCCCcCCCCceeEeccCCCCchhhh
Q psy10055         91 DGAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        91 ~~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      .++.+.+|++-.|+|.+|.|||++.
T Consensus        17 is~~i~~Ge~~~l~G~nGsGKSTLl   41 (211)
T cd03298          17 FDLTFAQGEITAIVGPSGSGKSTLL   41 (211)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHH
Confidence            3455678999999999999999986

Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=82.71  E-value=1  Score=38.87  Aligned_cols=28  Identities=21%  Similarity=0.203  Sum_probs=23.2

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHHHhc
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTIINQ  122 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~~~q  122 (124)
                      .+..|||..|+|.+++|||++. ..|.++
T Consensus       151 ~i~~GqrigI~G~sG~GKSTLL-~~I~~~  178 (433)
T PRK07594        151 TCGEGQRVGIFSAPGVGKSTLL-AMLCNA  178 (433)
T ss_pred             ecCCCCEEEEECCCCCCccHHH-HHhcCC
Confidence            3456999999999999999996 666654

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=82.69  E-value=0.67  Score=35.11  Aligned_cols=24  Identities=21%  Similarity=0.300  Sum_probs=20.6

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+
T Consensus        30 s~~i~~Ge~~~i~G~nGsGKSTLl   53 (228)
T PRK10584         30 ELVVKRGETIALIGESGSGKSTLL   53 (228)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH
Confidence            345678999999999999999985

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=82.69  E-value=0.78  Score=34.53  Aligned_cols=24  Identities=21%  Similarity=0.361  Sum_probs=20.4

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        25 s~~i~~Ge~~~i~G~nGsGKSTLl   48 (228)
T cd03257          25 SFSIKKGETLGLVGESGSGKSTLA   48 (228)
T ss_pred             eeEEcCCCEEEEECCCCCCHHHHH
Confidence            345568999999999999999874

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=82.66  E-value=0.64  Score=34.56  Aligned_cols=25  Identities=24%  Similarity=0.280  Sum_probs=21.4

Q ss_pred             cCCCcCCCCceeEeccCCCCchhhh
Q psy10055         91 DGAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        91 ~~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      .++.+.+|++-.|+|.+|.|||+|+
T Consensus        19 vs~~i~~Ge~~~l~G~nGsGKSTLl   43 (195)
T PRK13541         19 LSITFLPSAITYIKGANGCGKSSLL   43 (195)
T ss_pred             EEEEEcCCcEEEEECCCCCCHHHHH
Confidence            3455678999999999999999985

>PRK14272 phosphate ABC transporter ATP-binding protein; Provisional

Probab=82.66  E-value=0.74  Score=35.39  Aligned_cols=24  Identities=21%  Similarity=0.324  Sum_probs=20.4

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||++.
T Consensus        24 s~~i~~Ge~~~i~G~nGsGKSTLl   47 (252)
T PRK14272         24 NLDVQRGTVNALIGPSGCGKTTFL   47 (252)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH
Confidence            344668999999999999999975

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=82.61  E-value=0.74  Score=34.38  Aligned_cols=24  Identities=21%  Similarity=0.202  Sum_probs=20.5

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|++-+|.|.+|.|||++.
T Consensus        21 s~~i~~Ge~~~l~G~nGsGKSTLl   44 (200)
T PRK13540         21 SFHLPAGGLLHLKGSNGAGKTTLL   44 (200)
T ss_pred             eEEECCCCEEEEECCCCCCHHHHH
Confidence            444568999999999999999985

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=82.60  E-value=0.66  Score=35.02  Aligned_cols=24  Identities=17%  Similarity=0.286  Sum_probs=20.4

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|.
T Consensus        24 s~~i~~G~~~~i~G~nGsGKSTLl   47 (220)
T cd03293          24 SLSVEEGEFVALVGPSGCGKSTLL   47 (220)
T ss_pred             eEEEeCCcEEEEECCCCCCHHHHH
Confidence            344568999999999999999986

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=82.53  E-value=1.1  Score=37.19  Aligned_cols=29  Identities=31%  Similarity=0.397  Sum_probs=25.3

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      -|+..+.-..|+|..++|||+||+..+.+
T Consensus        50 GGlp~G~iteI~Gp~GsGKTtLal~~~~~   78 (325)
T cd00983          50 GGYPKGRIIEIYGPESSGKTTLALHAIAE   78 (325)
T ss_pred             CCccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            46766778889999999999999999877

RecA couples ATP hydrolysis to DNA strand exchange.

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=82.46  E-value=0.77  Score=34.25  Aligned_cols=24  Identities=21%  Similarity=0.261  Sum_probs=20.7

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|++-.|+|.+|.|||+|+
T Consensus        25 s~~i~~G~~~~i~G~nG~GKSTLl   48 (204)
T cd03250          25 NLEVPKGELVAIVGPVGSGKSSLL   48 (204)
T ss_pred             eEEECCCCEEEEECCCCCCHHHHH
Confidence            345678999999999999999985

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=82.38  E-value=1.3  Score=33.47  Aligned_cols=29  Identities=24%  Similarity=0.452  Sum_probs=25.1

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      -++.+++--+|.|+.++|||.+|+..+.+
T Consensus        11 gGi~~g~~~li~G~~G~GKt~~~~~~~~~   39 (224)
T TIGR03880        11 GGFPEGHVIVVIGEYGTGKTTFSLQFLYQ   39 (224)
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            36777889999999999999999988765

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>PRK10908 cell division protein FtsE; Provisional

Probab=82.34  E-value=0.77  Score=34.69  Aligned_cols=24  Identities=25%  Similarity=0.404  Sum_probs=20.5

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        22 sl~i~~Ge~~~i~G~nGsGKSTLl   45 (222)
T PRK10908         22 TFHMRPGEMAFLTGHSGAGKSTLL   45 (222)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH
Confidence            344668999999999999999985

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=82.33  E-value=0.72  Score=33.57  Aligned_cols=24  Identities=17%  Similarity=0.360  Sum_probs=21.0

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        20 ~~~i~~Ge~~~l~G~nGsGKSTLl   43 (163)
T cd03216          20 SLSVRRGEVHALLGENGAGKSTLM   43 (163)
T ss_pred             EEEEeCCCEEEEECCCCCCHHHHH
Confidence            455678999999999999999985

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=82.33  E-value=0.7  Score=33.02  Aligned_cols=24  Identities=17%  Similarity=0.308  Sum_probs=19.9

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+++.-+|+|.+|.|||++.
T Consensus        19 ~~~i~~g~~~~i~G~nGsGKStll   42 (157)
T cd00267          19 SLTLKAGEIVALVGPNGSGKSTLL   42 (157)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH
Confidence            334668899999999999999864

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=82.29  E-value=0.77  Score=34.15  Aligned_cols=24  Identities=21%  Similarity=0.261  Sum_probs=20.8

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||++.
T Consensus        20 sl~i~~Ge~~~i~G~nGsGKSTLl   43 (198)
T TIGR01189        20 SFTLNAGEALQVTGPNGIGKTTLL   43 (198)
T ss_pred             eEEEcCCcEEEEECCCCCCHHHHH
Confidence            445678999999999999999986

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=82.23  E-value=0.74  Score=34.60  Aligned_cols=24  Identities=17%  Similarity=0.122  Sum_probs=20.2

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        22 s~~i~~Ge~~~i~G~nGsGKSTLl   45 (220)
T cd03263          22 SLNVYKGEIFGLLGHNGAGKTTTL   45 (220)
T ss_pred             EEEEcCCcEEEEECCCCCCHHHHH
Confidence            344568999999999999999875

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=82.22  E-value=1.3  Score=35.83  Aligned_cols=30  Identities=27%  Similarity=0.462  Sum_probs=26.2

Q ss_pred             CCCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      +-++..++-.+|+|..++|||.+|+..+.+
T Consensus        96 ~GGi~~g~vtei~G~~GsGKT~l~~~~~~~  125 (317)
T PRK04301         96 GGGIETQSITEFYGEFGSGKTQICHQLAVN  125 (317)
T ss_pred             cCCccCCcEEEEECCCCCCHhHHHHHHHHH
Confidence            346777889999999999999999999877

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=82.11  E-value=0.81  Score=33.40  Aligned_cols=24  Identities=38%  Similarity=0.520  Sum_probs=20.6

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.++++-+|+|.++.|||+++
T Consensus        21 ~l~i~~Ge~~~i~G~nGsGKSTLl   44 (166)
T cd03223          21 SFEIKPGDRLLITGPSGTGKSSLF   44 (166)
T ss_pred             eEEECCCCEEEEECCCCCCHHHHH
Confidence            344678999999999999999985

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=82.11  E-value=0.84  Score=35.28  Aligned_cols=24  Identities=21%  Similarity=0.248  Sum_probs=20.6

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|.
T Consensus        27 s~~i~~Ge~~~i~G~nGsGKSTLl   50 (254)
T PRK14273         27 NIKILKNSITALIGPSGCGKSTFL   50 (254)
T ss_pred             eeEEcCCCEEEEECCCCCCHHHHH
Confidence            344668999999999999999975

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=82.10  E-value=1.2  Score=34.59  Aligned_cols=28  Identities=14%  Similarity=0.274  Sum_probs=25.1

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      ++.++.--+|.|..++|||++++....+
T Consensus        26 G~~~g~~~~i~g~~G~GKT~l~~~~~~~   53 (271)
T cd01122          26 GLRKGELIILTAGTGVGKTTFLREYALD   53 (271)
T ss_pred             EEcCCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            6888999999999999999999987665

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=82.08  E-value=0.75  Score=33.89  Aligned_cols=23  Identities=26%  Similarity=0.128  Sum_probs=19.8

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-+|+|.+|.|||+|.
T Consensus        21 ~~i~~G~~~~i~G~nGsGKSTLl   43 (182)
T cd03215          21 FEVRAGEIVGIAGLVGNGQTELA   43 (182)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHH
Confidence            44567999999999999999975

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=82.04  E-value=0.72  Score=33.81  Aligned_cols=24  Identities=17%  Similarity=0.360  Sum_probs=20.5

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.++.|||+++
T Consensus        22 ~~~i~~Ge~~~i~G~nGsGKStLl   45 (178)
T cd03247          22 SLELKQGEKIALLGRSGSGKSTLL   45 (178)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH
Confidence            445668999999999999999875

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>TIGR00767 rho transcription termination factor Rho

Probab=81.96  E-value=1.1  Score=38.51  Aligned_cols=24  Identities=33%  Similarity=0.441  Sum_probs=20.4

Q ss_pred             CCCceeEeccCCCCchhhhHHHHHh
Q psy10055         97 PPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        97 p~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      .|||.+|+|+.++|||+|+-. |.+
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~-i~~  190 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQK-IAQ  190 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHH-HHH
Confidence            499999999999999998765 444

Members of this family differ in the specificity of RNA binding.

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=81.94  E-value=0.81  Score=35.30  Aligned_cols=24  Identities=17%  Similarity=0.346  Sum_probs=20.6

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|.
T Consensus        20 s~~i~~Ge~~~i~G~nGsGKSTLl   43 (252)
T TIGR03005        20 NFSVAAGEKVALIGPSGSGKSTIL   43 (252)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH
Confidence            344678999999999999999975

Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins.

>CHL00131 ycf16 sulfate ABC transporter protein; Validated

Probab=81.94  E-value=0.84  Score=35.10  Aligned_cols=24  Identities=21%  Similarity=0.408  Sum_probs=20.8

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|+
T Consensus        27 s~~i~~Ge~~~i~G~nGsGKSTLl   50 (252)
T CHL00131         27 NLSINKGEIHAIMGPNGSGKSTLS   50 (252)
T ss_pred             eeEEcCCcEEEEECCCCCCHHHHH
Confidence            344678999999999999999987

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=81.93  E-value=0.75  Score=35.05  Aligned_cols=24  Identities=25%  Similarity=0.408  Sum_probs=20.3

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+
T Consensus        22 sl~i~~Ge~~~i~G~nGsGKSTLl   45 (237)
T cd03252          22 SLRIKPGEVVGIVGRSGSGKSTLT   45 (237)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH
Confidence            344568999999999999999985

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=81.88  E-value=0.78  Score=34.46  Aligned_cols=24  Identities=21%  Similarity=0.267  Sum_probs=20.9

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        20 s~~i~~Ge~~~i~G~nGsGKSTLl   43 (222)
T cd03224          20 SLTVPEGEIVALLGRNGAGKTTLL   43 (222)
T ss_pred             eEEEcCCeEEEEECCCCCCHHHHH
Confidence            445678999999999999999986

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=81.74  E-value=0.79  Score=34.79  Aligned_cols=23  Identities=17%  Similarity=0.355  Sum_probs=20.1

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-.|+|.+|.|||+++
T Consensus        23 ~~i~~Ge~~~i~G~nGsGKSTLl   45 (234)
T cd03251          23 LDIPAGETVALVGPSGSGKSTLV   45 (234)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHH
Confidence            34568999999999999999986

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=81.74  E-value=0.84  Score=34.67  Aligned_cols=24  Identities=29%  Similarity=0.373  Sum_probs=20.4

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        20 sl~i~~Ge~~~l~G~nGsGKSTLl   43 (236)
T cd03219          20 SFSVRPGEIHGLIGPNGAGKTTLF   43 (236)
T ss_pred             eEEecCCcEEEEECCCCCCHHHHH
Confidence            344568999999999999999985

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=81.72  E-value=0.8  Score=35.13  Aligned_cols=24  Identities=21%  Similarity=0.256  Sum_probs=20.4

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|.
T Consensus        21 s~~i~~Ge~~~i~G~nGsGKSTLl   44 (242)
T cd03295          21 NLEIAKGEFLVLIGPSGSGKTTTM   44 (242)
T ss_pred             EEEECCCCEEEEECCCCCCHHHHH
Confidence            344668999999999999999975

ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=81.70  E-value=0.82  Score=35.18  Aligned_cols=24  Identities=21%  Similarity=0.317  Sum_probs=20.5

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|+
T Consensus        23 sl~i~~Ge~~~i~G~nGsGKSTLl   46 (241)
T PRK14250         23 SVKFEGGAIYTIVGPSGAGKSTLI   46 (241)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH
Confidence            344568999999999999999986

>PRK14251 phosphate ABC transporter ATP-binding protein; Provisional

Probab=81.69  E-value=0.81  Score=35.22  Aligned_cols=24  Identities=17%  Similarity=0.320  Sum_probs=20.5

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+
T Consensus        24 sl~i~~Ge~~~i~G~nGsGKSTLl   47 (251)
T PRK14251         24 SLDFEEKELTALIGPSGCGKSTFL   47 (251)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH
Confidence            445668999999999999999875

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=81.67  E-value=1.1  Score=36.90  Aligned_cols=23  Identities=48%  Similarity=0.756  Sum_probs=19.6

Q ss_pred             CcCCCCceeEeccCCCCchhhhH
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~  116 (124)
                      ++.++..-+|+|..|+|||++|-
T Consensus       152 g~~~p~gvLL~GppGtGKT~lak  174 (364)
T TIGR01242       152 GIEPPKGVLLYGPPGTGKTLLAK  174 (364)
T ss_pred             CCCCCceEEEECCCCCCHHHHHH
Confidence            45667789999999999999884

Many proteins may score above the trusted cutoff because an internal

>PRK09984 phosphonate/organophosphate ester transporter subunit; Provisional

Probab=81.66  E-value=0.81  Score=35.58  Aligned_cols=24  Identities=17%  Similarity=0.299  Sum_probs=20.5

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        24 s~~i~~Ge~~~i~G~nGsGKSTLl   47 (262)
T PRK09984         24 DLNIHHGEMVALLGPSGSGKSTLL   47 (262)
T ss_pred             eEEEcCCcEEEEECCCCCCHHHHH
Confidence            344568999999999999999985

>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional

Probab=81.64  E-value=0.79  Score=35.56  Aligned_cols=23  Identities=13%  Similarity=0.218  Sum_probs=20.0

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-+|+|.+|.|||+|+
T Consensus        24 l~i~~Ge~~~l~G~nGsGKSTLl   46 (254)
T PRK10418         24 LTLQRGRVLALVGGSGSGKSLTC   46 (254)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHH
Confidence            44568999999999999999985

>PRK14243 phosphate transporter ATP-binding protein; Provisional

Probab=81.61  E-value=0.88  Score=35.62  Aligned_cols=24  Identities=17%  Similarity=0.202  Sum_probs=20.9

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+
T Consensus        30 sl~i~~Ge~~~i~G~nGsGKSTLl   53 (264)
T PRK14243         30 WLDIPKNQITAFIGPSGCGKSTIL   53 (264)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH
Confidence            455678999999999999999986

>KOG0989|consensus

Probab=81.56  E-value=0.83  Score=38.32  Aligned_cols=19  Identities=37%  Similarity=0.424  Sum_probs=15.9

Q ss_pred             CCceeEeccCCCCchhhhH
Q psy10055         98 PSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~  116 (124)
                      ..--||+|.+||||||.|+
T Consensus        57 lp~~LFyGPpGTGKTStal   75 (346)
T KOG0989|consen   57 LPHYLFYGPPGTGKTSTAL   75 (346)
T ss_pred             CceEEeeCCCCCcHhHHHH
Confidence            3446799999999999886

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=81.39  E-value=0.99  Score=34.37  Aligned_cols=24  Identities=21%  Similarity=0.351  Sum_probs=20.5

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        20 sl~i~~Ge~~~i~G~nGsGKSTLl   43 (243)
T TIGR01978        20 NLTVKKGEIHAIMGPNGSGKSTLS   43 (243)
T ss_pred             ceEEcCCCEEEEECCCCCCHHHHH
Confidence            345668999999999999999975

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=81.37  E-value=0.86  Score=35.61  Aligned_cols=24  Identities=21%  Similarity=0.351  Sum_probs=20.4

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+
T Consensus        21 s~~i~~Ge~~~i~G~nGsGKSTLl   44 (255)
T PRK11248         21 NLTLESGELLVVLGPSGCGKTTLL   44 (255)
T ss_pred             eEEECCCCEEEEECCCCCCHHHHH
Confidence            344668999999999999999975

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=81.35  E-value=0.81  Score=34.90  Aligned_cols=24  Identities=21%  Similarity=0.328  Sum_probs=20.4

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|+
T Consensus        29 sl~i~~Ge~~~l~G~nGsGKSTLl   52 (233)
T PRK11629         29 SFSIGEGEMMAIVGSSGSGKSTLL   52 (233)
T ss_pred             EEEEcCCcEEEEECCCCCCHHHHH
Confidence            344668999999999999999985

>TIGR03873 F420-0_ABC_ATP proposed F420-0 ABC transporter, ATP-binding protein

Probab=81.31  E-value=0.85  Score=35.34  Aligned_cols=23  Identities=26%  Similarity=0.380  Sum_probs=20.1

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-.|+|.+|.|||+|+
T Consensus        22 ~~i~~Ge~~~i~G~nGsGKSTLl   44 (256)
T TIGR03873        22 VTAPPGSLTGLLGPNGSGKSTLL   44 (256)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHH
Confidence            44568999999999999999985

This small clade of ABC-type transporter ATP-binding protein components is found as a three gene cassette along with a periplasmic substrate-binding protein (TIGR03868) and a permease (TIGR03869). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with a F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this ATP-binding protein is a component of an F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=81.24  E-value=1.2  Score=34.32  Aligned_cols=24  Identities=29%  Similarity=0.212  Sum_probs=20.3

Q ss_pred             CCCceeEeccCCCCchhhhHHHHH
Q psy10055         97 PPSRELIIGDRQTGKTALAIDTII  120 (124)
Q Consensus        97 p~~r~li~g~~~~g~t~~~~~~~~  120 (124)
                      +.....|.|..|+|||+||....-
T Consensus        18 ~~~~v~I~G~~G~GKT~LA~~~~~   41 (287)
T PF00931_consen   18 EVRVVAIVGMGGIGKTTLARQVAR   41 (287)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHC
T ss_pred             CeEEEEEEcCCcCCcceeeeeccc
Confidence            466778999999999999988663

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>PRK14239 phosphate transporter ATP-binding protein; Provisional

Probab=81.15  E-value=0.87  Score=35.02  Aligned_cols=23  Identities=26%  Similarity=0.416  Sum_probs=19.9

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-+|+|.+|.|||+|.
T Consensus        26 ~~i~~Ge~~~i~G~nGsGKSTLl   48 (252)
T PRK14239         26 LDFYPNEITALIGPSGSGKSTLL   48 (252)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHH
Confidence            44568999999999999999985

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=81.01  E-value=0.83  Score=34.82  Aligned_cols=25  Identities=24%  Similarity=0.318  Sum_probs=21.5

Q ss_pred             cCCCcCCCCceeEeccCCCCchhhh
Q psy10055         91 DGAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        91 ~~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      -++.+.+|+.-+|+|.+|.|||+|.
T Consensus        18 is~~i~~Ge~~~l~G~nGsGKSTLl   42 (232)
T PRK10771         18 FDLTVERGERVAILGPSGAGKSTLL   42 (232)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHH
Confidence            3555678999999999999999985

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=81.00  E-value=0.9  Score=34.01  Aligned_cols=24  Identities=25%  Similarity=0.259  Sum_probs=20.4

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        21 s~~i~~Ge~~~l~G~nGsGKSTLl   44 (204)
T PRK13538         21 SFTLNAGELVQIEGPNGAGKTSLL   44 (204)
T ss_pred             eEEECCCcEEEEECCCCCCHHHHH
Confidence            344568999999999999999985

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=80.93  E-value=0.85  Score=34.81  Aligned_cols=23  Identities=26%  Similarity=0.343  Sum_probs=20.1

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-+|+|.+|.|||++.
T Consensus        26 ~~i~~Ge~~~i~G~nGsGKSTLl   48 (237)
T PRK11614         26 LHINQGEIVTLIGANGAGKTTLL   48 (237)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHH
Confidence            44668999999999999999875

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

Probab=80.93  E-value=1.2  Score=38.64  Aligned_cols=33  Identities=33%  Similarity=0.450  Sum_probs=28.8

Q ss_pred             eEeccCCCcCCCCceeEeccCCCCchhhhHHHH
Q psy10055         87 IECEDGAGMDPPSRELIIGDRQTGKTALAIDTI  119 (124)
Q Consensus        87 ~~C~~~~~mvp~~r~li~g~~~~g~t~~~~~~~  119 (124)
                      +.=+.+-+++||+-.||-||-|+|||+|.+.+.
T Consensus        82 ldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva  114 (456)
T COG1066          82 LDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVA  114 (456)
T ss_pred             HHhhhcCCcccccEEEEccCCCCCHHHHHHHHH
Confidence            445667889999999999999999999998865

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=80.93  E-value=0.93  Score=34.23  Aligned_cols=24  Identities=17%  Similarity=0.231  Sum_probs=20.7

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|.
T Consensus        28 s~~i~~Ge~~~l~G~nGsGKSTLl   51 (224)
T TIGR02324        28 SLTVNAGECVALSGPSGAGKSTLL   51 (224)
T ss_pred             eEEECCCCEEEEECCCCCCHHHHH
Confidence            445678999999999999999985

Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=80.88  E-value=0.82  Score=35.49  Aligned_cols=24  Identities=21%  Similarity=0.275  Sum_probs=20.5

Q ss_pred             CCcCCCCceeEeccCCCCchhhhH
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~  116 (124)
                      +.+.+|+.-.|+|.+|.|||+|+-
T Consensus        33 ~~i~~Ge~~~l~G~nGsGKSTLl~   56 (259)
T PRK14274         33 LSIPENEVTAIIGPSGCGKSTFIK   56 (259)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHH
Confidence            445689999999999999999863

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=80.87  E-value=0.88  Score=34.96  Aligned_cols=24  Identities=21%  Similarity=0.178  Sum_probs=20.5

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+
T Consensus        41 s~~i~~Ge~~~i~G~NGsGKSTLl   64 (236)
T cd03267          41 SFTIEKGEIVGFIGPNGAGKTTTL   64 (236)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH
Confidence            344568999999999999999985

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=80.82  E-value=0.86  Score=35.11  Aligned_cols=23  Identities=17%  Similarity=0.317  Sum_probs=19.9

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-.|+|.+|.|||+|.
T Consensus        27 ~~i~~Ge~~~i~G~nGsGKSTLl   49 (253)
T PRK14242         27 LEFEQNQVTALIGPSGCGKSTFL   49 (253)
T ss_pred             EEEeCCCEEEEECCCCCCHHHHH
Confidence            44568999999999999999985

>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D

Probab=80.80  E-value=0.97  Score=34.51  Aligned_cols=23  Identities=22%  Similarity=0.250  Sum_probs=20.0

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-.|+|.+|.|||+|.
T Consensus        21 ~~i~~Ge~~~i~G~nGsGKSTLl   43 (232)
T cd03300          21 LDIKEGEFFTLLGPSGCGKTTLL   43 (232)
T ss_pred             EEECCCCEEEEECCCCCCHHHHH
Confidence            44678999999999999999874

PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14253 phosphate ABC transporter ATP-binding protein; Provisional

Probab=80.80  E-value=0.93  Score=34.84  Aligned_cols=23  Identities=22%  Similarity=0.306  Sum_probs=19.9

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-.|+|.+|.|||+|+
T Consensus        24 ~~i~~Ge~~~i~G~nGsGKSTLl   46 (249)
T PRK14253         24 LPIPARQVTALIGPSGCGKSTLL   46 (249)
T ss_pred             EEecCCCEEEEECCCCCCHHHHH
Confidence            34568999999999999999985

>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional

Probab=80.74  E-value=0.88  Score=35.56  Aligned_cols=24  Identities=17%  Similarity=0.346  Sum_probs=20.3

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|.
T Consensus        41 sl~i~~Ge~~~i~G~nGsGKSTLl   64 (268)
T PRK14248         41 SMDIEKHAVTALIGPSGCGKSTFL   64 (268)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH
Confidence            344568999999999999999974

>COG1157 FliI Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=80.66  E-value=1.4  Score=38.23  Aligned_cols=44  Identities=18%  Similarity=0.039  Sum_probs=33.7

Q ss_pred             ccceeecccccccee--eEeccCCCcCC-CCceeEeccCCCCchhhh
Q psy10055         72 AISMRVRGSRKKLRL--IECEDGAGMDP-PSRELIIGDRQTGKTALA  115 (124)
Q Consensus        72 ~~~~~~r~~~~~~~~--~~C~~~~~mvp-~~r~li~g~~~~g~t~~~  115 (124)
                      .|.+..|.....++.  ++-++++-..+ |||..||...|.|||+|-
T Consensus       134 pp~pm~R~~I~~~l~tGVRaIDgllT~G~GQRiGIFAgsGVGKStLL  180 (441)
T COG1157         134 PPNPLKRRPIEEPLDTGVRAIDGLLTCGKGQRIGIFAGSGVGKSTLL  180 (441)
T ss_pred             CCCchhcccccccccccceeeecccccccCceeEEEecCCCcHHHHH
Confidence            455566666655544  88888865555 999999999999999874

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=80.66  E-value=0.87  Score=33.98  Aligned_cols=24  Identities=17%  Similarity=0.126  Sum_probs=20.3

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        20 ~~~i~~G~~~~i~G~nGsGKSTLl   43 (208)
T cd03268          20 SLHVKKGEIYGFLGPNGAGKTTTM   43 (208)
T ss_pred             EEEEcCCcEEEEECCCCCCHHHHH
Confidence            344668999999999999999985

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=80.65  E-value=0.87  Score=34.22  Aligned_cols=23  Identities=26%  Similarity=0.377  Sum_probs=19.9

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-+|+|.+|.|||++.
T Consensus        25 ~~i~~G~~~~i~G~nGsGKSTLl   47 (220)
T cd03245          25 LTIRAGEKVAIIGRVGSGKSTLL   47 (220)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHH
Confidence            34568999999999999999985

Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.

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

Probab=80.59  E-value=1.5  Score=33.47  Aligned_cols=31  Identities=32%  Similarity=0.831  Sum_probs=22.6

Q ss_pred             ccCCCCC-CCCCCCCCeeeeCCCCceEEecCCCee
Q psy10055         25 VLDPCEE-HDPCKHGGICISTDSGPICECRNLDFE   58 (124)
Q Consensus        25 ~~d~C~~-~nPC~ngG~C~~~~~~y~C~C~~tg~~   58 (124)
                      +.++|.. +.+|.  ..|.++.+.|.|.|++ ||+
T Consensus       186 ~~~~C~~~~~~c~--~~C~~~~g~~~c~c~~-g~~  217 (224)
T cd01475         186 VPDLCATLSHVCQ--QVCISTPGSYLCACTE-GYA  217 (224)
T ss_pred             CchhhcCCCCCcc--ceEEcCCCCEEeECCC-Ccc
Confidence            4466721 22455  4799999999999999 986

Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.

>PRK10419 nikE nickel transporter ATP-binding protein NikE; Provisional

Probab=80.58  E-value=0.94  Score=35.58  Aligned_cols=24  Identities=21%  Similarity=0.378  Sum_probs=20.8

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+
T Consensus        32 s~~i~~Ge~~~i~G~nGsGKSTLl   55 (268)
T PRK10419         32 SLSLKSGETVALLGRSGCGKSTLA   55 (268)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH
Confidence            345678999999999999999986

>PRK14235 phosphate transporter ATP-binding protein; Provisional

Probab=80.58  E-value=0.9  Score=35.62  Aligned_cols=24  Identities=17%  Similarity=0.277  Sum_probs=20.6

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|.
T Consensus        39 sl~i~~Ge~~~i~G~nGsGKSTLl   62 (267)
T PRK14235         39 DLDIPEKTVTAFIGPSGCGKSTFL   62 (267)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH
Confidence            344668999999999999999985

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=80.56  E-value=0.94  Score=34.26  Aligned_cols=23  Identities=30%  Similarity=0.472  Sum_probs=19.7

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-+|+|.+|.|||+|.
T Consensus        24 l~i~~G~~~~i~G~nGsGKSTLl   46 (229)
T cd03254          24 FSIKPGETVAIVGPTGAGKTTLI   46 (229)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHH
Confidence            34568999999999999999985

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14270 phosphate ABC transporter ATP-binding protein; Provisional

Probab=80.53  E-value=0.95  Score=34.90  Aligned_cols=24  Identities=17%  Similarity=0.224  Sum_probs=20.4

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+
T Consensus        24 sl~i~~Ge~~~i~G~nGsGKSTLl   47 (251)
T PRK14270         24 NLPIYENKITALIGPSGCGKSTFL   47 (251)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH
Confidence            344568999999999999999985

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=80.52  E-value=1.3  Score=38.12  Aligned_cols=28  Identities=18%  Similarity=0.073  Sum_probs=22.2

Q ss_pred             cCCCCceeEeccCCCCchhhhHHHHHhc
Q psy10055         95 MDPPSRELIIGDRQTGKTALAIDTIINQ  122 (124)
Q Consensus        95 mvp~~r~li~g~~~~g~t~~~~~~~~~q  122 (124)
                      +..|||.+|+|+++.|||+|+...+.++
T Consensus       153 I~~Gqri~I~G~sG~GKTtLl~~Ia~~~  180 (432)
T PRK06793        153 IGIGQKIGIFAGSGVGKSTLLGMIAKNA  180 (432)
T ss_pred             ecCCcEEEEECCCCCChHHHHHHHhccC
Confidence            3459999999999999999965544444

>PRK14266 phosphate ABC transporter ATP-binding protein; Provisional

Probab=80.50  E-value=0.88  Score=35.00  Aligned_cols=24  Identities=21%  Similarity=0.315  Sum_probs=20.3

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+
T Consensus        23 s~~i~~Ge~~~i~G~nGsGKSTLl   46 (250)
T PRK14266         23 NLDIPKNSVTALIGPSGCGKSTFI   46 (250)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH
Confidence            344668999999999999999875

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=80.49  E-value=0.94  Score=33.09  Aligned_cols=24  Identities=33%  Similarity=0.531  Sum_probs=20.4

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        22 ~~~i~~Ge~~~i~G~nGsGKStLl   45 (173)
T cd03246          22 SFSIEPGESLAIIGPSGSGKSTLA   45 (173)
T ss_pred             EEEECCCCEEEEECCCCCCHHHHH
Confidence            344568999999999999999985

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>PRK14238 phosphate transporter ATP-binding protein; Provisional

Probab=80.48  E-value=0.89  Score=35.78  Aligned_cols=24  Identities=21%  Similarity=0.293  Sum_probs=20.7

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|++-+|+|.+|.|||+|+
T Consensus        44 sl~i~~Ge~~~I~G~nGsGKSTLl   67 (271)
T PRK14238         44 NLDIHENEVTAIIGPSGCGKSTYI   67 (271)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH
Confidence            345678999999999999999985

>PRK06921 hypothetical protein; Provisional

Probab=80.48  E-value=1.2  Score=35.59  Aligned_cols=19  Identities=26%  Similarity=0.398  Sum_probs=16.4

Q ss_pred             CCceeEeccCCCCchhhhH
Q psy10055         98 PSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~  116 (124)
                      +.--+|+|..|+|||+||.
T Consensus       117 ~~~l~l~G~~G~GKThLa~  135 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLT  135 (266)
T ss_pred             CCeEEEECCCCCcHHHHHH
Confidence            4457899999999999986

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=80.43  E-value=0.91  Score=34.33  Aligned_cols=23  Identities=22%  Similarity=0.238  Sum_probs=20.0

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-+|+|.+|.|||+|.
T Consensus        21 ~~i~~Ge~~~i~G~nGsGKSTLl   43 (223)
T TIGR03740        21 LTVPKNSVYGLLGPNGAGKSTLL   43 (223)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHH
Confidence            34568999999999999999985

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>PRK05642 DNA replication initiation factor; Validated

Probab=80.42  E-value=1.2  Score=34.54  Aligned_cols=16  Identities=19%  Similarity=0.314  Sum_probs=13.6

Q ss_pred             eeEeccCCCCchhhhH
Q psy10055        101 ELIIGDRQTGKTALAI  116 (124)
Q Consensus       101 ~li~g~~~~g~t~~~~  116 (124)
                      -+|+|..|+|||+|+.
T Consensus        48 l~l~G~~G~GKTHLl~   63 (234)
T PRK05642         48 IYLWGKDGVGRSHLLQ   63 (234)
T ss_pred             EEEECCCCCCHHHHHH
Confidence            4578999999999954

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=80.40  E-value=0.94  Score=34.06  Aligned_cols=23  Identities=26%  Similarity=0.473  Sum_probs=19.9

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-+|+|.+|.|||++.
T Consensus        25 ~~i~~Ge~~~i~G~nGsGKSTLl   47 (221)
T cd03244          25 FSIKPGEKVGIVGRTGSGKSSLL   47 (221)
T ss_pred             EEECCCCEEEEECCCCCCHHHHH
Confidence            44568899999999999999985

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=80.40  E-value=0.9  Score=34.11  Aligned_cols=27  Identities=15%  Similarity=0.171  Sum_probs=22.0

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHH
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTII  120 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~  120 (124)
                      +.+.+|.+-.++|.+|.|||+|.- +|+
T Consensus        16 l~i~~G~~~~l~G~nG~GKSTLl~-~il   42 (176)
T cd03238          16 VSIPLNVLVVVTGVSGSGKSTLVN-EGL   42 (176)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHH-HHh
Confidence            445689999999999999999973 443

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=80.35  E-value=0.95  Score=34.46  Aligned_cols=24  Identities=25%  Similarity=0.338  Sum_probs=20.4

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        27 s~~i~~Ge~~~i~G~nGsGKSTLl   50 (225)
T PRK10247         27 SFSLRAGEFKLITGPSGCGKSTLL   50 (225)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH
Confidence            344568999999999999999985

>PRK10253 iron-enterobactin transporter ATP-binding protein; Provisional

Probab=80.29  E-value=1.1  Score=35.10  Aligned_cols=24  Identities=25%  Similarity=0.285  Sum_probs=20.8

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|++-.|+|.+|.|||+|.
T Consensus        27 sl~i~~Ge~~~i~G~nGsGKSTLl   50 (265)
T PRK10253         27 TVEIPDGHFTAIIGPNGCGKSTLL   50 (265)
T ss_pred             ceEECCCCEEEEECCCCCCHHHHH
Confidence            445678999999999999999985

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=80.29  E-value=0.94  Score=32.40  Aligned_cols=23  Identities=26%  Similarity=0.483  Sum_probs=20.0

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-+|+|.++.|||+++
T Consensus        21 ~~~~~Ge~~~i~G~nGsGKStLl   43 (144)
T cd03221          21 LTINPGDRIGLVGRNGAGKSTLL   43 (144)
T ss_pred             EEECCCCEEEEECCCCCCHHHHH
Confidence            44668999999999999999885

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=80.29  E-value=0.98  Score=34.24  Aligned_cols=19  Identities=16%  Similarity=0.232  Sum_probs=16.4

Q ss_pred             CCceeEeccCCCCchhhhH
Q psy10055         98 PSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~  116 (124)
                      ..--+|+|..|+|||++|.
T Consensus        42 ~~~~~l~G~~G~GKT~La~   60 (227)
T PRK08903         42 DRFFYLWGEAGSGRSHLLQ   60 (227)
T ss_pred             CCeEEEECCCCCCHHHHHH
Confidence            4557899999999999986

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=80.26  E-value=1  Score=34.64  Aligned_cols=24  Identities=21%  Similarity=0.310  Sum_probs=20.6

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-.|+|.+|.|||+|+
T Consensus        21 s~~i~~Ge~~~i~G~nGsGKSTLl   44 (247)
T TIGR00972        21 NLDIPKNQVTALIGPSGCGKSTLL   44 (247)
T ss_pred             eEEECCCCEEEEECCCCCCHHHHH
Confidence            344668999999999999999985

This model represents the ATP-binding protein of a family of ABC transporters for inorganic phosphate. In the model species Escherichia coli, a constitutive transporter for inorganic phosphate, with low affinity, is also present. The high affinity transporter that includes this polypeptide is induced when extracellular phosphate concentrations are low. The proteins most similar to the members of this family but not included appear to be amino acid transporters.

>PRK14265 phosphate ABC transporter ATP-binding protein; Provisional

Probab=80.19  E-value=1  Score=35.52  Aligned_cols=24  Identities=21%  Similarity=0.217  Sum_probs=20.7

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+
T Consensus        40 s~~i~~Ge~~~IiG~nGsGKSTLl   63 (274)
T PRK14265         40 HLKIPAKKIIAFIGPSGCGKSTLL   63 (274)
T ss_pred             eeEEcCCCEEEEECCCCCCHHHHH
Confidence            344678999999999999999986

>PRK14261 phosphate ABC transporter ATP-binding protein; Provisional

Probab=80.19  E-value=0.97  Score=34.90  Aligned_cols=23  Identities=22%  Similarity=0.322  Sum_probs=20.1

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-+|+|.+|.|||+|+
T Consensus        27 ~~i~~Ge~~~i~G~nGsGKSTLl   49 (253)
T PRK14261         27 ISIPKNRVTALIGPSGCGKSTLL   49 (253)
T ss_pred             EEECCCcEEEEECCCCCCHHHHH
Confidence            44678999999999999999985

>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional

Probab=80.18  E-value=0.96  Score=35.27  Aligned_cols=24  Identities=25%  Similarity=0.404  Sum_probs=20.4

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|.
T Consensus        22 s~~i~~Ge~~~i~G~nGsGKSTLl   45 (258)
T PRK13548         22 SLTLRPGEVVAILGPNGAGKSTLL   45 (258)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH
Confidence            345668999999999999999975

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=80.09  E-value=0.95  Score=33.00  Aligned_cols=23  Identities=26%  Similarity=0.501  Sum_probs=19.7

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-.++|.+|.|||++.
T Consensus        23 ~~i~~G~~~~l~G~nGsGKstLl   45 (171)
T cd03228          23 LTIKPGEKVAIVGPSGSGKSTLL   45 (171)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHH
Confidence            34568999999999999999874

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=80.07  E-value=1  Score=34.73  Aligned_cols=24  Identities=21%  Similarity=0.249  Sum_probs=20.6

Q ss_pred             CCCcCCCCceeEeccCCCCchhhh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      ++.+.+|+.-+|+|.+|.|||+|+
T Consensus        25 s~~i~~Ge~~~l~G~nGsGKSTLl   48 (255)
T PRK11300         25 NLEVREQEIVSLIGPNGAGKTTVF   48 (255)
T ss_pred             eeEEcCCeEEEEECCCCCCHHHHH
Confidence            344668999999999999999986

>cd03248 ABCC_TAP TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules

Probab=80.01  E-value=0.97  Score=34.18  Aligned_cols=22  Identities=18%  Similarity=0.469  Sum_probs=19.3

Q ss_pred             CcCCCCceeEeccCCCCchhhh
Q psy10055         94 GMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      .+.+|+.-+|+|.+|.|||+|+
T Consensus        36 ~i~~Ge~~~i~G~nGsGKSTLl   57 (226)
T cd03248          36 TLHPGEVTALVGPSGSGKSTVV   57 (226)
T ss_pred             EEcCCCEEEEECCCCCCHHHHH
Confidence            3457999999999999999985

Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells. Subsequently, virus-infected or malignantly transformed cells can be eliminated. TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	124
1ohh_B	487	Bovine Mitochondrial F1-Atpase Complexed With The I		7e-08
2w6e_A	553	Low Resolution Structures Of Bovine Mitochondrial F		7e-08
1cow_A	510	Bovine Mitochondrial F1-Atpase Complexed With Aurov		7e-08
2xnd_A	492	Crystal Structure Of Bovine F1-C8 Sub-Complex Of At		7e-08
2jiz_A	510	The Structure Of F1-Atpase Inhibited By Resveratrol		7e-08
2f43_A	510	Rat Liver F1-atpase Length = 510		7e-08
1mab_A	510	Rat Liver F1-Atpase Length = 510		7e-08
1bmf_A	510	Bovine Mitochondrial F1-Atpase Length = 510		7e-08
2r9v_A	515	Crystal Structure Of Atp Synthase Subunit Alpha (Tm		2e-07
4b2q_B	486	Model Of The Yeast F1fo-Atp Synthase Dimer Based On		2e-07
4b2q_A	485	Model Of The Yeast F1fo-Atp Synthase Dimer Based On		2e-07
3ofn_A	510	Structure Of Four Mutant Forms Of Yeast F1 Atpase:		2e-07
3oee_A	510	Structure Of Four Mutant Forms Of Yeast F1 Atpase:		2e-07
2hld_A	510	Crystal Structure Of Yeast Mitochondrial F1-Atpase		2e-07
2xok_A	545	Refined Structure Of Yeast F1c10 Atpase Complex To		2e-07
1sky_B	502	Crystal Structure Of The Nucleotide Free Alpha3beta		4e-07
2qe7_A	502	Crystal Structure Of The F1-Atpase From The Thermoa		5e-07
3oaa_A	513	Structure Of The E.Coli F1-Atp Synthase Inhibited B		6e-07
1fx0_A	507	Crystal Structure Of The Chloroplast F1-Atpase From		4e-06

>pdb|1OHH|B Chain B, Bovine Mitochondrial F1-Atpase Complexed With The Inhibitor Protein If1 Length = 487

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 23/25 (92%), Positives = 25/25 (100%)
Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKT++AIDTIINQKR
Sbjct: 141 RELIIGDRQTGKTSIAIDTIINQKR 165

>pdb|2W6E|A Chain A, Low Resolution Structures Of Bovine Mitochondrial F1-Atpase During Controlled Dehydration: Hydration State 1. Length = 553

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 23/25 (92%), Positives = 25/25 (100%)
Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKT++AIDTIINQKR
Sbjct: 207 RELIIGDRQTGKTSIAIDTIINQKR 231

>pdb|1COW|A Chain A, Bovine Mitochondrial F1-Atpase Complexed With Aurovertin B Length = 510

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 23/25 (92%), Positives = 25/25 (100%)
Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKT++AIDTIINQKR
Sbjct: 164 RELIIGDRQTGKTSIAIDTIINQKR 188

>pdb|2XND|A Chain A, Crystal Structure Of Bovine F1-C8 Sub-Complex Of Atp Synthase Length = 492

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 23/25 (92%), Positives = 25/25 (100%)
Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKT++AIDTIINQKR
Sbjct: 146 RELIIGDRQTGKTSIAIDTIINQKR 170

>pdb|2JIZ|A Chain A, The Structure Of F1-Atpase Inhibited By Resveratrol. Length = 510

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 23/25 (92%), Positives = 25/25 (100%)
Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKT++AIDTIINQKR
Sbjct: 164 RELIIGDRQTGKTSIAIDTIINQKR 188

>pdb|2F43|A Chain A, Rat Liver F1-atpase Length = 510

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 23/25 (92%), Positives = 25/25 (100%)
Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKT++AIDTIINQKR
Sbjct: 164 RELIIGDRQTGKTSIAIDTIINQKR 188

>pdb|1MAB|A Chain A, Rat Liver F1-Atpase Length = 510

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 23/25 (92%), Positives = 25/25 (100%)
Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKT++AIDTIINQKR
Sbjct: 164 RELIIGDRQTGKTSIAIDTIINQKR 188

>pdb|1BMF|A Chain A, Bovine Mitochondrial F1-Atpase Length = 510

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 23/25 (92%), Positives = 25/25 (100%)
Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKT++AIDTIINQKR
Sbjct: 164 RELIIGDRQTGKTSIAIDTIINQKR 188

>pdb|2R9V|A Chain A, Crystal Structure Of Atp Synthase Subunit Alpha (Tm1612) From Thermotoga Maritima At 2.10 A Resolution Length = 515

Iteration: 1
 Score = 51.2 bits (121), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 23/24 (95%), Positives = 24/24 (100%)
Query: 100 RELIIGDRQTGKTALAIDTIINQK 123
           RELIIGDRQTGKTA+AIDTIINQK
Sbjct: 177 RELIIGDRQTGKTAIAIDTIINQK 200

>pdb|4B2Q|B Chain B, Model Of The Yeast F1fo-Atp Synthase Dimer Based On Subtomogram Average Length = 486

Iteration: 1
 Score = 51.2 bits (121), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/25 (88%), Positives = 25/25 (100%)
Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKTA+A+DTI+NQKR
Sbjct: 142 RELIIGDRQTGKTAVALDTILNQKR 166

>pdb|4B2Q|A Chain A, Model Of The Yeast F1fo-Atp Synthase Dimer Based On Subtomogram Average Length = 485

Iteration: 1
 Score = 51.2 bits (121), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/25 (88%), Positives = 25/25 (100%)
Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKTA+A+DTI+NQKR
Sbjct: 141 RELIIGDRQTGKTAVALDTILNQKR 165

>pdb|3OFN|A Chain A, Structure Of Four Mutant Forms Of Yeast F1 Atpase: Alpha-N67i Length = 510

Iteration: 1
 Score = 51.2 bits (121), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/25 (88%), Positives = 25/25 (100%)
Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKTA+A+DTI+NQKR
Sbjct: 166 RELIIGDRQTGKTAVALDTILNQKR 190

>pdb|3OEE|A Chain A, Structure Of Four Mutant Forms Of Yeast F1 Atpase: Alpha-F405s Length = 510

Iteration: 1
 Score = 51.2 bits (121), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/25 (88%), Positives = 25/25 (100%)
Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKTA+A+DTI+NQKR
Sbjct: 166 RELIIGDRQTGKTAVALDTILNQKR 190

>pdb|2HLD|A Chain A, Crystal Structure Of Yeast Mitochondrial F1-Atpase Length = 510

Iteration: 1
 Score = 51.2 bits (121), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/25 (88%), Positives = 25/25 (100%)
Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKTA+A+DTI+NQKR
Sbjct: 166 RELIIGDRQTGKTAVALDTILNQKR 190

>pdb|2XOK|A Chain A, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A Resolution Length = 545

Iteration: 1
 Score = 51.2 bits (121), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 22/25 (88%), Positives = 25/25 (100%)
Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKTA+A+DTI+NQKR
Sbjct: 201 RELIIGDRQTGKTAVALDTILNQKR 225

>pdb|1SKY|B Chain B, Crystal Structure Of The Nucleotide Free Alpha3beta3 Sub-Complex Of F1-Atpase From The Thermophilic Bacillus Ps3 Length = 502

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 22/24 (91%), Positives = 24/24 (100%)
Query: 100 RELIIGDRQTGKTALAIDTIINQK 123
           RELIIGDRQTGKT++AIDTIINQK
Sbjct: 164 RELIIGDRQTGKTSVAIDTIINQK 187

>pdb|2QE7|A Chain A, Crystal Structure Of The F1-Atpase From The Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1 Length = 502

Iteration: 1
 Score = 49.3 bits (116), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 22/24 (91%), Positives = 23/24 (95%)
Query: 100 RELIIGDRQTGKTALAIDTIINQK 123
           RELIIGDRQTGKT +AIDTIINQK
Sbjct: 164 RELIIGDRQTGKTTIAIDTIINQK 187

>pdb|3OAA|A Chain A, Structure Of The E.Coli F1-Atp Synthase Inhibited By Subunit Epsilon Length = 513

Iteration: 1
 Score = 49.3 bits (116), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 22/24 (91%), Positives = 23/24 (95%)
Query: 100 RELIIGDRQTGKTALAIDTIINQK 123
           RELIIGDRQTGKTALAID IINQ+
Sbjct: 164 RELIIGDRQTGKTALAIDAIINQR 187

>pdb|1FX0|A Chain A, Crystal Structure Of The Chloroplast F1-Atpase From Spinach Length = 507

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/24 (83%), Positives = 23/24 (95%)
Query: 100 RELIIGDRQTGKTALAIDTIINQK 123
           RELIIGDRQTGKTA+A DTI+NQ+
Sbjct: 165 RELIIGDRQTGKTAVATDTILNQQ 188

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	124
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	3e-15
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	3e-15
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	5e-15
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	7e-15
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	7e-15
3qcw_A	1245	Neurexin-1-alpha; synaptic adhesion molecule, cell	4e-08
3qcw_A	1245	Neurexin-1-alpha; synaptic adhesion molecule, cell	9e-05
3asi_A	410	Neurexin-1-alpha; beta-sandwich, cell adhesion, sy	5e-06

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A Length = 513

 Score = 69.2 bits (170), Expect = 3e-15
 Identities = 22/24 (91%), Positives = 23/24 (95%)

Query: 100 RELIIGDRQTGKTALAIDTIINQK 123
           RELIIGDRQTGKTALAID IINQ+
Sbjct: 164 RELIIGDRQTGKTALAIDAIINQR 187

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ... Length = 510

 Score = 69.2 bits (170), Expect = 3e-15
 Identities = 23/25 (92%), Positives = 25/25 (100%)

Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKT++AIDTIINQKR
Sbjct: 164 RELIIGDRQTGKTSIAIDTIINQKR 188

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A* Length = 507

 Score = 68.9 bits (169), Expect = 5e-15
 Identities = 20/25 (80%), Positives = 23/25 (92%)

Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKTA+A DTI+NQ+ 
Sbjct: 165 RELIIGDRQTGKTAVATDTILNQQG 189

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8} Length = 515

 Score = 68.5 bits (168), Expect = 7e-15
 Identities = 23/24 (95%), Positives = 24/24 (100%)

Query: 100 RELIIGDRQTGKTALAIDTIINQK 123
           RELIIGDRQTGKTA+AIDTIINQK
Sbjct: 177 RELIIGDRQTGKTAIAIDTIINQK 200

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B Length = 502

 Score = 68.5 bits (168), Expect = 7e-15
 Identities = 22/24 (91%), Positives = 23/24 (95%)

Query: 100 RELIIGDRQTGKTALAIDTIINQK 123
           RELIIGDRQTGKT +AIDTIINQK
Sbjct: 164 RELIIGDRQTGKTTIAIDTIINQK 187

>3qcw_A Neurexin-1-alpha; synaptic adhesion molecule, cell adhesion; HET: NAG; 2.65A {Bos taurus} PDB: 3r05_A* 3poy_A* Length = 1245

 Score = 49.1 bits (116), Expect = 4e-08
 Identities = 12/60 (20%), Positives = 19/60 (31%)

Query: 11  CSDCQYCHYSVENSVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEISVV 70
             D                 E   C +GG+C   D   +C+C    F G  C + +   +
Sbjct: 174 LDDEPPNSGGGSPCEAGEEGEGGVCLNGGVCSVVDDQAVCDCSRTGFRGKDCSQGKEEYI 233

>3qcw_A Neurexin-1-alpha; synaptic adhesion molecule, cell adhesion; HET: NAG; 2.65A {Bos taurus} PDB: 3r05_A* 3poy_A* Length = 1245

 Score = 39.8 bits (92), Expect = 9e-05
 Identities = 12/38 (31%), Positives = 17/38 (44%), Gaps = 1/38 (2%)

Query: 27   DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEK 64
              C+E D C + G+C+    G  C+C    F G  C  
Sbjct: 1018 TTCQE-DSCSNQGVCLQQWDGFSCDCSMTSFSGPLCND 1054

>3asi_A Neurexin-1-alpha; beta-sandwich, cell adhesion, synapse maturation, neuroligin glycosylation, membrane; HET: NAG; 2.30A {Bos taurus} Length = 410

 Score = 43.1 bits (101), Expect = 5e-06
 Identities = 11/42 (26%), Positives = 17/42 (40%), Gaps = 1/42 (2%)

Query: 27  DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEIS 68
             C+  D C + G+C+    G  C+C    F G  C     +
Sbjct: 186 TTCQ-EDSCSNQGVCLQQWDGFSCDCSMTSFSGPLCNDPGTT 226

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	124
3u7u_G	55	Neuregulin 1; signaling protein, transferase-trans	99.1
1edm_B	39	Factor IX; epidermal growth factor, EGF, calcium-	99.04
1egf_A	53	Epidermal growth factor; NMR {Mus musculus} SCOP:	98.92
1a3p_A	45	Epidermal growth factor; disulfide connectivities,	98.89
1hae_A	63	Heregulin-alpha; growth factor; NMR {Homo sapiens}	98.82
2vj3_A	135	Neurogenic locus notch homolog protein 1; transcri	98.73
2k2s_B	61	Micronemal protein 6; microneme protein complex, c	98.73
4d90_A	143	EGF-like repeat and discoidin I-like domain-conta	98.69
1x7a_L	146	Coagulation factor IX, light chain; inhibition, bl	98.68
1tpg_A	91	T-plasminogen activator F1-G; plasminogen activati	98.68
1k36_A	46	Epiregulin; EGF-like fold, hormone/growth factor c	98.66
2c4f_L	142	Coagulation factor VII precursor; blood coagulatio	98.66
3h5c_B	317	Vitamin K-dependent protein Z; protein Z-protein Z	98.64
2vj3_A	135	Neurogenic locus notch homolog protein 1; transcri	98.63
1nql_B	53	Epidermal growth factor; cell surface receptor, ty	98.62
1nfu_B	195	Coagulation factor XA, light chain; hydrolase; HET	98.6
1aut_L	114	Activated protein C; serine proteinase, plasma cal	98.59
2vh0_B	134	Activated factor XA light chain; serine protease,	98.56
1emn_A	82	Fibrillin; extracellular matrix, calcium-binding,	98.45
3ca7_A	52	Protein spitz; argos, EGF, developmental protein,	98.44
4d90_A	143	EGF-like repeat and discoidin I-like domain-conta	98.4
2fd6_A	122	Urokinase-type plasminogen activator; UPAR, ATF, A	98.36
1lmj_A	86	Fibrillin 1; EGF, calcium, microfibril, neonatal,	98.36
3ltf_D	58	Protein spitz; receptor-ligand complex ectodomain	98.28
1z6c_A	87	Vitamin K-dependent protein S; EGF module, blood c	98.28
1q4g_A	553	Prostaglandin G/H synthase 1; cyclooxygenase, non-	98.23
2bou_A	143	EGF-like module containing mucin-like hormone rece	98.19
2i9a_A	145	Urokinase-type plasminogen activator; growth facto	98.18
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	98.11
3nt1_A	587	Prostaglandin-endoperoxide synthase 2; prostagland	98.11
1z1y_A	186	Ookinete surface protein PVS25; four EGF-like doma	98.07
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	97.97
1g1s_A	162	P-selectin; selectin, lectin, EGF, sulphated, SLEX	97.97
1yo8_A	634	Thrombospondin-2; EGF, Ca(2+)-binding domains, lec	97.94
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	97.91
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	97.9
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	97.88
3asi_A	410	Neurexin-1-alpha; beta-sandwich, cell adhesion, sy	97.87
1z1y_A	186	Ookinete surface protein PVS25; four EGF-like doma	97.8
1yo8_A	634	Thrombospondin-2; EGF, Ca(2+)-binding domains, lec	97.72
4fbr_A	267	Lectin, myxobacterial hemagglutinin; beta-barrel,	97.64
3p5b_L	400	Low density lipoprotein receptor variant; B-propel	97.63
1g1t_A	157	E-selectin; EGF, adhesion molecule, SLEX, immune s	97.63
2w86_A	147	Fibrillin-1, fibrillin1; phosphoprotein, EGF-like	97.57
2w2n_E	107	LDL receptor, low-density lipoprotein receptor; hy	97.55
2vj2_A	169	Jagged-1; signalling, polymorphism, glycoprotein,	97.53
4fbr_A	267	Lectin, myxobacterial hemagglutinin; beta-barrel,	97.49
3qcw_A	1245	Neurexin-1-alpha; synaptic adhesion molecule, cell	97.37
1uzk_A	162	Fibrillin-1; glycoprotein, extra-cellular matrix,	97.35
3v65_B	386	Low-density lipoprotein receptor-related protein;	97.34
1xdt_R	79	Hbegf, heparin-binding epidermal growth factor; co	97.32
1apq_A	53	Complement protease C1R; EGF, calcium binding, ser	97.3
2bou_A	143	EGF-like module containing mucin-like hormone rece	97.3
2vj2_A	169	Jagged-1; signalling, polymorphism, glycoprotein,	97.28
1emn_A	82	Fibrillin; extracellular matrix, calcium-binding,	97.28
3cfw_A	164	L-selectin; EGF, cell adhesion, EGF-like domain, g	97.24
1dx5_I	118	Thrombomodulin; serine proteinase, EGF-like domain	97.19
3e50_C	50	Protransforming growth factor alpha; IDE, TGF-alph	97.14
1iox_A	50	Betacellulin; EGF-like fold, hormone/growth factor	97.13
3qcw_A	1245	Neurexin-1-alpha; synaptic adhesion molecule, cell	97.1
1tpg_A	91	T-plasminogen activator F1-G; plasminogen activati	97.09
2ygo_A	188	WIF-1, WNT inhibitory factor 1; signaling protein,	96.99
2rnl_A	50	Amphiregulin; AR, colorectum cell-derived growth f	96.96
1dx5_I	118	Thrombomodulin; serine proteinase, EGF-like domain	96.82
2w86_A	147	Fibrillin-1, fibrillin1; phosphoprotein, EGF-like	96.68
1lmj_A	86	Fibrillin 1; EGF, calcium, microfibril, neonatal,	96.58
2wg3_C	463	Hedgehog-interacting protein; lipoprotein, develop	96.41
2kl7_A	71	Fibulin-4; secreted, calcium, disease mutation, di	96.4
3l0o_A	427	Transcription termination factor RHO; helicase, RH	96.38
1uzk_A	162	Fibrillin-1; glycoprotein, extra-cellular matrix,	96.34
1z6c_A	87	Vitamin K-dependent protein S; EGF module, blood c	96.31
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	96.23
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	95.99
2c4f_L	142	Coagulation factor VII precursor; blood coagulatio	95.98
1gl4_A	285	Nidogen-1, entactin; immunoglobulin-like domain, e	95.96
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	95.87
3v65_B	386	Low-density lipoprotein receptor-related protein;	95.79
3m0c_C	791	LDL receptor, low-density lipoprotein receptor; pr	95.79
2w2n_E	107	LDL receptor, low-density lipoprotein receptor; hy	95.74
1nfu_B	195	Coagulation factor XA, light chain; hydrolase; HET	95.66
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	95.47
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	95.47
3h5c_B	317	Vitamin K-dependent protein Z; protein Z-protein Z	95.4
2jkh_L	55	Factor X light chain; plasma, calcium, zymogen, se	95.35
3fcs_B	690	Integrin beta-3; beta propeller, rossmann fold, EG	95.26
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	95.21
1x7a_L	146	Coagulation factor IX, light chain; inhibition, bl	95.19
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	95.15
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	95.03
2ygq_A	324	WIF-1, WNT inhibitory factor 1; signaling protein,	95.03
2ygq_A	324	WIF-1, WNT inhibitory factor 1; signaling protein,	95.0
2gy5_A	423	Angiopoietin-1 receptor; ligand-binding domain, tr	94.99
3fcs_B	690	Integrin beta-3; beta propeller, rossmann fold, EG	94.98
2vh0_B	134	Activated factor XA light chain; serine protease,	94.96
1klo_A	162	Laminin; glycoprotein; 2.10A {Mus musculus} SCOP:	94.86
3ice_A	422	Transcription termination factor RHO; transcriptio	94.77
1n7d_A	699	LDL receptor, low-density lipoprotein receptor; fa	94.67
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	94.66
3p5b_L	400	Low density lipoprotein receptor variant; B-propel	94.53
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	94.4
1szb_A	170	Mannose binding lectin-associated serine protease-	94.38
2gy5_A	423	Angiopoietin-1 receptor; ligand-binding domain, tr	94.14
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	93.67
3zyj_B	426	Netrin-G1; cell adhesion, synapse; HET: NAG BMA MA	93.53
1aut_L	114	Activated protein C; serine proteinase, plasma cal	93.35
4aqs_A	525	Laminin subunit beta-1; cell adhesion; HET: NAG BM	93.21
2wg3_C	463	Hedgehog-interacting protein; lipoprotein, develop	93.13
1kig_L	51	Factor XA; glycoprotein, serine protease, plasma,	92.6
2p28_B	217	Integrin beta-2; hybrid domain, PSI domain, I-EGF	92.3
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	92.0
1nzi_A	159	Complement C1S component; calcium, innate immunity	91.91
3t5o_A	913	Complement component C6; macpf, MAC, membrane atta	91.77
3k6s_B	687	Integrin beta-2; cell receptor, adhesion molecule,	91.47
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	91.01
1kli_L	69	Factor VIIA; extrinsic coagulation pathway, serine	90.7
3io5_A	333	Recombination and repair protein; storage dimer, i	89.75
2p28_B	217	Integrin beta-2; hybrid domain, PSI domain, I-EGF	89.67
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	89.56
1n7d_A	699	LDL receptor, low-density lipoprotein receptor; fa	89.46
2cvh_A	220	DNA repair and recombination protein RADB; filamen	88.93
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	88.25
3k6s_B	687	Integrin beta-2; cell receptor, adhesion molecule,	88.13
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	87.65
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	87.56
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	87.22
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	87.21
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	86.89
2bz6_L	53	Blood coagulation factor VIIA; serine protease, en	86.75
4aqs_A	525	Laminin subunit beta-1; cell adhesion; HET: NAG BM	86.19
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	85.86
3v64_C	349	Agrin; beta propeller, laminin-G, signaling, prote	85.74
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	85.61
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	85.55
3co5_A	143	Putative two-component system transcriptional RES	85.4
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	85.38
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	85.21
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	85.05
3llu_A	196	RAS-related GTP-binding protein C; structural geno	85.0
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	84.85
3bos_A	242	Putative DNA replication factor; P-loop containing	84.83
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	84.76
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	84.52
1ijq_A	316	LDL receptor, low-density lipoprotein receptor; be	84.5
2r6a_A	454	DNAB helicase, replicative helicase; replication,	84.48
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	84.46
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	84.35
2chg_A	226	Replication factor C small subunit; DNA-binding pr	84.27
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	84.18
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	84.14
2wph_E	59	Coagulation factor IXA light chain; serine proteas	84.02
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	83.96
2z43_A	324	DNA repair and recombination protein RADA; archaea	83.92
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	83.69
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	83.66
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	83.48
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	83.04
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	82.96
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	82.8
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	82.71
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	82.71
4a74_A	231	DNA repair and recombination protein RADA; hydrola	82.57
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	82.47
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	82.36
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	82.29
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	82.19
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	82.11
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	81.96
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	81.92
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	81.92
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	81.15
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	81.12
1u94_A	356	RECA protein, recombinase A; homologous recombinat	81.11
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	81.06
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	81.03
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	80.78
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	80.69
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	80.61
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	80.55
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	80.51
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	80.3
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	80.2
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	80.02

>3u7u_G Neuregulin 1; signaling protein, transferase-transferase regulator complex glycosylation; HET: NAG; 3.03A {Homo sapiens}

Probab=99.10  E-value=6.2e-11  Score=73.65  Aligned_cols=40  Identities=33%  Similarity=0.660  Sum_probs=34.1

Q ss_pred             ccCCCCCCCCCCCCCeee-----eCCCCceEEecCCCeeccccccCc
Q psy10055         25 VLDPCEEHDPCKHGGICI-----STDSGPICECRNLDFEGIYCEKVE   66 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~-----~~~~~y~C~C~~tg~~G~~Ce~~~   66 (124)
                      ++++| .++||+|||+|.     +..++|+|.|++ ||+|++||..+
T Consensus         7 ~~~eC-~s~pC~NgGtC~~~~~~d~~~~y~C~C~~-g~~G~~CE~~v   51 (55)
T 3u7u_G            7 KCAEK-EKTFCVNGGECFMVKDLSNPSRYLCKCPN-EFTGDRCQNYV   51 (55)
T ss_dssp             ECCST-TTTTSCTTCEEEEECCC--CCCEEEEECT-TEESTTSCEEC
T ss_pred             cCCCC-cCCCCCCCCCcCCCCccCCCCCEeEeCCC-CCcCCCcCccC
Confidence            56899 699999999994     566899999999 99999999764

>1edm_B Factor IX; epidermal growth factor, EGF, calcium- binding, EGF-like domain, structure and function, coagulation factor; 1.50A {Homo sapiens} SCOP: g.3.11.1 PDB: 1ixa_A

Probab=99.04  E-value=1.5e-10  Score=65.99  Aligned_cols=38  Identities=39%  Similarity=0.763  Sum_probs=34.9

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeecccccc
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEK   64 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~   64 (124)
                      ++++| .++||+|+|+|++..++|.|.|++ ||+|.+|+.
T Consensus         2 d~d~C-~~~pC~ngg~C~~~~~~~~C~C~~-G~~G~~Ce~   39 (39)
T 1edm_B            2 DGDQC-ESNPCLNGGSCKDDINSYECWCPF-GFEGKNCEL   39 (39)
T ss_dssp             CCCTT-TTCCCCTTCEEEEETTEEEEECCT-TCCSTTSCC
T ss_pred             ccccC-CCCCCCCCCEeEcCCCceEeECCC-CCcCCccCC
Confidence            46889 699999999999999999999999 999999973

>1egf_A Epidermal growth factor; NMR {Mus musculus} SCOP: g.3.11.1 PDB: 1epg_A 1eph_A 1epi_A 1epj_A 3egf_A 1gk5_A

Probab=98.92  E-value=9e-10  Score=67.13  Aligned_cols=42  Identities=21%  Similarity=0.657  Sum_probs=36.4

Q ss_pred             ccCCCCCCC---CCCCCCeee--eCCCCceEEecCCCeeccccccCccc
Q psy10055         25 VLDPCEEHD---PCKHGGICI--STDSGPICECRNLDFEGIYCEKVEIS   68 (124)
Q Consensus        25 ~~d~C~~~n---PC~ngG~C~--~~~~~y~C~C~~tg~~G~~Ce~~~~~   68 (124)
                      ++++| .++   ||+|||+|+  +..++|.|.|++ ||+|.+|+....+
T Consensus         2 ~i~~C-~~~~~~pC~ngg~C~~~~~~~~~~C~C~~-G~~G~~Ce~~~~~   48 (53)
T 1egf_A            2 SYPGC-PSSYDGYCLNGGVCMHIESLDSYTCNCVI-GYSGDRCQTRDLR   48 (53)
T ss_dssp             EECCC-CTTSSCSSCSSCEEEEESSSSCEEEECCT-TCCSSSSCCCSCC
T ss_pred             CcccC-CCCCCCcCCCCcEEEeeCCCCCEEEECCC-CCcCCcCCccCcc
Confidence            46889 576   999999999  778899999999 9999999987544

>1a3p_A Epidermal growth factor; disulfide connectivities, EGF-like domain, repeat; HET: ABA; NMR {Mus musculus} SCOP: g.3.11.1

Probab=98.89  E-value=1.3e-09  Score=64.32  Aligned_cols=38  Identities=18%  Similarity=0.538  Sum_probs=32.7

Q ss_pred             CCCCCC---CCCCCCeee--eCCCCceEEecCCCeeccccccCcc
Q psy10055         28 PCEEHD---PCKHGGICI--STDSGPICECRNLDFEGIYCEKVEI   67 (124)
Q Consensus        28 ~C~~~n---PC~ngG~C~--~~~~~y~C~C~~tg~~G~~Ce~~~~   67 (124)
                      +| .++   ||+|||+|+  +..++|.|.|++ ||+|.+|+.+++
T Consensus         2 ~C-~~~~~~pC~ngg~C~~~~~~~~~~C~C~~-G~~G~~Ce~~~~   44 (45)
T 1a3p_A            2 GX-PSSYDGYCLNGGVXMHIESLDSYTCNCVI-GYSGDRCQTRDL   44 (45)
T ss_dssp             CC-TTCCSSCCSSSCEEEECTTTSSEEEECCT-TEETTTTCEECC
T ss_pred             Cc-ccCCCCCCCCCCEEEeecCCCCEEEEcCC-CCcCCcCCcccC
Confidence            57 467   999999998  567899999999 999999987654

>1hae_A Heregulin-alpha; growth factor; NMR {Homo sapiens} SCOP: g.3.11.1 PDB: 1haf_A 1hre_A 1hrf_A

Probab=98.82  E-value=9.1e-10  Score=69.07  Aligned_cols=44  Identities=27%  Similarity=0.523  Sum_probs=37.5

Q ss_pred             ccCCCCCCCCCCCCCeeee-----CCCCceEEecCCCeeccccccCcccee
Q psy10055         25 VLDPCEEHDPCKHGGICIS-----TDSGPICECRNLDFEGIYCEKVEISVV   70 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~-----~~~~y~C~C~~tg~~G~~Ce~~~~~~~   70 (124)
                      .-++| .++||+|||+|++     ..++|.|.|++ ||+|.+|+.+++++.
T Consensus         5 ~c~~C-~~~pC~ngG~C~~~~~~~~~~~y~C~C~~-Gf~G~~Ce~~i~~~~   53 (63)
T 1hae_A            5 KCAEK-EKTFCVNGGECFMVKDLSNPSRYLCKCQP-GFTGARCTENVPMKV   53 (63)
T ss_dssp             ECCHH-HHTTSCTTCEEEEEESSSSSCCEEEECCT-TEESTTSCEECCSSC
T ss_pred             ccCCC-CCCcCCCCcEEecCCccCCCCCEEEECCC-CCcCCccCcCcCccc
Confidence            34678 6999999999996     56789999999 999999998776654

>2vj3_A Neurogenic locus notch homolog protein 1; transcription, metal-binding, transmembrane, developmental protein, notch signaling pathway; 2.60A {Homo sapiens} SCOP: g.3.11.1 g.3.11.1 g.3.11.1 PDB: 1toz_A 2rqz_A* 2rr0_A 2rr2_A*

Probab=98.73  E-value=9.6e-09  Score=72.32  Aligned_cols=79  Identities=19%  Similarity=0.457  Sum_probs=48.5

Q ss_pred             cccccccc----ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCccceeeccceeeccccccceeeEeccC
Q psy10055         17 CHYSVENS----VLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEISVVRAISMRVRGSRKKLRLIECEDG   92 (124)
Q Consensus        17 c~~~v~~~----~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~~~~~~~~~~~~r~~~~~~~~~~C~~~   92 (124)
                      |..++...    ++++| ..+||.++++|++..++|.|.|++ ||+|..|+.+.+++...++.....++.....+.|...
T Consensus        32 C~~Gy~G~~C~~~~~~C-~~~~C~~~~~C~~~~g~~~C~C~~-G~~G~~C~~~~~~C~~~~C~~~g~C~~~~g~~~C~C~  109 (135)
T 2vj3_A           32 CLQGYTGPRCEIDVNEC-VSNPCQNDATCLDQIGEFQCICMP-GYEGVHCEVNTDECASSPCLHNGRCLDKINEFQCECP  109 (135)
T ss_dssp             CCTTEESTTSCEECCTT-TTCCCCSSCEEEECSSCEEEECCT-TEESSSSCEECCTTTTCCSTTTCEEEECSSCEEEECC
T ss_pred             CCCCCcCCcccccCccC-CCCCCCCCCEEeCCCCCceeeCCC-CCcCCcceecCCcccCCCcCCCCEeECCCCCeEEECC
Confidence            44555442    45667 467777777777777777777777 7777777766666554455443444555555666666


Q ss_pred             CCcCC
Q psy10055         93 AGMDP   97 (124)
Q Consensus        93 ~~mvp   97 (124)
                      .+|.+
T Consensus       110 ~G~~G  114 (135)
T 2vj3_A          110 TGFTG  114 (135)
T ss_dssp             TTEES
T ss_pred             CCCcC
Confidence            55544

>2k2s_B Micronemal protein 6; microneme protein complex, cell adhesion, cytoplasmic vesicl lectin, virulence, EGF-like domain, membrane; NMR {Toxoplasma gondii} PDB: 2k2t_A

Probab=98.73  E-value=2.9e-09  Score=67.30  Aligned_cols=39  Identities=28%  Similarity=0.705  Sum_probs=35.7

Q ss_pred             ccCCCCCCCCCCCC--CeeeeCCCCceEEecCCCee-ccccccC
Q psy10055         25 VLDPCEEHDPCKHG--GICISTDSGPICECRNLDFE-GIYCEKV   65 (124)
Q Consensus        25 ~~d~C~~~nPC~ng--G~C~~~~~~y~C~C~~tg~~-G~~Ce~~   65 (124)
                      ++|+| .++||+||  |+|++..++|.|.|++ ||+ |.+|+..
T Consensus        10 ~~d~C-~snPC~nga~gtC~~~~g~y~C~C~~-Gy~~G~~C~~~   51 (61)
T 2k2s_B           10 TPAAC-SSNPCGPEAAGTCKETNSGYICRCNQ-GYRISLDGTGN   51 (61)
T ss_dssp             SCCHH-HHCSSCSSSCCEEEECSSEEEEECCT-TEEEEECSSSC
T ss_pred             CCCcC-cCCCCcCCCccccccCCCceEeECCC-CCccCCCCCCC
Confidence            56889 69999999  9999999999999999 999 9999754

>4d90_A EGF-like repeat and discoidin I-like domain-conta protein 3; RGD finger, cell adhesion, innate immunity, extracellular MA protein; HET: NGA NAG FUC; 2.60A {Homo sapiens}

Probab=98.69  E-value=1.1e-08  Score=71.78  Aligned_cols=75  Identities=23%  Similarity=0.428  Sum_probs=58.9

Q ss_pred             ccCCCCCCCCCCCCCeee-------eCCCCceEEecCCCeeccccccCccceeeccceeeccccccceeeEeccCCCcCC
Q psy10055         25 VLDPCEEHDPCKHGGICI-------STDSGPICECRNLDFEGIYCEKVEISVVRAISMRVRGSRKKLRLIECEDGAGMDP   97 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~-------~~~~~y~C~C~~tg~~G~~Ce~~~~~~~~~~~~~~r~~~~~~~~~~C~~~~~mvp   97 (124)
                      ++++| .++||.++++|+       +..++|.|.|++ ||+|..|+.+++++...++.....++.....+.|....+|.+
T Consensus        51 ~~~~C-~~~~C~~~g~C~~~~~~~~~~~~~~~C~C~~-G~~G~~C~~~i~~C~~~~C~~~~~C~~~~g~~~C~C~~G~~G  128 (143)
T 4d90_A           51 SAGPC-TPNPCHNGGTCEISEAYRGDTFIGYVCKCPR-GFNGIHCQHNINECEVEPCKNGGICTDLVANYSCECPGEFMG  128 (143)
T ss_dssp             CCCTT-SSCCCCTTCEEEECCCEETTEECCEEEECCT-TEESTTSCEECCTTTTCCSCTTCEEEEETTEEEEECCTTCBS
T ss_pred             cCCcC-CCCCCCCCCEecCCCccccCCCCCeEeECcC-CCcCCCcccCCCcCCCCCCCCCCEeECCCCCeEeECCCCCcc
Confidence            45789 699999999999       556789999999 999999998887776566655555666677788888877766


Q ss_pred             CCce
Q psy10055         98 PSRE  101 (124)
Q Consensus        98 ~~r~  101 (124)
                      ...+
T Consensus       129 ~~c~  132 (143)
T 4d90_A          129 RNCQ  132 (143)
T ss_dssp             TTSC
T ss_pred             CCce
Confidence            4333

>1x7a_L Coagulation factor IX, light chain; inhibition, blood clotting,hydrolase; HET: 187; 2.90A {Sus scrofa} SCOP: g.3.11.1 g.3.11.1 PDB: 1pfx_L*

Probab=98.68  E-value=1.5e-08  Score=73.00  Aligned_cols=70  Identities=24%  Similarity=0.385  Sum_probs=49.6

Q ss_pred             cccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCccceeeccceeeccc-cccceeeEeccCCCcC
Q psy10055         24 SVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEISVVRAISMRVRGS-RKKLRLIECEDGAGMD   96 (124)
Q Consensus        24 ~~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~~~~~~~~~~~~r~~-~~~~~~~~C~~~~~mv   96 (124)
                      .++|+| .++||+|+|+|++..++|.|.|++ ||+|..|+.. +++...+..-...+ ++....+.|....+|.
T Consensus        46 ~dideC-~~~pC~n~g~C~~~~~~y~C~C~~-G~~G~~C~~~-deC~~~~~~C~~~C~~n~~g~y~C~C~~Gy~  116 (146)
T 1x7a_L           46 VDGDQC-EPNPCLNGGLCKDDINSYECWCQV-GFEGKNCELD-ATCNIKNGRCKQFCKTGADSKVLCSCTTGYR  116 (146)
T ss_dssp             ----CC-SSCSSCTTCEEEECSSCEEEECCS-SEESTTTCEE-CCTTSGGGSCSSBCCCCSSSCCCCBCCTTEE
T ss_pred             CCcCcC-CCCCCCCCCEeECCCCCEEEecCC-CCcCCcCCCC-ccccCCCCCCcCCCCCCCCCCEEeEcCCCcE
Confidence            367899 699999999999999999999999 9999999865 45543222211245 5666667777776664

>1tpg_A T-plasminogen activator F1-G; plasminogen activation; NMR {Homo sapiens} SCOP: g.3.11.1 g.27.1.1 PDB: 1tpm_A 1tpn_A

Probab=98.68  E-value=1.1e-08  Score=68.24  Aligned_cols=42  Identities=29%  Similarity=0.671  Sum_probs=37.4

Q ss_pred             ccCCCCCCCCCCCCCeeeeCC--CCceEEecCCCeeccccccCccc
Q psy10055         25 VLDPCEEHDPCKHGGICISTD--SGPICECRNLDFEGIYCEKVEIS   68 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~--~~y~C~C~~tg~~G~~Ce~~~~~   68 (124)
                      ++++| .++||+|||+|++..  ++|.|.|++ ||+|++|+.++++
T Consensus        47 ~~~~C-~~~pC~ngg~C~~~~~~~~~~C~C~~-G~~G~~Ce~~ide   90 (91)
T 1tpg_A           47 PVKSC-SEPRCFNGGTCQQALYFSDFVCQCPE-GFAGKSCEIDTRA   90 (91)
T ss_dssp             CEEEC-SSCCSCTTCEEEEESSSSCEEEECCT-TCBSSSCCBCSSC
T ss_pred             cCCcc-cCCCCCCCCEeecCCCCCCeEeECCC-CCcCCcCCcCCCC
Confidence            46889 699999999999887  899999999 9999999987654

>1k36_A Epiregulin; EGF-like fold, hormone/growth factor complex; NMR {Homo sapiens} SCOP: g.3.11.1 PDB: 1k37_A

Probab=98.66  E-value=9.5e-09  Score=61.24  Aligned_cols=38  Identities=32%  Similarity=0.782  Sum_probs=32.1

Q ss_pred             ccCCCCCC---CCCCCCCeeeeCC--CCceEEecCCCeeccccccC
Q psy10055         25 VLDPCEEH---DPCKHGGICISTD--SGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        25 ~~d~C~~~---nPC~ngG~C~~~~--~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      ++++| .+   +||+| |+|++..  ++|.|.|++ ||+|.+||..
T Consensus         2 ~i~~C-~~~~~~pC~n-G~C~~~~~~~~~~C~C~~-GytG~~Ce~~   44 (46)
T 1k36_A            2 SITKC-SSDMNGYCLH-GQCIYLVDMSQNYCRCEV-GYTGVRCEHF   44 (46)
T ss_dssp             CEECC-CTTCCSSCSS-EEEEEETTTTEEEEEECT-TCSSTTSCCC
T ss_pred             ccccC-CCCCCCCCCC-CEeeccCCCCCEEEECCC-CCccCCCCcc
Confidence            35778 57   99999 7999754  689999999 9999999875

>2c4f_L Coagulation factor VII precursor; blood coagulation, serine protease, EGF, EGF-like domain, GLA, receptor enzyme, glycoprotein, hydrolase, protease; HET: CGU GLC FUC NAG GIL; 1.72A {Homo sapiens} SCOP: g.3.11.1 g.3.11.1 g.32.1.1 PDB: 1w2k_L* 1w0y_L* 1z6j_L* 2b8o_L* 2aer_L* 2ec9_L* 2fir_L* 2a2q_L* 1fak_L* 1o5d_L* 1wqv_L* 1wss_L* 1wtg_L* 1wun_L* 1wv7_L* 1dan_L* 2aei_L* 2b7d_L* 2f9b_L* 2flb_L* ...

Probab=98.66  E-value=1.3e-08  Score=72.63  Aligned_cols=70  Identities=24%  Similarity=0.445  Sum_probs=50.2

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCccceeeccceee---ccccccce-eeEeccCCCcC
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEISVVRAISMRV---RGSRKKLR-LIECEDGAGMD   96 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~~~~~~~~~~~~---r~~~~~~~-~~~C~~~~~mv   96 (124)
                      ++|+| .++||+|+|+|++..++|.|.|++ ||+|..|+.+++++...+....   ..++.... .+.|....+|.
T Consensus        46 did~C-~~~pC~n~g~C~~~~g~y~C~C~~-G~~G~~C~~~~~~c~~c~~~~~~C~~~C~~~~g~~y~C~C~~Gy~  119 (142)
T 2c4f_L           46 DGDQC-ASSPCQNGGSCKDQLQSYICFCLP-AFEGRNCETHKDDQLICVNENGGCEQYCSDHTGTKRSCRCHEGYS  119 (142)
T ss_dssp             TCCGG-GGCCCCTTCEEEEETTEEEEECCT-TEESTTSCEEGGGCCSTTTGGGGCSSEEECCTTSCCEEECCTTEE
T ss_pred             ccCcC-cCCCcCCCCEEeCCCCCEEeeCCC-CccCCccccCccccccccCCCCCccCEeECCCCCCEEEECCCCce
Confidence            67899 699999999999999999999999 9999999875444311111111   13455555 67777765553

>3h5c_B Vitamin K-dependent protein Z; protein Z-protein Z inhibitor complex, blood coagulation, CL PAIR of basic residues, disulfide bond, EGF-like domain; HET: NAG BGC; 3.26A {Homo sapiens}

Probab=98.64  E-value=1.3e-08  Score=79.79  Aligned_cols=68  Identities=24%  Similarity=0.418  Sum_probs=52.5

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCccceee---ccceeeccccccceeeEeccCCCcC
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEISVVR---AISMRVRGSRKKLRLIECEDGAGMD   96 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~~~~~~---~~~~~~r~~~~~~~~~~C~~~~~mv   96 (124)
                      ++|+| .++||+|+|+|++..++|.|.|++ ||.|.+|+.+.+++..   .++..  .+.+....+.|....+|.
T Consensus         4 d~~~C-~~~pC~~~g~C~~~~~~~~C~C~~-g~~g~~C~~~~~eC~~~~~~~C~~--~C~~~~g~~~C~C~~g~~   74 (317)
T 3h5c_B            4 GGSPC-ISQPCLHNGSCQDSIWGYTCTCSP-GYEGSNCELAKNECHPERTDGCQH--FCLPGQESYTCSCAQGYR   74 (317)
T ss_dssp             --CCT-TSCCCTTTCCCCCCSSSCCCCCSS-SCCSSSSCCCSSSCCTTCTTSCSS--EEECCSSSCEEECCTTEE
T ss_pred             cCCcC-CCCCCCCCCEeECCCCCeEEECCC-CCcCCccccCcccCCCCCCCCCcC--ccccCCCeeEEecccccc
Confidence            56899 699999999999999999999999 9999999988888764   34443  456666666666655553

>2vj3_A Neurogenic locus notch homolog protein 1; transcription, metal-binding, transmembrane, developmental protein, notch signaling pathway; 2.60A {Homo sapiens} SCOP: g.3.11.1 g.3.11.1 g.3.11.1 PDB: 1toz_A 2rqz_A* 2rr0_A 2rr2_A*

Probab=98.63  E-value=3e-08  Score=69.73  Aligned_cols=72  Identities=24%  Similarity=0.453  Sum_probs=57.2

Q ss_pred             ccCCCCC--CCCCCCCCeeeeCCCCceEEecCCCeeccccccCccceeeccceeeccccccceeeEeccCCCcCCC
Q psy10055         25 VLDPCEE--HDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEISVVRAISMRVRGSRKKLRLIECEDGAGMDPP   98 (124)
Q Consensus        25 ~~d~C~~--~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~~~~~~~~~~~~r~~~~~~~~~~C~~~~~mvp~   98 (124)
                      ++|+| .  ++||.++|+|++..++|.|.|++ ||+|..|+.+++++...++.....++.....+.|....+|.+.
T Consensus         4 dideC-~~~~~~C~~~g~C~~~~g~~~C~C~~-Gy~G~~C~~~~~~C~~~~C~~~~~C~~~~g~~~C~C~~G~~G~   77 (135)
T 2vj3_A            4 DVDEC-SLGANPCEHAGKCINTLGSFECQCLQ-GYTGPRCEIDVNECVSNPCQNDATCLDQIGEFQCICMPGYEGV   77 (135)
T ss_dssp             CCCTT-TSSSCSSSTTCEEEECSSSEEEECCT-TEESTTSCEECCTTTTCCCCSSCEEEECSSCEEEECCTTEESS
T ss_pred             ccccc-cCCCCCCCCCCEeECCCCCEEEECCC-CCcCCcccccCccCCCCCCCCCCEEeCCCCCceeeCCCCCcCC
Confidence            67899 5  78999999999999999999999 9999999988777765566555556666666777777777653

>1nql_B Epidermal growth factor; cell surface receptor, tyrosine kinase, glycoprotein, endoso growth factor, auto-inhibition; HET: NAG BMA; 2.80A {Homo sapiens} SCOP: g.3.11.1 PDB: 1ivo_C* 2kv4_A 1jl9_A 1p9j_A 3njp_C*

Probab=98.62  E-value=1.4e-08  Score=62.19  Aligned_cols=35  Identities=23%  Similarity=0.646  Sum_probs=30.9

Q ss_pred             CCCCCCCCeee--eCCCCceEEecCCCeeccccccCcc
Q psy10055         32 HDPCKHGGICI--STDSGPICECRNLDFEGIYCEKVEI   67 (124)
Q Consensus        32 ~nPC~ngG~C~--~~~~~y~C~C~~tg~~G~~Ce~~~~   67 (124)
                      ++||+|||+|+  +..++|.|.|++ ||+|.+||....
T Consensus        11 ~~pC~nGG~C~~~~~~~~~~C~C~~-GytG~~Ce~~~~   47 (53)
T 1nql_B           11 DGYCLHDGVCMYIEALDKYACNCVV-GYIGERCQYRDL   47 (53)
T ss_dssp             CCEECTTCEEEEETTTTEEEEEECT-TEESTTSCEECS
T ss_pred             CCCCCCCeEEeeecCCCCEEEecCC-CCcCCCCCcCCc
Confidence            68999999998  667789999999 999999987643

>1nfu_B Coagulation factor XA, light chain; hydrolase; HET: RRP; 2.05A {Homo sapiens} SCOP: g.3.11.1 PDB: 2h9e_L*

Probab=98.60  E-value=7.9e-09  Score=78.41  Aligned_cols=70  Identities=23%  Similarity=0.385  Sum_probs=15.2

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCc-cceeeccceeeccccccceeeEeccCCCcC
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVE-ISVVRAISMRVRGSRKKLRLIECEDGAGMD   96 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~-~~~~~~~~~~~r~~~~~~~~~~C~~~~~mv   96 (124)
                      ++|+| .++||+|+|+|++..++|.|.|++ ||+|.+|+.++ +.+...+..-...++.....+.|....+|.
T Consensus        41 dideC-~~~pC~ngg~C~n~~g~y~C~C~~-Gf~G~~Ce~~i~deC~~~~~~C~~~C~n~~gsy~C~C~~Gy~  111 (195)
T 1nfu_B           41 DGDQC-ETSPCQNQGKCKDGLGEYTCTCLE-GFEGKNCELFTRKLCSLDNGDCDQFCHEEQNSVVCSCARGYT  111 (195)
T ss_dssp             ------------------------------------------CCGGGTGGGGCSSEEEEETTEEEEECCTTEE
T ss_pred             CCccc-CCCCCCCCCEeECCCCCeeEeCCC-CceeccccccccccccCCCCCCCCEeECCCCCeEEECCCCce
Confidence            67899 699999999999999999999999 99999999866 555432221111455556667777766665

>1aut_L Activated protein C; serine proteinase, plasma calcium binding, glycoprotein, HYD hydrolase inhibitor complex, blood clotting; HET: 0G6; 2.80A {Homo sapiens} SCOP: g.3.11.1 g.3.11.1 PDB: 3f6u_L*

Probab=98.59  E-value=3.7e-08  Score=67.73  Aligned_cols=70  Identities=21%  Similarity=0.403  Sum_probs=49.2

Q ss_pred             ccCCCCCCCC--------CCCCCeeeeCCCCceEEecCCCeeccccccCcc--ceeeccceeeccccccceeeEeccCCC
Q psy10055         25 VLDPCEEHDP--------CKHGGICISTDSGPICECRNLDFEGIYCEKVEI--SVVRAISMRVRGSRKKLRLIECEDGAG   94 (124)
Q Consensus        25 ~~d~C~~~nP--------C~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~~--~~~~~~~~~~r~~~~~~~~~~C~~~~~   94 (124)
                      ++|+| ..+|        |.++|+|++..++|.|.|++ ||+|..|+....  ++......-...+++....+.|....+
T Consensus         5 d~d~C-~~~p~~~~C~~~C~~~g~C~~~~~~y~C~C~~-G~~G~~C~~~~~~~~C~~~~~~C~~~C~n~~g~y~C~C~~G   82 (114)
T 1aut_L            5 DGDQC-LVLPLEHPCASLCCGHGTCIDGIGSFSCDCRS-GWEGRFCQREVSFLNCSLDNGGCTHYCLEEVGWRRCSCAPG   82 (114)
T ss_dssp             ---CC-CCCSSCCSSSSTTTTSEEECCCSSCCCEEECT-TEESTTSCEECCSSSSSSGGGGCSSEEEECSSSEEEECCTT
T ss_pred             ecccc-cCCCccccccccCCCcCCCCCCCCCcEeeCCC-CCcCCCcCcCCcCCcCcCCCCCCCCEeECCCCCEEeECCCC
Confidence            56889 6899        99999999999999999999 999999987543  343222211114556666677877766


Q ss_pred             cC
Q psy10055         95 MD   96 (124)
Q Consensus        95 mv   96 (124)
                      |.
T Consensus        83 ~~   84 (114)
T 1aut_L           83 YK   84 (114)
T ss_dssp             EE
T ss_pred             ee
Confidence            64

>2vh0_B Activated factor XA light chain; serine protease, EGF-like domain, blood coagulation, polymorphism, glycoprotein, hydroxylation; HET: GSI; 1.7A {Homo sapiens} PDB: 1ezq_B* 1f0s_B* 1ksn_B* 1f0r_B* 1lpk_A* 1lpz_A* 1lqd_A* 1nfw_B* 1nfx_B* 1nfy_B* 2boh_A* 2cji_B* 1lpg_A* 2j34_B* 2j38_B* 2j2u_B* 2j94_B* 2j95_B* 2uwl_B* 2j4i_B* ...

Probab=98.56  E-value=1.2e-08  Score=72.33  Aligned_cols=70  Identities=23%  Similarity=0.385  Sum_probs=15.3

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCc-cceeeccceeeccccccceeeEeccCCCcC
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVE-ISVVRAISMRVRGSRKKLRLIECEDGAGMD   96 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~-~~~~~~~~~~~r~~~~~~~~~~C~~~~~mv   96 (124)
                      ++|+| .++||+|+|+|++..++|.|.|++ ||+|..|+..+ +.+...+..-...++.....+.|....+|.
T Consensus        41 d~d~C-~~~pC~n~g~C~~~~~~y~C~C~~-G~~G~~C~~~i~d~C~~~~~~C~~~C~~~~g~y~C~C~~Gy~  111 (134)
T 2vh0_B           41 DGDQC-ETSPCQNQGKCKDGLGEYTCTCLE-GFEGKNCELFTRKLCSLDNGDCDQFCHEEQNSVVCSCARGYT  111 (134)
T ss_dssp             ------------------------------------------CCGGGTGGGGCSSEEEEETTEEEEECCTTEE
T ss_pred             CcCcC-CCCCCCCcCCcccCCCCEEeeCCC-CccCCccccCCCCccccCCCCCCCEeECCCCCEEEECCCCcE
Confidence            67899 699999999999999999999999 99999999865 545432221111455556667777776654

>1emn_A Fibrillin; extracellular matrix, calcium-binding, glycoprotein, repeat, signal, multigene family, disease mutation, matrix protein; NMR {Homo sapiens} SCOP: g.3.11.1 g.3.11.1 PDB: 1emo_A

Probab=98.45  E-value=2.2e-07  Score=60.55  Aligned_cols=69  Identities=30%  Similarity=0.558  Sum_probs=51.7

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCee--ccccccCcccee-eccceeeccccccceeeEeccCCCcCC
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFE--GIYCEKVEISVV-RAISMRVRGSRKKLRLIECEDGAGMDP   97 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~--G~~Ce~~~~~~~-~~~~~~~r~~~~~~~~~~C~~~~~mvp   97 (124)
                      ++|+|..++||.| ++|++..++|.|.|++ ||.  |..|+ +++++. ..++.. ..+++....+.|....+|..
T Consensus         4 dideC~~~~~C~~-g~C~n~~g~y~C~C~~-Gy~~~g~~C~-dideC~~~~~C~~-~~C~n~~g~y~C~C~~G~~g   75 (82)
T 1emn_A            4 DMDECKEPDVCKH-GQCINTDGSYRCECPF-GYILAGNECV-DTDECSVGNPCGN-GTCKNVIGGFECTCEEGFEP   75 (82)
T ss_dssp             CCCSSSSTTSCSS-SEECCCSSCCCEECCT-TEEEETTEEE-ECCGGGTCCTTSS-SCEEECSSSEEECCSSSSCC
T ss_pred             ccccCCCCCCcCC-CEEEecCCCEEEECCC-CeECCCCccC-CcccccCCCCCCC-CEeECCCCCEEeECCCCeEe
Confidence            6789932489987 7999999999999999 997  99994 556664 344433 35666777788888777654

>3ca7_A Protein spitz; argos, EGF, developmental protein, differentiation, EGF-like domain, endoplasmic reticulum, glycoprotein, golgi apparatus; 1.50A {Drosophila melanogaster} PDB: 3c9a_C 3ltg_D

Probab=98.44  E-value=5.1e-08  Score=59.04  Aligned_cols=34  Identities=29%  Similarity=0.470  Sum_probs=29.1

Q ss_pred             CCCCCCCCeeee----CCCCceEEecCCCeeccccccCc
Q psy10055         32 HDPCKHGGICIS----TDSGPICECRNLDFEGIYCEKVE   66 (124)
Q Consensus        32 ~nPC~ngG~C~~----~~~~y~C~C~~tg~~G~~Ce~~~   66 (124)
                      ++||+|||+|+.    ..++|.|.|++ ||+|.+||...
T Consensus        13 ~~pC~NGGtC~~~~~~~~~~y~C~C~~-Gf~G~~Ce~~~   50 (52)
T 3ca7_A           13 AWYCLNDAHCFAVKIADLPVYSCECAI-GFMGQRCEYKE   50 (52)
T ss_dssp             HHTSCTTCEEEEEEETTEEEEEEECCT-TEESTTSCEEC
T ss_pred             CCcCCCCCEEecCccCCCCCEEEECCC-CCcCCCCcccc
Confidence            569999999996    34679999999 99999998653

>4d90_A EGF-like repeat and discoidin I-like domain-conta protein 3; RGD finger, cell adhesion, innate immunity, extracellular MA protein; HET: NGA NAG FUC; 2.60A {Homo sapiens}

Probab=98.40  E-value=1.6e-07  Score=65.75  Aligned_cols=36  Identities=36%  Similarity=0.960  Sum_probs=29.2

Q ss_pred             CCCCCCCCCCCCCeeeeCC--CCceEEecCCCeecccccc
Q psy10055         27 DPCEEHDPCKHGGICISTD--SGPICECRNLDFEGIYCEK   64 (124)
Q Consensus        27 d~C~~~nPC~ngG~C~~~~--~~y~C~C~~tg~~G~~Ce~   64 (124)
                      |+| .++||.++++|++..  ++|.|.|++ ||+|..|+.
T Consensus         1 d~C-~~~pC~~~g~C~~~~~~g~~~C~C~~-G~~G~~C~~   38 (143)
T 4d90_A            1 DIC-DPNPCENGGICLPGLADGSFSCECPD-GFTDPNCSS   38 (143)
T ss_dssp             --C-CSCCCGGGCEEEC-----CCEEECCT-TCCTTTTCS
T ss_pred             CcC-CCCcCCCCCEeeCCCCCCCEEeECCC-CCCCCCCcc
Confidence            579 699999999999866  579999999 999999986

>2fd6_A Urokinase-type plasminogen activator; UPAR, ATF, ATN-615 antibody, FAB, ternary complex, immune SY hydrolase; HET: PGE NAG FUC NDG PG4; 1.90A {Homo sapiens} SCOP: g.3.11.1 g.14.1.1 PDB: 3bt2_A* 3bt1_A* 3u73_A* 1urk_A* 3laq_A* 1kdu_A

Probab=98.36  E-value=3.3e-07  Score=64.38  Aligned_cols=63  Identities=24%  Similarity=0.400  Sum_probs=48.5

Q ss_pred             CCCCCCeeeeCC--CCc-eEEecCCCeeccccccCcc-ceeeccceeeccccccce-eeEeccCCCcCC
Q psy10055         34 PCKHGGICISTD--SGP-ICECRNLDFEGIYCEKVEI-SVVRAISMRVRGSRKKLR-LIECEDGAGMDP   97 (124)
Q Consensus        34 PC~ngG~C~~~~--~~y-~C~C~~tg~~G~~Ce~~~~-~~~~~~~~~~r~~~~~~~-~~~C~~~~~mvp   97 (124)
                      ||+|||+|++..  .+| +|.|++ +|+|.+|+.+.. ++....+..+|+...... ...|..|.+..+
T Consensus         2 pC~nggtC~~~~~~~~~~~C~Cp~-g~~G~~Ce~~~~~~C~~g~G~~YrG~~~~t~sG~~Cq~W~s~~~   69 (122)
T 2fd6_A            2 DCLNGGTCVSNKYFSNIHWCNCPK-KFGGQHCEIDKSKTCYEGNGHFYRGKASTDTMGRPCLPWNSATV   69 (122)
T ss_dssp             CCCSSCEEEECTTTTTCEEEECCT-TEESTTSCEESSCCSBCSSCTTCCSCCCBBTTSCBBCCTTSTTG
T ss_pred             CCCCcCCcCCCcccCCCCCccCCC-CCCCccccccCcCCCcccccccceeeccccccCCcccCccCCCc
Confidence            899999999874  566 999999 999999998865 555455566777665543 488999977554

>1lmj_A Fibrillin 1; EGF, calcium, microfibril, neonatal, marfan syndrome, connective tissue, extracellular matrix, structural protein; NMR {Homo sapiens} SCOP: g.3.11.1 g.3.11.1

Probab=98.36  E-value=2e-07  Score=61.07  Aligned_cols=68  Identities=24%  Similarity=0.423  Sum_probs=50.0

Q ss_pred             ccCCCCCCCC--CCCCCeeeeCCCCceEEecCCCee-----ccccccCccceeeccce-eeccccccceeeEeccCCCcC
Q psy10055         25 VLDPCEEHDP--CKHGGICISTDSGPICECRNLDFE-----GIYCEKVEISVVRAISM-RVRGSRKKLRLIECEDGAGMD   96 (124)
Q Consensus        25 ~~d~C~~~nP--C~ngG~C~~~~~~y~C~C~~tg~~-----G~~Ce~~~~~~~~~~~~-~~r~~~~~~~~~~C~~~~~mv   96 (124)
                      ++|+| ..+|  |.++ +|++..++|.|.|++ ||+     |..|+ +++++...+.. ....+++....+.|....+|.
T Consensus         2 dideC-~~~~~~C~~g-~C~n~~g~y~C~C~~-Gy~~~~~~g~~C~-dideC~~~~~~C~~~~C~n~~g~y~C~C~~G~~   77 (86)
T 1lmj_A            2 DIDEC-RISPDLCGRG-QCVNTPGDFECKCDE-GYESGFMMMKNCM-DIDECQRDPLLCRGGVCHNTEGSYRCECPPGHQ   77 (86)
T ss_dssp             CCCTT-TTCSSTTTTS-CEEEETTEEEECCCS-SEEECTTTSSSEE-ECCHHHHCSSTTTTSEEEEETTEEEEESCTTSC
T ss_pred             ccccc-cCCCCCCCCC-EEECCCCCEEeeCCC-CcCccCCCCCccC-CcccccCCCCcCCCCEeEcCCCCEEEECcCCcc
Confidence            57899 5766  9876 999999999999999 998     78896 66666544421 123466667778888776664

>3ltf_D Protein spitz; receptor-ligand complex ectodomain cysteine rich domain EGF ATP-binding, kinase, nucleotide-binding, receptor; HET: NAG MAN; 3.20A {Drosophila melanogaster}

Probab=98.28  E-value=2.3e-07  Score=57.74  Aligned_cols=32  Identities=31%  Similarity=0.551  Sum_probs=27.6

Q ss_pred             CCCCCCeee--e--CCCCceEEecCCCeeccccccCc
Q psy10055         34 PCKHGGICI--S--TDSGPICECRNLDFEGIYCEKVE   66 (124)
Q Consensus        34 PC~ngG~C~--~--~~~~y~C~C~~tg~~G~~Ce~~~   66 (124)
                      ||+|||+|+  +  ..+.|.|.|++ ||+|.+||...
T Consensus        15 pC~NGGtC~~~~~~~~~~~~C~C~~-Gf~G~~Ce~~~   50 (58)
T 3ltf_D           15 YCLNDAHCFAVKIADLPVYSCECAI-GFMGQRCEYKE   50 (58)
T ss_dssp             TSCSSCEEEEEEETTEEEEEEEECT-TEESSSSCEEC
T ss_pred             cCCCCCEEeCCccCCCCCEEeECCC-CCccCCCcccC
Confidence            999999998  3  44578999999 99999998754

>1z6c_A Vitamin K-dependent protein S; EGF module, blood clotting; NMR {Homo sapiens}

Probab=98.28  E-value=2.2e-07  Score=61.06  Aligned_cols=61  Identities=18%  Similarity=0.346  Sum_probs=48.4

Q ss_pred             ccCCCCCCCC--CCCCCeeeeCCCCceEEecCCCee----ccccccCccceeeccceeeccccccceeeEecc
Q psy10055         25 VLDPCEEHDP--CKHGGICISTDSGPICECRNLDFE----GIYCEKVEISVVRAISMRVRGSRKKLRLIECED   91 (124)
Q Consensus        25 ~~d~C~~~nP--C~ngG~C~~~~~~y~C~C~~tg~~----G~~Ce~~~~~~~~~~~~~~r~~~~~~~~~~C~~   91 (124)
                      ++|+| ..+|  | ++++|++..++|.|.|++ ||+    |..|+ +++++...++.  ..+++.+..|.|..
T Consensus         2 dideC-~~~~~~C-~~~~C~n~~g~y~C~C~~-G~~~~~~g~~C~-dideC~~~~C~--~~C~n~~g~y~C~C   68 (87)
T 1z6c_A            2 DVDEC-SLKPSIC-GTAVCKNIPGDFECECPE-GYRYNLKSKSCE-DIDECSENMCA--QLCVNYPGGYTCYC   68 (87)
T ss_dssp             CSCSS-SSSSSSB-TTSSCCCBTTBCCCSSST-TCEEETTTTEEE-CCCHHHHSCCS--SEECCCSSSCCEEC
T ss_pred             ccccc-cCCCCCC-CCCEeECCCCCEEEECCC-CceECCCCCcCC-CcCeeCCCCCC--CEEEccCCCEEEEC
Confidence            56899 6888  9 889999999999999999 999    88995 66777555553  35667777777777

>1q4g_A Prostaglandin G/H synthase 1; cyclooxygenase, non-steroidal anti-inflammatory drug, peroxi prostaglandin synthase, EGF-like domain; HET: BOG NAG NDG BMA MAN BFL HEM; 2.00A {Ovis aries} SCOP: a.93.1.2 g.3.11.1 PDB: 1diy_A* 2ayl_A* 3kk6_A* 3n8v_A* 3n8w_A* 3n8x_A* 3n8y_A* 3n8z_A* 2oyu_P* 2oye_P* 1eqg_A* 1cqe_A* 1eqh_A* 1igz_A* 1igx_A* 1fe2_A* 1pge_A* 1pgf_A* 1pgg_A* 3n8w_B* ...

Probab=98.23  E-value=3.8e-07  Score=78.31  Aligned_cols=39  Identities=33%  Similarity=0.856  Sum_probs=36.0

Q ss_pred             cCCCCCCCCCCCCCeeee-CCCCceEEec-CCCeeccccccCc
Q psy10055         26 LDPCEEHDPCKHGGICIS-TDSGPICECR-NLDFEGIYCEKVE   66 (124)
Q Consensus        26 ~d~C~~~nPC~ngG~C~~-~~~~y~C~C~-~tg~~G~~Ce~~~   66 (124)
                      .|+| .++||+|||+|++ ..++|.|.|+ + ||+|.+||...
T Consensus         2 ~d~C-~~~PC~ngG~C~~~~~~~y~C~C~~~-G~~G~~Ce~~~   42 (553)
T 1q4g_A            2 VNPC-CYYPCQHQGICVRFGLDRYQCDCTRT-GYSGPNCTIPE   42 (553)
T ss_dssp             CCGG-GGCCCCTTCEEEEETTTEEEEECTTS-SEETTTTCEEC
T ss_pred             CCcC-CCCCCCCCCCcCCCCCCceEeeCCCC-CcCCCCCCCCc
Confidence            5789 6999999999999 8999999999 8 99999999865

>2bou_A EGF-like module containing mucin-like hormone receptor-like 2 precursor; CD97, CD55, 7TM, calcium-binding, cell adhesion, EGF-LI domain; 1.90A {Homo sapiens} PDB: 2bo2_A 2box_A

Probab=98.19  E-value=8.8e-07  Score=62.38  Aligned_cols=70  Identities=16%  Similarity=0.291  Sum_probs=50.3

Q ss_pred             ccCCCCCCC---CCCCCCeeeeCCCCceEEecCCCeecc------------ccccCccceee--ccceeeccccccceee
Q psy10055         25 VLDPCEEHD---PCKHGGICISTDSGPICECRNLDFEGI------------YCEKVEISVVR--AISMRVRGSRKKLRLI   87 (124)
Q Consensus        25 ~~d~C~~~n---PC~ngG~C~~~~~~y~C~C~~tg~~G~------------~Ce~~~~~~~~--~~~~~~r~~~~~~~~~   87 (124)
                      ++++| ...   ||.++++|++..++|.|.|++ ||+|.            .|+ +++++..  .++.....+++....+
T Consensus        43 dideC-~~~~~~~C~~~~~C~n~~g~y~C~C~~-Gy~g~~~~~~~~~~~~~~C~-dideC~~~~~~C~~~~~C~n~~g~y  119 (143)
T 2bou_A           43 DINEC-ATLSKVSCGKFSDCWNTEGSYDCVCSP-GYEPVSGAKTFKNESENTCQ-DVDECSSGQHQCDSSTVCFNTVGSY  119 (143)
T ss_dssp             ECCGG-GC----CCCTTEEEEECSSCEEEEECT-TEEETTCCSCBSSGGGCCEE-ECCHHHHTCCCCCTTSEEEECSSCE
T ss_pred             ccccc-cCCCCCCCCCCCEEEcCCCCeEeECCC-CcccCcCccccccCCCCCcC-CccCccCcCCCCCCCCEEECCCCCE
Confidence            67899 454   999999999999999999999 99987            443 4444432  3444334566666778


Q ss_pred             EeccCCCcCC
Q psy10055         88 ECEDGAGMDP   97 (124)
Q Consensus        88 ~C~~~~~mvp   97 (124)
                      .|....+|..
T Consensus       120 ~C~C~~Gy~g  129 (143)
T 2bou_A          120 SCRCRPGWKP  129 (143)
T ss_dssp             EEECCSSSCB
T ss_pred             EeeCCCCccc
Confidence            8877766644

>2i9a_A Urokinase-type plasminogen activator; growth factor-like domain, kringle domain, hydrolase; 1.90A {Homo sapiens} SCOP: g.3.11.1 g.14.1.1 PDB: 2i9b_A*

Probab=98.18  E-value=1.4e-06  Score=63.12  Aligned_cols=63  Identities=24%  Similarity=0.374  Sum_probs=50.8

Q ss_pred             CCCCCCeeeeC--CCCc-eEEecCCCeeccccccCcc-ceeeccceeeccccccce-eeEeccCCCcCC
Q psy10055         34 PCKHGGICIST--DSGP-ICECRNLDFEGIYCEKVEI-SVVRAISMRVRGSRKKLR-LIECEDGAGMDP   97 (124)
Q Consensus        34 PC~ngG~C~~~--~~~y-~C~C~~tg~~G~~Ce~~~~-~~~~~~~~~~r~~~~~~~-~~~C~~~~~mvp   97 (124)
                      ||+|||+|+..  ...| .|.|++ +|.|.+|+.+.. ++....+..+|+.+..+. ...|..|.+..+
T Consensus        14 pC~NGGtC~~~~~~s~~~~C~Cp~-g~~G~~Cei~~~~~C~~g~G~~YrG~~s~T~sG~~Cq~W~s~~~   81 (145)
T 2i9a_A           14 DCLNGGTCVSNKYFSNIHWCNCPK-KFGGQHCEIDKSKTCYEGNGHFYRGKASTDTMGRPCLPWNSATV   81 (145)
T ss_dssp             CCCTTCEEEECSSSTTCEEEECCT-TEESTTSCEESSCCEECTTCTTCCSCCCBBTTSCBCCCTTSTTG
T ss_pred             CCCCCCCcCCCccccCCccccCCC-CCCCCceeccccccCCCCCccccccceecCCcCCcccCCccCCc
Confidence            89999999876  3566 899999 999999998865 566667778888886544 489999977654

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=98.11  E-value=6.9e-07  Score=76.41  Aligned_cols=50  Identities=54%  Similarity=0.632  Sum_probs=38.7

Q ss_pred             cceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhccC
Q psy10055         73 ISMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQKR  124 (124)
Q Consensus        73 ~~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~~  124 (124)
                      |.+..|..+..++.  +.-++.  |.|   |||++|||++|+|||+||+|+|+||+.
T Consensus       134 p~~~~R~~v~epl~TGikaID~--l~PigrGQR~~Ifg~~g~GKT~l~l~~I~n~~~  188 (513)
T 3oaa_A          134 PGVIERQSVDQPVQTGYKAVDS--MIPIGRGQRELIIGDRQTGKTALAIDAIINQRD  188 (513)
T ss_dssp             CCSSSCCCCCCBCCCSCHHHHH--HSCCBTTCBCEEEESSSSSHHHHHHHHHHTTSS
T ss_pred             CCccccCCcCcccccceeeecc--ccccccCCEEEeecCCCCCcchHHHHHHHhhcc
Confidence            44455555555544  566666  556   999999999999999999999999974

>3nt1_A Prostaglandin-endoperoxide synthase 2; prostaglandin H2 synthase, cyclooxygenase-2, naproxen, oxido; HET: NAG BOG NPS HEM; 1.73A {Mus musculus} PDB: 3ln1_A* 3mqe_A* 3ln0_A* 3ntb_A* 3q7d_A* 4fm5_A* 1pxx_A* 3pgh_A* 1cx2_A* 4cox_A* 5cox_A* 6cox_A* 3qh0_A* 3qmo_A* 4e1g_A* 3olu_A* 3olt_A* 3hs5_A* 3hs6_A* 3hs7_A* ...

Probab=98.11  E-value=1.3e-06  Score=75.66  Aligned_cols=39  Identities=33%  Similarity=0.811  Sum_probs=34.5

Q ss_pred             cCCCCCCCCCCCCCeeee-CCCCceEEec-CCCeeccccccCc
Q psy10055         26 LDPCEEHDPCKHGGICIS-TDSGPICECR-NLDFEGIYCEKVE   66 (124)
Q Consensus        26 ~d~C~~~nPC~ngG~C~~-~~~~y~C~C~-~tg~~G~~Ce~~~   66 (124)
                      +|+| .++||+|||+|++ ..++|.|.|+ + ||+|.+|+...
T Consensus         1 vd~C-~s~PC~ngG~C~~~~~~~y~C~C~~~-G~~G~~Ce~~~   41 (587)
T 3nt1_A            1 ANPC-CSNPCQNRGECMSTGFDQYKCDCTRT-GFYGENCTTPE   41 (587)
T ss_dssp             CCTT-TTCCCCTTCEEEEEETTEEEEECTTS-SEETTTTCEEC
T ss_pred             CCCC-CCCCCCCCCEeeCCCCCCeEEecCCC-CccCCCCCCch
Confidence            3789 6999999999995 5689999999 8 99999999863

>1z1y_A Ookinete surface protein PVS25; four EGF-like domains, cell adhesion; HET: MLY; 2.00A {Plasmodium vivax} PDB: 1z27_A 1z3g_A

Probab=98.07  E-value=1.4e-06  Score=63.83  Aligned_cols=79  Identities=15%  Similarity=0.215  Sum_probs=55.0

Q ss_pred             cccccccc------ccCCCCC----CCCCCCCCeeeeCC-----CCceEEecCCCeeccccccCccceeeccceeecccc
Q psy10055         17 CHYSVENS------VLDPCEE----HDPCKHGGICISTD-----SGPICECRNLDFEGIYCEKVEISVVRAISMRVRGSR   81 (124)
Q Consensus        17 c~~~v~~~------~~d~C~~----~nPC~ngG~C~~~~-----~~y~C~C~~tg~~G~~Ce~~~~~~~~~~~~~~r~~~   81 (124)
                      |..++...      ++++| .    ++||.++++|++..     ++|.|.|++ ||+|..++-.++++...++.....++
T Consensus        29 C~~G~~g~~~~~C~~id~C-~~~~~~~~C~~~~~C~~~~~~~~~g~y~C~C~~-G~~g~~~~C~~d~C~~~~C~~~g~C~  106 (186)
T 1z1y_A           29 CNEGLVHLSENTCEEXNEC-XXETLGXACGEFGQCIENPDPAQVNMYXCGCIE-GYTLXEDTCVLDVCQYXNCGESGECI  106 (186)
T ss_dssp             ECTTEEEEETTEEEECCCC-SGGGTTSEEETTEEEEECSSTTSSCSEEEEECT-TEEEETTEEEEGGGTTCCCCTTEEEE
T ss_pred             CCCCCccCCCCccCCCCcc-cCCCCCCCCCCCCEeecCCCCcCCCCEECCCCC-CCccCCCCCCCCcCcCCCCCCCCEEe
Confidence            55666543      67899 6    78999999999998     899999999 99998554334555444443333344


Q ss_pred             ----ccceeeEeccCCCcCC
Q psy10055         82 ----KKLRLIECEDGAGMDP   97 (124)
Q Consensus        82 ----~~~~~~~C~~~~~mvp   97 (124)
                          .....+.|....+|..
T Consensus       107 ~~~~~~~g~~~C~C~~Gy~g  126 (186)
T 1z1y_A          107 VEYLSEIQSAGCSCAIGXVP  126 (186)
T ss_dssp             EEEETTEEEEEEEECTEEEE
T ss_pred             eCCcCCCCCceEECCCCCcc
Confidence                4555677777766643

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=97.97  E-value=3.3e-06  Score=72.17  Aligned_cols=50  Identities=50%  Similarity=0.568  Sum_probs=38.5

Q ss_pred             cceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhccC
Q psy10055         73 ISMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQKR  124 (124)
Q Consensus        73 ~~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~~  124 (124)
                      |.+..|..+..++.  +.-++.  |.|   |||++|||++|+|||+||+|+|+||+.
T Consensus       135 p~~~~R~~v~epl~TGiraID~--l~PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~~  189 (507)
T 1fx0_A          135 PGIMSRRSVYEPLQTGLIAIDA--MIPVGRGQRELIIGDRQTGKTAVATDTILNQQG  189 (507)
T ss_dssp             CCSSSBCCCCSBCCCSCTTTTT--TSCCBTTCBCBEEESSSSSHHHHHHHHHHTCCT
T ss_pred             CCcccccccCCcccccceeccc--ccccccCCEEEEecCCCCCccHHHHHHHHHhhc
Confidence            34445555555444  566666  556   999999999999999999999999973

>1g1s_A P-selectin; selectin, lectin, EGF, sulphated, SLEX, immune system, membr protein; HET: TYS SIA GAL NAG FUC NGA; 1.90A {Homo sapiens} SCOP: d.169.1.1 g.3.11.1 PDB: 1g1r_A* 1g1q_A* 1fsb_A

Probab=97.97  E-value=2.8e-06  Score=60.38  Aligned_cols=39  Identities=31%  Similarity=0.669  Sum_probs=35.4

Q ss_pred             cCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCc
Q psy10055         26 LDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVE   66 (124)
Q Consensus        26 ~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~   66 (124)
                      .+.| .++||+++|+|++..+.|.|.|++ ||+|.+||...
T Consensus       119 ~~~c-~~~~C~~~g~C~~~~~~~~c~C~~-g~~G~~Ce~~~  157 (162)
T 1g1s_A          119 TASC-QDMSCSKQGECLETIGNYTCSCYP-GFYGPECEYVR  157 (162)
T ss_dssp             ECCC-CTTGGGGSEEEEECSSSEEEEECT-TEESTTSCEEC
T ss_pred             eCCC-cCCCCCCCCEEecCCCCceEeCCC-CCcCcccccCc
Confidence            4678 699999999999999999999999 99999998763

>1yo8_A Thrombospondin-2; EGF, Ca(2+)-binding domains, lectin domain, disulfide, cell; HET: NAG MAN; 2.60A {Homo sapiens} PDB: 2rhp_A*

Probab=97.94  E-value=4.3e-06  Score=73.07  Aligned_cols=71  Identities=21%  Similarity=0.270  Sum_probs=53.8

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCC-ceE-EecCCCeec--cccccCccceeecc--ceeec---cccccceeeEec-cCCC
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSG-PIC-ECRNLDFEG--IYCEKVEISVVRAI--SMRVR---GSRKKLRLIECE-DGAG   94 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~-y~C-~C~~tg~~G--~~Ce~~~~~~~~~~--~~~~r---~~~~~~~~~~C~-~~~~   94 (124)
                      ++++| .++||.++++|++..++ |+| .|++ ||+|  ..|+ ++++|...+  +....   .++.....+.|. +..+
T Consensus         2 DIDeC-~~nPC~~gg~C~n~~~Gsy~C~~C~~-GytGdg~~Ce-DiDEC~~~p~~C~~gg~~~~CvNt~gsY~C~~C~~G   78 (634)
T 1yo8_A            2 DPDGC-LSNPCFPGAQCSSFPDGSWSCGFCPV-GFLGNGTHCE-DLDECALVPDICFSTSKVPRCVNTQPGFHCLPCPPR   78 (634)
T ss_dssp             --CGG-GGCCSCTTCCEEECTTSCEEECCCCT-TBCSCSSSCC-BCCTTTTSCCCSCCCSSSCCEEECSSSEEECCCCTT
T ss_pred             ccccc-CCCCCCCCCEEecCCCCCeECCcCCC-ccCCCCCCcc-ccccccCCCCcccCCccccceeeccCceecccCCCC
Confidence            46889 69999999999998865 999 9999 9998  8996 667776555  55444   566677778888 7766


Q ss_pred             cCCC
Q psy10055         95 MDPP   98 (124)
Q Consensus        95 mvp~   98 (124)
                      |.+.
T Consensus        79 y~G~   82 (634)
T 1yo8_A           79 YRGN   82 (634)
T ss_dssp             EEEC
T ss_pred             cccC
Confidence            6543

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=97.91  E-value=3.2e-06  Score=72.18  Aligned_cols=49  Identities=57%  Similarity=0.675  Sum_probs=37.2

Q ss_pred             ceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhccC
Q psy10055         74 SMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQKR  124 (124)
Q Consensus        74 ~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~~  124 (124)
                      .+..|..+..++.  +.-++.  |.|   |||++|||++|+|||+||+|+|+||+.
T Consensus       135 ~~~~R~~v~epl~TGiraID~--l~PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~~  188 (502)
T 2qe7_A          135 GVMDRKSVHEPLQTGIKAIDS--MIPIGRGQRELIIGDRQTGKTTIAIDTIINQKG  188 (502)
T ss_dssp             CTTSBCCCCSBCCCSCHHHHH--SSCCBTTCBCEEEECSSSCHHHHHHHHHHGGGS
T ss_pred             CcccccCCCCccccceeeccc--ccccccCCEEEEECCCCCCchHHHHHHHHHhhc
Confidence            3444555544444  555666  555   999999999999999999999999973

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=97.90  E-value=2.3e-06  Score=73.17  Aligned_cols=48  Identities=56%  Similarity=0.704  Sum_probs=36.2

Q ss_pred             ceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         74 SMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        74 ~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      .+..|..+..++.  +.-++.  |.|   |||++|||++|+|||+||+|+|+||+
T Consensus       135 ~~~~R~~v~epl~TGiraID~--l~PigrGQR~~I~g~~g~GKT~Lal~~I~~q~  187 (510)
T 2ck3_A          135 GIIPRISVREPMQTGIKAVDS--LVPIGRGQRELIIGDRQTGKTSIAIDTIINQK  187 (510)
T ss_dssp             CSTTBCCCCSBCCCSCHHHHH--HSCCBTTCBCEEEESTTSSHHHHHHHHHHHTH
T ss_pred             CcccccccCccccccceeecc--ccccccCCEEEEecCCCCCchHHHHHHHHHHH
Confidence            3444444444443  455555  555   99999999999999999999999996

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=97.88  E-value=3.3e-06  Score=72.28  Aligned_cols=49  Identities=57%  Similarity=0.674  Sum_probs=36.6

Q ss_pred             ceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhccC
Q psy10055         74 SMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQKR  124 (124)
Q Consensus        74 ~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~~  124 (124)
                      .+..|..+..++.  +.-++.  |.|   |||++|||++|+|||+||+|+|+||+.
T Consensus       148 ~~~~R~~v~epl~TGiraID~--l~PigrGQR~~I~g~~g~GKT~Lal~~I~~~~~  201 (515)
T 2r9v_A          148 GVIYRKPVDTPLQTGIKAIDS--MIPIGRGQRELIIGDRQTGKTAIAIDTIINQKG  201 (515)
T ss_dssp             CGGGBCCCCSEECCSCHHHHH--HSCEETTCBEEEEEETTSSHHHHHHHHHHTTTT
T ss_pred             CcccccCCCcchhcCcccccc--ccccccCCEEEEEcCCCCCccHHHHHHHHHhhc
Confidence            3344444444443  455555  556   999999999999999999999999973

>3asi_A Neurexin-1-alpha; beta-sandwich, cell adhesion, synapse maturation, neuroligin glycosylation, membrane; HET: NAG; 2.30A {Bos taurus}

Probab=97.87  E-value=8.6e-06  Score=66.00  Aligned_cols=40  Identities=28%  Similarity=0.775  Sum_probs=35.7

Q ss_pred             cCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCc
Q psy10055         26 LDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVE   66 (124)
Q Consensus        26 ~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~   66 (124)
                      .+.| .++||+|+|+|++.+++|.|.|+.++|.|+.|+...
T Consensus       185 ~~~C-~~~pC~n~g~C~~~~~~~~C~C~~~~~~G~~C~~~~  224 (410)
T 3asi_A          185 STTC-QEDSCSNQGVCLQQWDGFSCDCSMTSFSGPLCNDPG  224 (410)
T ss_dssp             SSCC-CTTSSSTTCEEEECSSSEEEECTTTSEESTTSCEEC
T ss_pred             CCCc-ccccCCCCCEecCCCCCceEeccCCcccCCCCCCCc
Confidence            4679 699999999999999999999995599999998754

>1z1y_A Ookinete surface protein PVS25; four EGF-like domains, cell adhesion; HET: MLY; 2.00A {Plasmodium vivax} PDB: 1z27_A 1z3g_A

Probab=97.80  E-value=1.1e-05  Score=58.97  Aligned_cols=64  Identities=13%  Similarity=0.221  Sum_probs=46.8

Q ss_pred             CCCCCCCCCeeeeCCCCceEEecCCCeecc---ccccCcccee----eccceeeccccccc-----eeeEeccCCCcCC
Q psy10055         31 EHDPCKHGGICISTDSGPICECRNLDFEGI---YCEKVEISVV----RAISMRVRGSRKKL-----RLIECEDGAGMDP   97 (124)
Q Consensus        31 ~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~---~Ce~~~~~~~----~~~~~~~r~~~~~~-----~~~~C~~~~~mvp   97 (124)
                      .++||.|| +|++..++|.|.|++ ||+|.   .|+ +++++.    ..++.....++...     ..+.|....+|..
T Consensus         9 ~~~pC~ng-~C~~~~g~~~C~C~~-G~~g~~~~~C~-~id~C~~~~~~~~C~~~~~C~~~~~~~~~g~y~C~C~~G~~g   84 (186)
T 1z1y_A            9 VDTICXNG-QLVQMSNHFXCMCNE-GLVHLSENTCE-EXNECXXETLGXACGEFGQCIENPDPAQVNMYXCGCIEGYTL   84 (186)
T ss_dssp             TTCCCBTE-EEEECSSCEEEEECT-TEEEEETTEEE-ECCCCSGGGTTSEEETTEEEEECSSTTSSCSEEEEECTTEEE
T ss_pred             CCCCCCCC-EeECCCCCeEeECCC-CCccCCCCccC-CCCcccCCCCCCCCCCCCEeecCCCCcCCCCEECCCCCCCcc
Confidence            58999987 999999999999999 99988   887 445554    23444434455555     5677777766643

>1yo8_A Thrombospondin-2; EGF, Ca(2+)-binding domains, lectin domain, disulfide, cell; HET: NAG MAN; 2.60A {Homo sapiens} PDB: 2rhp_A*

Probab=97.72  E-value=2.1e-05  Score=68.67  Aligned_cols=81  Identities=21%  Similarity=0.374  Sum_probs=57.4

Q ss_pred             Cccccccccc-----cccCCCCCCCC--CCCCC---eeeeCCCCceEE-ecCCCeeccccc--------------cCccc
Q psy10055         14 CQYCHYSVEN-----SVLDPCEEHDP--CKHGG---ICISTDSGPICE-CRNLDFEGIYCE--------------KVEIS   68 (124)
Q Consensus        14 ~~~c~~~v~~-----~~~d~C~~~nP--C~ngG---~C~~~~~~y~C~-C~~tg~~G~~Ce--------------~~~~~   68 (124)
                      |..|..++..     .++++| ..+|  |.+++   +|++..++|.|. |++ ||+|..|+              +++++
T Consensus        27 C~~C~~GytGdg~~CeDiDEC-~~~p~~C~~gg~~~~CvNt~gsY~C~~C~~-Gy~G~~c~g~g~~~~~~dg~~C~dide  104 (634)
T 1yo8_A           27 CGFCPVGFLGNGTHCEDLDEC-ALVPDICFSTSKVPRCVNTQPGFHCLPCPP-RYRGNQPVGVGLEAAKTEKQVCEPENP  104 (634)
T ss_dssp             ECCCCTTBCSCSSSCCBCCTT-TTSCCCSCCCSSSCCEEECSSSEEECCCCT-TEEECCCEESSSHHHHSCCCCEEECCT
T ss_pred             CCcCCCccCCCCCCccccccc-cCCCCcccCCccccceeeccCceecccCCC-CcccCccccccccccccCCCccccccc
Confidence            4456666544     478999 6888  99999   999999999999 999 99999876              33445


Q ss_pred             eee--ccceeeccccccc----eeeEeccCCCcC
Q psy10055         69 VVR--AISMRVRGSRKKL----RLIECEDGAGMD   96 (124)
Q Consensus        69 ~~~--~~~~~~r~~~~~~----~~~~C~~~~~mv   96 (124)
                      |..  .++.....++...    ..+.|.+..+|.
T Consensus       105 C~~~~~pC~~~~~Cvnt~~~~~GsY~C~C~~Gy~  138 (634)
T 1yo8_A          105 CKDKTHNCHKHAECIYLGHFSDPMYKCECQTGYA  138 (634)
T ss_dssp             TTTTCCCCCTTEEEEECCTTCSSSEEEEECTTEE
T ss_pred             ccCCCcccccCccccccccccccceeeeccCCcc
Confidence            532  2444434455555    567777776664

>4fbr_A Lectin, myxobacterial hemagglutinin; beta-barrel, HIV-inactivating, carbohydrate binding protein; 1.60A {Myxococcus xanthus} PDB: 4fbv_A*

Probab=97.64  E-value=2.3e-06  Score=67.85  Aligned_cols=51  Identities=12%  Similarity=-0.014  Sum_probs=43.3

Q ss_pred             ccccccccccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCccce
Q psy10055         17 CHYSVENSVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEISV   69 (124)
Q Consensus        17 c~~~v~~~~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~~~~   69 (124)
                      |+.+......++| .++||+|+|+|++...+|+|.||+ ||+|.+|+.+++++
T Consensus        90 c~~G~~c~~~~eC-~s~pC~ngG~C~~~~~sy~C~C~~-Gf~G~~Ce~~~d~C  140 (267)
T 4fbr_A           90 WVLGARDKQNIVA-VSIKSNDGGKTLTGTTTYNGEGPI-GFKSEVTDGDTYSV  140 (267)
T ss_dssp             EECCCCSSCCEEE-EEEECSSTTSEEEEEEEETTSCCE-EEEEEECCCCEEEE
T ss_pred             eeccCcccccccc-CCCCCCCCCEEecCCccEEeeCCC-CccccCCCCCcccc
Confidence            4445555566789 699999999999999999999999 99999999987663

>3p5b_L Low density lipoprotein receptor variant; B-propellor, convertase, hydrolase-lipid binding P complex; 3.30A {Homo sapiens} PDB: 3p5c_L

Probab=97.63  E-value=3.9e-05  Score=61.93  Aligned_cols=65  Identities=15%  Similarity=0.251  Sum_probs=49.1

Q ss_pred             CCCCCCCCCCCCCeeeeCCCCceEEecCCCee---ccccccCccceee-ccceeeccccccceeeEeccCCCcC
Q psy10055         27 DPCEEHDPCKHGGICISTDSGPICECRNLDFE---GIYCEKVEISVVR-AISMRVRGSRKKLRLIECEDGAGMD   96 (124)
Q Consensus        27 d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~---G~~Ce~~~~~~~~-~~~~~~r~~~~~~~~~~C~~~~~mv   96 (124)
                      |+| ..+||..+.+|++..++|.|.|++ ||.   |..|+ ++++|.. .++.  ..+++....+.|....+|.
T Consensus         1 ~eC-~~~~~~c~~~C~~~~~~y~C~C~~-G~~~~~~~~C~-dideC~~~~~C~--~~C~n~~g~~~C~C~~g~~   69 (400)
T 3p5b_L            1 NEC-LDNNGGCSHVCNDLKIGYECLCPD-GFQLVAQRRCE-DIDECQDPDTCS--QLCVNLEGGYKCQCEEGFQ   69 (400)
T ss_dssp             CCT-TTTGGGCSSEEEECSSSEEEECCT-TEEECSSSCEE-ECCCCSTTSSCS--SCCBCCSSSCBCCCCTTCC
T ss_pred             Ccc-cCCCCCCCCEeECCCCCeEEECCC-CCCcCCCCccc-CchhhhccCCCC--CccCCCccceeeecccccc
Confidence            578 588988889999999999999999 998   88995 6666642 2332  2566666677777766553

>1g1t_A E-selectin; EGF, adhesion molecule, SLEX, immune system, membrane protein; HET: SIA GAL MAG FUC; 1.50A {Homo sapiens} SCOP: d.169.1.1 g.3.11.1 PDB: 1esl_A

Probab=97.63  E-value=1.7e-05  Score=55.79  Aligned_cols=38  Identities=29%  Similarity=0.814  Sum_probs=34.7

Q ss_pred             cCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccC
Q psy10055         26 LDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        26 ~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      .+.| .++||+++|+|.+.+..|.|.|.+ +|+|.+||++
T Consensus       119 ~~~~-~~~pc~~~g~C~~~~~~~~c~C~~-g~~g~~Ce~~  156 (157)
T 1g1t_A          119 TAAC-TNTSCSGHGECVETINNYTCKCDP-GFSGLKCEQI  156 (157)
T ss_dssp             ECCC-CTTGGGGSEEEEEETTEEEEEECT-TEESTTSCEE
T ss_pred             cCCC-CCCCCCCCCEeecCCCCeeEECCC-CccCcccccc
Confidence            4678 589999999999999999999999 9999999875

>2w86_A Fibrillin-1, fibrillin1; phosphoprotein, EGF-like domain, disease mutation, craniosynostosis, extracellular matrix, fibrillin calcium cbegf hybrid; 1.80A {Homo sapiens}

Probab=97.57  E-value=2.8e-05  Score=54.90  Aligned_cols=34  Identities=32%  Similarity=0.738  Sum_probs=30.2

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccc
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIY   61 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~   61 (124)
                      ++|+| .++||.| |+|++..++|.|.|++ ||+|..
T Consensus         3 dideC-~~~pC~n-g~C~n~~g~y~C~C~~-G~~g~~   36 (147)
T 2w86_A            3 DIDEC-ESSPCIN-GVCKNSPGSFICECSS-ESTLDP   36 (147)
T ss_dssp             CCCGG-GGCCSBT-SEEEEETTEEEEECCT-TEEECT
T ss_pred             cCccC-cCCCCCC-CEeECCCCCEEeECCC-CcccCC
Confidence            67899 6999998 5999999999999999 999753

>2w2n_E LDL receptor, low-density lipoprotein receptor; hydrolase-receptor complex, PCSK9, proprotein converta low-density lipoprotein receptor, EGF; 2.30A {Homo sapiens} PDB: 2w2q_E 2w2o_E 2w2p_E 2w2m_E 3gcw_E 3bps_E 3gcx_E 1hz8_A 1i0u_A 1hj7_A

Probab=97.55  E-value=2.4e-05  Score=53.42  Aligned_cols=65  Identities=17%  Similarity=0.264  Sum_probs=28.3

Q ss_pred             CCCCCCCCCCC--C---CeeeeCCCCceEEecCCCeec---cccccCccceee-ccceeeccccccceeeEeccCCCcC
Q psy10055         27 DPCEEHDPCKH--G---GICISTDSGPICECRNLDFEG---IYCEKVEISVVR-AISMRVRGSRKKLRLIECEDGAGMD   96 (124)
Q Consensus        27 d~C~~~nPC~n--g---G~C~~~~~~y~C~C~~tg~~G---~~Ce~~~~~~~~-~~~~~~r~~~~~~~~~~C~~~~~mv   96 (124)
                      +.| +.+||.+  +   .+|++..++|.|.|++ ||.|   ..|+ +++++.. .++.  ..+++....+.|....+|.
T Consensus        25 ~~C-d~neC~~~~~~C~~~C~n~~g~y~C~C~~-Gy~g~~g~~C~-dideC~~~~~C~--~~C~n~~gsy~C~C~~Gy~   98 (107)
T 2w2n_E           25 GAM-GTNECLDNNGGCSYVCNDLKIGYECLCPD-GFQLVAQRRCE-DIDECQDPDTCS--QLCVNLEGGYKCQCEEGFQ   98 (107)
T ss_dssp             CCB-SCCGGGTGGGGCSSEEECCSBSCEEECCT-TCEEETTTEEE-C--------------------------------
T ss_pred             CCC-cCccCcCCCCCCCCEeEeCCCCeEEECCC-CccccCCCccc-cccccCCCCCcC--CeeecCCCCEEEECCCCce
Confidence            445 4566653  2   3899999999999999 9998   8898 6777742 3442  4566777778887765553

>2vj2_A Jagged-1; signalling, polymorphism, glycoprotein, extracellular, developmental protein, notch signaling pathway, EGF, DSL, notch, calcium, membrane; 2.50A {Homo sapiens} PDB: 2kb9_A

Probab=97.53  E-value=2.9e-05  Score=56.47  Aligned_cols=76  Identities=22%  Similarity=0.436  Sum_probs=52.9

Q ss_pred             cccccccccccCCCCCCCC-CCCCCeeeeCCCCceEEecCCCeeccccccCccceee-ccceeecccccc-ceeeEeccC
Q psy10055         16 YCHYSVENSVLDPCEEHDP-CKHGGICISTDSGPICECRNLDFEGIYCEKVEISVVR-AISMRVRGSRKK-LRLIECEDG   92 (124)
Q Consensus        16 ~c~~~v~~~~~d~C~~~nP-C~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~~~~~~-~~~~~~r~~~~~-~~~~~C~~~   92 (124)
                      .|..++....=++| ..+| |.|| +|+   +.|.|.|++ ||+|..|+.+++++.. .++.....++.. +..+.|...
T Consensus        86 ~C~~G~~G~~C~~C-~~~~~C~~g-~C~---~~~~C~C~~-G~~G~~C~~~~~~C~~~~~C~~~g~C~~~~~~~~~C~C~  159 (169)
T 2vj2_A           86 RCQYGWQGLYCDKC-IPHPGCVHG-ICN---EPWQCLCET-NWGGQLCDKDLNYCGTHQPCLNGGTCSNTGPDKYQCSCP  159 (169)
T ss_dssp             EECTTEESSSSCEE-CCCTTCSSE-ECS---STTCCEECT-TEETTTTCEESCHHHHTCCCCTTCEEEECSTTCEEEECC
T ss_pred             ECCCCCCCCCcccC-CCCCCCCCC-CcC---CCCEEeCCC-CCCCCcccCCCCCCCCCCCCCCCCEEcCCCCCCcEeECC
Confidence            37777776655567 4666 8877 887   578999999 9999999877766643 455554455653 556677766


Q ss_pred             CCcCC
Q psy10055         93 AGMDP   97 (124)
Q Consensus        93 ~~mvp   97 (124)
                      .+|.+
T Consensus       160 ~G~~G  164 (169)
T 2vj2_A          160 EGYSG  164 (169)
T ss_dssp             TTCCS
T ss_pred             CCCcC
Confidence            66765

>4fbr_A Lectin, myxobacterial hemagglutinin; beta-barrel, HIV-inactivating, carbohydrate binding protein; 1.60A {Myxococcus xanthus} PDB: 4fbv_A*

Probab=97.49  E-value=3.1e-06  Score=67.11  Aligned_cols=58  Identities=12%  Similarity=-0.031  Sum_probs=48.2

Q ss_pred             cCCCCccccccccccccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCccce
Q psy10055         10 LCSDCQYCHYSVENSVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEISV   69 (124)
Q Consensus        10 ~~~~~~~c~~~v~~~~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~~~~   69 (124)
                      .|..+.+|..++..+....| .++||+|+|+|++...+|+|.||+ ||+|..|+.+.+++
T Consensus       150 pC~ngg~c~~G~~c~~~i~c-~~~~c~ngg~C~dg~~~y~C~Cp~-Gf~G~~c~~~i~ec  207 (267)
T 4fbr_A          150 PWHSGGVWVLGTRGKQNVIN-VDAKSNDGGKTLSGTMTYNGEGPI-GFRGTLTSPDTYTV  207 (267)
T ss_dssp             CCEEEEEEECCSSTTSCEEE-EEEECSSTTSEEEEEEEETTSCCE-EEEEEEEETTEEEE
T ss_pred             cccCCcceeccccccccccc-CCCCCCCCCEeeCCCCCeEEeCCC-Ccccccccccccee
Confidence            45566677777766655567 589999999999999999999999 99999999987764

>3qcw_A Neurexin-1-alpha; synaptic adhesion molecule, cell adhesion; HET: NAG; 2.65A {Bos taurus} PDB: 3r05_A* 3poy_A*

Probab=97.37  E-value=9.9e-05  Score=67.80  Aligned_cols=42  Identities=26%  Similarity=0.745  Sum_probs=36.4

Q ss_pred             cCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCccc
Q psy10055         26 LDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEIS   68 (124)
Q Consensus        26 ~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~~~   68 (124)
                      .+.| .++||+|||+|++.+++|.|.|+.++|+|+.|+.+...
T Consensus      1017 ~~~C-~~~pC~ngG~C~~~~~~~~C~C~~~g~~G~~C~~~~~~ 1058 (1245)
T 3qcw_A         1017 STTC-QEDSCSNQGVCLQQWDGFSCDCSMTSFSGPLCNDPGTT 1058 (1245)
T ss_dssp             CCCC-CTTSSSSSCEEEEETTEEEEECTTSSCBSTTSCBCCCE
T ss_pred             cCce-ECCcCCCCCEeCCCCCCCEEECCCCCCCCCCccCCCce
Confidence            3679 69999999999999999999999339999999887543

>1uzk_A Fibrillin-1; glycoprotein, extra-cellular matrix, calcium, TB domain, disease mutation, extracellular matrix, polymorphism, cbegf domain; 1.35A {Homo sapiens} SCOP: g.3.11.1 g.3.11.1 g.23.1.1 PDB: 1uzj_A 1uzp_A 1uzq_A

Probab=97.35  E-value=8e-05  Score=53.32  Aligned_cols=37  Identities=32%  Similarity=0.815  Sum_probs=32.4

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCee----ccccc
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFE----GIYCE   63 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~----G~~Ce   63 (124)
                      ++|+|..++||. +++|+++.++|.|.|++ ||+    |..|+
T Consensus         2 dideC~~~~~C~-~~~C~n~~gsy~C~C~~-Gy~~~~~g~~C~   42 (162)
T 1uzk_A            2 DVNECLDPTTCI-SGNCVNTPGSYICDCPP-DFELNPTRVGCV   42 (162)
T ss_dssp             CCCGGGSTTSSB-TSEEEEETTEEEEECCT-TCEECTTSSBEE
T ss_pred             ccccCCCCCCCC-CCEeECCCCCEEEeCCC-CCeECCCCCccc
Confidence            578993259997 58999999999999999 998    89997

>3v65_B Low-density lipoprotein receptor-related protein; laminin-G, beta-propeller, protein binding; 3.30A {Rattus norvegicus}

Probab=97.34  E-value=5e-05  Score=60.80  Aligned_cols=67  Identities=15%  Similarity=0.313  Sum_probs=8.8

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCee----ccccccCcccee-eccceeeccccccceeeEeccCCCcC
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFE----GIYCEKVEISVV-RAISMRVRGSRKKLRLIECEDGAGMD   96 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~----G~~Ce~~~~~~~-~~~~~~~r~~~~~~~~~~C~~~~~mv   96 (124)
                      ++|+| ..+|+....+|.+..++|.|.|++ ||.    |..| +++++|. ..++..  .+.+....+.|....+|.
T Consensus         2 ~~~~C-~~~~~~c~~~C~~~~g~~~C~C~~-G~~l~~~~~~C-~d~~eC~~~~~C~~--~C~~~~g~~~C~C~~g~~   73 (386)
T 3v65_B            2 GEENC-NVNNGGCAQKCQMIRGAVQCTCHT-GYRLTEDGRTC-QDVNECAEEGYCSQ--GCTNSEGAFQCWCEAGYE   73 (386)
T ss_dssp             -----------------------------------------------------CCTT--EEC-----CCEECCTTEE
T ss_pred             CcCcc-cCCCCCCCCCCcCCCCCcEeECCC-CceECCCCCcc-CccceeCCcCcccC--cCCCCCCCCeEEECCCce
Confidence            46789 577766666898888889999999 998    8999 5666664 233332  366666666666665553

>1xdt_R Hbegf, heparin-binding epidermal growth factor; complex (toxin-growth factor), diphtheria toxin, receptor, H binding epidermal growth factor; 2.65A {Homo sapiens} SCOP: g.3.11.1

Probab=97.32  E-value=0.0001  Score=48.66  Aligned_cols=37  Identities=35%  Similarity=0.792  Sum_probs=28.4

Q ss_pred             ccCCCCC---CCCCCCCCeee--eCCCCceEEecCCCeecccccc
Q psy10055         25 VLDPCEE---HDPCKHGGICI--STDSGPICECRNLDFEGIYCEK   64 (124)
Q Consensus        25 ~~d~C~~---~nPC~ngG~C~--~~~~~y~C~C~~tg~~G~~Ce~   64 (124)
                      ..++| .   .++|.|| +|+  ...+.+.|.|++ ||+|.+||.
T Consensus        36 ~~~pC-~~~~~~yClnG-~C~~i~~~~~~~C~C~~-GYtG~RCE~   77 (79)
T 1xdt_R           36 KRDPC-LRKYKDFCIHG-ECKYVKELRAPSCICHP-GYHGERCHG   77 (79)
T ss_dssp             ---CT-TTTTTTCCSSE-EECCBGGGTBCCEEECT-TEESTTCCE
T ss_pred             cCCCC-CccccCcCCCC-EeeeecCCCCeEEEcCC-Ccccccccc
Confidence            34678 5   7899998 995  333678999999 999999985

>1apq_A Complement protease C1R; EGF, calcium binding, serine protease; NMR {Homo sapiens} SCOP: g.3.11.1

Probab=97.30  E-value=0.00019  Score=42.32  Aligned_cols=32  Identities=31%  Similarity=0.764  Sum_probs=25.8

Q ss_pred             ccCCCCC---------CCCCCCCCeeeeCCCCceEEecCCCeec
Q psy10055         25 VLDPCEE---------HDPCKHGGICISTDSGPICECRNLDFEG   59 (124)
Q Consensus        25 ~~d~C~~---------~nPC~ngG~C~~~~~~y~C~C~~tg~~G   59 (124)
                      ++|+|..         ..||.  .+|+++.++|.|.|++ ||.+
T Consensus         3 DidEC~~~~~~~~~~~~~~C~--~~C~n~~Gsy~C~C~~-Gy~~   43 (53)
T 1apq_A            3 DLDECASRSKSGEEDPQPQCQ--HLCHNYVGGYFCSCRP-GYEL   43 (53)
T ss_dssp             SCCTTTCSTTTCCCSSSCTTS--SEEEEETTEEEEECST-TCEE
T ss_pred             ccccccCcccccccccCCCCC--CEeECCCCCeEEECCC-CCeE
Confidence            5678832         26897  4999999999999999 9974

>2bou_A EGF-like module containing mucin-like hormone receptor-like 2 precursor; CD97, CD55, 7TM, calcium-binding, cell adhesion, EGF-LI domain; 1.90A {Homo sapiens} PDB: 2bo2_A 2box_A

Probab=97.30  E-value=0.00016  Score=50.63  Aligned_cols=64  Identities=16%  Similarity=0.403  Sum_probs=44.4

Q ss_pred             CCCCCCCCCCCCCeeeeCCCCceEEecCCCeec---------cccccCccceeec---cceeeccccccceeeEeccCCC
Q psy10055         27 DPCEEHDPCKHGGICISTDSGPICECRNLDFEG---------IYCEKVEISVVRA---ISMRVRGSRKKLRLIECEDGAG   94 (124)
Q Consensus        27 d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G---------~~Ce~~~~~~~~~---~~~~~r~~~~~~~~~~C~~~~~   94 (124)
                      ..|  ++||.++++|++.   |.|.|++ ||+|         ..|+ +++++...   ++.....++.....+.|....+
T Consensus         3 ~~C--~~~C~~~~~C~~~---~~C~C~~-G~~g~~~~~~~~~~~C~-dideC~~~~~~~C~~~~~C~n~~g~y~C~C~~G   75 (143)
T 2bou_A            3 RGC--ARWCPQDSSCVNA---TACRCNP-GFSSFSEIITTPMETCD-DINECATLSKVSCGKFSDCWNTEGSYDCVCSPG   75 (143)
T ss_dssp             CCC--CTTCCTTEEESSS---SCEEECT-TEECSSSSBCSTTCCCE-ECCGGGC----CCCTTEEEEECSSCEEEEECTT
T ss_pred             CCC--cCcCCCCCEEcCC---CEEeCCC-CCcCccccccCCCCcCC-ccccccCCCCCCCCCCCEEEcCCCCeEeECCCC
Confidence            346  6899999999875   8999999 9998         5774 45555432   4443345566666777777766


Q ss_pred             cCC
Q psy10055         95 MDP   97 (124)
Q Consensus        95 mvp   97 (124)
                      |..
T Consensus        76 y~g   78 (143)
T 2bou_A           76 YEP   78 (143)
T ss_dssp             EEE
T ss_pred             ccc
Confidence            643

>2vj2_A Jagged-1; signalling, polymorphism, glycoprotein, extracellular, developmental protein, notch signaling pathway, EGF, DSL, notch, calcium, membrane; 2.50A {Homo sapiens} PDB: 2kb9_A

Probab=97.28  E-value=9.8e-05  Score=53.61  Aligned_cols=22  Identities=32%  Similarity=0.969  Sum_probs=12.6

Q ss_pred             CCeeeeCCCCceEEecCCCeeccccc
Q psy10055         38 GGICISTDSGPICECRNLDFEGIYCE   63 (124)
Q Consensus        38 gG~C~~~~~~y~C~C~~tg~~G~~Ce   63 (124)
                      .|.|++   .|.|.|++ ||+|..|+
T Consensus        76 ~g~C~~---~~~C~C~~-G~~G~~C~   97 (169)
T 2vj2_A           76 HGSCKL---PGDCRCQY-GWQGLYCD   97 (169)
T ss_dssp             TEECSS---TTCCEECT-TEESSSSC
T ss_pred             CcccCC---CCeeECCC-CCCCCCcc
Confidence            344544   35666666 66666664

>1emn_A Fibrillin; extracellular matrix, calcium-binding, glycoprotein, repeat, signal, multigene family, disease mutation, matrix protein; NMR {Homo sapiens} SCOP: g.3.11.1 g.3.11.1 PDB: 1emo_A

Probab=97.28  E-value=0.00012  Score=47.34  Aligned_cols=43  Identities=28%  Similarity=0.594  Sum_probs=34.1

Q ss_pred             ccccccc-----cccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccc
Q psy10055         17 CHYSVEN-----SVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIY   61 (124)
Q Consensus        17 c~~~v~~-----~~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~   61 (124)
                      |..++.+     .++|+|..++||.|+ +|++..++|.|.|++ ||.|..
T Consensus        30 C~~Gy~~~g~~C~dideC~~~~~C~~~-~C~n~~g~y~C~C~~-G~~g~~   77 (82)
T 1emn_A           30 CPFGYILAGNECVDTDECSVGNPCGNG-TCKNVIGGFECTCEE-GFEPGP   77 (82)
T ss_dssp             CCTTEEEETTEEEECCGGGTCCTTSSS-CEEECSSSEEECCSS-SSCCCS
T ss_pred             CCCCeECCCCccCCcccccCCCCCCCC-EeECCCCCEEeECCC-CeEeCC
Confidence            6666642     367899337899985 999999999999999 998753

>1dx5_I Thrombomodulin; serine proteinase, EGF-like domains, anticoagulant complex, antifibrinolytic complex, hydrolase-hydrolase inhibitor COM; HET: AR7 NDG; 2.30A {Homo sapiens} SCOP: g.3.11.1 g.3.11.1 g.3.11.1 PDB: 3gis_X 1dqb_A* 1zaq_A 1adx_A 2adx_A

Probab=97.19  E-value=0.00018  Score=49.39  Aligned_cols=33  Identities=27%  Similarity=0.676  Sum_probs=23.4

Q ss_pred             ccCCCCCCCCCCCCCeeeeC-CCCceEEecCCCeeccc
Q psy10055         25 VLDPCEEHDPCKHGGICIST-DSGPICECRNLDFEGIY   61 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~-~~~y~C~C~~tg~~G~~   61 (124)
                      ++|+| .++||++  +|++. .++|.|.|++ ||+|..
T Consensus         3 dideC-~~~pC~~--~C~~~~~g~y~C~C~~-Gy~g~~   36 (118)
T 1dx5_I            3 PVDPC-FRANCEY--QCQPLDQTSYLCVCAE-GFAPIP   36 (118)
T ss_dssp             CCCGG-GGCCCSS--EEEECSSSCEEEECCT-TEEEET
T ss_pred             ccccC-CCCCCCC--CCCCCCCCCEEeECCC-CccccC
Confidence            56777 5777774  77777 6777777777 777764

>3e50_C Protransforming growth factor alpha; IDE, TGF-alpha, cytoplasm, hydrolase, metal-binding, metalloprotease, polymorphism, protease, zinc; 2.30A {Homo sapiens} SCOP: g.3.11.1 PDB: 1yuf_A 1yug_A 2tgf_A 1mox_C 3tgf_A 4tgf_A

Probab=97.14  E-value=0.00026  Score=42.80  Aligned_cols=32  Identities=31%  Similarity=0.811  Sum_probs=27.1

Q ss_pred             CCCCCCCCeeee--CCCCceEEecCCCeeccccccC
Q psy10055         32 HDPCKHGGICIS--TDSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        32 ~nPC~ngG~C~~--~~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      .++|.|| +|..  ..+.+.|.|++ ||+|.+||..
T Consensus        13 ~~yC~nG-~C~~~~~~~~~~C~C~~-gy~G~RCe~~   46 (50)
T 3e50_C           13 TQFCFHG-TCRFLVQEDKPACVCHS-GYVGARCEHA   46 (50)
T ss_pred             cCcccCC-EEeeccCCCCeEEECCC-CCcccCCCce
Confidence            5789998 9985  34679999999 9999999864

>1iox_A Betacellulin; EGF-like fold, hormone/growth factor complex; NMR {Homo sapiens} SCOP: g.3.11.1 PDB: 1ip0_A

Probab=97.13  E-value=0.00022  Score=42.95  Aligned_cols=32  Identities=31%  Similarity=0.810  Sum_probs=26.7

Q ss_pred             CCCCCCCCeee--eCCCCceEEecCCCeeccccccC
Q psy10055         32 HDPCKHGGICI--STDSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        32 ~nPC~ngG~C~--~~~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      .+.|.| |+|.  ...+.+.|.|++ ||+|.+||..
T Consensus        13 ~~yC~n-G~C~~~~~~~~~~C~C~~-gy~G~RCe~~   46 (50)
T 1iox_A           13 KHYCIK-GRCRFVVAEQTPSCVCDE-GYIGARCERV   46 (50)
T ss_dssp             TTSCTT-CCEEEETTTTEEEECCCT-TEETTTTCEE
T ss_pred             cCcccC-CEEEeEcCCCCeEEECCC-CcccCCCCee
Confidence            578999 6996  344678999999 9999999875

>3qcw_A Neurexin-1-alpha; synaptic adhesion molecule, cell adhesion; HET: NAG; 2.65A {Bos taurus} PDB: 3r05_A* 3poy_A*

Probab=97.10  E-value=0.00024  Score=65.28  Aligned_cols=40  Identities=30%  Similarity=0.825  Sum_probs=35.1

Q ss_pred             cCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCc
Q psy10055         26 LDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVE   66 (124)
Q Consensus        26 ~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~   66 (124)
                      .+.| .++||+|+|+|.+.+..|.|.|+.++|.|++|+.+.
T Consensus       619 ~~~C-~~~pC~ngg~C~~~~~~~~C~C~~~g~~G~~C~~~~  658 (1245)
T 3qcw_A          619 AKPC-LSNPCKNNGMCRDGWNRYVCDCSGTGYLGRSCEREA  658 (1245)
T ss_dssp             SCGG-GSCCCCTTCEEEECSSSEEEECTTTTEESTTSCEEC
T ss_pred             CCCC-CccCCCCCCEEeCCCCCeEEECCCCCcccccCcccc
Confidence            4679 699999999999999999999993399999998753

>1tpg_A T-plasminogen activator F1-G; plasminogen activation; NMR {Homo sapiens} SCOP: g.3.11.1 g.27.1.1 PDB: 1tpm_A 1tpn_A

Probab=97.09  E-value=0.00017  Score=47.56  Aligned_cols=64  Identities=13%  Similarity=0.138  Sum_probs=44.5

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccc-cCccceeeccceeeccccccc--eeeEeccCCCcCCC
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCE-KVEISVVRAISMRVRGSRKKL--RLIECEDGAGMDPP   98 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce-~~~~~~~~~~~~~~r~~~~~~--~~~~C~~~~~mvp~   98 (124)
                      ++++| ..+||.|+      .++|.|.|++ ||+  .|+ .+++.+..+++.....++...  ..+.|....+|.+.
T Consensus        16 ~~~~c-~~~pC~n~------~~~y~C~C~~-G~~--~C~~~~~~~C~~~pC~ngg~C~~~~~~~~~~C~C~~G~~G~   82 (91)
T 1tpg_A           16 QQHQS-WLRPVLRS------NRVEYCWCNS-GRA--QCHSVPVKSCSEPRCFNGGTCQQALYFSDFVCQCPEGFAGK   82 (91)
T ss_dssp             CSSCE-EEEECSSS------SCEEEEECSS-SCC--BCCEECEEECSSCCSCTTCEEEEESSSSCEEEECCTTCBSS
T ss_pred             CCCcc-cCCccccC------CCCcEeECCC-CCc--ccccCcCCcccCCCCCCCCEeecCCCCCCeEeECCCCCcCC
Confidence            45667 57777655      5789999999 998  898 566666656665544555554  66888887777543

>2ygo_A WIF-1, WNT inhibitory factor 1; signaling protein, WNT signaling pathway, WNT antagonist, MO cancer, glycosaminoglycan; HET: MLY PCF NAG; 1.85A {Homo sapiens} PDB: 2ygp_A*

Probab=96.99  E-value=0.00038  Score=52.68  Aligned_cols=34  Identities=38%  Similarity=0.998  Sum_probs=28.4

Q ss_pred             CCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCc
Q psy10055         27 DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVE   66 (124)
Q Consensus        27 d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~   66 (124)
                      ..|  ..+|.|||.|+..   ..|.|++ ||.|..|+...
T Consensus       149 ~~C--~~~C~ngG~Cv~P---~~C~C~~-Gw~G~~C~~~~  182 (188)
T 2ygo_A          149 AEC--PGGCRNGGFCNER---RICECPD-GFHGPHCEGTK  182 (188)
T ss_dssp             CCC--TTCCCTTCEECTT---SCEECCT-TCBTTTTCBC-
T ss_pred             Ccc--CCCCCCCCEeCCC---CcccCcC-CCCCCCCcCCc
Confidence            457  4799999999875   5899999 99999998753

>2rnl_A Amphiregulin; AR, colorectum cell-derived growth factor, EGF-like domain, CRDGF, cytokine, glycoprotein, membrane, polymorphism, transmembrane; NMR {Homo sapiens}

Probab=96.96  E-value=0.00047  Score=41.59  Aligned_cols=31  Identities=26%  Similarity=0.718  Sum_probs=25.9

Q ss_pred             CCCCCCCCeee--eCCCCceEEecCCCeecccccc
Q psy10055         32 HDPCKHGGICI--STDSGPICECRNLDFEGIYCEK   64 (124)
Q Consensus        32 ~nPC~ngG~C~--~~~~~y~C~C~~tg~~G~~Ce~   64 (124)
                      .+.|.|| +|.  ...+.+.|.|++ +|+|.+||.
T Consensus        17 ~~yC~nG-~C~~i~~~~~~~C~C~~-gy~G~RCe~   49 (50)
T 2rnl_A           17 QNFCIHG-ECKYIEHLEAVTCKCQQ-EYFGERCGE   49 (50)
T ss_dssp             GGTCSSS-EEEEETTTTEEEEECCS-SCCSSSCCC
T ss_pred             hCcCCCC-EEEEecCCCCeeEECCC-Ccccccccc
Confidence            4789986 997  444678999999 999999985

>1dx5_I Thrombomodulin; serine proteinase, EGF-like domains, anticoagulant complex, antifibrinolytic complex, hydrolase-hydrolase inhibitor COM; HET: AR7 NDG; 2.30A {Homo sapiens} SCOP: g.3.11.1 g.3.11.1 g.3.11.1 PDB: 3gis_X 1dqb_A* 1zaq_A 1adx_A 2adx_A

Probab=96.82  E-value=0.00043  Score=47.45  Aligned_cols=73  Identities=16%  Similarity=0.353  Sum_probs=48.5

Q ss_pred             cccccccc--ccCCCC---CCCCCCCCCeeeeCCCCceEEecCCCee---ccccccCccceee-ccceeeccccccceee
Q psy10055         17 CHYSVENS--VLDPCE---EHDPCKHGGICISTDSGPICECRNLDFE---GIYCEKVEISVVR-AISMRVRGSRKKLRLI   87 (124)
Q Consensus        17 c~~~v~~~--~~d~C~---~~nPC~ngG~C~~~~~~y~C~C~~tg~~---G~~Ce~~~~~~~~-~~~~~~r~~~~~~~~~   87 (124)
                      |..++.+.  ++++|.   ..+||.  ++|++ .++|.|.|++ ||+   |..| ++++++.. .++  ...+++....|
T Consensus        28 C~~Gy~g~~~~~~~C~~~C~~~~C~--~~C~~-~~~y~C~C~~-Gy~~~~g~~C-~dideC~~~~~C--~~~C~n~~g~y  100 (118)
T 1dx5_I           28 CAEGFAPIPHEPHRCQMFCNQTACP--ADCDP-NTQASCECPE-GYILDDGFIC-TDIDECENGGFC--SGVCHNLPGTF  100 (118)
T ss_dssp             CCTTEEEETTEEEEEEECCCSSEEE--CEECT-TSTTCEECCT-TEEEETTTEE-EECCHHHHCSSC--SSEEEECSSSE
T ss_pred             CCCCccccCCCCCccccccCCCCCC--CcccC-CCCeEeECCC-CccCCCCCcc-ccccccCCCCCC--cCeEEeCCCCE
Confidence            55566553  233441   355555  78988 5889999999 999   8999 46666654 444  33456666778


Q ss_pred             EeccCCCcC
Q psy10055         88 ECEDGAGMD   96 (124)
Q Consensus        88 ~C~~~~~mv   96 (124)
                      .|....+|.
T Consensus       101 ~C~C~~G~~  109 (118)
T 1dx5_I          101 ECICGPDSA  109 (118)
T ss_dssp             EEEECSSSS
T ss_pred             EEECCCCCc
Confidence            888776664

>2w86_A Fibrillin-1, fibrillin1; phosphoprotein, EGF-like domain, disease mutation, craniosynostosis, extracellular matrix, fibrillin calcium cbegf hybrid; 1.80A {Homo sapiens}

Probab=96.68  E-value=0.00035  Score=49.17  Aligned_cols=43  Identities=26%  Similarity=0.559  Sum_probs=33.7

Q ss_pred             cccccccc------cccCCCCCCC--CCCCCCeeeeCCCCceEEecCCCeeccc
Q psy10055         16 YCHYSVEN------SVLDPCEEHD--PCKHGGICISTDSGPICECRNLDFEGIY   61 (124)
Q Consensus        16 ~c~~~v~~------~~~d~C~~~n--PC~ngG~C~~~~~~y~C~C~~tg~~G~~   61 (124)
                      .|..+++.      .++|+| ..+  +|+|+ +|+++.++|.|.|++ ||+|..
T Consensus        91 ~C~~Gy~~~~g~~C~dideC-~~~~~~C~~g-~C~n~~g~y~C~C~~-Gy~g~~  141 (147)
T 2w86_A           91 ICGKGYSRIKGTQCEDIDEC-EVFPGVCKNG-LCVNTRGSFKCQCPS-GMTLDA  141 (147)
T ss_dssp             TTCTTEEEEETTEEEECCHH-HHSTTCSSSS-EEEEETTEEEEECCT-TCCBCT
T ss_pred             cCCCccccCCCCccCccccc-cCCCCCCCCC-EEECCCCCEEeeCCC-CCccCC
Confidence            46677642      378899 554  49986 999999999999999 998653

>1lmj_A Fibrillin 1; EGF, calcium, microfibril, neonatal, marfan syndrome, connective tissue, extracellular matrix, structural protein; NMR {Homo sapiens} SCOP: g.3.11.1 g.3.11.1

Probab=96.58  E-value=0.00045  Score=44.72  Aligned_cols=33  Identities=36%  Similarity=0.926  Sum_probs=28.0

Q ss_pred             ccCCCCCCCC--CCCCCeeeeCCCCceEEecCCCeecc
Q psy10055         25 VLDPCEEHDP--CKHGGICISTDSGPICECRNLDFEGI   60 (124)
Q Consensus        25 ~~d~C~~~nP--C~ngG~C~~~~~~y~C~C~~tg~~G~   60 (124)
                      ++|+| ..+|  |. +++|+++.++|.|.|++ ||.+.
T Consensus        45 dideC-~~~~~~C~-~~~C~n~~g~y~C~C~~-G~~~~   79 (86)
T 1lmj_A           45 DIDEC-QRDPLLCR-GGVCHNTEGSYRCECPP-GHQLS   79 (86)
T ss_dssp             ECCHH-HHCSSTTT-TSEEEEETTEEEEESCT-TSCCC
T ss_pred             Ccccc-cCCCCcCC-CCEeEcCCCCEEEECcC-CcccC
Confidence            67889 5777  65 57999999999999999 99764

>2wg3_C Hedgehog-interacting protein; lipoprotein, development, membrane, secreted, protease, PALM hydrolase, developmental protein, autocatalytic cleavage; HET: NAG; 2.60A {Homo sapiens} PDB: 2wg4_B 2wfx_B 2wft_A 3ho3_A 3ho4_A 3ho5_A

Probab=96.41  E-value=0.00062  Score=56.80  Aligned_cols=47  Identities=21%  Similarity=0.526  Sum_probs=23.0

Q ss_pred             cCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCccceeeccceeeccccc
Q psy10055         26 LDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEISVVRAISMRVRGSRK   82 (124)
Q Consensus        26 ~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~~~~~~~~~~~~r~~~~   82 (124)
                      .+.| . .+|+| |+|+..   +.|.|++ ||+|.+|+..  .|.. +|.....++.
T Consensus       392 ~~~C-~-~~C~n-G~C~~~---~~C~C~~-G~~G~~C~~~--~C~~-~C~~~g~C~~  438 (463)
T 2wg3_C          392 TSEC-S-RLCRN-GYCTPT---GKCCCSP-GWEGDFCRTA--KCEP-ACRHGGVCVR  438 (463)
T ss_dssp             CCHH-H-HHCCS-EEECTT---SCEEECT-TEESTTSCEE--CC-------------
T ss_pred             cccc-c-CCCCC-CccCCC---CeECCCC-CcCCCcCCcC--cCCC-CCCCCCEECC
Confidence            4556 2 36777 678753   4788888 8888888643  3432 4444444443

>2kl7_A Fibulin-4; secreted, calcium, disease mutation, disulfide bond, EGF- like domain, glycoprotein, polymorphism, structural genomics, PSI-2; NMR {Homo sapiens}

Probab=96.40  E-value=0.0023  Score=40.73  Aligned_cols=35  Identities=23%  Similarity=0.434  Sum_probs=27.1

Q ss_pred             ccCCCCC-CCCCCCCCeeeeCCCCceEEecCCCeec
Q psy10055         25 VLDPCEE-HDPCKHGGICISTDSGPICECRNLDFEG   59 (124)
Q Consensus        25 ~~d~C~~-~nPC~ngG~C~~~~~~y~C~C~~tg~~G   59 (124)
                      ++|+|.. .++|.++++|+++.++|.|.+...||.+
T Consensus         2 DidEC~~~~~~C~~~~~C~Nt~Gsy~C~~~~~g~~~   37 (71)
T 2kl7_A            2 DVNECLTIPEACKGEMKCINHYGGYLCLPRSAAVIN   37 (71)
T ss_dssp             CSCCTTCCCCSCTTEEEEEETTCCEEEEETTSCCCS
T ss_pred             ccccccCCCCCCCCCCEeECCCCCeEecccCCcccc
Confidence            5788931 3679999999999999999965436753

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=96.38  E-value=0.0014  Score=55.03  Aligned_cols=24  Identities=29%  Similarity=0.477  Sum_probs=21.4

Q ss_pred             CCceeEeccCCCCchhhhHHHHHhc
Q psy10055         98 PSRELIIGDRQTGKTALAIDTIINQ  122 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~~~~~~q  122 (124)
                      |||++|||++|+|||+|+ +.|+||
T Consensus       175 GQR~lIfg~~g~GKT~Ll-~~Ia~~  198 (427)
T 3l0o_A          175 GQRGMIVAPPKAGKTTIL-KEIANG  198 (427)
T ss_dssp             TCEEEEEECTTCCHHHHH-HHHHHH
T ss_pred             CceEEEecCCCCChhHHH-HHHHHH
Confidence            999999999999999999 556664

>1uzk_A Fibrillin-1; glycoprotein, extra-cellular matrix, calcium, TB domain, disease mutation, extracellular matrix, polymorphism, cbegf domain; 1.35A {Homo sapiens} SCOP: g.3.11.1 g.3.11.1 g.23.1.1 PDB: 1uzj_A 1uzp_A 1uzq_A

Probab=96.34  E-value=0.00074  Score=48.19  Aligned_cols=35  Identities=26%  Similarity=0.543  Sum_probs=29.1

Q ss_pred             cccCCCCCC--CCCCCCCeeeeCCCCceEEecCCCeeccc
Q psy10055         24 SVLDPCEEH--DPCKHGGICISTDSGPICECRNLDFEGIY   61 (124)
Q Consensus        24 ~~~d~C~~~--nPC~ngG~C~~~~~~y~C~C~~tg~~G~~   61 (124)
                      .++|+| ..  +||+| ++|+++.++|.|.|++ ||+|..
T Consensus       120 ~dideC-~~~~~~C~~-g~C~n~~gsy~C~C~~-Gy~g~~  156 (162)
T 1uzk_A          120 EDIDEC-QELPGLCQG-GKCINTFGSFQCRCPT-GYYLNE  156 (162)
T ss_dssp             EECCHH-HHCGGGGBT-SEEEECSSCEEEECCT-TCCBCT
T ss_pred             Cccccc-cCCCCCcCC-CEeEcCCCCEEeeCCC-CccCCC
Confidence            367889 54  46997 5999999999999999 998753

>1z6c_A Vitamin K-dependent protein S; EGF module, blood clotting; NMR {Homo sapiens}

Probab=96.31  E-value=0.0011  Score=43.01  Aligned_cols=46  Identities=20%  Similarity=0.519  Sum_probs=34.8

Q ss_pred             ccccccc-------cccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCcc
Q psy10055         17 CHYSVEN-------SVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEI   67 (124)
Q Consensus        17 c~~~v~~-------~~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~~   67 (124)
                      |..++.+       .++++| .++||.  ++|++..++|.|.|+  ++.|..++.+..
T Consensus        29 C~~G~~~~~~g~~C~dideC-~~~~C~--~~C~n~~g~y~C~C~--g~~G~~~~~~~~   81 (87)
T 1z6c_A           29 CPEGYRYNLKSKSCEDIDEC-SENMCA--QLCVNYPGGYTCYCD--GKKGFKLAQDQK   81 (87)
T ss_dssp             SSTTCEEETTTTEEECCCHH-HHSCCS--SEECCCSSSCCEECC--SSSCCBCCTTSS
T ss_pred             CCCCceECCCCCcCCCcCee-CCCCCC--CEEEccCCCEEEECC--CCcCCcccCCCC
Confidence            6666653       377899 689998  699999999999997  456666665543

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=96.23  E-value=0.0022  Score=54.48  Aligned_cols=34  Identities=29%  Similarity=0.393  Sum_probs=28.8

Q ss_pred             eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhc
Q psy10055         87 IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQ  122 (124)
Q Consensus        87 ~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q  122 (124)
                      ++-++.  |.|   |||++|||+.|+|||+|+.++|.||
T Consensus       141 ir~ID~--l~pigkGQr~~Ifgg~G~GKT~L~~~i~~~~  177 (482)
T 2ck3_D          141 IKVVDL--LAPYAKGGKIGLFGGAGVGKTVLIMELINNV  177 (482)
T ss_dssp             CHHHHH--HSCEETTCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             eEEEec--ccccccCCeeeeecCCCCChHHHHHHHHHhh
Confidence            444555  445   9999999999999999999999997

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=95.99  E-value=0.0024  Score=53.97  Aligned_cols=46  Identities=17%  Similarity=0.120  Sum_probs=32.9

Q ss_pred             eeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         75 MRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        75 ~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      +..|.....++.  +.-++.  |.|   |||++|||++|+|||+|+. .|+||.
T Consensus       121 p~~R~~~~e~l~TGiraID~--l~pigrGQr~~Ifgg~G~GKt~L~~-~Ia~~~  171 (464)
T 3gqb_B          121 PVARRKPEQFIQTGISTIDV--MNTLVRGQKLPIFSGSGLPANEIAA-QIARQA  171 (464)
T ss_dssp             GGGBCCCCCBCBCSCHHHHT--TSCCBTTCBCCEEEETTSCHHHHHH-HHHHHC
T ss_pred             hhhccCccccccCcceeeec--ccccccCCEEEEecCCCCCchHHHH-HHHHHH
Confidence            334444444433  566666  555   9999999999999999985 677774

>2c4f_L Coagulation factor VII precursor; blood coagulation, serine protease, EGF, EGF-like domain, GLA, receptor enzyme, glycoprotein, hydrolase, protease; HET: CGU GLC FUC NAG GIL; 1.72A {Homo sapiens} SCOP: g.3.11.1 g.3.11.1 g.32.1.1 PDB: 1w2k_L* 1w0y_L* 1z6j_L* 2b8o_L* 2aer_L* 2ec9_L* 2fir_L* 2a2q_L* 1fak_L* 1o5d_L* 1wqv_L* 1wss_L* 1wtg_L* 1wun_L* 1wv7_L* 1dan_L* 2aei_L* 2b7d_L* 2f9b_L* 2flb_L* ...

Probab=95.98  E-value=0.0038  Score=43.91  Aligned_cols=38  Identities=21%  Similarity=0.510  Sum_probs=31.3

Q ss_pred             cCCCCCCCCCCCCC---eeeeCCC-CceEEecCCCee----ccccccC
Q psy10055         26 LDPCEEHDPCKHGG---ICISTDS-GPICECRNLDFE----GIYCEKV   65 (124)
Q Consensus        26 ~d~C~~~nPC~ngG---~C~~~~~-~y~C~C~~tg~~----G~~Ce~~   65 (124)
                      ++.| .+.+|.+++   +|++..+ +|.|.|++ ||.    |.+|+..
T Consensus        85 ~~~c-~~c~~~~~~C~~~C~~~~g~~y~C~C~~-Gy~l~~dG~~C~~~  130 (142)
T 2c4f_L           85 KDDQ-LICVNENGGCEQYCSDHTGTKRSCRCHE-GYSLLADGVSCTPT  130 (142)
T ss_dssp             GGGC-CSTTTGGGGCSSEEECCTTSCCEEECCT-TEEECTTSSCEEES
T ss_pred             cccc-ccccCCCCCccCEeECCCCCCEEEECCC-CceECCCCCCCCCC
Confidence            3566 456777888   9999998 99999999 999    9999754

>1gl4_A Nidogen-1, entactin; immunoglobulin-like domain, extracellular matrix; HET: EPE; 2.0A {Mus musculus} SCOP: d.22.1.2 g.3.11.5 PDB: 1h4u_A

Probab=95.96  E-value=0.0021  Score=51.34  Aligned_cols=39  Identities=21%  Similarity=0.567  Sum_probs=31.0

Q ss_pred             cccCCCCC--CCCCCCCCeeeeCCCCceEEecCCCee--cccccc
Q psy10055         24 SVLDPCEE--HDPCKHGGICISTDSGPICECRNLDFE--GIYCEK   64 (124)
Q Consensus        24 ~~~d~C~~--~nPC~ngG~C~~~~~~y~C~C~~tg~~--G~~Ce~   64 (124)
                      .++|+| .  ..+|..++.|+++.++|.|.|.+ ||.  |..|..
T Consensus         3 ~DiDEC-~~~~~~C~~~a~C~Nt~Gsy~C~C~~-Gy~GnG~~C~d   45 (285)
T 1gl4_A            3 LAQQTC-ANNRHQCSVHAECRDYATGFCCRCVA-NYTGNGRQCVA   45 (285)
T ss_dssp             ----CH-HHHGGGSCTTEEEEECSSCEEEEECT-TEEECSSSEEE
T ss_pred             ccchhc-cCCCCCCCCCCEeEcCCCCeEEEcCC-CCCCCCCcCCC
Confidence            467889 4  56899999999999999999999 998  788854

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=95.87  E-value=0.0042  Score=52.91  Aligned_cols=25  Identities=28%  Similarity=0.347  Sum_probs=24.4

Q ss_pred             CCceeEeccCCCCchhhhHHHHHhc
Q psy10055         98 PSRELIIGDRQTGKTALAIDTIINQ  122 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~~~~~~q  122 (124)
                      |||.+|||+.|+|||+|+.++|.|+
T Consensus       165 Gqr~gIfgg~GvGKT~L~~~l~~~~  189 (498)
T 1fx0_B          165 GGKIGLFGGAGVGKTVLIMELINNI  189 (498)
T ss_dssp             TCCEEEEECSSSSHHHHHHHHHHHT
T ss_pred             CCeEEeecCCCCCchHHHHHHHHHH
Confidence            9999999999999999999999996

>3v65_B Low-density lipoprotein receptor-related protein; laminin-G, beta-propeller, protein binding; 3.30A {Rattus norvegicus}

Probab=95.79  E-value=0.0029  Score=50.42  Aligned_cols=46  Identities=24%  Similarity=0.645  Sum_probs=20.4

Q ss_pred             cccccccc-------cccCCCCCCCCCCCCCeeeeCCCCceEEecCCCee----cccccc
Q psy10055         16 YCHYSVEN-------SVLDPCEEHDPCKHGGICISTDSGPICECRNLDFE----GIYCEK   64 (124)
Q Consensus        16 ~c~~~v~~-------~~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~----G~~Ce~   64 (124)
                      .|..++++       .++++|..++||.++  |+++.++|.|.|++ ||.    |..|..
T Consensus        27 ~C~~G~~l~~~~~~C~d~~eC~~~~~C~~~--C~~~~g~~~C~C~~-g~~l~~d~~~C~~   83 (386)
T 3v65_B           27 TCHTGYRLTEDGRTCQDVNECAEEGYCSQG--CTNSEGAFQCWCEA-GYELRPDRRSCKA   83 (386)
T ss_dssp             -------------------------CCTTE--EC-----CCEECCT-TEEECTTSSCEEE
T ss_pred             ECCCCceECCCCCccCccceeCCcCcccCc--CCCCCCCCeEEECC-CceEcCCCCeECC
Confidence            47777763       367889436799875  99999999999999 998    888964

>3m0c_C LDL receptor, low-density lipoprotein receptor; protein complex, beta propeller, cholesterol clearance, PCSK autocatalytic cleavage; 7.01A {Homo sapiens}

Probab=95.79  E-value=0.0064  Score=53.82  Aligned_cols=65  Identities=17%  Similarity=0.310  Sum_probs=44.6

Q ss_pred             CCCCCCCCCCCCC-----eeeeCCCCceEEecCCCee---ccccccCccceeeccceeeccccccceeeEeccCCCc
Q psy10055         27 DPCEEHDPCKHGG-----ICISTDSGPICECRNLDFE---GIYCEKVEISVVRAISMRVRGSRKKLRLIECEDGAGM   95 (124)
Q Consensus        27 d~C~~~nPC~ngG-----~C~~~~~~y~C~C~~tg~~---G~~Ce~~~~~~~~~~~~~~r~~~~~~~~~~C~~~~~m   95 (124)
                      +.| ..++|.++.     .|+++.++|.|.|++ ||.   |..|+ +++++. .+..-...+++....+.|....+|
T Consensus       308 ~~C-~~~~C~~~~~~C~~~C~~~~~~y~C~C~~-Gy~l~~g~~C~-dideC~-~~~~C~~~C~n~~gsy~C~C~~Gy  380 (791)
T 3m0c_C          308 KEC-GTNECLDNNGGCSHVCNDLKIGYECLCPD-GFQLVAQRRCE-DIDECQ-DPDTCSQLCVNLEGGYKCQCEEGF  380 (791)
T ss_dssp             TTB-SCCSTTTGGGGCSSEEEECSBSEEEECCT-TCEEETTTEEE-CCCCCS-SSSSCTTTCCBCSSCBCCCCCSSE
T ss_pred             ccc-ccccccccccCccccccCCCCCcccCCCC-CCccCCCCccc-cCcccC-CCCCCCCeeecCCCCceeecCCCC
Confidence            347 578888765     899999999999999 995   88896 555553 222222345566666666665555

>2w2n_E LDL receptor, low-density lipoprotein receptor; hydrolase-receptor complex, PCSK9, proprotein converta low-density lipoprotein receptor, EGF; 2.30A {Homo sapiens} PDB: 2w2q_E 2w2o_E 2w2p_E 2w2m_E 3gcw_E 3bps_E 3gcx_E 1hz8_A 1i0u_A 1hj7_A

Probab=95.74  E-value=0.0017  Score=44.00  Aligned_cols=41  Identities=24%  Similarity=0.727  Sum_probs=5.2

Q ss_pred             ccccccc------cccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeecc
Q psy10055         17 CHYSVEN------SVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGI   60 (124)
Q Consensus        17 c~~~v~~------~~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~   60 (124)
                      |..++.+      .++|+|..++||.  ++|++..++|.|.|++ ||.+.
T Consensus        54 C~~Gy~g~~g~~C~dideC~~~~~C~--~~C~n~~gsy~C~C~~-Gy~~~  100 (107)
T 2w2n_E           54 CPDGFQLVAQRRCEDIDECQDPDTCS--QLCVNLEGGYKCQCEE-GFQLD  100 (107)
T ss_dssp             CCTTCEEETTTEEEC-----------------------------------
T ss_pred             CCCCccccCCCccccccccCCCCCcC--CeeecCCCCEEEECCC-CceEC
Confidence            6666654      3788994248897  6999999999999999 99864

>1nfu_B Coagulation factor XA, light chain; hydrolase; HET: RRP; 2.05A {Homo sapiens} SCOP: g.3.11.1 PDB: 2h9e_L*

Probab=95.66  E-value=0.0046  Score=46.49  Aligned_cols=36  Identities=19%  Similarity=0.669  Sum_probs=30.2

Q ss_pred             CCCCCC--CCCCCCCeeeeCCCCceEEecCCCee----ccccccCc
Q psy10055         27 DPCEEH--DPCKHGGICISTDSGPICECRNLDFE----GIYCEKVE   66 (124)
Q Consensus        27 d~C~~~--nPC~ngG~C~~~~~~y~C~C~~tg~~----G~~Ce~~~   66 (124)
                      ++| ..  .+|.+  +|++..++|.|.|++ ||.    |..|+...
T Consensus        82 deC-~~~~~~C~~--~C~n~~gsy~C~C~~-Gy~l~~dG~~C~~~~  123 (195)
T 1nfu_B           82 KLC-SLDNGDCDQ--FCHEEQNSVVCSCAR-GYTLADNGKACIPTG  123 (195)
T ss_dssp             CGG-GTGGGGCSS--EEEEETTEEEEECCT-TEEECTTSSCEEESS
T ss_pred             ccc-cCCCCCCCC--EeECCCCCeEEECCC-CceeCCCCCccccCC
Confidence            678 45  36776  999999999999999 999    99998653

>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A 3j0j_A* 1um2_C

Probab=95.47  E-value=0.0049  Score=53.43  Aligned_cols=43  Identities=16%  Similarity=0.121  Sum_probs=31.8

Q ss_pred             cccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         78 RGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        78 r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      |.....++.  +.-++.  |.|   |||++|||++|+|||+|+. .|+||+
T Consensus       198 R~~~~epl~TGirvID~--l~PigrGqr~~Ifg~~g~GKT~l~~-~ia~~~  245 (578)
T 3gqb_A          198 KLDPNTPFLTGMRILDV--LFPVAMGGTAAIPGPFGSGKSVTQQ-SLAKWS  245 (578)
T ss_dssp             EECSCSEECCSCHHHHT--TSCEETTCEEEECCCTTSCHHHHHH-HHHHHS
T ss_pred             hccCCCcccccchhhhh--cccccCCCEEeeeCCCCccHHHHHH-HHHhcc
Confidence            333444433  566666  556   9999999999999999999 567764

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=95.47  E-value=0.0038  Score=52.78  Aligned_cols=35  Identities=14%  Similarity=0.155  Sum_probs=27.4

Q ss_pred             eEeccCCCcCC---CCceeEeccCCCCchh----hhHHHHHhcc
Q psy10055         87 IECEDGAGMDP---PSRELIIGDRQTGKTA----LAIDTIINQK  123 (124)
Q Consensus        87 ~~C~~~~~mvp---~~r~li~g~~~~g~t~----~~~~~~~~q~  123 (124)
                      +.-++.  |.|   |||++|||++|+|||+    ||.++.+||+
T Consensus       140 ir~ID~--l~pigrGQr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~  181 (469)
T 2c61_A          140 ISTIDG--TNTLVRGQKLPIFSASGLPHNEIALQIARQASVPGS  181 (469)
T ss_dssp             CHHHHT--TSCCBTTCBCCEEECTTSCHHHHHHHHHHHCBCTTC
T ss_pred             eEeeee--eeccccCCEEEEECCCCCCHHHHHHHHHHHHhhccC
Confidence            555666  445   9999999999999999    6666666664

>3h5c_B Vitamin K-dependent protein Z; protein Z-protein Z inhibitor complex, blood coagulation, CL PAIR of basic residues, disulfide bond, EGF-like domain; HET: NAG BGC; 3.26A {Homo sapiens}

Probab=95.40  E-value=0.017  Score=44.72  Aligned_cols=40  Identities=23%  Similarity=0.639  Sum_probs=31.9

Q ss_pred             ccccccc---c-ccCCCCCC---CCCCCCCeeeeCCCCceEEecCCCeecc
Q psy10055         17 CHYSVEN---S-VLDPCEEH---DPCKHGGICISTDSGPICECRNLDFEGI   60 (124)
Q Consensus        17 c~~~v~~---~-~~d~C~~~---nPC~ngG~C~~~~~~y~C~C~~tg~~G~   60 (124)
                      |..++..   + ++++| ..   +||++  +|++..++|.|.|++ ||.|.
T Consensus        30 C~~g~~g~~C~~~~~eC-~~~~~~~C~~--~C~~~~g~~~C~C~~-g~~~~   76 (317)
T 3h5c_B           30 CSPGYEGSNCELAKNEC-HPERTDGCQH--FCLPGQESYTCSCAQ-GYRLG   76 (317)
T ss_dssp             CSSSCCSSSSCCCSSSC-CTTCTTSCSS--EEECCSSSCEEECCT-TEECC
T ss_pred             CCCCCcCCccccCcccC-CCCCCCCCcC--ccccCCCeeEEeccc-ccccc
Confidence            4444443   3 78899 55   89998  999999999999999 99863

>2jkh_L Factor X light chain; plasma, calcium, zymogen, secreted, protease, hydrolase, polymorphism, glycoprotein, gamma-carboxyglutamic acid; HET: BI7; 1.25A {Homo sapiens} PDB: 2bok_L* 2vvc_K* 2vvu_L* 2vvv_L* 2vwl_L* 2vwm_K* 2vwn_L* 2vwo_L* 2xbv_L* 2xbw_L* 2xbx_L* 2xby_L* 2xc0_L* 2xc4_L* 2xc5_L* 2gd4_L* 3kl6_B* 2y5f_L* 2y5g_L* 2y5h_L* ...

Probab=95.35  E-value=0.0082  Score=35.98  Aligned_cols=34  Identities=21%  Similarity=0.725  Sum_probs=25.4

Q ss_pred             CCCCC-CCCCCCCCeeeeCCCCceEEecCCCee----ccccc
Q psy10055         27 DPCEE-HDPCKHGGICISTDSGPICECRNLDFE----GIYCE   63 (124)
Q Consensus        27 d~C~~-~nPC~ngG~C~~~~~~y~C~C~~tg~~----G~~Ce   63 (124)
                      |+|.. ..+|.+  .|+++.++|.|.|++ ||.    |..|+
T Consensus         2 dEC~~~~~~C~~--~C~nt~Gsy~C~C~~-Gy~L~~d~~~C~   40 (55)
T 2jkh_L            2 KLCSLDNGDCDQ--FCHEEQNSVVCSCAR-GYTLADNGKACI   40 (55)
T ss_dssp             CCTTTGGGGCSS--EEEEETTEEEEECCT-TEEECTTSSCEE
T ss_pred             ccccCCCCCcCc--EeEcCCCCeEEeCCC-CCEECCCCCeec
Confidence            55621 245764  899999999999999 996    56674

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

Probab=95.26  E-value=0.0062  Score=53.59  Aligned_cols=37  Identities=22%  Similarity=0.469  Sum_probs=32.6

Q ss_pred             CCCCCCCCCCCCeeeeCCCCce---EEecCCCeeccccccCc
Q psy10055         28 PCEEHDPCKHGGICISTDSGPI---CECRNLDFEGIYCEKVE   66 (124)
Q Consensus        28 ~C~~~nPC~ngG~C~~~~~~y~---C~C~~tg~~G~~Ce~~~   66 (124)
                      +| .++||.|+++|.+..+.|.   |.|++ ||+|.+|+...
T Consensus       436 ~C-~~~pc~n~~~C~~g~G~~~~G~C~C~~-Gy~G~~Ce~~~  475 (690)
T 3fcs_B          436 AC-QAQAEPNSHRCNNGNGTFECGVCRCGP-GWLGSQCECSE  475 (690)
T ss_dssp             GG-GTTCCTTCTTTTTTSEEEETTEEEECT-TCCSSSSCCSC
T ss_pred             CC-cCCCCCCCCcccCCCCeEeCCceEeCC-CccCCceeecc
Confidence            57 5899999999987778888   99999 99999998765

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=95.21  E-value=0.0049  Score=53.62  Aligned_cols=34  Identities=21%  Similarity=0.170  Sum_probs=27.1

Q ss_pred             eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         87 IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        87 ~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      +.-++.  |.|   |||++|||++|+|||+|+. .|+||+
T Consensus       220 irvID~--l~PigrGqr~~Ifgg~g~GKT~L~~-~ia~~~  256 (600)
T 3vr4_A          220 QRVIDT--FFPVTKGGAAAVPGPFGAGKTVVQH-QIAKWS  256 (600)
T ss_dssp             CHHHHH--HSCCBTTCEEEEECCTTSCHHHHHH-HHHHHS
T ss_pred             chhhhc--cCCccCCCEEeeecCCCccHHHHHH-HHHhcc
Confidence            455555  445   9999999999999999998 567764

>1x7a_L Coagulation factor IX, light chain; inhibition, blood clotting,hydrolase; HET: 187; 2.90A {Sus scrofa} SCOP: g.3.11.1 g.3.11.1 PDB: 1pfx_L*

Probab=95.19  E-value=0.0098  Score=42.19  Aligned_cols=38  Identities=24%  Similarity=0.698  Sum_probs=30.8

Q ss_pred             cccCCCCCCC--CCCCCCee-eeCCCCceEEecCCCee----ccccccC
Q psy10055         24 SVLDPCEEHD--PCKHGGIC-ISTDSGPICECRNLDFE----GIYCEKV   65 (124)
Q Consensus        24 ~~~d~C~~~n--PC~ngG~C-~~~~~~y~C~C~~tg~~----G~~Ce~~   65 (124)
                      .++|+| ..+  +|.+  +| ++..++|.|.|++ ||.    |..|+..
T Consensus        83 ~~~deC-~~~~~~C~~--~C~~n~~g~y~C~C~~-Gy~l~~dG~~C~~~  127 (146)
T 1x7a_L           83 ELDATC-NIKNGRCKQ--FCKTGADSKVLCSCTT-GYRLAPDQKSCKPA  127 (146)
T ss_dssp             CEECCT-TSGGGSCSS--BCCCCSSSCCCCBCCT-TEEECTTSSSEEEC
T ss_pred             CCCccc-cCCCCCCcC--CCCCCCCCCEEeEcCC-CcEeCCCCCcCCCC
Confidence            356888 453  6766  89 8999999999999 999    8999754

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=95.15  E-value=0.0032  Score=54.63  Aligned_cols=43  Identities=16%  Similarity=0.112  Sum_probs=30.9

Q ss_pred             cccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         78 RGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        78 r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      |.....++.  +.-++.  |.|   |||++|||++|+|||+|+.+ |.+|+
T Consensus       204 R~~~~epl~TGirvID~--l~PigkGqr~~I~g~~g~GKT~L~~~-ia~~~  251 (588)
T 3mfy_A          204 KLPPEVPLITGQRVIDT--FFPQAKGGTAAIPGPAGSGKTVTQHQ-LAKWS  251 (588)
T ss_dssp             EECSCSEECCSCHHHHH--HSCEETTCEEEECSCCSHHHHHHHHH-HHHHS
T ss_pred             hccCCcccccCcchhhc--cCCcccCCeEEeecCCCCCHHHHHHH-HHhcc
Confidence            444444443  455555  556   99999999999999999987 56653

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=95.03  E-value=0.011  Score=49.98  Aligned_cols=34  Identities=18%  Similarity=0.190  Sum_probs=27.4

Q ss_pred             eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         87 IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        87 ~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      +.-++.  |.|   |||++|||++|+|||+|+. .|+||.
T Consensus       139 iraID~--l~pigrGQr~~Ifgg~G~GKt~L~~-~Ia~~~  175 (465)
T 3vr4_D          139 ISAIDH--LNTLVRGQKLPVFSGSGLPHKELAA-QIARQA  175 (465)
T ss_dssp             CHHHHT--TSCCBTTCBCCEEECTTSCHHHHHH-HHHHHC
T ss_pred             ceEEec--ccccccCCEEEEeCCCCcChHHHHH-HHHHHH
Confidence            555565  445   9999999999999999986 577764

>2ygq_A WIF-1, WNT inhibitory factor 1; signaling protein, WNT signaling pathway, WNT antagonist, MO cancer, glycosaminoglycan; HET: PCF NAG FUC SCR; 3.95A {Homo sapiens}

Probab=95.03  E-value=0.016  Score=46.26  Aligned_cols=29  Identities=34%  Similarity=1.014  Sum_probs=18.6

Q ss_pred             CCCCCCCeeeeCCCCceEEecCCCeeccccccC
Q psy10055         33 DPCKHGGICISTDSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        33 nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      .+|.|+|+|+.   .+.|.|++ ||+|.+|+..
T Consensus       185 ~~C~~~G~C~~---~~~C~C~~-G~~G~~C~~~  213 (324)
T 2ygq_A          185 PRCMNGGLCVT---PGFCICPP-GFYGVNCDKA  213 (324)
T ss_dssp             SCCCTTCEECS---SCCEECCT-TCBTTTTCBC
T ss_pred             CCCCCCCEEcC---CCEEeCCC-CccCCCcccC
Confidence            46777777754   35677776 6777776643

>2ygq_A WIF-1, WNT inhibitory factor 1; signaling protein, WNT signaling pathway, WNT antagonist, MO cancer, glycosaminoglycan; HET: PCF NAG FUC SCR; 3.95A {Homo sapiens}

Probab=95.00  E-value=0.013  Score=46.65  Aligned_cols=33  Identities=42%  Similarity=1.052  Sum_probs=28.2

Q ss_pred             CCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccC
Q psy10055         27 DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        27 d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      +.|  ++||.|+|+|..   .+.|.|++ ||+|..|+.+
T Consensus       149 ~~C--~~~C~~~G~C~~---~~~C~C~~-G~~G~~C~~~  181 (324)
T 2ygq_A          149 AEC--PGGCRNGGFCNE---RRICECPD-GFHGPHCEKA  181 (324)
T ss_dssp             CCC--SSCCCSSCEECT---TSCEECCT-TEESSSSCEE
T ss_pred             CCC--CCCCCCCCEECC---CCeEECCC-CCcCCCCCCC
Confidence            456  579999999986   48999999 9999999864

>2gy5_A Angiopoietin-1 receptor; ligand-binding domain, transferase; HET: NAG NDG; 2.90A {Homo sapiens} PDB: 2gy7_B*

Probab=94.99  E-value=0.012  Score=48.73  Aligned_cols=29  Identities=34%  Similarity=0.811  Sum_probs=26.0

Q ss_pred             CCCCCCeeeeCCCCceEEecCCCeeccccccC
Q psy10055         34 PCKHGGICISTDSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        34 PC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      ||.|+|+|.+  +.+.|.|++ ||+|.+|+..
T Consensus       204 ~C~~~G~C~~--~~g~C~C~~-G~~G~~Ce~~  232 (423)
T 2gy5_A          204 ACMNNGVCHE--DTGECICPP-GFMGRTCEKA  232 (423)
T ss_dssp             CCCTTCEECT--TTCCEECCT-TEESTTSCEE
T ss_pred             CCCCCCEEEC--CCCcEeCCC-CccCCCcccc
Confidence            8999999987  568999999 9999999864

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

Probab=94.98  E-value=0.02  Score=50.38  Aligned_cols=45  Identities=22%  Similarity=0.503  Sum_probs=32.5

Q ss_pred             cccccc----ccCCCCCC---CCCCCCCeeeeCCCCceEEecCCCeeccccc--cCccce
Q psy10055         19 YSVENS----VLDPCEEH---DPCKHGGICISTDSGPICECRNLDFEGIYCE--KVEISV   69 (124)
Q Consensus        19 ~~v~~~----~~d~C~~~---nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce--~~~~~~   69 (124)
                      .++...    +.+.| ..   .+|.++|+|..    +.|.|++ ||+|..|+  .+.+.+
T Consensus       514 ~Gy~G~~Ce~~~~~C-~~~~~~~C~~~G~C~~----g~C~C~~-Gy~G~~CeC~~~~~~C  567 (690)
T 3fcs_B          514 GKITGKYCECDDFSC-VRYKGEMCSGHGQCSC----GDCLCDS-DWTGYYCNCTTRTDTC  567 (690)
T ss_dssp             CCCBSTTSCBCSSCC-CBSSSSBGGGSEEEET----TEEEECT-TEESSSSCEECCCTTT
T ss_pred             CCeeCCCcCcccCcC-cCCCCCCCCCCCEecC----CeeECcC-CCcCCCCccCCCCCcc
Confidence            555543    34667 33   48999999976    7899999 99999998  444444

>2vh0_B Activated factor XA light chain; serine protease, EGF-like domain, blood coagulation, polymorphism, glycoprotein, hydroxylation; HET: GSI; 1.7A {Homo sapiens} PDB: 1ezq_B* 1f0s_B* 1ksn_B* 1f0r_B* 1lpk_A* 1lpz_A* 1lqd_A* 1nfw_B* 1nfx_B* 1nfy_B* 2boh_A* 2cji_B* 1lpg_A* 2j34_B* 2j38_B* 2j2u_B* 2j94_B* 2j95_B* 2uwl_B* 2j4i_B* ...

Probab=94.96  E-value=0.011  Score=41.12  Aligned_cols=35  Identities=20%  Similarity=0.695  Sum_probs=29.0

Q ss_pred             CCCCCC--CCCCCCCeeeeCCCCceEEecCCCee----ccccccC
Q psy10055         27 DPCEEH--DPCKHGGICISTDSGPICECRNLDFE----GIYCEKV   65 (124)
Q Consensus        27 d~C~~~--nPC~ngG~C~~~~~~y~C~C~~tg~~----G~~Ce~~   65 (124)
                      ++| ..  .+|.+  +|++..++|.|.|++ ||+    |..|+..
T Consensus        82 d~C-~~~~~~C~~--~C~~~~g~y~C~C~~-Gy~l~~~g~~C~~~  122 (134)
T 2vh0_B           82 KLC-SLDNGDCDQ--FCHEEQNSVVCSCAR-GYTLADNGKACIPT  122 (134)
T ss_dssp             CGG-GTGGGGCSS--EEEEETTEEEEECCT-TEEECTTSSCEEES
T ss_pred             Ccc-ccCCCCCCC--EeECCCCCEEEECCC-CcEECCCCCccCcC
Confidence            678 45  35776  999999999999999 999    9999754

>1klo_A Laminin; glycoprotein; 2.10A {Mus musculus} SCOP: g.3.11.2 g.3.11.2 g.3.11.2 PDB: 1npe_B 1tle_A

Probab=94.86  E-value=0.015  Score=41.94  Aligned_cols=30  Identities=30%  Similarity=0.752  Sum_probs=26.3

Q ss_pred             CCCCCCeeeeCC--CCceE-EecCCCeecccccc
Q psy10055         34 PCKHGGICISTD--SGPIC-ECRNLDFEGIYCEK   64 (124)
Q Consensus        34 PC~ngG~C~~~~--~~y~C-~C~~tg~~G~~Ce~   64 (124)
                      ||+|+++|....  +.++| .|++ +|+|.+||.
T Consensus         2 ~C~~~g~C~~~~~~g~~~C~~C~~-g~~G~~Ce~   34 (162)
T 1klo_A            2 PCPGGSSCAIVPKTKEVVCTHCPT-GTAGKRCEL   34 (162)
T ss_dssp             CSCTTCCEEECSSSCCEEECSCCT-TEESTTSCE
T ss_pred             cCcCcCcccccCCCCCEEeCCCCC-CCcCCCCcC
Confidence            799999998765  56899 7999 999999986

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=94.77  E-value=0.016  Score=48.51  Aligned_cols=29  Identities=31%  Similarity=0.408  Sum_probs=24.7

Q ss_pred             cCCCCceeEeccCCCCchhhh--HHHHHhcc
Q psy10055         95 MDPPSRELIIGDRQTGKTALA--IDTIINQK  123 (124)
Q Consensus        95 mvp~~r~li~g~~~~g~t~~~--~~~~~~q~  123 (124)
                      ...|||.+|+|+.|+|||+|+  |...|||+
T Consensus       171 i~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~  201 (422)
T 3ice_A          171 IGRGQRGLIVAPPKAGKTMLLQNIAQSIAYN  201 (422)
T ss_dssp             CBTTCEEEEECCSSSSHHHHHHHHHHHHHHH
T ss_pred             ecCCcEEEEecCCCCChhHHHHHHHHHHhhc
Confidence            345999999999999999999  66777775

>1n7d_A LDL receptor, low-density lipoprotein receptor; familial hypercholesterolemia, cholestero metabolism, lipid transport; HET: NAG BMA MAN KEG; 3.70A {Homo sapiens} SCOP: b.68.5.1 g.3.11.1 g.3.11.1 g.3.11.1 g.12.1.1 g.12.1.1 g.12.1.1 g.12.1.1 g.12.1.1 g.12.1.1 PDB: 2lgp_A 1xfe_A 1f5y_A 1ldl_A 1ldr_A 1d2j_A 1f8z_A

Probab=94.67  E-value=0.021  Score=49.42  Aligned_cols=64  Identities=17%  Similarity=0.325  Sum_probs=43.4

Q ss_pred             CCCCCCCCCCC-----CeeeeCCCCceEEecCCCee---ccccccCcccee-eccceeeccccccceeeEeccCCCcC
Q psy10055         28 PCEEHDPCKHG-----GICISTDSGPICECRNLDFE---GIYCEKVEISVV-RAISMRVRGSRKKLRLIECEDGAGMD   96 (124)
Q Consensus        28 ~C~~~nPC~ng-----G~C~~~~~~y~C~C~~tg~~---G~~Ce~~~~~~~-~~~~~~~r~~~~~~~~~~C~~~~~mv   96 (124)
                      .| ..++|.++     .+|++..++|.|.|++ ||.   |..|+ +++++. ..++  ...+++....|.|....+|.
T Consensus       291 ~C-~~~eC~~~~~~C~~~C~~~~~~~~C~C~~-G~~~~~~~~C~-dideC~~~~~C--~~~C~n~~g~y~C~C~~G~~  363 (699)
T 1n7d_A          291 EC-GTNECLDNNGGCSHVCNDLKIGYECLCPD-GFQLVAQRRCE-DIDECQDPDTC--SQLCVNLEGGYKCQCEEGFQ  363 (699)
T ss_dssp             SC-CCCCTTSSTTTSCTTCCCCTTCCCCCCCS-SSCCCSSSCCC-CCCCCSSSSSC--TTTCCBCSSCBCCCCCSSCB
T ss_pred             cc-ccccccccccCcCCCcccCCCCcEEeCCC-CeEcCCCCccc-CccccCCCCcc--ccccccCCCCeeeeeecccc
Confidence            45 46666654     3789999999999999 998   88897 666664 1223  23456666667666665554

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=94.66  E-value=0.014  Score=49.44  Aligned_cols=26  Identities=27%  Similarity=0.280  Sum_probs=24.4

Q ss_pred             CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         98 PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      |||.+|+|++|+|||+|+.+.+.|++
T Consensus       151 Gq~~~i~G~sGvGKTtL~~~l~~~~~  176 (473)
T 1sky_E          151 GGKIGLFGGAGVGKTVLIQELIHNIA  176 (473)
T ss_dssp             TCEEEEECCSSSCHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCccHHHHHHHhhhh
Confidence            99999999999999999999998864

>3p5b_L Low density lipoprotein receptor variant; B-propellor, convertase, hydrolase-lipid binding P complex; 3.30A {Homo sapiens} PDB: 3p5c_L

Probab=94.53  E-value=0.014  Score=46.83  Aligned_cols=40  Identities=25%  Similarity=0.795  Sum_probs=32.3

Q ss_pred             ccccccc------cccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeec
Q psy10055         17 CHYSVEN------SVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEG   59 (124)
Q Consensus        17 c~~~v~~------~~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G   59 (124)
                      |..++++      .++|+|..++||.+  +|+++.++|.|.|++ ||.+
T Consensus        25 C~~G~~~~~~~~C~dideC~~~~~C~~--~C~n~~g~~~C~C~~-g~~~   70 (400)
T 3p5b_L           25 CPDGFQLVAQRRCEDIDECQDPDTCSQ--LCVNLEGGYKCQCEE-GFQL   70 (400)
T ss_dssp             CCTTEEECSSSCEEECCCCSTTSSCSS--CCBCCSSSCBCCCCT-TCCC
T ss_pred             CCCCCCcCCCCcccCchhhhccCCCCC--ccCCCccceeeeccc-cccc
Confidence            6677663      37889944678976  899999999999999 9974

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=94.40  E-value=0.02  Score=46.00  Aligned_cols=29  Identities=24%  Similarity=0.227  Sum_probs=25.1

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      ....||+.+|+|.+|+|||+| +..|+++.
T Consensus        67 ~i~~Gq~~gIiG~nGaGKTTL-l~~I~g~~   95 (347)
T 2obl_A           67 TCGIGQRIGIFAGSGVGKSTL-LGMICNGA   95 (347)
T ss_dssp             CEETTCEEEEEECTTSSHHHH-HHHHHHHS
T ss_pred             eecCCCEEEEECCCCCCHHHH-HHHHhcCC
Confidence            345699999999999999999 88888764

>1szb_A Mannose binding lectin-associated serine protease-2 related protein, MAP19 (19KDA)...; calcium, complement, innate immunity, CUB, EGF; 2.50A {Homo sapiens} SCOP: b.23.1.1 g.3.11.1

Probab=94.38  E-value=0.028  Score=40.02  Aligned_cols=35  Identities=31%  Similarity=0.800  Sum_probs=27.6

Q ss_pred             ccCCCCCCCC-----CCCCCeeeeCCCCceEEecCCCee----ccccc
Q psy10055         25 VLDPCEEHDP-----CKHGGICISTDSGPICECRNLDFE----GIYCE   63 (124)
Q Consensus        25 ~~d~C~~~nP-----C~ngG~C~~~~~~y~C~C~~tg~~----G~~Ce   63 (124)
                      ++++| ...+     |++  .|++..++|.|.|++ ||.    |..|+
T Consensus       123 di~eC-~~~~~~~~~C~~--~C~n~~g~~~C~C~~-Gy~l~~d~~~C~  166 (170)
T 1szb_A          123 DIDEC-QVAPGEAPTCDH--HCHNHLGGFYCSCRA-GYVLHRNKRTCS  166 (170)
T ss_dssp             ECCTT-CCCTTSCCSSSS--EEEEETTEEEEECCT-TEEECTTSSCEE
T ss_pred             ccCcc-cCCCCCCCccCC--ccccCCCCEEEeCCC-CcEECCCCCccc
Confidence            56789 4443     876  799999999999999 997    56664

>2gy5_A Angiopoietin-1 receptor; ligand-binding domain, transferase; HET: NAG NDG; 2.90A {Homo sapiens} PDB: 2gy7_B*

Probab=94.14  E-value=0.043  Score=45.31  Aligned_cols=34  Identities=24%  Similarity=0.732  Sum_probs=27.4

Q ss_pred             CCCCCCCCCCCCeeeeCCCCceEEecCCCeecccccc
Q psy10055         28 PCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEK   64 (124)
Q Consensus        28 ~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~   64 (124)
                      .|...++|.++++|.  .+.|.|.|++ ||+|.+|+.
T Consensus       245 ~C~~~~~C~~~g~C~--~~~~~C~C~~-G~~G~~C~~  278 (423)
T 2gy5_A          245 RCSGQEGCKSYVFCL--PDPYGCSCAT-GWKGLQCNE  278 (423)
T ss_dssp             ECCSTTTTTTCCEEE--TTTTEEECCB-TCBSGGGCB
T ss_pred             cCCCCCCCCCCCEEC--CCCCeEEeCC-CcccccccC
Confidence            453256788899995  4679999999 999999986

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=93.67  E-value=0.04  Score=45.59  Aligned_cols=30  Identities=13%  Similarity=0.187  Sum_probs=25.7

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      +.+..||+.+|+|.+|.|||+| +..|+++.
T Consensus       152 l~i~~Gq~~~IvG~sGsGKSTL-l~~Iag~~  181 (438)
T 2dpy_A          152 LTVGRGQRMGLFAGSGVGKSVL-LGMMARYT  181 (438)
T ss_dssp             SCCBTTCEEEEEECTTSSHHHH-HHHHHHHS
T ss_pred             EEecCCCEEEEECCCCCCHHHH-HHHHhccc
Confidence            4456799999999999999999 88888754

>3zyj_B Netrin-G1; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=93.53  E-value=0.017  Score=48.36  Aligned_cols=29  Identities=38%  Similarity=0.894  Sum_probs=0.0

Q ss_pred             CCCCCCCCeeeeCCCCceEEecCCCeecccccc
Q psy10055         32 HDPCKHGGICISTDSGPICECRNLDFEGIYCEK   64 (124)
Q Consensus        32 ~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~   64 (124)
                      ..||+|||+|.+..   .|.|++ ||+|..|+.
T Consensus       370 t~~C~ngg~C~~~~---~C~C~~-G~~G~~Ce~  398 (426)
T 3zyj_B          370 LLHCQNGGTCHNNV---RCLCPA-AYTGILCEK  398 (426)
T ss_dssp             ---------------------------------
T ss_pred             cccCCCCCCcCCCC---CCcCCC-CCcCCCCcC
Confidence            35899999998765   999999 999999976

>1aut_L Activated protein C; serine proteinase, plasma calcium binding, glycoprotein, HYD hydrolase inhibitor complex, blood clotting; HET: 0G6; 2.80A {Homo sapiens} SCOP: g.3.11.1 g.3.11.1 PDB: 3f6u_L*

Probab=93.35  E-value=0.055  Score=36.37  Aligned_cols=24  Identities=17%  Similarity=0.556  Sum_probs=20.9

Q ss_pred             eeeeCCCCceEEecCCCee----cccccc
Q psy10055         40 ICISTDSGPICECRNLDFE----GIYCEK   64 (124)
Q Consensus        40 ~C~~~~~~y~C~C~~tg~~----G~~Ce~   64 (124)
                      +|++..++|.|.|++ ||+    |..|+.
T Consensus        67 ~C~n~~g~y~C~C~~-G~~~~~~g~~C~~   94 (114)
T 1aut_L           67 YCLEEVGWRRCSCAP-GYKLGDDLLQCHP   94 (114)
T ss_dssp             EEEECSSSEEEECCT-TEEECTTSSCEEE
T ss_pred             EeECCCCCEEeECCC-CeeECCCCCccCc
Confidence            999999999999999 999    566654

>4aqs_A Laminin subunit beta-1; cell adhesion; HET: NAG BMA MAN FUL; 3.11A {Mus musculus}

Probab=93.21  E-value=0.019  Score=48.02  Aligned_cols=37  Identities=27%  Similarity=0.580  Sum_probs=0.0

Q ss_pred             cCCCCCCCCCCCCCeeeeCC--CCceEEecCCCeecccccc
Q psy10055         26 LDPCEEHDPCKHGGICISTD--SGPICECRNLDFEGIYCEK   64 (124)
Q Consensus        26 ~d~C~~~nPC~ngG~C~~~~--~~y~C~C~~tg~~G~~Ce~   64 (124)
                      .+.| .+.+|.++|.|...-  ..+.|.|++ ||+|.+|++
T Consensus       487 ~~~C-~~C~C~~~gs~~~~C~~~tG~C~C~~-G~~G~~Ceq  525 (525)
T 4aqs_A          487 LDGC-RPCDCDLGGALNNSCSEDSGQCSCLP-HMIGRQCNE  525 (525)
T ss_dssp             -----------------------------------------
T ss_pred             CCCC-cCCCCCCCCccCCccCCCCCeeECCC-CCcCCCCCC
Confidence            4568 688999999876542  345799999 999999974

>2wg3_C Hedgehog-interacting protein; lipoprotein, development, membrane, secreted, protease, PALM hydrolase, developmental protein, autocatalytic cleavage; HET: NAG; 2.60A {Homo sapiens} PDB: 2wg4_B 2wfx_B 2wft_A 3ho3_A 3ho4_A 3ho5_A

Probab=93.13  E-value=0.017  Score=48.11  Aligned_cols=43  Identities=35%  Similarity=0.906  Sum_probs=7.7

Q ss_pred             cccccccc--ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccC
Q psy10055         17 CHYSVENS--VLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        17 c~~~v~~~--~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      |..++...  ..+.| .+ ||+|+|+|+..   +.|.|++ ||+|.+|+..
T Consensus       412 C~~G~~G~~C~~~~C-~~-~C~~~g~C~~~---~~C~C~~-G~~G~~C~~~  456 (463)
T 2wg3_C          412 CSPGWEGDFCRTAKC-EP-ACRHGGVCVRP---NKCLCKK-GYLGPQCEQV  456 (463)
T ss_dssp             ECTTEESTTSCEECC------------------------------------
T ss_pred             CCCCcCCCcCCcCcC-CC-CCCCCCEECCC---CEEECCC-CcccCCCCCC
Confidence            55666554  45678 45 99999999875   6999999 9999999865

>1kig_L Factor XA; glycoprotein, serine protease, plasma, blood coagulation, complex (protease/inhibitor); 3.00A {Bos taurus} SCOP: g.3.11.1

Probab=92.60  E-value=0.037  Score=32.64  Aligned_cols=29  Identities=21%  Similarity=0.611  Sum_probs=22.9

Q ss_pred             CCCCCCCCeeeeCCCCceEEecCCCee----ccccc
Q psy10055         32 HDPCKHGGICISTDSGPICECRNLDFE----GIYCE   63 (124)
Q Consensus        32 ~nPC~ngG~C~~~~~~y~C~C~~tg~~----G~~Ce   63 (124)
                      ..+|.+  .|+++.++|.|.|++ ||.    |..|+
T Consensus         5 ng~C~~--~C~n~~gs~~C~C~~-Gy~L~~d~~tC~   37 (51)
T 1kig_L            5 NGGCDQ--FCREERSEVRCSCAH-GYVLGDDSKSCV   37 (51)
T ss_dssp             TTSSSS--CCCEETTEECCCCCT-TEEECTTSSCEE
T ss_pred             CCCcCC--EeEcCCCCeEEeCCC-CcEECCCCCccc
Confidence            345654  589999999999999 996    67775

>2p28_B Integrin beta-2; hybrid domain, PSI domain, I-EGF DOM cell adhesion; HET: NAG; 2.20A {Homo sapiens} PDB: 1l3y_A

Probab=92.30  E-value=0.063  Score=40.75  Aligned_cols=34  Identities=29%  Similarity=0.570  Sum_probs=27.9

Q ss_pred             CCCCCCCCeeeeCCCCceEEecCCC------eeccccccCcccee
Q psy10055         32 HDPCKHGGICISTDSGPICECRNLD------FEGIYCEKVEISVV   70 (124)
Q Consensus        32 ~nPC~ngG~C~~~~~~y~C~C~~tg------~~G~~Ce~~~~~~~   70 (124)
                      +.||.++|+|+.    ..|.|.+ +      |+|.+|+.+.+.+.
T Consensus       142 ~~~Csg~G~C~~----g~C~C~~-gw~~~~~~~G~~Ce~~~~~C~  181 (217)
T 2p28_B          142 SIICSGLGDCVC----GQCLCHT-SDVPGKLIYGQYCECDTINCE  181 (217)
T ss_dssp             SCBGGGTEEEET----TEEEECC-CCSTTCCEESTTSCEESSCSC
T ss_pred             CCCCCCCCEEeC----CceECCC-CCCCcccEECCCcccCCccCC
Confidence            578999999985    3899999 8      79999997655554

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=92.00  E-value=0.083  Score=38.24  Aligned_cols=30  Identities=30%  Similarity=0.423  Sum_probs=26.3

Q ss_pred             CCCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      +-|+.+++-.+|.|..++|||++|+..+.|
T Consensus        24 ~GGl~~G~l~~i~G~pG~GKT~l~l~~~~~   53 (251)
T 2zts_A           24 EGGFPEGTTVLLTGGTGTGKTTFAAQFIYK   53 (251)
T ss_dssp             TTSEETTCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cCCCCCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            346888999999999999999999997765

>1nzi_A Complement C1S component; calcium, innate immunity, modular structure, CUB, EGF, hydrolase; 1.50A {Homo sapiens} SCOP: b.23.1.1 g.3.11.1

Probab=91.91  E-value=0.13  Score=35.75  Aligned_cols=36  Identities=22%  Similarity=0.639  Sum_probs=26.9

Q ss_pred             ccCCCCCC--CCCCCCCeeeeCCCCceEEecCCCee----ccccc
Q psy10055         25 VLDPCEEH--DPCKHGGICISTDSGPICECRNLDFE----GIYCE   63 (124)
Q Consensus        25 ~~d~C~~~--nPC~ngG~C~~~~~~y~C~C~~tg~~----G~~Ce   63 (124)
                      ++++|...  .+|.  ..|.+..++|.|.|++ ||.    |..|+
T Consensus       116 d~~eC~~~~~~~C~--~~C~n~~g~~~C~C~~-Gy~l~~~~~~C~  157 (159)
T 1nzi_A          116 DINECTDFVDVPCS--HFCNNFIGGYFCSCPP-EYFLHDDMKNCG  157 (159)
T ss_dssp             ECCTTTC-CCCCSS--SEEEEETTEEEEECCT-TCEECTTSSCEE
T ss_pred             cCcccCCCCCCCCC--CcccCcCCCEEEecCC-CcEECCCCCccc
Confidence            56789322  2464  5799999999999999 998    66664

>3t5o_A Complement component C6; macpf, MAC, membrane attack complex, innate IMMU system, blood, membrane, cytolysin, immune SYST; HET: NAG FUL FUC BGC MAN; 2.87A {Homo sapiens} PDB: 4a5w_B* 4e0s_B*

Probab=91.77  E-value=0.08  Score=47.53  Aligned_cols=40  Identities=30%  Similarity=0.691  Sum_probs=34.4

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCc
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVE   66 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~   66 (124)
                      ..+.| +-+||+|+|+++...+...|.|++ +|.|..|+...
T Consensus       496 e~~~c-~C~PC~ngg~~~l~g~~C~C~C~~-g~~G~~Ce~~~  535 (913)
T 3t5o_A          496 KFDPC-QCAPCPNNGRPTLSGTECLCVCQS-GTYGENCEKQS  535 (913)
T ss_dssp             TTCGG-GSCCBTTTBEEEEETTEEEEECCT-TBCSTTSCCBC
T ss_pred             ccccc-cCCCCCCCCEeecCCCceEEEccC-CccccCccCcc
Confidence            34667 567999999999888889999999 99999998864

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

Probab=91.47  E-value=0.077  Score=46.68  Aligned_cols=42  Identities=29%  Similarity=0.768  Sum_probs=32.8

Q ss_pred             cccccccc------ccCCCCCCC---CCCCCCeeeeCCCCceEEecCCCeecccccc
Q psy10055         17 CHYSVENS------VLDPCEEHD---PCKHGGICISTDSGPICECRNLDFEGIYCEK   64 (124)
Q Consensus        17 c~~~v~~~------~~d~C~~~n---PC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~   64 (124)
                      |..+|...      ..+.| ..+   +|.++|+|..    ..|.|++ ||+|++|++
T Consensus       542 C~~G~~G~~Cec~~~~~~C-~~~~g~~Cs~~G~C~~----g~C~C~~-Gy~G~~Ce~  592 (687)
T 3k6s_B          542 CHPGFEGSACQCERTTEGC-LNPRRVECSGRGRCRC----NVCECHS-GYQLPLCQE  592 (687)
T ss_dssp             ECTTCCSTTSCSCCSSCTT-BCTTCSBTSSSCCBCS----SCBCCST-TCCTTTTCC
T ss_pred             cCCCCcCCCCccCCCCCCC-CCCCCCCCCCCCcCCC----CEEECCC-CCcCCCCCC
Confidence            66666654      13567 454   8999999987    5799999 999999987

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=91.01  E-value=0.13  Score=37.12  Aligned_cols=30  Identities=27%  Similarity=0.353  Sum_probs=25.4

Q ss_pred             CCCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      +.++.+++--+|+|..++|||++|+..+.+
T Consensus        17 ~gGl~~G~~~~i~G~~GsGKTtl~~~~~~~   46 (247)
T 2dr3_A           17 HGGIPERNVVLLSGGPGTGKTIFSQQFLWN   46 (247)
T ss_dssp             TTSEETTCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            346778899999999999999999887654

>1kli_L Factor VIIA; extrinsic coagulation pathway, serine protease activation, R drug design, substrate-assisted catalysis, hydrolase; 1.69A {Homo sapiens} SCOP: g.3.11.1 PDB: 1klj_L 1jbu_L 1ygc_L*

Probab=90.70  E-value=0.16  Score=31.86  Aligned_cols=38  Identities=18%  Similarity=0.592  Sum_probs=26.8

Q ss_pred             cccCCCCCC-CCCCCCCeeeeCCC-CceEEecCCCee----cccccc
Q psy10055         24 SVLDPCEEH-DPCKHGGICISTDS-GPICECRNLDFE----GIYCEK   64 (124)
Q Consensus        24 ~~~d~C~~~-nPC~ngG~C~~~~~-~y~C~C~~tg~~----G~~Ce~   64 (124)
                      .++++|... ..|++  .|+++.+ +|.|.|++ ||.    |+.|..
T Consensus         3 ~d~~eC~~~nggC~h--~C~n~~g~s~~C~C~~-Gy~L~~D~~tC~d   46 (69)
T 1kli_L            3 DDQLICVNENGGCEQ--YCSDHTGTKRSCRCHE-GYSLLADGVSCTP   46 (69)
T ss_dssp             SCCCCTTSGGGGCSS--EEEEETTTEEEEECCT-TEEECTTSSCEEE
T ss_pred             cccccccCCCCCcCC--EeEcCCCCCEEEeCCC-CCeECCCCCcccC
Confidence            356778311 24654  6999888 79999999 995    677753

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=89.75  E-value=0.16  Score=41.16  Aligned_cols=28  Identities=14%  Similarity=0.307  Sum_probs=25.1

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      -++.++ +.+|+|+.++|||+||+..+.+
T Consensus        24 GGl~~G-iteI~G~pGsGKTtL~Lq~~~~   51 (333)
T 3io5_A           24 GGMQSG-LLILAGPSKSFKSNFGLTMVSS   51 (333)
T ss_dssp             CCBCSE-EEEEEESSSSSHHHHHHHHHHH
T ss_pred             CCCcCC-eEEEECCCCCCHHHHHHHHHHH
Confidence            467778 8999999999999999999877

>2p28_B Integrin beta-2; hybrid domain, PSI domain, I-EGF DOM cell adhesion; HET: NAG; 2.20A {Homo sapiens} PDB: 1l3y_A

Probab=89.67  E-value=0.12  Score=39.12  Aligned_cols=34  Identities=32%  Similarity=0.774  Sum_probs=26.9

Q ss_pred             cCCCCCCC---CCCCC--CeeeeCCCCceEEecCCCeeccccccC
Q psy10055         26 LDPCEEHD---PCKHG--GICISTDSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        26 ~d~C~~~n---PC~ng--G~C~~~~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      .+.| ..+   +|.++  |+|..    ..|.|.+ ||+|..|+..
T Consensus       177 ~~~C-~~~~g~~C~~~~~G~C~~----g~C~C~~-G~~G~~C~~~  215 (217)
T 2p28_B          177 TINC-ERYNGQVCGGPGRGLCFC----GKCRCHP-GFEGSACQHH  215 (217)
T ss_dssp             SSCS-CEETTEETTCTTTEEEET----TEEEECT-TEESTTSCEE
T ss_pred             CccC-CCCCCCCCCCCCCcEEeC----CeeECCC-CCccCCcCCC
Confidence            4567 344   79888  99985    3899999 9999999863

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=89.56  E-value=0.14  Score=35.81  Aligned_cols=25  Identities=24%  Similarity=0.295  Sum_probs=19.9

Q ss_pred             CCCcCCCCceeEeccCCCCchhhhH
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~~  116 (124)
                      ++...+++.-+|+|..|+|||++|-
T Consensus        32 ~~~~~~g~~~~l~G~~G~GKTtL~~   56 (180)
T 3ec2_A           32 NFNPEEGKGLTFVGSPGVGKTHLAV   56 (180)
T ss_dssp             SCCGGGCCEEEECCSSSSSHHHHHH
T ss_pred             hccccCCCEEEEECCCCCCHHHHHH
Confidence            3334457888999999999999985

>1n7d_A LDL receptor, low-density lipoprotein receptor; familial hypercholesterolemia, cholestero metabolism, lipid transport; HET: NAG BMA MAN KEG; 3.70A {Homo sapiens} SCOP: b.68.5.1 g.3.11.1 g.3.11.1 g.3.11.1 g.12.1.1 g.12.1.1 g.12.1.1 g.12.1.1 g.12.1.1 g.12.1.1 PDB: 2lgp_A 1xfe_A 1f5y_A 1ldl_A 1ldr_A 1d2j_A 1f8z_A

Probab=89.46  E-value=0.28  Score=42.27  Aligned_cols=45  Identities=24%  Similarity=0.769  Sum_probs=34.1

Q ss_pred             cccccccc------cccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeec----cccc
Q psy10055         16 YCHYSVEN------SVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEG----IYCE   63 (124)
Q Consensus        16 ~c~~~v~~------~~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G----~~Ce   63 (124)
                      .|..++++      .++++|..+++|.+  +|+++.++|.|.|++ ||.+    ..|.
T Consensus       318 ~C~~G~~~~~~~~C~dideC~~~~~C~~--~C~n~~g~y~C~C~~-G~~~~~~~~~C~  372 (699)
T 1n7d_A          318 LCPDGFQLVAQRRCEDIDECQDPDTCSQ--LCVNLEGGYKCQCEE-GFQLDPHTKACK  372 (699)
T ss_dssp             CCCSSSCCCSSSCCCCCCCCSSSSSCTT--TCCBCSSCBCCCCCS-SCBCCSSCCCCB
T ss_pred             eCCCCeEcCCCCcccCccccCCCCcccc--ccccCCCCeeeeeec-ccccCCCCCccc
Confidence            46667664      36788843678864  799999999999999 9974    5564

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=88.93  E-value=0.27  Score=34.87  Aligned_cols=27  Identities=33%  Similarity=0.502  Sum_probs=23.3

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHHH
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTII  120 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~~  120 (124)
                      ++.+++--+|+|..+.|||+++.....
T Consensus        16 gi~~G~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           16 GFAPGVLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             SBCTTSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            577799999999999999999987643

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=88.25  E-value=0.18  Score=34.24  Aligned_cols=21  Identities=29%  Similarity=0.474  Sum_probs=17.1

Q ss_pred             CCceeEeccCCCCchhhhHHH
Q psy10055         98 PSRELIIGDRQTGKTALAIDT  118 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~~~  118 (124)
                      +.--+|+|..|+|||++|-..
T Consensus        43 ~~~~ll~G~~G~GKT~l~~~~   63 (195)
T 1jbk_A           43 KNNPVLIGEPGVGKTAIVEGL   63 (195)
T ss_dssp             SCEEEEECCTTSCHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHH
Confidence            455789999999999998643

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

Probab=88.13  E-value=0.3  Score=42.97  Aligned_cols=32  Identities=31%  Similarity=0.604  Sum_probs=26.6

Q ss_pred             CCCCCCeeeeCCCCceEEec------CCCeeccccccCcccee
Q psy10055         34 PCKHGGICISTDSGPICECR------NLDFEGIYCEKVEISVV   70 (124)
Q Consensus        34 PC~ngG~C~~~~~~y~C~C~------~tg~~G~~Ce~~~~~~~   70 (124)
                      +|.++|+|..    ..|.|+      + ||+|.+|+.+...+.
T Consensus       483 ~Cs~~G~C~~----G~C~C~~~~~~~~-G~~G~~Ce~~~~~C~  520 (687)
T 3k6s_B          483 ICSGLGDCVC----GQCLCHTSDVPGK-LIYGQYCECDTINCE  520 (687)
T ss_dssp             GGGSSEEEET----TEEEECCCCSTTC-CEESTTSCEESSCSC
T ss_pred             cCCCCCEEeC----CEEEcCCCCCCCC-Ccccccccccccccc
Confidence            5999999984    299999      9 999999997655554

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=87.65  E-value=0.36  Score=37.56  Aligned_cols=29  Identities=31%  Similarity=0.324  Sum_probs=26.1

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      .++.+|+-.+|.|..+.|||++|+....+
T Consensus        63 gGl~~G~l~li~G~pG~GKTtl~l~ia~~   91 (315)
T 3bh0_A           63 YGYKRRNFVLIAARPSMGKTAFALKQAKN   91 (315)
T ss_dssp             SSBCTTCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCCCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            46889999999999999999999998765

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=87.56  E-value=0.25  Score=35.32  Aligned_cols=24  Identities=25%  Similarity=0.246  Sum_probs=18.3

Q ss_pred             CCcCCCCceeEeccCCCCchhhhH
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~  116 (124)
                      +.|.++...+|+|..|.|||++|-
T Consensus        20 ~~~~~~~~i~l~G~~GsGKsTl~~   43 (199)
T 3vaa_A           20 FQSNAMVRIFLTGYMGAGKTTLGK   43 (199)
T ss_dssp             ----CCCEEEEECCTTSCHHHHHH
T ss_pred             EecCCCCEEEEEcCCCCCHHHHHH
Confidence            345578889999999999999975

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=87.22  E-value=0.28  Score=34.23  Aligned_cols=20  Identities=45%  Similarity=0.795  Sum_probs=17.0

Q ss_pred             CceeEeccCCCCchhhhHHHH
Q psy10055         99 SRELIIGDRQTGKTALAIDTI  119 (124)
Q Consensus        99 ~r~li~g~~~~g~t~~~~~~~  119 (124)
                      .--+|+|.++.|||+| +|+|
T Consensus        24 g~~~I~G~NGsGKSti-l~Ai   43 (149)
T 1f2t_A           24 GINLIIGQNGSGKSSL-LDAI   43 (149)
T ss_dssp             EEEEEECCTTSSHHHH-HHHH
T ss_pred             CeEEEECCCCCCHHHH-HHHH
Confidence            3578999999999999 6766

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=87.21  E-value=0.34  Score=34.91  Aligned_cols=29  Identities=24%  Similarity=0.415  Sum_probs=24.5

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      .++.+++--+|+|..+.|||+++.....+
T Consensus        19 ggi~~G~~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           19 GGIETGSITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             TSEETTSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCcCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            45667889999999999999999887653

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=86.89  E-value=0.33  Score=36.15  Aligned_cols=22  Identities=45%  Similarity=0.679  Sum_probs=18.5

Q ss_pred             cCCCCceeEeccCCCCchhhhH
Q psy10055         95 MDPPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        95 mvp~~r~li~g~~~~g~t~~~~  116 (124)
                      ..++..-+|+|..|+|||++|-
T Consensus        48 ~~~~~~~ll~G~~GtGKT~la~   69 (285)
T 3h4m_A           48 IEPPKGILLYGPPGTGKTLLAK   69 (285)
T ss_dssp             CCCCSEEEEESSSSSSHHHHHH
T ss_pred             CCCCCeEEEECCCCCcHHHHHH
Confidence            3456778999999999999984

>2bz6_L Blood coagulation factor VIIA; serine protease, enzyme complex, hydrolase; HET: 346; 1.6A {Homo sapiens} SCOP: g.3.11.1 PDB: 1w8b_L* 1w7x_L* 1cvw_L*

Probab=86.75  E-value=0.33  Score=28.64  Aligned_cols=27  Identities=22%  Similarity=0.834  Sum_probs=21.3

Q ss_pred             CCCCCCeeeeCCC-CceEEecCCCee----ccccc
Q psy10055         34 PCKHGGICISTDS-GPICECRNLDFE----GIYCE   63 (124)
Q Consensus        34 PC~ngG~C~~~~~-~y~C~C~~tg~~----G~~Ce   63 (124)
                      .|++  .|+++.+ +|.|.|++ ||.    |+.|+
T Consensus         8 gC~~--~C~n~~ggs~~C~C~~-Gy~L~~Dg~tC~   39 (53)
T 2bz6_L            8 GCEQ--YCSDHTGTKRSCRCHE-GYSLLADGVSCT   39 (53)
T ss_dssp             GCSS--EEEEETTTEEEEECCT-TEEECTTSSCEE
T ss_pred             CcCC--EeEcCCCCCEEeeCCC-CCEECCCCCccc
Confidence            3544  5999888 69999999 996    67775

>4aqs_A Laminin subunit beta-1; cell adhesion; HET: NAG BMA MAN FUL; 3.11A {Mus musculus}

Probab=86.19  E-value=0.31  Score=40.63  Aligned_cols=49  Identities=18%  Similarity=0.451  Sum_probs=33.8

Q ss_pred             Cccccccccc---cccCCCCCCCCCCCCCeeeeCC----CCceEEecCCCeecccccc
Q psy10055         14 CQYCHYSVEN---SVLDPCEEHDPCKHGGICISTD----SGPICECRNLDFEGIYCEK   64 (124)
Q Consensus        14 ~~~c~~~v~~---~~~d~C~~~nPC~ngG~C~~~~----~~y~C~C~~tg~~G~~Ce~   64 (124)
                      |..|..+...   ...+.| .+.+|.++|+|....    ..+.|.|++ +|.|.+|++
T Consensus       420 C~~C~~Gy~G~~c~~~~~C-~~C~C~~~gtc~~~~~Cd~~tg~C~C~~-g~~G~~Ce~  475 (525)
T 4aqs_A          420 CDVCKEGFYDLSAEDPYGC-KSCACNPLGTIPGGNPCDSETGYCYCKR-LVTGQRCDQ  475 (525)
T ss_dssp             TCEECTTEECCCTTSTTSS-EECCCCTTTBCCSSCCBCTTTCCBCBCT-TCCSTTTCC
T ss_pred             ccCCCCCCcCCCCCCCCCC-ccCCCCCCceecCCCcccCCCCEEECCC-CCcCCCccc
Confidence            4445555443   234567 577888888876543    356899999 999999974

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=85.86  E-value=0.44  Score=33.75  Aligned_cols=26  Identities=27%  Similarity=0.365  Sum_probs=22.2

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHH
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTI  119 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~  119 (124)
                      ++.+|+--+|+|..|.|||+++....
T Consensus        19 gi~~G~~~~i~G~~GsGKTtl~~~l~   44 (235)
T 2w0m_A           19 GIPQGFFIALTGEPGTGKTIFSLHFI   44 (235)
T ss_dssp             SEETTCEEEEECSTTSSHHHHHHHHH
T ss_pred             CCcCCCEEEEEcCCCCCHHHHHHHHH
Confidence            46678888999999999999987655

>3v64_C Agrin; beta propeller, laminin-G, signaling, protein binding; HET: NAG; 2.85A {Rattus norvegicus}

Probab=85.74  E-value=0.35  Score=37.73  Aligned_cols=35  Identities=23%  Similarity=0.651  Sum_probs=20.2

Q ss_pred             CCCCCCCCCCCCCeeeeCCCCceEEecCCCee----cccccc
Q psy10055         27 DPCEEHDPCKHGGICISTDSGPICECRNLDFE----GIYCEK   64 (124)
Q Consensus        27 d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~----G~~Ce~   64 (124)
                      |+|..+.+|.+  .|+++.++|.|.|++ ||.    +..|..
T Consensus         2 ~ec~~~~~C~~--~C~n~~g~~~C~C~~-g~~l~~d~~~C~~   40 (349)
T 3v64_C            2 NECAEEGYCSQ--GCTNSEGAFQCWCEA-GYELRPDRRSCKA   40 (349)
T ss_dssp             -------CCSS--EECCC---CCEECCT-TEEECTTSSCEEE
T ss_pred             cccCCCCCCcC--eeecCCCCeEEECCC-CccCCCCCCcccc
Confidence            56732445765  699999999999999 996    677853

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=85.61  E-value=0.42  Score=36.64  Aligned_cols=22  Identities=41%  Similarity=0.496  Sum_probs=19.0

Q ss_pred             cCCCCceeEeccCCCCchhhhH
Q psy10055         95 MDPPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        95 mvp~~r~li~g~~~~g~t~~~~  116 (124)
                      +.++...+|+|..|+|||++|-
T Consensus        46 ~~~~~~vLL~Gp~GtGKT~la~   67 (301)
T 3cf0_A           46 MTPSKGVLFYGPPGCGKTLLAK   67 (301)
T ss_dssp             CCCCSEEEEECSSSSSHHHHHH
T ss_pred             CCCCceEEEECCCCcCHHHHHH
Confidence            4567788999999999999985

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=85.55  E-value=0.59  Score=35.34  Aligned_cols=28  Identities=11%  Similarity=0.183  Sum_probs=24.1

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHH
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTII  120 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~  120 (124)
                      .++.+|+-.+|+|..|.|||+++.....
T Consensus        30 ~~l~~G~~~~i~G~~G~GKTTl~~~ia~   57 (296)
T 1cr0_A           30 LGARGGEVIMVTSGSGMGKSTFVRQQAL   57 (296)
T ss_dssp             CSBCTTCEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCCCCCeEEEEEeCCCCCHHHHHHHHHH
Confidence            4678899999999999999999986544

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=85.40  E-value=0.3  Score=33.36  Aligned_cols=19  Identities=16%  Similarity=0.183  Sum_probs=16.2

Q ss_pred             CCceeEeccCCCCchhhhH
Q psy10055         98 PSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~  116 (124)
                      ....+|.|..|+|||++|-
T Consensus        27 ~~~vll~G~~GtGKt~lA~   45 (143)
T 3co5_A           27 TSPVFLTGEAGSPFETVAR   45 (143)
T ss_dssp             SSCEEEEEETTCCHHHHHG
T ss_pred             CCcEEEECCCCccHHHHHH
Confidence            3458899999999999984

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=85.38  E-value=0.24  Score=33.67  Aligned_cols=21  Identities=29%  Similarity=0.502  Sum_probs=16.9

Q ss_pred             CCceeEeccCCCCchhhhHHH
Q psy10055         98 PSRELIIGDRQTGKTALAIDT  118 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~~~  118 (124)
                      ..-.+|+|..|+|||++|...
T Consensus        43 ~~~vll~G~~G~GKT~la~~~   63 (187)
T 2p65_A           43 KNNPILLGDPGVGKTAIVEGL   63 (187)
T ss_dssp             SCEEEEESCGGGCHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHH
Confidence            345689999999999998643

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=85.21  E-value=0.45  Score=37.93  Aligned_cols=29  Identities=28%  Similarity=0.430  Sum_probs=25.6

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      .++.+++-.+|+|..++|||+||+..+.+
T Consensus        56 GGl~~G~iv~I~G~pGsGKTtLal~la~~   84 (349)
T 2zr9_A           56 GGLPRGRVIEIYGPESSGKTTVALHAVAN   84 (349)
T ss_dssp             SSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            46778899999999999999999998765

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=85.05  E-value=0.48  Score=35.69  Aligned_cols=27  Identities=19%  Similarity=0.249  Sum_probs=24.0

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHHH
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTII  120 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~~  120 (124)
                      ++.+++-.+|+|..+.|||+|++..+.
T Consensus        26 gl~~G~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           26 NMVAGTVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             TEETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CccCCCEEEEEcCCCCCHHHHHHHHHH
Confidence            577899999999999999999988764

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=85.00  E-value=0.45  Score=33.41  Aligned_cols=23  Identities=26%  Similarity=0.612  Sum_probs=18.1

Q ss_pred             CCceeEeccCCCCchhhhHHHHHh
Q psy10055         98 PSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      .-+.+++|+.++|||+|. ..+.+
T Consensus        20 ~~ki~~vG~~~vGKTsLi-~~l~~   42 (196)
T 3llu_A           20 KPRILLMGLRRSGKSSIQ-KVVFH   42 (196)
T ss_dssp             CCEEEEEESTTSSHHHHH-HHHHS
T ss_pred             ceEEEEECCCCCCHHHHH-HHHHh
Confidence            346789999999999994 45554

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=84.85  E-value=0.35  Score=33.00  Aligned_cols=19  Identities=21%  Similarity=0.146  Sum_probs=16.4

Q ss_pred             CCceeEeccCCCCchhhhH
Q psy10055         98 PSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~  116 (124)
                      ....+|.|..|+|||++|-
T Consensus        24 ~~~vll~G~~GtGKt~lA~   42 (145)
T 3n70_A           24 DIAVWLYGAPGTGRMTGAR   42 (145)
T ss_dssp             CSCEEEESSTTSSHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHH
Confidence            4557899999999999985

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=84.83  E-value=0.42  Score=33.93  Aligned_cols=21  Identities=19%  Similarity=0.210  Sum_probs=17.9

Q ss_pred             CCCceeEeccCCCCchhhhHH
Q psy10055         97 PPSRELIIGDRQTGKTALAID  117 (124)
Q Consensus        97 p~~r~li~g~~~~g~t~~~~~  117 (124)
                      .+..-+|+|..|+|||++|--
T Consensus        51 ~~~~~ll~G~~G~GKT~la~~   71 (242)
T 3bos_A           51 GVQAIYLWGPVKSGRTHLIHA   71 (242)
T ss_dssp             SCSEEEEECSTTSSHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHH
Confidence            466788999999999999854

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=84.76  E-value=0.44  Score=36.71  Aligned_cols=29  Identities=24%  Similarity=0.363  Sum_probs=25.6

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      .++.+++-.+|+|..++|||++|+..+.+
T Consensus        93 GGl~~g~i~~i~G~~gsGKT~la~~la~~  121 (322)
T 2i1q_A           93 GGLESQSVTEFAGVFGSGKTQIMHQSCVN  121 (322)
T ss_dssp             SSEETTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            45777888999999999999999998876

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=84.52  E-value=0.46  Score=35.07  Aligned_cols=21  Identities=43%  Similarity=0.544  Sum_probs=17.4

Q ss_pred             CCCCceeEeccCCCCchhhhH
Q psy10055         96 DPPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        96 vp~~r~li~g~~~~g~t~~~~  116 (124)
                      ..+..-+|+|..|+|||++|-
T Consensus        43 ~~~~~vll~G~~GtGKT~la~   63 (257)
T 1lv7_A           43 KIPKGVLMVGPPGTGKTLLAK   63 (257)
T ss_dssp             CCCCEEEEECCTTSCHHHHHH
T ss_pred             CCCCeEEEECcCCCCHHHHHH
Confidence            345568999999999999974

>1ijq_A LDL receptor, low-density lipoprotein receptor; beta-propeller, lipid transport; 1.50A {Homo sapiens} SCOP: b.68.5.1 g.3.11.1

Probab=84.50  E-value=0.97  Score=34.45  Aligned_cols=36  Identities=19%  Similarity=0.544  Sum_probs=23.6

Q ss_pred             ccccCCCCCCC-----CCCCCCeeeeCC------CCceEEecCCCee----cccc
Q psy10055         23 NSVLDPCEEHD-----PCKHGGICISTD------SGPICECRNLDFE----GIYC   62 (124)
Q Consensus        23 ~~~~d~C~~~n-----PC~ngG~C~~~~------~~y~C~C~~tg~~----G~~C   62 (124)
                      ....++| ..+     .|.+  .|+..+      ++|+|.||. ||.    |+.|
T Consensus       264 p~~~n~C-~~~~~~ng~Cs~--~C~~~p~~~~~~~~~~C~C~~-g~~l~~d~~~C  314 (316)
T 1ijq_A          264 PRGVNWC-ERTTLSNGGCQY--LCLPAPQINPHSPKFTCACPD-GMLLARDMRSC  314 (316)
T ss_dssp             CCCCCTT-SSSSSGGGGCSS--EEEECCCCSTTCCSEEEECCT-TCEECTTSSCE
T ss_pred             Ccccccc-cccccCCCCcCc--ccCCCccccCCCCCeEeeCCC-CCEECCCCCcc
Confidence            3355777 444     3543  688664      579999999 885    4555

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=84.48  E-value=0.62  Score=37.99  Aligned_cols=28  Identities=25%  Similarity=0.399  Sum_probs=25.4

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      ++.+|+-.+|.|..+.|||++|+....+
T Consensus       199 Gl~~G~liiI~G~pG~GKTtl~l~ia~~  226 (454)
T 2r6a_A          199 GFQRSDLIIVAARPSVGKTAFALNIAQN  226 (454)
T ss_dssp             SBCTTCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHHH
Confidence            6888999999999999999999987765

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=84.46  E-value=0.49  Score=34.54  Aligned_cols=21  Identities=38%  Similarity=0.539  Sum_probs=17.6

Q ss_pred             CCCCceeEeccCCCCchhhhH
Q psy10055         96 DPPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        96 vp~~r~li~g~~~~g~t~~~~  116 (124)
                      .++...+|+|..|+|||++|-
T Consensus        37 ~~~~~vll~G~~GtGKT~la~   57 (262)
T 2qz4_A           37 KVPKGALLLGPPGCGKTLLAK   57 (262)
T ss_dssp             CCCCEEEEESCTTSSHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHH
Confidence            445668899999999999985

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=84.35  E-value=0.63  Score=38.29  Aligned_cols=28  Identities=32%  Similarity=0.362  Sum_probs=25.9

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      |+.+++-.+|.|..+.|||++|+....|
T Consensus       193 Gl~~G~liiIaG~pG~GKTtlal~ia~~  220 (444)
T 3bgw_A          193 GYKRRNFVLIAARPSMGKTAFALKQAKN  220 (444)
T ss_dssp             SBCSSCEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHHHH
Confidence            6889999999999999999999998776

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=84.27  E-value=0.38  Score=33.33  Aligned_cols=17  Identities=53%  Similarity=0.519  Sum_probs=15.3

Q ss_pred             eeEeccCCCCchhhhHH
Q psy10055        101 ELIIGDRQTGKTALAID  117 (124)
Q Consensus       101 ~li~g~~~~g~t~~~~~  117 (124)
                      -+|.|..|+|||++|-.
T Consensus        41 ~ll~G~~G~GKT~l~~~   57 (226)
T 2chg_A           41 LLFSGPPGTGKTATAIA   57 (226)
T ss_dssp             EEEECSTTSSHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHH
Confidence            88999999999999854

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=84.18  E-value=0.64  Score=37.77  Aligned_cols=28  Identities=32%  Similarity=0.425  Sum_probs=25.4

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      |+.+++-.+|.|..+.|||++|+....|
T Consensus       196 Gl~~G~l~ii~G~pg~GKT~lal~ia~~  223 (444)
T 2q6t_A          196 TLGPGSLNIIAARPAMGKTAFALTIAQN  223 (444)
T ss_dssp             CCCTTCEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CcCCCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            6888999999999999999999988765

>2wph_E Coagulation factor IXA light chain; serine protease, zymogen, hydrolase, glycoprotein, hydroxylation, phosphoprotein, sulfation, hemostasis; HET: DPN 1PE; 1.50A {Homo sapiens} PDB: 2wpi_E* 2wpj_E* 2wpk_E* 2wpl_E* 2wpm_E 3kcg_L* 3lc3_B* 1rfn_B* 3lc5_B*

Probab=84.02  E-value=0.73  Score=27.80  Aligned_cols=24  Identities=21%  Similarity=0.730  Sum_probs=19.6

Q ss_pred             eeeeCC-CCceEEecCCCee----cccccc
Q psy10055         40 ICISTD-SGPICECRNLDFE----GIYCEK   64 (124)
Q Consensus        40 ~C~~~~-~~y~C~C~~tg~~----G~~Ce~   64 (124)
                      .|++.. ++|.|.|++ ||.    |+.|..
T Consensus        12 ~C~n~~~gs~~C~C~~-Gy~L~~D~~tC~d   40 (59)
T 2wph_E           12 FCKNSADNKVVCSCTE-GYRLAENQKSCEP   40 (59)
T ss_dssp             EEEECSTTCEEEECCT-TEEECTTSSCEEE
T ss_pred             EeEeCCCCCEEeeCCC-CcEECCCCCcccC
Confidence            589988 599999999 995    667754

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=83.96  E-value=0.6  Score=36.78  Aligned_cols=29  Identities=24%  Similarity=0.376  Sum_probs=25.6

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      .++.+++-.+|+|..++|||++|+..+.+
T Consensus       117 GGl~~G~i~~I~G~~GsGKTtla~~la~~  145 (343)
T 1v5w_A          117 GGIESMAITEAFGEFRTGKTQLSHTLCVT  145 (343)
T ss_dssp             SSBCSSEEEEEECCTTCTHHHHHHHHHHH
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            46777888899999999999999998876

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=83.92  E-value=0.57  Score=36.45  Aligned_cols=29  Identities=24%  Similarity=0.416  Sum_probs=25.7

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      .++.+++-.+|+|..++|||++|+..+.+
T Consensus       102 GGl~~G~i~~i~G~~GsGKT~la~~la~~  130 (324)
T 2z43_A          102 GGIETRTMTEFFGEFGSGKTQLCHQLSVN  130 (324)
T ss_dssp             TSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCCCCcEEEEECCCCCCHhHHHHHHHHH
Confidence            46777888999999999999999998876

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=83.69  E-value=0.41  Score=33.41  Aligned_cols=19  Identities=37%  Similarity=0.391  Sum_probs=15.9

Q ss_pred             CceeEeccCCCCchhhhHH
Q psy10055         99 SRELIIGDRQTGKTALAID  117 (124)
Q Consensus        99 ~r~li~g~~~~g~t~~~~~  117 (124)
                      .--+|.|..|+|||++|--
T Consensus        46 ~~~ll~G~~G~GKT~l~~~   64 (250)
T 1njg_A           46 HAYLFSGTRGVGKTSIARL   64 (250)
T ss_dssp             SEEEEECSTTSCHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHH
Confidence            3568999999999999853

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=83.66  E-value=0.61  Score=34.31  Aligned_cols=22  Identities=36%  Similarity=0.465  Sum_probs=17.2

Q ss_pred             cCCCCceeEeccCCCCchhhhH
Q psy10055         95 MDPPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        95 mvp~~r~li~g~~~~g~t~~~~  116 (124)
                      +..+...+|+|..|+|||+++-
T Consensus        46 ~~~~~g~ll~G~~G~GKTtl~~   67 (254)
T 1ixz_A           46 ARIPKGVLLVGPPGVGKTHLAR   67 (254)
T ss_dssp             CCCCSEEEEECCTTSSHHHHHH
T ss_pred             CCCCCeEEEECCCCCCHHHHHH
Confidence            3334448999999999999974

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=83.48  E-value=0.73  Score=36.89  Aligned_cols=28  Identities=25%  Similarity=0.419  Sum_probs=25.7

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      ++.+++-.+|.|..+.|||++|+....+
T Consensus        42 Gl~~G~LiiIaG~pG~GKTt~al~ia~~   69 (338)
T 4a1f_A           42 GFNKGSLVIIGARPSMGKTSLMMNMVLS   69 (338)
T ss_dssp             SBCTTCEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            6889999999999999999999988765

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=83.04  E-value=0.64  Score=35.45  Aligned_cols=24  Identities=38%  Similarity=0.502  Sum_probs=18.7

Q ss_pred             CCcCCCCceeEeccCCCCchhhhH
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~  116 (124)
                      .++..+..-+|+|..|+|||++|-
T Consensus        39 ~~l~~~~GvlL~Gp~GtGKTtLak   62 (274)
T 2x8a_A           39 LGLVTPAGVLLAGPPGCGKTLLAK   62 (274)
T ss_dssp             TTCCCCSEEEEESSTTSCHHHHHH
T ss_pred             cCCCCCCeEEEECCCCCcHHHHHH
Confidence            345555558999999999999974

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=82.96  E-value=0.56  Score=35.19  Aligned_cols=20  Identities=40%  Similarity=0.527  Sum_probs=17.6

Q ss_pred             CCCceeEeccCCCCchhhhH
Q psy10055         97 PPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        97 p~~r~li~g~~~~g~t~~~~  116 (124)
                      ++..-+|+|..|+|||++|-
T Consensus        53 ~~~~vll~Gp~GtGKT~la~   72 (297)
T 3b9p_A           53 PAKGLLLFGPPGNGKTLLAR   72 (297)
T ss_dssp             CCSEEEEESSSSSCHHHHHH
T ss_pred             CCCeEEEECcCCCCHHHHHH
Confidence            46778999999999999985

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=82.80  E-value=0.71  Score=31.26  Aligned_cols=22  Identities=23%  Similarity=0.449  Sum_probs=17.3

Q ss_pred             CCceeEeccCCCCchhhhHHHHH
Q psy10055         98 PSRELIIGDRQTGKTALAIDTII  120 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~~~~~  120 (124)
                      .-+.+++|+.+.|||+|. ..++
T Consensus        18 ~~ki~v~G~~~~GKSsli-~~l~   39 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALT-LQFM   39 (187)
T ss_dssp             EEEEEEECSTTSSHHHHH-HHHH
T ss_pred             ceEEEEECCCCCCHHHHH-HHHh
Confidence            457889999999999984 4444

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=82.71  E-value=0.47  Score=33.64  Aligned_cols=22  Identities=27%  Similarity=0.323  Sum_probs=18.9

Q ss_pred             CcCCCCceeEeccCCCCchhhh
Q psy10055         94 GMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      .+.+++.-.|+|+.|.|||++.
T Consensus        29 ~i~~Ge~v~L~G~nGaGKTTLl   50 (158)
T 1htw_A           29 HTEKAIMVYLNGDLGAGKTTLT   50 (158)
T ss_dssp             CCSSCEEEEEECSTTSSHHHHH
T ss_pred             ccCCCCEEEEECCCCCCHHHHH
Confidence            3467888999999999999985

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=82.71  E-value=0.6  Score=34.16  Aligned_cols=23  Identities=26%  Similarity=0.294  Sum_probs=17.5

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      +.+.+|+.-.|+|.+|.|||+|+
T Consensus        18 l~i~~G~~~~lvGpsGsGKSTLl   40 (218)
T 1z6g_A           18 GSMNNIYPLVICGPSGVGKGTLI   40 (218)
T ss_dssp             ----CCCCEEEECSTTSSHHHHH
T ss_pred             eecCCCCEEEEECCCCCCHHHHH
Confidence            33557888999999999999986

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=82.57  E-value=0.59  Score=33.26  Aligned_cols=26  Identities=27%  Similarity=0.417  Sum_probs=22.6

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHH
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTI  119 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~  119 (124)
                      ++.+++.-+|+|.+|.|||+++.-..
T Consensus        21 gi~~G~~~~l~G~nGsGKSTll~~l~   46 (231)
T 4a74_A           21 GIETQAITEVFGEFGSGKTQLAHTLA   46 (231)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHH
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHH
Confidence            57789999999999999999987654

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=82.47  E-value=0.49  Score=34.97  Aligned_cols=20  Identities=45%  Similarity=0.567  Sum_probs=16.6

Q ss_pred             CCCceeEeccCCCCchhhhH
Q psy10055         97 PPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        97 p~~r~li~g~~~~g~t~~~~  116 (124)
                      .+..-+|+|..|+|||++|-
T Consensus        43 ~~~~vll~G~~GtGKT~la~   62 (268)
T 2r62_A           43 IPKGVLLVGPPGTGKTLLAK   62 (268)
T ss_dssp             CCSCCCCBCSSCSSHHHHHH
T ss_pred             CCceEEEECCCCCcHHHHHH
Confidence            34457899999999999985

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=82.36  E-value=0.58  Score=33.04  Aligned_cols=18  Identities=28%  Similarity=0.222  Sum_probs=16.0

Q ss_pred             CceeEeccCCCCchhhhH
Q psy10055         99 SRELIIGDRQTGKTALAI  116 (124)
Q Consensus        99 ~r~li~g~~~~g~t~~~~  116 (124)
                      ..-+|+|..|+|||++|.
T Consensus        55 ~~~~l~G~~GtGKT~la~   72 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLA   72 (202)
T ss_dssp             CEEEEECSTTSSHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHH
Confidence            667899999999999975

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=82.29  E-value=0.62  Score=35.28  Aligned_cols=23  Identities=30%  Similarity=0.400  Sum_probs=20.4

Q ss_pred             CCCceeEeccCCCCchhhhHHHH
Q psy10055         97 PPSRELIIGDRQTGKTALAIDTI  119 (124)
Q Consensus        97 p~~r~li~g~~~~g~t~~~~~~~  119 (124)
                      .+...+|.|..++|||++|++.+
T Consensus        33 ~g~~ilI~GpsGsGKStLA~~La   55 (205)
T 2qmh_A           33 YGLGVLITGDSGVGKSETALELV   55 (205)
T ss_dssp             TTEEEEEECCCTTTTHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            46778999999999999999875

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=82.19  E-value=0.62  Score=33.92  Aligned_cols=20  Identities=45%  Similarity=0.795  Sum_probs=16.5

Q ss_pred             CceeEeccCCCCchhhhHHHH
Q psy10055         99 SRELIIGDRQTGKTALAIDTI  119 (124)
Q Consensus        99 ~r~li~g~~~~g~t~~~~~~~  119 (124)
                      .--+|+|.++.|||+| +|+|
T Consensus        24 ~~~~I~G~NgsGKSti-l~ai   43 (203)
T 3qks_A           24 GINLIIGQNGSGKSSL-LDAI   43 (203)
T ss_dssp             EEEEEECCTTSSHHHH-HHHH
T ss_pred             CeEEEEcCCCCCHHHH-HHHH
Confidence            4568999999999998 4665

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=82.11  E-value=0.74  Score=31.73  Aligned_cols=23  Identities=22%  Similarity=0.455  Sum_probs=18.2

Q ss_pred             CCceeEeccCCCCchhhhHHHHHh
Q psy10055         98 PSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      .-+.+++|+.+.|||||. ..+++
T Consensus        23 ~~~i~v~G~~~~GKSsli-~~l~~   45 (195)
T 1svi_A           23 LPEIALAGRSNVGKSSFI-NSLIN   45 (195)
T ss_dssp             CCEEEEEEBTTSSHHHHH-HHHHT
T ss_pred             CCEEEEECCCCCCHHHHH-HHHhC
Confidence            567899999999999984 44444

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=81.96  E-value=0.63  Score=34.56  Aligned_cols=23  Identities=17%  Similarity=0.226  Sum_probs=17.8

Q ss_pred             CCcCCCCceeEeccCCCCchhhh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALA  115 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~  115 (124)
                      -+|.+|..-.|+|.+|.|||||.
T Consensus        11 ~~~~~G~ii~l~GpsGsGKSTLl   33 (219)
T 1s96_A           11 HHMAQGTLYIVSAPSGAGKSSLI   33 (219)
T ss_dssp             ----CCCEEEEECCTTSCHHHHH
T ss_pred             ccCCCCcEEEEECCCCCCHHHHH
Confidence            35778999999999999999986

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=81.92  E-value=0.8  Score=37.36  Aligned_cols=30  Identities=27%  Similarity=0.470  Sum_probs=25.9

Q ss_pred             CCCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      +.++.+++-.+|+|..+.|||+|+...+++
T Consensus       172 gGGI~~Gei~~I~G~sGsGKTTLl~~la~~  201 (400)
T 3lda_A          172 GGGVETGSITELFGEFRTGKSQLCHTLAVT  201 (400)
T ss_dssp             TTSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cCCcCCCcEEEEEcCCCCChHHHHHHHHHH
Confidence            456778999999999999999999987654

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=81.92  E-value=0.72  Score=35.50  Aligned_cols=22  Identities=41%  Similarity=0.456  Sum_probs=18.6

Q ss_pred             CCCCceeEeccCCCCchhhhHH
Q psy10055         96 DPPSRELIIGDRQTGKTALAID  117 (124)
Q Consensus        96 vp~~r~li~g~~~~g~t~~~~~  117 (124)
                      .++.--+|+|..|+|||++|.-
T Consensus        68 ~~~~~vLl~GppGtGKT~la~~   89 (368)
T 3uk6_A           68 IAGRAVLIAGQPGTGKTAIAMG   89 (368)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHH
Confidence            4567789999999999999864

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=81.15  E-value=0.57  Score=34.90  Aligned_cols=20  Identities=45%  Similarity=0.572  Sum_probs=17.2

Q ss_pred             CCCceeEeccCCCCchhhhH
Q psy10055         97 PPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        97 p~~r~li~g~~~~g~t~~~~  116 (124)
                      ++..-+|+|..|+|||++|-
T Consensus        63 ~~~~vLl~G~~GtGKT~la~   82 (272)
T 1d2n_A           63 PLVSVLLEGPPHSGKTALAA   82 (272)
T ss_dssp             SEEEEEEECSTTSSHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHH
Confidence            45668899999999999985

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=81.12  E-value=0.96  Score=34.85  Aligned_cols=22  Identities=41%  Similarity=0.471  Sum_probs=18.6

Q ss_pred             cCCCCceeEeccCCCCchhhhH
Q psy10055         95 MDPPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        95 mvp~~r~li~g~~~~g~t~~~~  116 (124)
                      ..++...+|+|..|+|||++|-
T Consensus        48 ~~~~~~vLl~GppGtGKT~la~   69 (322)
T 3eie_A           48 RKPTSGILLYGPPGTGKSYLAK   69 (322)
T ss_dssp             CCCCCEEEEECSSSSCHHHHHH
T ss_pred             CCCCCeEEEECCCCCcHHHHHH
Confidence            3466778999999999999984

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=81.11  E-value=0.83  Score=36.61  Aligned_cols=29  Identities=28%  Similarity=0.384  Sum_probs=25.4

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      .++.++.-.+|.|..++|||++|+..+.+
T Consensus        58 GGl~~G~ii~I~G~pGsGKTtLal~la~~   86 (356)
T 1u94_A           58 GGLPMGRIVEIYGPESSGKTTLTLQVIAA   86 (356)
T ss_dssp             SSEETTSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            46777888999999999999999988765

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=81.06  E-value=0.72  Score=33.96  Aligned_cols=30  Identities=17%  Similarity=0.107  Sum_probs=17.9

Q ss_pred             eEeccCCCcCCCCceeEeccCCCCchhhhH
Q psy10055         87 IECEDGAGMDPPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        87 ~~C~~~~~mvp~~r~li~g~~~~g~t~~~~  116 (124)
                      .++++......+...+|+|..|.||||++-
T Consensus        16 ~~~~~~~~~~~~~~i~l~G~~GsGKSTl~k   45 (246)
T 2bbw_A           16 ENLYFQSMASKLLRAVILGPPGSGKGTVCQ   45 (246)
T ss_dssp             ----------CCCEEEEECCTTSSHHHHHH
T ss_pred             HHHHHHHhcCCCcEEEEECCCCCCHHHHHH
Confidence            444444444557899999999999999873

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=81.03  E-value=0.7  Score=34.67  Aligned_cols=19  Identities=32%  Similarity=0.426  Sum_probs=16.5

Q ss_pred             CCceeEeccCCCCchhhhH
Q psy10055         98 PSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~  116 (124)
                      +..-+|+|..|+|||++|-
T Consensus        67 ~~~vll~G~~GtGKT~la~   85 (309)
T 3syl_A           67 TLHMSFTGNPGTGKTTVAL   85 (309)
T ss_dssp             CCEEEEEECTTSSHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHH
Confidence            4457999999999999985

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=80.78  E-value=0.77  Score=31.89  Aligned_cols=21  Identities=19%  Similarity=0.213  Sum_probs=18.0

Q ss_pred             CCCceeEeccCCCCchhhhHH
Q psy10055         97 PPSRELIIGDRQTGKTALAID  117 (124)
Q Consensus        97 p~~r~li~g~~~~g~t~~~~~  117 (124)
                      +++.-+|+|..|+|||+|+--
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~   55 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQA   55 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHH
Confidence            677788999999999999753

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=80.69  E-value=1  Score=35.02  Aligned_cols=22  Identities=36%  Similarity=0.376  Sum_probs=19.0

Q ss_pred             cCCCCceeEeccCCCCchhhhH
Q psy10055         95 MDPPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        95 mvp~~r~li~g~~~~g~t~~~~  116 (124)
                      ..|+.-.+|+|..|+|||++|-
T Consensus        42 ~~~~~~iLL~GppGtGKT~la~   63 (322)
T 1xwi_A           42 RTPWRGILLFGPPGTGKSYLAK   63 (322)
T ss_dssp             CCCCSEEEEESSSSSCHHHHHH
T ss_pred             CCCCceEEEECCCCccHHHHHH
Confidence            4567788999999999999985

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=80.61  E-value=0.9  Score=34.05  Aligned_cols=19  Identities=42%  Similarity=0.601  Sum_probs=16.0

Q ss_pred             CCceeEeccCCCCchhhhH
Q psy10055         98 PSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~  116 (124)
                      +...+|+|..|+|||+|+-
T Consensus        73 ~~gvll~Gp~GtGKTtl~~   91 (278)
T 1iy2_A           73 PKGVLLVGPPGVGKTHLAR   91 (278)
T ss_dssp             CCEEEEECCTTSSHHHHHH
T ss_pred             CCeEEEECCCcChHHHHHH
Confidence            3348999999999999974

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=80.55  E-value=0.77  Score=34.93  Aligned_cols=21  Identities=38%  Similarity=0.393  Sum_probs=17.8

Q ss_pred             CCCceeEeccCCCCchhhhHH
Q psy10055         97 PPSRELIIGDRQTGKTALAID  117 (124)
Q Consensus        97 p~~r~li~g~~~~g~t~~~~~  117 (124)
                      .+.-.+|+|.+|+|||+++--
T Consensus        44 ~~~~vli~G~~G~GKTtl~~~   64 (386)
T 2qby_A           44 KPNNIFIYGLTGTGKTAVVKF   64 (386)
T ss_dssp             CCCCEEEEECTTSSHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHH
Confidence            466788999999999999854

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=80.51  E-value=0.79  Score=34.18  Aligned_cols=24  Identities=29%  Similarity=0.396  Sum_probs=20.9

Q ss_pred             CCCceeEeccCCCCchhhhHHHHH
Q psy10055         97 PPSRELIIGDRQTGKTALAIDTII  120 (124)
Q Consensus        97 p~~r~li~g~~~~g~t~~~~~~~~  120 (124)
                      .+.-.+|.|+.+.|||++|+..+-
T Consensus        15 ~G~gvli~G~SGaGKStlal~L~~   38 (181)
T 3tqf_A           15 DKMGVLITGEANIGKSELSLALID   38 (181)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHH
Confidence            567789999999999999998763

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=80.30  E-value=0.8  Score=36.91  Aligned_cols=29  Identities=31%  Similarity=0.440  Sum_probs=25.6

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      -++.+++-.+|+|+.++|||+||+..+.+
T Consensus        56 GGi~~G~i~~I~GppGsGKSTLal~la~~   84 (356)
T 3hr8_A           56 GGYPRGRIVEIFGQESSGKTTLALHAIAE   84 (356)
T ss_dssp             SSEETTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCccCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            56778999999999999999999988765

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=80.20  E-value=0.74  Score=37.85  Aligned_cols=28  Identities=4%  Similarity=0.033  Sum_probs=25.6

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      ++.+++-.+|.|..++|||++|+....+
T Consensus       238 Gl~~G~l~li~G~pG~GKT~lal~~a~~  265 (503)
T 1q57_A          238 GARGGEVIMVTSGSGMVMSTFVRQQALQ  265 (503)
T ss_dssp             CCCTTCEEEEEESSCHHHHHHHHHHHHH
T ss_pred             ccCCCeEEEEeecCCCCchHHHHHHHHH
Confidence            6788999999999999999999998876

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=80.02  E-value=0.88  Score=33.81  Aligned_cols=19  Identities=42%  Similarity=0.625  Sum_probs=16.6

Q ss_pred             CCceeEeccCCCCchhhhH
Q psy10055         98 PSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~  116 (124)
                      +..-+|+|..|+|||++|-
T Consensus        50 ~~~vll~G~~GtGKT~la~   68 (310)
T 1ofh_A           50 PKNILMIGPTGVGKTEIAR   68 (310)
T ss_dssp             CCCEEEECCTTSSHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHH
Confidence            5568899999999999985

---

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	124
d1cvua2	41	g.3.11.1 (A:33-73) Prostaglandin H2 synthase-1, EG	2e-05
d1q4ga2	42	g.3.11.1 (A:32-73) Prostaglandin H2 synthase-1, EG	5e-05
d2jdid3	276	c.37.1.11 (D:82-357) Central domain of beta subuni	7e-05
d2jdia3	285	c.37.1.11 (A:95-379) Central domain of alpha subun	2e-04
d1edmb_	39	g.3.11.1 (B:) Factor IX (IXa) {Human (Homo sapiens	7e-04
d1nqlb_	48	g.3.11.1 (B:) Epidermal growth factor, EGF {Human	9e-04
d2vj3a1	42	g.3.11.1 (A:411-452) Neurogenic locus notch homolo	0.002
d2vj3a3	35	g.3.11.1 (A:492-526) Neurogenic locus notch homolo	0.002
d1g1ta2	39	g.3.11.1 (A:119-157) E-selectin, EGF-domain {Human	0.002
d1xkba1	39	g.3.11.1 (A:48-86) Factor X, N-terminal module {Hu	0.002
d1g1sa2	40	g.3.11.1 (A:119-158) E-selectin, EGF-domain {Human	0.002
d2vj3a2	39	g.3.11.1 (A:453-491) Neurogenic locus notch homolo	0.002
d2c4fl1	37	g.3.11.1 (L:46-82) Factor IX (IXa) {Pig (Sus scrof	0.003
d1xpua3	289	c.37.1.11 (A:129-417) Transcription termination fa	0.003
d1tpga1	41	g.3.11.1 (A:51-91) Plasminogen activator (tissue-t	0.004

>d1cvua2 g.3.11.1 (A:33-73) Prostaglandin H2 synthase-1, EGF-like module {Mouse (Mus musculus) [TaxId: 10090]} Length = 41

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Prostaglandin H2 synthase-1, EGF-like module
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.7 bits (85), Expect = 2e-05
 Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 2/41 (4%)

Query: 27 DPCEEHDPCKHGGICISTDSG-PICECRNLDFEGIYCEKVE 66
          +PC   +PC++ G C+ST      C+C    F G  C   E
Sbjct: 2  NPCCS-NPCQNRGECMSTGFDQYKCDCTRTGFYGENCTTPE 41

>d1q4ga2 g.3.11.1 (A:32-73) Prostaglandin H2 synthase-1, EGF-like module {Sheep (Ovis aries) [TaxId: 9940]} Length = 42

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Prostaglandin H2 synthase-1, EGF-like module
species: Sheep (Ovis aries) [TaxId: 9940]

 Score = 36.0 bits (83), Expect = 5e-05
 Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 2/42 (4%)

Query: 26 LDPCEEHDPCKHGGICISTDS-GPICECRNLDFEGIYCEKVE 66
          ++PC    PC+H GIC+        C+C    + G  C   E
Sbjct: 2  VNPCCY-YPCQHQGICVRFGLDRYQCDCTRTGYSGPNCTIPE 42

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 276

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 38.6 bits (90), Expect = 7e-05
 Identities = 7/25 (28%), Positives = 12/25 (48%)

Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           +  + G    GKT L ++ I N  +
Sbjct: 70  KIGLFGGAGVGKTVLIMELINNVAK 94

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]} Length = 285

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 37.1 bits (86), Expect = 2e-04
 Identities = 23/25 (92%), Positives = 25/25 (100%)

Query: 100 RELIIGDRQTGKTALAIDTIINQKR 124
           RELIIGDRQTGKT++AIDTIINQKR
Sbjct: 70  RELIIGDRQTGKTSIAIDTIINQKR 94

>d1edmb_ g.3.11.1 (B:) Factor IX (IXa) {Human (Homo sapiens) [TaxId: 9606]} Length = 39

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Factor IX (IXa)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.7 bits (75), Expect = 7e-04
 Identities = 15/37 (40%), Positives = 18/37 (48%), Gaps = 2/37 (5%)

Query: 27 DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCE 63
          D CE + PC +GG C    +   C C    FEG  CE
Sbjct: 4  DQCESN-PCLNGGSCKDDINSYECWCPF-GFEGKNCE 38

>d1nqlb_ g.3.11.1 (B:) Epidermal growth factor, EGF {Human (Homo sapiens) [TaxId: 9606]} Length = 48

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Epidermal growth factor, EGF
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.9 bits (75), Expect = 9e-04
 Identities = 7/42 (16%), Positives = 17/42 (40%), Gaps = 2/42 (4%)

Query: 27 DPCEEHDPCKHGGICISTDSGPICECRNLD-FEGIYCEKVEI 67
              +   C H G+C+  ++     C  +  + G  C+  ++
Sbjct: 5  PLSHD-GYCLHDGVCMYIEALDKYACNCVVGYIGERCQYRDL 45

>d2vj3a1 g.3.11.1 (A:411-452) Neurogenic locus notch homolog protein 1, Notch1 {Human (Homo sapiens) [TaxId: 9606]} Length = 42

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Neurogenic locus notch homolog protein 1, Notch1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.0 bits (73), Expect = 0.002
 Identities = 14/39 (35%), Positives = 20/39 (51%), Gaps = 2/39 (5%)

Query: 26 LDPCEEH-DPCKHGGICISTDSGPICECRNLDFEGIYCE 63
          +D C    +PC+H G CI+T     C+C    + G  CE
Sbjct: 3  VDECSLGANPCEHAGKCINTLGSFECQCLQ-GYTGPRCE 40

>d2vj3a3 g.3.11.1 (A:492-526) Neurogenic locus notch homolog protein 1, Notch1 {Human (Homo sapiens) [TaxId: 9606]} Length = 35

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Neurogenic locus notch homolog protein 1, Notch1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 31.6 bits (72), Expect = 0.002
 Identities = 13/37 (35%), Positives = 16/37 (43%), Gaps = 2/37 (5%)

Query: 27 DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCE 63
          D C    PC H G C+   +   CEC    F G  C+
Sbjct: 1  DECAS-SPCLHNGRCLDKINEFQCECPT-GFTGHLCQ 35

>d1g1ta2 g.3.11.1 (A:119-157) E-selectin, EGF-domain {Human (Homo sapiens) [TaxId: 9606]} Length = 39

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: E-selectin, EGF-domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 31.7 bits (72), Expect = 0.002
 Identities = 11/39 (28%), Positives = 17/39 (43%), Gaps = 2/39 (5%)

Query: 27 DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKV 65
            C     C   G C+ T +   C+C    F G+ CE++
Sbjct: 2  AACTNT-SCSGHGECVETINNYTCKCDP-GFSGLKCEQI 38

>d1xkba1 g.3.11.1 (A:48-86) Factor X, N-terminal module {Human (Homo sapiens) [TaxId: 9606]} Length = 39

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Factor X, N-terminal module
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 31.6 bits (72), Expect = 0.002
 Identities = 14/37 (37%), Positives = 16/37 (43%), Gaps = 2/37 (5%)

Query: 27 DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCE 63
          D CE   PC++ G C        C C    FEG  CE
Sbjct: 1  DQCETS-PCQNQGKCKDGLGEYTCTCLE-GFEGKNCE 35

>d1g1sa2 g.3.11.1 (A:119-158) E-selectin, EGF-domain {Human (Homo sapiens) [TaxId: 9606]} Length = 40

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: E-selectin, EGF-domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 31.7 bits (72), Expect = 0.002
 Identities = 12/39 (30%), Positives = 15/39 (38%), Gaps = 2/39 (5%)

Query: 27 DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKV 65
            C++   C   G C+ T     C C    F G  CE V
Sbjct: 2  ASCQD-MSCSKQGECLETIGNYTCSCYP-GFYGPECEYV 38

>d2vj3a2 g.3.11.1 (A:453-491) Neurogenic locus notch homolog protein 1, Notch1 {Human (Homo sapiens) [TaxId: 9606]} Length = 39

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Neurogenic locus notch homolog protein 1, Notch1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 31.6 bits (72), Expect = 0.002
 Identities = 10/37 (27%), Positives = 18/37 (48%), Gaps = 2/37 (5%)

Query: 27 DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCE 63
          + C   +PC++   C+       C C    +EG++CE
Sbjct: 2  NECVS-NPCQNDATCLDQIGEFQCICMP-GYEGVHCE 36

>d2c4fl1 g.3.11.1 (L:46-82) Factor IX (IXa) {Pig (Sus scrofa) [TaxId: 9823]} Length = 37

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Factor IX (IXa)
species: Pig (Sus scrofa) [TaxId: 9823]

 Score = 31.6 bits (72), Expect = 0.003
 Identities = 15/37 (40%), Positives = 17/37 (45%), Gaps = 2/37 (5%)

Query: 27 DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCE 63
          D C    PC++GG C       IC C    FEG  CE
Sbjct: 3  DQCAS-SPCQNGGSCKDQLQSYICFCLP-AFEGRNCE 37

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]} Length = 289

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

 Score = 33.5 bits (76), Expect = 0.003
 Identities = 7/24 (29%), Positives = 11/24 (45%)

Query: 100 RELIIGDRQTGKTALAIDTIINQK 123
           R LI+   + GKT L  +   +  
Sbjct: 45  RGLIVAPPKAGKTMLLQNIAQSIA 68

>d1tpga1 g.3.11.1 (A:51-91) Plasminogen activator (tissue-type), t-PA {Human (Homo sapiens) [TaxId: 9606]} Length = 41

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Plasminogen activator (tissue-type), t-PA
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 31.0 bits (70), Expect = 0.004
 Identities = 9/32 (28%), Positives = 12/32 (37%), Gaps = 1/32 (3%)

Query: 33 DPCKHGGICISTDSGPICECRNLD-FEGIYCE 63
            C +GG C          C+  + F G  CE
Sbjct: 4  PRCFNGGTCQQALYFSDFVCQCPEGFAGKSCE 35

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	124
d2vj3a2	39	Neurogenic locus notch homolog protein 1, Notch1 {	99.27
d2c4fl1	37	Factor IX (IXa) {Pig (Sus scrofa) [TaxId: 9823]}	99.24
d1xkba1	39	Factor X, N-terminal module {Human (Homo sapiens)	99.23
d1edmb_	39	Factor IX (IXa) {Human (Homo sapiens) [TaxId: 9606	99.23
d2vj3a3	35	Neurogenic locus notch homolog protein 1, Notch1 {	99.22
d2vj3a1	42	Neurogenic locus notch homolog protein 1, Notch1 {	99.19
d1g1ta2	39	E-selectin, EGF-domain {Human (Homo sapiens) [TaxI	99.15
d1g1sa2	40	E-selectin, EGF-domain {Human (Homo sapiens) [TaxI	99.09
d1q4ga2	42	Prostaglandin H2 synthase-1, EGF-like module {Shee	99.08
d1autl1	48	Activated protein c (autoprothrombin IIa) {Human (	99.05
d1tpga1	41	Plasminogen activator (tissue-type), t-PA {Human (	99.04
d1cvua2	41	Prostaglandin H2 synthase-1, EGF-like module {Mous	99.03
d1haea_	63	Heregulin-alpha, EGF-like domain {Human (Homo sapi	98.71
d3egfa_	53	Epidermal growth factor, EGF {Mouse (Mus musculus)	98.56
d1nqlb_	48	Epidermal growth factor, EGF {Human (Homo sapiens)	98.49
d1emoa1	43	Fibrillin-1 {Human (Homo sapiens) [TaxId: 9606]}	97.9
d1ioxa_	50	Betacellulin-2 {Human (Homo sapiens) [TaxId: 9606]	97.67
d1i0ua2	41	Low density lipoprotein (LDL) receptor, different	97.64
d1k36a_	46	Epiregulin, EGF-domain {Human (Homo sapiens) [TaxI	97.61
d2i9aa1	40	Plasminogen activator (urokinase-type) {Human (Hom	97.56
d1lmja1	44	Fibrillin-1 {Human (Homo sapiens) [TaxId: 9606]}	97.55
d1moxc_	49	Transforming growth factor alpha {Human (Homo sapi	97.55
d1uzka2	43	Fibrillin-1 {Human (Homo sapiens) [TaxId: 9606]}	97.49
d1dx5i3	40	Thrombomodulin, different EGF-like domains {Human	97.44
d1uzka1	43	Fibrillin-1 {Human (Homo sapiens) [TaxId: 9606]}	97.43
d1lmja2	42	Fibrillin-1 {Human (Homo sapiens) [TaxId: 9606]}	97.29
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	97.09
d1apqa_	53	Complement protease C1R {Human (Homo sapiens) [Tax	97.07
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	97.07
d1xpua3	289	Transcription termination factor Rho, ATPase domai	96.94
d1gl4a2	40	EGF-like domain of nidogen-1 {Mouse (Mus musculus)	96.89
d1szba2	45	Mannose-binding protein associated serine protease	96.84
d1nt0a3	45	Mannose-binding protein associated serine protease	96.79
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	96.71
d1nzia2	42	Complement C1S component {Human (Homo sapiens) [Ta	96.12
d1xdtr_	41	Heparin-binding epidermal growth factor, HBEGF {Hu	96.06
d3bpse1	40	Low density lipoprotein (LDL) receptor, different	95.1
d1emoa2	39	Fibrillin-1 {Human (Homo sapiens) [TaxId: 9606]}	94.98
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.02
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	94.01
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	93.4
d1kloa1	55	Laminin gamma1 chain {Mouse (Mus musculus) [TaxId:	93.1
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	92.94
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	92.15
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	91.98
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	91.95
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	91.81
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	91.03
d1autl2	50	Activated protein c (autoprothrombin IIa) {Human (	90.81
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	90.33
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	89.65
d2p3ua1	51	Factor X, N-terminal module {Human (Homo sapiens)	88.67
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	87.48
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	86.38
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	85.45
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	85.11
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	85.06
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	84.01
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	83.57
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	83.57
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	83.47
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	82.92
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	82.79
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	82.02
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	81.67
d1kigl_	51	Factor X, N-terminal module {Cow (Bos taurus) [Tax	80.41
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	80.16

>d2vj3a2 g.3.11.1 (A:453-491) Neurogenic locus notch homolog protein 1, Notch1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Neurogenic locus notch homolog protein 1, Notch1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.27  E-value=1.5e-12  Score=74.62  Aligned_cols=38  Identities=26%  Similarity=0.763  Sum_probs=35.6

Q ss_pred             cCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccC
Q psy10055         26 LDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        26 ~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      +|+| .++||+|+|+|++..++|.|.|++ ||+|++||.+
T Consensus         1 Id~C-~~~PC~n~g~C~~~~~~y~C~C~~-G~~G~~Ce~d   38 (39)
T d2vj3a2           1 VNEC-VSNPCQNDATCLDQIGEFQCICMP-GYEGVHCEVN   38 (39)
T ss_dssp             CCTT-TTCCCCSSCEEEECSSCEEEECCT-TEESSSSCEE
T ss_pred             CcCC-cCCCCCCCCEEECCCCCEEEeCCC-CCccCcCeeC
Confidence            5889 699999999999999999999999 9999999875

>d2c4fl1 g.3.11.1 (L:46-82) Factor IX (IXa) {Pig (Sus scrofa) [TaxId: 9823]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Factor IX (IXa)
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=99.24  E-value=1.4e-12  Score=73.90  Aligned_cols=37  Identities=41%  Similarity=0.845  Sum_probs=34.8

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccc
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCE   63 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce   63 (124)
                      ++|+| .++||+|+|+|++.+++|.|.|++ ||+|++||
T Consensus         1 D~d~C-~~~PC~ngg~C~~~~~~y~C~C~~-g~~G~~Ce   37 (37)
T d2c4fl1           1 DGDQC-ASSPCQNGGSCKDQLQSYICFCLP-AFEGRNCE   37 (37)
T ss_dssp             TCCGG-GGCCCCTTCEEEEETTEEEEECCT-TEESTTSC
T ss_pred             CcccC-CCCCCCCCCEEECCCCCeEEECCC-CCcCCCCC
Confidence            46899 699999999999999999999999 99999996

>d1xkba1 g.3.11.1 (A:48-86) Factor X, N-terminal module {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Factor X, N-terminal module
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.23  E-value=2.7e-12  Score=73.47  Aligned_cols=38  Identities=37%  Similarity=0.826  Sum_probs=35.1

Q ss_pred             CCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCc
Q psy10055         27 DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVE   66 (124)
Q Consensus        27 d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~   66 (124)
                      |+| .++||+|+|+|++.+++|.|.|++ ||+|++||...
T Consensus         1 D~C-~~~PC~ngg~C~~~~~~y~C~C~~-G~~G~~Cei~~   38 (39)
T d1xkba1           1 DQC-ETSPCQNQGKCKDGLGEYTCTCLE-GFEGKNCELFT   38 (39)
T ss_dssp             CTT-TTCCCCSSCEECCCSSSCCEECCT-TEETTTTCEES
T ss_pred             CcC-CCCCCCCCcEEECCCCCEEEECCC-CCCcCcCeEcc
Confidence            679 699999999999999999999999 99999998753

>d1edmb_ g.3.11.1 (B:) Factor IX (IXa) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Factor IX (IXa)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.23  E-value=2.7e-12  Score=73.42  Aligned_cols=38  Identities=39%  Similarity=0.763  Sum_probs=35.5

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeecccccc
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEK   64 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~   64 (124)
                      +.|+| .++||+|||+|++..++|+|.|++ ||+|++||.
T Consensus         2 d~d~C-~~~PC~ngg~C~~~~~~y~C~C~~-g~~G~~Cei   39 (39)
T d1edmb_           2 DGDQC-ESNPCLNGGSCKDDINSYECWCPF-GFEGKNCEL   39 (39)
T ss_dssp             CCCTT-TTCCCCTTCEEEEETTEEEEECCT-TCCSTTSCC
T ss_pred             ccccC-CCCCCCCCcEEEcCCCCEEEECCC-CCCCCCCCC
Confidence            56899 699999999999999999999999 999999974

>d2vj3a3 g.3.11.1 (A:492-526) Neurogenic locus notch homolog protein 1, Notch1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Neurogenic locus notch homolog protein 1, Notch1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.22  E-value=5.1e-12  Score=70.66  Aligned_cols=35  Identities=37%  Similarity=0.951  Sum_probs=33.2

Q ss_pred             CCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccc
Q psy10055         27 DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCE   63 (124)
Q Consensus        27 d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce   63 (124)
                      |+| .++||+|+|+|++.+++|+|.|++ +|+|++||
T Consensus         1 d~C-~~~PC~ngg~C~~~~~~y~C~C~~-g~~G~~CE   35 (35)
T d2vj3a3           1 DEC-ASSPCLHNGRCLDKINEFQCECPT-GFTGHLCQ   35 (35)
T ss_dssp             CTT-TTCCSTTTCEEEECSSCEEEECCT-TEESSSSC
T ss_pred             CCC-CCCCCCCCcEEECCCCCeEEECCC-CCCCCCcC
Confidence            679 699999999999999999999999 99999996

>d2vj3a1 g.3.11.1 (A:411-452) Neurogenic locus notch homolog protein 1, Notch1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Neurogenic locus notch homolog protein 1, Notch1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.19  E-value=6.6e-12  Score=72.61  Aligned_cols=40  Identities=35%  Similarity=0.787  Sum_probs=35.5

Q ss_pred             ccCCCCC-CCCCCCCCeeeeCCCCceEEecCCCeeccccccC
Q psy10055         25 VLDPCEE-HDPCKHGGICISTDSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        25 ~~d~C~~-~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      ++|+|+. ++||+|+|+|++.+++|+|.|++ ||+|++||.+
T Consensus         2 DideC~~~~~pC~n~g~C~n~~g~y~C~C~~-G~~G~~Ce~d   42 (42)
T d2vj3a1           2 DVDECSLGANPCEHAGKCINTLGSFECQCLQ-GYTGPRCEID   42 (42)
T ss_dssp             CCCTTTSSSCSSSTTCEEEECSSSEEEECCT-TEESTTSCEE
T ss_pred             CCccccCCCCCCCCCcEeECCCCCEEeECCC-CCcCCCCcCc
Confidence            5788832 68999999999999999999999 9999999863

>d1g1ta2 g.3.11.1 (A:119-157) E-selectin, EGF-domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: E-selectin, EGF-domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.15  E-value=4.9e-12  Score=72.32  Aligned_cols=37  Identities=30%  Similarity=0.847  Sum_probs=34.6

Q ss_pred             CCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccC
Q psy10055         27 DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        27 d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      +.| .++||+|+|+|++.+++|+|.|++ ||+|++||++
T Consensus         2 ~~C-~~~pC~ngg~C~~~~~~~~C~C~~-g~~G~~Ce~~   38 (39)
T d1g1ta2           2 AAC-TNTSCSGHGECVETINNYTCKCDP-GFSGLKCEQI   38 (39)
T ss_dssp             CCC-CTTGGGGSEEEEEETTEEEEEECT-TEESTTSCEE
T ss_pred             Ccc-cCCcCCCCcEEECCCCCEEEeCCC-CCcCcCcCcc
Confidence            579 699999999999999999999999 9999999875

>d1g1sa2 g.3.11.1 (A:119-158) E-selectin, EGF-domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: E-selectin, EGF-domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.09  E-value=1.7e-11  Score=70.32  Aligned_cols=37  Identities=32%  Similarity=0.713  Sum_probs=34.5

Q ss_pred             CCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccC
Q psy10055         27 DPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        27 d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      +.| .++||+|+|+|++.+++|+|.|++ +|+|++||..
T Consensus         2 ~~C-~~~pC~ngg~C~~~~~~y~C~C~~-g~~G~~Ce~~   38 (40)
T d1g1sa2           2 ASC-QDMSCSKQGECLETIGNYTCSCYP-GFYGPECEYV   38 (40)
T ss_dssp             CCC-CTTGGGGSEEEEECSSSEEEEECT-TEESTTSCEE
T ss_pred             Ccc-cCCcCCCCcEEECCCCCeEEeCCC-CccCCCCCCC
Confidence            568 699999999999999999999999 9999999864

>d1q4ga2 g.3.11.1 (A:32-73) Prostaglandin H2 synthase-1, EGF-like module {Sheep (Ovis aries) [TaxId: 9940]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Prostaglandin H2 synthase-1, EGF-like module
species: Sheep (Ovis aries) [TaxId: 9940]

Probab=99.08  E-value=2.2e-11  Score=70.54  Aligned_cols=39  Identities=31%  Similarity=0.803  Sum_probs=34.1

Q ss_pred             cCCCCCCCCCCCCCeeeeC-CCCceEEecCCCeeccccccC
Q psy10055         26 LDPCEEHDPCKHGGICIST-DSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        26 ~d~C~~~nPC~ngG~C~~~-~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      +|.| .++||+|||+|++. +++|.|.|+++||+|++||+.
T Consensus         2 id~C-~~nPC~ngG~C~~~~~~~y~C~C~~~G~~G~~Ce~p   41 (42)
T d1q4ga2           2 VNPC-CYYPCQHQGICVRFGLDRYQCDCTRTGYSGPNCTIP   41 (42)
T ss_dssp             CCGG-GGCCCCTTCEEEEETTTEEEEECTTSSEETTTTCEE
T ss_pred             CccC-cCCCCCCCCEeeeCCCCCEEEECCCCCcCCcCcCcC
Confidence            6889 69999999999864 789999998658999999863

>d1autl1 g.3.11.1 (L:49-96) Activated protein c (autoprothrombin IIa) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Activated protein c (autoprothrombin IIa)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.05  E-value=5.2e-11  Score=70.88  Aligned_cols=41  Identities=32%  Similarity=0.801  Sum_probs=36.8

Q ss_pred             cccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeeccccccCcc
Q psy10055         24 SVLDPCEEHDPCKHGGICISTDSGPICECRNLDFEGIYCEKVEI   67 (124)
Q Consensus        24 ~~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G~~Ce~~~~   67 (124)
                      ...++| .++||+| |+|++.+++|+|.|++ ||+|++|++++.
T Consensus         6 p~~~~C-~~~PC~n-G~C~~~~~~y~C~C~~-G~~G~~Ce~~I~   46 (48)
T d1autl1           6 PLEHPC-ASLCCGH-GTCIDGIGSFSCDCRS-GWEGRFCQREVS   46 (48)
T ss_dssp             SSCCSS-SSTTTTS-EEECCCSSCCCEEECT-TEESTTSCEECC
T ss_pred             CCCCcc-cCCCCCC-CEEECCCCCCeEeCCC-CCcCCCcccccC
Confidence            456899 6999999 6999999999999999 999999998753

>d1tpga1 g.3.11.1 (A:51-91) Plasminogen activator (tissue-type), t-PA {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Plasminogen activator (tissue-type), t-PA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.04  E-value=8e-11  Score=67.74  Aligned_cols=38  Identities=29%  Similarity=0.607  Sum_probs=32.4

Q ss_pred             CCCCCCCCCCeeeeCC--CCceEEecCCCeeccccccCccc
Q psy10055         30 EEHDPCKHGGICISTD--SGPICECRNLDFEGIYCEKVEIS   68 (124)
Q Consensus        30 ~~~nPC~ngG~C~~~~--~~y~C~C~~tg~~G~~Ce~~~~~   68 (124)
                      -.++||+|||+|++..  .+|.|.|++ ||+|++||.++++
T Consensus         1 C~~nPC~ngG~C~~~~~~~~y~C~C~~-g~~G~~Ce~~~~~   40 (41)
T d1tpga1           1 CSEPRCFNGGTCQQALYFSDFVCQCPE-GFAGKSCEIDTRA   40 (41)
T ss_dssp             CSSCCSCTTCEEEEESSSSCEEEECCT-TCBSSSCCBCSSC
T ss_pred             CcCCCCCCCCEEecCCCCCCeEECCCC-CCCCCCcCcCcCC
Confidence            0589999999999753  579999999 9999999988653

>d1cvua2 g.3.11.1 (A:33-73) Prostaglandin H2 synthase-1, EGF-like module {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Prostaglandin H2 synthase-1, EGF-like module
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.03  E-value=7.4e-11  Score=67.94  Aligned_cols=38  Identities=34%  Similarity=0.829  Sum_probs=32.8

Q ss_pred             CCCCCCCCCCCCCeeeeC-CCCceEEecCCCeeccccccC
Q psy10055         27 DPCEEHDPCKHGGICIST-DSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        27 d~C~~~nPC~ngG~C~~~-~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      |+| .++||+|||+|++. +++|+|.|+.++|+|++||+.
T Consensus         2 d~C-~~~PC~ngG~C~~~~~~~y~C~C~~~gy~G~~Ce~p   40 (41)
T d1cvua2           2 NPC-CSNPCQNRGECMSTGFDQYKCDCTRTGFYGENCTTP   40 (41)
T ss_dssp             CTT-TTCCCCTTCEEEEEETTEEEEECTTSSEETTTTCEE
T ss_pred             CcC-cCCCCCCCCEEEECCCCCEEEeCcCCCcCCcCcCcC
Confidence            689 69999999999875 688999997339999999864

>d1haea_ g.3.11.1 (A:) Heregulin-alpha, EGF-like domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Heregulin-alpha, EGF-like domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.71  E-value=1.3e-09  Score=67.50  Aligned_cols=40  Identities=30%  Similarity=0.624  Sum_probs=34.1

Q ss_pred             ccCCCCCCCCCCCCCeee-----eCCCCceEEecCCCeeccccccCc
Q psy10055         25 VLDPCEEHDPCKHGGICI-----STDSGPICECRNLDFEGIYCEKVE   66 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~-----~~~~~y~C~C~~tg~~G~~Ce~~~   66 (124)
                      +.++| .++||+|||+|.     +..++|.|.|++ ||+|.+||...
T Consensus         5 ~c~ec-~~~~C~NgG~C~~~~~~~~~~~y~C~C~~-gy~G~~Ce~~~   49 (63)
T d1haea_           5 KCAEK-EKTFCVNGGECFMVKDLSNPSRYLCKCQP-GFTGARCTENV   49 (63)
T ss_dssp             ECCHH-HHTTSCTTCEEEEEESSSSSCCEEEECCT-TEESTTSCEEC
T ss_pred             cCCCC-cCCcCCCCCEEeecccccCCCCEEeECCC-CCCCCCcCCCC
Confidence            45678 699999999995     455789999999 99999999764

>d3egfa_ g.3.11.1 (A:) Epidermal growth factor, EGF {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Epidermal growth factor, EGF
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.56  E-value=2.9e-08  Score=59.62  Aligned_cols=38  Identities=21%  Similarity=0.609  Sum_probs=32.0

Q ss_pred             CCCCCCCCCCCCCeeee--CCCCceEEecCCCeeccccccCc
Q psy10055         27 DPCEEHDPCKHGGICIS--TDSGPICECRNLDFEGIYCEKVE   66 (124)
Q Consensus        27 d~C~~~nPC~ngG~C~~--~~~~y~C~C~~tg~~G~~Ce~~~   66 (124)
                      .+| .++||+|||+|+.  ...+|+|.|++ +|+|.+||...
T Consensus         7 ~~c-~~~~C~NgG~C~~~~~~~~~~C~C~~-gy~G~~Ce~~~   46 (53)
T d3egfa_           7 PSS-YDGYCLNGGVCMHIESLDSYTCNCVI-GYSGDRCQTRD   46 (53)
T ss_dssp             CTT-SSCCSCSSCEEEEESSSSCEEEECCT-TCCSSSSCCCS
T ss_pred             CCC-CCCCCCCCcEeeccCCCCCeEeECCC-CCcCCCCccCC
Confidence            457 5899999999974  44689999999 99999999753

>d1nqlb_ g.3.11.1 (B:) Epidermal growth factor, EGF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Epidermal growth factor, EGF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.49  E-value=3e-08  Score=58.42  Aligned_cols=37  Identities=22%  Similarity=0.520  Sum_probs=31.3

Q ss_pred             CCCCCCCCCCCCCeeee--CCCCceEEecCCCeeccccccC
Q psy10055         27 DPCEEHDPCKHGGICIS--TDSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        27 d~C~~~nPC~ngG~C~~--~~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      .+| .++||+|||+|+.  ...+|+|.|++ +|+|.+||..
T Consensus         5 ~~c-~~~~C~ngG~C~~~~~~~~~~C~C~~-gy~G~~Ce~~   43 (48)
T d1nqlb_           5 PLS-HDGYCLHDGVCMYIEALDKYACNCVV-GYIGERCQYR   43 (48)
T ss_dssp             CST-TCCEECTTCEEEEETTTTEEEEEECT-TEESTTSCEE
T ss_pred             CCC-CCCCCCCCcEEeeeCCCCCeEEeCCC-CcccCCCCcC
Confidence            456 5899999999975  34679999999 9999999864

>d1emoa1 g.3.11.1 (A:2124-2166) Fibrillin-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Fibrillin-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.90  E-value=2.6e-06  Score=48.74  Aligned_cols=37  Identities=32%  Similarity=0.645  Sum_probs=30.4

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCee--ccccc
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFE--GIYCE   63 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~--G~~Ce   63 (124)
                      ++|+| ...++...++|++++++|.|.|++ ||.  |..|+
T Consensus         4 DidEC-~~~~~~~~~~C~Nt~Gsy~C~C~~-Gy~~~g~~C~   42 (43)
T d1emoa1           4 DMDEC-KEPDVCKHGQCINTDGSYRCECPF-GYILAGNECV   42 (43)
T ss_dssp             CCCSS-SSTTSCSSSCCCCCSSCCCCCCCT-TEEESSSCEE
T ss_pred             ceecc-CCcCCCCCCEeECCCCCeEeECCC-CcccCCCccc
Confidence            78999 466666778999999999999999 996  55553

>d1ioxa_ g.3.11.1 (A:) Betacellulin-2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Betacellulin-2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.67  E-value=1.1e-05  Score=47.51  Aligned_cols=33  Identities=27%  Similarity=0.685  Sum_probs=28.2

Q ss_pred             CCCCCCCCeee-eCCCCceEEecCCCeeccccccC
Q psy10055         32 HDPCKHGGICI-STDSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        32 ~nPC~ngG~C~-~~~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      .++|.||+.|+ .....+.|.|+. +|+|.+||..
T Consensus        13 ~~yC~nGgcc~~~~~~~~~C~C~~-gy~G~rCe~~   46 (50)
T d1ioxa_          13 KHYCIKGRCRFVVAEQTPSCVCDE-GYIGARCERV   46 (50)
T ss_dssp             TTSCTTCCEEEETTTTEEEECCCT-TEETTTTCEE
T ss_pred             CCCccCCeEEEeCCCCCcEeECCC-CCeeCCCccc
Confidence            57899999996 444679999999 9999999864

>d1i0ua2 g.3.11.1 (A:42-82) Low density lipoprotein (LDL) receptor, different EGF domains {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Low density lipoprotein (LDL) receptor, different EGF domains
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.64  E-value=1.8e-05  Score=44.57  Aligned_cols=35  Identities=29%  Similarity=0.980  Sum_probs=27.8

Q ss_pred             cCCCCCCCCCCCCCeeeeCCCCceEEecCCCee----ccccc
Q psy10055         26 LDPCEEHDPCKHGGICISTDSGPICECRNLDFE----GIYCE   63 (124)
Q Consensus        26 ~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~----G~~Ce   63 (124)
                      +|+|..+++|.+  +|+++.++|.|.|++ ||.    |+.|+
T Consensus         1 idEC~~~~~C~~--~C~n~~Gsy~C~C~~-Gy~L~~d~~~C~   39 (41)
T d1i0ua2           1 IDECQDPDTCSQ--LCVNLEGGYKCQCEE-GFQLDPHTKACK   39 (41)
T ss_dssp             CCTTTTTTSCSS--CEECSSSCCEECCCT-TEEECTTTCCEE
T ss_pred             CccCCCCCCCCC--EeECCCCCEEeECCC-CCeECCCCCccc
Confidence            478865668864  799999999999999 996    55553

>d1k36a_ g.3.11.1 (A:) Epiregulin, EGF-domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Epiregulin, EGF-domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.61  E-value=1.7e-05  Score=45.94  Aligned_cols=32  Identities=34%  Similarity=0.831  Sum_probs=25.9

Q ss_pred             CCCCCCCCeee--eCCCCceEEecCCCeeccccccC
Q psy10055         32 HDPCKHGGICI--STDSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        32 ~nPC~ngG~C~--~~~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      .++|.| |.|.  .....+.|.|++ ||+|.+||.-
T Consensus        11 ~~yC~n-G~C~~~~~~~~~~C~C~~-gY~G~RCe~~   44 (46)
T d1k36a_          11 NGYCLH-GQCIYLVDMSQNYCRCEV-GYTGVRCEHF   44 (46)
T ss_dssp             CSSCSS-EEEEEETTTTEEEEEECT-TCSSTTSCCC
T ss_pred             CCcCcC-CEEEEeCCCCccEeECCC-CceecCceee
Confidence            589999 4564  344679999999 9999999863

>d2i9aa1 g.3.11.1 (A:10-49) Plasminogen activator (urokinase-type) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Plasminogen activator (urokinase-type)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.56  E-value=3.1e-05  Score=43.05  Aligned_cols=33  Identities=33%  Similarity=0.771  Sum_probs=27.2

Q ss_pred             CCCCCCeeeeCC---CCceEEecCCCeeccccccCcc
Q psy10055         34 PCKHGGICISTD---SGPICECRNLDFEGIYCEKVEI   67 (124)
Q Consensus        34 PC~ngG~C~~~~---~~y~C~C~~tg~~G~~Ce~~~~   67 (124)
                      -|+|||+|+.-.   .-..|.||. +|.|.+||.+..
T Consensus         3 ~ClNGG~Cvsyk~FS~I~rC~CPk-~f~G~HCEiDt~   38 (40)
T d2i9aa1           3 DCLNGGTCVSNKYFSNIHWCNCPK-KFGGQHCEIDKS   38 (40)
T ss_dssp             CCCTTCEEEECSSSTTCEEEECCT-TEESTTSCEESS
T ss_pred             ccccCCEEEEEehhcCCEEecCCc-ccCceeEEeccc
Confidence            489999999654   335799999 999999998753

>d1lmja1 g.3.11.1 (A:3-46) Fibrillin-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Fibrillin-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.55  E-value=2.2e-05  Score=45.00  Aligned_cols=34  Identities=29%  Similarity=0.697  Sum_probs=26.9

Q ss_pred             ccCCCCC-CCCCCCCCeeeeCCCCceEEecCCCeecc
Q psy10055         25 VLDPCEE-HDPCKHGGICISTDSGPICECRNLDFEGI   60 (124)
Q Consensus        25 ~~d~C~~-~nPC~ngG~C~~~~~~y~C~C~~tg~~G~   60 (124)
                      ++|+|.. +.+|.+ ++|+++.++|.|.|++ ||.+.
T Consensus         2 DidEC~~~~~~C~~-~~C~Nt~Gsy~C~C~~-Gy~~~   36 (44)
T d1lmja1           2 DIDECRISPDLCGR-GQCVNTPGDFECKCDE-GYESG   36 (44)
T ss_dssp             CCCTTTTCSSTTTT-SCEEEETTEEEECCCS-SEEEC
T ss_pred             cccccCCCCCCCCC-CEeEcCCCCeEEeCCC-CCccC
Confidence            6789942 334764 6899999999999999 99764

>d1moxc_ g.3.11.1 (C:) Transforming growth factor alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Transforming growth factor alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.55  E-value=1.6e-05  Score=46.63  Aligned_cols=33  Identities=27%  Similarity=0.674  Sum_probs=27.8

Q ss_pred             CCCCCCCCeeeeC-CCCceEEecCCCeeccccccC
Q psy10055         32 HDPCKHGGICIST-DSGPICECRNLDFEGIYCEKV   65 (124)
Q Consensus        32 ~nPC~ngG~C~~~-~~~y~C~C~~tg~~G~~Ce~~   65 (124)
                      .+.|.|||.|+.. ...++|.|++ ||+|.+||..
T Consensus        12 ~~yClnGgcc~~~~~~~~~C~C~~-gy~G~RCe~~   45 (49)
T d1moxc_          12 TQFCFHGTCRFLVQEDKPACVCHS-GYVGARCEHA   45 (49)
T ss_dssp             SCSSTTEEEEEETTTTEEEEEECT-TEESTTSCEE
T ss_pred             CCEeeCCeEEecCCCCCcEeECCC-CCEecCCccc
Confidence            5789999999644 4679999999 9999999863

>d1uzka2 g.3.11.1 (A:1605-1647) Fibrillin-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Fibrillin-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.49  E-value=9.8e-06  Score=46.16  Aligned_cols=32  Identities=28%  Similarity=0.649  Sum_probs=25.0

Q ss_pred             ccCCCC-CCCCCCCCCeeeeCCCCceEEecCCCee
Q psy10055         25 VLDPCE-EHDPCKHGGICISTDSGPICECRNLDFE   58 (124)
Q Consensus        25 ~~d~C~-~~nPC~ngG~C~~~~~~y~C~C~~tg~~   58 (124)
                      ++|+|. .+.+|.+ ++|+++.++|.|.|++ ||.
T Consensus         2 DinEC~~~~~~c~~-~~C~Nt~Gsy~C~C~~-Gy~   34 (43)
T d1uzka2           2 DIDECQELPGLCQG-GKCINTFGSFQCRCPT-GYY   34 (43)
T ss_dssp             ECCHHHHCGGGGBT-SEEEECSSCEEEECCT-TCC
T ss_pred             CcccccCCCCCcCC-CEEECCCCCeEeECCC-CCe
Confidence            567882 1344765 5899999999999999 986

>d1dx5i3 g.3.11.1 (I:423-462) Thrombomodulin, different EGF-like domains {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Thrombomodulin, different EGF-like domains
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.44  E-value=1.5e-05  Score=44.93  Aligned_cols=32  Identities=28%  Similarity=0.555  Sum_probs=26.2

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCeec
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFEG   59 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~G   59 (124)
                      ++|+|+.+++|+  .+|++++++|.|.|++ ||..
T Consensus         1 DidEC~~~~~C~--~~C~N~~Gsy~C~C~~-Gy~l   32 (40)
T d1dx5i3           1 DIDECENGGFCS--GVCHNLPGTFECICGP-DSAL   32 (40)
T ss_dssp             ECCHHHHCSSCS--SEEEECSSSEEEEECS-SSSC
T ss_pred             CccccCCCcCcc--CEeeCCCCCeEeECCC-CCee
Confidence            467785467886  4899999999999999 9963

>d1uzka1 g.3.11.1 (A:1486-1528) Fibrillin-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Fibrillin-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.43  E-value=3.2e-05  Score=43.82  Aligned_cols=32  Identities=34%  Similarity=0.862  Sum_probs=25.8

Q ss_pred             ccCCCCCCCCCCCCCeeeeCCCCceEEecCCCee
Q psy10055         25 VLDPCEEHDPCKHGGICISTDSGPICECRNLDFE   58 (124)
Q Consensus        25 ~~d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~   58 (124)
                      ++|+|+.+++|. .++|+++.++|.|.|++ ||.
T Consensus         2 DidEC~~~~~~c-~~~C~Nt~G~y~C~C~~-Gy~   33 (43)
T d1uzka1           2 DVNECLDPTTCI-SGNCVNTPGSYICDCPP-DFE   33 (43)
T ss_dssp             CCCGGGSTTSSB-TSEEEEETTEEEEECCT-TCE
T ss_pred             CccccCCCCcCc-CCEeECCCCCEEEecCC-CCE
Confidence            678995445553 57999999999999999 994

>d1lmja2 g.3.11.1 (A:47-88) Fibrillin-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Fibrillin-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.29  E-value=2.4e-05  Score=44.22  Aligned_cols=32  Identities=31%  Similarity=0.812  Sum_probs=24.4

Q ss_pred             ccCCCCC-CCCCCCCCeeeeCCCCceEEecCCCee
Q psy10055         25 VLDPCEE-HDPCKHGGICISTDSGPICECRNLDFE   58 (124)
Q Consensus        25 ~~d~C~~-~nPC~ngG~C~~~~~~y~C~C~~tg~~   58 (124)
                      ++|+|.. +.+|. .++|++++++|.|.|++ ||.
T Consensus         1 DidEC~~~~~~C~-~~~C~Nt~Gsy~C~C~~-Gy~   33 (42)
T d1lmja2           1 DIDECQRDPLLCR-GGVCHNTEGSYRCECPP-GHQ   33 (42)
T ss_dssp             ECCHHHHCSSTTT-TSEEEEETTEEEEESCT-TSC
T ss_pred             CccccCCCCCCCC-CCEeECCCCCeEEeCCC-CCe
Confidence            4567721 33465 46999999999999999 996

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=97.09  E-value=0.00014  Score=55.74  Aligned_cols=47  Identities=53%  Similarity=0.627  Sum_probs=34.3

Q ss_pred             eeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         75 MRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        75 ~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      +..|.....++.  +.-++.  |.|   |||++||+++++|||+|+.++++||+
T Consensus        41 ~~~R~~~~~~l~TGi~~ID~--l~pig~GQr~~Ifg~~g~GKt~l~~~~~~~~~   92 (276)
T d1fx0a3          41 IMSRRSVYEPLQTGLIAIDA--MIPVGRGQRELIIGDRQTGKTAVATDTILNQQ   92 (276)
T ss_dssp             SSSBCCCCSBCCCSCTTTTT--TSCCBTTCBCBEEESSSSSHHHHHHHHHHTCC
T ss_pred             hhhccCCCccccccceEEec--cccccCCceEeeccCCCCChHHHHHHHHhhhc
Confidence            344444444333  455555  434   99999999999999999999999975

>d1apqa_ g.3.11.1 (A:) Complement protease C1R {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Complement protease C1R
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.07  E-value=0.00026  Score=41.45  Aligned_cols=24  Identities=29%  Similarity=0.772  Sum_probs=20.1

Q ss_pred             CeeeeCCCCceEEecCCCee----ccccc
Q psy10055         39 GICISTDSGPICECRNLDFE----GIYCE   63 (124)
Q Consensus        39 G~C~~~~~~y~C~C~~tg~~----G~~Ce   63 (124)
                      .+|++++++|.|.|++ ||.    |..|+
T Consensus        24 ~~C~Nt~GsY~C~C~~-Gy~l~~d~~tC~   51 (53)
T d1apqa_          24 HLCHNYVGGYFCSCRP-GYELQEDRHSCQ   51 (53)
T ss_dssp             SEEEEETTEEEEECST-TCEECTTSSCEE
T ss_pred             CEeEcCCCCeEeECCC-CCeECCCCCcee
Confidence            3899999999999999 996    45554

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.07  E-value=0.00011  Score=56.46  Aligned_cols=47  Identities=21%  Similarity=0.285  Sum_probs=34.4

Q ss_pred             cceeecccccccee--eEeccCCCcCC---CCceeEeccCCCCchhhhHHHHHh
Q psy10055         73 ISMRVRGSRKKLRL--IECEDGAGMDP---PSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        73 ~~~~~r~~~~~~~~--~~C~~~~~mvp---~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      +.+..|.....++.  +.-++.  |.|   |||++|||+.|+|||+|+.+++.|
T Consensus        40 p~~~~R~~i~~~l~TGIraID~--l~pigkGQr~~If~~~g~GKt~l~~~i~~~   91 (276)
T d2jdid3          40 PEFVEMSVEQEILVTGIKVVDL--LAPYAKGGKIGLFGGAGVGKTVLIMELINN   91 (276)
T ss_dssp             CCGGGCCCCCCEECCSCHHHHH--HSCEETTCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CChhHhcCCCcccccCceeeee--eccccCCCEEEeeCCCCCCHHHHHHHHHHH
Confidence            33344444444432  555555  555   999999999999999999999998

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=96.94  E-value=0.00015  Score=55.98  Aligned_cols=26  Identities=27%  Similarity=0.317  Sum_probs=24.5

Q ss_pred             CCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         98 PSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      |||++|+|++|+|||+|+.+.+.||+
T Consensus        43 GQr~~I~g~~g~GKT~l~~~i~~~~~   68 (289)
T d1xpua3          43 GQRGLIVAPPKAGKTMLLQNIAQSIA   68 (289)
T ss_dssp             TCEEEEEECSSSSHHHHHHHHHHHHH
T ss_pred             CCeeeEeCCCCCCHHHHHHHHHHHHh
Confidence            99999999999999999999998864

>d1gl4a2 g.3.11.5 (A:359-398) EGF-like domain of nidogen-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-like domain of nidogen-1
domain: EGF-like domain of nidogen-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.89  E-value=0.00027  Score=39.52  Aligned_cols=30  Identities=23%  Similarity=0.636  Sum_probs=24.6

Q ss_pred             CCCCCCCeeeeCCCCceEEecCCCee--ccccc
Q psy10055         33 DPCKHGGICISTDSGPICECRNLDFE--GIYCE   63 (124)
Q Consensus        33 nPC~ngG~C~~~~~~y~C~C~~tg~~--G~~Ce   63 (124)
                      +.|....+|++++++|.|.|.+ ||.  |..|.
T Consensus         7 ~~C~~~A~C~Nt~Gsy~C~C~~-Gy~GdG~~C~   38 (40)
T d1gl4a2           7 HQCSVHAECRDYATGFCCRCVA-NYTGNGRQCV   38 (40)
T ss_dssp             GGSCTTEEEEECSSCEEEEECT-TEEECSSSEE
T ss_pred             CCCCCCCEeecCCCCeEeECCC-CCcCCCCEee
Confidence            4566779999999999999999 998  45553

>d1szba2 g.3.11.1 (A:124-168) Mannose-binding protein associated serine protease 2, MASP2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Mannose-binding protein associated serine protease 2, MASP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.84  E-value=0.00052  Score=38.93  Aligned_cols=31  Identities=26%  Similarity=0.613  Sum_probs=23.0

Q ss_pred             cCCCCCCCC---CCCCCeeeeCCCCceEEecCCCee
Q psy10055         26 LDPCEEHDP---CKHGGICISTDSGPICECRNLDFE   58 (124)
Q Consensus        26 ~d~C~~~nP---C~ngG~C~~~~~~y~C~C~~tg~~   58 (124)
                      +|+| ..++   +.-..+|+++.++|.|.|++ ||.
T Consensus         1 IdEC-~~~~~~~~~C~~~C~Nt~Gsy~C~C~~-Gy~   34 (45)
T d1szba2           1 IDEC-QVAPGEAPTCDHHCHNHLGGFYCSCRA-GYV   34 (45)
T ss_dssp             CCTT-CCCTTSCCSSSSEEEEETTEEEEECCT-TEE
T ss_pred             CcCC-cCCCCCCCCCCCCCccCCCCeEEECCC-CCe
Confidence            4677 3332   12345899999999999999 996

>d1nt0a3 g.3.11.1 (A:120-164) Mannose-binding protein associated serine protease 2, MASP2 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Mannose-binding protein associated serine protease 2, MASP2
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.79  E-value=0.00044  Score=39.22  Aligned_cols=20  Identities=25%  Similarity=0.562  Sum_probs=18.0

Q ss_pred             CCeeeeCCCCceEEecCCCee
Q psy10055         38 GGICISTDSGPICECRNLDFE   58 (124)
Q Consensus        38 gG~C~~~~~~y~C~C~~tg~~   58 (124)
                      ..+|++++++|.|.|++ ||.
T Consensus        15 ~~~C~Nt~gsy~C~C~~-Gy~   34 (45)
T d1nt0a3          15 DHYCHNYLGGYYCSCRV-GYI   34 (45)
T ss_dssp             SSEEEEETTEEEEECCT-TEE
T ss_pred             CCEeecCCCCEEEeCCC-CCE
Confidence            45899999999999999 995

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=96.71  E-value=0.00037  Score=53.50  Aligned_cols=27  Identities=81%  Similarity=1.069  Sum_probs=25.5

Q ss_pred             CCCceeEeccCCCCchhhhHHHHHhcc
Q psy10055         97 PPSRELIIGDRQTGKTALAIDTIINQK  123 (124)
Q Consensus        97 p~~r~li~g~~~~g~t~~~~~~~~~q~  123 (124)
                      .|||.+||++.++|||+|++++|+||+
T Consensus        67 ~GQr~~If~~~g~GKt~ll~~~~~~~~   93 (285)
T d2jdia3          67 RGQRELIIGDRQTGKTSIAIDTIINQK   93 (285)
T ss_dssp             TTCBCEEEESTTSSHHHHHHHHHHHTH
T ss_pred             CCCEEEeecCCCCChHHHHHHHHHhHH
Confidence            399999999999999999999999985

>d1nzia2 g.3.11.1 (A:118-159) Complement C1S component {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Complement C1S component
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.12  E-value=0.0021  Score=35.98  Aligned_cols=29  Identities=28%  Similarity=0.842  Sum_probs=22.7

Q ss_pred             CCCCC--CCCCCCCCeeeeCCCCceEEecCCCee
Q psy10055         27 DPCEE--HDPCKHGGICISTDSGPICECRNLDFE   58 (124)
Q Consensus        27 d~C~~--~nPC~ngG~C~~~~~~y~C~C~~tg~~   58 (124)
                      |+|+.  ..+|.+  +|++++++|.|.|++ ||.
T Consensus         1 dEC~~~~~~~C~~--~C~n~~Gsy~C~C~~-Gy~   31 (42)
T d1nzia2           1 NECTDFVDVPCSH--FCNNFIGGYFCSCPP-EYF   31 (42)
T ss_dssp             CTTTC-CCCCSSS--EEEEETTEEEEECCT-TCE
T ss_pred             CCCCCCCCcCCCC--EeecCCCCEEEeCCC-CCE
Confidence            45632  247865  799999999999999 985

>d1xdtr_ g.3.11.1 (R:) Heparin-binding epidermal growth factor, HBEGF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Heparin-binding epidermal growth factor, HBEGF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.06  E-value=0.0016  Score=36.51  Aligned_cols=31  Identities=32%  Similarity=0.761  Sum_probs=25.4

Q ss_pred             CCCCCCCCeee--eCCCCceEEecCCCeecccccc
Q psy10055         32 HDPCKHGGICI--STDSGPICECRNLDFEGIYCEK   64 (124)
Q Consensus        32 ~nPC~ngG~C~--~~~~~y~C~C~~tg~~G~~Ce~   64 (124)
                      .+-|.| |+|.  .....+.|.|+. ||+|.+||.
T Consensus         7 ~~yCih-G~C~~i~~l~~~~C~C~~-gY~G~RCq~   39 (41)
T d1xdtr_           7 KDFCIH-GECKYVKELRAPSCICHP-GYHGERCHG   39 (41)
T ss_dssp             TTCCSS-EEECCBGGGTBCCEEECT-TEESTTCCE
T ss_pred             CCEeEC-cEEeecCcCCCceeECCC-CCeecCccc
Confidence            456888 9996  344688999999 999999984

>d3bpse1 g.3.11.1 (E:293-332) Low density lipoprotein (LDL) receptor, different EGF domains {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Low density lipoprotein (LDL) receptor, different EGF domains
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.10  E-value=0.0054  Score=33.81  Aligned_cols=30  Identities=27%  Similarity=0.777  Sum_probs=22.3

Q ss_pred             cCCCCC-CCCCCCCCeeeeCCCCceEEecCCCee
Q psy10055         26 LDPCEE-HDPCKHGGICISTDSGPICECRNLDFE   58 (124)
Q Consensus        26 ~d~C~~-~nPC~ngG~C~~~~~~y~C~C~~tg~~   58 (124)
                      +|+|.. ...|++  +|++++++|.|.|++ ||.
T Consensus         2 ~neC~~~nggC~h--~C~n~~g~~~C~C~~-Gy~   32 (40)
T d3bpse1           2 TNECLDNNGGCSH--VCNDLKIGYECLCPD-GFQ   32 (40)
T ss_dssp             SCGGGTGGGGCSS--EEEECSSSEEEECCT-TCC
T ss_pred             cccCCCCCCCCcC--EEEcCCCCEEEECCC-CCE
Confidence            356621 234654  899999999999999 985

>d1emoa2 g.3.11.1 (A:2167-2205) Fibrillin-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Fibrillin-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.98  E-value=0.0061  Score=33.27  Aligned_cols=30  Identities=37%  Similarity=0.909  Sum_probs=25.3

Q ss_pred             CCCCCCCCCCCCCeeeeCCCCceEEecCCCee
Q psy10055         27 DPCEEHDPCKHGGICISTDSGPICECRNLDFE   58 (124)
Q Consensus        27 d~C~~~nPC~ngG~C~~~~~~y~C~C~~tg~~   58 (124)
                      |+|+-.|||-|| +|.+..++|.|.|.. ||.
T Consensus         2 dECsignpCGnG-TCtNviGgFec~C~~-GFe   31 (39)
T d1emoa2           2 DECSVGNPCGNG-TCKNVIGGFECTCEE-GFE   31 (39)
T ss_dssp             CGGGTTCSSSSS-CEEECSSSEEECCSS-SSC
T ss_pred             CccccCCccCCc-eeeecccceEEeecC-CcC
Confidence            567557899876 799999999999999 884

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.02  E-value=0.014  Score=38.60  Aligned_cols=29  Identities=24%  Similarity=0.415  Sum_probs=26.5

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      -++.+|+-.+|.|..+.|||++|+..+.|
T Consensus        18 GGi~~G~v~~i~G~~GsGKT~l~l~la~~   46 (242)
T d1n0wa_          18 GGIETGSITEMFGEFRTGKTQICHTLAVT   46 (242)
T ss_dssp             TSEETTSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCcCCEEEEEEeCCCCCHHHHHHHHHHH
Confidence            46788999999999999999999999877

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.01  E-value=0.01  Score=40.85  Aligned_cols=29  Identities=24%  Similarity=0.410  Sum_probs=26.6

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      -|+.+++-.+|.|+.|+|||++|+..+.|
T Consensus        29 GGi~~G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          29 GGVETGSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             SSEESSSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             CCCcCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            47888999999999999999999999877

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=93.40  E-value=0.02  Score=39.13  Aligned_cols=30  Identities=30%  Similarity=0.436  Sum_probs=25.9

Q ss_pred             CCCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      +-||.+|+-.+|.|+.++|||++|+..+.+
T Consensus        20 ~GGi~~G~~~~I~G~~G~GKT~la~~~~~~   49 (242)
T d1tf7a1          20 HGGLPIGRSTLVSGTSGTGKTLFSIQFLYN   49 (242)
T ss_dssp             TSSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cCCCcCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            346888999999999999999999987654

>d1kloa1 g.3.11.2 (A:11-65) Laminin gamma1 chain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: Laminin-type module
domain: Laminin gamma1 chain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.10  E-value=0.039  Score=31.95  Aligned_cols=39  Identities=23%  Similarity=0.537  Sum_probs=28.2

Q ss_pred             CCCCCCeeeeC--CCCceE-EecCCCeeccccccCccceeecc
Q psy10055         34 PCKHGGICIST--DSGPIC-ECRNLDFEGIYCEKVEISVVRAI   73 (124)
Q Consensus        34 PC~ngG~C~~~--~~~y~C-~C~~tg~~G~~Ce~~~~~~~~~~   73 (124)
                      ||.+++.|...  .+...| .|++ +|+|++|+.-....+.++
T Consensus         2 pC~~~~~c~~~~~~~~~vC~~C~~-~~~G~~Ce~C~~g~yg~P   43 (55)
T d1kloa1           2 PCPGGSSCAIVPKTKEVVCTHCPT-GTAGKRCELCDDGYFGDP   43 (55)
T ss_dssp             CSCTTCCEEECSSSCCEEECSCCT-TEESTTSCEECTTEEEET
T ss_pred             cCcCCCccceeCCCCCEEcCCCCC-CCccCcccccCCccccCc
Confidence            67788888643  345678 5999 999999998665554433

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=92.94  E-value=0.023  Score=38.88  Aligned_cols=30  Identities=23%  Similarity=0.334  Sum_probs=26.5

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHhc
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIINQ  122 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~q  122 (124)
                      -++.+++--+|.|+.++|||++|+..+.|.
T Consensus        29 GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          29 GGLESQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             SSEETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCccCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            357789999999999999999999998763

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=92.15  E-value=0.031  Score=38.83  Aligned_cols=30  Identities=27%  Similarity=0.450  Sum_probs=26.5

Q ss_pred             CCCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      +-||.+++-.+|.|+.++|||++|+..+.|
T Consensus        30 ~GGlp~G~~~li~G~pGsGKT~~~lq~~~~   59 (254)
T d1pzna2          30 GGGIETQAITEVFGEFGSGKTQLAHTLAVM   59 (254)
T ss_dssp             TSSEESSEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cCCccCCEEEEEEcCCCCCHHHHHHHHHHH
Confidence            347888999999999999999999998866

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=91.98  E-value=0.038  Score=39.37  Aligned_cols=28  Identities=18%  Similarity=0.248  Sum_probs=25.0

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      +|.|++--+|+|..++|||+++++..++
T Consensus        25 G~~pg~~~~i~G~~G~GKS~l~l~la~~   52 (274)
T d1nlfa_          25 NMVAGTVGALVSPGGAGKSMLALQLAAQ   52 (274)
T ss_dssp             TEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CccCCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            4788999999999999999999998765

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=91.95  E-value=0.049  Score=38.97  Aligned_cols=28  Identities=11%  Similarity=0.205  Sum_probs=25.7

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      ||.+|+-.+|.|..+.|||++++..+.|
T Consensus        31 G~~~G~l~vi~G~~G~GKT~~~~~la~~   58 (277)
T d1cr2a_          31 GARGGEVIMVTSGSGMGKSTFVRQQALQ   58 (277)
T ss_dssp             SBCTTCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHh
Confidence            5889999999999999999999998876

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.81  E-value=0.046  Score=37.71  Aligned_cols=30  Identities=27%  Similarity=0.437  Sum_probs=27.0

Q ss_pred             CCCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      +-++.+++-.+|.|..++|||++|+..+.|
T Consensus        31 gGGip~G~~~~i~G~~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          31 GGGIESMAITEAFGEFRTGKTQLSHTLCVT   60 (258)
T ss_dssp             TSSBCSSEEEEEECCTTCTHHHHHHHHHHH
T ss_pred             cCCCcCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            347888999999999999999999999876

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=91.03  E-value=0.054  Score=37.69  Aligned_cols=30  Identities=37%  Similarity=0.356  Sum_probs=26.7

Q ss_pred             CCCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         92 GAGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        92 ~~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      .-++.+++-.+|+|+.++|||++|+..+.|
T Consensus        20 ~GGi~~gsl~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          20 GGGFFKDSIILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             TSSEESSCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             cCCCcCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            346778999999999999999999998887

>d1autl2 g.3.11.1 (L:97-146) Activated protein c (autoprothrombin IIa) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Activated protein c (autoprothrombin IIa)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.81  E-value=0.077  Score=30.19  Aligned_cols=24  Identities=17%  Similarity=0.545  Sum_probs=19.9

Q ss_pred             CeeeeCCCCceEEecCCCee----ccccc
Q psy10055         39 GICISTDSGPICECRNLDFE----GIYCE   63 (124)
Q Consensus        39 G~C~~~~~~y~C~C~~tg~~----G~~Ce   63 (124)
                      -.|++++++|+|.|++ ||.    |+.|+
T Consensus        11 ~~C~~~~g~~~C~C~~-Gy~L~~D~~tC~   38 (50)
T d1autl2          11 HYCLEEVGWRRCSCAP-GYKLGDDLLQCH   38 (50)
T ss_dssp             SEEEECSSSEEEECCT-TEEECTTSSCEE
T ss_pred             cEeecCCCCeEEECCC-CCEECCCCCccc
Confidence            3689999999999999 985    66664

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=90.33  E-value=0.062  Score=39.79  Aligned_cols=31  Identities=29%  Similarity=0.417  Sum_probs=27.7

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh-cc
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN-QK  123 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~-q~  123 (124)
                      -++..++-..|+|..++|||+||+.++.+ ||
T Consensus        49 GGi~~g~itei~G~~gsGKTtl~l~~~~~~q~   80 (263)
T d1u94a1          49 GGLPMGRIVEIYGPESSGKTTLTLQVIAAAQR   80 (263)
T ss_dssp             SSEETTSEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCccCceEEEEecCCCcHHHHHHHHHHHHHHc
Confidence            57777899999999999999999999988 54

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=89.65  E-value=0.057  Score=37.76  Aligned_cols=17  Identities=41%  Similarity=0.481  Sum_probs=15.1

Q ss_pred             ceeEeccCCCCchhhhH
Q psy10055        100 RELIIGDRQTGKTALAI  116 (124)
Q Consensus       100 r~li~g~~~~g~t~~~~  116 (124)
                      --||+|..|+|||++|-
T Consensus        37 ~~L~~GPpGtGKT~lA~   53 (238)
T d1in4a2          37 HVLLAGPPGLGKTTLAH   53 (238)
T ss_dssp             CEEEESSTTSSHHHHHH
T ss_pred             eEEEECCCCCcHHHHHH
Confidence            46899999999999984

>d2p3ua1 g.3.11.1 (A:87-137) Factor X, N-terminal module {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Factor X, N-terminal module
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.67  E-value=0.1  Score=29.74  Aligned_cols=24  Identities=21%  Similarity=0.728  Sum_probs=20.2

Q ss_pred             eeeeCCCCceEEecCCCee----cccccc
Q psy10055         40 ICISTDSGPICECRNLDFE----GIYCEK   64 (124)
Q Consensus        40 ~C~~~~~~y~C~C~~tg~~----G~~Ce~   64 (124)
                      +|++.+++|.|.|++ ||.    |+.|+.
T Consensus        13 ~C~n~~g~~~C~C~~-Gy~L~~D~~tC~~   40 (51)
T d2p3ua1          13 FCHEEQNSVVCSCAR-GYTLADNGKACIP   40 (51)
T ss_dssp             EEEEETTEEEEECCT-TEEECTTSSCEEE
T ss_pred             EeecCCCCeEeEcCC-CCEECCCCCcccc
Confidence            689999999999999 996    666753

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=86.38  E-value=0.16  Score=35.33  Aligned_cols=19  Identities=37%  Similarity=0.410  Sum_probs=16.2

Q ss_pred             CCceeEeccCCCCchhhhH
Q psy10055         98 PSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~  116 (124)
                      ..--||+|..|+|||++|-
T Consensus        35 ~~~~Ll~GPpG~GKTtla~   53 (239)
T d1ixsb2          35 LEHLLLFGPPGLGKTTLAH   53 (239)
T ss_dssp             CCCEEEECCTTSCHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHH
Confidence            3457899999999999985

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=85.45  E-value=0.24  Score=36.72  Aligned_cols=29  Identities=28%  Similarity=0.430  Sum_probs=26.0

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN  121 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~  121 (124)
                      .++..+.-..|+|..++|||++|+.++.+
T Consensus        55 gG~~~g~i~e~~G~~~~GKT~l~l~~~~~   83 (269)
T d1mo6a1          55 GGLPRGRVIEIYGPESSGKTTVALHAVAN   83 (269)
T ss_dssp             SSBCSSSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCcccceeEEEecCCCcHHHHHHHHHHHH
Confidence            56777888999999999999999998887

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=85.11  E-value=0.2  Score=34.48  Aligned_cols=20  Identities=30%  Similarity=0.328  Sum_probs=16.8

Q ss_pred             CCCceeEeccCCCCchhhhH
Q psy10055         97 PPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        97 p~~r~li~g~~~~g~t~~~~  116 (124)
                      ++.--+|.|..|+|||++|-
T Consensus        42 ~~~~lll~GppGtGKT~l~~   61 (276)
T d1fnna2          42 HYPRATLLGRPGTGKTVTLR   61 (276)
T ss_dssp             SCCEEEEECCTTSSHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHH
Confidence            35567999999999999983

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.06  E-value=0.15  Score=35.36  Aligned_cols=17  Identities=29%  Similarity=0.450  Sum_probs=15.3

Q ss_pred             ceeEeccCCCCchhhhH
Q psy10055        100 RELIIGDRQTGKTALAI  116 (124)
Q Consensus       100 r~li~g~~~~g~t~~~~  116 (124)
                      --+|+|..|+|||++|.
T Consensus        35 ~lll~Gp~G~GKTt~~~   51 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRCM   51 (252)
T ss_dssp             CEEEECSTTSSHHHHHH
T ss_pred             eEEEECCCCCCHHHHHH
Confidence            47899999999999985

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=84.01  E-value=0.19  Score=33.02  Aligned_cols=18  Identities=39%  Similarity=0.551  Sum_probs=15.7

Q ss_pred             ceeEeccCCCCchhhhHH
Q psy10055        100 RELIIGDRQTGKTALAID  117 (124)
Q Consensus       100 r~li~g~~~~g~t~~~~~  117 (124)
                      |.+++|+.++|||+|.--
T Consensus        18 kI~vvG~~~vGKSsLi~~   35 (176)
T d1fzqa_          18 RILLLGLDNAGKTTLLKQ   35 (176)
T ss_dssp             EEEEEESTTSSHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHH
Confidence            678999999999998743

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=83.57  E-value=0.2  Score=34.81  Aligned_cols=19  Identities=37%  Similarity=0.510  Sum_probs=16.2

Q ss_pred             CCceeEeccCCCCchhhhH
Q psy10055         98 PSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~  116 (124)
                      |.-.+++|..|+|||++|-
T Consensus        32 P~~ilL~GpPGtGKT~la~   50 (273)
T d1gvnb_          32 PTAFLLGGQPGSGKTSLRS   50 (273)
T ss_dssp             CEEEEEECCTTSCTHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHH
Confidence            4457899999999999984

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=83.57  E-value=0.26  Score=36.44  Aligned_cols=31  Identities=32%  Similarity=0.428  Sum_probs=26.5

Q ss_pred             CCcCCCCceeEeccCCCCchhhhHHHHHh-cc
Q psy10055         93 AGMDPPSRELIIGDRQTGKTALAIDTIIN-QK  123 (124)
Q Consensus        93 ~~mvp~~r~li~g~~~~g~t~~~~~~~~~-q~  123 (124)
                      -++..+.-..|+|..++|||+||+.++.+ ||
T Consensus        52 GGip~g~itei~G~~~sGKT~l~l~~~~~aqk   83 (268)
T d1xp8a1          52 GGIPRGRITEIYGPESGGKTTLALAIVAQAQK   83 (268)
T ss_dssp             SSEETTSEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCccCceEEEEecCCccchHHHHHHHHHHHHh
Confidence            56666888889999999999999998877 54

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=83.47  E-value=0.14  Score=35.57  Aligned_cols=14  Identities=50%  Similarity=0.527  Sum_probs=12.0

Q ss_pred             EeccCCCCchhhhH
Q psy10055        103 IIGDRQTGKTALAI  116 (124)
Q Consensus       103 i~g~~~~g~t~~~~  116 (124)
                      ++|..|||||+++-
T Consensus        51 l~GppGtGKT~l~~   64 (287)
T d1w5sa2          51 SIGRVGIGKTTLAK   64 (287)
T ss_dssp             CTTCCSSSHHHHHH
T ss_pred             eECCCCCCHHHHHH
Confidence            45999999999874

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=82.92  E-value=0.32  Score=33.30  Aligned_cols=21  Identities=29%  Similarity=0.427  Sum_probs=17.2

Q ss_pred             CCceeEeccCCCCchhhhHHH
Q psy10055         98 PSRELIIGDRQTGKTALAIDT  118 (124)
Q Consensus        98 ~~r~li~g~~~~g~t~~~~~~  118 (124)
                      ++..+|+|.+|+|||+|+...
T Consensus        29 ~~~i~i~G~~G~GKTsLl~~~   49 (283)
T d2fnaa2          29 APITLVLGLRRTGKSSIIKIG   49 (283)
T ss_dssp             SSEEEEEESTTSSHHHHHHHH
T ss_pred             CCEEEEEcCCCCcHHHHHHHH
Confidence            355678999999999998754

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=82.79  E-value=0.22  Score=34.63  Aligned_cols=18  Identities=28%  Similarity=0.361  Sum_probs=15.4

Q ss_pred             CceeEeccCCCCchhhhH
Q psy10055         99 SRELIIGDRQTGKTALAI  116 (124)
Q Consensus        99 ~r~li~g~~~~g~t~~~~  116 (124)
                      .--+|+|..|+|||++|-
T Consensus        53 ~~lll~GPpG~GKTt~a~   70 (253)
T d1sxja2          53 RAAMLYGPPGIGKTTAAH   70 (253)
T ss_dssp             SEEEEECSTTSSHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHH
Confidence            457899999999999875

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=82.02  E-value=0.35  Score=34.86  Aligned_cols=22  Identities=36%  Similarity=0.465  Sum_probs=17.4

Q ss_pred             cCCCCceeEeccCCCCchhhhH
Q psy10055         95 MDPPSRELIIGDRQTGKTALAI  116 (124)
Q Consensus        95 mvp~~r~li~g~~~~g~t~~~~  116 (124)
                      ..++.-.|++|..|+|||++|-
T Consensus        39 ~~~~~giLl~GppGtGKT~la~   60 (247)
T d1ixza_          39 ARIPKGVLLVGPPGVGKTHLAR   60 (247)
T ss_dssp             CCCCSEEEEECCTTSSHHHHHH
T ss_pred             CCCCceEEEecCCCCChhHHHH
Confidence            3344458999999999999984

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.67  E-value=0.37  Score=34.62  Aligned_cols=26  Identities=38%  Similarity=0.661  Sum_probs=19.7

Q ss_pred             CcCCCCceeEeccCCCCchhhhHHHHH
Q psy10055         94 GMDPPSRELIIGDRQTGKTALAIDTII  120 (124)
Q Consensus        94 ~mvp~~r~li~g~~~~g~t~~~~~~~~  120 (124)
                      +..++...|++|..|+|||++| .+|.
T Consensus        34 g~~~~~giLL~GppGtGKT~l~-~ala   59 (258)
T d1e32a2          34 GVKPPRGILLYGPPGTGKTLIA-RAVA   59 (258)
T ss_dssp             CCCCCCEEEEECCTTSSHHHHH-HHHH
T ss_pred             CCCCCceeEEecCCCCCchHHH-HHHH
Confidence            4555666999999999999985 3443

>d1kigl_ g.3.11.1 (L:) Factor X, N-terminal module {Cow (Bos taurus) [TaxId: 9913]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: EGF/Laminin
family: EGF-type module
domain: Factor X, N-terminal module
species: Cow (Bos taurus) [TaxId: 9913]

Probab=80.41  E-value=0.18  Score=28.59  Aligned_cols=23  Identities=22%  Similarity=0.583  Sum_probs=18.8

Q ss_pred             eeeeCCCCceEEecCCCee----ccccc
Q psy10055         40 ICISTDSGPICECRNLDFE----GIYCE   63 (124)
Q Consensus        40 ~C~~~~~~y~C~C~~tg~~----G~~Ce   63 (124)
                      .|+++.++|.|.|+. ||.    |..|+
T Consensus        11 ~C~~~~~~~~C~C~~-Gy~L~~D~~tC~   37 (51)
T d1kigl_          11 FCREERSEVRCSCAH-GYVLGDDSKSCV   37 (51)
T ss_dssp             CCCEETTEECCCCCT-TEEECTTSSCEE
T ss_pred             EeEcCCCcEEeEcCC-CCEECCCCCccc
Confidence            378888999999999 995    66664

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=80.16  E-value=0.41  Score=34.30  Aligned_cols=21  Identities=29%  Similarity=0.357  Sum_probs=18.3

Q ss_pred             ceeEeccCCCCchhhhHHHHH
Q psy10055        100 RELIIGDRQTGKTALAIDTII  120 (124)
Q Consensus       100 r~li~g~~~~g~t~~~~~~~~  120 (124)
                      .-+++|--|+|||++++..|.
T Consensus        26 ~~lV~g~aGSGKTt~l~~ri~   46 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTHRIA   46 (318)
T ss_dssp             CEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEecCCccHHHHHHHHHH
Confidence            478999999999999998763