Psyllid ID: psy8804

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110----
Protein Sequence
MADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFSPVFGLILNPSVSMAAKVSTLWDPGSMFLPQSR
Secondary Structure (PSIPRED)
cHHHHHHHHHHHccccccccccHHHHHHHHHcEEEEEEEcccEEEEccccccEEEEEEEEEEEEEcccccccccccccccccccEEEEEcccccEEEEEccEEcccEEEccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHEEEEcccccEEEEcccccccEEEEEEEcEEEEEccEEccccccccccccccccEEEEcccccHHHHHHHHcccccEEEcccc
Coil and Loop (DISEMBL)
MADDLQIIYYGLHglealapyRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSvfidgsmflpqsrnfvfnvfspvfglilnpsvsmaakvstlwdpgsmflpqsr
Flexible Loop (DISEMBL)
MADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFSPVFGLILNPSVSMAAKVStlwdpgsmflpqsr
Low Complexity Region (SEG)
MADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFSPVFGLILNPSVSMAAKVSTLWDPGSMFLPQSR
Disordered region (IsUnstruct)
****LQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFSPVFGLILNPSVSMAAKVSTLWD**********
Disordered Region (DISOPRED)
*ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQ*R*****VFSPVFGLILNPSVSMAAKVSTLWDPGSMFLPQ**
Disordered Region (DISEMBL)
MADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFSPVFGLILNPSVSMAAKVSTLWDPGSMFLPQSR
Disordered Region (DISPRO)
MADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFSPVFGLILNPSVSMAAKVSTLWDPGSMFLP***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFSPVFGLILNPSVSMAAKVSTLWDPGSMFLPQSR
Positional Conservation
no confident homologs detected

---

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	114	2.2.26 [Sep-21-2011]
Q8TEU7	1601	Rap guanine nucleotide ex	no	N/A	0.736	0.052	0.412	2e-12
Q8WZA2	1011	Rap guanine nucleotide ex	no	N/A	0.526	0.059	0.459	2e-06
Q9EQZ6	1011	Rap guanine nucleotide ex	no	N/A	0.526	0.059	0.459	3e-06
Q8VCC8	918	Rap guanine nucleotide ex	no	N/A	0.526	0.065	0.393	0.0003
O95398	923	Rap guanine nucleotide ex	no	N/A	0.526	0.065	0.393	0.0003
Q9Z1C8	926	Rap guanine nucleotide ex	no	N/A	0.526	0.064	0.393	0.0004

>sp|Q8TEU7|RPGF6_HUMAN Rap guanine nucleotide exchange factor 6 OS=Homo sapiens GN=RAPGEF6 PE=1 SV=2

 Score = 71.2 bits (173), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 40/97 (41%), Positives = 52/97 (53%), Gaps = 13/97 (13%)

Query: 3   DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
           +DL  IY  LHG+E L+  R+  LR +    RYER+  N VL+ +  ++  WYILLSGSV
Sbjct: 23  EDLNTIYSYLHGMEILSNLREHQLRLMSARARYERYSGNQVLFCSETIARCWYILLSGSV 82

Query: 63  FIDGSMFLPQSRNFVFNVFSPVFG-------LILNPS 92
            + GSM LP         F   FG       L+L PS
Sbjct: 83  LVKGSMVLPPCS------FGKQFGGKRGCDCLVLEPS 113

Guanine nucleotide exchange factor (GEF) for Rap1A, Rap2A and M-Ras GTPases. Does not interact with cAMP.
Homo sapiens (taxid: 9606)

>sp|Q8WZA2|RPGF4_HUMAN Rap guanine nucleotide exchange factor 4 OS=Homo sapiens GN=RAPGEF4 PE=1 SV=1

 Score = 50.8 bits (120), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 28/61 (45%), Positives = 38/61 (62%), Gaps = 1/61 (1%)

Query: 3   DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERH-QANDVLYYTGELSTSWYILLSGS 61
           DDL+IIY  L  ++AL+    +V R L  V+ +E H +   VL+  GE  TSWYI+L GS
Sbjct: 342 DDLEIIYEELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGS 401

Query: 62  V 62
           V
Sbjct: 402 V 402

Guanine nucleotide exchange factor (GEF) for RAP1A, RAP1B and RAP2A small GTPases that is activated by binding cAMP. Seems not to activate RAB3A. Involved in cAMP-dependent, PKA-independent exocytosis through interaction with RIMS2.

Homo sapiens (taxid: 9606)

>sp|Q9EQZ6|RPGF4_MOUSE Rap guanine nucleotide exchange factor 4 OS=Mus musculus GN=Rapgef4 PE=1 SV=1

 Score = 50.4 bits (119), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 28/61 (45%), Positives = 38/61 (62%), Gaps = 1/61 (1%)

Query: 3   DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERH-QANDVLYYTGELSTSWYILLSGS 61
           DDL+IIY  L  ++AL+    +V R L  V+ +E H +   VL+  GE  TSWYI+L GS
Sbjct: 342 DDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGS 401

Query: 62  V 62
           V
Sbjct: 402 V 402

Guanine nucleotide exchange factor (GEF) for RAP1A, RAP1B and RAP2A small GTPases that is activated by binding cAMP. Seems not to activate RAB3A. Involved in cAMP-dependent, PKA-independent exocytosis through interaction with RIMS2.

Mus musculus (taxid: 10090)

>sp|Q8VCC8|RPGF3_MOUSE Rap guanine nucleotide exchange factor 3 OS=Mus musculus GN=Rapgef3 PE=2 SV=2

 Score = 43.5 bits (101), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 24/61 (39%), Positives = 38/61 (62%), Gaps = 1/61 (1%)

Query: 3   DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERH-QANDVLYYTGELSTSWYILLSGS 61
           ++L +I+  L  ++A+A   +SV R L  V+ +E H +A  VL+  G+  TSWYI+  GS
Sbjct: 231 EELDLIFEELLHIKAVAHLSNSVKRELAAVLLFEPHSKAGTVLFSQGDKGTSWYIIWKGS 290

Query: 62  V 62
           V
Sbjct: 291 V 291

Guanine nucleotide exchange factor (GEF) for RAP1A and RAP2A small GTPases that is activated by binding cAMP.

Mus musculus (taxid: 10090)

>sp|O95398|RPGF3_HUMAN Rap guanine nucleotide exchange factor 3 OS=Homo sapiens GN=RAPGEF3 PE=1 SV=6

 Score = 43.5 bits (101), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 24/61 (39%), Positives = 38/61 (62%), Gaps = 1/61 (1%)

Query: 3   DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERH-QANDVLYYTGELSTSWYILLSGS 61
           ++L +I+  L  ++A+A   +SV R L  V+ +E H +A  VL+  G+  TSWYI+  GS
Sbjct: 231 EELDLIFEELLHIKAVAHLSNSVKRELAAVLLFEPHSKAGTVLFSQGDKGTSWYIIWKGS 290

Query: 62  V 62
           V
Sbjct: 291 V 291

Guanine nucleotide exchange factor (GEF) for RAP1A and RAP2A small GTPases that is activated by binding cAMP.

Homo sapiens (taxid: 9606)

>sp|Q9Z1C8|RPGF3_RAT Rap guanine nucleotide exchange factor 3 OS=Rattus norvegicus GN=Rapgef3 PE=2 SV=2

 Score = 43.5 bits (101), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 24/61 (39%), Positives = 38/61 (62%), Gaps = 1/61 (1%)

Query: 3   DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERH-QANDVLYYTGELSTSWYILLSGS 61
           ++L +I+  L  ++A+A   +SV R L  V+ +E H +A  VL+  G+  TSWYI+  GS
Sbjct: 231 EELDLIFEELVHIKAVAHLSNSVKRELAAVLLFEPHSKAGTVLFSQGDKGTSWYIIWKGS 290

Query: 62  V 62
           V
Sbjct: 291 V 291

Guanine nucleotide exchange factor (GEF) for RAP1A and RAP2A small GTPases that is activated by binding cAMP.

Rattus norvegicus (taxid: 10116)

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	114
340713362	1390	PREDICTED: rap guanine nucleotide exchan	0.614	0.050	0.842	6e-29
350415848	1472	PREDICTED: rap guanine nucleotide exchan	0.614	0.047	0.842	8e-29
383862537	94	PREDICTED: rap guanine nucleotide exchan	0.622	0.755	0.859	4e-28
270011783	144	hypothetical protein TcasGA2_TC005859 [T	0.622	0.493	0.830	9e-28
328782465	94	PREDICTED: rap guanine nucleotide exchan	0.622	0.755	0.845	1e-27
380021608	143	PREDICTED: rap guanine nucleotide exchan	0.614	0.489	0.842	2e-27
345489066	1397	PREDICTED: rap guanine nucleotide exchan	0.815	0.066	0.666	2e-27
328724710	92	PREDICTED: rap guanine nucleotide exchan	0.622	0.771	0.732	2e-24
241810635	184	hypothetical protein IscW_ISCW023327 [Ix	0.666	0.413	0.618	5e-21
443718798	90	hypothetical protein CAPTEDRAFT_116372 [	0.622	0.788	0.661	3e-20

>gi|340713362|ref|XP_003395213.1| PREDICTED: rap guanine nucleotide exchange factor 6-like isoform 1 [Bombus terrestris]

 Score =  131 bits (329), Expect = 6e-29,   Method: Composition-based stats.
 Identities = 59/70 (84%), Positives = 64/70 (91%)

Query: 4  DLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVF 63
          DLQIIYYGL GLEAL P RDS+LR LC++VRYERH AN VLYYTGEL+TSWYILLSGSVF
Sbjct: 24 DLQIIYYGLLGLEALRPCRDSILRGLCKIVRYERHHANHVLYYTGELATSWYILLSGSVF 83

Query: 64 IDGSMFLPQS 73
          IDGSMFLP+S
Sbjct: 84 IDGSMFLPRS 93

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350415848|ref|XP_003490767.1| PREDICTED: rap guanine nucleotide exchange factor 6-like, partial [Bombus impatiens]

 Score =  130 bits (328), Expect = 8e-29,   Method: Composition-based stats.
 Identities = 59/70 (84%), Positives = 64/70 (91%)

Query: 4  DLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVF 63
          DLQIIYYGL GLEAL P RDS+LR LC++VRYERH AN VLYYTGEL+TSWYILLSGSVF
Sbjct: 24 DLQIIYYGLLGLEALRPCRDSILRGLCKIVRYERHHANHVLYYTGELATSWYILLSGSVF 83

Query: 64 IDGSMFLPQS 73
          IDGSMFLP+S
Sbjct: 84 IDGSMFLPRS 93

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383862537|ref|XP_003706740.1| PREDICTED: rap guanine nucleotide exchange factor 6-like [Megachile rotundata]

 Score =  128 bits (322), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 61/71 (85%), Positives = 66/71 (92%)

Query: 4  DLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVF 63
          DLQIIYYGL GLEAL P RDS+LR LC++VRYERHQAN VLYYTGEL+TSWYILLSGSVF
Sbjct: 24 DLQIIYYGLLGLEALRPCRDSILRGLCKIVRYERHQANHVLYYTGELATSWYILLSGSVF 83

Query: 64 IDGSMFLPQSR 74
          IDGSMFLP+SR
Sbjct: 84 IDGSMFLPRSR 94

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270011783|gb|EFA08231.1| hypothetical protein TcasGA2_TC005859 [Tribolium castaneum]

 Score =  127 bits (319), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 59/71 (83%), Positives = 64/71 (90%)

Query: 4   DLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVF 63
           DLQ+IYYGL GLEAL   RDS LR+ C+VVRYE+HQANDVLYYTGELST WYILLSGSVF
Sbjct: 49  DLQVIYYGLSGLEALQTLRDSALRAFCKVVRYEKHQANDVLYYTGELSTCWYILLSGSVF 108

Query: 64  IDGSMFLPQSR 74
           IDGSMFLP+SR
Sbjct: 109 IDGSMFLPRSR 119

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328782465|ref|XP_003250149.1| PREDICTED: rap guanine nucleotide exchange factor 6-like [Apis mellifera]

 Score =  126 bits (317), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 60/71 (84%), Positives = 65/71 (91%)

Query: 4  DLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVF 63
          DLQIIYYGL GLEAL P RDS+LR LC++VRYERH AN VLYYTGEL+TSWYILLSGSVF
Sbjct: 24 DLQIIYYGLLGLEALRPCRDSILRGLCKIVRYERHHANHVLYYTGELATSWYILLSGSVF 83

Query: 64 IDGSMFLPQSR 74
          IDGSMFLP+SR
Sbjct: 84 IDGSMFLPRSR 94

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380021608|ref|XP_003694653.1| PREDICTED: rap guanine nucleotide exchange factor 6-like [Apis florea]

 Score =  126 bits (316), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 59/70 (84%), Positives = 64/70 (91%)

Query: 4  DLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVF 63
          DLQIIYYGL GLEAL P RDS+LR LC++VRYERH AN VLYYTGEL+TSWYILLSGSVF
Sbjct: 24 DLQIIYYGLLGLEALRPCRDSILRGLCKIVRYERHHANHVLYYTGELATSWYILLSGSVF 83

Query: 64 IDGSMFLPQS 73
          IDGSMFLP+S
Sbjct: 84 IDGSMFLPRS 93

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345489066|ref|XP_003426046.1| PREDICTED: rap guanine nucleotide exchange factor 6-like isoform 4 [Nasonia vitripennis]

 Score =  125 bits (315), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 64/96 (66%), Positives = 71/96 (73%), Gaps = 3/96 (3%)

Query: 4   DLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVF 63
           DLQ IYYGL GLEAL P RDSVLR LC+ VRYERH AN VLYYTGEL+TSWYILLSGSVF
Sbjct: 24  DLQFIYYGLLGLEALRPCRDSVLRGLCKTVRYERHHANHVLYYTGELATSWYILLSGSVF 83

Query: 64  IDGSMFLPQS---RNFVFNVFSPVFGLILNPSVSMA 96
           IDGSMFLP+S   +    +   P    +L PS  +A
Sbjct: 84  IDGSMFLPRSSFGKRTGGSARRPNECFVLEPSEMIA 119

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328724710|ref|XP_003248229.1| PREDICTED: rap guanine nucleotide exchange factor 6-like [Acyrthosiphon pisum]

 Score =  115 bits (289), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 52/71 (73%), Positives = 60/71 (84%)

Query: 4  DLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVF 63
          DLQIIYYGL  LEAL  YRDS LR+LC+ VRYE H+ANDVLY+TGEL+  W++LLSGSVF
Sbjct: 22 DLQIIYYGLQSLEALYTYRDSALRTLCKTVRYEHHEANDVLYFTGELAMCWFVLLSGSVF 81

Query: 64 IDGSMFLPQSR 74
          IDG +FLP SR
Sbjct: 82 IDGKLFLPTSR 92

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|241810635|ref|XP_002414562.1| hypothetical protein IscW_ISCW023327 [Ixodes scapularis] gi|215508773|gb|EEC18227.1| hypothetical protein IscW_ISCW023327 [Ixodes scapularis]

 Score =  105 bits (261), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 47/76 (61%), Positives = 62/76 (81%)

Query: 1  MADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSG 60
          +  DL++IY  +H LEAL+  +++ +R+LCR VRYERH AND+LY  GELST WYILLSG
Sbjct: 21 LPQDLKLIYSYIHVLEALSSLKEANIRALCRTVRYERHDANDILYCRGELSTCWYILLSG 80

Query: 61 SVFIDGSMFLPQSRNF 76
          SVFI+GSM+LP+SR +
Sbjct: 81 SVFINGSMYLPRSRRY 96

Source: Ixodes scapularis

Species: Ixodes scapularis

Genus: Ixodes

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|443718798|gb|ELU09259.1| hypothetical protein CAPTEDRAFT_116372 [Capitella teleta]

 Score =  102 bits (254), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 47/71 (66%), Positives = 59/71 (83%)

Query: 4  DLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVF 63
          DL +IY  LHG+EAL+  R+  LRS+C  VRYE+H+AND+LY  G+L+T WYILLSGSVF
Sbjct: 20 DLDVIYSFLHGMEALSCLREPALRSICSNVRYEQHEANDILYCRGQLATCWYILLSGSVF 79

Query: 64 IDGSMFLPQSR 74
          IDGSM+LP+SR
Sbjct: 80 IDGSMYLPRSR 90

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	114
UNIPROTKB|H0Y905	279	RAPGEF2 "Rap guanine nucleotid	0.614	0.250	0.628	7.2e-20
ZFIN|ZDB-GENE-090313-280	1525	si:dkey-253i9.4 "si:dkey-253i9	0.614	0.045	0.628	2.3e-18
ZFIN|ZDB-GENE-030131-6959	1601	rapgef2 "Rap guanine nucleotid	0.614	0.043	0.628	2.8e-18
UNIPROTKB|F1RTX9	1625	RAPGEF2 "Uncharacterized prote	0.614	0.043	0.628	2.8e-18
UNIPROTKB|F1P033	1583	Gga.30131 "Uncharacterized pro	0.596	0.042	0.485	2.1e-11
UNIPROTKB|F1NVX5	1591	Gga.30131 "Uncharacterized pro	0.596	0.042	0.485	2.1e-11
UNIPROTKB|B7Z7Y1	1204	RAPGEF6 "cDNA FLJ53249, highly	0.605	0.057	0.478	2.3e-11
UNIPROTKB|Q8TEU7	1601	RAPGEF6 "Rap guanine nucleotid	0.605	0.043	0.478	4.4e-11
UNIPROTKB|E9PCH4	1651	FNIP1 "Folliculin-interacting	0.596	0.041	0.485	7.6e-11
WB|WBGene00004254	1470	pxf-1 [Caenorhabditis elegans	0.605	0.046	0.420	2.4e-10

UNIPROTKB|H0Y905 RAPGEF2 "Rap guanine nucleotide exchange factor 2" [Homo sapiens (taxid:9606)]

 Score = 236 (88.1 bits), Expect = 7.2e-20, P = 7.2e-20
 Identities = 44/70 (62%), Positives = 55/70 (78%)

Query:     4 DLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVF 63
             DL+I+Y  LHG+EAL+  R+  LR +C  VRYERH+AN+VLYY  ++ T WYILLSGSVF
Sbjct:    19 DLEIVYSYLHGMEALSNLREHQLRLMCETVRYERHEANEVLYYPDDIGTCWYILLSGSVF 78

Query:    64 IDGSMFLPQS 73
             I  SMFLP+S
Sbjct:    79 IKESMFLPRS 88

GO:0005085 "guanyl-nucleotide exchange factor activity" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

ZFIN|ZDB-GENE-090313-280 si:dkey-253i9.4 "si:dkey-253i9.4" [Danio rerio (taxid:7955)]

 Score = 233 (87.1 bits), Expect = 2.3e-18, Sum P(2) = 2.3e-18
 Identities = 44/70 (62%), Positives = 54/70 (77%)

Query:     4 DLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVF 63
             DLQI+Y  LHG+EAL+  R+  LR +C  VRYE+H AN+VLYY  ++ T WYILLSGSVF
Sbjct:     2 DLQIVYSYLHGMEALSNLREHQLRLMCETVRYEQHDANEVLYYPDDIGTCWYILLSGSVF 61

Query:    64 IDGSMFLPQS 73
             I  SMFLP+S
Sbjct:    62 IKESMFLPRS 71

GO:0005085 "guanyl-nucleotide exchange factor activity" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0051056 "regulation of small GTPase mediated signal transduction" evidence=IEA

ZFIN|ZDB-GENE-030131-6959 rapgef2 "Rap guanine nucleotide exchange factor (GEF) 2" [Danio rerio (taxid:7955)]

 Score = 236 (88.1 bits), Expect = 2.8e-18, P = 2.8e-18
 Identities = 44/70 (62%), Positives = 55/70 (78%)

Query:     4 DLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVF 63
             DL+I+Y  LHG+EAL+  R+  LR +C  VRYERH+AN+VLYY  ++ T WYILLSGSVF
Sbjct:    24 DLEIVYSYLHGMEALSNLREHQLRIMCETVRYERHEANEVLYYPDDIGTCWYILLSGSVF 83

Query:    64 IDGSMFLPQS 73
             I  SMFLP+S
Sbjct:    84 IKESMFLPRS 93

GO:0051056 "regulation of small GTPase mediated signal transduction" evidence=IEA

GO:0005085 "guanyl-nucleotide exchange factor activity" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

UNIPROTKB|F1RTX9 RAPGEF2 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 236 (88.1 bits), Expect = 2.8e-18, P = 2.8e-18
 Identities = 44/70 (62%), Positives = 55/70 (78%)

Query:     4 DLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVF 63
             DL+I+Y  LHG+EAL+  R+  LR +C  VRYERH+AN+VLYY  ++ T WYILLSGSVF
Sbjct:    11 DLEIVYSYLHGMEALSNLREHQLRLMCETVRYERHEANEVLYYPDDIGTCWYILLSGSVF 70

Query:    64 IDGSMFLPQS 73
             I  SMFLP+S
Sbjct:    71 IKESMFLPRS 80

GO:0046582 "Rap GTPase activator activity" evidence=IEA

GO:0017034 "Rap guanyl-nucleotide exchange factor activity" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

UNIPROTKB|F1P033 Gga.30131 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 165 (63.1 bits), Expect = 2.1e-11, Sum P(2) = 2.1e-11
 Identities = 33/68 (48%), Positives = 45/68 (66%)

Query:     4 DLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVF 63
             DL  IY  LHGL+ L+ +R+  LR +    RYER++ N VL+ +  ++  WYILLSGSV 
Sbjct:     1 DLNTIYSFLHGLDILSHFREHQLRIMSSSARYERYKGNQVLFCSETIARCWYILLSGSVL 60

Query:    64 IDGSMFLP 71
             +  SMFLP
Sbjct:    61 MKDSMFLP 68

GO:0005622 "intracellular" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0051056 "regulation of small GTPase mediated signal transduction" evidence=IEA

GO:0005085 "guanyl-nucleotide exchange factor activity" evidence=IEA

UNIPROTKB|F1NVX5 Gga.30131 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 165 (63.1 bits), Expect = 2.1e-11, Sum P(2) = 2.1e-11
 Identities = 33/68 (48%), Positives = 45/68 (66%)

Query:     4 DLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVF 63
             DL  IY  LHGL+ L+ +R+  LR +    RYER++ N VL+ +  ++  WYILLSGSV 
Sbjct:     1 DLNTIYSFLHGLDILSHFREHQLRIMSSSARYERYKGNQVLFCSETIARCWYILLSGSVL 60

Query:    64 IDGSMFLP 71
             +  SMFLP
Sbjct:    61 MKDSMFLP 68

GO:0005622 "intracellular" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0051056 "regulation of small GTPase mediated signal transduction" evidence=IEA

GO:0005085 "guanyl-nucleotide exchange factor activity" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0017016 "Ras GTPase binding" evidence=IEA

GO:0030742 "GTP-dependent protein binding" evidence=IEA

UNIPROTKB|B7Z7Y1 RAPGEF6 "cDNA FLJ53249, highly similar to Rap guanine nucleotide exchange factor 6" [Homo sapiens (taxid:9606)]

 Score = 164 (62.8 bits), Expect = 2.3e-11, Sum P(2) = 2.3e-11
 Identities = 33/69 (47%), Positives = 44/69 (63%)

Query:     3 DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
             +DL  IY  LHG+E L+  R+  LR +    RYER+  N VL+ +  ++  WYILLSGSV
Sbjct:    23 EDLNTIYSYLHGMEILSNLREHQLRLMSARARYERYSGNQVLFCSETIARCWYILLSGSV 82

Query:    63 FIDGSMFLP 71
              + GSM LP
Sbjct:    83 LVKGSMVLP 91

GO:0005622 "intracellular" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0051056 "regulation of small GTPase mediated signal transduction" evidence=IEA

GO:0005085 "guanyl-nucleotide exchange factor activity" evidence=IEA

UNIPROTKB|Q8TEU7 RAPGEF6 "Rap guanine nucleotide exchange factor 6" [Homo sapiens (taxid:9606)]

 Score = 164 (62.8 bits), Expect = 4.4e-11, Sum P(2) = 4.4e-11
 Identities = 33/69 (47%), Positives = 44/69 (63%)

Query:     3 DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
             +DL  IY  LHG+E L+  R+  LR +    RYER+  N VL+ +  ++  WYILLSGSV
Sbjct:    23 EDLNTIYSYLHGMEILSNLREHQLRLMSARARYERYSGNQVLFCSETIARCWYILLSGSV 82

Query:    63 FIDGSMFLP 71
              + GSM LP
Sbjct:    83 LVKGSMVLP 91

GO:0051056 "regulation of small GTPase mediated signal transduction" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0017016 "Ras GTPase binding" evidence=IDA

GO:0043087 "regulation of GTPase activity" evidence=NAS

GO:0007265 "Ras protein signal transduction" evidence=NAS

GO:0005886 "plasma membrane" evidence=IDA

GO:0030742 "GTP-dependent protein binding" evidence=IDA

GO:0005085 "guanyl-nucleotide exchange factor activity" evidence=IDA

UNIPROTKB|E9PCH4 FNIP1 "Folliculin-interacting protein 1" [Homo sapiens (taxid:9606)]

 Score = 162 (62.1 bits), Expect = 7.6e-11, Sum P(2) = 7.6e-11
 Identities = 33/68 (48%), Positives = 43/68 (63%)

Query:     4 DLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVF 63
             DL  IY  LHG+E L+  R+  LR +    RYER+  N VL+ +  ++  WYILLSGSV 
Sbjct:    74 DLNTIYSYLHGMEILSNLREHQLRLMSARARYERYSGNQVLFCSETIARCWYILLSGSVL 133

Query:    64 IDGSMFLP 71
             + GSM LP
Sbjct:   134 VKGSMVLP 141

GO:0005622 "intracellular" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0051056 "regulation of small GTPase mediated signal transduction" evidence=IEA

GO:0005085 "guanyl-nucleotide exchange factor activity" evidence=IEA

WB|WBGene00004254 pxf-1 [Caenorhabditis elegans (taxid:6239)]

 Score = 161 (61.7 bits), Expect = 2.4e-10, P = 2.4e-10
 Identities = 29/69 (42%), Positives = 46/69 (66%)

Query:     3 DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
             DD++ +Y  L  L+  +      L++LC+  RYERH A  +L+  G+++ SWYILLSGSV
Sbjct:    30 DDIRNVYEQLRQLDTFSNLFIGPLKALCKTARYERHPAQYILFRDGDVARSWYILLSGSV 89

Query:    63 FIDGSMFLP 71
             FI+  +++P
Sbjct:    90 FIENQIYMP 98

GO:0007165 "signal transduction" evidence=IEA

GO:0005085 "guanyl-nucleotide exchange factor activity" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0051056 "regulation of small GTPase mediated signal transduction" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0017034 "Rap guanyl-nucleotide exchange factor activity" evidence=IDA

GO:0040002 "collagen and cuticulin-based cuticle development" evidence=IMP

GO:0008544 "epidermis development" evidence=IMP

GO:0018996 "molting cycle, collagen and cuticulin-based cuticle" evidence=IMP

GO:0060102 "collagen and cuticulin-based cuticle extracellular matrix" evidence=IDA

---

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	114
cd00038	115	cd00038, CAP_ED, effector domain of the CAP family	2e-06
smart00100	120	smart00100, cNMP, Cyclic nucleotide-monophosphate	2e-04
COG0664	214	COG0664, Crp, cAMP-binding proteins - catabolite g	0.001

>gnl|CDD|237999 cd00038, CAP_ED, effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO sensor

 Score = 43.1 bits (102), Expect = 2e-06
 Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 4/68 (5%)

Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
          D  L  L   +   R  A +V+   G+ + S YI+LSGSV +         R  +     
Sbjct: 7  DEELEELADALEERRFPAGEVIIRQGDPADSLYIVLSGSVEV--YKLDEDGREQIVGFLG 64

Query: 83 P--VFGLI 88
          P  +FG +
Sbjct: 65 PGDLFGEL 72

In all cases binding of the effector leads to conformational changes and the ability to activate transcription. Cyclic nucleotide-binding domain similar to CAP are also present in cAMP- and cGMP-dependent protein kinases (cAPK and cGPK) and vertebrate cyclic nucleotide-gated ion-channels. Cyclic nucleotide-monophosphate binding domain; proteins that bind cyclic nucleotides (cAMP or cGMP) share a structural domain of about 120 residues; the best studied is the prokaryotic catabolite gene activator, CAP, where such a domain is known to be composed of three alpha-helices and a distinctive eight-stranded, antiparallel beta-barrel structure; three conserved glycine residues are thought to be essential for maintenance of the structural integrity of the beta-barrel; CooA is a homodimeric transcription factor that belongs to CAP family; cAMP- and cGMP-dependent protein kinases (cAPK and cGPK) contain two tandem copies of the cyclic nucleotide-binding domain; cAPK's are composed of two different subunits, a catalytic chain and a regulatory chain, which contains both copies of the domain; cGPK's are single chain enzymes that include the two copies of the domain in their N-terminal section; also found in vertebrate cyclic nucleotide-gated ion-channels. Length = 115

>gnl|CDD|197516 smart00100, cNMP, Cyclic nucleotide-monophosphate binding domain

 Score = 37.8 bits (88), Expect = 2e-04
 Identities = 13/45 (28%), Positives = 22/45 (48%)

Query: 18 LAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
                  LR L   +   R+ A +V+   G++  S+YI++SG V
Sbjct: 2  FKNLDAEELRELADALEPVRYPAGEVIIRQGDVGDSFYIIVSGEV 46

Catabolite gene activator protein (CAP) is a prokaryotic homologue of eukaryotic cNMP-binding domains, present in ion channels, and cNMP-dependent kinases. Length = 120

>gnl|CDD|223736 COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]

 Score = 36.3 bits (84), Expect = 0.001
 Identities = 19/79 (24%), Positives = 29/79 (36%), Gaps = 4/79 (5%)

Query: 12 LHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLP 71
          L     L      +L  L   +   +    +VL+  GE + S YI+LSG V +       
Sbjct: 2  LKENPLLNLLPSELLELLALKLEVRKLPKGEVLFTEGEEADSLYIILSGIVKL--YANTE 59

Query: 72 QSRNFVFNVFSP--VFGLI 88
            R  +     P   FG +
Sbjct: 60 DGREIILGFLGPGDFFGEL 78

Length = 214

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	114
KOG3542|consensus	1283		99.47
PRK09392	236	ftrB transcriptional activator FtrB; Provisional	99.43
PLN02868	413	acyl-CoA thioesterase family protein	99.33
smart00100	120	cNMP Cyclic nucleotide-monophosphate binding domai	99.21
KOG1113|consensus	368		99.19
PLN03192	823	Voltage-dependent potassium channel; Provisional	99.14
COG0664	214	Crp cAMP-binding proteins - catabolite gene activa	99.11
KOG0614|consensus	732		99.11
PRK11161	235	fumarate/nitrate reduction transcriptional regulat	99.1
PRK11753	211	DNA-binding transcriptional dual regulator Crp; Pr	99.1
cd00038	115	CAP_ED effector domain of the CAP family of transc	99.09
PRK10402	226	DNA-binding transcriptional activator YeiL; Provis	98.87
PRK13918	202	CRP/FNR family transcriptional regulator; Provisio	98.75
PF00027	91	cNMP_binding: Cyclic nucleotide-binding domain; In	98.67
KOG0498|consensus	727		98.63
KOG0614|consensus	732		98.6
PRK09391	230	fixK transcriptional regulator FixK; Provisional	98.53
COG2905	610	Predicted signal-transduction protein containing c	98.5
KOG0500|consensus	536		98.44
KOG3542|consensus	1283		98.41
TIGR03697	193	NtcA_cyano global nitrogen regulator NtcA, cyanoba	98.31
KOG1113|consensus	368		98.21
KOG0499|consensus	815		97.94
KOG2968|consensus	1158		96.05
KOG0501|consensus	971		95.99
PF04831	153	Popeye: Popeye protein conserved region; InterPro:	92.78
KOG2968|consensus	1158		92.76

>KOG3542|consensus

Probab=99.47  E-value=3.7e-14  Score=122.74  Aligned_cols=95  Identities=34%  Similarity=0.606  Sum_probs=87.3

Q ss_pred             ChhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEeCcccCCCCcceeecc
Q psy8804           1 MADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNV   80 (114)
Q Consensus         1 ~~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~g~~~~p~~~fg~~~~   80 (114)
                      +++|+...++.|+++..|++|-...|+.+|+.+++++++...++|+.||.+.+|||+++|+|.|.|.+++|.++||..+-
T Consensus        28 t~~~~rN~~~~lh~ld~~snl~~~~lk~l~~~aryer~~g~~ilf~~~~var~wyillsgsv~v~gqi~mp~~~fgkr~g  107 (1283)
T KOG3542|consen   28 TPDDIRNVYEQLHQLDTFSNLFIGPLKALCKTARYERHPGQYILFRDGDVARSWYILLSGSVFVEGQIYMPYGCFGKRTG  107 (1283)
T ss_pred             ChhhhhhHHHHHhhhhhhhhhhhhhHHHhhhhhhhhcCCCceEEecccchhhheeeeeccceEeecceecCccccccccc
Confidence            36788889999999999999999999999999999999999999999999999999999999999999999999995432


Q ss_pred             c-CceeeeeecCcccc
Q psy8804          81 F-SPVFGLILNPSVSM   95 (114)
Q Consensus        81 ~-~~~~~~~~~~~~~~   95 (114)
                      - ..|.||+|.++|.+
T Consensus       108 ~~r~~nclllq~semi  123 (1283)
T KOG3542|consen  108 QNRTHNCLLLQESEMI  123 (1283)
T ss_pred             cccccceeeeccccee
Confidence            2 38999999999954

>PRK09392 ftrB transcriptional activator FtrB; Provisional

Probab=99.43  E-value=5.8e-13  Score=99.89  Aligned_cols=88  Identities=20%  Similarity=0.244  Sum_probs=76.8

Q ss_pred             HHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe----C-----cccCCCCcceeec
Q psy8804           9 YYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID----G-----SMFLPQSRNFVFN   79 (114)
Q Consensus         9 ~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~----g-----~~~~p~~~fg~~~   79 (114)
                      .+.|+.+++|++|++++++.|+..+..++|++|++|+++||+++.+|+|++|.|++.    |     ....||+.||+.+
T Consensus         6 ~~~l~~~~~f~~L~~~~~~~l~~~~~~~~~~~ge~l~~~g~~~~~~~~v~~G~v~~~~~~~~~~~~i~~~~~g~~~g~~~   85 (236)
T PRK09392          6 LIRLRNLPLFADMADATFERLMRGAFLQRFPPGTMLITEGEPADFLFVVLDGLVELSASSQDRETTLAILRPVSTFILAA   85 (236)
T ss_pred             HHHHhcCccccCCCHHHHHHHHhhcceeecCCCCEEEeCCCccceEEEEEeCEEEEEEcCCCceEEEEEeCCCchhhhHH
Confidence            468999999999999999999999999999999999999999999999999999973    3     2555999999887


Q ss_pred             ccC----ceeeeeecCccccc
Q psy8804          80 VFS----PVFGLILNPSVSMA   96 (114)
Q Consensus        80 ~~~----~~~~~~~~~~~~~~   96 (114)
                      .+.    ++.+.++++++++.
T Consensus        86 ~~~~~~~~~~~~A~~~~~~~~  106 (236)
T PRK09392         86 VVLDAPYLMSARTLTRSRVLM  106 (236)
T ss_pred             HhCCCCCceEEEEcCceEEEE
Confidence            765    55678888888654

>PLN02868 acyl-CoA thioesterase family protein

Probab=99.33  E-value=6.9e-12  Score=102.50  Aligned_cols=89  Identities=12%  Similarity=0.071  Sum_probs=74.1

Q ss_pred             HHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----C----cccCCCCcce
Q psy8804           6 QIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----G----SMFLPQSRNF   76 (114)
Q Consensus         6 e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g----~~~~p~~~fg   76 (114)
                      +.+...|+++++|++|+++++++|+..+..++|++|++||++||+.+.+|+|++|+|++.     |    ....||+.||
T Consensus         4 ~~~~~~L~~~~~F~~L~~~~l~~l~~~~~~~~~~~Ge~I~~~Gd~~~~lyiI~~G~V~v~~~~~~ge~~l~~l~~Gd~fG   83 (413)
T PLN02868          4 ESVVEFLGSVPLLQRLPSSSLKKIAEVVVPKRYGKGEYVVREGEPGDGLYFIWKGEAEVSGPAEEESRPEFLLKRYDYFG   83 (413)
T ss_pred             HHHHHHHhcCcccccCCHHHHHHHHHhceEEEECCCCEEEeCCCcCceEEEEEeCEEEEEEECCCCcEEEEEeCCCCEee
Confidence            456788999999999999999999999999999999999999999999999999999973     2    2445999999


Q ss_pred             eecccC---ceeeeeecCcccc
Q psy8804          77 VFNVFS---PVFGLILNPSVSM   95 (114)
Q Consensus        77 ~~~~~~---~~~~~~~~~~~~~   95 (114)
                      +. ..+   ++.+.++++++++
T Consensus        84 ~~-l~~~~~~~~~~A~~d~~v~  104 (413)
T PLN02868         84 YG-LSGSVHSADVVAVSELTCL  104 (413)
T ss_pred             hh-hCCCCcccEEEECCCEEEE
Confidence            74 222   4556666666543

>smart00100 cNMP Cyclic nucleotide-monophosphate binding domain

Probab=99.21  E-value=1e-10  Score=75.67  Aligned_cols=65  Identities=25%  Similarity=0.364  Sum_probs=58.4

Q ss_pred             CCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----C-----cccCCCCcceeeccc
Q psy8804          17 ALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----G-----SMFLPQSRNFVFNVF   81 (114)
Q Consensus        17 lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g-----~~~~p~~~fg~~~~~   81 (114)
                      +|++++++.++.++.....+.|++|++|+++||+.+++|+|++|.+++.     |     ....||..||+...+
T Consensus         1 ~f~~l~~~~~~~l~~~~~~~~~~~g~~l~~~g~~~~~~y~v~~G~v~~~~~~~~g~~~~~~~~~~g~~~g~~~~~   75 (120)
T smart00100        1 LFKNLDAEELRELADALEPVRYPAGEVIIRQGDVGDSFYIILSGEVRVYKVLEDGREQILGILGPGDFFGELALL   75 (120)
T ss_pred             CcCCCCHHHHHHHHHhceEEEeCCCCEEEeCCCcCCcEEEEEeeEEEEEEECCCCceEEEEeecCCceechhhhc
Confidence            5899999999999999999999999999999999999999999999963     2     244599999988777

Catabolite gene activator protein (CAP) is a prokaryotic homologue of eukaryotic cNMP-binding domains, present in ion channels, and cNMP-dependent kinases.

>KOG1113|consensus

Probab=99.19  E-value=6.7e-11  Score=95.84  Aligned_cols=81  Identities=12%  Similarity=0.181  Sum_probs=74.0

Q ss_pred             hhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe--C---cccCCCCcce
Q psy8804           2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID--G---SMFLPQSRNF   76 (114)
Q Consensus         2 ~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~--g---~~~~p~~~fg   76 (114)
                      +++.+-+.+.+++.-+|++|+++++.++...+..+++++|+.|..|||.|+.||+|-+|++.|+  |   ....||++||
T Consensus       114 ~e~~~~L~~a~r~~~LF~~Ld~eq~~~v~dam~~~~v~~G~~Vi~qGdeGd~fYvI~kGt~dVyv~~~~v~~~~~g~sFG  193 (368)
T KOG1113|consen  114 DETRRRLEEAFRKNLLFANLDDEQLSQVLDAMFEKRVKAGETVIKQGDEGDNFYVIDKGTFDVYVNGTYVTTYSPGGSFG  193 (368)
T ss_pred             HHHHHHHHHHHHhccccccCCHHHHHHHHHhhceeeecCCcEEEecCCcCCcEEEEecceEEEEECCeEEeeeCCCCchh
Confidence            4677778899999999999999999999999999999999999999999999999999999986  3   3556999999


Q ss_pred             eecccC
Q psy8804          77 VFNVFS   82 (114)
Q Consensus        77 ~~~~~~   82 (114)
                      |++...
T Consensus       194 ElALmy  199 (368)
T KOG1113|consen  194 ELALMY  199 (368)
T ss_pred             hhHhhh
Confidence            988776

>PLN03192 Voltage-dependent potassium channel; Provisional

Probab=99.14  E-value=1.8e-10  Score=101.14  Aligned_cols=87  Identities=13%  Similarity=-0.019  Sum_probs=77.5

Q ss_pred             HHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe----C-----cccCCCCcceeecc
Q psy8804          10 YGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID----G-----SMFLPQSRNFVFNV   80 (114)
Q Consensus        10 ~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~----g-----~~~~p~~~fg~~~~   80 (114)
                      +.++++++|++++++.+.+|+..+..+.|++|+.||.|||.++.+|+|++|+|++.    |     +...||+.||+...
T Consensus       374 ~~l~~~~lF~~~s~~~l~~L~~~~~~~~~~pge~I~~qge~~~~lY~I~~G~V~i~~~~~~~e~~l~~l~~Gd~FGE~~~  453 (823)
T PLN03192        374 PVVEKVYLFKGVSREILLLLVTKMKAEYIPPREDVIMQNEAPDDVYIVVSGEVEIIDSEGEKERVVGTLGCGDIFGEVGA  453 (823)
T ss_pred             HHHhhCcchhcCCHHHHHHHHHhhheeeeCCCCEEEECCCCCceEEEEEecEEEEEEecCCcceeeEEccCCCEecchHH
Confidence            46899999999999999999999999999999999999999999999999999973    2     24459999999988


Q ss_pred             cC----ceeeeeecCccccc
Q psy8804          81 FS----PVFGLILNPSVSMA   96 (114)
Q Consensus        81 ~~----~~~~~~~~~~~~~~   96 (114)
                      |.    |..+.+.+.++|+.
T Consensus       454 l~~~p~~~t~ra~~~s~ll~  473 (823)
T PLN03192        454 LCCRPQSFTFRTKTLSQLLR  473 (823)
T ss_pred             hcCCCCCCeEEEcccEEEEE
Confidence            86    77888889988764

>COG0664 Crp cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]

Probab=99.11  E-value=2.7e-10  Score=81.85  Aligned_cols=85  Identities=21%  Similarity=0.249  Sum_probs=72.5

Q ss_pred             hhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeeccc
Q psy8804          12 LHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFNVF   81 (114)
Q Consensus        12 Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~~~   81 (114)
                      ++..+.|..++++.+..++.....+++++|++||+|||+++++|+|++|.|++.     |+     ...||+.||+.+.+
T Consensus         2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~g~~~~~~y~v~~G~v~~~~~~~~G~~~~~~~~~~g~~fg~~~l~   81 (214)
T COG0664           2 LKENPLLNLLPSELLELLALKLEVRKLPKGEVLFTEGEEADSLYIILSGIVKLYANTEDGREIILGFLGPGDFFGELALL   81 (214)
T ss_pred             cccccccccCCHHHHHHHhhhceeEeeCCCCEEEcCCCcCceEEEEEEeEEEEEEECCCCcEEEEEEecCCchhhhHHHh
Confidence            456678888899999998889999999999999999999999999999999963     32     46699999999888


Q ss_pred             C----ceeeeeecCccccc
Q psy8804          82 S----PVFGLILNPSVSMA   96 (114)
Q Consensus        82 ~----~~~~~~~~~~~~~~   96 (114)
                      .    +..+.++++++++.
T Consensus        82 ~~~~~~~~~~a~~~~~~~~  100 (214)
T COG0664          82 GGDPRSASAVALTDVEVLE  100 (214)
T ss_pred             cCCCccceEEEcceEEEEE
Confidence            5    66788888877653

>KOG0614|consensus

Probab=99.11  E-value=1.2e-10  Score=99.03  Aligned_cols=89  Identities=16%  Similarity=0.185  Sum_probs=76.7

Q ss_pred             hhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEeC-----------cccCC
Q psy8804           3 DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDG-----------SMFLP   71 (114)
Q Consensus         3 ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~g-----------~~~~p   71 (114)
                      +..+..+++||.+|+|.+|+++-|..++.+.....|.+|+.|++||+.|+.||||-.|+|+|.-           +....
T Consensus       265 ~r~~~~~~fLrsv~~~q~l~Ee~L~KiaD~le~~~Yd~g~yIirqge~G~~ffii~~G~V~vtq~~e~~~q~~~lr~l~k  344 (732)
T KOG0614|consen  265 ERHEQYMNFLRSVPLFQNLPEELLLKIADVLEEEYYDAGEYIIRQGEKGDTFFIISKGTVKVTQQDEGSTQPQELRTLNK  344 (732)
T ss_pred             HHHHHHHHHHHhhhhhccCCHHHHHHHHHHHHHHhhcCCceEEeecCCCCeEEEEecceEEEeecCCCCCchhHHhhccc
Confidence            3455667999999999999999999999999999999999999999999999999999999852           23347


Q ss_pred             CCcceeecccC------------c-eeeeeecC
Q psy8804          72 QSRNFVFNVFS------------P-VFGLILNP   91 (114)
Q Consensus        72 ~~~fg~~~~~~------------~-~~~~~~~~   91 (114)
                      |++|||.+.+.            | .+|++|+-
T Consensus       345 Gd~FGE~al~~edvRtAniia~~~gv~cl~lDr  377 (732)
T KOG0614|consen  345 GDYFGERALLGEDVRTANIIAQAPGVECLTLDR  377 (732)
T ss_pred             cchhhHHHhhccCccchhhhccCCCceEEEecH
Confidence            88999877766            3 57888765

>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional

Probab=99.10  E-value=3.3e-10  Score=84.74  Aligned_cols=84  Identities=20%  Similarity=0.212  Sum_probs=67.7

Q ss_pred             hhCCCCCCCCCHHHHHHHHhhcc-eeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeecc
Q psy8804          12 LHGLEALAPYRDSVLRSLCRVVR-YERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFNV   80 (114)
Q Consensus        12 Lr~v~lF~~L~~~~l~~La~~~~-~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~~   80 (114)
                      +++.+.|..|++++++.|...+. .+.|++|++||++||+.+++|+|++|.|++.     |+     ...||+.||....
T Consensus        15 ~~~~~~~~~l~~~~l~~L~~~~~~~~~~~kge~l~~~Gd~~~~ly~v~~G~v~~~~~~~~G~e~i~~~~~~gd~~g~~~~   94 (235)
T PRK11161         15 ISQLCIPFTLNEHELDQLDNIIERKKPIQKGQTLFKAGDELKSLYAIRSGTIKSYTITEQGDEQITGFHLAGDLVGFDAI   94 (235)
T ss_pred             ccccccccCCCHHHHHHHHHhhhhceeecCCCEeECCCCCcceEEEEeeceEEEEEECCCCCEEEEEeccCCceeccccc
Confidence            66777777899999999999875 5689999999999999999999999999963     43     3459999997655


Q ss_pred             cC---ceeeeeecCcccc
Q psy8804          81 FS---PVFGLILNPSVSM   95 (114)
Q Consensus        81 ~~---~~~~~~~~~~~~~   95 (114)
                      +.   +..+.++++++++
T Consensus        95 ~~~~~~~~~~a~~~~~i~  112 (235)
T PRK11161         95 GSGQHPSFAQALETSMVC  112 (235)
T ss_pred             cCCCCcceEEEeccEEEE
Confidence            53   4556677776654

>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional

Probab=99.10  E-value=4.6e-10  Score=82.28  Aligned_cols=77  Identities=17%  Similarity=0.186  Sum_probs=65.6

Q ss_pred             CCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeecccC-----c
Q psy8804          19 APYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFNVFS-----P   83 (114)
Q Consensus        19 ~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~~~~-----~   83 (114)
                      +.+++++++.+++.+..+.|++|++||++||+.+.+|+|++|.|++.     |+     ...||+.||+...|.     +
T Consensus         6 ~~~~~~~~~~l~~~~~~~~~~kg~~l~~~g~~~~~~y~V~~G~v~~~~~~~~g~~~~~~~~~~g~~~g~~~~~~~~~~~~   85 (211)
T PRK11753          6 KPQTDPTLEWFLSHCHIHKYPAKSTLIHAGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGQERS   85 (211)
T ss_pred             CCCCHHHHHHHHhhCeEEEeCCCCEEEeCCCCCCeEEEEEeCEEEEEEECCCCCEEEEEEcCCCCEEeehhhccCCCCce
Confidence            57899999999999999999999999999999999999999999963     43     456999999988776     2


Q ss_pred             eeeeeecCcccc
Q psy8804          84 VFGLILNPSVSM   95 (114)
Q Consensus        84 ~~~~~~~~~~~~   95 (114)
                      +.+.++++++++
T Consensus        86 ~~~~a~~~~~v~   97 (211)
T PRK11753         86 AWVRAKTACEVA   97 (211)
T ss_pred             EEEEEcCcEEEE
Confidence            355677777755

>cd00038 CAP_ED effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO sensor

Probab=99.09  E-value=5.5e-10  Score=72.08  Aligned_cols=79  Identities=24%  Similarity=0.284  Sum_probs=64.2

Q ss_pred             CCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----C-----cccCCCCcceeecccC----
Q psy8804          17 ALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----G-----SMFLPQSRNFVFNVFS----   82 (114)
Q Consensus        17 lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g-----~~~~p~~~fg~~~~~~----   82 (114)
                      +|+.|+++.++.++..+..+.+++|++|+.+|++.+++|+|++|.|++.     |     ....+|+.+|....+.    
T Consensus         1 ~f~~l~~~~~~~l~~~~~~~~~~~g~~l~~~~~~~~~~~~i~~G~v~~~~~~~~g~~~~~~~~~~g~~~g~~~~~~~~~~   80 (115)
T cd00038           1 LFSGLDDEELEELADALEERRFPAGEVIIRQGDPADSLYIVLSGSVEVYKLDEDGREQIVGFLGPGDLFGELALLGNGPR   80 (115)
T ss_pred             CcccCCHHHHHHHHhhceeeeeCCCCEEEcCCCCCCeEEEEEeCEEEEEEECCCCcEEEEEecCCccCcChHHHhcCCCC
Confidence            5899999999999999999999999999999999999999999999973     2     2344899999876653    


Q ss_pred             ceeeeeecCcccc
Q psy8804          83 PVFGLILNPSVSM   95 (114)
Q Consensus        83 ~~~~~~~~~~~~~   95 (114)
                      +....++++++++
T Consensus        81 ~~~~~a~~~~~~~   93 (115)
T cd00038          81 SATVRALTDSELL   93 (115)
T ss_pred             CceEEEcCceEEE
Confidence            3344555665543

In all cases binding of the effector leads to conformational changes and the ability to activate transcription. Cyclic nucleotide-binding domain similar to CAP are also present in cAMP- and cGMP-dependent protein kinases (cAPK and cGPK) and vertebrate cyclic nucleotide-gated ion-channels. Cyclic nucleotide-monophosphate binding domain; proteins that bind cyclic nucleotides (cAMP or cGMP) share a structural domain of about 120 residues; the best studied is the prokaryotic catabolite gene activator, CAP, where such a domain is known to be composed of three alpha-helices and a distinctive eight-stranded, antiparallel beta-barrel structure; three conserved glycine residues are thought to be essential for maintenance of

>PRK10402 DNA-binding transcriptional activator YeiL; Provisional

Probab=98.87  E-value=4.3e-09  Score=79.04  Aligned_cols=69  Identities=9%  Similarity=0.083  Sum_probs=57.8

Q ss_pred             HHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEE-----eCc-----ccCCCCcceeecccC----ceeeeeecCc
Q psy8804          27 RSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFI-----DGS-----MFLPQSRNFVFNVFS----PVFGLILNPS   92 (114)
Q Consensus        27 ~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI-----~g~-----~~~p~~~fg~~~~~~----~~~~~~~~~~   92 (114)
                      ..|++.+..++|++|++||.+||+.+.+|+|++|.|++     +|+     ...||+.||+.++|.    ++.+.+++++
T Consensus        25 ~~i~~~~~~~~~~kge~l~~~G~~~~~~y~V~~G~v~v~~~~~~G~e~~~~~~~~g~~~G~~~~~~~~~~~~~~~A~~~~  104 (226)
T PRK10402         25 FDVSADTELFHFLAREYIVQEGQQPSYLFYLTRGRAKLYATLANGKVSLIDFFAAPCFIGEIELIDKDHETKAVQAIEEC  104 (226)
T ss_pred             HHHHhhhhheeeCCCCEEEcCCCCCceEEEEEeCEEEEEEECCCCCEeeeeecCCCCeEEeehhhcCCCCCccEEEeccE
Confidence            35777889999999999999999999999999999996     343     455999999988775    5667888887


Q ss_pred             ccc
Q psy8804          93 VSM   95 (114)
Q Consensus        93 ~~~   95 (114)
                      +++
T Consensus       105 ~i~  107 (226)
T PRK10402        105 WCL  107 (226)
T ss_pred             EEE
Confidence            754

>PRK13918 CRP/FNR family transcriptional regulator; Provisional

Probab=98.75  E-value=2.2e-08  Score=73.00  Aligned_cols=64  Identities=22%  Similarity=0.169  Sum_probs=51.2

Q ss_pred             hcceeEecCCCEEEecCC--CCCeEEEEEeeeEEE-----eCc-----ccCCCCcceeecccC---ceeeeeecCcccc
Q psy8804          32 VVRYERHQANDVLYYTGE--LSTSWYILLSGSVFI-----DGS-----MFLPQSRNFVFNVFS---PVFGLILNPSVSM   95 (114)
Q Consensus        32 ~~~~~~~~~G~~If~qGd--~~~~~yiIlsG~VkI-----~g~-----~~~p~~~fg~~~~~~---~~~~~~~~~~~~~   95 (114)
                      .....+|++|++||+|||  +++++|+|++|.|++     +|+     ...||+.||+...+.   +..+.++++++++
T Consensus         5 ~~~~~~~~kg~~l~~~Gd~~~~~~~y~I~~G~vr~~~~~~~G~e~~l~~~~~Gd~~G~~~~~~~~~~~~~~A~~~~~v~   83 (202)
T PRK13918          5 VVDTVTYRPGAVILYPGVPGPSDMLYRVRSGLVRLHTVDDEGNALTLRYVRPGEYFGEEALAGAERAYFAEAVTDSRID   83 (202)
T ss_pred             ccceeEecCCCEEEcCCCCCCCCeEEEEEeeEEEEEEECCCCCEEEEEEecCCCeechHHhcCCCCCceEEEcCceEEE
Confidence            456789999999999999  779999999999996     343     456999999876654   5567788877753

>PF00027 cNMP_binding: Cyclic nucleotide-binding domain; InterPro: IPR000595 Proteins that bind cyclic nucleotides (cAMP or cGMP) share a structural domain of about 120 residues [, , ]

Probab=98.67  E-value=2.3e-08  Score=63.10  Aligned_cols=60  Identities=23%  Similarity=0.386  Sum_probs=46.7

Q ss_pred             eEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeecccC----ceeeeeecCcccc
Q psy8804          36 ERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        36 ~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~~~~----~~~~~~~~~~~~~   95 (114)
                      ++|++|++|+++|++.+++|+|++|.+++.     |+     ...||+.||..+.+.    +..+.++++++++
T Consensus         2 ~~~~~g~~i~~~g~~~~~~~~i~~G~v~~~~~~~~~~~~~~~~~~~g~~~g~~~~~~~~~~~~~~~a~~~~~~~   75 (91)
T PF00027_consen    2 KTYKKGEVIYRQGDPCDHIYIILSGEVKVSSINEDGKEQIIFFLGPGDIFGEIELLTGKPSPFTVIALTDSEVL   75 (91)
T ss_dssp             EEESTTEEEEETTSBESEEEEEEESEEEEEEETTTSEEEEEEEEETTEEESGHHHHHTSBBSSEEEESSSEEEE
T ss_pred             eEECCCCEEEeCCCcCCEEEEEEECceEEEeceecceeeeecceeeeccccceeecCCCccEEEEEEccCEEEE
Confidence            689999999999999999999999999962     22     445999999766665    3455566665543

The best studied of these proteins is the prokaryotic catabolite gene activator (also known as the cAMP receptor protein) (gene crp) where such a domain is known to be composed of three alpha-helices and a distinctive eight-stranded, antiparallel beta-barrel structure. There are six invariant amino acids in this domain, three of which are glycine residues that are thought to be essential for maintenance of the structural integrity of the beta-barrel. cAMP- and cGMP-dependent protein kinases (cAPK and cGPK) contain two tandem copies of the cyclic nucleotide-binding domain. The cAPK's are composed of two different subunits, a catalytic chain and a regulatory chain, which contains both copies of the domain. The cGPK's are single chain enzymes that include the two copies of the domain in their N-terminal section. Vertebrate cyclic nucleotide-gated ion-channels also contain this domain. Two such cations channels have been fully characterised, one is found in rod cells where it plays a role in visual signal transduction.; PDB: 1O7F_A 2BYV_E 3E97_A 3U10_A 2H6B_A 3SHR_A 2OZ6_A 1WGP_A 3LA2_A 3LA3_B ....

>KOG0498|consensus

Probab=98.63  E-value=8e-08  Score=84.29  Aligned_cols=68  Identities=19%  Similarity=0.260  Sum_probs=61.8

Q ss_pred             HHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe---C------cccCCCCcce
Q psy8804           9 YYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID---G------SMFLPQSRNF   76 (114)
Q Consensus         9 ~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~---g------~~~~p~~~fg   76 (114)
                      .+.++++|+|+++++.-|+.||...+.+.|++|++|++|||+.+.+|+|.+|++.+.   |      ....||+.||
T Consensus       418 ~~lv~~vpLF~~md~~~L~al~~rlk~~~f~pge~iireGd~v~~myFI~rG~le~~~~~~g~~~~~~~L~~Gd~~G  494 (727)
T KOG0498|consen  418 LDLVRKVPLFAGMDDGLLDALCSRLKPEYFTPGEYIIREGDPVTDMYFIVRGSLESITTDGGGFFVVAILGPGDFFG  494 (727)
T ss_pred             HHHHhhCchhhcCCHHHHHHHHHHhhhhccCCCCeEEecCCccceeEEEEeeeEEEEEccCCceEEEEEecCCCccc
Confidence            468899999999999999999999999999999999999999999999999999963   1      2344999999

>KOG0614|consensus

Probab=98.60  E-value=4.2e-08  Score=83.78  Aligned_cols=82  Identities=13%  Similarity=0.124  Sum_probs=73.9

Q ss_pred             hHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe--Cc---ccCCCCcceee
Q psy8804           4 DLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID--GS---MFLPQSRNFVF   78 (114)
Q Consensus         4 d~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~--g~---~~~p~~~fg~~   78 (114)
                      .-+.|.+.++...++++|.+.+++++..++....|++|+.|++|||+|+.+|++.+|++.|.  |+   .+.||..|||+
T Consensus       148 ~k~lI~dAi~~NdFLknLd~~Qi~e~v~~Myp~~~~~gs~IIrege~Gs~~yV~aeG~~~V~~~g~ll~~m~~gtvFGEL  227 (732)
T KOG0614|consen  148 AKQLIRDAIQKNDFLKNLDASQIKELVDCMYPVEYRAGSWIIREGEPGSHLYVSAEGELQVSREGKLLGKMGAGTVFGEL  227 (732)
T ss_pred             HHHHHHHHHHhhHHHHhhhHHHHHHHHHhhCcccccCCcEEEecCCCCceEEEeecceEEEeeCCeeeeccCCchhhhHH
Confidence            34668889999999999999999999999999999999999999999999999999999985  43   45599999999


Q ss_pred             cccCcee
Q psy8804          79 NVFSPVF   85 (114)
Q Consensus        79 ~~~~~~~   85 (114)
                      |.+--|.
T Consensus       228 AILynct  234 (732)
T KOG0614|consen  228 AILYNCT  234 (732)
T ss_pred             HHHhCCc
Confidence            9998663

>PRK09391 fixK transcriptional regulator FixK; Provisional

Probab=98.53  E-value=2e-07  Score=70.34  Aligned_cols=67  Identities=16%  Similarity=0.040  Sum_probs=53.0

Q ss_pred             HHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeeccc-CceeeeeecCcccc
Q psy8804          29 LCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFNVF-SPVFGLILNPSVSM   95 (114)
Q Consensus        29 La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~~~-~~~~~~~~~~~~~~   95 (114)
                      ++..+..++|++|++||++||+++++|+|++|.|++.     |+     ...||+.||...-. .+..+.++++++++
T Consensus        34 ~~~~~~~~~~~kge~l~~~Gd~~~~ly~I~~G~vkl~~~~~~G~e~i~~~~~~Gd~fG~~~~~~~~~~~~A~~ds~v~  111 (230)
T PRK09391         34 AGLVASEFSYKKGEEIYGEGEPADYVYQVESGAVRTYRLLSDGRRQIGAFHLPGDVFGLESGSTHRFTAEAIVDTTVR  111 (230)
T ss_pred             ccceeeeEEECCCCEEECCCCCCCeEEEEEeCEEEEEEECCCCcEEEEEEecCCceecccCCCcCCeEEEEcCceEEE
Confidence            5667788999999999999999999999999999962     43     34599999864321 25677888887755

>COG2905 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]

Probab=98.50  E-value=3.2e-07  Score=78.50  Aligned_cols=77  Identities=13%  Similarity=0.152  Sum_probs=67.5

Q ss_pred             HHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe---Cc---ccCCCCcceeec
Q psy8804           6 QIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID---GS---MFLPQSRNFVFN   79 (114)
Q Consensus         6 e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~---g~---~~~p~~~fg~~~   79 (114)
                      ..+.++|+++|.|+.|+++++.+|.....++.|++|++|..-|.|-.++|+|++|.|.+.   |+   ...-|+.||-.+
T Consensus         3 ~~~~~Fl~~~pPF~~L~~eel~~L~~~l~v~yy~kge~ii~~~~p~~~l~vi~kG~vev~~~~g~v~~~~~~gdlFg~~~   82 (610)
T COG2905           3 DEPDQFLQQHPPFSQLPAEELEQLMGALEVKYYRKGEIIIYAGSPVHYLYVIRKGVVEVRSDGGEVLDRLAAGDLFGFSS   82 (610)
T ss_pred             CCHHHHHhcCCCcccCCHHHHHHHHhhhccccccCCCeeecCCCCcceeEEEEeceeeEEcCCCeeeeeeccCccccchh
Confidence            345789999999999999999999999999999999999999999999999999999963   33   555888998655


Q ss_pred             ccC
Q psy8804          80 VFS   82 (114)
Q Consensus        80 ~~~   82 (114)
                      +|.
T Consensus        83 l~~   85 (610)
T COG2905          83 LFT   85 (610)
T ss_pred             hcc
Confidence            554

>KOG0500|consensus

Probab=98.44  E-value=4.9e-07  Score=76.31  Aligned_cols=76  Identities=14%  Similarity=0.229  Sum_probs=66.9

Q ss_pred             HHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEE---eCcc----cCCCCcceeec
Q psy8804           7 IIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFI---DGSM----FLPQSRNFVFN   79 (114)
Q Consensus         7 ~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI---~g~~----~~p~~~fg~~~   79 (114)
                      ...+.|+++++|+...+.-|.+|.-..+..-|.||++|++.||.|..+|||..|++.|   +|..    ..-|..|||++
T Consensus       304 vh~dTLkkV~iF~~ce~~lL~elVLklk~qvfSPgDyICrKGdvgkEMyIVk~G~L~Vv~dDg~t~~~~L~~G~~FGEis  383 (536)
T KOG0500|consen  304 VHLDTLKKVRIFQDCEAGLLVELVLKLKPQVFSPGDYICRKGDVGKEMYIVKEGKLAVVADDGVTVFVTLKAGSVFGEIS  383 (536)
T ss_pred             HHHHHHHhhhHHHhcchhHHHHHHHHhcceeeCCCCeEEecCcccceEEEEEccEEEEEecCCcEEEEEecCCceeeeeE
Confidence            3578999999999999999999999999999999999999999999999999999996   3532    23899999877


Q ss_pred             ccC
Q psy8804          80 VFS   82 (114)
Q Consensus        80 ~~~   82 (114)
                      .+.
T Consensus       384 Iln  386 (536)
T KOG0500|consen  384 ILN  386 (536)
T ss_pred             EEE
Confidence            665

>KOG3542|consensus

Probab=98.41  E-value=2.7e-07  Score=80.87  Aligned_cols=75  Identities=28%  Similarity=0.371  Sum_probs=67.4

Q ss_pred             hhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEe-cCCCEEEecCCCCCeEEEEEeeeEEEe---Cc--ccCCCCcc
Q psy8804           2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERH-QANDVLYYTGELSTSWYILLSGSVFID---GS--MFLPQSRN   75 (114)
Q Consensus         2 ~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~-~~G~~If~qGd~~~~~yiIlsG~VkI~---g~--~~~p~~~f   75 (114)
                      .||++.+.++++++|.|++|+-...++||..+.+.-+ .+|.+|...|++-++||+|+.|.|.|.   |+  ...=|.+|
T Consensus       273 ddDieqLLeFMhqlpAFAnmtMSvrReLC~vMvFaVVe~AGtivL~dgeeLDSWsVIlNG~VEv~~PdGk~e~l~mGnSF  352 (1283)
T KOG3542|consen  273 DDDIEQLLEFMHQLPAFANMTMSVRRELCLVMVFAVVEDAGTIVLADGEELDSWSVILNGCVEVVKPDGKREELKMGNSF  352 (1283)
T ss_pred             hHHHHHHHHHHHhchHhhcccHHHHHHHHHHHHHHHHhhcCeEEecCCcccceeEEEecceEEEecCCCceEEeeccccc
Confidence            4899999999999999999999999999999999877 799999999999999999999999983   54  33367788


Q ss_pred             e
Q psy8804          76 F   76 (114)
Q Consensus        76 g   76 (114)
                      |
T Consensus       353 G  353 (1283)
T KOG3542|consen  353 G  353 (1283)
T ss_pred             C
Confidence            7

>TIGR03697 NtcA_cyano global nitrogen regulator NtcA, cyanobacterial

Probab=98.31  E-value=1.1e-06  Score=63.33  Aligned_cols=56  Identities=16%  Similarity=0.320  Sum_probs=45.4

Q ss_pred             CCEEEecCCCCCeEEEEEeeeEEE-----eCc-----ccCCCCcceeecccCc------eeeeeecCccccc
Q psy8804          41 NDVLYYTGELSTSWYILLSGSVFI-----DGS-----MFLPQSRNFVFNVFSP------VFGLILNPSVSMA   96 (114)
Q Consensus        41 G~~If~qGd~~~~~yiIlsG~VkI-----~g~-----~~~p~~~fg~~~~~~~------~~~~~~~~~~~~~   96 (114)
                      |++||++||+.+++|+|++|.|++     +|+     ...||+.||+.+.+..      .++.++++++++.
T Consensus         1 g~~l~~~g~~~~~~~~i~~G~v~~~~~~~~G~e~~l~~~~~g~~~G~~~~~~~~~~~~~~~~~A~~~~~v~~   72 (193)
T TIGR03697         1 GKTIFFPGDPAEKVYFLRRGAVKLSRVYESGEEITVALLRENSVFGVLSLITGHRSDRFYHAVAFTRVELLA   72 (193)
T ss_pred             CCceecCCCCCCcEEEEEecEEEEEEeCCCCcEeeeEEccCCCEeeeeeeccCCCCccceEEEEecceEEEE
Confidence            789999999999999999999996     243     4569999999887752      4577888877653

Members of this protein family, found in the cyanobacteria, are the global nitrogen regulator NtcA. This DNA-binding transcriptional regulator is required for expressing many different ammonia-repressible genes. The consensus NtcA-binding site is G T A N(8)T A C.

>KOG1113|consensus

Probab=98.21  E-value=1e-06  Score=71.79  Aligned_cols=73  Identities=10%  Similarity=0.075  Sum_probs=66.5

Q ss_pred             HHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEeCc------ccCCCCcceeecccC
Q psy8804          10 YGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGS------MFLPQSRNFVFNVFS   82 (114)
Q Consensus        10 ~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~g~------~~~p~~~fg~~~~~~   82 (114)
                      ++|+.+|+++.|...+...++.......|++|+.|..||++|+.||+|.+|.|.+..+      ...+++.||+.+++.
T Consensus       240 ~~l~s~pil~~l~k~er~kv~dal~~k~y~~G~~Vi~qg~~ge~f~~i~eGEvdv~~~~~~v~vkl~~~dyfge~al~~  318 (368)
T KOG1113|consen  240 PFLESVPILESLEKLERAKVADALGTKSYKDGERVIVQGDQGEHFYIIEEGEVDVLKKRDGVEVKLKKGDYFGELALLK  318 (368)
T ss_pred             hhhhcchhhHHHHHHHHHhhhcccceeeccCCceEEeccCCcceEEEecccccchhhccCCeEEEechhhhcchHHHHh
Confidence            4899999999999999999999999999999999999999999999999999997532      456899999888776

>KOG0499|consensus

Probab=97.94  E-value=1.2e-05  Score=69.72  Aligned_cols=74  Identities=18%  Similarity=0.219  Sum_probs=65.0

Q ss_pred             HHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEeC----cc----cCCCCcceeecc
Q psy8804           9 YYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDG----SM----FLPQSRNFVFNV   80 (114)
Q Consensus         9 ~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~g----~~----~~p~~~fg~~~~   80 (114)
                      +..|.++.+|++.+.+.++.+.-..+-..|-+|+.|++.||.|..+|||..|.|+|-|    +.    ...|..|||.+.
T Consensus       526 y~~lSKVqLFq~Cdr~mirDmllrLRsV~yLPgDfVCkKGeiGkEMYIIk~GqvQVlGGp~~~~Vl~tL~~GsVFGEISL  605 (815)
T KOG0499|consen  526 YSILSKVQLFQGCDRQMIRDMLLRLRSVLYLPGDFVCKKGEIGKEMYIIKHGQVQVLGGPDGTKVLVTLKAGSVFGEISL  605 (815)
T ss_pred             hhhhhHHHHhhhhHHHHHHHHHHHhhceeecCCceeeecccccceeEEeecceEEEecCCCCCEEEEEecccceeeeeee
Confidence            4678889999999999999998888889999999999999999999999999999854    33    338999998776


Q ss_pred             cC
Q psy8804          81 FS   82 (114)
Q Consensus        81 ~~   82 (114)
                      +.
T Consensus       606 La  607 (815)
T KOG0499|consen  606 LA  607 (815)
T ss_pred             ee
Confidence            65

>KOG2968|consensus

Probab=96.05  E-value=0.0042  Score=56.35  Aligned_cols=57  Identities=23%  Similarity=0.325  Sum_probs=42.1

Q ss_pred             HHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEE--e---Ccc-----cCCCCcceeecccC
Q psy8804          26 LRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFI--D---GSM-----FLPQSRNFVFNVFS   82 (114)
Q Consensus        26 l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI--~---g~~-----~~p~~~fg~~~~~~   82 (114)
                      ++.+--.....++.+|+++|+|||.+++.|+|++|+++-  .   |+.     +..|+.+|++.++.
T Consensus       501 lr~~D~AldWv~l~~g~alyrqgD~Sd~iyvVl~GRlRsv~~~~~~k~~i~~EygrGd~iG~~E~lt  567 (1158)
T KOG2968|consen  501 LRKLDFALDWVRLEPGQALYRQGDSSDSIYVVLNGRLRSVIRQSGGKKEIVGEYGRGDLIGEVEMLT  567 (1158)
T ss_pred             HhhhhhhcceEEeccccHHHhcCCccCcEEEEecCeehhhhhccCccchhhhhccCcceeehhHHhh
Confidence            344445557788999999999999999999999999992  1   222     24666777655554

>KOG0501|consensus

Probab=95.99  E-value=0.01  Score=52.10  Aligned_cols=68  Identities=21%  Similarity=0.198  Sum_probs=58.8

Q ss_pred             HHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEE-eC----cccCCCCccee
Q psy8804          10 YGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFI-DG----SMFLPQSRNFV   77 (114)
Q Consensus        10 ~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI-~g----~~~~p~~~fg~   77 (114)
                      ...+.+|.|+--++.=|+.||-.-...+-.+|+.|++.||.-+++++|++|+..| +.    .+...|+.||+
T Consensus       548 KVFnEHpaFRLASDGCLRaLAm~f~~~H~APGDLlYHtGESvDaLcFvVsGSLEVIQDDEVVAILGKGDVFGD  620 (971)
T KOG0501|consen  548 KVFNEHPAFRLASDGCLRALAMEFQTNHCAPGDLLYHTGESVDALCFVVSGSLEVIQDDEVVAILGKGDVFGD  620 (971)
T ss_pred             hhhccCcceeeccchhHHHHHHHHHhccCCCcceeeecCCccceEEEEEecceEEeecCcEEEEeecCccchh
Confidence            3567899999999999999999888888899999999999999999999999995 22    24458888883

>PF04831 Popeye: Popeye protein conserved region; InterPro: IPR006916 The Popeye (POP) family of proteins, is restricted to vertebrates and is preferentially expressed in developing and adult striated muscle

Probab=92.78  E-value=0.69  Score=33.98  Aligned_cols=60  Identities=12%  Similarity=0.160  Sum_probs=47.5

Q ss_pred             CCC--CCCHHHHHHHHhh-cceeEecCCCEEEecCCC-CCeEEEEEeeeEEEe--C---cccCCCCcce
Q psy8804          17 ALA--PYRDSVLRSLCRV-VRYERHQANDVLYYTGEL-STSWYILLSGSVFID--G---SMFLPQSRNF   76 (114)
Q Consensus        17 lF~--~L~~~~l~~La~~-~~~~~~~~G~~If~qGd~-~~~~yiIlsG~VkI~--g---~~~~p~~~fg   76 (114)
                      +|+  +.+..+.++|+.+ +.+..+++|+.-.-||.. .+.+-+++||+++|.  |   +...|-+.-+
T Consensus         9 lF~Pl~Vs~~~Fk~iv~~~~~i~~L~~~~~YAvE~~T~~drLSlLLsGr~~Vs~~g~fLH~I~p~qFlD   77 (153)
T PF04831_consen    9 LFQPLKVSRQQFKKIVGCCCEIRTLKKGETYAVEGKTPIDRLSLLLSGRMRVSCDGRFLHYIYPYQFLD   77 (153)
T ss_pred             hccCcCCCHHHHHHHHhhhceEEEecCCceeeecCCcccceEeEEEcCcEEEEECCEeeEeeccccccc
Confidence            455  6689999999888 788999999999999985 599999999999985  4   2344555544

It is represented by a conserved region which includes three potential transmembrane domains []. The strong conservation of POP genes during evolution and their preferential expression in heart and skeletal muscle suggest that these novel proteins may have an important function in these tissues in vertebrates.; GO: 0016020 membrane

>KOG2968|consensus

Probab=92.76  E-value=0.076  Score=48.56  Aligned_cols=68  Identities=25%  Similarity=0.371  Sum_probs=52.1

Q ss_pred             HHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----C-----cccCCCCcce
Q psy8804           7 IIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----G-----SMFLPQSRNF   76 (114)
Q Consensus         7 ~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g-----~~~~p~~~fg   76 (114)
                      .|...|+.+.+|   .....-+|++.....++.+|++||+.|++.+..|++.+|.++|+     |     +.+.||+.|-
T Consensus        92 eil~~L~~i~~~---EkP~fl~L~rh~~t~~l~~Gd~i~~~~~~dd~i~vv~sg~l~v~~~~~~g~~~llk~V~~G~~~t  168 (1158)
T KOG2968|consen   92 EILYMLSAIRIL---EKPVFLELDRHIETLSLDAGDYIFKPGESDDSIYVVISGELTVHIRNGDGKEYLLKTVPPGGSFT  168 (1158)
T ss_pred             HHHHHHHHhHhh---ccceeeeechhhhhhcccCCceeccCCCCCceEEEEeccceEEEecCCCCceeeEeeccCCCchH
Confidence            345667766676   22233446788899999999999999999999999999999974     2     3555887775


Q ss_pred             e
Q psy8804          77 V   77 (114)
Q Consensus        77 ~   77 (114)
                      +
T Consensus       169 S  169 (1158)
T KOG2968|consen  169 S  169 (1158)
T ss_pred             h
Confidence            3

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	114
1o7f_A	469	Crystal Structure Of The Regulatory Domain Of Epac2		2e-07
4f7z_A	999	Conformational Dynamics Of Exchange Protein Directl		2e-07
3cf6_E	694	Structure Of Epac2 In Complex With Cyclic-Amp And R		2e-07
2byv_E	999	Structure Of The Camp Responsive Exchange Factor Ep		2e-07

>pdb|1O7F|A Chain A, Crystal Structure Of The Regulatory Domain Of Epac2 Length = 469

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 28/61 (45%), Positives = 38/61 (62%), Gaps = 1/61 (1%)
Query: 3   DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERH-QANDVLYYTGELSTSWYILLSGS 61
           DDL+IIY  L  ++AL+    +V R L  V+ +E H +   VL+  GE  TSWYI+L GS
Sbjct: 330 DDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGS 389
Query: 62  V 62
           V
Sbjct: 390 V 390

>pdb|4F7Z|A Chain A, Conformational Dynamics Of Exchange Protein Directly Activated By Camp Length = 999

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 28/61 (45%), Positives = 38/61 (62%), Gaps = 1/61 (1%)
Query: 3   DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERH-QANDVLYYTGELSTSWYILLSGS 61
           DDL+IIY  L  ++AL+    +V R L  V+ +E H +   VL+  GE  TSWYI+L GS
Sbjct: 330 DDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGS 389
Query: 62  V 62
           V
Sbjct: 390 V 390

>pdb|3CF6|E Chain E, Structure Of Epac2 In Complex With Cyclic-Amp And Rap Length = 694

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 28/61 (45%), Positives = 38/61 (62%), Gaps = 1/61 (1%)
Query: 3  DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERH-QANDVLYYTGELSTSWYILLSGS 61
          DDL+IIY  L  ++AL+    +V R L  V+ +E H +   VL+  GE  TSWYI+L GS
Sbjct: 25 DDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGS 84
Query: 62 V 62
          V
Sbjct: 85 V 85

>pdb|2BYV|E Chain E, Structure Of The Camp Responsive Exchange Factor Epac2 In Its Auto-Inhibited State Length = 999

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 28/61 (45%), Positives = 38/61 (62%), Gaps = 1/61 (1%)
Query: 3   DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERH-QANDVLYYTGELSTSWYILLSGS 61
           DDL+IIY  L  ++AL+    +V R L  V+ +E H +   VL+  GE  TSWYI+L GS
Sbjct: 330 DDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGS 389
Query: 62  V 62
           V
Sbjct: 390 V 390

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	114
2byv_E	999	RAP guanine nucleotide exchange factor 4; EPAC2, C	7e-23
2byv_E	999	RAP guanine nucleotide exchange factor 4; EPAC2, C	5e-10
1o7f_A	469	CAMP-dependent RAP1 guanine-nucleotide exchange fa	5e-12
1o7f_A	469	CAMP-dependent RAP1 guanine-nucleotide exchange fa	3e-05
2d93_A	134	RAP guanine nucleotide exchange factor 6; CNMP_bin	1e-10
3cf6_E	694	RAP guanine nucleotide exchange factor (GEF) 4; EP	1e-09
3d0s_A	227	Transcriptional regulatory protein; CAMP receptor	6e-05
3kcc_A	260	Catabolite gene activator; helix-turn-helix, CAMP,	1e-04
3ryp_A	210	Catabolite gene activator; CAMP receptor protein (	2e-04
2oz6_A	207	Virulence factor regulator; winged helix, helix-tu	2e-04
4ev0_A	216	Transcription regulator, CRP family; CAMP binding,	2e-04
2z69_A	154	DNR protein; beta barrel, dimerization helix, tran	2e-04
3e97_A	231	Transcriptional regulator, CRP/FNR family; YP_6044	5e-04
3iwz_A	230	CAP-like, catabolite activation-like protein; XCC,	6e-04
2bgc_A	238	PRFA; bacterial infection, human pathogen, transcr	8e-04

>2byv_E RAP guanine nucleotide exchange factor 4; EPAC2, CAMP-GEF2, CAMP, cyclic nucleotide, regulation, auto-inhibition, CDC25 homology domain; 2.7A {Mus musculus} Length = 999

 Score = 91.1 bits (225), Expect = 7e-23
 Identities = 20/74 (27%), Positives = 39/74 (52%)

Query: 2   ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGS 61
           ++D+ II+  L G++A   +  ++LR +C    YE  +    L+  G++ T+WY +L+GS
Sbjct: 34  SEDVDIIFTRLKGVKAFEKFHPNLLRQICLCGYYENLEKGITLFRQGDIGTNWYAVLAGS 93

Query: 62  VFIDGSMFLPQSRN 75
           + +  S        
Sbjct: 94  LDVKVSETSSHQDA 107

>2byv_E RAP guanine nucleotide exchange factor 4; EPAC2, CAMP-GEF2, CAMP, cyclic nucleotide, regulation, auto-inhibition, CDC25 homology domain; 2.7A {Mus musculus} Length = 999

 Score = 54.1 bits (129), Expect = 5e-10
 Identities = 28/62 (45%), Positives = 37/62 (59%), Gaps = 1/62 (1%)

Query: 2   ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQ-ANDVLYYTGELSTSWYILLSG 60
            DDL+IIY  L  ++AL+    +V R L  V+ +E H     VL+  GE  TSWYI+L G
Sbjct: 329 VDDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKG 388

Query: 61  SV 62
           SV
Sbjct: 389 SV 390

>1o7f_A CAMP-dependent RAP1 guanine-nucleotide exchange factor; EPAC2, CAMP-GEF2, campb binding doamin, regulation; 2.5A {Mus musculus} SCOP: a.4.5.31 b.82.3.2 b.82.3.2 Length = 469

 Score = 59.9 bits (144), Expect = 5e-12
 Identities = 20/81 (24%), Positives = 38/81 (46%)

Query: 3   DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
           +D+ II+  L G++A   +  ++LR +C    YE  +    L+  G++ T+WY +L+GS+
Sbjct: 35  EDVDIIFTRLKGVKAFEKFHPNLLRQICLCGYYENLEKGITLFRQGDIGTNWYAVLAGSL 94

Query: 63  FIDGSMFLPQSRNFVFNVFSP 83
            +  S                
Sbjct: 95  DVKVSETSSHQDAVTICTLGI 115

>1o7f_A CAMP-dependent RAP1 guanine-nucleotide exchange factor; EPAC2, CAMP-GEF2, campb binding doamin, regulation; 2.5A {Mus musculus} SCOP: a.4.5.31 b.82.3.2 b.82.3.2 Length = 469

 Score = 40.7 bits (94), Expect = 3e-05
 Identities = 28/63 (44%), Positives = 39/63 (61%), Gaps = 1/63 (1%)

Query: 3   DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERH-QANDVLYYTGELSTSWYILLSGS 61
           DDL+IIY  L  ++AL+    +V R L  V+ +E H +   VL+  GE  TSWYI+L GS
Sbjct: 330 DDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGS 389

Query: 62  VFI 64
           V +
Sbjct: 390 VNV 392

>2d93_A RAP guanine nucleotide exchange factor 6; CNMP_binding domain, PDZ domain containing guanine nucleotide exchange factor 2, PDZ-GEF2, RA-GEF-2; NMR {Homo sapiens} Length = 134

 Score = 53.5 bits (129), Expect = 1e-10
 Identities = 23/63 (36%), Positives = 36/63 (57%), Gaps = 1/63 (1%)

Query: 3  DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERH-QANDVLYYTGELSTSWYILLSGS 61
          DD++ +   +H L A A    SV R LC V+ +E   QA  ++   G+   SWY++L+G+
Sbjct: 9  DDIEQLLEFMHQLPAFANMTMSVRRELCSVMIFEVVEQAGAIILEDGQELDSWYVILNGT 68

Query: 62 VFI 64
          V I
Sbjct: 69 VEI 71

>3cf6_E RAP guanine nucleotide exchange factor (GEF) 4; EPAC, rapgef4, CAMP, SP-camps, GEF, gunanine nucleotide exchange factor, G-protein, GTP-binding, nucleotide-binding; HET: SP1; 2.20A {Mus musculus} Length = 694

 Score = 52.9 bits (126), Expect = 1e-09
 Identities = 28/66 (42%), Positives = 38/66 (57%), Gaps = 1/66 (1%)

Query: 3  DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQ-ANDVLYYTGELSTSWYILLSGS 61
          DDL+IIY  L  ++AL+    +V R L  V+ +E H     VL+  GE  TSWYI+L GS
Sbjct: 25 DDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGS 84

Query: 62 VFIDGS 67
          V +   
Sbjct: 85 VNVVIY 90

>3d0s_A Transcriptional regulatory protein; CAMP receptor protein (CRP), dimer, inactive(APO, unliganded allostery, DNA binding, cyclic AMP; 2.00A {Mycobacterium tuberculosis} PDB: 3i54_A* 3i59_A* 3mzh_A* 3h3u_A* 3r6s_A* Length = 227

 Score = 39.5 bits (93), Expect = 6e-05
 Identities = 15/68 (22%), Positives = 28/68 (41%), Gaps = 4/68 (5%)

Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
           S + +L + ++         ++  GE     YI++SG V I      P  R  +  +  
Sbjct: 19 PSAIAALTKQLQPVDFPRGHTVFAEGEPGDRLYIIISGKVKI--GRRAPDGRENLLTIMG 76

Query: 83 P--VFGLI 88
          P  +FG +
Sbjct: 77 PSDMFGEL 84

>3kcc_A Catabolite gene activator; helix-turn-helix, CAMP, CAMP-binding, DNA-binding nucleotide-binding, transcription, transcription regulation; HET: CMP; 1.66A {Escherichia coli} Length = 260

 Score = 38.5 bits (90), Expect = 1e-04
 Identities = 10/68 (14%), Positives = 26/68 (38%), Gaps = 4/68 (5%)

Query: 23  DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
           D  L          ++ +   L + GE + + Y ++ GSV +   +   + +  + +  +
Sbjct: 59  DPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAV--LIKDEEGKEMILSYLN 116

Query: 83  P--VFGLI 88
                G +
Sbjct: 117 QGDFIGEL 124

>3ryp_A Catabolite gene activator; CAMP receptor protein (CRP), allostery, DNA binding cyclic A transcription regulator; HET: CMP; 1.60A {Escherichia coli} PDB: 2cgp_A* 3hif_A 1g6n_A* 3ryr_A* 1i5z_A* 1j59_A* 1lb2_A* 1run_A* 1zrc_A* 1zrd_A* 1zre_A* 1zrf_A* 2gzw_A* 2wc2_A 3iyd_G* 3n4m_A* 3qop_A* 3rdi_A* 3rou_A* 3rpq_A* ... Length = 210

 Score = 38.0 bits (89), Expect = 2e-04
 Identities = 10/68 (14%), Positives = 26/68 (38%), Gaps = 4/68 (5%)

Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
          D  L          ++ +   L + GE + + Y ++ GSV +   +   + +  + +  +
Sbjct: 9  DPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAV--LIKDEEGKEMILSYLN 66

Query: 83 P--VFGLI 88
               G +
Sbjct: 67 QGDFIGEL 74

>2oz6_A Virulence factor regulator; winged helix, helix-turn-helix, transcription factor, CAMP-B proteins, CAMP receptor protein; HET: CMP; 2.80A {Pseudomonas aeruginosa} SCOP: a.4.5.4 b.82.3.2 Length = 207

 Score = 38.0 bits (89), Expect = 2e-04
 Identities = 13/65 (20%), Positives = 24/65 (36%), Gaps = 4/65 (6%)

Query: 26 LRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFSP-- 83
          L  L       R+ A   + Y G+   + + ++ GSV I   +     R  +    +   
Sbjct: 6  LDKLLAHCHRRRYTAKSTIIYAGDRCETLFFIIKGSVTI--LIEDDDGREMIIGYLNSGD 63

Query: 84 VFGLI 88
           FG +
Sbjct: 64 FFGEL 68

>4ev0_A Transcription regulator, CRP family; CAMP binding, winged helix-turn-helix motif, DNA binding, transcription activator; HET: CMP; 2.40A {Thermus thermophilus} Length = 216

 Score = 38.0 bits (89), Expect = 2e-04
 Identities = 10/68 (14%), Positives = 24/68 (35%), Gaps = 4/68 (5%)

Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
             +       +   +     ++Y G+L  + Y++ SG V +         +     +  
Sbjct: 12 PEEVDLALSYFQRRLYPQGKPIFYQGDLGQALYLVASGKVRL--FRTHLGGQERTLALLG 69

Query: 83 P--VFGLI 88
          P  +FG +
Sbjct: 70 PGELFGEM 77

>2z69_A DNR protein; beta barrel, dimerization helix, transcription regulator; 2.10A {Pseudomonas aeruginosa} Length = 154

 Score = 37.3 bits (87), Expect = 2e-04
 Identities = 13/66 (19%), Positives = 24/66 (36%), Gaps = 4/66 (6%)

Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
             L+ L              ++  GE + ++Y L+SG V I      P+ +  +  V +
Sbjct: 25 PVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGCVKI--YRLTPEGQEKILEVTN 82

Query: 83 P--VFG 86
              F 
Sbjct: 83 ERNTFA 88

>3e97_A Transcriptional regulator, CRP/FNR family; YP_604437.1, structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.86A {Deinococcus geothermalis dsm 11300} Length = 231

 Score = 36.9 bits (86), Expect = 5e-04
 Identities = 11/68 (16%), Positives = 24/68 (35%), Gaps = 4/68 (5%)

Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
          +  +R   +VV     Q ++++        + +++ +G V +  S      R  V     
Sbjct: 19 EDAMREALKVVTERNFQPDELVVEQDAEGEALHLVTTGVVRV--SRVSLGGRERVLGDIY 76

Query: 83 P--VFGLI 88
             V G  
Sbjct: 77 APGVVGET 84

>3iwz_A CAP-like, catabolite activation-like protein; XCC, pathogenicity, CRP, CLP, C-DI-GMP receptor, quorum SENS binding, transcription; 2.30A {Xanthomonas campestris PV} Length = 230

 Score = 36.5 bits (85), Expect = 6e-04
 Identities = 12/68 (17%), Positives = 22/68 (32%), Gaps = 4/68 (5%)

Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
             +          R+     ++  G+ + + Y ++SGSV I         R  V   F 
Sbjct: 24 AGTIERFLAHSHRRRYPTRTDVFRPGDPAGTLYYVISGSVSI--IAEEDDDRELVLGYFG 81

Query: 83 P--VFGLI 88
               G +
Sbjct: 82 SGEFVGEM 89

>2bgc_A PRFA; bacterial infection, human pathogen, transcriptional regulat transcription; HET: PR3; 2.3A {Listeria monocytogenes} SCOP: a.4.5.4 b.82.3.3 PDB: 2beo_A* 1omi_A Length = 238

 Score = 36.2 bits (84), Expect = 8e-04
 Identities = 5/75 (6%), Positives = 20/75 (26%), Gaps = 10/75 (13%)

Query: 16 EALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRN 75
          E    Y ++   +  +  ++ + +   +++   +       L  G   +  +        
Sbjct: 7  EEFKKYLET---NGIKPKQFHKKE---LIFNQWDPQEYCIFLYDGITKL--TSISENGTI 58

Query: 76 FVFNVFSP--VFGLI 88
               +    V    
Sbjct: 59 MNLQYYKGAFVIMSG 73

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	114
3ocp_A	139	PRKG1 protein; serine/threonine kinase, TF2I and I	99.66
4f7z_A	999	RAP guanine nucleotide exchange factor 4; cyclic n	99.66
2d93_A	134	RAP guanine nucleotide exchange factor 6; CNMP_bin	99.64
1vp6_A	138	CNBD, cyclic-nucleotide binding domain of mesorhiz	99.64
3idb_B	161	CAMP-dependent protein kinase type II-beta regulat	99.63
3pna_A	154	CAMP-dependent protein kinase type I-alpha regula	99.62
3of1_A	246	CAMP-dependent protein kinase regulatory subunit;	99.61
3shr_A	299	CGMP-dependent protein kinase 1; cyclic nucleotide	99.59
3gyd_A	187	CNMP-BD protein, cyclic nucleotide-binding domain;	99.59
2z69_A	154	DNR protein; beta barrel, dimerization helix, tran	99.58
3mdp_A	142	Cyclic nucleotide-binding domain (CNMP-BD) protei;	99.57
2pqq_A	149	Putative transcriptional regulator; APC7345, strep	99.56
4f8a_A	160	Potassium voltage-gated channel subfamily H membe;	99.56
2qcs_B	291	CAMP-dependent protein kinase type I-alpha regula	99.54
1o7f_A	469	CAMP-dependent RAP1 guanine-nucleotide exchange fa	99.52
4din_B	381	CAMP-dependent protein kinase type I-beta regulat	99.52
3dkw_A	227	DNR protein; CRP-FNR, HTH, beta barrel, dimerizati	99.51
1wgp_A	137	Probable cyclic nucleotide-gated ION channel 6; cy	99.51
2ptm_A	198	Hyperpolarization-activated (IH) channel; ION chan	99.51
3d0s_A	227	Transcriptional regulatory protein; CAMP receptor	99.51
3tnp_B	416	CAMP-dependent protein kinase type II-beta regula	99.49
3e97_A	231	Transcriptional regulator, CRP/FNR family; YP_6044	99.49
4ev0_A	216	Transcription regulator, CRP family; CAMP binding,	99.49
3fx3_A	237	Cyclic nucleotide-binding protein; helix_TURN_heli	99.49
3dv8_A	220	Transcriptional regulator, CRP/FNR family; cyclic	99.48
3iwz_A	230	CAP-like, catabolite activation-like protein; XCC,	99.48
1zyb_A	232	Transcription regulator, CRP family; NP_813211.1,	99.48
1o7f_A	469	CAMP-dependent RAP1 guanine-nucleotide exchange fa	99.47
3bpz_A	202	Potassium/sodium hyperpolarization-activated cycli	99.47
4ava_A	333	Lysine acetyltransferase; allosteric regulation, d	99.46
3dn7_A	194	Cyclic nucleotide binding regulatory protein; stru	99.46
3ukn_A	212	Novel protein similar to vertebrate potassium VOL	99.43
4f7z_A	999	RAP guanine nucleotide exchange factor 4; cyclic n	99.41
2gau_A	232	Transcriptional regulator, CRP/FNR family; structu	99.37
3shr_A	299	CGMP-dependent protein kinase 1; cyclic nucleotide	99.36
3of1_A	246	CAMP-dependent protein kinase regulatory subunit;	99.36
3cf6_E	694	RAP guanine nucleotide exchange factor (GEF) 4; EP	99.36
2fmy_A	220	COOA, carbon monoxide oxidation system transcripti	99.36
2qcs_B	291	CAMP-dependent protein kinase type I-alpha regula	99.35
1ft9_A	222	Carbon monoxide oxidation system transcription reg	99.32
3ryp_A	210	Catabolite gene activator; CAMP receptor protein (	99.28
3tnp_B	416	CAMP-dependent protein kinase type II-beta regula	99.23
4din_B	381	CAMP-dependent protein kinase type I-beta regulat	99.22
3kcc_A	260	Catabolite gene activator; helix-turn-helix, CAMP,	99.2
2oz6_A	207	Virulence factor regulator; winged helix, helix-tu	99.17
3beh_A	355	MLL3241 protein; transmembrane protein, membrane p	99.1
1o5l_A	213	Transcriptional regulator, CRP family; TM1171, str	99.1
3e6c_C	250	CPRK, cyclic nucleotide-binding protein; CPRK, hal	99.07
2bgc_A	238	PRFA; bacterial infection, human pathogen, transcr	99.02
3la7_A	243	Global nitrogen regulator; activator, DNA-binding,	98.93
3b02_A	195	Transcriptional regulator, CRP family; structural	98.81
2zcw_A	202	TTHA1359, transcriptional regulator, FNR/CRP famil	98.71

>3ocp_A PRKG1 protein; serine/threonine kinase, TF2I and IRAG, transferase; HET: CMP; 2.49A {Homo sapiens} PDB: 3od0_A* 3ogj_A*

Probab=99.66  E-value=3.4e-16  Score=105.95  Aligned_cols=94  Identities=10%  Similarity=0.069  Sum_probs=81.8

Q ss_pred             hhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe--Cc---ccCCCCcce
Q psy8804           2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID--GS---MFLPQSRNF   76 (114)
Q Consensus         2 ~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~--g~---~~~p~~~fg   76 (114)
                      +++.+.+.++|+++++|++|++++++.|+..+..+.|++|++|+++||+++++|+|++|.|++.  |+   ...||+.||
T Consensus        15 ~~~~~~~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~g~~~~~~y~i~~G~v~~~~~g~~~~~~~~G~~fG   94 (139)
T 3ocp_A           15 PQSKDLIKEAILDNDFMKNLELSQIQEIVDCMYPVEYGKDSCIIKEGDVGSLVYVMEDGKVEVTKEGVKLCTMGPGKVFG   94 (139)
T ss_dssp             HHHHHHHHHHHHHCTTTTTSCHHHHHHHHHHCEEEEECSSCEEECTTSCCCEEEEEEECCEEEEETTEEEEEECTTCEES
T ss_pred             HHHHHHHHHHHhcCHhhhcCCHHHHHHHHHhcEEEecCCCCEEEeCCCcCCEEEEEEeCEEEEEECCEEEEEeCCCCEec
Confidence            4567778899999999999999999999999999999999999999999999999999999985  42   455999999


Q ss_pred             eecccC----ceeeeeecCcccc
Q psy8804          77 VFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        77 ~~~~~~----~~~~~~~~~~~~~   95 (114)
                      +.+.+.    ++.+.++++++++
T Consensus        95 e~~~l~~~~~~~~~~a~~~~~v~  117 (139)
T 3ocp_A           95 ELAILYNCTRTATVKTLVNVKLW  117 (139)
T ss_dssp             CHHHHHCCCCSSEEEESSCEEEE
T ss_pred             cHHHHCCCCcceEEEECcceEEE
Confidence            887765    4566777777654

>4f7z_A RAP guanine nucleotide exchange factor 4; cyclic nucleotide, regulation, auto-IN CDC25 homology domain, exocytosis; 2.60A {Mus musculus} PDB: 2byv_E

Probab=99.66  E-value=2.7e-16  Score=137.19  Aligned_cols=94  Identities=21%  Similarity=0.396  Sum_probs=84.1

Q ss_pred             ChhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEeC------------cc
Q psy8804           1 MADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDG------------SM   68 (114)
Q Consensus         1 ~~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~g------------~~   68 (114)
                      +++|++.|+..|+++++|+.|++.++++||..+.+++|++|++||+|||++++||||++|+|.|..            +.
T Consensus        33 t~edl~~I~~~Lk~~~~f~~l~~~~l~~l~~~m~ye~~~~Ge~IfrqGd~gd~fYIIlsGsV~V~i~~~~~~~~~~~v~~  112 (999)
T 4f7z_A           33 SSEDVDIIFTRLKGVKAFEKFHPNLLRQICLCGYYENLEKGITLFRQGDIGTNWYAVLAGSLDVKVSETSSHQDAVTICT  112 (999)
T ss_dssp             CHHHHHHHHHHHTTCTTTTTCCHHHHHHHHHHCEEEEECTTCEEECTTSCCCEEEEEEESEEEEEECSSSCTTSCEEEEE
T ss_pred             CHHHHHHHHHHHhCCHhhhcCCHHHHHHHHhheEEEEECCCCEEEcCCCcCCEEEEEEeeEEEEEEecCCCCCCceeEEE
Confidence            368999999999999999999999999999999999999999999999999999999999999831            35


Q ss_pred             cCCCCcceeecccC----ceeeeeecCcccc
Q psy8804          69 FLPQSRNFVFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        69 ~~p~~~fg~~~~~~----~~~~~~~~~~~~~   95 (114)
                      +.||.+||+ +.+.    .+.|.++++++|.
T Consensus       113 l~~G~sFGE-all~n~pRtaTv~a~~~s~l~  142 (999)
T 4f7z_A          113 LGIGTAFGE-SILDNTPRHATIVTRESSELL  142 (999)
T ss_dssp             EETTCEECG-GGGGTCCCSSEEEESSSEEEE
T ss_pred             ecCCcchhh-hhccCCCcceEEEeccceEEE
Confidence            669999999 4444    6788888888764

>2d93_A RAP guanine nucleotide exchange factor 6; CNMP_binding domain, PDZ domain containing guanine nucleotide exchange factor 2, PDZ-GEF2, RA-GEF-2; NMR {Homo sapiens}

Probab=99.64  E-value=4e-16  Score=105.25  Aligned_cols=94  Identities=24%  Similarity=0.356  Sum_probs=82.0

Q ss_pred             hhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEec-CCCEEEecCCCCCeEEEEEeeeEEEe---C--cccCCCCcc
Q psy8804           2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQ-ANDVLYYTGELSTSWYILLSGSVFID---G--SMFLPQSRN   75 (114)
Q Consensus         2 ~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~-~G~~If~qGd~~~~~yiIlsG~VkI~---g--~~~~p~~~f   75 (114)
                      .++++.+..+|+++++|+.|++++++.|+..+..++|+ +|++||++||+++++|+|++|.|++.   |  ....||+.|
T Consensus         8 ~~~~~~~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~~g~~i~~~g~~~~~~y~i~~G~v~~~~~~g~~~~l~~G~~f   87 (134)
T 2d93_A            8 DDDIEQLLEFMHQLPAFANMTMSVRRELCSVMIFEVVEQAGAIILEDGQELDSWYVILNGTVEISHPDGKVENLFMGNSF   87 (134)
T ss_dssp             TTHHHHHHHHHHHSSTTTSSCHHHHHHHTTTEEEEEECSSSCEEECTTCEECEEEECCBSCEEEECSSSCEEEECTTCEE
T ss_pred             HHHHHHHHHHHhCCcchhhCCHHHHHHHHHhheEEEecCCCCEEEeCCCCCCeEEEEEeCEEEEEcCCCcEEEecCCCcc
Confidence            47788889999999999999999999999999999999 99999999999999999999999984   3  245699999


Q ss_pred             eeecccC----ceee-eeecCcccc
Q psy8804          76 FVFNVFS----PVFG-LILNPSVSM   95 (114)
Q Consensus        76 g~~~~~~----~~~~-~~~~~~~~~   95 (114)
                      |+.+.+.    +..+ .++++++++
T Consensus        88 G~~~~~~~~~~~~~~~~a~~~~~~~  112 (134)
T 2d93_A           88 GITPTLDKQYMHGIVRTKVDDCQFV  112 (134)
T ss_dssp             SCCSSSCCEECCSEEEESSSSEEEE
T ss_pred             ChhHhcCCCcceeEEEEEecceEEE
Confidence            9988877    2345 677777755

>1vp6_A CNBD, cyclic-nucleotide binding domain of mesorhizobium LOTI CNG potassium channel; dimer helical bundle beta barrel core with cyclic AMP bound; HET: CMP; 1.70A {Mesorhizobium loti} SCOP: b.82.3.2 PDB: 3cl1_A* 2k0g_A* 2kxl_A 3clp_A* 1u12_A 3co2_A

Probab=99.64  E-value=5.1e-16  Score=104.33  Aligned_cols=94  Identities=15%  Similarity=0.124  Sum_probs=82.1

Q ss_pred             hhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEeC---cccCCCCcceee
Q psy8804           2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDG---SMFLPQSRNFVF   78 (114)
Q Consensus         2 ~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~g---~~~~p~~~fg~~   78 (114)
                      .++...+.+.|+++++|++|++++++.++..+..+.|++|++|+++||+++++|+|++|.|++..   ....||+.||+.
T Consensus         3 ~~~~~~~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~g~~~~~~y~i~~G~v~~~~~~~~~~~~G~~~G~~   82 (138)
T 1vp6_A            3 RGDFVRNWQLVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEGSVSVATPNPVELGPGAFFGEM   82 (138)
T ss_dssp             HHHHHHHHHHHTTCGGGGGCCHHHHHHHHHHCEEEEECTTCEEECTTSCCCEEEEEEESCEEECSSSCEEECTTCEECHH
T ss_pred             hhhHHHHHHHHHhChhhhcCCHHHHHHHHHhhcEEEeCCCCEEEeCCCCcceEEEEEeeEEEEEeCCcceECCCCEeeeh
Confidence            46778888999999999999999999999999999999999999999999999999999999862   356699999987


Q ss_pred             cccC----ceeeeeecCcccc
Q psy8804          79 NVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        79 ~~~~----~~~~~~~~~~~~~   95 (114)
                      +.+.    +..+.++++++++
T Consensus        83 ~~~~~~~~~~~~~a~~~~~~~  103 (138)
T 1vp6_A           83 ALISGEPRSATVSAATTVSLL  103 (138)
T ss_dssp             HHHHCCCCSSCEEESSSEEEE
T ss_pred             HhccCCCceeEEEECCCEEEE
Confidence            7665    4566777777654

>3idb_B CAMP-dependent protein kinase type II-beta regulatory subunit, CAMP-dependent protein kinase catalytic subunit alpha; PKA, SPR, affinity; HET: TPO SEP ANP; 1.62A {Rattus norvegicus} PDB: 3idc_B*

Probab=99.63  E-value=6.1e-16  Score=107.25  Aligned_cols=94  Identities=7%  Similarity=0.046  Sum_probs=81.9

Q ss_pred             hhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe----Cc-----ccCCC
Q psy8804           2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID----GS-----MFLPQ   72 (114)
Q Consensus         2 ~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~----g~-----~~~p~   72 (114)
                      +++.+.+.++|+++++|++|++++++.|+..+..+.|++|++||++||+++++|+|++|.|++.    |+     ...||
T Consensus        30 ~~~~~~~~~~l~~~~~f~~l~~~~l~~l~~~~~~~~~~~g~~i~~~G~~~~~~y~i~~G~v~~~~~~~g~~~~~~~~~~G  109 (161)
T 3idb_B           30 DDQRNRLQEACKDILLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYVKCDGVGRCVGNYDNR  109 (161)
T ss_dssp             HHHHHHHHHHHTTCHHHHTSCHHHHHHHHHHCEEEEECTTCEEECTTSCCCEEEEEEESEEEEEEEETTEEEEEEEEESC
T ss_pred             HHHHHHHHHHHhCCHhhhcCCHHHHHHHHHhcceeEeCCCCEEEeCCCCCcEEEEEEeCEEEEEEcCCCCeEEEEEcCCC
Confidence            4567778899999999999999999999999999999999999999999999999999999973    32     34599


Q ss_pred             CcceeecccC----ceeeeeecCcccc
Q psy8804          73 SRNFVFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        73 ~~fg~~~~~~----~~~~~~~~~~~~~   95 (114)
                      +.||+.+.+.    ++.+.++++++++
T Consensus       110 ~~fGe~~~~~~~~~~~~v~A~~~~~~~  136 (161)
T 3idb_B          110 GSFGELALMYNTPRAATITATSPGALW  136 (161)
T ss_dssp             CEECGGGGTCCCCCSSEEEESSSEEEE
T ss_pred             CEechHHHHcCCCcccEEEECCCeEEE
Confidence            9999988886    5566777777654

>3pna_A CAMP-dependent protein kinase type I-alpha regula subunit; beta-barrel, CAMP-binding, catalytic subunit, transferase; HET: CMP; 1.50A {Bos taurus} PDB: 3fhi_B* 3iia_A 3plq_A* 1u7e_B* 3pvb_B*

Probab=99.62  E-value=1e-15  Score=105.60  Aligned_cols=94  Identities=5%  Similarity=-0.027  Sum_probs=81.4

Q ss_pred             hhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe--Cc---ccCCCCcce
Q psy8804           2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID--GS---MFLPQSRNF   76 (114)
Q Consensus         2 ~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~--g~---~~~p~~~fg   76 (114)
                      +++.+.+.++|+++++|++|++++++.|+..+..+.|++|++||++||+++++|+|++|.|++.  |+   ...||+.||
T Consensus        30 ~~~~~~~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~G~~~~~~y~i~~G~v~~~~~~~~~~~~~~G~~fG  109 (154)
T 3pna_A           30 YKTMAALAKAIEKNVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVNNEWATSVGEGGSFG  109 (154)
T ss_dssp             HHHHHHHHHHHHHCGGGTTCCHHHHHHHHHHCEEEEECTTCEEECTTSCCCEEEEEEESCEEEEETTEEEEEECTTCEEC
T ss_pred             HHHHHHHHHHHHhChhhhhCCHHHHHHHHHhceEEEECCCCEEEeCCCCCCeEEEEEecEEEEEECCEEEEEecCCCEee
Confidence            3566778889999999999999999999999999999999999999999999999999999975  32   456999999


Q ss_pred             eecccC----ceeeeeecCcccc
Q psy8804          77 VFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        77 ~~~~~~----~~~~~~~~~~~~~   95 (114)
                      +.+.+.    ++.+.++++++++
T Consensus       110 e~~~~~~~~~~~~v~A~~~~~~~  132 (154)
T 3pna_A          110 ELALIYGTPRAATVKAKTNVKLW  132 (154)
T ss_dssp             CHHHHHCCCCSSEEEESSCEEEE
T ss_pred             ehHhhcCCCcceEEEECcceEEE
Confidence            888775    5566777777654

>3of1_A CAMP-dependent protein kinase regulatory subunit; cyclic nucleotide binding domain, evolution, PKA signaling, transfer; HET: CMP; 2.21A {Saccharomyces cerevisiae}

Probab=99.61  E-value=1.6e-15  Score=110.13  Aligned_cols=91  Identities=10%  Similarity=0.044  Sum_probs=78.7

Q ss_pred             HHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe--C---cccCCCCcceeec
Q psy8804           5 LQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID--G---SMFLPQSRNFVFN   79 (114)
Q Consensus         5 ~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~--g---~~~~p~~~fg~~~   79 (114)
                      ++.+.+.|+++++|++|++++++.|+..+..+.|++|++||++||+++++|+|++|.|++.  |   ....||+.||+.+
T Consensus         2 ~~~i~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~G~~~~~~y~i~~G~v~v~~~~~~~~~~~~g~~fGe~~   81 (246)
T 3of1_A            2 LQRLEKSIRNNFLFNKLDSDSKRLVINCLEEKSVPKGATIIKQGDQGDYFYVVEKGTVDFYVNDNKVNSSGPGSSFGELA   81 (246)
T ss_dssp             CHHHHHHHHTCTTTTTSCHHHHHHHHTTCEEEEECTTCEEECTTCCCCEEEEEEECCEEEESTTSCCEEECTTCEECHHH
T ss_pred             hHHHHHHHhcCHhhHhCCHHHHHHHHHhhceEEECCCCEEEecCCCCCEEEEEEeeEEEEEECCEEEEecCCCCeeehhH
Confidence            4567889999999999999999999999999999999999999999999999999999985  3   2456999999877


Q ss_pred             ccC----ceeeeeecCcccc
Q psy8804          80 VFS----PVFGLILNPSVSM   95 (114)
Q Consensus        80 ~~~----~~~~~~~~~~~~~   95 (114)
                      .+.    ++.+.++++++++
T Consensus        82 l~~~~~~~~tv~a~~~~~~~  101 (246)
T 3of1_A           82 LMYNSPRAATVVATSDCLLW  101 (246)
T ss_dssp             HHHTCCCSSEEEESSCEEEE
T ss_pred             HhcCCCCCcEEEECCCeEEE
Confidence            765    4566777776643

>3shr_A CGMP-dependent protein kinase 1; cyclic nucleotide binding domains, cyclic nucleotide protein transferase, PKG; HET: CMP; 2.50A {Bos taurus}

Probab=99.59  E-value=5.2e-15  Score=111.60  Aligned_cols=94  Identities=10%  Similarity=0.068  Sum_probs=82.2

Q ss_pred             hhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe--C---cccCCCCcce
Q psy8804           2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID--G---SMFLPQSRNF   76 (114)
Q Consensus         2 ~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~--g---~~~~p~~~fg   76 (114)
                      +++++.+.+.|+++++|++|++++++.|+..+..+.|++|++||+|||+++++|+|++|.|++.  |   ....||+.||
T Consensus        31 ~~~~~~i~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~G~~~~~~yiI~~G~v~v~~~g~~~~~~~~G~~fG  110 (299)
T 3shr_A           31 ERSKDLIKEAILDNDFMKNLELSQIQEIVDCMYPVEYGKDSCIIKEGDVGSLVYVMEDGKVEVTKEGVKLCTMGPGKVFG  110 (299)
T ss_dssp             HHHHHHHHHHHHTCTTTTTSCHHHHHHHHHHCEEEEECTTCEEECTTCBCCCEEEEEESCEEEEETTEEEEEECTTCEES
T ss_pred             HHHHHHHHHHHhhCHHHHcCCHHHHHHHHHhcCeEEECCCCEEEcCCCcCceEEEEEEEEEEEEECCEEEEEeCCCCeee
Confidence            4677888899999999999999999999999999999999999999999999999999999985  3   2456999999


Q ss_pred             eecccC----ceeeeeecCcccc
Q psy8804          77 VFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        77 ~~~~~~----~~~~~~~~~~~~~   95 (114)
                      +.+.+.    ++.+.++++++++
T Consensus       111 e~~ll~~~~~~~tv~a~~~~~l~  133 (299)
T 3shr_A          111 ELAILYNCTRTATVKTLVNVKLW  133 (299)
T ss_dssp             CSGGGTTTBCCSEEEESSCEEEE
T ss_pred             HhHHhcCCCCCcEEEEcCCeEEE
Confidence            988776    4466777776653

>3gyd_A CNMP-BD protein, cyclic nucleotide-binding domain; nucleotide binding protein, structural genomics; HET: MSE CMP; 1.79A {Methylobacillus flagellatus KT}

Probab=99.59  E-value=4.5e-15  Score=106.25  Aligned_cols=93  Identities=11%  Similarity=0.100  Sum_probs=80.6

Q ss_pred             hhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCC
Q psy8804           3 DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQ   72 (114)
Q Consensus         3 ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~   72 (114)
                      ...+.+.+.|+++++|++|++++++.++..+..+.|++|++|+++||+++++|+|++|.|++.     |+     ...||
T Consensus        32 ~~~~~~~~~L~~~~~f~~l~~~~l~~l~~~~~~~~~~~ge~i~~~G~~~~~ly~I~~G~v~v~~~~~~g~~~~~~~~~~G  111 (187)
T 3gyd_A           32 KYFEEILEIVNKIKLFGDFSNEEVRYLCSYMQCYAAPRDCQLLTEGDPGDYLLLILTGEVNVIKDIPNKGIQTIAKVGAG  111 (187)
T ss_dssp             GGHHHHHHHHTTCCSSCCCCHHHHHHHHTTCEEEEECTTCEEECTTSCCCEEEEEEEEEEEEEEEETTTEEEEEEEEETT
T ss_pred             HHHHHHHHHHhcCHhhhcCCHHHHHHHHHhcEEEEeCCCCEEEcCCCCCCeEEEEEeCEEEEEEECCCCCeEEEEEccCC
Confidence            566778899999999999999999999999999999999999999999999999999999963     32     45599


Q ss_pred             CcceeecccC----ceeeeeecCcccc
Q psy8804          73 SRNFVFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        73 ~~fg~~~~~~----~~~~~~~~~~~~~   95 (114)
                      +.||+.+.+.    ++.+.++++++++
T Consensus       112 ~~fGe~~~l~~~~~~~~v~A~~~~~v~  138 (187)
T 3gyd_A          112 AIIGEMSMIDGMPRSASCVASLPTDFA  138 (187)
T ss_dssp             CEESHHHHHHCCCCSSEEEEEEEEEEE
T ss_pred             CeeeeHHHhCCCCeeEEEEECCCeEEE
Confidence            9999888765    5566777777654

>2z69_A DNR protein; beta barrel, dimerization helix, transcription regulator; 2.10A {Pseudomonas aeruginosa}

Probab=99.58  E-value=1e-14  Score=99.03  Aligned_cols=92  Identities=17%  Similarity=0.159  Sum_probs=78.3

Q ss_pred             hHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCC
Q psy8804           4 DLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQS   73 (114)
Q Consensus         4 d~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~   73 (114)
                      +.+.+.++|+++++|+.|++++++.++..+..++|++|++|+++||+++++|+|++|.|++.     |+     ...||+
T Consensus         6 ~~~~~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~g~~~~~~y~i~~G~v~~~~~~~~g~~~~~~~~~~G~   85 (154)
T 2z69_A            6 FQRVHQQLLQSHHLFEPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGCVKIYRLTPEGQEKILEVTNERN   85 (154)
T ss_dssp             HHHHHHHHHTTSTTTTTSCHHHHHHHHHTCEEEEECTTCEEECTTSBCCEEEEEEESCEEEECCCC-----CCEEECTTE
T ss_pred             CChhHHHHhhcChhhcCCCHHHHHHHHhhCcEEEecCCCEEecCCCccceEEEEEeCEEEEEEECCCCCEEEEEEccCCC
Confidence            34556789999999999999999999999999999999999999999999999999999974     43     455999


Q ss_pred             cceeecccC-----ceeeeeecCcccc
Q psy8804          74 RNFVFNVFS-----PVFGLILNPSVSM   95 (114)
Q Consensus        74 ~fg~~~~~~-----~~~~~~~~~~~~~   95 (114)
                      .||+.+.+.     ++.+.++++++++
T Consensus        86 ~~G~~~~~~~~~~~~~~~~a~~~~~~~  112 (154)
T 2z69_A           86 TFAEAMMFMDTPNYVATAQAVVPSQLF  112 (154)
T ss_dssp             EESGGGGGSSCSBCSSEEEESSSEEEE
T ss_pred             eeccHhhccCCCCCceEEEEccceEEE
Confidence            999988775     3456777777654

>3mdp_A Cyclic nucleotide-binding domain (CNMP-BD) protei; structural genomics, joint center for structural genomics; HET: MSE; 1.90A {Geobacter metallireducens}

Probab=99.57  E-value=2.8e-15  Score=100.67  Aligned_cols=86  Identities=14%  Similarity=0.156  Sum_probs=74.7

Q ss_pred             HHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc--------ccCCCCcce
Q psy8804          10 YGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS--------MFLPQSRNF   76 (114)
Q Consensus        10 ~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~--------~~~p~~~fg   76 (114)
                      +.|+++++|++|++++++.++..+..+.|++|++||++||+++++|+|++|.|++.     |+        ...||+.||
T Consensus         6 ~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~g~~~~~~y~i~~G~v~~~~~~~~g~~~~~~~~~~~~~G~~fG   85 (142)
T 3mdp_A            6 ERLRVYRFFASLTDEQLKDIALISEEKSFPTGSVIFKENSKADNLMLLLEGGVELFYSNGGAGSAANSTVCSVVPGAIFG   85 (142)
T ss_dssp             TGGGGSHHHHTSCHHHHHHHHHTEEEEEECTTCEEECTTSBCCEEEEEEESCEEEECC---------CEEEEECTTCEEC
T ss_pred             HHHhhCchhccCCHHHHHHHHHhhcEEecCCCCEEEeCCCCCCcEEEEEeCEEEEEEECCCCCceEeeeEEEecCCCEec
Confidence            57999999999999999999999999999999999999999999999999999973     32        235999999


Q ss_pred             eecccC----ceeeeeecCcccc
Q psy8804          77 VFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        77 ~~~~~~----~~~~~~~~~~~~~   95 (114)
                      +.+.+.    ++.+.++++++++
T Consensus        86 ~~~~~~~~~~~~~~~a~~~~~~~  108 (142)
T 3mdp_A           86 VSSLIKPYHYTSSARATKPVRVV  108 (142)
T ss_dssp             GGGSSTTCBCSSEEEESSCEEEE
T ss_pred             hHHHcCCCCceEEEEECCcEEEE
Confidence            988876    4567788887754

>2pqq_A Putative transcriptional regulator; APC7345, streptomyces coelicolor structural genomics, PSI-2, protein structure initiative; 2.00A {Streptomyces coelicolor A3}

Probab=99.56  E-value=8.4e-15  Score=98.80  Aligned_cols=87  Identities=17%  Similarity=0.177  Sum_probs=75.7

Q ss_pred             HHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceee
Q psy8804           9 YYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVF   78 (114)
Q Consensus         9 ~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~   78 (114)
                      .+.|+++++|++|++++++.++..+..+.|++|++|+++||+++++|+|++|.|++.     |+     ...||+.||+.
T Consensus         4 ~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~g~~~~~~y~i~~G~v~~~~~~~~g~~~~~~~~~~g~~~G~~   83 (149)
T 2pqq_A            4 DDVLRRNPLFAALDDEQSAELRASMSEVTLARGDTLFHEGDPGDRLYVVTEGKVKLHRTSPDGRENMLAVVGPSELIGEL   83 (149)
T ss_dssp             GGGGTSSTTTTTCCHHHHHHHHHHCEEEEECTTCEEECTTSEECEEEEEEESCEEEEEECTTSSEEEEEEECTTCEESGG
T ss_pred             HHHhhhChhhhcCCHHHHHHHHHhceEEEeCCCCEEECCCCCCCeEEEEEecEEEEEEECCCCcEEEEEEcCCcCEechH
Confidence            457999999999999999999999999999999999999999999999999999973     43     45599999998


Q ss_pred             cccC----ceeeeeecCcccc
Q psy8804          79 NVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        79 ~~~~----~~~~~~~~~~~~~   95 (114)
                      +.+.    +..+.++++++++
T Consensus        84 ~~~~~~~~~~~~~a~~~~~~~  104 (149)
T 2pqq_A           84 SLFDPGPRTATGTALTEVKLL  104 (149)
T ss_dssp             GGTSCEECSSEEEESSCEEEE
T ss_pred             HhcCCCCcceEEEEccceEEE
Confidence            8776    4566777777654

>4f8a_A Potassium voltage-gated channel subfamily H membe; probable regulatory domain of potassium channel, membrane PR transport protein; 2.20A {Mus musculus}

Probab=99.56  E-value=1.6e-14  Score=98.92  Aligned_cols=87  Identities=16%  Similarity=0.020  Sum_probs=76.0

Q ss_pred             HHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEeC-----cccCCCCcceeecccCc
Q psy8804           9 YYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDG-----SMFLPQSRNFVFNVFSP   83 (114)
Q Consensus         9 ~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~g-----~~~~p~~~fg~~~~~~~   83 (114)
                      .+.|+++++|++|++++++.++..+..+.|++|++|+++||+++++|+|++|.|++..     ....||+.||+.+.+..
T Consensus        26 ~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~g~~~~~~y~i~~G~v~~~~~~~~~~~~~~G~~fG~~~~~~~  105 (160)
T 4f8a_A           26 RKVFKEHPAFRLASDGCLRALAMEFQTVHCAPGDLIYHAGESVDSLCFVVSGSLEVIQDDEVVAILGKGDVFGDVFWKEA  105 (160)
T ss_dssp             HHHHTTCGGGTTCCHHHHHHHHTTCEEEEECTTCEEECTTSBCCEEEEEEESEEEEEETTEEEEEEETTCEEECCTTTCS
T ss_pred             HHHHHhCHhhhhCCHHHHHHHHHhceeeeeCCCCEEEeCCCCccEEEEEEeeEEEEEECCEEEEEecCCCEeCcHHHhcC
Confidence            4689999999999999999999999999999999999999999999999999999852     24559999999887753


Q ss_pred             ------eeeeeecCcccc
Q psy8804          84 ------VFGLILNPSVSM   95 (114)
Q Consensus        84 ------~~~~~~~~~~~~   95 (114)
                            +.+.++++++++
T Consensus       106 ~~~~~~~~~~a~~~~~v~  123 (160)
T 4f8a_A          106 TLAQSCANVRALTYCDLH  123 (160)
T ss_dssp             SCCBCSSEEEESSCEEEE
T ss_pred             cccceEEEEEECCceEEE
Confidence                  456777777654

>2qcs_B CAMP-dependent protein kinase type I-alpha regula subunit, CAMP-dependent protein kinase, alpha-catalytic SU; cyclic adenosine monophosphate; HET: SEP TPO ANP TAM; 2.20A {Bos taurus} PDB: 1rl3_A* 1rgs_A* 1ne6_A* 1ne4_A*

Probab=99.54  E-value=1.1e-14  Score=109.04  Aligned_cols=94  Identities=5%  Similarity=-0.022  Sum_probs=81.8

Q ss_pred             hhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe--C---cccCCCCcce
Q psy8804           2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID--G---SMFLPQSRNF   76 (114)
Q Consensus         2 ~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~--g---~~~~p~~~fg   76 (114)
                      .++.+.+...|+++++|++|++++++.++..+..+.|++|++||++||+++++|+|++|.|++.  |   ....||+.||
T Consensus        31 ~~~~~~i~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~G~~~~~~y~i~~G~v~~~~~g~~~~~l~~G~~fG  110 (291)
T 2qcs_B           31 YKTMAALAKAIEKNVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVNNEWATSVGEGGSFG  110 (291)
T ss_dssp             HHHHHHHHHHTTTCHHHHTSCHHHHHHHHHHCEEEEECTTCEEECTTSBCCEEEEEEECCEEEEETTEEEEEECTTCEEC
T ss_pred             HHHHHHHHHHHhcChhhhhCCHHHHHHHHHhccEEEECCCCEEEeCCCCCceEEEEeeeEEEEEECCeEEEEcCCCCccc
Confidence            4667788899999999999999999999999999999999999999999999999999999974  4   3556999999


Q ss_pred             eecccC----ceeeeeecCcccc
Q psy8804          77 VFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        77 ~~~~~~----~~~~~~~~~~~~~   95 (114)
                      +.+.+.    ++.+.++++++++
T Consensus       111 e~~l~~~~~~~~tv~a~~~~~~~  133 (291)
T 2qcs_B          111 ELALIYGTPRAATVKAKTNVKLW  133 (291)
T ss_dssp             GGGGTCCCBCSSEEEESSCEEEE
T ss_pred             hHHHhcCCCCceEEEECCCEEEE
Confidence            988776    4566777776653

>1o7f_A CAMP-dependent RAP1 guanine-nucleotide exchange factor; EPAC2, CAMP-GEF2, campb binding doamin, regulation; 2.5A {Mus musculus} SCOP: a.4.5.31 b.82.3.2 b.82.3.2

Probab=99.52  E-value=5.3e-14  Score=112.18  Aligned_cols=93  Identities=22%  Similarity=0.383  Sum_probs=81.8

Q ss_pred             hhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-------cc
Q psy8804           2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-------MF   69 (114)
Q Consensus         2 ~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-------~~   69 (114)
                      +++.+.+.+.|+++++|++|++++++.|+..+..+.|++|++||++||+++++|+|++|.|++.     |+       ..
T Consensus        34 ~~~~~~i~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~Gd~~~~~y~i~~G~v~v~~~~~~g~~~~~~~~~~  113 (469)
T 1o7f_A           34 SEDVDIIFTRLKGVKAFEKFHPNLLRQICLCGYYENLEKGITLFRQGDIGTNWYAVLAGSLDVKVSETSSHQDAVTICTL  113 (469)
T ss_dssp             HHHHHHHHHHHTTCTTTTTCCHHHHHHHHHHCEEEEECTTCEEECTTSBCCEEEEEEESCEEEEECSSSCGGGCEEEEEE
T ss_pred             HHHHHHHHHHHhCCHhhhcCCHHHHHHHHHhceEEEECCCCEEEeCCCCCCcEEEEEeeEEEEEEecCCCCCcceEEEEc
Confidence            4678889999999999999999999999999999999999999999999999999999999973     32       44


Q ss_pred             CCCCcceeecccC----ceeeeeecCcccc
Q psy8804          70 LPQSRNFVFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        70 ~p~~~fg~~~~~~----~~~~~~~~~~~~~   95 (114)
                      .||+.||+.+ +.    ++.+.++++++++
T Consensus       114 ~~G~~fGe~~-l~~~~~~~tv~A~~~~~l~  142 (469)
T 1o7f_A          114 GIGTAFGESI-LDNTPRHATIVTRESSELL  142 (469)
T ss_dssp             CTTCEECGGG-GGTCBCSSEEEESSSEEEE
T ss_pred             cCCCCcchhh-hCCCCccceEEEccceeEE
Confidence            5999999988 65    5677788877754

>4din_B CAMP-dependent protein kinase type I-beta regulat subunit, CAMP-dependent protein kinase catalytic subunit A; isoform diversity; HET: TPO SEP ATP; 3.70A {Homo sapiens}

Probab=99.52  E-value=2.1e-14  Score=113.70  Aligned_cols=94  Identities=10%  Similarity=0.022  Sum_probs=82.4

Q ss_pred             hhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe--Cc---ccCCCCcce
Q psy8804           2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID--GS---MFLPQSRNF   76 (114)
Q Consensus         2 ~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~--g~---~~~p~~~fg   76 (114)
                      +++.+.+.+.|+++++|++|++++++.|+..+..+.|++|++||+|||+++++|+|++|.|++.  |+   ...||+.||
T Consensus       122 ~~~~~~i~~~l~~~~lF~~L~~~~l~~l~~~~~~~~~~~ge~I~~~Gd~~~~~yiI~~G~v~v~~~~~~v~~l~~G~~fG  201 (381)
T 4din_B          122 YKTMTALAKAISKNVLFAHLDDNERSDIFDAMFPVTHIAGETVIQQGNEGDNFYVVDQGEVDVYVNGEWVTNISEGGSFG  201 (381)
T ss_dssp             HHHHHHHHHHHTTCTTSSSCCHHHHHHHHHHCEEEECCTTCBSSCTTSBCCEEEECSSSEEEEEETTEEEEEEESSCCBC
T ss_pred             HHHHHHHHHHHhCChhhhcCCHHHHHHHHHhceEEEECCCCEEEeCCCCCCeEEEEEeeEEEEEECCeEeeeCCCCCEEE
Confidence            4567778899999999999999999999999999999999999999999999999999999975  43   455999999


Q ss_pred             eecccC----ceeeeeecCcccc
Q psy8804          77 VFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        77 ~~~~~~----~~~~~~~~~~~~~   95 (114)
                      +.+.+.    ++.+.++++++++
T Consensus       202 e~all~~~~r~atv~A~~~~~l~  224 (381)
T 4din_B          202 ELALIYGTPRAATVKAKTDLKLW  224 (381)
T ss_dssp             GGGGTSCCBCSSEEEESSSCEEE
T ss_pred             chHHhcCCCcceEEEECCCEEEE
Confidence            998887    4566777777654

>3dkw_A DNR protein; CRP-FNR, HTH, beta barrel, dimerization helix, homodimer, transcription regulator; 3.60A {Pseudomonas aeruginosa}

Probab=99.51  E-value=1.6e-14  Score=104.22  Aligned_cols=89  Identities=18%  Similarity=0.182  Sum_probs=76.8

Q ss_pred             HHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcce
Q psy8804           7 IIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNF   76 (114)
Q Consensus         7 ~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg   76 (114)
                      .+.++|+++++|++|++++++.++..+..++|++|++||++||+++++|+|++|.|++.     |+     ...||+.||
T Consensus         6 ~~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~g~~~~~~y~i~~G~v~~~~~~~~G~~~~~~~~~~g~~~G   85 (227)
T 3dkw_A            6 VHQQLLQSHHLFEPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGCVKIYRLTPEGQEKILEVTNERNTFA   85 (227)
T ss_dssp             SSHHHHTTSTTTSSSCHHHHHHHHTSCEEEECCTTEEEECTTSBCCEEEEEEESCEECCBCCGGGCCBCCCEECTTEEES
T ss_pred             hHHHHHhcChhhcCCCHHHHHHHHhhCEEEEECCCCEEEcCCCccceEEEEEeCEEEEEEECCCCCEEEEEEcCCCCEee
Confidence            34689999999999999999999999999999999999999999999999999999963     32     344999999


Q ss_pred             eecccC-----ceeeeeecCcccc
Q psy8804          77 VFNVFS-----PVFGLILNPSVSM   95 (114)
Q Consensus        77 ~~~~~~-----~~~~~~~~~~~~~   95 (114)
                      +.+.|.     ++.+.++++++++
T Consensus        86 ~~~~~~~~~~~~~~~~a~~~~~v~  109 (227)
T 3dkw_A           86 EAMMFMDTPNYVATAQAVVPSQLF  109 (227)
T ss_dssp             CTTTTTTCSBCSSCEEESSCCEEE
T ss_pred             eHHhcCCCCCCceEEEEcCcEEEE
Confidence            988774     3566777877754

>1wgp_A Probable cyclic nucleotide-gated ION channel 6; cyclic nucleotide monophosphate, CNMP, CNMP-binding, structural genomics; NMR {Arabidopsis thaliana} SCOP: b.82.3.2

Probab=99.51  E-value=1.7e-14  Score=96.86  Aligned_cols=86  Identities=9%  Similarity=0.093  Sum_probs=75.1

Q ss_pred             HHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe----Cc-------ccCCCCcceee
Q psy8804          10 YGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID----GS-------MFLPQSRNFVF   78 (114)
Q Consensus        10 ~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~----g~-------~~~p~~~fg~~   78 (114)
                      ++|+++++|+.|++++++.|+..+..++|++|++||+|||+++++|+|++|.|++.    |+       ...||+.||+.
T Consensus         6 ~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~G~~~~~~y~i~~G~v~~~~~~~g~~~~~~~~~l~~G~~fGe~   85 (137)
T 1wgp_A            6 SGVRRVPLFENMDERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGRLESVTTDGGRSGFYNRSLLKEGDFCGDE   85 (137)
T ss_dssp             CSCSSCSGGGSCCHHHHHHHHHHCBCCCBCTTEEEECTTSBCSEEEEEEECCCEEECCSSCSSSSSCEEECCTTCBSSTH
T ss_pred             HHHHcCcchhhCCHHHHHHHHHHheEEEeCCCCEEEeCCCCCCeEEEEEeeEEEEEEcCCCcceeeeeeeecCCCEecHH
Confidence            57899999999999999999999999999999999999999999999999999963    42       44599999988


Q ss_pred             cc---cC----------ceeeeeecCcccc
Q psy8804          79 NV---FS----------PVFGLILNPSVSM   95 (114)
Q Consensus        79 ~~---~~----------~~~~~~~~~~~~~   95 (114)
                      +.   +.          ++.+.++++++++
T Consensus        86 ~l~~~~~~~~~~~~~~~~~~~~A~~~~~~~  115 (137)
T 1wgp_A           86 LLTWALDPKSGSNLPSSTRTVKALTEVEAF  115 (137)
T ss_dssp             HHHHHHCSSCCSSSCBCSSEEEESSCBEEE
T ss_pred             HHHHHhccccccccccceeEEEEeEEEEEE
Confidence            74   54          3577888888764

>2ptm_A Hyperpolarization-activated (IH) channel; ION channel, cyclic nucleotide binding domain, C-linker, CAM SPHCN1, HCN; HET: CMP; 1.93A {Strongylocentrotus purpuratus}

Probab=99.51  E-value=3.8e-14  Score=101.51  Aligned_cols=87  Identities=10%  Similarity=0.039  Sum_probs=76.5

Q ss_pred             HHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe---Cc---ccCCCCcceeecccC
Q psy8804           9 YYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID---GS---MFLPQSRNFVFNVFS   82 (114)
Q Consensus         9 ~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~---g~---~~~p~~~fg~~~~~~   82 (114)
                      ...|+++++|++++++.++.|+..+..+.|++|++||++||+++++|+|++|.|++.   |+   ...||+.||+.+.+.
T Consensus        70 ~~~l~~~~~f~~l~~~~l~~l~~~~~~~~~~~ge~I~~~G~~~~~ly~I~~G~v~~~~~~g~~~~~l~~G~~fGe~~~~~  149 (198)
T 2ptm_A           70 RDLVASVPFFVGADSNFVTRVVTLLEFEVFQPADYVIQEGTFGDRMFFIQQGIVDIIMSDGVIATSLSDGSYFGEICLLT  149 (198)
T ss_dssp             HHHHHHCGGGTTCCHHHHHHHHHHCEEEEECTTCEEECTTSCCSEEEEEEECCEEEECTTSCEEEEECTTCEESCHHHHH
T ss_pred             HHHHhcCcchhcCCHHHHHHHHHhccceeeCCCCEEEECCCcCcEEEEEEeCEEEEEecCCeEEEEecCCCEechHHHcC
Confidence            468999999999999999999999999999999999999999999999999999984   43   556999999987765


Q ss_pred             ----ceeeeeecCcccc
Q psy8804          83 ----PVFGLILNPSVSM   95 (114)
Q Consensus        83 ----~~~~~~~~~~~~~   95 (114)
                          ++.+.++++++++
T Consensus       150 ~~~~~~~~~a~~~~~l~  166 (198)
T 2ptm_A          150 RERRVASVKCETYCTLF  166 (198)
T ss_dssp             SSCCSSEEEESSCEEEE
T ss_pred             CCccceEEEEeeEEEEE
Confidence                5567777777754

>3d0s_A Transcriptional regulatory protein; CAMP receptor protein (CRP), dimer, inactive(APO, unliganded allostery, DNA binding, cyclic AMP; 2.00A {Mycobacterium tuberculosis} PDB: 3i54_A* 3i59_A* 3mzh_A* 3h3u_A* 3r6s_A*

Probab=99.51  E-value=1.8e-14  Score=104.31  Aligned_cols=88  Identities=16%  Similarity=0.209  Sum_probs=76.8

Q ss_pred             HHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCccee
Q psy8804           8 IYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFV   77 (114)
Q Consensus         8 i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~   77 (114)
                      +.+.|+++++|++|++++++.++..+..++|++|++||++||+++++|+|++|.|++.     |+     ...||+.||+
T Consensus         4 ~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~G~~~~~~y~i~~G~v~~~~~~~~g~~~~~~~~~~G~~~G~   83 (227)
T 3d0s_A            4 MDEILARAGIFQGVEPSAIAALTKQLQPVDFPRGHTVFAEGEPGDRLYIIISGKVKIGRRAPDGRENLLTIMGPSDMFGE   83 (227)
T ss_dssp             CHHHHTTSSTTSSCCSSTTHHHHTTSCEEEECTTCEEECTTCCCCEEEEEEESCEEEEEECTTSCEEEEEEECTTCEESC
T ss_pred             HHHHHhcChhhcCCCHHHHHHHHhhCeEEEeCCCCEEEcCCCcCCEEEEEEeeEEEEEEECCCCcEEEEEEecCCCEEee
Confidence            3578999999999999999999999999999999999999999999999999999973     43     4559999998


Q ss_pred             ecccC----ceeeeeecCcccc
Q psy8804          78 FNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        78 ~~~~~----~~~~~~~~~~~~~   95 (114)
                      .+.+.    ++.+.++++++++
T Consensus        84 ~~~~~~~~~~~~~~A~~~~~v~  105 (227)
T 3d0s_A           84 LSIFDPGPRTSSATTITEVRAV  105 (227)
T ss_dssp             HHHHSCSCCSSEEEESSCEEEE
T ss_pred             HHHcCCCCceeEEEEcccEEEE
Confidence            88776    4566778887754

>3tnp_B CAMP-dependent protein kinase type II-beta regula subunit; PKA RIIB tetrameric holoenzyme, transferase; HET: SEP TPO; 2.30A {Mus musculus} PDB: 3tnq_A* 1cx4_A* 2qvs_B*

Probab=99.49  E-value=4.4e-14  Score=113.47  Aligned_cols=94  Identities=7%  Similarity=0.046  Sum_probs=81.4

Q ss_pred             hhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe----Cc-----ccCCC
Q psy8804           2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID----GS-----MFLPQ   72 (114)
Q Consensus         2 ~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~----g~-----~~~p~   72 (114)
                      +++.+.+...|+++++|++|++++++.|+..+..+.|++|++||+|||+++++|+|++|.|++.    |+     ...||
T Consensus       137 ~~~~~~i~~~L~~~~lF~~L~~~~l~~l~~~~~~~~~~~Ge~I~~qGd~~d~~YiI~sG~v~v~~~~~G~~~~v~~l~~G  216 (416)
T 3tnp_B          137 DDQRNRLQEACKDILLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYVKCDGVGRCVGNYDNR  216 (416)
T ss_dssp             HHHHHHHHHHHTTSHHHHTCCHHHHHHHHHHCEEEEECTTCEEECTTSCCCEEEEEEECEEEEEEECSSCEEEEEEEESC
T ss_pred             HHHHHHHHHHHhCCHhHhcCCHHHHHHHHHhcEEEEeCCCCEEEeCCCCCceEEEEEeeEEEEEEecCCCEEEEEEecCC
Confidence            4677888999999999999999999999999999999999999999999999999999999974    32     35599


Q ss_pred             CcceeecccC----ceeeeeecCcccc
Q psy8804          73 SRNFVFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        73 ~~fg~~~~~~----~~~~~~~~~~~~~   95 (114)
                      +.||+.+.+.    ++.+.++++++++
T Consensus       217 ~~fGe~all~~~pr~atv~A~~d~~l~  243 (416)
T 3tnp_B          217 GSFGELALMYNTPKAATITATSPGALW  243 (416)
T ss_dssp             CEECGGGGTSCCCCSSEEEESSSEEEE
T ss_pred             CEEeeHHHhcCCCcccEEEEccCeEEE
Confidence            9999988876    4456677776653

>3e97_A Transcriptional regulator, CRP/FNR family; YP_604437.1, structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.86A {Deinococcus geothermalis dsm 11300}

Probab=99.49  E-value=2.4e-14  Score=103.91  Aligned_cols=87  Identities=13%  Similarity=0.123  Sum_probs=75.7

Q ss_pred             HHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceee
Q psy8804           9 YYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVF   78 (114)
Q Consensus         9 ~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~   78 (114)
                      .++|+++++|++|++++++.++..+..+.|++|++||++||+++++|+|++|.|++.     |+     ...||+.||+.
T Consensus         5 ~~~L~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~G~~~~~~y~i~~G~v~~~~~~~~g~~~~~~~~~~g~~~G~~   84 (231)
T 3e97_A            5 LDDLKRSPLFQNVPEDAMREALKVVTERNFQPDELVVEQDAEGEALHLVTTGVVRVSRVSLGGRERVLGDIYAPGVVGET   84 (231)
T ss_dssp             HHHHHTSGGGTTCCHHHHHHHHHTEEEEEECTTCBCCCTTCTTTCEEEECSSEEEEEEECC--CEEEEEEEESSEEESTT
T ss_pred             HHHHhcChhhccCCHHHHHHHHHhcEEEEECCCCEEEeCCCCCCeEEEEEecEEEEEEECCCCceEEEEecCCCCEEeeH
Confidence            578999999999999999999999999999999999999999999999999999963     32     44599999988


Q ss_pred             cccC----ceeeeeecCcccc
Q psy8804          79 NVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        79 ~~~~----~~~~~~~~~~~~~   95 (114)
                      +.+.    ++.+.++++++++
T Consensus        85 ~~~~~~~~~~~~~a~~~~~v~  105 (231)
T 3e97_A           85 AVLAHQERSASVRALTPVRTL  105 (231)
T ss_dssp             TTTCCCCCCEEEEESSCEEEE
T ss_pred             HHhCCCCceEEEEECCcEEEE
Confidence            8776    4566777877654

>4ev0_A Transcription regulator, CRP family; CAMP binding, winged helix-turn-helix motif, DNA binding, transcription activator; HET: CMP; 2.40A {Thermus thermophilus}

Probab=99.49  E-value=4e-14  Score=101.40  Aligned_cols=84  Identities=12%  Similarity=0.204  Sum_probs=70.9

Q ss_pred             hhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeeccc
Q psy8804          12 LHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFNVF   81 (114)
Q Consensus        12 Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~~~   81 (114)
                      |+++|+|++|++++++.++..+..+.|++|++||++||+++++|+|++|.|++.     |+     ...||+.||+.+.+
T Consensus         1 L~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~g~~~~~~y~i~~G~v~~~~~~~~g~~~~~~~~~~g~~~G~~~~~   80 (216)
T 4ev0_A            1 MKGSPLFHGLAPEEVDLALSYFQRRLYPQGKPIFYQGDLGQALYLVASGKVRLFRTHLGGQERTLALLGPGELFGEMSLL   80 (216)
T ss_dssp             ---CGGGTTCCHHHHHHHHTTCEEEEECTTCEEECTTCBCCEEEEEEESCEEEEEECSSSCEEEEEEECTTCEECHHHHH
T ss_pred             CCCChhhcCCCHHHHHHHHHhheEEEeCCCCEEEeCCCCCCEEEEEEeCEEEEEEECCCCCEEEEEEecCCCEEeehhhc
Confidence            578999999999999999999999999999999999999999999999999973     43     45699999987766


Q ss_pred             C----ceeeeeecCcccc
Q psy8804          82 S----PVFGLILNPSVSM   95 (114)
Q Consensus        82 ~----~~~~~~~~~~~~~   95 (114)
                      .    ++.+.++++++++
T Consensus        81 ~~~~~~~~~~a~~~~~v~   98 (216)
T 4ev0_A           81 DEGERSASAVAVEDTELL   98 (216)
T ss_dssp             HCCBCSSEEEESSSEEEE
T ss_pred             CCCCcceEEEEcCCEEEE
Confidence            5    5667778877754

>3fx3_A Cyclic nucleotide-binding protein; helix_TURN_helix, CAMP regulatory protein, structural genomi 2, protein structure initiative; 2.20A {Ruegeria pomeroyi} PDB: 3h3z_A*

Probab=99.49  E-value=2.7e-14  Score=104.06  Aligned_cols=90  Identities=13%  Similarity=0.111  Sum_probs=77.7

Q ss_pred             HHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcc
Q psy8804           6 QIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRN   75 (114)
Q Consensus         6 e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~f   75 (114)
                      +...++|+++++|++|++++++.++..+..++|++|++||++||+++++|+|++|.|++.     |+     ...||+.|
T Consensus         7 ~~~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~G~~~~~~y~i~~G~v~~~~~~~~G~~~~~~~~~~G~~~   86 (237)
T 3fx3_A            7 EAQKAIARNSLLIRSLPEQHVDALLSQAVWRSYDRGETLFLQEEKAQAIHVVIDGWVKLFRMTPTGSEAVVSVFTRGESF   86 (237)
T ss_dssp             HHHHHHHTTSHHHHTSCHHHHHHHHTTCEEEEECTTCEEECTTSCCCEEEEEEESEEEEEEECTTSCEEEEEEEETTEEE
T ss_pred             HHHHHHHhCCHhhccCCHHHHHHHHhhCEEEEECCCCEEEcCCCccceEEEEEeeEEEEEEECCCCCEEEEEEeCCCCEe
Confidence            345689999999999999999999999999999999999999999999999999999963     32     34599999


Q ss_pred             eeecccC----ceeeeeecCcccc
Q psy8804          76 FVFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        76 g~~~~~~----~~~~~~~~~~~~~   95 (114)
                      |+.+.|.    ++.+.++++++++
T Consensus        87 G~~~~~~~~~~~~~~~a~~~~~v~  110 (237)
T 3fx3_A           87 GEAVALRNTPYPVSAEAVTPCEVM  110 (237)
T ss_dssp             CHHHHHHTCCCSSEEEESSSEEEE
T ss_pred             chHHHhcCCCCCceEEECCceEEE
Confidence            9887765    5567778877754

>3dv8_A Transcriptional regulator, CRP/FNR family; cyclic nucleotide-binding domain, structural genomics, joint for structural genomics; 2.55A {Eubacterium rectale atcc 33656}

Probab=99.48  E-value=6.7e-14  Score=100.46  Aligned_cols=87  Identities=6%  Similarity=-0.098  Sum_probs=73.3

Q ss_pred             HHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCc--ce
Q psy8804           9 YYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSR--NF   76 (114)
Q Consensus         9 ~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~--fg   76 (114)
                      +++|+++|+|++|++++++.++..+..++|++|++||++||+++++|+|++|.|++.     |+     ...||+.  ||
T Consensus         2 ~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~G~~~~~~y~i~~G~v~~~~~~~~G~~~~~~~~~~G~~~~~g   81 (220)
T 3dv8_A            2 MSFENYFPLWNDLNTAQKKLISDNLITQHVKKGTIIHNGNMDCTGLLLVKSGQLRTYILSDEGREITLYRLFDMDMCLLS   81 (220)
T ss_dssp             ---CCSCGGGGTSCHHHHHHHHTTCEEEEECTTCEEEEGGGCCCEEEEEEESCEEEEEECTTSCEEEEEEECTTCEESGG
T ss_pred             cchHHhChhhhcCCHHHHHHHHhhCceEEeCCCCEEECCCCCcceEEEEEeceEEEEEECCCCCEEEEEecCCCCeeehh
Confidence            468999999999999999999999999999999999999999999999999999973     43     4459999  78


Q ss_pred             eecccC----ceeeeeecCcccc
Q psy8804          77 VFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        77 ~~~~~~----~~~~~~~~~~~~~   95 (114)
                      +.+.+.    +..+.++++++++
T Consensus        82 ~~~~~~~~~~~~~~~a~~~~~~~  104 (220)
T 3dv8_A           82 ASCIMRSIQFEVTIEAEKDTDLW  104 (220)
T ss_dssp             GGGGCTTCCCCCEEEESSCEEEE
T ss_pred             HHHHhCCCCCceEEEEeeeeEEE
Confidence            877776    4566778887754

>3iwz_A CAP-like, catabolite activation-like protein; XCC, pathogenicity, CRP, CLP, C-DI-GMP receptor, quorum SENS binding, transcription; 2.30A {Xanthomonas campestris PV}

Probab=99.48  E-value=8.9e-14  Score=100.43  Aligned_cols=89  Identities=12%  Similarity=0.093  Sum_probs=65.0

Q ss_pred             HHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcce
Q psy8804           7 IIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNF   76 (114)
Q Consensus         7 ~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg   76 (114)
                      .+...|++.++|++|++++++.++..+..++|++|++||++||+++++|+|++|.|++.     |+     ...||+.||
T Consensus         8 ~~~~~lr~~~lf~~l~~~~~~~l~~~~~~~~~~~g~~i~~~g~~~~~~y~i~~G~v~~~~~~~~G~~~~~~~~~~g~~~G   87 (230)
T 3iwz_A            8 VVTTTVRNATPSLTLDAGTIERFLAHSHRRRYPTRTDVFRPGDPAGTLYYVISGSVSIIAEEDDDRELVLGYFGSGEFVG   87 (230)
T ss_dssp             --------------CCHHHHHHHHTTSEEEEECTTCEEECTTSBCCEEEEEEESCEEEEEECTTSCEEEEEEECTTCEES
T ss_pred             eehhhhhhcchhccCCHHHHHHHHHhCeEEEeCCCCEEECCCCCCCeEEEEEeeEEEEEEECCCCCEEEEEEecCCCEEE
Confidence            34578999999999999999999999999999999999999999999999999999973     43     356999999


Q ss_pred             eecccC-----ceeeeeecCcccc
Q psy8804          77 VFNVFS-----PVFGLILNPSVSM   95 (114)
Q Consensus        77 ~~~~~~-----~~~~~~~~~~~~~   95 (114)
                      +.+.|.     ++.+.++++++++
T Consensus        88 ~~~~~~~~~~~~~~~~a~~~~~v~  111 (230)
T 3iwz_A           88 EMGLFIESDTREVILRTRTQCELA  111 (230)
T ss_dssp             CGGGTSCCSBCCSEEEESSCEEEE
T ss_pred             ehhhhcCCCCceeEEEEcCcEEEE
Confidence            988875     2455777777654

>1zyb_A Transcription regulator, CRP family; NP_813211.1, structural genomics, joint center for structura genomics, JCSG; 2.15A {Bacteroides thetaiotaomicron} SCOP: a.4.5.4 b.82.3.2

Probab=99.48  E-value=1.1e-13  Score=101.36  Aligned_cols=89  Identities=13%  Similarity=0.130  Sum_probs=76.9

Q ss_pred             HHHHHhhCCCCCCCCCHHHHHHHHhh--cceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCc
Q psy8804           7 IIYYGLHGLEALAPYRDSVLRSLCRV--VRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSR   74 (114)
Q Consensus         7 ~i~~~Lr~v~lF~~L~~~~l~~La~~--~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~   74 (114)
                      .....|+++++|++|++++++.++..  +..++|++|++||++||+++++|+|++|.|++.     |+     ...||+.
T Consensus        15 ~~~~~l~~~~lf~~l~~~~~~~l~~~~~~~~~~~~~ge~i~~~G~~~~~~y~i~~G~v~~~~~~~~G~~~~l~~~~~G~~   94 (232)
T 1zyb_A           15 TMFDTLLQLPLFQGLCHEDFTSILDKVKLHFIKHKAGETIIKSGNPCTQLCFLLKGEISIVTNAKENIYTVIEQIEAPYL   94 (232)
T ss_dssp             HHHTTGGGSGGGTTCCHHHHHHHHHTSCCEEEEECTTCEEECTTSBCCEEEEEEESEEEEEEECGGGSCEEEEEEESSEE
T ss_pred             HHHHHHhcCccccCCCHHHHHHHHhhCCcEEEEECCCCEEECCCCcccEEEEEEeeEEEEEEECCCCCEEEEEEccCCCe
Confidence            34678999999999999999999998  999999999999999999999999999999973     42     4459999


Q ss_pred             ceeecccC-----ceeeeeecCcccc
Q psy8804          75 NFVFNVFS-----PVFGLILNPSVSM   95 (114)
Q Consensus        75 fg~~~~~~-----~~~~~~~~~~~~~   95 (114)
                      ||+.+.|.     ++.+.++++++++
T Consensus        95 fG~~~~~~~~~~~~~~~~A~~~~~v~  120 (232)
T 1zyb_A           95 IEPQSLFGMNTNYASSYVAHTEVHTV  120 (232)
T ss_dssp             ECGGGGSSSCCBCSSEEEESSCEEEE
T ss_pred             eeehHHhCCCCCCceEEEEccceEEE
Confidence            99988775     3466778887754

>1o7f_A CAMP-dependent RAP1 guanine-nucleotide exchange factor; EPAC2, CAMP-GEF2, campb binding doamin, regulation; 2.5A {Mus musculus} SCOP: a.4.5.31 b.82.3.2 b.82.3.2

Probab=99.47  E-value=1.8e-13  Score=109.16  Aligned_cols=93  Identities=30%  Similarity=0.428  Sum_probs=78.6

Q ss_pred             hhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhccee-EecCCCEEEecCCCCCeEEEEEeeeEEEe--Cc----ccCCCCc
Q psy8804           2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYE-RHQANDVLYYTGELSTSWYILLSGSVFID--GS----MFLPQSR   74 (114)
Q Consensus         2 ~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~-~~~~G~~If~qGd~~~~~yiIlsG~VkI~--g~----~~~p~~~   74 (114)
                      .+|++.+.++|+++++|++|++++++.|+..+... .|++|++||+|||+++++|+|++|.|++.  |+    ...||+.
T Consensus       329 ~~~~~~~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~~g~~i~~~G~~~~~~yiI~~G~v~v~~~~~~~~~~l~~G~~  408 (469)
T 1o7f_A          329 VDDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTLHEGDD  408 (469)
T ss_dssp             HHHHHHHHHHHTTCGGGTTSCHHHHHHHHHHCEEEEECSTTCEEECTTSCCCEEEEEEESEEEEEETTTEEEEEEETTCE
T ss_pred             HHHHHHHHHHHhcCHhhhhCCHHHHHHHHHHhheeeEecCCCEEEeCCCcCCeEEEEEEeEEEEEEcCCeeEEEecCCCE
Confidence            36788889999999999999999999999998854 89999999999999999999999999984  33    4459999


Q ss_pred             ceeecccC----ceeeeeec-Cccc
Q psy8804          75 NFVFNVFS----PVFGLILN-PSVS   94 (114)
Q Consensus        75 fg~~~~~~----~~~~~~~~-~~~~   94 (114)
                      ||+.+.+.    ++.+.+++ ++++
T Consensus       409 fGe~~ll~~~~~~~tv~a~~~~~~~  433 (469)
T 1o7f_A          409 FGKLALVNDAPRAASIVLREDNCHF  433 (469)
T ss_dssp             ECGGGGTCCSCCSSEEEESSSSEEE
T ss_pred             EEEehhhcCCCceEEEEEecCCEEE
Confidence            99988876    34555665 4554

>3bpz_A Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2; CNBD, C-linker, pacemaker, HCN, HCN2, CAP, PKA, CAMP, ION channel; HET: CMP; 1.65A {Mus musculus} PDB: 3ffq_A 1q3e_A* 1q43_A* 1q5o_A* 3u10_A* 2q0a_A* 3etq_A* 3u11_A* 3otf_A* 3u0z_A*

Probab=99.47  E-value=4.8e-14  Score=101.44  Aligned_cols=87  Identities=10%  Similarity=0.043  Sum_probs=75.8

Q ss_pred             HHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe---C--cccCCCCcceeecccC-
Q psy8804           9 YYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID---G--SMFLPQSRNFVFNVFS-   82 (114)
Q Consensus         9 ~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~---g--~~~~p~~~fg~~~~~~-   82 (114)
                      ...|+++++|++++++.++.|+..+..+.|++|++||++||+++++|+|++|.|++.   |  ....||+.||+.+.+. 
T Consensus        71 ~~~l~~~~~f~~l~~~~l~~l~~~~~~~~~~~ge~I~~~g~~~~~ly~I~~G~v~v~~~~g~~~~l~~G~~fGe~~~~~~  150 (202)
T 3bpz_A           71 RKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKEMKLSDGSYFGEICLLTR  150 (202)
T ss_dssp             HHHHHTCHHHHTSCHHHHHHHHHHCEEEEECTTCEEECTTSBCCEEEEEEECEEEEECTTSCCEEEETTCEECHHHHHHC
T ss_pred             HHHHhcCCchhcCCHHHHHHHHHhCCceEECCCCEEEECCCcCCeEEEEeccEEEEEECCCeEEEEcCCCEeccHHHhcC
Confidence            468999999999999999999999999999999999999999999999999999984   2  2556999999877765 


Q ss_pred             ---ceeeeeecCcccc
Q psy8804          83 ---PVFGLILNPSVSM   95 (114)
Q Consensus        83 ---~~~~~~~~~~~~~   95 (114)
                         ++.+.++++++++
T Consensus       151 ~~~~~~v~a~~~~~l~  166 (202)
T 3bpz_A          151 GRRTASVRADTYCRLY  166 (202)
T ss_dssp             SBCSSEEEESSCEEEE
T ss_pred             CCcccEEEEeeEEEEE
Confidence               5566777777654

>4ava_A Lysine acetyltransferase; allosteric regulation, domain coupling; HET: ACO; 1.70A {Mycobacterium tuberculosis} PDB: 4avb_A* 4avc_A*

Probab=99.46  E-value=3.7e-14  Score=108.61  Aligned_cols=87  Identities=23%  Similarity=0.241  Sum_probs=75.0

Q ss_pred             HHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----C----cccCCCCcceeec
Q psy8804           9 YYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----G----SMFLPQSRNFVFN   79 (114)
Q Consensus         9 ~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g----~~~~p~~~fg~~~   79 (114)
                      .++|+++++|++|++++++.|+..+..++|++|++||++||+++++|+|++|.|++.     |    ....||+.||+.+
T Consensus        12 ~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~G~~~~~~y~i~~G~v~~~~~~~~g~~~~~~~~~G~~fGe~~   91 (333)
T 4ava_A           12 VEDLAGMDVFQGCPAEGLVSLAASVQPLRAAAGQVLLRQGEPAVSFLLISSGSAEVSHVGDDGVAIIARALPGMIVGEIA   91 (333)
T ss_dssp             HHHHTTSGGGTTCCHHHHHHHHHHCEEEEECTTCEEECTTSBCCCEEEEEECCEEEEEECTTCCEEEEEECTTCEESHHH
T ss_pred             HHHHhCCHhHhcCCHHHHHHHHhhCeEEEECCCCEEEeCCCcCCEEEEEEeeEEEEEEECCCCcEEEEEecCCCEeeHHH
Confidence            478999999999999999999999999999999999999999999999999999973     2    2345999999887


Q ss_pred             ccC----ceeeeeecCcccc
Q psy8804          80 VFS----PVFGLILNPSVSM   95 (114)
Q Consensus        80 ~~~----~~~~~~~~~~~~~   95 (114)
                      .+.    ++.+.++++++++
T Consensus        92 l~~~~~~~~~v~A~~~~~~~  111 (333)
T 4ava_A           92 LLRDSPRSATVTTIEPLTGW  111 (333)
T ss_dssp             HHHTCBCSSEEEESSCEEEE
T ss_pred             hcCCCCceEEEEEecCEEEE
Confidence            665    4566777776644

>3dn7_A Cyclic nucleotide binding regulatory protein; structural genomics, APC88869, cyclic nucleotide binding REG protein, PSI-2; 1.80A {Cytophaga hutchinsonii}

Probab=99.46  E-value=8.2e-14  Score=98.66  Aligned_cols=86  Identities=10%  Similarity=0.112  Sum_probs=73.1

Q ss_pred             HHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeec
Q psy8804          10 YGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFN   79 (114)
Q Consensus        10 ~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~   79 (114)
                      .+++.++.|.+|++++++.++..+..++|++|++||++||+++++|+|++|.|++.     |+     ...||+.||+..
T Consensus         7 ~l~~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~l~~~G~~~~~~y~i~~G~v~~~~~~~~G~e~~~~~~~~g~~~ge~~   86 (194)
T 3dn7_A            7 ALINHIRKFIFLTDEDAGTLSAFFQLKKVRKKETLLKTGEICRINYFVVKGCLRLFFIDEKGIEQTTQFAIENWWLSDYM   86 (194)
T ss_dssp             HHHHHHHTTSCCCHHHHHHHHTTCEEEEECTTCEEECTTSBCCEEEEEEESEEEEEEECTTSCEEEEEEEETTCEECCHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHhCEEEEEcCCCEEECCCCeeeEEEEeecCeEEEEEECCCCCEEEEEEccCCcEEeehH
Confidence            36777889999999999999999999999999999999999999999999999963     43     345999999874


Q ss_pred             c-cC----ceeeeeecCcccc
Q psy8804          80 V-FS----PVFGLILNPSVSM   95 (114)
Q Consensus        80 ~-~~----~~~~~~~~~~~~~   95 (114)
                      . +.    +..+.++++++++
T Consensus        87 ~~~~~~~~~~~~~a~~~~~v~  107 (194)
T 3dn7_A           87 AFQKQQPADFYIQSVENCELL  107 (194)
T ss_dssp             HHHHTCBCSSEEEESSCEEEE
T ss_pred             HHhcCCCCceEEEEECCEEEE
Confidence            3 32    5677888887754

>3ukn_A Novel protein similar to vertebrate potassium VOL channel, subfamily H (EAG-related)...; KCNH, ELK, ERG, CNBD, CNBHD, C-linker, ION channel; 2.20A {Danio rerio} PDB: 3ukt_B 3ukv_B

Probab=99.43  E-value=4.9e-13  Score=96.60  Aligned_cols=85  Identities=15%  Similarity=0.067  Sum_probs=73.5

Q ss_pred             HhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe--C---cccCCCCcceeecccCc--
Q psy8804          11 GLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID--G---SMFLPQSRNFVFNVFSP--   83 (114)
Q Consensus        11 ~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~--g---~~~~p~~~fg~~~~~~~--   83 (114)
                      .|.++|+|++++++.++.|+..+..+.|++|++||++||+++++|+|++|.|++.  |   ....||+.||+.+.+..  
T Consensus        76 ~l~~~~~f~~l~~~~l~~l~~~~~~~~~~~ge~I~~~G~~~~~ly~I~~G~v~v~~~~~~~~~l~~G~~fGe~~~~~~~~  155 (212)
T 3ukn_A           76 ELLQLPLFESASRGCLRSLSLIIKTSFCAPGEFLIRQGDALQAIYFVCSGSMEVLKDNTVLAILGKGDLIGSDSLTKEQV  155 (212)
T ss_dssp             GGGGSGGGTTCCHHHHHHHHHHCEEEEECTTCEEECTTSBCCEEEEEEECCEEEESSSCEEEEECTTCEEECSCCSSSSC
T ss_pred             HHHhcHHhhcCCHHHHHHHHHHhheEEeCCCCEEEECCCcccEEEEEEecEEEEEECCeEEEEecCCCCcCcHHhccCCC
Confidence            4568999999999999999999999999999999999999999999999999985  3   25569999999888763  


Q ss_pred             ----eeeeeecCcccc
Q psy8804          84 ----VFGLILNPSVSM   95 (114)
Q Consensus        84 ----~~~~~~~~~~~~   95 (114)
                          +.+.++++++++
T Consensus       156 ~~~~~~v~a~~~~~l~  171 (212)
T 3ukn_A          156 IKTNANVKALTYCDLQ  171 (212)
T ss_dssp             CBBCSEEEESSCEEEE
T ss_pred             CCcceEEEEcccEEEE
Confidence                455777777654

>4f7z_A RAP guanine nucleotide exchange factor 4; cyclic nucleotide, regulation, auto-IN CDC25 homology domain, exocytosis; 2.60A {Mus musculus} PDB: 2byv_E

Probab=99.41  E-value=5.5e-13  Score=116.40  Aligned_cols=81  Identities=36%  Similarity=0.554  Sum_probs=72.5

Q ss_pred             hhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEe-cCCCEEEecCCCCCeEEEEEeeeEEEe--Cc----ccCCCCc
Q psy8804           2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERH-QANDVLYYTGELSTSWYILLSGSVFID--GS----MFLPQSR   74 (114)
Q Consensus         2 ~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~-~~G~~If~qGd~~~~~yiIlsG~VkI~--g~----~~~p~~~   74 (114)
                      .+|++.+.++|+++++|+.|+...++.||..+..+.+ ++|++||+|||++++||||++|+|.|.  ++    ...||+.
T Consensus       329 ~ed~e~l~e~L~~i~~f~~Ls~~v~r~L~~~l~~~~~~kaGtvI~rQGE~gds~YIIlsG~V~V~~~~~~~v~~L~~Gd~  408 (999)
T 4f7z_A          329 VDDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTLHEGDD  408 (999)
T ss_dssp             HHHHHHHHHHHTTCGGGTTSCHHHHHHHTTTCEEEEESSTTCEEECTTSBCCEEEEEEESEEEEEETTTEEEEEEETTCE
T ss_pred             HHHHHHHHHHHHhhHHHhcCCHHHHHHHHHhhhhheeccCCCEEEeCCCcCCeEEEEEeeEEEEEEcCCcceEEecCCCc
Confidence            4678889999999999999999999999999998776 789999999999999999999999985  32    3559999


Q ss_pred             ceeecccC
Q psy8804          75 NFVFNVFS   82 (114)
Q Consensus        75 fg~~~~~~   82 (114)
                      ||+++.+.
T Consensus       409 FGElALL~  416 (999)
T 4f7z_A          409 FGKLALVN  416 (999)
T ss_dssp             ECGGGGTC
T ss_pred             ccchhhcc
Confidence            99988885

>2gau_A Transcriptional regulator, CRP/FNR family; structural genomics, porphyromona gingivalis, PSI, protein structure initiative; 1.90A {Porphyromonas gingivalis} SCOP: a.4.5.4 b.82.3.2

Probab=99.37  E-value=3.7e-13  Score=97.67  Aligned_cols=82  Identities=11%  Similarity=0.139  Sum_probs=71.0

Q ss_pred             CCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeecccC-
Q psy8804          14 GLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFNVFS-   82 (114)
Q Consensus        14 ~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~~~~-   82 (114)
                      .+|+|++|++++++.++..+..++|++|++||++||+++++|+|++|.|++.     |+     ...||+.||+.+.+. 
T Consensus        14 ~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~g~~~~~~y~v~~G~v~~~~~~~~g~~~~~~~~~~G~~~G~~~~~~~   93 (232)
T 2gau_A           14 LRDVWSLLNEEERELLDKEIQPFPCKKASTVFSEGDIPNNLFYLYEGKIKILREGVYGRFHISRIVKPGQFFGMRPYFAE   93 (232)
T ss_dssp             SHHHHTTCCHHHHHHHHHHCEEEEECTTCEEECTTCCCCEEEEEEESCEEEEC-----CCCEEEEECTTCEESHHHHHHT
T ss_pred             ccHhhhcCCHHHHHHHHhhCeEEEECCCCEEEeCCCCCCeEEEEEeCEEEEEEECCCCCEEEEEEeCCCCEeeeehhhCC
Confidence            5789999999999999999999999999999999999999999999999974     43     445999999887765 


Q ss_pred             ---ceeeeeecCcccc
Q psy8804          83 ---PVFGLILNPSVSM   95 (114)
Q Consensus        83 ---~~~~~~~~~~~~~   95 (114)
                         +..+.++++++++
T Consensus        94 ~~~~~~~~A~~~~~v~  109 (232)
T 2gau_A           94 ETCSSTAIAVENSKVL  109 (232)
T ss_dssp             SCCSSEEEESSCEEEE
T ss_pred             CCcceEEEEecceEEE
Confidence               4567788887754

>3shr_A CGMP-dependent protein kinase 1; cyclic nucleotide binding domains, cyclic nucleotide protein transferase, PKG; HET: CMP; 2.50A {Bos taurus}

Probab=99.36  E-value=6e-13  Score=100.25  Aligned_cols=90  Identities=9%  Similarity=0.088  Sum_probs=76.9

Q ss_pred             HHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe------Cc-----ccCCCCc
Q psy8804           6 QIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID------GS-----MFLPQSR   74 (114)
Q Consensus         6 e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~------g~-----~~~p~~~   74 (114)
                      +.+..+|+++++|+.+++++++.++..+..+.|++|++|+++||+++++|+|++|.|++.      |+     ...||+.
T Consensus       153 ~~~~~~l~~~~~f~~l~~~~l~~l~~~~~~~~~~~g~~I~~~G~~~~~~yiI~~G~v~~~~~~~~~g~~~~~~~l~~G~~  232 (299)
T 3shr_A          153 TEYMEFLKSVPTFQSLPEEILSKLADVLEETHYENGEYIIRQGARGDTFFIISKGKVNVTREDSPNEDPVFLRTLGKGDW  232 (299)
T ss_dssp             HHHHHHHTTSHHHHHSCHHHHHHHTTTCEEEEECTTCEEECTTCEECEEEEEEESEEEEEECCSSSCCCEEEEEEETTCE
T ss_pred             HHHHHHHhhCHHhhhCCHHHHHHHHHhccEEEECCCCEEEeCCCCCCEEEEEEeeEEEEEEecCCCCcceEEEEcCCCCE
Confidence            345678999999999999999999999999999999999999999999999999999974      21     3459999


Q ss_pred             ceeecccC----ceeeeeecCcccc
Q psy8804          75 NFVFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        75 fg~~~~~~----~~~~~~~~~~~~~   95 (114)
                      ||+.+.+.    ++.+.++++++++
T Consensus       233 fGe~~ll~~~~~~~tv~a~~~~~l~  257 (299)
T 3shr_A          233 FGEKALQGEDVRTANVIAAEAVTCL  257 (299)
T ss_dssp             ECGGGGSSSEECSSEEEESSSEEEE
T ss_pred             eChHHHhCCCCcceEEEECCCEEEE
Confidence            99988887    4566677776654

>3of1_A CAMP-dependent protein kinase regulatory subunit; cyclic nucleotide binding domain, evolution, PKA signaling, transfer; HET: CMP; 2.21A {Saccharomyces cerevisiae}

Probab=99.36  E-value=1e-12  Score=95.26  Aligned_cols=87  Identities=9%  Similarity=0.051  Sum_probs=74.1

Q ss_pred             HHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEeC------cccCCCCcceeecccC
Q psy8804           9 YYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDG------SMFLPQSRNFVFNVFS   82 (114)
Q Consensus         9 ~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~g------~~~~p~~~fg~~~~~~   82 (114)
                      ..+++++++|+.+++.+++.++.....+.|++|++|++|||+++++|+|++|.|++..      ....||+.||+.+.+.
T Consensus       124 ~~~l~~~~~f~~l~~~~l~~l~~~~~~~~~~~g~~i~~~g~~~~~~y~I~~G~v~v~~~~~~~~~~l~~g~~fGe~~~~~  203 (246)
T 3of1_A          124 DDLLKSMPVLKSLTTYDRAKLADALDTKIYQPGETIIREGDQGENFYLIEYGAVDVSKKGQGVINKLKDHDYFGEVALLN  203 (246)
T ss_dssp             HHHHHHCGGGTTCCHHHHHHHHHTCEEEEECTTCEEECTTSBCCEEEEEEECEEEEEETTTEEEEEEETTCEECHHHHHH
T ss_pred             HHHHhhChhhhcCCHHHHHHHHHhhheEEeCCCCEEEeCCCcCCEEEEEEecEEEEEEcCCceEEEcCCCCcccHHHHhC
Confidence            4688999999999999999999999999999999999999999999999999999752      2345999999887774


Q ss_pred             ----ceeeeeecCcccc
Q psy8804          83 ----PVFGLILNPSVSM   95 (114)
Q Consensus        83 ----~~~~~~~~~~~~~   95 (114)
                          ++.+.++++++++
T Consensus       204 ~~~~~~~v~a~~~~~~~  220 (246)
T 3of1_A          204 DLPRQATVTATKRTKVA  220 (246)
T ss_dssp             TCBCSSEEEESSCEEEE
T ss_pred             CCCcccEEEECCCEEEE
Confidence                4455666666543

>3cf6_E RAP guanine nucleotide exchange factor (GEF) 4; EPAC, rapgef4, CAMP, SP-camps, GEF, gunanine nucleotide exchange factor, G-protein, GTP-binding, nucleotide-binding; HET: SP1; 2.20A {Mus musculus}

Probab=99.36  E-value=1.3e-12  Score=111.78  Aligned_cols=94  Identities=29%  Similarity=0.394  Sum_probs=80.1

Q ss_pred             hhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcc-eeEecCCCEEEecCCCCCeEEEEEeeeEEEe--Cc----ccCCCCc
Q psy8804           2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVR-YERHQANDVLYYTGELSTSWYILLSGSVFID--GS----MFLPQSR   74 (114)
Q Consensus         2 ~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~-~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~--g~----~~~p~~~   74 (114)
                      .++++.+.+.|+++++|++|++++++.|+..+. .++|++|++||++||+++++|+|++|+|++.  |+    ...||+.
T Consensus        24 ~~d~~~l~~~L~~~~lF~~Ls~~~l~~L~~~~~~~~~~~kGe~I~~eGd~~~~lyiIlsG~V~v~~~g~~il~~l~~Gd~  103 (694)
T 3cf6_E           24 VDDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTLHEGDD  103 (694)
T ss_dssp             HHHHHHHHHHHTTCGGGTTSCHHHHHHHHTTCEEEEECSTTCEEECTTSBCCEEEEEEESEEEEEETTTEEEEEEETTCE
T ss_pred             HHHHHHHHHHHHcChhhccCCHHHHHHHHHhcceEEEECCCCEEECCCCcCCeEEEEEEEEEEEEEeCCEEEEEeCCCCE
Confidence            367778889999999999999999999999997 6899999999999999999999999999974  43    4459999


Q ss_pred             ceeecccC----ceeeeeec-Ccccc
Q psy8804          75 NFVFNVFS----PVFGLILN-PSVSM   95 (114)
Q Consensus        75 fg~~~~~~----~~~~~~~~-~~~~~   95 (114)
                      ||+.+.|.    ++.+.+++ +++++
T Consensus       104 fGe~al~~~~~~~~tv~A~edd~~ll  129 (694)
T 3cf6_E          104 FGKLALVNDAPRAASIVLREDNCHFL  129 (694)
T ss_dssp             ECHHHHHHTCBCSSEEEECSSSEEEE
T ss_pred             eehHHHhCCCCceEEEEEeeCceEEE
Confidence            99887765    45667777 36654

>2fmy_A COOA, carbon monoxide oxidation system transcription RE COOA-1; DNA transcription regulator, DNA binding protein; HET: HEM; 2.20A {Carboxydothermus hydrogenoformans} PDB: 2hkx_A*

Probab=99.36  E-value=2.2e-13  Score=98.32  Aligned_cols=83  Identities=12%  Similarity=0.163  Sum_probs=72.7

Q ss_pred             HHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEE----eCc-----ccCCCCcceeecc
Q psy8804          10 YGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFI----DGS-----MFLPQSRNFVFNV   80 (114)
Q Consensus        10 ~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI----~g~-----~~~p~~~fg~~~~   80 (114)
                      .+|+++++|++|++++++.++..+..++|++|++||++||+++++|+|++|.|++    +|+     ...||+.||+   
T Consensus         4 ~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~g~~~~~~y~i~~G~v~~~~~~~G~~~~~~~~~~G~~~G~---   80 (220)
T 2fmy_A            4 MRLTDTNLLEVLNSEEYSGVLKEFREQRYSKKAILYTPNTERNLVFLVKSGRVRVYLAYEDKEFTLAILEAGDIFCT---   80 (220)
T ss_dssp             TCSCSSCHHHHTTSGGGTTTGGGSEEEEECTTCEEECTTCSSCEEEEEEESEEEEEEECSSCEEEEEEEETTCEEES---
T ss_pred             hhhhcChhhhcCCHHHHHHHHHhhheeEeCCCCEEECCCCCCCeEEEEEecEEEEEECCCCCEEEEEEcCCCCEeCC---
Confidence            4689999999999999999999999999999999999999999999999999997    353     4459999998   


Q ss_pred             cCceeeeeecCcccc
Q psy8804          81 FSPVFGLILNPSVSM   95 (114)
Q Consensus        81 ~~~~~~~~~~~~~~~   95 (114)
                      -.++.+.++++++++
T Consensus        81 ~~~~~~~A~~~~~v~   95 (220)
T 2fmy_A           81 HTRAFIQAMEDTTIL   95 (220)
T ss_dssp             CSSSEEEESSSEEEE
T ss_pred             ccceEEEEcCcEEEE
Confidence            456677778887754

>2qcs_B CAMP-dependent protein kinase type I-alpha regula subunit, CAMP-dependent protein kinase, alpha-catalytic SU; cyclic adenosine monophosphate; HET: SEP TPO ANP TAM; 2.20A {Bos taurus} PDB: 1rl3_A* 1rgs_A* 1ne6_A* 1ne4_A*

Probab=99.35  E-value=4.2e-12  Score=94.92  Aligned_cols=88  Identities=11%  Similarity=0.081  Sum_probs=75.7

Q ss_pred             HHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----C-c-----ccCCCCcce
Q psy8804           8 IYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----G-S-----MFLPQSRNF   76 (114)
Q Consensus         8 i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g-~-----~~~p~~~fg   76 (114)
                      +..+++++++|+.+++.++..++.....+.|++|++|+++||+++++|+|++|+|++.     | +     ...||+.||
T Consensus       155 ~~~~l~~~~lf~~l~~~~~~~l~~~~~~~~~~~g~~i~~~g~~~~~~y~i~~G~v~~~~~~~~~~~~~~~~~l~~G~~fG  234 (291)
T 2qcs_B          155 YEEFLSKVSILESLDKWERLTVADALEPVQFEDGQKIVVQGEPGDEFFIILEGSAAVLQRRSENEEFVEVGRLGPSDYFG  234 (291)
T ss_dssp             HHHHHHTCGGGTTCCHHHHHHHHHHCEEEEECTTCEEECTTSCCCEEEEEEEEEEEEEEECSTTSCEEEEEEECTTCEEC
T ss_pred             HHHHHhhchHhhhCCHHHHHHHHhhcEEEEECCCCEEEeCCccCCEEEEEEeCEEEEEEecCCCCccEEEEEeCCCCEec
Confidence            3468899999999999999999999999999999999999999999999999999974     2 1     345999999


Q ss_pred             eecccC----ceeeeeecCcccc
Q psy8804          77 VFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        77 ~~~~~~----~~~~~~~~~~~~~   95 (114)
                      +.+.+.    ++.+.++++++++
T Consensus       235 e~~ll~~~~~~~tv~a~~~~~~~  257 (291)
T 2qcs_B          235 EIALLMNRPKAATVVARGPLKCV  257 (291)
T ss_dssp             SGGGTCCCCCSSEEEEEEEEEEE
T ss_pred             HHHHcCCCCcceEEEECCcEEEE
Confidence            988876    4566777776654

>1ft9_A Carbon monoxide oxidation system transcription regulator; heme sensor, catabolite gene activator protein; HET: HEM; 2.60A {Rhodospirillum rubrum} SCOP: a.4.5.4 b.82.3.1

Probab=99.32  E-value=3.5e-13  Score=97.60  Aligned_cols=82  Identities=6%  Similarity=-0.008  Sum_probs=69.8

Q ss_pred             HhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEE----eCc-----ccCCCCcceeeccc
Q psy8804          11 GLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFI----DGS-----MFLPQSRNFVFNVF   81 (114)
Q Consensus        11 ~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI----~g~-----~~~p~~~fg~~~~~   81 (114)
                      +|+++++|++|++++++.++..+..++|++|++||++||+++++|+|++|.|++    +|+     ...||+.||   .-
T Consensus         1 ~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~g~~i~~~g~~~~~~y~i~~G~v~~~~~~~G~~~~~~~~~~G~~fG---~~   77 (222)
T 1ft9_A            1 MPPRFNIANVLLSPDGETFFRGFRSKIHAKGSLVCTGEGDENGVFVVVDGRLRVYLVGEEREISLFYLTSGDMFC---MH   77 (222)
T ss_dssp             -CCCCCTHHHHTSTTTTTTTTTCEEEEECTTCEEECTTCCCCCEEEEEESEEEEEEEETTEEEEEEEEETTCEEE---SC
T ss_pred             CcccchhhhcCCHHHHHHHHhhCcEEEECCCCEEECCCCCCCeEEEEEecEEEEEECCCCCEEEEEEcCCCCEec---CC
Confidence            478999999999999999999999999999999999999999999999999997    343     445999999   33


Q ss_pred             CceeeeeecCcccc
Q psy8804          82 SPVFGLILNPSVSM   95 (114)
Q Consensus        82 ~~~~~~~~~~~~~~   95 (114)
                      .++.+.++++++++
T Consensus        78 ~~~~~~A~~~~~v~   91 (222)
T 1ft9_A           78 SGCLVEATERTEVR   91 (222)
T ss_dssp             SSCEEEESSCEEEE
T ss_pred             CCEEEEEccceEEE
Confidence            46666777777654

>3ryp_A Catabolite gene activator; CAMP receptor protein (CRP), allostery, DNA binding cyclic A transcription regulator; HET: CMP; 1.60A {Escherichia coli} PDB: 2cgp_A* 3hif_A 1g6n_A* 3ryr_A* 1i5z_A* 1j59_A* 1lb2_A* 1run_A* 1zrc_A* 1zrd_A* 1zre_A* 1zrf_A* 2gzw_A* 2wc2_A 3iyd_G* 3n4m_A* 3qop_A* 3rdi_A* 3rou_A* 3rpq_A* ...

Probab=99.28  E-value=6.6e-12  Score=89.39  Aligned_cols=80  Identities=15%  Similarity=0.140  Sum_probs=64.8

Q ss_pred             CCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeecccC---
Q psy8804          16 EALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFNVFS---   82 (114)
Q Consensus        16 ~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~~~~---   82 (114)
                      .+++.+++++++.++..+..++|++|++||++||+++++|+|++|.|++.     |+     ...||+.||+.+.|.   
T Consensus         2 ~l~~~l~~~~l~~l~~~~~~~~~~~g~~i~~~g~~~~~~y~i~~G~v~~~~~~~~g~~~~~~~~~~g~~~G~~~~~~~~~   81 (210)
T 3ryp_A            2 VLGKPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGQ   81 (210)
T ss_dssp             -----CCCHHHHHHHTTSEEEEECTTCEEECTTSBCCEEEEEEESEEEEEEECTTCCEEEEEEEETTCEESCTTTTSTTC
T ss_pred             cCCCcCCHHHHHHHHHhcEEEEeCCCCEEECCCCCCCeEEEEEeCEEEEEEECCCCCEEEEEEcCCCCEeeeHHHhcCCC
Confidence            47788999999999999999999999999999999999999999999973     32     345999999988776   


Q ss_pred             --ceeeeeecCcccc
Q psy8804          83 --PVFGLILNPSVSM   95 (114)
Q Consensus        83 --~~~~~~~~~~~~~   95 (114)
                        ++.+.++++++++
T Consensus        82 ~~~~~~~a~~~~~v~   96 (210)
T 3ryp_A           82 ERSAWVRAKTACEVA   96 (210)
T ss_dssp             BCSSEEEESSCEEEE
T ss_pred             CceEEEEECCcEEEE
Confidence              3455777877754

>3tnp_B CAMP-dependent protein kinase type II-beta regula subunit; PKA RIIB tetrameric holoenzyme, transferase; HET: SEP TPO; 2.30A {Mus musculus} PDB: 3tnq_A* 1cx4_A* 2qvs_B*

Probab=99.23  E-value=2.4e-11  Score=97.54  Aligned_cols=85  Identities=14%  Similarity=0.116  Sum_probs=72.5

Q ss_pred             HHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----------C-----cccCCCC
Q psy8804          10 YGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----------G-----SMFLPQS   73 (114)
Q Consensus        10 ~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----------g-----~~~~p~~   73 (114)
                      .+++++++|+.|++.++..++..+..+.|++|++||++||+++++|+|++|.|++.           |     ....||+
T Consensus       267 ~~L~~v~lf~~Ls~~el~~L~~~l~~~~~~~Ge~I~~eGd~~~~~yiI~sG~v~v~~~~~~~~~~~~g~~~~l~~l~~G~  346 (416)
T 3tnp_B          267 SFIESLPFLKSLEVSERLKVVDVIGTKVYNDGEQIIAQGDLADSFFIVESGEVKITMKRKGKSEVEENGAVEIARCFRGQ  346 (416)
T ss_dssp             SSGGGCGGGTTCCHHHHHHHHHHCEEEEECTTCEEECTTSCCCEEEEEEEEEEEEECC------------CEEEEECTTC
T ss_pred             HHHhhchHhhcCCHHHHHHHHhhceEEEECCCCEEEeCCCcCCEEEEEEeCEEEEEEecCCcccccCCceeEEEEeCCCC
Confidence            46888999999999999999999999999999999999999999999999999974           2     1345999


Q ss_pred             cceeecccC----ceeeeeecCccc
Q psy8804          74 RNFVFNVFS----PVFGLILNPSVS   94 (114)
Q Consensus        74 ~fg~~~~~~----~~~~~~~~~~~~   94 (114)
                      .||+.+.|.    ++.+.+++++++
T Consensus       347 ~fGE~all~~~~r~~tv~A~~~~~l  371 (416)
T 3tnp_B          347 YFGELALVTNKPRAASAHAIGTVKC  371 (416)
T ss_dssp             EESGGGGTCCSCCSSEEEEEEEEEE
T ss_pred             EecHHHHhCCCCceeEEEEcCCeEE
Confidence            999998886    445566666554

>4din_B CAMP-dependent protein kinase type I-beta regulat subunit, CAMP-dependent protein kinase catalytic subunit A; isoform diversity; HET: TPO SEP ATP; 3.70A {Homo sapiens}

Probab=99.22  E-value=1.4e-11  Score=97.40  Aligned_cols=88  Identities=10%  Similarity=0.075  Sum_probs=75.1

Q ss_pred             HHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc------ccCCCCcce
Q psy8804           8 IYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS------MFLPQSRNF   76 (114)
Q Consensus         8 i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~------~~~p~~~fg   76 (114)
                      ...+++++++|..|++.++..++.....+.|++|++|++|||+++++|+|++|.|++.     |+      ...||+.||
T Consensus       246 ~~~~L~~v~~f~~Ls~~el~~l~~~~~~~~~~~ge~I~~eGd~~~~~yiI~~G~v~v~~~~~~~~~~~~v~~l~~Gd~fG  325 (381)
T 4din_B          246 YEEFLSKVSILESLEKWERLTVADALEPVQFEDGEKIVVQGEPGDDFYIITEGTASVLQRRSPNEEYVEVGRLGPSDYFG  325 (381)
T ss_dssp             HHHHHHHCSTTTTCCTTHHHHHHTTCBCCCBCSSCBSSCTTSBCCEEEEEEESCEEEECCSSSSSCCCEEEEECTTCEEC
T ss_pred             HHHHhhhhHHHHhccHHHHHHHHHhhhhccCCCCCEEEeCCCcCCEEEEEEeCEEEEEEecCCCCceEEEEEeCCCCEec
Confidence            4468999999999999999999999999999999999999999999999999999974     21      244999999


Q ss_pred             eecccC----ceeeeeecCcccc
Q psy8804          77 VFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        77 ~~~~~~----~~~~~~~~~~~~~   95 (114)
                      +.+.+.    ++.+.++++++++
T Consensus       326 e~all~~~~r~~tv~A~~~~~ll  348 (381)
T 4din_B          326 EIALLLNRPRAATVVARGPLKCV  348 (381)
T ss_dssp             TTGGGSCCBCSSEEEESSCBEEE
T ss_pred             hHHHhCCCCceeEEEEcCCEEEE
Confidence            988886    4456666666543

>3kcc_A Catabolite gene activator; helix-turn-helix, CAMP, CAMP-binding, DNA-binding nucleotide-binding, transcription, transcription regulation; HET: CMP; 1.66A {Escherichia coli}

Probab=99.20  E-value=2.7e-11  Score=90.31  Aligned_cols=86  Identities=14%  Similarity=0.140  Sum_probs=62.9

Q ss_pred             HHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeec
Q psy8804          10 YGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFN   79 (114)
Q Consensus        10 ~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~   79 (114)
                      ..++...++..|++++++.|+..+..++|++|++||++||+++++|+|++|.|++.     |+     ...||+.||+.+
T Consensus        46 ~~i~~~~~~~~l~~~~l~~l~~~~~~~~~~~ge~i~~~G~~~~~~y~I~~G~v~~~~~~~~G~e~~~~~~~~G~~~Ge~~  125 (260)
T 3kcc_A           46 ADIGSMVLGKPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELG  125 (260)
T ss_dssp             -------------CHHHHHHHTTSEEEEECTTCEEECTTCBCCEEEEEEECEEEEEEECTTCCEEEEEEEETTCEESCTT
T ss_pred             HHHHHHHHcCCCCHHHHHHHHhhCEEEEECCCCEEECCCCcCCeEEEEEeCEEEEEEECCCCCEEEEEEcCCCCEEeehH
Confidence            33443334578999999999999999999999999999999999999999999974     32     345999999988


Q ss_pred             ccC-----ceeeeeecCcccc
Q psy8804          80 VFS-----PVFGLILNPSVSM   95 (114)
Q Consensus        80 ~~~-----~~~~~~~~~~~~~   95 (114)
                      .|.     ++.+.++++++++
T Consensus       126 ~~~~~~~~~~~~~A~~~~~l~  146 (260)
T 3kcc_A          126 LFEEGQERSAWVRAKTACEVA  146 (260)
T ss_dssp             TTSTTCBCCSEEEESSCEEEE
T ss_pred             HhCCCCCCceEEEECCCeEEE
Confidence            776     3456777887754

>2oz6_A Virulence factor regulator; winged helix, helix-turn-helix, transcription factor, CAMP-B proteins, CAMP receptor protein; HET: CMP; 2.80A {Pseudomonas aeruginosa} SCOP: a.4.5.4 b.82.3.2

Probab=99.17  E-value=6.5e-11  Score=84.01  Aligned_cols=75  Identities=16%  Similarity=0.173  Sum_probs=63.7

Q ss_pred             CCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeecccC--------
Q psy8804          21 YRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFNVFS--------   82 (114)
Q Consensus        21 L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~~~~--------   82 (114)
                      |++++++.++..+..++|++|++||++||+++++|+|++|.|++.     |+     ...||+.||+.+.|.        
T Consensus         1 l~~~~l~~l~~~~~~~~~~~g~~i~~~g~~~~~~y~i~~G~v~~~~~~~~G~~~~~~~~~~g~~~G~~~~~~~~~~~~~~   80 (207)
T 2oz6_A            1 MKLKHLDKLLAHCHRRRYTAKSTIIYAGDRCETLFFIIKGSVTILIEDDDGREMIIGYLNSGDFFGELGLFEKEGSEQER   80 (207)
T ss_dssp             CCHHHHHHHHHSSEEEEECTTCEEECTTSBCCEEEEEEESEEEEEEECTTSCEEEEEEEETTCEESCTTTCC-----CBC
T ss_pred             CCHHHHHHHHhhcceEEECCCCEEEcCCCCCCeEEEEEeCEEEEEEECCCCCEEEEEEcCCCCCcccHHHhcCCCCCCCc
Confidence            689999999999999999999999999999999999999999974     43     445999999887765        


Q ss_pred             ceeeeeecCcccc
Q psy8804          83 PVFGLILNPSVSM   95 (114)
Q Consensus        83 ~~~~~~~~~~~~~   95 (114)
                      ++.+.++++++++
T Consensus        81 ~~~~~A~~~~~v~   93 (207)
T 2oz6_A           81 SAWVRAKVECEVA   93 (207)
T ss_dssp             CSEEEESSCEEEE
T ss_pred             ceEEEECCcEEEE
Confidence            2455777777654

>3beh_A MLL3241 protein; transmembrane protein, membrane protein; HET: LDA; 3.10A {Mesorhizobium loti} PDB: 2zd9_A*

Probab=99.10  E-value=9.8e-12  Score=97.09  Aligned_cols=87  Identities=15%  Similarity=0.136  Sum_probs=0.9

Q ss_pred             HHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEeC---cccCCCCcceeecccC---
Q psy8804           9 YYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDG---SMFLPQSRNFVFNVFS---   82 (114)
Q Consensus         9 ~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~g---~~~~p~~~fg~~~~~~---   82 (114)
                      .+.++++++|+++++++++.++.....+.|++|++|++|||+++++|+|++|+|++..   ....||+.||+.+.+.   
T Consensus       227 ~~~l~~~~lf~~ls~~~l~~l~~~~~~~~~~~ge~I~~~G~~~~~ly~I~~G~v~v~~~~~~~l~~G~~fGe~~~l~~~~  306 (355)
T 3beh_A          227 WQLVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEGSVSVATPNPVELGPGAFFGEMALISGEP  306 (355)
T ss_dssp             HC------------------------------------------------------------------------------
T ss_pred             chhhhcccccccCCHHHHHHHHHhceEEEECCCCEEEeCCCcCceEEEEEeeEEEEEECCeeEECCCCEEeehHHhCCCC
Confidence            3578999999999999999999999999999999999999999999999999999752   3566999999987776   


Q ss_pred             -ceeeeeecCcccc
Q psy8804          83 -PVFGLILNPSVSM   95 (114)
Q Consensus        83 -~~~~~~~~~~~~~   95 (114)
                       ++.+.++++++++
T Consensus       307 ~~~~~~A~~~~~l~  320 (355)
T 3beh_A          307 RSATVSAATTVSLL  320 (355)
T ss_dssp             --------------
T ss_pred             cceEEEECccEEEE
Confidence             4556777777754

>1o5l_A Transcriptional regulator, CRP family; TM1171, structural GE JCSG, PSI, protein structure initiative, joint center for S genomics; 2.30A {Thermotoga maritima} SCOP: b.82.3.2

Probab=99.10  E-value=5.2e-11  Score=85.89  Aligned_cols=81  Identities=16%  Similarity=0.082  Sum_probs=62.4

Q ss_pred             CCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeecccC--
Q psy8804          15 LEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFNVFS--   82 (114)
Q Consensus        15 v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~~~~--   82 (114)
                      -|.|...++++.+.++..+..++|++|++||++||+++++|+|++|.|++.     |+     ...||+.||+.+.|.  
T Consensus         4 ~~~~~~~~~~~~~~l~~~~~~~~~~~g~~i~~~G~~~~~~y~v~~G~v~~~~~~~~G~~~~~~~~~~G~~~G~~~~~~~~   83 (213)
T 1o5l_A            4 DKIHHHHHHMDLKKLLPCGKVIVFRKGEIVKHQDDPIEDVLILLEGTLKTEHVSENGKTLEIDEIKPVQIIASGFIFSSE   83 (213)
T ss_dssp             ---------CCGGGGGGGSEEEEECTTCEEECTTCBCCEEEEEEESCEEEEEECTTSCEEEEEEECSSEESSGGGTTSSS
T ss_pred             cccchhhccCCHHHHhcccEEEEECCCCEEEcCCCccceEEEEEeeEEEEEEECCCCCEEEEEEecCCCEeeeHHHhcCC
Confidence            478899999999999999999999999999999999999999999999973     43     455999999988764  


Q ss_pred             ---ceeeeeecCcccc
Q psy8804          83 ---PVFGLILNPSVSM   95 (114)
Q Consensus        83 ---~~~~~~~~~~~~~   95 (114)
                         ++.+.++++++++
T Consensus        84 ~~~~~~~~A~~~~~v~   99 (213)
T 1o5l_A           84 PRFPVNVVAGENSKIL   99 (213)
T ss_dssp             CBCSSEEEESSSEEEE
T ss_pred             CCceEEEEEccceEEE
Confidence               4567888887754

>3e6c_C CPRK, cyclic nucleotide-binding protein; CPRK, halorespiration; HET: DNA 3C4; 1.80A {Desulfitobacterium hafniense} SCOP: a.4.5.4 b.82.3.2 PDB: 3e6b_A* 3e5u_C* 3e6d_A 3e5x_A* 3e5q_A 2h6b_A* 2h6c_A

Probab=99.07  E-value=1.3e-10  Score=85.58  Aligned_cols=82  Identities=16%  Similarity=0.171  Sum_probs=67.7

Q ss_pred             hhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeeccc
Q psy8804          12 LHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFNVF   81 (114)
Q Consensus        12 Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~~~   81 (114)
                      +.....|..|++++++.++..+..++|++|++||++||+++++|+|++|.|++.     |+     ...||+.||+  .|
T Consensus        11 ~~~~~p~~~l~~~~l~~l~~~~~~~~~~~g~~i~~~G~~~~~~y~i~~G~v~~~~~~~~G~~~~~~~~~~G~~~G~--~l   88 (250)
T 3e6c_C           11 CGAIIPDNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLDIIFEDGSEKLLYYAGGNSLIGK--LY   88 (250)
T ss_dssp             CCCSSSBSCSCCGGGGGGGGGSEEEEECTTCEEECTTCCCCSEEEEEESCEEEEEECTTSCEEEEEEECTTCEECC--CS
T ss_pred             hhhccchhhCCHHHHHHHHhhCeEEEECCCCEEECCCCCCCeEEEEEeeEEEEEEECCCCCEEEEEEecCCCEEee--ec
Confidence            444445699999999999999999999999999999999999999999999973     32     3459999998  44


Q ss_pred             C---ceeeeeecCcccc
Q psy8804          82 S---PVFGLILNPSVSM   95 (114)
Q Consensus        82 ~---~~~~~~~~~~~~~   95 (114)
                      .   ++.+.++++++++
T Consensus        89 ~~~~~~~~~A~~~~~v~  105 (250)
T 3e6c_C           89 PTGNNIYATAMEPTRTC  105 (250)
T ss_dssp             CCSCCEEEEESSSEEEE
T ss_pred             CCCCceEEEEcccEEEE
Confidence            4   5566777777654

>2bgc_A PRFA; bacterial infection, human pathogen, transcriptional regulat transcription; HET: PR3; 2.3A {Listeria monocytogenes} SCOP: a.4.5.4 b.82.3.3 PDB: 2beo_A* 1omi_A

Probab=99.02  E-value=5.3e-10  Score=81.81  Aligned_cols=63  Identities=5%  Similarity=0.147  Sum_probs=53.9

Q ss_pred             CCCCHHHHHHHHh--hcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeecccC
Q psy8804          19 APYRDSVLRSLCR--VVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFNVFS   82 (114)
Q Consensus        19 ~~L~~~~l~~La~--~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~~~~   82 (114)
                      ++|++++++.+..  .+..++|++|++||++||+++++|+|++|.|++.     |+     .. ||+.||+.+.|.
T Consensus         2 ~~l~~~~l~~ll~~~~~~~~~~~~ge~i~~~G~~~~~~y~I~~G~v~~~~~~~~G~e~~~~~~-~G~~~Ge~~~~~   76 (238)
T 2bgc_A            2 SNAQAEEFKKYLETNGIKPKQFHKKELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQYY-KGAFVIMSGFID   76 (238)
T ss_dssp             --CHHHHHHHHHHHTTCCCEEEETTCEEECTTCCCCEEEEEEESEEEEEEECTTSCEEEEEEE-ESSEEEESBCTT
T ss_pred             CCCCHHHHHHHHHhCCceEEEECCCCEEEeCCCCCceEEEEEecEEEEEEECCCCCEEEEEEc-CCCEecchhhhc
Confidence            4789999999874  5899999999999999999999999999999973     42     44 999999988776

>3la7_A Global nitrogen regulator; activator, DNA-binding, transcription, transcription regulation; HET: BOG; 1.90A {Anabaena} PDB: 3la2_A* 3la3_A* 2xko_A* 2xgx_A* 2xhk_A* 2xkp_A*

Probab=98.93  E-value=1.5e-09  Score=79.75  Aligned_cols=73  Identities=19%  Similarity=0.377  Sum_probs=62.1

Q ss_pred             HHHHHHHHhhcc---eeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeecccC--c----
Q psy8804          23 DSVLRSLCRVVR---YERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFNVFS--P----   83 (114)
Q Consensus        23 ~~~l~~La~~~~---~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~~~~--~----   83 (114)
                      ++.++.|+..+.   .++|++|++||++||+++++|+|++|.|++.     |+     ...||+.||+.+.+.  |    
T Consensus        30 ~~~l~~L~~~~~~~~~~~~~~ge~i~~~G~~~~~ly~v~~G~v~~~~~~~~G~~~~l~~~~~g~~~G~~~~~~~~~~~~~  109 (243)
T 3la7_A           30 ANVFRQMATGAFPPVVETFERNKTIFFPGDPAERVYFLLKGAVKLSRVYEAGEEITVALLRENSVFGVLSLLTGNKSDRF  109 (243)
T ss_dssp             HHHHHHHCCSSCCCEEEEECTTCEEECTTSBCCEEEEEEESCEEEEEECTTCCEEEEEEECTTCEESCHHHHSSCCSBCC
T ss_pred             HHHHHHHhhccchheeEEECCCCEEEcCCCCCceEEEEEeCEEEEEEECCCCCEEEEEEecCCCEEcchHHhCCCCCcce
Confidence            788889999999   9999999999999999999999999999973     43     456999999988775  2    


Q ss_pred             eeeeeecCcccc
Q psy8804          84 VFGLILNPSVSM   95 (114)
Q Consensus        84 ~~~~~~~~~~~~   95 (114)
                      ..+.++++++++
T Consensus       110 ~~~~A~~~~~v~  121 (243)
T 3la7_A          110 YHAVAFTPVELL  121 (243)
T ss_dssp             EEEEESSSEEEE
T ss_pred             EEEEEccceEEE
Confidence            566788887754

>3b02_A Transcriptional regulator, CRP family; structural genomics, riken structural genomics/proteomics in RSGI; 1.92A {Thermus thermophilus} PDB: 2zdb_A

Probab=98.81  E-value=5.4e-09  Score=74.12  Aligned_cols=60  Identities=20%  Similarity=0.252  Sum_probs=49.9

Q ss_pred             eeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeecccC----ceeeeeecCcccc
Q psy8804          35 YERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        35 ~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~~~~----~~~~~~~~~~~~~   95 (114)
                      .++|++|++||++||+++++|+|++|.|++.     |+     ...||+.||+ +.+.    ++.+.++++++++
T Consensus         1 i~~~~~g~~i~~~g~~~~~~y~i~~G~v~~~~~~~~g~~~~~~~~~~G~~~Ge-~~~~~~~~~~~~~A~~~~~v~   74 (195)
T 3b02_A            1 MKRFARKETIYLRGEEARTLYRLEEGLVRVVELLPDGRLITLRHVLPGDYFGE-EALEGKAYRYTAEAMTEAVVQ   74 (195)
T ss_dssp             CEEECTTCEEECTTSBCCCEEEEEESCEEEEEECTTSCEEEEEEECTTCEECG-GGGTCSBCSSEEEESSSEEEE
T ss_pred             CeEcCCCCEEECCCCCCCeEEEEEeCEEEEEEECCCCCEEEEEEecCCCEech-hhhCCCCceeEEEECCcEEEE
Confidence            3689999999999999999999999999973     43     4559999999 8876    5567788887754

>2zcw_A TTHA1359, transcriptional regulator, FNR/CRP family; stationary phase, DNA-binding, transcription regulation; 1.50A {Thermus thermophilus}

Probab=98.71  E-value=8.5e-09  Score=73.31  Aligned_cols=66  Identities=20%  Similarity=0.198  Sum_probs=50.7

Q ss_pred             HHhhcceeEecCCCEEEecCCCC--CeEEEEEeeeEEEe-----Cc-----ccCCCCcceeecccC----ceeeeeecCc
Q psy8804          29 LCRVVRYERHQANDVLYYTGELS--TSWYILLSGSVFID-----GS-----MFLPQSRNFVFNVFS----PVFGLILNPS   92 (114)
Q Consensus        29 La~~~~~~~~~~G~~If~qGd~~--~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~~~~----~~~~~~~~~~   92 (114)
                      |+..+..++|++|++||++||++  +++|+|++|.|++.     |+     ...||+.||+ +.+.    ++.+.+++++
T Consensus         1 l~~~~~~~~~~~g~~i~~~g~~~~~~~~y~v~~G~v~~~~~~~~G~~~~~~~~~~g~~~G~-~~l~~~~~~~~~~A~~~~   79 (202)
T 2zcw_A            1 MTQVRETVSFKAGDVILYPGVPGPRDRAYRVLEGLVRLEAVDEEGNALTLRLVRPGGFFGE-EALFGQERIYFAEAATDV   79 (202)
T ss_dssp             -----CCEEECTTCEEECSBSCCTTCCCEEEEESCEEEEEECTTSCEEEEEEECTTCEECT-HHHHTCCBCSEEEESSCE
T ss_pred             CCccceEEEECCCCEEECCCCCCCCCeEEEEEeCEEEEEEECCCCcEEEEEEecCCCEeee-hhcCCCCcceEEEEcccE
Confidence            35667889999999999999999  99999999999973     43     3559999998 6553    5567788887


Q ss_pred             ccc
Q psy8804          93 VSM   95 (114)
Q Consensus        93 ~~~   95 (114)
                      +++
T Consensus        80 ~v~   82 (202)
T 2zcw_A           80 RLE   82 (202)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            754

---

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	114
d1o7fa3	124	b.82.3.2 (A:322-445) Regulatory domain of Epac2, d	5e-08
d1o7fa2	155	b.82.3.2 (A:13-167) Regulatory domain of Epac2, do	5e-06
d1i5za2	132	b.82.3.2 (A:6-137) Catabolite gene activator prote	0.002

>d1o7fa3 b.82.3.2 (A:322-445) Regulatory domain of Epac2, domains 1 and 3 {Mouse (Mus musculus) [TaxId: 10090]} Length = 124

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: cAMP-binding domain-like
family: cAMP-binding domain
domain: Regulatory domain of Epac2, domains 1 and 3
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 45.5 bits (107), Expect = 5e-08
 Identities = 30/101 (29%), Positives = 45/101 (44%), Gaps = 1/101 (0%)

Query: 2   ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERH-QANDVLYYTGELSTSWYILLSG 60
            DDL+IIY  L  ++AL+    +V R L  V+ +E H +   VL+  GE  TSWYI+L G
Sbjct: 2   VDDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKG 61

Query: 61  SVFIDGSMFLPQSRNFVFNVFSPVFGLILNPSVSMAAKVST 101
           SV +              + F  +  +   P  +       
Sbjct: 62  SVNVVIYGKGVVCTLHEGDDFGKLALVNDAPRAASIVLRED 102

>d1o7fa2 b.82.3.2 (A:13-167) Regulatory domain of Epac2, domains 1 and 3 {Mouse (Mus musculus) [TaxId: 10090]} Length = 155

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: cAMP-binding domain-like
family: cAMP-binding domain
domain: Regulatory domain of Epac2, domains 1 and 3
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 41.0 bits (95), Expect = 5e-06
 Identities = 19/60 (31%), Positives = 36/60 (60%)

Query: 3  DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSV 62
          +D+ II+  L G++A   +  ++LR +C    YE  +    L+  G++ T+WY +L+GS+
Sbjct: 17 EDVDIIFTRLKGVKAFEKFHPNLLRQICLCGYYENLEKGITLFRQGDIGTNWYAVLAGSL 76

>d1i5za2 b.82.3.2 (A:6-137) Catabolite gene activator protein, N-terminal domain {Escherichia coli [TaxId: 562]} Length = 132

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: cAMP-binding domain-like
family: cAMP-binding domain
domain: Catabolite gene activator protein, N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 33.7 bits (76), Expect = 0.002
 Identities = 10/66 (15%), Positives = 22/66 (33%)

Query: 23 DSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDGSMFLPQSRNFVFNVFS 82
          D  L          ++ +   L + GE + + Y ++ GSV +       +     +    
Sbjct: 3  DPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQG 62

Query: 83 PVFGLI 88
             G +
Sbjct: 63 DFIGEL 68

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	114
d1o7fa3	124	Regulatory domain of Epac2, domains 1 and 3 {Mouse	99.71
d1cx4a1	136	Regulatory subunit of Protein kinase A {Rat (Rattu	99.7
d1ne6a1	136	Regulatory subunit of Protein kinase A {Cow (Bos t	99.7
d1o7fa2	155	Regulatory domain of Epac2, domains 1 and 3 {Mouse	99.69
d1vp6a_	133	Putative ion channel CnbD {Mesorhizobium loti [Tax	99.69
d1cx4a2	147	Regulatory subunit of Protein kinase A {Rat (Rattu	99.67
d1ne6a2	132	Regulatory subunit of Protein kinase A {Cow (Bos t	99.63
d1zyba2	147	Probable transcription regulator BT4300, N-termina	99.6
d1wgpa_	137	Probable cyclic nucleotide-gated ion channel 6 {Th	99.58
d1q3ea_	193	HCN pacemaker channel {Mouse (Mus musculus) [TaxId	99.47
d2gaua2	142	Transcriptional regulator PG0396, N-terminal domai	99.38
d1ft9a2	132	CO-sensing protein CooA, N-terminal domain {Rhodos	99.3
d1i5za2	132	Catabolite gene activator protein, N-terminal doma	99.28
d2oz6a2	134	Cyclic AMP receptor-like protein Vfr {Pseudomonas	99.26
d3e5ua2	139	Chlorophenol reduction protein CprK {Desulfitobact	99.2
d1o5la1	129	CRP-like transcriptional regulator TM1171, N-termi	99.13
d2zcwa2	112	Transcriptional regulator TTHA1359, N-terminal dom	99.01

>d1o7fa3 b.82.3.2 (A:322-445) Regulatory domain of Epac2, domains 1 and 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: cAMP-binding domain-like
family: cAMP-binding domain
domain: Regulatory domain of Epac2, domains 1 and 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.71  E-value=3.1e-17  Score=109.82  Aligned_cols=94  Identities=30%  Similarity=0.416  Sum_probs=79.8

Q ss_pred             hhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEe-cCCCEEEecCCCCCeEEEEEeeeEEEeC------cccCCCCc
Q psy8804           2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERH-QANDVLYYTGELSTSWYILLSGSVFIDG------SMFLPQSR   74 (114)
Q Consensus         2 ~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~-~~G~~If~qGd~~~~~yiIlsG~VkI~g------~~~~p~~~   74 (114)
                      .+|++.+.+.|+++|+|++|+++.+++||..+..+.+ ++|++|+++||+++++|+|++|.|++..      ....||..
T Consensus         2 ~~d~~~i~~~L~~~~~F~~l~~~~l~~l~~~~~~~~~~~~ge~I~~~gd~~~~lyii~~G~v~~~~~~~~~~~~~~~G~~   81 (124)
T d1o7fa3           2 VDDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTLHEGDD   81 (124)
T ss_dssp             HHHHHHHHHHHTTCGGGTTSCHHHHHHHHHHCEEEEECSTTCEEECTTSCCCEEEEEEESEEEEEETTTEEEEEEETTCE
T ss_pred             HHHHHHHHHHHhCCHhhhcCCHHHHHHHHhhCeEEEEcCCCCEEEECCCcCceEEEEEcceEEEEEeeeeecccccCCcc
Confidence            5899999999999999999999999999999988776 6799999999999999999999999742      24559999


Q ss_pred             ceeecccC----ceeeeeecC-cccc
Q psy8804          75 NFVFNVFS----PVFGLILNP-SVSM   95 (114)
Q Consensus        75 fg~~~~~~----~~~~~~~~~-~~~~   95 (114)
                      ||+.+++.    +..+.++++ .+++
T Consensus        82 fGe~~ll~~~~r~~t~~a~~~~~~l~  107 (124)
T d1o7fa3          82 FGKLALVNDAPRAASIVLREDNCHFL  107 (124)
T ss_dssp             ECGGGGTCCSCCSSEEEESSSSEEEE
T ss_pred             hhhhHhhCCCceeeEEEEEeCcEEEE
Confidence            99988886    445566665 3543

>d1cx4a1 b.82.3.2 (A:130-265) Regulatory subunit of Protein kinase A {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: cAMP-binding domain-like
family: cAMP-binding domain
domain: Regulatory subunit of Protein kinase A
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.70  E-value=1.9e-17  Score=112.21  Aligned_cols=94  Identities=6%  Similarity=0.016  Sum_probs=80.5

Q ss_pred             hhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEeC---------cccCCC
Q psy8804           2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDG---------SMFLPQ   72 (114)
Q Consensus         2 ~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~g---------~~~~p~   72 (114)
                      .++.+.+.+.|+++++|++|++++++.|+..+..+.|++|++||++||+++++|+|++|.|++..         ....||
T Consensus         8 ~~~~~~l~~~l~~~~~F~~l~~~~~~~l~~~~~~~~~~~g~~I~~~G~~~~~~y~I~~G~v~v~~~~~~~~~~~~~l~~g   87 (136)
T d1cx4a1           8 DDQRNRLQEACKDILLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYVKCDGVGRCVGNYDNR   87 (136)
T ss_dssp             HHHHHHHHHHHTTCGGGTTCCHHHHHHHHHHCEEEEECTTCEEECTTSCCCEEEEEEECEEEEEEEETTEEEEEEEEESS
T ss_pred             HHHHHHHHHHHhCCHhhhcCCHHHHHHHhcceEEEEECCCCEEEECCCcchhhhhhhhheeEEeeccccceeeeeccCCc
Confidence            46777888999999999999999999999999999999999999999999999999999999742         245699


Q ss_pred             CcceeecccC----ceeeeeecCcccc
Q psy8804          73 SRNFVFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        73 ~~fg~~~~~~----~~~~~~~~~~~~~   95 (114)
                      ..||+.+.+.    ++.+.+.++++++
T Consensus        88 ~~fg~~~l~~~~~~~~s~~a~~~~~~~  114 (136)
T d1cx4a1          88 GSFGELALMYNTPRAATITATSPGALW  114 (136)
T ss_dssp             CEECHHHHHHCCCCCSEEEESSCEEEE
T ss_pred             cccchHHHhCCCcceEEEEECCCEEEE
Confidence            9999887765    4455666666544

>d1ne6a1 b.82.3.2 (A:109-244) Regulatory subunit of Protein kinase A {Cow (Bos taurus) [TaxId: 9913]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: cAMP-binding domain-like
family: cAMP-binding domain
domain: Regulatory subunit of Protein kinase A
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.70  E-value=1.8e-17  Score=113.40  Aligned_cols=93  Identities=5%  Similarity=-0.028  Sum_probs=80.8

Q ss_pred             hhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEeC-----cccCCCCccee
Q psy8804           3 DDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDG-----SMFLPQSRNFV   77 (114)
Q Consensus         3 ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~g-----~~~~p~~~fg~   77 (114)
                      +.++.+...|+++++|++|+++++++|+..+..+.|++|++||++||+++++|+|++|+|++..     ....||+.||+
T Consensus        13 ~~~~~l~~~l~~~~lF~~l~~~~l~~l~~~~~~~~~~~ge~I~~~gd~~~~~yiI~~G~v~v~~~~~~~~~l~~G~~fGe   92 (136)
T d1ne6a1          13 KTMAALAKAIEKNVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVNNEWATSVGEGGSFGE   92 (136)
T ss_dssp             HHHHHHHHHHHHCGGGTSCCHHHHHHHHHHCEEEEECTTCEEECTTSCCCEEEEEEESCEEEEETTEEEEEECTTCEECC
T ss_pred             HHHHHHHHHHhCCHhhhhCCHHHHHHHhcceEEEEECCCCEEEeCCCCcceeeeecCCceeeeccccccceecccccccc
Confidence            4456677899999999999999999999999999999999999999999999999999999742     46679999998


Q ss_pred             ecccC----ceeeeeecCcccc
Q psy8804          78 FNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        78 ~~~~~----~~~~~~~~~~~~~   95 (114)
                      .+.+.    ++.+.++++++++
T Consensus        93 ~~ll~~~~~~~tv~a~~~~~l~  114 (136)
T d1ne6a1          93 LALIYGTPRAATVKAKTNVKLW  114 (136)
T ss_dssp             HHHHHCCCCCSEEEESSCEEEE
T ss_pred             HHHcCCCcceEEEEEccCEEEE
Confidence            88777    5566777776654

>d1o7fa2 b.82.3.2 (A:13-167) Regulatory domain of Epac2, domains 1 and 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: cAMP-binding domain-like
family: cAMP-binding domain
domain: Regulatory domain of Epac2, domains 1 and 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.69  E-value=7.9e-17  Score=111.63  Aligned_cols=93  Identities=22%  Similarity=0.413  Sum_probs=80.7

Q ss_pred             hhhHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-------C-----ccc
Q psy8804           2 ADDLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-------G-----SMF   69 (114)
Q Consensus         2 ~ed~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-------g-----~~~   69 (114)
                      ++|++.+...|+++++|+.++++.+++|+..+..+.|++|++||++||++++||+|++|.|.|.       |     ...
T Consensus        16 ~~~~~~i~~~L~~~~~F~~l~~~~l~~l~~~~~~~~~~~ge~I~~~gd~~~~~y~I~~G~v~v~~~~~~~~~~~~~v~~l   95 (155)
T d1o7fa2          16 SEDVDIIFTRLKGVKAFEKFHPNLLRQICLCGYYENLEKGITLFRQGDIGTNWYAVLAGSLDVKVSETSSHQDAVTICTL   95 (155)
T ss_dssp             HHHHHHHHHHHTTCTTTTTCCHHHHHHHHHHCEEEEECTTCEEECTTSBCCEEEEEEESCEEEEECSSSCGGGCEEEEEE
T ss_pred             HHHHHHHHHHHhCCHhHhcCCHHHHHHHHHhcEEEEECCCCEEEeCCCcceeeEEEeccchheeeecccccccccccccc
Confidence            5789999999999999999999999999999999999999999999999999999999999863       2     134


Q ss_pred             CCCCcceeecccC----ceeeeeecCcccc
Q psy8804          70 LPQSRNFVFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        70 ~p~~~fg~~~~~~----~~~~~~~~~~~~~   95 (114)
                      .||..||+ +.+.    +..|.++++++++
T Consensus        96 ~~g~~fGe-~~l~~~~~~~tv~a~~~~~l~  124 (155)
T d1o7fa2          96 GIGTAFGE-SILDNTPRHATIVTRESSELL  124 (155)
T ss_dssp             CTTCEECG-GGGGTCBCSSEEEESSSEEEE
T ss_pred             cccccchh-hhhcCCCceEEEEECCCEEEE
Confidence            59999998 5555    5567777777754

>d1vp6a_ b.82.3.2 (A:) Putative ion channel CnbD {Mesorhizobium loti [TaxId: 381]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: cAMP-binding domain-like
family: cAMP-binding domain
domain: Putative ion channel CnbD
species: Mesorhizobium loti [TaxId: 381]

Probab=99.69  E-value=2.9e-17  Score=111.11  Aligned_cols=92  Identities=15%  Similarity=0.127  Sum_probs=80.3

Q ss_pred             hHHHHHHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe---CcccCCCCcceeecc
Q psy8804           4 DLQIIYYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID---GSMFLPQSRNFVFNV   80 (114)
Q Consensus         4 d~e~i~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~---g~~~~p~~~fg~~~~   80 (114)
                      |.-..+++|+++|+|++|++++++.|+..+..+.|++|++||++||+++++|+|++|+|++.   +....||+.||+.++
T Consensus         5 ~~~~~~~~l~~~p~F~~l~~~~l~~l~~~~~~~~~~~g~~i~~~G~~~~~~y~I~~G~v~v~~~~~~~l~~G~~~G~~~~   84 (133)
T d1vp6a_           5 DFVRNWQLVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEGSVSVATPNPVELGPGAFFGEMAL   84 (133)
T ss_dssp             HHHHHHHHHTTCGGGGGCCHHHHHHHHHHCEEEEECTTCEEECTTSCCCEEEEEEESCEEECSSSCEEECTTCEECHHHH
T ss_pred             HHHHHHHHHHCCCccccCCHHHHHHHHHhCEEEEECCCCEEEeCCCCCccceeeeccccEEEEeeeeeeccCcccccccc
Confidence            34456789999999999999999999999999999999999999999999999999999985   456779999998877


Q ss_pred             cC----ceeeeeecCcccc
Q psy8804          81 FS----PVFGLILNPSVSM   95 (114)
Q Consensus        81 ~~----~~~~~~~~~~~~~   95 (114)
                      +.    ++.+.++++++++
T Consensus        85 l~~~~~~~~~~a~~~~~i~  103 (133)
T d1vp6a_          85 ISGEPRSATVSAATTVSLL  103 (133)
T ss_dssp             HHCCCCSSCEEESSSEEEE
T ss_pred             cCCCcccceEEECCCEEEE
Confidence            76    5566777777654

>d1cx4a2 b.82.3.2 (A:266-412) Regulatory subunit of Protein kinase A {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: cAMP-binding domain-like
family: cAMP-binding domain
domain: Regulatory subunit of Protein kinase A
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.67  E-value=6.7e-17  Score=110.20  Aligned_cols=86  Identities=14%  Similarity=0.110  Sum_probs=74.5

Q ss_pred             HHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----------C-----cccCCCC
Q psy8804          10 YGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----------G-----SMFLPQS   73 (114)
Q Consensus        10 ~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----------g-----~~~~p~~   73 (114)
                      ++|+++|+|++|++++++.|+..+..+.|++|++||++||+++++|+|++|+|++.           +     ....||+
T Consensus         2 ~~l~~~p~f~~l~~~~l~~l~~~~~~~~~~~ge~i~~~G~~~~~~y~i~~G~v~v~~~~~~~~~~~~~~~~~i~~~~~g~   81 (147)
T d1cx4a2           2 SFIESLPFLKSLEVSERLKVVDVIGTKVYNDGEQIIAQGDSADSFFIVESGEVRITMKRKGKSDIEENGAVEIARCLRGQ   81 (147)
T ss_dssp             HHHHTCGGGTTSCHHHHHHHHHHCEEEEECTTCEEECTTCCCCEEEEEEEEEEEEEEEC--------CCEEEEEEECTTC
T ss_pred             hhHhcCHhhcCCCHHHHHHHHHhCEEEEECCCCEEEeCCCCCceeEEEecceEEEEEecCCCccccccceeeeeeccCCc
Confidence            57999999999999999999999999999999999999999999999999999973           1     2345999


Q ss_pred             cceeecccC----ceeeeeecCcccc
Q psy8804          74 RNFVFNVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        74 ~fg~~~~~~----~~~~~~~~~~~~~   95 (114)
                      .||+.+++.    +..+.++++++++
T Consensus        82 ~fGe~~~~~~~~~~~t~~a~~~~~~~  107 (147)
T d1cx4a2          82 YFGELALVTNKPRAASAHAIGTVKCL  107 (147)
T ss_dssp             EESCHHHHHTCCCSSEEEEEEEEEEE
T ss_pred             EeeehhhcCCCCceEEEEECCCEEEE
Confidence            999877776    4566777777654

>d1ne6a2 b.82.3.2 (A:245-376) Regulatory subunit of Protein kinase A {Cow (Bos taurus) [TaxId: 9913]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: cAMP-binding domain-like
family: cAMP-binding domain
domain: Regulatory subunit of Protein kinase A
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.63  E-value=1.6e-16  Score=106.85  Aligned_cols=86  Identities=12%  Similarity=0.096  Sum_probs=74.4

Q ss_pred             HHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc------ccCCCCcceee
Q psy8804          10 YGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS------MFLPQSRNFVF   78 (114)
Q Consensus        10 ~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~------~~~p~~~fg~~   78 (114)
                      ++|+++|+|++|++++++.|++.+..+.|++|++|+++||+++++|+|++|.|++.     |+      ...||..||+.
T Consensus         2 ~~L~~i~~f~~L~~~~~~~l~~~~~~~~~~~g~~I~~~Gd~~~~~yii~~G~v~~~~~~~~~~~~~~~~~~~~g~~fG~~   81 (132)
T d1ne6a2           2 EFLSKVSILESLDKWERLTVADALEPVQFEDGQKIVVQGEPGDEFFIILEGSAAVLQRRSENEEFVEVGRLGPSDYFGEI   81 (132)
T ss_dssp             HHHHTSGGGGGSCHHHHHHHHHHCEEEEECTTCEEECTTSCCCEEEEEEECCEEEEEESSSSCCEEEEEEECTTCEECHH
T ss_pred             hhHhCCHhhhCCCHHHHHHHHHhCEEEEECCCCEEEEcCCcchHHHHHHhhhheeeccCCccccchhhhhccccceeeEe
Confidence            57999999999999999999999999999999999999999999999999999862     21      34499999987


Q ss_pred             cccC----ceeeeeecCcccc
Q psy8804          79 NVFS----PVFGLILNPSVSM   95 (114)
Q Consensus        79 ~~~~----~~~~~~~~~~~~~   95 (114)
                      +.+.    +..|.++++++++
T Consensus        82 ~~~~~~~~~~t~~a~~~~~~~  102 (132)
T d1ne6a2          82 ALLMNRPRAATVVARGPLKCV  102 (132)
T ss_dssp             HHHHTSSCSSEEEESSCEEEE
T ss_pred             eecCCCceeEEEEEcccEEEE
Confidence            7766    4467777777654

>d1zyba2 b.82.3.2 (A:1-147) Probable transcription regulator BT4300, N-terminal domain {Bacteroides thetaiotaomicron [TaxId: 818]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: cAMP-binding domain-like
family: cAMP-binding domain
domain: Probable transcription regulator BT4300, N-terminal domain
species: Bacteroides thetaiotaomicron [TaxId: 818]

Probab=99.60  E-value=1.3e-15  Score=103.94  Aligned_cols=90  Identities=14%  Similarity=0.148  Sum_probs=74.8

Q ss_pred             HHHHHHhhCCCCCCCCCHHHHHHHHhhcc--eeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCC
Q psy8804           6 QIIYYGLHGLEALAPYRDSVLRSLCRVVR--YERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQS   73 (114)
Q Consensus         6 e~i~~~Lr~v~lF~~L~~~~l~~La~~~~--~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~   73 (114)
                      +.+.+.|+++|+|++|++++++.|+....  .++|++|++|+++||+++++|+|++|.|++.     |+     ...||+
T Consensus         2 ~~~~d~L~~~~lF~~l~~~~~~~ll~~~~~~~~~~~~g~~i~~~g~~~~~iy~i~~G~v~v~~~~~~g~~~~~~~~~~g~   81 (147)
T d1zyba2           2 ETMFDTLLQLPLFQGLCHEDFTSILDKVKLHFIKHKAGETIIKSGNPCTQLCFLLKGEISIVTNAKENIYTVIEQIEAPY   81 (147)
T ss_dssp             HHHHTTGGGSGGGTTCCHHHHHHHHHTSCCEEEEECTTCEEECTTSBCCEEEEEEESEEEEEEECGGGSCEEEEEEESSE
T ss_pred             hhHHHHHhCCcccccCCHHHHHHHHhhCceEEEEECCCCEEEeccCCccEEEEEecceEEEEEEcCCCCEEEEEEcCCCC
Confidence            45678999999999999999999987754  5789999999999999999999999999963     32     445999


Q ss_pred             cceeecccC-----ceeeeeecCcccc
Q psy8804          74 RNFVFNVFS-----PVFGLILNPSVSM   95 (114)
Q Consensus        74 ~fg~~~~~~-----~~~~~~~~~~~~~   95 (114)
                      .||+.+.+.     ++.+.+++++.++
T Consensus        82 ~fGe~~~~~~~~~~~~~v~a~~~~~vl  108 (147)
T d1zyba2          82 LIEPQSLFGMNTNYASSYVAHTEVHTV  108 (147)
T ss_dssp             EECGGGGSSSCCBCSSEEEESSCEEEE
T ss_pred             Eeccchhhcccccccceeeecceeeee
Confidence            999888875     4456667776643

>d1wgpa_ b.82.3.2 (A:) Probable cyclic nucleotide-gated ion channel 6 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: cAMP-binding domain-like
family: cAMP-binding domain
domain: Probable cyclic nucleotide-gated ion channel 6
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.58  E-value=7.6e-16  Score=105.24  Aligned_cols=72  Identities=10%  Similarity=0.095  Sum_probs=63.9

Q ss_pred             HHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEeC-----------cccCCCCcceee
Q psy8804          10 YGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFIDG-----------SMFLPQSRNFVF   78 (114)
Q Consensus        10 ~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~g-----------~~~~p~~~fg~~   78 (114)
                      ..||++|+|++|+++.+++|+..++.+.|++|++|+++||+++.+|+|++|.|++.-           ....||+.|||.
T Consensus         6 s~l~~vp~F~~l~~~~l~~l~~~~~~~~~~~ge~I~~~Gd~~~~ly~i~~G~v~~~~~~~~~~~~~~~~~l~~G~~fGE~   85 (137)
T d1wgpa_           6 SGVRRVPLFENMDERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGRLESVTTDGGRSGFYNRSLLKEGDFCGDE   85 (137)
T ss_dssp             CSCSSCSGGGSCCHHHHHHHHHHCBCCCBCTTEEEECTTSBCSEEEEEEECCCEEECCSSCSSSSSCEEECCTTCBSSTH
T ss_pred             HHHHCCHhHhCCCHHHHHHHHHhcEEEEECCCCEEEecccccceeehhccCceEEEEecCCCceeeeeeeccCCcEEcch
Confidence            468999999999999999999999999999999999999999999999999999631           133599999976


Q ss_pred             ccc
Q psy8804          79 NVF   81 (114)
Q Consensus        79 ~~~   81 (114)
                      +.+
T Consensus        86 ~ll   88 (137)
T d1wgpa_          86 LLT   88 (137)
T ss_dssp             HHH
T ss_pred             hHh
Confidence            554

>d1q3ea_ b.82.3.2 (A:) HCN pacemaker channel {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: cAMP-binding domain-like
family: cAMP-binding domain
domain: HCN pacemaker channel
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.47  E-value=1.7e-14  Score=102.31  Aligned_cols=87  Identities=11%  Similarity=0.067  Sum_probs=75.9

Q ss_pred             HHHhhCCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe--C---cccCCCCcceeecccC-
Q psy8804           9 YYGLHGLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID--G---SMFLPQSRNFVFNVFS-   82 (114)
Q Consensus         9 ~~~Lr~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~--g---~~~~p~~~fg~~~~~~-   82 (114)
                      ...|+++|+|+++++..++.|+..+....|++|++|+++||+++++|+|++|+|.+.  +   ....||+.||+.+.+. 
T Consensus        67 ~~~l~~~~~F~~~~~~~l~~l~~~~~~~~~~~g~~I~~~g~~~~~ly~i~~G~v~v~~~~~~~~~l~~G~~fGe~~~~~~  146 (193)
T d1q3ea_          67 RKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGNKEMKLSDGSYFGEICLLTR  146 (193)
T ss_dssp             HHHHHHCHHHHTSCHHHHHHHHTTCEEEEECTTCEEECTTSBCCEEEEEEECCEEEEC-CCCEEEECTTCEECHHHHHHC
T ss_pred             HHHHhcchHHHhhhHHHHHHHHHHHHHHhhccCceecccCCCCcceeEeeeeeEEeecCCcceeeeccceeeeeeeccCC
Confidence            468999999999999999999999999999999999999999999999999999874  2   3556999999888776 


Q ss_pred             ---ceeeeeecCcccc
Q psy8804          83 ---PVFGLILNPSVSM   95 (114)
Q Consensus        83 ---~~~~~~~~~~~~~   95 (114)
                         ++.+.+++.++++
T Consensus       147 ~~~~~~~~a~~~~~l~  162 (193)
T d1q3ea_         147 GRRTASVRADTYCRLY  162 (193)
T ss_dssp             SBCSSEEEESSCEEEE
T ss_pred             CcccccceecCceEEE
Confidence               4566777776643

>d2gaua2 b.82.3.2 (A:10-151) Transcriptional regulator PG0396, N-terminal domain {Porphyromonas gingivalis [TaxId: 837]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: cAMP-binding domain-like
family: cAMP-binding domain
domain: Transcriptional regulator PG0396, N-terminal domain
species: Porphyromonas gingivalis [TaxId: 837]

Probab=99.38  E-value=2.4e-13  Score=91.86  Aligned_cols=79  Identities=11%  Similarity=0.161  Sum_probs=68.8

Q ss_pred             CCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeecccC----
Q psy8804          17 ALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFNVFS----   82 (114)
Q Consensus        17 lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~~~~----   82 (114)
                      +|+.|++++++.++..+..+.|++|++|+.+|++++.+|+|++|.|++.     |+     ...||..||+.+.|.    
T Consensus         8 lf~~l~~~~~~~l~~~~~~~~~~~g~~l~~~g~~~~~ly~v~~G~v~~~~~~~~g~~~~~~~~~~G~~~G~~~~~~~~~~   87 (142)
T d2gaua2           8 VWSLLNEEERELLDKEIQPFPCKKASTVFSEGDIPNNLFYLYEGKIKILREGVYGRFHISRIVKPGQFFGMRPYFAEETC   87 (142)
T ss_dssp             HHTTCCHHHHHHHHHHCEEEEECTTCEEECTTCCCCEEEEEEESCEEEEC-----CCCEEEEECTTCEESHHHHHHTSCC
T ss_pred             HHccCCHHHHHHHHhcCEEEEECCCCEEEeCCCccceEEEEEecceeeEeeccccceeeeecccccchhhhhhhhccCCc
Confidence            6999999999999999999999999999999999999999999999973     42     466999999888777    


Q ss_pred             ceeeeeecCcccc
Q psy8804          83 PVFGLILNPSVSM   95 (114)
Q Consensus        83 ~~~~~~~~~~~~~   95 (114)
                      +.++.++++++++
T Consensus        88 ~~~~~a~~~s~v~  100 (142)
T d2gaua2          88 SSTAIAVENSKVL  100 (142)
T ss_dssp             SSEEEESSCEEEE
T ss_pred             eeEEEecCCEEEE
Confidence            4467788887754

>d1ft9a2 b.82.3.1 (A:2-133) CO-sensing protein CooA, N-terminal domain {Rhodospirillum rubrum [TaxId: 1085]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: cAMP-binding domain-like
family: CO-sensing protein CooA, N-terminal domain
domain: CO-sensing protein CooA, N-terminal domain
species: Rhodospirillum rubrum [TaxId: 1085]

Probab=99.30  E-value=2.4e-13  Score=91.55  Aligned_cols=79  Identities=6%  Similarity=-0.013  Sum_probs=67.9

Q ss_pred             CCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe----C-----cccCCCCcceeecccCce
Q psy8804          14 GLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID----G-----SMFLPQSRNFVFNVFSPV   84 (114)
Q Consensus        14 ~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~----g-----~~~~p~~~fg~~~~~~~~   84 (114)
                      +.++|+.|++++++.+.+.++.++|++|++|+++|++++++|+|++|.|++.    |     ....||+.||+.   .++
T Consensus         3 r~~~~~~L~~~~~~~~~~~~~~~~~~kG~~i~~~g~~~~~ly~v~~G~v~~~~~~~g~e~~l~~~~~g~~f~~~---~~~   79 (132)
T d1ft9a2           3 RFNIANVLLSPDGETFFRGFRSKIHAKGSLVCTGEGDENGVFVVVDGRLRVYLVGEEREISLFYLTSGDMFCMH---SGC   79 (132)
T ss_dssp             CCCTHHHHTSTTTTTTTTTCEEEEECTTCEEECTTCCCCCEEEEEESEEEEEEEETTEEEEEEEEETTCEEESC---SSC
T ss_pred             CcChhHhCCHHHHHHHHHhCEEEEecCCcEEECCCCCCCEEEEEEeCeEeeeccccccceeecccccccccccc---ccc
Confidence            5789999999999999999999999999999999999999999999999973    2     244488888873   477


Q ss_pred             eeeeecCcccc
Q psy8804          85 FGLILNPSVSM   95 (114)
Q Consensus        85 ~~~~~~~~~~~   95 (114)
                      .+.++++++++
T Consensus        80 ~v~A~~~s~v~   90 (132)
T d1ft9a2          80 LVEATERTEVR   90 (132)
T ss_dssp             EEEESSCEEEE
T ss_pred             cceeccceeee
Confidence            77788887754

>d1i5za2 b.82.3.2 (A:6-137) Catabolite gene activator protein, N-terminal domain {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: cAMP-binding domain-like
family: cAMP-binding domain
domain: Catabolite gene activator protein, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.28  E-value=3.7e-12  Score=84.26  Aligned_cols=74  Identities=15%  Similarity=0.160  Sum_probs=61.6

Q ss_pred             CHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeecccC-----ceee
Q psy8804          22 RDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFNVFS-----PVFG   86 (114)
Q Consensus        22 ~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~~~~-----~~~~   86 (114)
                      ++++++.+++.+..++|++|++||+|||+.+++|+|++|.|++.     |+     ...||+.||+.+.+.     +..+
T Consensus         2 sd~~le~l~~~~~~~~~~~g~~i~~~g~~~~~iy~i~~G~v~~~~~~~~g~e~~l~~~~~G~~~G~~~~~~~~~~~~~~~   81 (132)
T d1i5za2           2 TDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGQERSAWV   81 (132)
T ss_dssp             CCHHHHHHHTTSEEEEECTTCEEECTTSBCCEEEEEEECCEEEEEECTTCCEEEEEEECTTCEESCTTTTSSSCBCCSEE
T ss_pred             CHHHHHHHHHhCEEEEECcCCEEEcCCCCCCEEEEEEEccceeeeccccchhhhhhhhCcccccchHHHhcCCccceEEE
Confidence            57899999999999999999999999999999999999999963     32     345999999877775     3355


Q ss_pred             eeecCcccc
Q psy8804          87 LILNPSVSM   95 (114)
Q Consensus        87 ~~~~~~~~~   95 (114)
                      .+++++.++
T Consensus        82 ~a~~~~~v~   90 (132)
T d1i5za2          82 RAKTACEVA   90 (132)
T ss_dssp             EESSCEEEE
T ss_pred             EEccceEEE
Confidence            677776643

>d2oz6a2 b.82.3.2 (A:9-142) Cyclic AMP receptor-like protein Vfr {Pseudomonas aeruginosa [TaxId: 287]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: cAMP-binding domain-like
family: cAMP-binding domain
domain: Cyclic AMP receptor-like protein Vfr
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=99.26  E-value=5.2e-12  Score=84.50  Aligned_cols=72  Identities=17%  Similarity=0.187  Sum_probs=60.3

Q ss_pred             HHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeecccC--------cee
Q psy8804          24 SVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFNVFS--------PVF   85 (114)
Q Consensus        24 ~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~~~~--------~~~   85 (114)
                      +++++|+..+..++|++|++||+|||+++.+|+|++|.|++.     |+     ...||+.||+...+.        ++.
T Consensus         3 ~~le~l~~~~~~~~~~~g~~i~~~g~~~~~~y~i~~G~v~v~~~~~~g~~~~~~~~~~g~~~G~~~~~~~~~~~~~~~~~   82 (134)
T d2oz6a2           3 KHLDKLLAHCHRRRYTAKSTIIYAGDRCETLFFIIKGSVTILIEDDDGREMIIGYLNSGDFFGELGLFEKEGSEQERSAW   82 (134)
T ss_dssp             HHHHHHHHSSEEEEECTTCEEECTTSBCCEEEEEEESEEEEEEECTTSCEEEEEEEETTCEESCTTTCC-----CBCCSE
T ss_pred             HHHHHHHHhCEEEEECCCCEEEeCCCcCCEEEEEEEcccceeeeecccccceeeeccCCCccchHHHhcCccccccceeE
Confidence            678899999999999999999999999999999999999974     32     334999999888774        456


Q ss_pred             eeeecCcccc
Q psy8804          86 GLILNPSVSM   95 (114)
Q Consensus        86 ~~~~~~~~~~   95 (114)
                      +.++++++++
T Consensus        83 ~~a~~~~~vl   92 (134)
T d2oz6a2          83 VRAKVECEVA   92 (134)
T ss_dssp             EEESSCEEEE
T ss_pred             EEECCCEEEE
Confidence            6777777654

>d3e5ua2 b.82.3.2 (A:9-147) Chlorophenol reduction protein CprK {Desulfitobacterium hafniense [TaxId: 49338]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: cAMP-binding domain-like
family: cAMP-binding domain
domain: Chlorophenol reduction protein CprK
species: Desulfitobacterium hafniense [TaxId: 49338]

Probab=99.20  E-value=5.1e-12  Score=85.29  Aligned_cols=81  Identities=16%  Similarity=0.146  Sum_probs=64.7

Q ss_pred             CCCCCCCCCHHHHHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----Cc-----ccCCCCcceeecccC-
Q psy8804          14 GLEALAPYRDSVLRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----GS-----MFLPQSRNFVFNVFS-   82 (114)
Q Consensus        14 ~v~lF~~L~~~~l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g~-----~~~p~~~fg~~~~~~-   82 (114)
                      .+.-|.-++.++++.+++.+..++|++|++|+++||+.+++|+|++|+|++.     |+     ...||+.||+...+. 
T Consensus         5 ~~~p~~~~p~e~l~~l~~~~~~~~y~kg~~i~~~g~~~~~~y~v~~G~v~~~~~~~~g~~~~l~~~~~g~~~g~~~~~~~   84 (139)
T d3e5ua2           5 AIIPDNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLDIIFEDGSEKLLYYAGGNSLIGKLYPTGN   84 (139)
T ss_dssp             CSSSBSCSCCGGGGGGGGGSEEEEECTTCEEECTTCCCCSEEEEEESEEEEEEECTTSCEEEEEEEETTCEECCCSCCSC
T ss_pred             hcCCCCCCCHHHHHHHHHhCEEEEECCCCEEEeCCCCCCEEEEEEeccceEEEeeccccccceeeccccceeehhhhhcc
Confidence            3344777888999999999999999999999999999999999999999962     43     445999999865543 


Q ss_pred             ceeeeeecCccc
Q psy8804          83 PVFGLILNPSVS   94 (114)
Q Consensus        83 ~~~~~~~~~~~~   94 (114)
                      +..+.+++++++
T Consensus        85 ~~~~~a~~~~~v   96 (139)
T d3e5ua2          85 NIYATAMEPTRT   96 (139)
T ss_dssp             EEEEEESSCEEE
T ss_pred             cccccccccceE
Confidence            444556666553

>d1o5la1 b.82.3.2 (A:1-129) CRP-like transcriptional regulator TM1171, N-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: cAMP-binding domain-like
family: cAMP-binding domain
domain: CRP-like transcriptional regulator TM1171, N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.13  E-value=1.9e-11  Score=80.42  Aligned_cols=70  Identities=19%  Similarity=0.157  Sum_probs=58.4

Q ss_pred             HHHHHhhcceeEecCCCEEEecCCCCCeEEEEEeeeEEEe-----C-----cccCCCCcceeecccC-----ceeeeeec
Q psy8804          26 LRSLCRVVRYERHQANDVLYYTGELSTSWYILLSGSVFID-----G-----SMFLPQSRNFVFNVFS-----PVFGLILN   90 (114)
Q Consensus        26 l~~La~~~~~~~~~~G~~If~qGd~~~~~yiIlsG~VkI~-----g-----~~~~p~~~fg~~~~~~-----~~~~~~~~   90 (114)
                      +++|+..+..+.|++|++||++||+++++|+|++|.|++.     |     ....||+.||+.+.|.     +..+.+++
T Consensus         3 l~~l~~~~~~~~~~kg~~l~~~g~~~~~~y~i~~G~v~~~~~~~~g~~~~~~~~~~g~~~g~~~~~~~~~~~~~~~~a~~   82 (129)
T d1o5la1           3 LKKLLPCGKVIVFRKGEIVKHQDDPIEDVLILLEGTLKTEHVSENGKTLEIDEIKPVQIIASGFIFSSEPRFPVNVVAGE   82 (129)
T ss_dssp             GGGGGGGSEEEEECTTCEEECTTCBCCEEEEEEESCEEEEEECTTSCEEEEEEECSSEESSGGGTTSSSCBCSSEEEESS
T ss_pred             HHHHHhCCEEEEECCCCEEEECCCcCcEEEEEeccccEEEEeecccccchhhhcccccccchHHHhccCCCccEEEEeec
Confidence            5678899999999999999999999999999999999963     3     2455999999988885     33567777


Q ss_pred             Ccccc
Q psy8804          91 PSVSM   95 (114)
Q Consensus        91 ~~~~~   95 (114)
                      +++++
T Consensus        83 ~~~vl   87 (129)
T d1o5la1          83 NSKIL   87 (129)
T ss_dssp             SEEEE
T ss_pred             ccEEE
Confidence            77754