Psyllid ID: psy680

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120--
Protein Sequence
MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETVNLQKKKEKKKKKKKKKKKKKKKKKKKAEIERKRY
Secondary Structure (PSIPRED)
cHHHHHHHHHccHHHHHHHHHHHHHHHHcccEEEEEEEEEccccEEEEEEEEEccccccccccccccEEEEEcccccHHHHHHcccEEEcccccccccccHHHHHHcccEEEccEEEccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHcccHHHHHHHHHHHHHHHHHcccEEEEEEEcccccccEEEEEEEEccccccEEccccccEEEEcccEEEEEEEEcccEEEccccccccccccHHHcccccccccccEEEEccc
Coil and Loop (DISEMBL)
MAIVRDIARdldlkslskktVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFdlhsgaglvystadevevpwgvGILGHVAVTGETVNLQKKKEKKKKKKKKKKKKKKKKKKKAEIERKRY
Flexible Loop (DISEMBL)
maivrdiardldlkslskktvdnvsvlldadgaslffverrrggkkcLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHvavtgetvnlqkkkekkkkkkkkkkkkkkkkkkkaeierkry
Low Complexity Region (SEG)
MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETVNLQkkkekkkkkkkkkkkkkkkkkkkAEIERKRY
Disordered region (IsUnstruct)
*******************TVDNVSVLLDADGASLFFV*********LVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGET***********************************
Disordered Region (DISOPRED)
MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGL*Y*TADEVEVPWGVGILGHVAVTGETVNLQKKKEKKKKKKKKKKKKKKKKKKKAEIE****
Disordered Region (DISEMBL)
MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETV**********************************
Disordered Region (DISPRO)
MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETVNLQKKKEKKKKKKKKKKKKKKKKKKKAEIE****
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGExxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxY
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	122	2.2.26 [Sep-21-2011]
Q9HCR9	933	Dual 3',5'-cyclic-AMP and	yes	N/A	0.803	0.105	0.460	4e-18
P0C1Q2	933	Dual 3',5'-cyclic-AMP and	yes	N/A	0.803	0.105	0.460	5e-18
Q8VID6	935	Dual 3',5'-cyclic-AMP and	yes	N/A	0.803	0.104	0.460	5e-18
Q1KKS3	903	Dual 3',5'-cyclic-AMP and	N/A	N/A	0.795	0.107	0.484	1e-17
Q9VJ79	1451	Dual 3',5'-cyclic-AMP and	no	N/A	0.721	0.060	0.473	1e-15
Q28156	865	cGMP-specific 3',5'-cycli	no	N/A	0.803	0.113	0.326	1e-09
O54735	833	cGMP-specific 3',5'-cycli	no	N/A	0.803	0.117	0.336	1e-09
O77746	865	cGMP-specific 3',5'-cycli	no	N/A	0.803	0.113	0.326	1e-09
B4JXX2	1078	cGMP-specific 3',5'-cycli	N/A	N/A	0.745	0.084	0.364	2e-09
Q8CG03	865	cGMP-specific 3',5'-cycli	no	N/A	0.803	0.113	0.326	2e-09

>sp|Q9HCR9|PDE11_HUMAN Dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11A OS=Homo sapiens GN=PDE11A PE=1 SV=2

 Score = 90.1 bits (222), Expect = 4e-18,   Method: Composition-based stats.
 Identities = 47/102 (46%), Positives = 67/102 (65%), Gaps = 4/102 (3%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           + +V+DI+ DLDL SLS K +  V +++DAD  SLF VE    GKK LVSK FD+H+G  
Sbjct: 206 LELVKDISNDLDLTSLSYKILIFVCLMVDADRCSLFLVEGAAAGKKTLVSKFFDVHAGTP 265

Query: 61  LV----YSTADEVEVPWGVGILGHVAVTGETVNLQKKKEKKK 98
           L+       ++EV+VPWG GI+G+V   GETVN+    + ++
Sbjct: 266 LLPCSSTENSNEVQVPWGKGIIGYVGEHGETVNIPDAYQDRR 307

Plays a role in signal transduction by regulating the intracellular concentration of cyclic nucleotides cAMP and cGMP. Catalyzes the hydrolysis of both cAMP and cGMP to 5'-AMP and 5'-GMP, respectively.
Homo sapiens (taxid: 9606)
EC: 3EC: .EC: 1EC: .EC: 4EC: .EC: 3EC: 5

>sp|P0C1Q2|PDE11_MOUSE Dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11A OS=Mus musculus GN=Pde11a PE=1 SV=1

 Score = 89.7 bits (221), Expect = 5e-18,   Method: Composition-based stats.
 Identities = 47/102 (46%), Positives = 67/102 (65%), Gaps = 4/102 (3%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           + +V+DI+ DLDL SLS K +  V +++DAD  SLF VE    GKK LVSK FD+H+G  
Sbjct: 206 LELVKDISNDLDLTSLSYKILIFVCLMVDADRCSLFLVEGAAAGKKTLVSKFFDVHAGTP 265

Query: 61  LV----YSTADEVEVPWGVGILGHVAVTGETVNLQKKKEKKK 98
           L+       ++EV+VPWG GI+G+V   GETVN+    + ++
Sbjct: 266 LLPCSSTENSNEVQVPWGKGIIGYVGEHGETVNIPDAYQDRR 307

Plays a role in signal transduction by regulating the intracellular concentration of cyclic nucleotides cAMP and cGMP. Catalyzes the hydrolysis of both cAMP and cGMP to 5'-AMP and 5'-GMP, respectively.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 1

EC: .

EC: 4

EC: .

EC: 3

EC: 5

>sp|Q8VID6|PDE11_RAT Dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11A OS=Rattus norvegicus GN=Pde11a PE=1 SV=1

 Score = 89.7 bits (221), Expect = 5e-18,   Method: Composition-based stats.
 Identities = 47/102 (46%), Positives = 67/102 (65%), Gaps = 4/102 (3%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           + +V+DI+ DLDL SLS K +  V +++DAD  SLF VE    GKK LVSK FD+H+G  
Sbjct: 206 LELVKDISNDLDLTSLSYKILIFVCLMVDADRCSLFLVEGAAAGKKTLVSKFFDVHAGTP 265

Query: 61  LV----YSTADEVEVPWGVGILGHVAVTGETVNLQKKKEKKK 98
           L+       ++EV+VPWG GI+G+V   GETVN+    + ++
Sbjct: 266 LLPCSTTENSNEVQVPWGKGIIGYVGEHGETVNIPDAYQDRR 307

Plays a role in signal transduction by regulating the intracellular concentration of cyclic nucleotides cAMP and cGMP. Catalyzes the hydrolysis of both cAMP and cGMP to 5'-AMP and 5'-GMP, respectively.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 1

EC: .

EC: 4

EC: .

EC: 3

EC: 5

>sp|Q1KKS3|PDE11_TAKRU Dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11A OS=Takifugu rubripes GN=pde11a PE=3 SV=1

 Score = 88.2 bits (217), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 48/99 (48%), Positives = 68/99 (68%), Gaps = 2/99 (2%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           + +V+DI+ DLDL SLS K +  V +++DAD  SLF VE   G KK LVSK FD+H+G  
Sbjct: 164 LELVKDISNDLDLTSLSYKILVFVCIMVDADRCSLFLVE-GTGNKKTLVSKFFDVHAGTT 222

Query: 61  LVYS-TADEVEVPWGVGILGHVAVTGETVNLQKKKEKKK 98
           ++ S  + EV+VPWG GI+G+VA  GETVN+    + ++
Sbjct: 223 VLPSMNSGEVQVPWGKGIIGYVAEHGETVNIPDAYQDRR 261

Plays a role in signal transduction by regulating the intracellular concentration of cyclic nucleotides cAMP and cGMP. Catalyzes the hydrolysis of both cAMP and cGMP to 5'-AMP and 5'-GMP, respectively.

Takifugu rubripes (taxid: 31033)

EC: 3

EC: .

EC: 1

EC: .

EC: 4

EC: .

EC: 3

EC: 5

>sp|Q9VJ79|PDE11_DROME Dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11 OS=Drosophila melanogaster GN=Pde11 PE=1 SV=4

 Score = 82.0 bits (201), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 44/93 (47%), Positives = 61/93 (65%), Gaps = 5/93 (5%)

Query: 3   IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGG----KKCLVSKVFDLHSG 58
           +V+DI  +L++++L  K + NVS+LL+AD  SLF V+ R  G    KKCLVSK+FD+   
Sbjct: 410 LVKDICNELEVRTLCHKILQNVSILLNADRGSLFLVQGRCNGPDGLKKCLVSKLFDVCPR 469

Query: 59  AGL-VYSTADEVEVPWGVGILGHVAVTGETVNL 90
           + +      DEV V WG GI GHVA +GE VN+
Sbjct: 470 STVEEMEQQDEVRVAWGTGIAGHVAESGEPVNI 502

Plays a role in signal transduction by regulating the intracellular concentration of cyclic nucleotides cAMP and cGMP. Catalyzes the hydrolysis of both cAMP and cGMP to 5'-AMP and 5'-GMP, respectively.

Drosophila melanogaster (taxid: 7227)

EC: 3

EC: .

EC: 1

EC: .

EC: 4

EC: .

EC: 3

EC: 5

>sp|Q28156|PDE5A_BOVIN cGMP-specific 3',5'-cyclic phosphodiesterase OS=Bos taurus GN=PDE5A PE=1 SV=1

 Score = 61.6 bits (148), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 32/98 (32%), Positives = 56/98 (57%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           + +V+DI+  LD+ +L  K   ++  L+ AD  SLF V       K L+S++FD+  G+ 
Sbjct: 143 LELVKDISSHLDVTALCHKIFLHIHGLISADRYSLFLVCEDSSNDKFLISRLFDVAEGST 202

Query: 61  LVYSTADEVEVPWGVGILGHVAVTGETVNLQKKKEKKK 98
           L  ++ + + + W  GI+GHVA  GE +N++   E  +
Sbjct: 203 LEEASNNCIRLEWNKGIVGHVAAFGEPLNIKDAYEDPR 240

Plays a role in signal transduction by regulating the intracellular concentration of cyclic nucleotides. This phosphodiesterase catalyzes the specific hydrolysis of cGMP to 5'-GMP.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 1

EC: .

EC: 4

EC: .

EC: 3

EC: 5

>sp|O54735|PDE5A_RAT cGMP-specific 3',5'-cyclic phosphodiesterase OS=Rattus norvegicus GN=Pde5a PE=2 SV=1

 Score = 61.6 bits (148), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 33/98 (33%), Positives = 56/98 (57%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           + +V+DI+  LD+ +L  K   ++  L+ AD  SLF V       K LVS++FD+  G+ 
Sbjct: 111 LELVKDISSHLDVTALCHKIFLHIHGLISADRYSLFLVCEDSSKDKFLVSRLFDVAEGST 170

Query: 61  LVYSTADEVEVPWGVGILGHVAVTGETVNLQKKKEKKK 98
           L  ++ + + + W  GI+GHVA  GE +N++   E  +
Sbjct: 171 LEEASNNCIRLEWNKGIVGHVAAFGEPLNIKDAYEDPR 208

Plays a role in signal transduction by regulating the intracellular concentration of cyclic nucleotides. This phosphodiesterase catalyzes the specific hydrolysis of cGMP to 5'-GMP.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 1

EC: .

EC: 4

EC: .

EC: 3

EC: 5

>sp|O77746|PDE5A_CANFA cGMP-specific 3',5'-cyclic phosphodiesterase OS=Canis familiaris GN=PDE5A PE=2 SV=1

 Score = 61.6 bits (148), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 32/98 (32%), Positives = 56/98 (57%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           + +V+DI+  LD+ +L  K   ++  L+ AD  SLF V       K L+S++FD+  G+ 
Sbjct: 143 LELVKDISSHLDVTALCHKIFLHIHGLISADRYSLFLVCEDSSNDKFLISRLFDVAEGST 202

Query: 61  LVYSTADEVEVPWGVGILGHVAVTGETVNLQKKKEKKK 98
           L  ++ + + + W  GI+GHVA  GE +N++   E  +
Sbjct: 203 LEEASNNCIRLEWNKGIVGHVAALGEPLNIKDAYEDPR 240

Plays a role in signal transduction by regulating the intracellular concentration of cyclic nucleotides. This phosphodiesterase catalyzes the specific hydrolysis of cGMP to 5'-GMP.

Canis familiaris (taxid: 9615)

EC: 3

EC: .

EC: 1

EC: .

EC: 4

EC: .

EC: 3

EC: 5

>sp|B4JXX2|PDE6_DROGR cGMP-specific 3',5'-cyclic phosphodiesterase OS=Drosophila grimshawi GN=Pde6 PE=3 SV=1

 Score = 61.6 bits (148), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 35/96 (36%), Positives = 56/96 (58%), Gaps = 5/96 (5%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           M ++RD+A +LD+  L  K + NV +L  AD  SLF   +     K LV+K+FD+     
Sbjct: 185 MELIRDVANELDIDVLCHKILVNVGLLTHADRGSLFLA-KGTPNNKYLVAKLFDVTQKTA 243

Query: 61  L----VYSTADEVEVPWGVGILGHVAVTGETVNLQK 92
           L      + A+E+ +P+G+GI G VA T E +N+++
Sbjct: 244 LKDAVTRARAEEIIIPFGIGIAGMVAQTKEMINIKE 279

Has a role regulating cGMP transport in Malpighian tubule principal cells.

Drosophila grimshawi (taxid: 7222)

EC: 3

EC: .

EC: 1

EC: .

EC: 4

EC: .

EC: 3

EC: 5

>sp|Q8CG03|PDE5A_MOUSE cGMP-specific 3',5'-cyclic phosphodiesterase OS=Mus musculus GN=Pde5a PE=1 SV=2

 Score = 61.2 bits (147), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 32/98 (32%), Positives = 56/98 (57%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           + +V+DI+  LD+ +L  K   ++  L+ AD  SLF V       K L+S++FD+  G+ 
Sbjct: 143 LELVKDISSHLDVTALCHKIFLHIHGLISADRYSLFLVCEDSSKDKFLISRLFDVAEGST 202

Query: 61  LVYSTADEVEVPWGVGILGHVAVTGETVNLQKKKEKKK 98
           L  ++ + + + W  GI+GHVA  GE +N++   E  +
Sbjct: 203 LEEASNNCIRLEWNKGIVGHVAAFGEPLNIKDAYEDPR 240

Plays a role in signal transduction by regulating the intracellular concentration of cyclic nucleotides. This phosphodiesterase catalyzes the specific hydrolysis of cGMP to 5'-GMP.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 1

EC: .

EC: 4

EC: .

EC: 3

EC: 5

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	122
242014746	916	dual 3',5'-cyclic-AMP and -GMP phosphodi	0.803	0.106	0.628	5e-27
193685899	929	PREDICTED: dual 3',5'-cyclic-AMP and -GM	0.737	0.096	0.555	6e-23
432107295	312	Dual 3',5'-cyclic-AMP and -GMP phosphodi	0.737	0.288	0.510	8e-19
402888751	333	PREDICTED: dual 3',5'-cyclic-AMP and -GM	0.737	0.270	0.510	1e-18
405958962	883	Dual 3',5'-cyclic-AMP and -GMP phosphodi	0.721	0.099	0.544	2e-18
426222463	310	PREDICTED: dual 3',5'-cyclic-AMP and -GM	0.737	0.290	0.5	1e-17
395732534	361	PREDICTED: dual 3',5'-cyclic-AMP and -GM	0.803	0.271	0.460	1e-17
431894948	326	Dual 3',5'-cyclic-AMP and -GMP phosphodi	0.737	0.276	0.5	1e-17
410035925	333	PREDICTED: dual 3',5'-cyclic-AMP and -GM	0.737	0.270	0.5	1e-17
109100215	933	PREDICTED: dual 3',5'-cyclic-AMP and -GM	0.803	0.105	0.470	2e-17

>gi|242014746|ref|XP_002428046.1| dual 3',5'-cyclic-AMP and -GMP phosphodiesterase, putative [Pediculus humanus corporis] gi|212512565|gb|EEB15308.1| dual 3',5'-cyclic-AMP and -GMP phosphodiesterase, putative [Pediculus humanus corporis]

 Score =  124 bits (312), Expect = 5e-27,   Method: Composition-based stats.
 Identities = 66/105 (62%), Positives = 79/105 (75%), Gaps = 7/105 (6%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGA- 59
           ++IVRDIA +LDLKSLS KTVDN++VLLD DGASLF VE  +GG++ LVSKVFD+HSGA 
Sbjct: 202 LSIVRDIATELDLKSLSHKTVDNLAVLLDTDGASLFLVEGHKGGRQKLVSKVFDVHSGAS 261

Query: 60  ------GLVYSTADEVEVPWGVGILGHVAVTGETVNLQKKKEKKK 98
                 G      +EV+VPWGVG+LGHVA TGETVNLQ   E  +
Sbjct: 262 TFLLPGGKNTGNDNEVQVPWGVGVLGHVADTGETVNLQVACEDSR 306

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|193685899|ref|XP_001952168.1| PREDICTED: dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11A [Acyrthosiphon pisum]

 Score =  111 bits (277), Expect = 6e-23,   Method: Composition-based stats.
 Identities = 60/108 (55%), Positives = 73/108 (67%), Gaps = 18/108 (16%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVE--RRRGGKKCLVSKVFDLHSG 58
           + +VRDIA DLDLKSLS+K VD+++VLLD D  SLF V+   R   ++CLVSKVFD+HSG
Sbjct: 207 LTVVRDIATDLDLKSLSQKIVDDLAVLLDCDAGSLFLVDGPPRGSRRRCLVSKVFDVHSG 266

Query: 59  A----------------GLVYSTADEVEVPWGVGILGHVAVTGETVNL 90
           A                G   +T +EV +PWGVGILGHVA TGETVNL
Sbjct: 267 ARGQFLLPDGVQCEVAGGPPTTTDNEVRIPWGVGILGHVASTGETVNL 314

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|432107295|gb|ELK32709.1| Dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11A [Myotis davidii]

 Score = 97.4 bits (241), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 48/94 (51%), Positives = 67/94 (71%), Gaps = 4/94 (4%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           + +V+DI+ DLDL SLS K +  V +++DAD  SLF VER   GKK LVSK+FD+H+G  
Sbjct: 201 LELVKDISNDLDLTSLSYKILIFVCLMVDADRCSLFLVERVAAGKKSLVSKLFDVHAGTP 260

Query: 61  LVYST----ADEVEVPWGVGILGHVAVTGETVNL 90
           L+  +    ++EV+VPWG GI+G+V   GETVN+
Sbjct: 261 LLPCSSTENSNEVQVPWGKGIIGYVGEHGETVNI 294

Source: Myotis davidii

Species: Myotis davidii

Genus: Myotis

Family: Vespertilionidae

Order: Chiroptera

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|402888751|ref|XP_003907712.1| PREDICTED: dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11A-like [Papio anubis]

 Score = 96.7 bits (239), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 48/94 (51%), Positives = 66/94 (70%), Gaps = 4/94 (4%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           + +V+DI+ DLDL SLS K +  V +++DAD  SLF VER   GKK LVSK FD+H+G  
Sbjct: 206 LELVKDISNDLDLTSLSYKILIFVCLMVDADRCSLFLVERAAAGKKTLVSKFFDVHAGTP 265

Query: 61  LVYST----ADEVEVPWGVGILGHVAVTGETVNL 90
           L+  +    ++EV+VPWG GI+G+V   GETVN+
Sbjct: 266 LLPCSSTENSNEVQVPWGKGIIGYVGEHGETVNI 299

Source: Papio anubis

Species: Papio anubis

Genus: Papio

Family: Cercopithecidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|405958962|gb|EKC25040.1| Dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11A [Crassostrea gigas]

 Score = 96.3 bits (238), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 49/90 (54%), Positives = 67/90 (74%), Gaps = 2/90 (2%)

Query: 3   IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLV 62
           IV+DI+ DLDL+SLS+K V N+SVL+D D  S+F VE R   K  LVSK+FD+HSG  ++
Sbjct: 178 IVKDISNDLDLRSLSQKIVANISVLVDGDAGSVFVVEGRGTAKPSLVSKLFDVHSGTHIL 237

Query: 63  YSTADE--VEVPWGVGILGHVAVTGETVNL 90
            ++  +  + VPWG GI+GHVA TG+TV+L
Sbjct: 238 PTSVGDGSITVPWGKGIIGHVAETGDTVSL 267

Source: Crassostrea gigas

Species: Crassostrea gigas

Genus: Crassostrea

Family: Ostreidae

Order: Ostreoida

Class: Bivalvia

Phylum: Mollusca

Superkingdom: Eukaryota

>gi|426222463|ref|XP_004005411.1| PREDICTED: dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11A-like [Ovis aries]

 Score = 94.0 bits (232), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 47/94 (50%), Positives = 65/94 (69%), Gaps = 4/94 (4%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           + +V+DI+ DLDL SLS K +  V +++DAD  SLF VE    GKK LVSK FD+H+G  
Sbjct: 184 LELVKDISNDLDLTSLSYKILIFVCLMVDADRCSLFLVEGAAAGKKSLVSKFFDVHAGTP 243

Query: 61  LVYST----ADEVEVPWGVGILGHVAVTGETVNL 90
           L+  +    ++EV+VPWG GI+G+V   GETVN+
Sbjct: 244 LLPCSSTENSNEVQVPWGKGIIGYVGEHGETVNI 277

Source: Ovis aries

Species: Ovis aries

Genus: Ovis

Family: Bovidae

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|395732534|ref|XP_002812683.2| PREDICTED: dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11A-like [Pongo abelii]

 Score = 94.0 bits (232), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 47/102 (46%), Positives = 68/102 (66%), Gaps = 4/102 (3%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           + +V+DI+ DLDL SLS K +  V +++DAD  SLF VE    GKK LVSK FD+H+G  
Sbjct: 206 LELVKDISNDLDLTSLSYKILIFVCLMVDADRCSLFLVEGAAAGKKSLVSKFFDVHAGTP 265

Query: 61  LVYST----ADEVEVPWGVGILGHVAVTGETVNLQKKKEKKK 98
           L+  +    ++EV+VPWG GI+G+V   GETVN+    + ++
Sbjct: 266 LLPCSSTENSNEVQVPWGKGIIGYVGEHGETVNIPDAYQDRR 307

Source: Pongo abelii

Species: Pongo abelii

Genus: Pongo

Family: Hominidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|431894948|gb|ELK04741.1| Dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11A [Pteropus alecto]

 Score = 93.6 bits (231), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 47/94 (50%), Positives = 65/94 (69%), Gaps = 4/94 (4%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           + +V+DI+ DLDL SLS K +  V +++DAD  SLF VE    GKK LVSK FD+H+G  
Sbjct: 206 LELVKDISNDLDLTSLSYKILIFVCLMVDADRCSLFLVEGAAAGKKSLVSKFFDVHAGTP 265

Query: 61  LVYST----ADEVEVPWGVGILGHVAVTGETVNL 90
           L+  +    ++EV+VPWG GI+G+V   GETVN+
Sbjct: 266 LLPCSSTENSNEVQVPWGKGIIGYVGEHGETVNI 299

Source: Pteropus alecto

Species: Pteropus alecto

Genus: Pteropus

Family: Pteropodidae

Order: Chiroptera

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|410035925|ref|XP_003949973.1| PREDICTED: dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11A-like [Pan troglodytes]

 Score = 93.6 bits (231), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 47/94 (50%), Positives = 65/94 (69%), Gaps = 4/94 (4%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           + +V+DI+ DLDL SLS K +  V +++DAD  SLF VE    GKK LVSK FD+H+G  
Sbjct: 206 LELVKDISNDLDLTSLSYKILIFVCLMVDADRCSLFLVEGAAAGKKSLVSKFFDVHAGTP 265

Query: 61  LVYST----ADEVEVPWGVGILGHVAVTGETVNL 90
           L+  +    ++EV+VPWG GI+G+V   GETVN+
Sbjct: 266 LLPCSSTENSNEVQVPWGKGIIGYVGEHGETVNI 299

Source: Pan troglodytes

Species: Pan troglodytes

Genus: Pan

Family: Hominidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|109100215|ref|XP_001097592.1| PREDICTED: dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11A isoform 2 [Macaca mulatta] gi|355565006|gb|EHH21495.1| hypothetical protein EGK_04577 [Macaca mulatta] gi|355750657|gb|EHH54984.1| hypothetical protein EGM_04103 [Macaca fascicularis]

 Score = 93.2 bits (230), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 48/102 (47%), Positives = 68/102 (66%), Gaps = 4/102 (3%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           + +V+DI+ DLDL SLS K +  V +++DAD  SLF VER   GKK LVSK FD+H+G  
Sbjct: 206 LELVKDISNDLDLTSLSYKILIFVCLMVDADRCSLFLVERAAAGKKSLVSKFFDVHAGTP 265

Query: 61  LV----YSTADEVEVPWGVGILGHVAVTGETVNLQKKKEKKK 98
           L+       ++EV+VPWG GI+G+V   GETVN+    + ++
Sbjct: 266 LLPCSSTENSNEVQVPWGKGIIGYVGEHGETVNIPDAYQDRR 307

Source: Macaca mulatta

Species: Macaca mulatta

Genus: Macaca

Family: Cercopithecidae

Order: Primates

Class: Mammalia

Phylum: Chordata

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	122
UNIPROTKB|F1NEV1	855	PDE11A "Uncharacterized protei	0.737	0.105	0.542	5.1e-18
UNIPROTKB|F6UTJ5	933	PDE11A "Uncharacterized protei	0.737	0.096	0.531	7.4e-18
UNIPROTKB|F6XAJ1	365	PDE11A "Uncharacterized protei	0.737	0.246	0.5	3.4e-17
UNIPROTKB|E2R989	888	PDE11A "Uncharacterized protei	0.737	0.101	0.521	3.9e-17
UNIPROTKB|E1BPD8	928	PDE11A "Uncharacterized protei	0.737	0.096	0.521	4.1e-17
UNIPROTKB|Q9HCR9	933	PDE11A "Dual 3',5'-cyclic-AMP	0.737	0.096	0.521	4.2e-17
UNIPROTKB|F7HZP8	933	PDE11A "Uncharacterized protei	0.737	0.096	0.521	4.2e-17
MGI|MGI:3036251	933	Pde11a "phosphodiesterase 11A"	0.737	0.096	0.521	4.2e-17
RGD|621793	935	Pde11a "phosphodiesterase 11A"	0.737	0.096	0.521	4.2e-17
ZFIN|ZDB-GENE-070912-207	878	pde11a "phosphodiesterase 11a"	0.729	0.101	0.521	4.9e-17

UNIPROTKB|F1NEV1 PDE11A "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 230 (86.0 bits), Expect = 5.1e-18, P = 5.1e-18
 Identities = 51/94 (54%), Positives = 67/94 (71%)

Query:     1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
             + +V+DI+ DLDL SLS KT+  V +++DAD  SLF VE    GKK LVSK FD+H+G  
Sbjct:   126 LELVKDISNDLDLTSLSYKTLIFVCLMVDADRGSLFLVEGAAAGKKSLVSKFFDVHAGTP 185

Query:    61 LVY--ST--ADEVEVPWGVGILGHVAVTGETVNL 90
             L+   ST  + EV+VPWG GI+G+VA  GETVN+
Sbjct:   186 LLPCGSTENSSEVQVPWGKGIIGYVAEHGETVNI 219

GO:0007165 "signal transduction" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0004118 "cGMP-stimulated cyclic-nucleotide phosphodiesterase activity" evidence=IEA

UNIPROTKB|F6UTJ5 PDE11A "Uncharacterized protein" [Macaca mulatta (taxid:9544)]

 Score = 229 (85.7 bits), Expect = 7.4e-18, P = 7.4e-18
 Identities = 50/94 (53%), Positives = 67/94 (71%)

Query:     1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
             + +V+DI+ DLDL SLS K +  V +++DAD  SLF VER   GKK LVSK FD+H+G  
Sbjct:   206 LELVKDISNDLDLTSLSYKILIFVCLMVDADRCSLFLVERAAAGKKSLVSKFFDVHAGTP 265

Query:    61 LV--YST--ADEVEVPWGVGILGHVAVTGETVNL 90
             L+   ST  ++EV+VPWG GI+G+V   GETVN+
Sbjct:   266 LLPCSSTENSNEVQVPWGKGIIGYVGEHGETVNI 299

GO:0004118 "cGMP-stimulated cyclic-nucleotide phosphodiesterase activity" evidence=ISS

GO:0030553 "cGMP binding" evidence=ISS

UNIPROTKB|F6XAJ1 PDE11A "Uncharacterized protein" [Monodelphis domestica (taxid:13616)]

 Score = 214 (80.4 bits), Expect = 3.4e-17, P = 3.4e-17
 Identities = 47/94 (50%), Positives = 65/94 (69%)

Query:     1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
             + +V++I+ DLDL SLS K +  V +++DAD  SLF VE    GKK LVSK FD+H+G  
Sbjct:   211 LELVKEISNDLDLTSLSYKILIFVCLMVDADRCSLFLVEGTASGKKSLVSKFFDVHAGTP 270

Query:    61 LV--YST--ADEVEVPWGVGILGHVAVTGETVNL 90
              +   ST  ++EV+VPWG GI+G+V   GETVN+
Sbjct:   271 FLPCSSTENSNEVQVPWGKGIIGYVGEHGETVNI 304

GO:0004118 "cGMP-stimulated cyclic-nucleotide phosphodiesterase activity" evidence=ISS

GO:0030553 "cGMP binding" evidence=ISS

UNIPROTKB|E2R989 PDE11A "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 222 (83.2 bits), Expect = 3.9e-17, P = 3.9e-17
 Identities = 49/94 (52%), Positives = 66/94 (70%)

Query:     1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
             + +V+DI+ DLDL SLS K +  V +++DAD  SLF VE    GKK LVSK FD+H+G  
Sbjct:   199 LELVKDISNDLDLTSLSYKILIFVCLMVDADRCSLFLVEGAAAGKKSLVSKFFDVHAGTP 258

Query:    61 LV--YST--ADEVEVPWGVGILGHVAVTGETVNL 90
             L+   ST  ++EV+VPWG GI+G+V   GETVN+
Sbjct:   259 LLPCSSTENSNEVQVPWGKGIIGYVGEHGETVNI 292

GO:0030553 "cGMP binding" evidence=ISS

GO:0004118 "cGMP-stimulated cyclic-nucleotide phosphodiesterase activity" evidence=ISS

GO:0046872 "metal ion binding" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

UNIPROTKB|E1BPD8 PDE11A "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 222 (83.2 bits), Expect = 4.1e-17, P = 4.1e-17
 Identities = 49/94 (52%), Positives = 66/94 (70%)

Query:     1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
             + +V+DI+ DLDL SLS K +  V +++DAD  SLF VE    GKK LVSK FD+H+G  
Sbjct:   198 LELVKDISNDLDLTSLSYKILIFVCLMVDADRCSLFLVEGAAAGKKSLVSKFFDVHAGTP 257

Query:    61 LV--YST--ADEVEVPWGVGILGHVAVTGETVNL 90
             L+   ST  ++EV+VPWG GI+G+V   GETVN+
Sbjct:   258 LLPCSSTENSNEVQVPWGKGIIGYVGEHGETVNI 291

GO:0030553 "cGMP binding" evidence=ISS

GO:0004118 "cGMP-stimulated cyclic-nucleotide phosphodiesterase activity" evidence=ISS

GO:0046872 "metal ion binding" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

UNIPROTKB|Q9HCR9 PDE11A "Dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11A" [Homo sapiens (taxid:9606)]

 Score = 222 (83.2 bits), Expect = 4.2e-17, P = 4.2e-17
 Identities = 49/94 (52%), Positives = 66/94 (70%)

Query:     1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
             + +V+DI+ DLDL SLS K +  V +++DAD  SLF VE    GKK LVSK FD+H+G  
Sbjct:   206 LELVKDISNDLDLTSLSYKILIFVCLMVDADRCSLFLVEGAAAGKKTLVSKFFDVHAGTP 265

Query:    61 LV--YST--ADEVEVPWGVGILGHVAVTGETVNL 90
             L+   ST  ++EV+VPWG GI+G+V   GETVN+
Sbjct:   266 LLPCSSTENSNEVQVPWGKGIIGYVGEHGETVNI 299

GO:0007165 "signal transduction" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0047555 "3',5'-cyclic-GMP phosphodiesterase activity" evidence=IEA

GO:0006198 "cAMP catabolic process" evidence=IEA

GO:0030552 "cAMP binding" evidence=IEA

GO:0043204 "perikaryon" evidence=IEA

GO:0046069 "cGMP catabolic process" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0004112 "cyclic-nucleotide phosphodiesterase activity" evidence=NAS

GO:0030553 "cGMP binding" evidence=IDA

GO:0004118 "cGMP-stimulated cyclic-nucleotide phosphodiesterase activity" evidence=IDA

GO:0004114 "3',5'-cyclic-nucleotide phosphodiesterase activity" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0007596 "blood coagulation" evidence=TAS

UNIPROTKB|F7HZP8 PDE11A "Uncharacterized protein" [Callithrix jacchus (taxid:9483)]

 Score = 222 (83.2 bits), Expect = 4.2e-17, P = 4.2e-17
 Identities = 49/94 (52%), Positives = 66/94 (70%)

Query:     1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
             + +V+DI+ DLDL SLS K +  V +++DAD  SLF VE    GKK LVSK FD+H+G  
Sbjct:   206 LELVKDISNDLDLTSLSYKILIFVCLMVDADRCSLFLVEGAAAGKKSLVSKFFDVHAGTP 265

Query:    61 LV--YST--ADEVEVPWGVGILGHVAVTGETVNL 90
             L+   ST  ++EV+VPWG GI+G+V   GETVN+
Sbjct:   266 LLPCSSTENSNEVQVPWGKGIIGYVGEHGETVNI 299

GO:0004118 "cGMP-stimulated cyclic-nucleotide phosphodiesterase activity" evidence=ISS

GO:0030553 "cGMP binding" evidence=ISS

MGI|MGI:3036251 Pde11a "phosphodiesterase 11A" [Mus musculus (taxid:10090)]

 Score = 222 (83.2 bits), Expect = 4.2e-17, P = 4.2e-17
 Identities = 49/94 (52%), Positives = 66/94 (70%)

Query:     1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
             + +V+DI+ DLDL SLS K +  V +++DAD  SLF VE    GKK LVSK FD+H+G  
Sbjct:   206 LELVKDISNDLDLTSLSYKILIFVCLMVDADRCSLFLVEGAAAGKKTLVSKFFDVHAGTP 265

Query:    61 LV--YST--ADEVEVPWGVGILGHVAVTGETVNL 90
             L+   ST  ++EV+VPWG GI+G+V   GETVN+
Sbjct:   266 LLPCSSTENSNEVQVPWGKGIIGYVGEHGETVNI 299

GO:0003824 "catalytic activity" evidence=IEA

GO:0004112 "cyclic-nucleotide phosphodiesterase activity" evidence=ISO

GO:0004114 "3',5'-cyclic-nucleotide phosphodiesterase activity" evidence=IEA

GO:0004118 "cGMP-stimulated cyclic-nucleotide phosphodiesterase activity" evidence=ISO

GO:0005737 "cytoplasm" evidence=IEA

GO:0006198 "cAMP catabolic process" evidence=ISO

GO:0007165 "signal transduction" evidence=IEA

GO:0008081 "phosphoric diester hydrolase activity" evidence=IEA

GO:0008152 "metabolic process" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0030552 "cAMP binding" evidence=ISO

GO:0030553 "cGMP binding" evidence=ISO

GO:0043204 "perikaryon" evidence=ISO

GO:0046069 "cGMP catabolic process" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

GO:0047555 "3',5'-cyclic-GMP phosphodiesterase activity" evidence=IEA

RGD|621793 Pde11a "phosphodiesterase 11A" [Rattus norvegicus (taxid:10116)]

 Score = 222 (83.2 bits), Expect = 4.2e-17, P = 4.2e-17
 Identities = 49/94 (52%), Positives = 65/94 (69%)

Query:     1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
             + +V+DI+ DLDL SLS K +  V +++DAD  SLF VE    GKK LVSK FD+H+G  
Sbjct:   206 LELVKDISNDLDLTSLSYKILIFVCLMVDADRCSLFLVEGAAAGKKTLVSKFFDVHAGTP 265

Query:    61 LV-YSTAD---EVEVPWGVGILGHVAVTGETVNL 90
             L+  ST +   EV+VPWG GI+G+V   GETVN+
Sbjct:   266 LLPCSTTENSNEVQVPWGKGIIGYVGEHGETVNI 299

GO:0004112 "cyclic-nucleotide phosphodiesterase activity" evidence=IDA

GO:0004118 "cGMP-stimulated cyclic-nucleotide phosphodiesterase activity" evidence=ISO;ISS

GO:0005829 "cytosol" evidence=IEA

GO:0006198 "cAMP catabolic process" evidence=IDA

GO:0007165 "signal transduction" evidence=IEA

GO:0030552 "cAMP binding" evidence=IDA

GO:0030553 "cGMP binding" evidence=ISO;IDA

GO:0043204 "perikaryon" evidence=IDA

GO:0046069 "cGMP catabolic process" evidence=IDA

GO:0046872 "metal ion binding" evidence=IEA

GO:0047555 "3',5'-cyclic-GMP phosphodiesterase activity" evidence=IEA

ZFIN|ZDB-GENE-070912-207 pde11a "phosphodiesterase 11a" [Danio rerio (taxid:7955)]

 Score = 221 (82.9 bits), Expect = 4.9e-17, P = 4.9e-17
 Identities = 48/92 (52%), Positives = 65/92 (70%)

Query:     1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
             + +V+DI+ DLDL SLS K +  V +++DAD  SLF VE     KK LVSK FD+H+G  
Sbjct:   159 LELVKDISNDLDLTSLSYKILVFVCIMVDADRCSLFLVEGPTN-KKTLVSKFFDVHAGTT 217

Query:    61 LV--YSTADEVEVPWGVGILGHVAVTGETVNL 90
             ++   S +DEV+VPWG GI+G+VA  GETVN+
Sbjct:   218 VLPSLSNSDEVQVPWGKGIIGYVAEHGETVNI 249

GO:0003824 "catalytic activity" evidence=IEA

GO:0008081 "phosphoric diester hydrolase activity" evidence=IEA

GO:0004114 "3',5'-cyclic-nucleotide phosphodiesterase activity" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	122
smart00065	149	smart00065, GAF, Domain present in phytochromes an	2e-06
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	8e-05
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	3e-04
pfam08496	154	pfam08496, Peptidase_S49_N, Peptidase family S49 N	3e-04
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	5e-04
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	6e-04
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	7e-04
MTH00022	379	MTH00022, CYTB, cytochrome b; Validated	0.002
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	0.003
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	0.003

>gnl|CDD|214500 smart00065, GAF, Domain present in phytochromes and cGMP-specific phosphodiesterases

 Score = 43.5 bits (103), Expect = 2e-06
 Identities = 21/79 (26%), Positives = 34/79 (43%), Gaps = 8/79 (10%)

Query: 12 DLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEV 71
          DL+ L +  ++ +  LL AD   ++ V+    G   LV    D  +   L       +  
Sbjct: 1  DLEELLQTILEELRQLLGADRVLIYLVDENDRG--ELVLVAADGLTLPTL------GIRF 52

Query: 72 PWGVGILGHVAVTGETVNL 90
          P   G+ G VA TG  +N+
Sbjct: 53 PLDEGLAGRVAETGRPLNI 71

Mutations within these domains in PDE6B result in autosomal recessive inheritance of retinitis pigmentosa. Length = 149

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 40.3 bits (95), Expect = 8e-05
 Identities = 13/32 (40%), Positives = 22/32 (68%)

Query: 90  LQKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
           L K+ EKK+K+K+K K KK+ +  K   +R++
Sbjct: 396 LAKRAEKKEKEKEKPKVKKRHRDTKNIGKRRK 427

Length = 434

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 38.4 bits (90), Expect = 3e-04
 Identities = 16/30 (53%), Positives = 25/30 (83%)

Query: 92  KKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
           KK+E+KK +K+KKKKK+KKK KK + + ++
Sbjct: 385 KKREEKKPQKRKKKKKRKKKGKKRKKKGRK 414

Length = 414

>gnl|CDD|219868 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal

 Score = 37.9 bits (89), Expect = 3e-04
 Identities = 14/31 (45%), Positives = 18/31 (58%)

Query: 91  QKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
            K  EK +KK +K K K +KKK K E  + R
Sbjct: 68  LKAWEKAEKKAEKAKAKAEKKKAKKEEPKPR 98

This domain is found to the N-terminus of bacterial signal peptidases of the S49 family (pfam01343). Length = 154

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 38.0 bits (89), Expect = 5e-04
 Identities = 16/30 (53%), Positives = 23/30 (76%)

Query: 92  KKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
           KKK ++KK +K+KKKKK+KKK K   ++ R
Sbjct: 384 KKKREEKKPQKRKKKKKRKKKGKKRKKKGR 413

Length = 414

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 37.6 bits (88), Expect = 6e-04
 Identities = 13/43 (30%), Positives = 21/43 (48%)

Query: 80  HVAVTGETVNLQKKKEKKKKKKKKKKKKKKKKKKKAEIERKRY 122
             A + +      KK   K+ +KK+K+K+K K KK   + K  
Sbjct: 380 TKAPSEKKTGKPSKKVLAKRAEKKEKEKEKPKVKKRHRDTKNI 422

Length = 434

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 37.6 bits (88), Expect = 7e-04
 Identities = 11/31 (35%), Positives = 18/31 (58%)

Query: 91  QKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
              K  +KK+K+K+K K KK+ +  +   KR
Sbjct: 395 VLAKRAEKKEKEKEKPKVKKRHRDTKNIGKR 425

Length = 434

>gnl|CDD|164595 MTH00022, CYTB, cytochrome b; Validated

 Score = 36.2 bits (84), Expect = 0.002
 Identities = 23/76 (30%), Positives = 32/76 (42%), Gaps = 26/76 (34%)

Query: 3   IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLV 62
           I+RD+     L+ L             A+GASLFF+        CL      +H G GL 
Sbjct: 68  IMRDVNYGFLLRYLH------------ANGASLFFL--------CLY-----IHIGRGLY 102

Query: 63  YSTADEVEVPWGVGIL 78
           Y    +  V W VG++
Sbjct: 103 YGGYLKFHV-WNVGVV 117

Length = 379

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 35.7 bits (83), Expect = 0.003
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 92  KKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
            KK++++KK +K+KKKKK+KKK  + ++K 
Sbjct: 383 PKKKREEKKPQKRKKKKKRKKKGKKRKKKG 412

Length = 414

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 35.7 bits (83), Expect = 0.003
 Identities = 16/24 (66%), Positives = 22/24 (91%)

Query: 91  QKKKEKKKKKKKKKKKKKKKKKKK 114
           ++KK +K+KKKKK+KKK KK+KKK
Sbjct: 388 EEKKPQKRKKKKKRKKKGKKRKKK 411

Length = 414

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	122
PRK11061	748	fused phosphoenolpyruvate-protein phosphotransfera	99.37
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	99.21
COG3605	756	PtsP Signal transduction protein containing GAF an	99.06
PF01590	154	GAF: GAF domain; InterPro: IPR003018 This domain i	98.73
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	98.59
KOG3689|consensus	707		98.39
COG1956	163	GAF domain-containing protein [Signal transduction	98.36
PRK05022	509	anaerobic nitric oxide reductase transcription reg	98.16
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	98.1
PF13492	129	GAF_3: GAF domain; PDB: 3EEA_A 4DMZ_A 4DN0_A 1VHM_	98.08
KOG3689|consensus	707		97.94
smart00065	149	GAF Domain present in phytochromes and cGMP-specif	97.93
PF13185	148	GAF_2: GAF domain; PDB: 2QYB_A 3KSG_B 3KSF_C 3KSI_	96.97
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	96.95
COG2203	175	FhlA FOG: GAF domain [Signal transduction mechanis	94.8
TIGR02916	679	PEP_his_kin putative PEP-CTERM system histidine ki	87.84
PF14215	163	bHLH-MYC_N: bHLH-MYC and R2R3-MYB transcription fa	86.31
COG4251	750	Bacteriophytochrome (light-regulated signal transd	84.33

>PRK11061 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional

Probab=99.37  E-value=1.6e-12  Score=109.01  Aligned_cols=92  Identities=22%  Similarity=0.357  Sum_probs=76.3

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV   81 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V   81 (122)
                      +|++.|++..|++++|..+++.+++++++++|+||++|+++   ..+...+   ..  ++.......+++++|+|++|+|
T Consensus         7 eIs~~L~s~~dL~e~L~~Iv~~~~~~l~~d~~sI~L~D~~~---~~L~~~a---s~--Gl~~~~~~~~~l~~geGi~G~V   78 (748)
T PRK11061          7 EIVEKVASAPRLNEALDILVTETCLAMDTEVCSVYLADHDR---RCYYLMA---TR--GLKKPRGRTVTLAFDEGIVGLV   78 (748)
T ss_pred             HHHHHHhccCCHHHHHHHHHHHHHHHhCCCEEEEEEEECCC---CEEEEEE---ee--CCChHhccceeccCCcchHHHH
Confidence            68899999999999999999999999999999999999865   3344332   12  2211144567899999999999


Q ss_pred             eccCCeEeccCCCCCCCCCh
Q psy680           82 AVTGETVNLQKKKEKKKKKK  101 (122)
Q Consensus        82 a~tg~pi~i~Dv~~d~rF~~  101 (122)
                      +.+|+|++|+|+..||+|..
T Consensus        79 a~tg~pV~V~Dv~~dprf~~   98 (748)
T PRK11061         79 GRLAEPINLADAQKHPSFKY   98 (748)
T ss_pred             hccCceEEECCcccCccccc
Confidence            99999999999999999964

>TIGR01817 nifA Nif-specific regulatory protein

Probab=99.21  E-value=2.1e-11  Score=98.77  Aligned_cols=92  Identities=11%  Similarity=0.140  Sum_probs=74.5

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV   81 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V   81 (122)
                      +|++.|+...|++++++.+++.+.+++++++|+|+++|++.   ..+....++...      ......++++++|++|+|
T Consensus         9 ~is~~l~~~~dl~~lL~~il~~l~~~l~a~~~~I~L~d~~~---~~l~~aa~g~~~------~~~~~~~~~~~~gi~g~v   79 (534)
T TIGR01817         9 EISKILSAPTRLEKTLANVLNVLSNDLGMRHGLITLSDSEG---EPLLVAAIGWSE------EGFAPIRYRVGEGAIGQI   79 (534)
T ss_pred             HHHHHHhccCCHHHHHHHHHHHHHHhcCCCEEEEEEECCCC---CEEEEEEeCCCh------hhcccccccCCccHHHHH
Confidence            68889999999999999999999999999999999998853   233322322211      123346788999999999


Q ss_pred             eccCCeEeccCCCCCCCCChH
Q psy680           82 AVTGETVNLQKKKEKKKKKKK  102 (122)
Q Consensus        82 a~tg~pi~i~Dv~~d~rF~~~  102 (122)
                      +.+|+|++|+|+..||+|...
T Consensus        80 ~~~~~pvii~Dv~~d~~~~~~  100 (534)
T TIGR01817        80 VATGNSLVVPDVAAEPLFLDR  100 (534)
T ss_pred             HhcCCeEEecccccCchhhhc
Confidence            999999999999999999653

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>COG3605 PtsP Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]

Probab=99.06  E-value=4.2e-10  Score=91.23  Aligned_cols=91  Identities=22%  Similarity=0.372  Sum_probs=75.5

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV   81 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V   81 (122)
                      +|...+.+..++.+.|..|+.+++..|.++.||+|+.+.+. .-.+|++     +.  |+.+.....+.+.+|+|++|.|
T Consensus         7 ~i~E~va~~~~~qe~Ld~iVr~i~~aM~tEVCSvYl~~~d~-~~leL~A-----Te--GLnk~av~~~~l~~~eGLVG~v   78 (756)
T COG3605           7 RIVEKVASALELQEALDIIVRDIALAMVTEVCSVYLLRADR-RVLELMA-----TE--GLNKPAVHLVQLAFGEGLVGLV   78 (756)
T ss_pred             HHHHHHhcccCHHHHHHHHHHHHHHHhhhhheeEEEEcCCC-cEEEEEe-----cc--ccCccccceEEecCCCchhhhh
Confidence            46677788899999999999999999999999999999864 1123432     22  4443366788999999999999


Q ss_pred             eccCCeEeccCCCCCCCCC
Q psy680           82 AVTGETVNLQKKKEKKKKK  100 (122)
Q Consensus        82 a~tg~pi~i~Dv~~d~rF~  100 (122)
                      +++.+|+|..|+.+||.|.
T Consensus        79 ~~~aePlNLsdAqsHPsF~   97 (756)
T COG3605          79 GRSAEPLNLADAQSHPSFK   97 (756)
T ss_pred             hhccCCCChhhhhhCCccc
Confidence            9999999999999999984

>PF01590 GAF: GAF domain; InterPro: IPR003018 This domain is present in phytochromes and cGMP-specific phosphodiesterases

Probab=98.73  E-value=3.3e-08  Score=66.14  Aligned_cols=87  Identities=18%  Similarity=0.196  Sum_probs=67.1

Q ss_pred             CHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCeEecc
Q psy680           12 DLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETVNLQ   91 (122)
Q Consensus        12 dl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~pi~i~   91 (122)
                      |+++++..+++.+.+++++++|+|+++|++.   ..+....-....     ........++.+.+++++++.+++|++|+
T Consensus         1 Dl~~~l~~~~~~l~~~l~~~~~~i~~~d~~~---~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   72 (154)
T PF01590_consen    1 DLDELLQRILRELAELLGADRASIFLLDPDG---NRLYSVAGVGLP-----DPPPGGRRLSMDESICGQVLQSREPIVIS   72 (154)
T ss_dssp             SHHHHHHHHHHHHHHHHTESEEEEEEEETTT---TEEEEEEEEEGG-----GSEHHHEEEETTSSHHHHHHHHTSCEEES
T ss_pred             CHHHHHHHHHHHHHHHHCCCEEEEEEEecCC---CeEEEEEeeccc-----ccccccccccccccHHHHHHhCCCeEeec
Confidence            7899999999999999999999999999865   223211101111     11234567788889999999999999999


Q ss_pred             CCCCCCCCChHHHHh
Q psy680           92 KKKEKKKKKKKKKKK  106 (122)
Q Consensus        92 Dv~~d~rF~~~~~~~  106 (122)
                      |+..+|+|.......
T Consensus        73 d~~~~~~~~~~~~~~   87 (154)
T PF01590_consen   73 DVAADPRFAPQIAAQ   87 (154)
T ss_dssp             SSGGSTTSSCHHHHH
T ss_pred             ccccccccccccccc
Confidence            999999998776543

cGMP-dependent 3',5'-cyclic phosphodiesterase (3.1.4.17 from EC) catalyses the conversion of guanosine 3',5'-cyclic phosphate to guanosine 5'-phosphate. A phytochrome is a regulatory photoreceptor which exists in 2 forms that are reversibly interconvertible by light, the PR form that absorbs maximally in the red region of the spectrum, and the PFR form that absorbs maximally in the far-red region. This domain is also found in NifA, a transcriptional activator which is required for activation of most Nif operons which are directly involved in nitrogen fixation. NifA interacts with sigma-54.; GO: 0005515 protein binding; PDB: 2Y8H_A 3DBA_B 3CI6_A 3E0Y_B 2W3G_B 2W3D_A 2W3E_A 2Y79_B 2W3H_A 2W3F_A ....

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=98.59  E-value=1.1e-07  Score=79.40  Aligned_cols=92  Identities=16%  Similarity=0.185  Sum_probs=68.7

Q ss_pred             ChhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeee-eccccCCCcccCCCceeeeeCCCceee
Q psy680            1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKV-FDLHSGAGLVYSTADEVEVPWGVGILG   79 (122)
Q Consensus         1 ~ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~-f~~~~~~~~~~~~~~~i~~~~g~GI~G   79 (122)
                      ++|++.+.+..|+++++..+++.+.+++++++|+|+++|++. +  .|...+ ++...  ...  ......++.+.|++|
T Consensus       188 ~eIs~~l~s~~dl~ell~~I~~~i~~~~~a~~~~I~L~d~~~-~--~L~~~aa~g~~~--~~~--~~~~~~~~~~~~l~g  260 (686)
T PRK15429        188 VAITNAVLSRLDMDELVSEVAKEIHYYFDIDAISIVLRSHRK-N--KLNIYSTHYLDK--QHP--AHEQSEVDEAGTLTE  260 (686)
T ss_pred             HHHHHHHccCCCHHHHHHHHHHHHHHHhCCCEEEEEEEECCC-C--cEEEEEecccCh--hhc--ccccccCCcccchHH
Confidence            368888889999999999999999999999999999999865 2  333221 11100  000  222345566779999


Q ss_pred             eeeccCCeEeccCCCCCCCC
Q psy680           80 HVAVTGETVNLQKKKEKKKK   99 (122)
Q Consensus        80 ~Va~tg~pi~i~Dv~~d~rF   99 (122)
                      +|+++|+|++++|+..|++.
T Consensus       261 ~V~~~~~p~lv~~~~~d~~~  280 (686)
T PRK15429        261 RVFKSKEMLLINLHERDDLA  280 (686)
T ss_pred             HHHhcCceEEEECccCcccc
Confidence            99999999999998877653

>KOG3689|consensus

Probab=98.39  E-value=1.2e-07  Score=78.80  Aligned_cols=97  Identities=34%  Similarity=0.520  Sum_probs=72.9

Q ss_pred             hccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccC-CCceeeeeCCCceeeeeeccCCe
Q psy680            9 RDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYS-TADEVEVPWGVGILGHVAVTGET   87 (122)
Q Consensus         9 ~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~-~~~~i~~~~g~GI~G~Va~tg~p   87 (122)
                      ++++.+.+-..++..++-+++++||+.|++ +  +| .++....+...++...... .....+++++.||+|||+.++++
T Consensus         3 ~~l~~~~~~~~~l~~~~~l~~a~r~~~f~~-~--~g-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~a~~~~~   78 (707)
T KOG3689|consen    3 SSLDTEALCHKILQRVAGLLQADRCSLFLV-R--NG-AELASRLISVLPDVCEESTLEEPDNRFPWGKGIVGHVAETGET   78 (707)
T ss_pred             cccccccccchhhhhccccCCCCCcCeeee-c--cC-ccccccccccCcccccccccccccccccccceeeeeecccccc
Confidence            456778888999999999999999999999 3  34 4555444443333222110 11112889999999999999999


Q ss_pred             EeccCCCCCCCCChHHHHhHHH
Q psy680           88 VNLQKKKEKKKKKKKKKKKKKK  109 (122)
Q Consensus        88 i~i~Dv~~d~rF~~~~~~~~~~  109 (122)
                      .+++|+.+|++|...+|...-.
T Consensus        79 ~~~~~~~~~~~f~~~~d~~t~~  100 (707)
T KOG3689|consen   79 LNIPDAYEDSRFNSETDKLTGY  100 (707)
T ss_pred             cCccccccccccccccccccCC
Confidence            9999999999999999887643

>COG1956 GAF domain-containing protein [Signal transduction mechanisms]

Probab=98.36  E-value=2e-06  Score=59.78  Aligned_cols=58  Identities=26%  Similarity=0.388  Sum_probs=48.9

Q ss_pred             CCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCeEeccCCCCCCCCCh
Q psy680           30 ADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETVNLQKKKEKKKKKK  101 (122)
Q Consensus        30 ~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~pi~i~Dv~~d~rF~~  101 (122)
                      ..++.+|+++.     .+|+...|.+.         ..-+++|+|+||+|.+++++++++|.||+..|.+..
T Consensus        51 ~nW~GFYl~~~-----~~LvLgPFqG~---------~acv~I~~GkGVCg~A~~~~~t~~V~DV~~~~ghia  108 (163)
T COG1956          51 VNWVGFYLLEG-----DELVLGPFQGK---------VACVRIPFGKGVCGTAAATGETVRVDDVHAFPGHIA  108 (163)
T ss_pred             CceEEEEEecC-----CeEEEecccCC---------cceEEeccCcchhHHHHhcCCeEEecccccCCCccc
Confidence            77889999994     36887777653         356789999999999999999999999999988753

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=98.16  E-value=3.9e-06  Score=68.04  Aligned_cols=89  Identities=15%  Similarity=0.207  Sum_probs=69.3

Q ss_pred             ChhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCc-eee
Q psy680            1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVG-ILG   79 (122)
Q Consensus         1 ~ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~G-I~G   79 (122)
                      +++++.|++++|++++|..++..+.+++.++.++|+++++..   ...++ .    .  ++.+ ......++.++| ++|
T Consensus         7 ~eis~~L~~s~d~~e~L~~vl~~l~~~l~~~~~~l~l~~~~~---l~~~a-s----~--gl~~-~~~~~~~~~geGP~l~   75 (509)
T PRK05022          7 LPIALDLSRGLPHQDRFQRLLTTLRQVLPCDASALLRLDGDQ---LVPLA-I----D--GLSP-DVLGRRFALEEHPRLE   75 (509)
T ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHHHHcCCCEEEEEecCCCc---EEEEE-E----c--CCCh-HhhCCccCCCcchHHH
Confidence            478999999999999999999999999999999999998521   22221 1    1  1111 123347889998 899


Q ss_pred             eeeccCCeEeccCCCCCCCCC
Q psy680           80 HVAVTGETVNLQKKKEKKKKK  100 (122)
Q Consensus        80 ~Va~tg~pi~i~Dv~~d~rF~  100 (122)
                      .|+++|+|+.|+|...+|.|.
T Consensus        76 av~~~g~~v~v~~~~~~p~~~   96 (509)
T PRK05022         76 AILRAGDPVRFPADSELPDPY   96 (509)
T ss_pred             HHHhcCCeEEEecCCCCCccc
Confidence            999999999999988888864

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=98.10  E-value=9.7e-06  Score=67.81  Aligned_cols=92  Identities=16%  Similarity=0.089  Sum_probs=67.1

Q ss_pred             ChhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeee
Q psy680            1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGH   80 (122)
Q Consensus         1 ~ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~   80 (122)
                      |+|++.+.+..|+++++..+...+.+++.+|+++|.++|+.+ +   ..+. |....  ...+ ....-...+++|++|+
T Consensus        12 ~~is~~~~~~~~~~~l~~~l~~~~~~~~~ad~~~i~l~d~~~-~---~~~~-~~~~~--~~~~-~~~~~~~~~~~g~~g~   83 (686)
T PRK15429         12 FDITRTLLQQPDLASLCEALSQLVKRSALADNAAIVLWQAQT-Q---RASY-YASRE--KGTP-VKYEDETVLAHGPVRR   83 (686)
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHhhcccceEEEEEEcCCC-C---eeee-eeccc--cccc-hhccchhhhccCcceE
Confidence            578899999999999999999999999999999999999965 2   2221 22211  1111 1111234578999999


Q ss_pred             eeccCCeEeccCCCCCCCCC
Q psy680           81 VAVTGETVNLQKKKEKKKKK  100 (122)
Q Consensus        81 Va~tg~pi~i~Dv~~d~rF~  100 (122)
                      |.++++|+.+++..-..+|+
T Consensus        84 vl~~~~~l~~~~~~~~~~~~  103 (686)
T PRK15429         84 ILSRPDTLHCSYEEFCETWP  103 (686)
T ss_pred             EeecCceEEEchHHhhhccH
Confidence            99999999888755554443

>PF13492 GAF_3: GAF domain; PDB: 3EEA_A 4DMZ_A 4DN0_A 1VHM_A

Probab=98.08  E-value=9e-06  Score=52.62  Aligned_cols=76  Identities=25%  Similarity=0.354  Sum_probs=53.6

Q ss_pred             CHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCeEecc
Q psy680           12 DLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETVNLQ   91 (122)
Q Consensus        12 dl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~pi~i~   91 (122)
                      |++++++.++..+.++++++++.||++|++.   ..+.... .. .+   .  ....-.+|.+.++++++..+++++.++
T Consensus         1 dl~~l~~~i~~~l~~~~~~~~~~l~~~d~~~---~~~~~~~-~~-~~---~--~~~~~~l~~~~~~~~~~~~~~~~~~~~   70 (129)
T PF13492_consen    1 DLDELLERILELLRELLGADRAALFLLDEDG---NRLRVVA-GW-GG---D--PRLSESLPEDDPLIGRALETGEPVSVP   70 (129)
T ss_dssp             -HHHHHHHHHHHHHHHST-SEEEEEEEETTC---ECEEEEE-EE-SS------GCGHHCEETTSHHHHHHHHHTS-EEES
T ss_pred             CHHHHHHHHHHHHHHHhCCCEEEEEEEECCC---CEEEEEE-Ee-CC---C--ccccccCCCCccHHHHHHhhCCeEEec
Confidence            6899999999999999999999999999764   2233221 11 10   1  112226788899999999999999999


Q ss_pred             CCCCCC
Q psy680           92 KKKEKK   97 (122)
Q Consensus        92 Dv~~d~   97 (122)
                      +...++
T Consensus        71 ~~~~~~   76 (129)
T PF13492_consen   71 DIDERD   76 (129)
T ss_dssp             TCCC-T
T ss_pred             cccccc
Confidence            876654

>KOG3689|consensus

Probab=97.94  E-value=2.3e-06  Score=71.30  Aligned_cols=100  Identities=20%  Similarity=0.174  Sum_probs=72.1

Q ss_pred             hhHHHHHhc-cCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccC----CCceeeeeCCCc
Q psy680            2 AIVRDIARD-LDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYS----TADEVEVPWGVG   76 (122)
Q Consensus         2 ei~~~l~~~-ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~----~~~~i~~~~g~G   76 (122)
                      +++..+++. .+++..+..++..+..++.+.+|++.+++.++   .+++...|+........++    .....+..++.+
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~si~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~  247 (707)
T KOG3689|consen  171 DLADLMFEEQTDRESIFPKILYTARSLLQCTRCSIQLLDMST---LEEFSWVLDVLETEQTKPSTSDMAEIEFKKLLDYG  247 (707)
T ss_pred             hhhhHHHHHhcchhcccchhhhhhhhhhhhcccceeeecccc---chhhhhhhHHHhhhhcCCCCchhhhHHHHhhhhhh
Confidence            445556654 48888999999999999999999999999865   3333333333211101110    112224457889


Q ss_pred             eeeeeeccCCeEeccCCCCCCCCChHHH
Q psy680           77 ILGHVAVTGETVNLQKKKEKKKKKKKKK  104 (122)
Q Consensus        77 I~G~Va~tg~pi~i~Dv~~d~rF~~~~~  104 (122)
                      ++|+|+.+|++++|+|++.+++|+..+|
T Consensus       248 l~g~va~t~~~~ni~~~~~~~~f~~q~d  275 (707)
T KOG3689|consen  248 LRGYVASTGEGLNISNAIADPRFDKQVD  275 (707)
T ss_pred             hhheeecccCcCCCCCcccccccccccc
Confidence            9999999999999999999999999887

>smart00065 GAF Domain present in phytochromes and cGMP-specific phosphodiesterases

Probab=97.93  E-value=5.3e-05  Score=48.29  Aligned_cols=78  Identities=26%  Similarity=0.368  Sum_probs=58.1

Q ss_pred             CHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCeEecc
Q psy680           12 DLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETVNLQ   91 (122)
Q Consensus        12 dl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~pi~i~   91 (122)
                      |+++++..++..+..+++++++.|++++++..  ..+....+...   . .  ......++.+.+..+++..+++++.++
T Consensus         1 ~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~~--~~~~~~~~~~~---~-~--~~~~~~~~~~~~~~~~~~~~~~~~~~~   72 (149)
T smart00065        1 DLEELLQTILEELRQLLGADRVLIYLVDEDDR--GELVLVAADGL---T-L--PLLGLRYPLGEGLAGRVAETGRPLNIP   72 (149)
T ss_pred             CHHHHHHHHHHHHHHHhCCceEEEEEEecCCC--CcEEEEEecCC---C-c--ccceEEecCCCChHHHHHHcCCeEEee
Confidence            57899999999999999999999999998321  22332221111   1 1  234556778889999999999999999


Q ss_pred             CCCCCC
Q psy680           92 KKKEKK   97 (122)
Q Consensus        92 Dv~~d~   97 (122)
                      |+..++
T Consensus        73 ~~~~~~   78 (149)
T smart00065       73 DVEADP   78 (149)
T ss_pred             chhhCC
Confidence            988766

Mutations within these domains in PDE6B result in autosomal recessive inheritance of retinitis pigmentosa.

>PF13185 GAF_2: GAF domain; PDB: 2QYB_A 3KSG_B 3KSF_C 3KSI_A 3KSH_A 3MMH_A 3RFB_B 1F5M_A 3KO6_B 3HCY_A

Probab=96.97  E-value=0.0027  Score=41.77  Aligned_cols=32  Identities=22%  Similarity=0.386  Sum_probs=28.2

Q ss_pred             cCHHHHHHHHHHHHHHHhcCCeEEEEEEeccC
Q psy680           11 LDLKSLSKKTVDNVSVLLDADGASLFFVERRR   42 (122)
Q Consensus        11 ldl~~ll~~il~~~~~~l~~er~si~l~d~~~   42 (122)
                      .|+++++..+++.+.++++++.++|+++|+++
T Consensus         2 ~~~~ell~~~~~~~~~~~~~~~~~i~l~d~~~   33 (148)
T PF13185_consen    2 EDLEELLQQILDALLELTGADAGAIYLYDPDG   33 (148)
T ss_dssp             HHHHHHHHHHHHHHHHHHS-SEEEEEEEETTS
T ss_pred             cCHHHHHHHHHHHHHHHhCCCEEEEEEEECCC
Confidence            47899999999999999999999999998753

...

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=96.95  E-value=0.00089  Score=54.30  Aligned_cols=93  Identities=15%  Similarity=0.174  Sum_probs=64.7

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV   81 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V   81 (122)
                      ++...++...+++.++..+.+.+..+++|+...|+.++.++  ...+.+   ++...+.+   .........++++.++|
T Consensus        38 el~~~l~~~~~~e~ll~~v~~~l~~~~~~~~~~ll~~d~~~--l~~~~~---~gl~~~~~---~~~~~~~~~~~~~l~~i  109 (550)
T COG3604          38 ELTNALLSPLRLERLLAEVAKELHSLFGCDASALLRLDSKN--LIPLAT---DGLSKDHL---GREQRFVVEGHPLLEQI  109 (550)
T ss_pred             HhhhhhcCchhHHHHHHHHHHHHHHHhcCCeeEEEEecccc--cchhhh---hccccccc---ccccccccCcchHHHHH
Confidence            56667777779999999999999999999999999999753  111111   11110001   22223445678999999


Q ss_pred             eccCCeEeccCCCCCCCCChHHH
Q psy680           82 AVTGETVNLQKKKEKKKKKKKKK  104 (122)
Q Consensus        82 a~tg~pi~i~Dv~~d~rF~~~~~  104 (122)
                      +.+|.|+.+  +..|+-|.+..+
T Consensus       110 ~~~~~p~~~--~~~d~~~~~~~~  130 (550)
T COG3604         110 LKAGRPLVF--HPADSLFPDPYD  130 (550)
T ss_pred             HhCCCcEEE--ecCCcccCCccc
Confidence            999999999  666766765543

>COG2203 FhlA FOG: GAF domain [Signal transduction mechanisms]

Probab=94.80  E-value=0.018  Score=37.68  Aligned_cols=96  Identities=18%  Similarity=0.275  Sum_probs=63.6

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeee-eCCCceeee
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEV-PWGVGILGH   80 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~-~~g~GI~G~   80 (122)
                      ++...+....++++++..+++.+...++++++.++.++++......++...   ... +..+........ +...+..++
T Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~---~~~-~~~~~~~~~~~~~~~~~~~~~~   83 (175)
T COG2203           8 ELAAKIAQDLDLEEILQAALELLAELLGADRGLIYLLDEDGLLDGALVAEA---AEA-GLEQLIDELFGLVILPACLIGI   83 (175)
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHhhccHHhhheeccccccchHHHHHH---hcc-hhhhhHHHHhcccCcchhhhhh
Confidence            456667778899999999999999999999999999998631000111110   000 000000001111 233447889


Q ss_pred             eeccCCeEeccCCCCCCCCCh
Q psy680           81 VAVTGETVNLQKKKEKKKKKK  101 (122)
Q Consensus        81 Va~tg~pi~i~Dv~~d~rF~~  101 (122)
                      +...+.++.++|+..++++..
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~  104 (175)
T COG2203          84 ALREGRPVVVEDILQDPRFRD  104 (175)
T ss_pred             hhcCCceEEeeccccCccccc
Confidence            999999999999999999975

>TIGR02916 PEP_his_kin putative PEP-CTERM system histidine kinase

Probab=87.84  E-value=0.75  Score=38.57  Aligned_cols=41  Identities=10%  Similarity=0.306  Sum_probs=36.4

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccC
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRR   42 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~   42 (122)
                      ...+.|++..+.+++++.+++.+.++++++.+.+|+.+++.
T Consensus       309 ~~~~~L~~~~~~~~l~~~~~~~l~~~l~~~~g~l~l~~~~~  349 (679)
T TIGR02916       309 RFTQTLSEARSSDDLGERVIRALAQLVESPGGVLWLKSGND  349 (679)
T ss_pred             HHHHHHhCCCCCccHHHHHHHHHHHHhCCCCceEEEEcCCC
Confidence            46678888889999999999999999999999999998753

Members of this protein family have a novel N-terminal domain, a single predicted membrane-spanning helix, and a predicted cystosolic histidine kinase domain. We designate this protein PrsK, and its companion DNA-binding response regulator protein (TIGR02915) PrsR. These predicted signal-transducing proteins appear to enable enhancer-dependent transcriptional activation. The prsK gene is often associated with exopolysaccharide biosynthesis genes.

>PF14215 bHLH-MYC_N: bHLH-MYC and R2R3-MYB transcription factors N-terminal

Probab=86.31  E-value=0.83  Score=31.91  Aligned_cols=28  Identities=25%  Similarity=0.481  Sum_probs=24.0

Q ss_pred             eeeeCCCceeeeeeccCCeEeccCCCCC
Q psy680           69 VEVPWGVGILGHVAVTGETVNLQKKKEK   96 (122)
Q Consensus        69 i~~~~g~GI~G~Va~tg~pi~i~Dv~~d   96 (122)
                      +.+++|+|++|+|+.+|+++.+.+....
T Consensus        85 ~~~sfg~G~~G~a~~sg~~~Wi~~~~~~  112 (163)
T PF14215_consen   85 MSYSFGEGIPGRAAASGQHIWISGANEL  112 (163)
T ss_pred             eeEEecCCccEEEeecCccEEEeCCCcc
Confidence            4567799999999999999999987653

>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]

Probab=84.33  E-value=2.8  Score=35.58  Aligned_cols=39  Identities=18%  Similarity=0.315  Sum_probs=34.3

Q ss_pred             HHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCC
Q psy680            6 DIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGG   44 (122)
Q Consensus         6 ~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~   44 (122)
                      .|.+.-++.+++..+.+.+++.+|.||..+|-++++..|
T Consensus       141 ~lq~a~~l~~l~~~~tqeVr~~tGfDRVMlYrF~~d~~G  179 (750)
T COG4251         141 RLQSAANLRDLLSRTTQEVRRMTGFDRVMLYRFDEDGSG  179 (750)
T ss_pred             HHhcCccHHHHHHHHHHHHHHhcCCceEEEEeecCCCCc
Confidence            455567999999999999999999999999999987555

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	122
3mf0_A	432	Crystal Structure Of Pde5a Gaf Domain (89-518) Leng		1e-10
3lfv_A	431	Crystal Structure Of Unliganded Pde5a Gaf Domain Le		1e-10
3bjc_A	878	Crystal Structure Of The Pde5a Catalytic Domain In		1e-10
2k31_A	176	Solution Structure Of Cgmp-Binding Gaf Domain Of Ph		3e-08
3ibj_A	691	X-Ray Structure Of Pde2a Length = 691		1e-04
1mc0_A	368	Regulatory Segment Of Mouse 3',5'-Cyclic Nucleotide		2e-04

>pdb|3MF0|A Chain A, Crystal Structure Of Pde5a Gaf Domain (89-518) Length = 432

Iteration: 1
 Score = 61.2 bits (147), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 31/91 (34%), Positives = 53/91 (58%)
Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           + +V+DI+  LD+ +L  K   ++  L+ AD  SLF V       K L+S++FD+  G+ 
Sbjct: 65  LELVKDISSHLDVTALCHKIFLHIHGLISADRYSLFLVCEDSSNDKFLISRLFDVAEGST 124
Query: 61  LVYSTADEVEVPWGVGILGHVAVTGETVNLQ 91
           L   + + + + W  GI+GHVA  GE +N++
Sbjct: 125 LEEVSNNCIRLEWNKGIVGHVAALGEPLNIK 155

>pdb|3LFV|A Chain A, Crystal Structure Of Unliganded Pde5a Gaf Domain Length = 431

Iteration: 1
 Score = 61.2 bits (147), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 31/91 (34%), Positives = 53/91 (58%)
Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           + +V+DI+  LD+ +L  K   ++  L+ AD  SLF V       K L+S++FD+  G+ 
Sbjct: 64  LELVKDISSHLDVTALCHKIFLHIHGLISADRYSLFLVCEDSSNDKFLISRLFDVAEGST 123
Query: 61  LVYSTADEVEVPWGVGILGHVAVTGETVNLQ 91
           L   + + + + W  GI+GHVA  GE +N++
Sbjct: 124 LEEVSNNCIRLEWNKGIVGHVAALGEPLNIK 154

>pdb|3BJC|A Chain A, Crystal Structure Of The Pde5a Catalytic Domain In Complex With A Novel Inhibitor Length = 878

Iteration: 1
 Score = 61.2 bits (147), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 31/91 (34%), Positives = 53/91 (58%)
Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           + +V+DI+  LD+ +L  K   ++  L+ AD  SLF V       K L+S++FD+  G+ 
Sbjct: 156 LELVKDISSHLDVTALCHKIFLHIHGLISADRYSLFLVCEDSSNDKFLISRLFDVAEGST 215
Query: 61  LVYSTADEVEVPWGVGILGHVAVTGETVNLQ 91
           L   + + + + W  GI+GHVA  GE +N++
Sbjct: 216 LEEVSNNCIRLEWNKGIVGHVAALGEPLNIK 246

>pdb|2K31|A Chain A, Solution Structure Of Cgmp-Binding Gaf Domain Of Phosphodiesterase 5 Length = 176

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 27/81 (33%), Positives = 47/81 (58%)
Query: 11 LDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVE 70
          +D+ +L  K   ++  L+ AD  SLF V       K L+S++FD+  G+ L  ++ + + 
Sbjct: 1  MDVTALCHKIFLHIHGLISADRYSLFLVCEDSSKDKFLISRLFDVAEGSTLEEASNNCIR 60
Query: 71 VPWGVGILGHVAVTGETVNLQ 91
          + W  GI+GHVA  GE +N++
Sbjct: 61 LEWNKGIVGHVAAFGEPLNIK 81

>pdb|3IBJ|A Chain A, X-Ray Structure Of Pde2a Length = 691

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 28/81 (34%), Positives = 44/81 (54%), Gaps = 20/81 (24%)
Query: 21  VDNVSVLL-----------DADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEV 69
           +D+VSVLL           +A+  S+F +++       LV+KVFD     G+V   + E+
Sbjct: 194 LDDVSVLLQEIITEARNLSNAEICSVFLLDQNE-----LVAKVFD----GGVVDDESYEI 244
Query: 70  EVPWGVGILGHVAVTGETVNL 90
            +P   GI GHVA TG+ +N+
Sbjct: 245 RIPADQGIAGHVATTGQILNI 265

>pdb|1MC0|A Chain A, Regulatory Segment Of Mouse 3',5'-Cyclic Nucleotide Phosphodiesterase 2a, Containing The Gaf A And Gaf B Domains Length = 368

Iteration: 1
 Score = 40.8 bits (94), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 28/81 (34%), Positives = 44/81 (54%), Gaps = 20/81 (24%)
Query: 21  VDNVSVLL-----------DADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEV 69
           +D+VSVLL           +A+  S+F +++       LV+KVFD     G+V   + E+
Sbjct: 194 LDDVSVLLQEIITEARNLSNAEICSVFLLDQNE-----LVAKVFD----GGVVDDESYEI 244
Query: 70  EVPWGVGILGHVAVTGETVNL 90
            +P   GI GHVA TG+ +N+
Sbjct: 245 RIPADQGIAGHVATTGQILNI 265

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	122
3bjc_A	878	CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5	1e-23
3bjc_A	878	CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5	2e-08
3dba_A	180	CONE CGMP-specific 3',5'-cyclic phosphodiesterase	8e-17
1ykd_A	398	Adenylate cyclase; GAF domain, bound cyclic AMP li	2e-15
1ykd_A	398	Adenylate cyclase; GAF domain, bound cyclic AMP li	2e-06
3ibj_A	691	CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE	1e-14
3ibj_A	691	CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE	3e-09
1mc0_A	368	3',5'-cyclic nucleotide phosphodiesterase 2A; GAF	3e-14
1mc0_A	368	3',5'-cyclic nucleotide phosphodiesterase 2A; GAF	6e-09
2e4s_A	189	CAMP and CAMP-inhibited CGMP 3',5'-cyclic phosphod	4e-14
3trc_A	171	Phosphoenolpyruvate-protein phosphotransferase; si	4e-12
3ci6_A	171	Phosphoenolpyruvate-protein phosphotransferase; PE	3e-11
2w3g_A	153	DOSS, two component sensor histidine kinase DEVS (	2e-09
3oov_A	169	Methyl-accepting chemotaxis protein, putative; str	6e-09
3e0y_A	181	Conserved domain protein; APC87688.2, geobacter su	1e-08
3p01_A	184	Two-component response regulator; PSI-2, midwest c	4e-06
3eea_A	162	GAF domain/HD domain protein; structural genomics,	5e-06
3o5y_A	165	Sensor protein; GAF domain, histidine, kinase, PSI	2e-05
3k2n_A	177	Sigma-54-dependent transcriptional regulator; PSI-	1e-04
2qyb_A	181	Membrane protein, putative; GAF domain, domain of	4e-04

>3bjc_A CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5, erectIle dysfunction, inhibitor design, allosteric enzyme, alternative splicing, CGMP binding; HET: WAN; 2.00A {Homo sapiens} SCOP: a.211.1.2 PDB: 3mf0_A 3lfv_A 2xss_A 2k31_A* Length = 878

 Score = 93.7 bits (232), Expect = 1e-23
 Identities = 31/91 (34%), Positives = 53/91 (58%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
           + +V+DI+  LD+ +L  K   ++  L+ AD  SLF V       K L+S++FD+  G+ 
Sbjct: 156 LELVKDISSHLDVTALCHKIFLHIHGLISADRYSLFLVCEDSSNDKFLISRLFDVAEGST 215

Query: 61  LVYSTADEVEVPWGVGILGHVAVTGETVNLQ 91
           L   + + + + W  GI+GHVA  GE +N++
Sbjct: 216 LEEVSNNCIRLEWNKGIVGHVAALGEPLNIK 246

>3bjc_A CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5, erectIle dysfunction, inhibitor design, allosteric enzyme, alternative splicing, CGMP binding; HET: WAN; 2.00A {Homo sapiens} SCOP: a.211.1.2 PDB: 3mf0_A 3lfv_A 2xss_A 2k31_A* Length = 878

 Score = 50.2 bits (119), Expect = 2e-08
 Identities = 16/121 (13%), Positives = 37/121 (30%), Gaps = 7/121 (5%)

Query: 1   MAIVRDIARDL-DLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGA 59
           + +   I  +   L+ + KK    +   +     ++F V+          S VF +    
Sbjct: 337 LDLASLIFEEQQSLEVILKKIAATIISFMQVQKCTIFIVDED---CSDSFSSVFHMECEE 393

Query: 60  GLVYS---TADEVEVPWGVGILGHVAVTGETVNLQKKKEKKKKKKKKKKKKKKKKKKKAE 116
               S   T +            +V  T E +N+    + K+     +      ++    
Sbjct: 394 LEKSSDTLTREHDANKINYMYAQYVKNTMEPLNIPDVSKDKRFPWTTENTGNVNQQCIRS 453

Query: 117 I 117
           +
Sbjct: 454 L 454

>3dba_A CONE CGMP-specific 3',5'-cyclic phosphodiesterase alpha'; 3', GAF domain, cyclic nucleotide phosphodiesterase hydrolase, lipoprotein, membrane; HET: 35G; 2.57A {Gallus gallus} Length = 180

 Score = 71.0 bits (174), Expect = 8e-17
 Identities = 21/95 (22%), Positives = 43/95 (45%), Gaps = 5/95 (5%)

Query: 1   MAIVRDIARDL-DLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGA 59
             ++ +I  +   ++ +  KT+  +S LL AD  S+F    R  G   + +++ ++   +
Sbjct: 10  FELLTEIQDEAGSMEKIVHKTLQRLSQLLAADRCSMFICRSRN-GIPEVATRLLNVTPTS 68

Query: 60  GL---VYSTADEVEVPWGVGILGHVAVTGETVNLQ 91
                + +   E   P  +GI G VA T +  N+ 
Sbjct: 69  KFEDNLVNPDKETVFPLDIGIAGWVAHTKKFFNIP 103

>1ykd_A Adenylate cyclase; GAF domain, bound cyclic AMP ligand, lyase; HET: CMP; 1.90A {Anabaena SP} Length = 398

 Score = 69.9 bits (170), Expect = 2e-15
 Identities = 19/90 (21%), Positives = 36/90 (40%), Gaps = 9/90 (10%)

Query: 1  MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
          ++++     +  L+ + +        LL AD  ++F ++  +     L S V        
Sbjct: 15 LSMLDSHGFENILQEMLQSITLKTGELLGADRTTIFLLDEEKQ---ELWSIVAAGEGDRS 71

Query: 61 LVYSTADEVEVPWGVGILGHVAVTGETVNL 90
          L      E+ +P   GI G VA   + VN+
Sbjct: 72 L------EIRIPADKGIAGEVATFKQVVNI 95

>1ykd_A Adenylate cyclase; GAF domain, bound cyclic AMP ligand, lyase; HET: CMP; 1.90A {Anabaena SP} Length = 398

 Score = 44.1 bits (103), Expect = 2e-06
 Identities = 23/89 (25%), Positives = 42/89 (47%), Gaps = 10/89 (11%)

Query: 1   MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
            A+       LDL+   K+ +D    L++AD ++L+ ++R    +  L +K+   +    
Sbjct: 203 KAVKSLSQSSLDLEDTLKRVMDEAKELMNADRSTLWLIDRD---RHELWTKITQDNGST- 258

Query: 61  LVYSTADEVEVPWGVGILGHVAVTGETVN 89
                  E+ VP G G  G VA +G+ +N
Sbjct: 259 ------KELRVPIGKGFAGIVAASGQKLN 281

>3ibj_A CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE2A, GAF-domains, allosteric regulation hydrolase, membrane; 3.02A {Homo sapiens} Length = 691

 Score = 67.4 bits (164), Expect = 1e-14
 Identities = 20/92 (21%), Positives = 31/92 (33%), Gaps = 12/92 (13%)

Query: 1  MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
          + +  ++  DLD  SL  K +  +     A    L  V         L  KV        
Sbjct: 18 LQLCGELY-DLDASSLQLKVLQYLQQETRASRCCLLLVSED---NLQLSCKVIGDK---- 69

Query: 61 LVYSTADEVEVPWGVGILGHVAVTGETVNLQK 92
                +EV  P   G LG V    +++ L+ 
Sbjct: 70 ---VLGEEVSFPL-TGCLGQVVEDKKSIQLKD 97

>3ibj_A CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE2A, GAF-domains, allosteric regulation hydrolase, membrane; 3.02A {Homo sapiens} Length = 691

 Score = 52.4 bits (125), Expect = 3e-09
 Identities = 26/90 (28%), Positives = 48/90 (53%), Gaps = 10/90 (11%)

Query: 1   MAIVRDIARDL-DLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGA 59
           + + +++   L D+  L ++ +     L +A+  S+F ++     +  LV+KVFD     
Sbjct: 184 LQVAKNLFTHLDDVSVLLQEIITEARNLSNAEICSVFLLD-----QNELVAKVFD----G 234

Query: 60  GLVYSTADEVEVPWGVGILGHVAVTGETVN 89
           G+V   + E+ +P   GI GHVA TG+ +N
Sbjct: 235 GVVDDESYEIRIPADQGIAGHVATTGQILN 264

>1mc0_A 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF domain, 3',5' guanosine monophosphate, hydrolase; HET: PCG; 2.86A {Mus musculus} SCOP: d.110.2.1 d.110.2.1 Length = 368

 Score = 66.6 bits (162), Expect = 3e-14
 Identities = 20/90 (22%), Positives = 30/90 (33%), Gaps = 11/90 (12%)

Query: 1  MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
          + +  ++  DLD  SL  K +  +     A    L  V         L  KV        
Sbjct: 17 LQLCGELF-DLDATSLQLKVLQYLQQETQATHCCLLLVSED---NLQLSCKVIG------ 66

Query: 61 LVYSTADEVEVPWGVGILGHVAVTGETVNL 90
                +EV  P  +G LG V    + + L
Sbjct: 67 -DKVLGEEVSFPLTMGRLGQVVEDKQCIQL 95

>1mc0_A 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF domain, 3',5' guanosine monophosphate, hydrolase; HET: PCG; 2.86A {Mus musculus} SCOP: d.110.2.1 d.110.2.1 Length = 368

 Score = 51.5 bits (123), Expect = 6e-09
 Identities = 25/79 (31%), Positives = 43/79 (54%), Gaps = 9/79 (11%)

Query: 12  DLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEV 71
           D+  L ++ +     L +A+  S+F ++     +  LV+KVFD     G+V   + E+ +
Sbjct: 196 DVSVLLQEIITEARNLSNAEICSVFLLD-----QNELVAKVFD----GGVVDDESYEIRI 246

Query: 72  PWGVGILGHVAVTGETVNL 90
           P   GI GHVA TG+ +N+
Sbjct: 247 PADQGIAGHVATTGQILNI 265

>3trc_A Phosphoenolpyruvate-protein phosphotransferase; signal transduction; HET: MSE; 1.65A {Coxiella burnetii} Length = 171

 Score = 58.5 bits (142), Expect = 4e-12
 Identities = 21/88 (23%), Positives = 37/88 (42%), Gaps = 8/88 (9%)

Query: 3  IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLV 62
          I +++    +L+   K  V  +   L AD  SLF  +   G         + L +  GL 
Sbjct: 13 ITQEVNAAPNLEQALKLVVVRLCEALPADACSLFICDDVHG--------EYVLMATQGLN 64

Query: 63 YSTADEVEVPWGVGILGHVAVTGETVNL 90
               ++ + +G G++G V    E +NL
Sbjct: 65 SKQVGKLRLKFGEGLIGLVGEREEPINL 92

>3ci6_A Phosphoenolpyruvate-protein phosphotransferase; PEP-phosphotransferase, GAF domain, structura genomics, PSI-2, protein structure initiative; HET: MSE P4G; 1.55A {Acinetobacter SP} Length = 171

 Score = 56.2 bits (136), Expect = 3e-11
 Identities = 20/88 (22%), Positives = 36/88 (40%), Gaps = 8/88 (9%)

Query: 3  IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLV 62
          IV++I   + L       V+ V+  +  D  S++ ++ R           + L +  GL 
Sbjct: 15 IVQEINSSVSLHDSLDIMVNQVADAMKVDVCSIYLLDERNQ--------RYLLMASKGLN 66

Query: 63 YSTADEVEVPWGVGILGHVAVTGETVNL 90
            +   V +    G++G V    E VNL
Sbjct: 67 PESVGHVSLQLSEGLVGLVGQREEIVNL 94

>2w3g_A DOSS, two component sensor histidine kinase DEVS (GAF family protein); redox sensor, heme, hypoxia, GAF domain, transferase; HET: HEM; 1.40A {Mycobacterium tuberculosis} PDB: 2w3d_A* 2w3f_A* 2w3e_A* 2w3h_A* 2y79_A* 2y8h_A* 2vzw_A* Length = 153

 Score = 51.1 bits (123), Expect = 2e-09
 Identities = 15/83 (18%), Positives = 37/83 (44%), Gaps = 8/83 (9%)

Query: 8  ARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTAD 67
          A D DL++  +  V + + L+DA   ++   +R+      ++  V++      +      
Sbjct: 2  AMDPDLEATLRAIVHSATSLVDARYGAMEVHDRQHR----VLHFVYEGIDEETV----RR 53

Query: 68 EVEVPWGVGILGHVAVTGETVNL 90
             +P G+G++G +    + + L
Sbjct: 54 IGHLPKGLGVIGLLIEDPKPLRL 76

>3oov_A Methyl-accepting chemotaxis protein, putative; structural genomics, PSI-2, protein structure initiative; 2.20A {Geobacter sulfurreducens} Length = 169

 Score = 50.0 bits (120), Expect = 6e-09
 Identities = 8/88 (9%), Positives = 26/88 (29%), Gaps = 6/88 (6%)

Query: 3  IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLV 62
          I   I + +D+  + +   + +  +L  +  ++   +  R     L         G    
Sbjct: 7  ISSRIQKSIDVDEVLRLCAEGLHDVLGYERVNILMADTART---SLSFVA---AVGTADF 60

Query: 63 YSTADEVEVPWGVGILGHVAVTGETVNL 90
                + +    G++       +   +
Sbjct: 61 NPAGVVLPLDQRGGVITKCFTDRQVYMI 88

>3e0y_A Conserved domain protein; APC87688.2, geobacter sulfurreducens PCA, structural genomics, PSI-2, midwest center for structural G MCSG; 3.10A {Geobacter sulfurreducens} Length = 181

 Score = 49.6 bits (119), Expect = 1e-08
 Identities = 17/88 (19%), Positives = 33/88 (37%), Gaps = 10/88 (11%)

Query: 3  IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLV 62
          I   ++ D DL  + +     V+  L     +++  E               L +  G  
Sbjct: 20 ISMLVSSDFDLPEVLQHVTAKVATQLKVSVCNIYLREGDE----------VVLAATHGFD 69

Query: 63 YSTADEVEVPWGVGILGHVAVTGETVNL 90
           +   ++ +  G GI G VA  G+ ++L
Sbjct: 70 PAFIGKIRIKIGDGITGSVARDGQYISL 97

>3p01_A Two-component response regulator; PSI-2, midwest center for structural genomics, protein struc initiative, MCSG, signali protein; 2.65A {Nostoc SP} Length = 184

 Score = 42.6 bits (101), Expect = 4e-06
 Identities = 8/90 (8%), Positives = 20/90 (22%), Gaps = 12/90 (13%)

Query: 2   AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGL 61
            +V+       L+++        +     +   L  +E +             L +  G 
Sbjct: 34  VLVQVTQASNSLEAILTPIATAFAESFAVNACILQMLEGQT------------LSTIQGF 81

Query: 62  VYSTADEVEVPWGVGILGHVAVTGETVNLQ 91
                          +      TG+     
Sbjct: 82  YSQQGTVNNWLNQDPLTNEAIATGQIQVAA 111

>3eea_A GAF domain/HD domain protein; structural genomics, PSI, MCSG, protein structure initiative, midwest center for structural genomics; HET: PG6; 1.80A {Geobacter sulfurreducens} Length = 162

 Score = 42.0 bits (99), Expect = 5e-06
 Identities = 10/88 (11%), Positives = 28/88 (31%), Gaps = 4/88 (4%)

Query: 3  IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLV 62
              ++   D+  + K     +  L+     +++F +R R       +        A  +
Sbjct: 4  GSERLSGLTDVDEVIKDLSRLLRKLVKTRWIAVYFFDRERR----DFAPARSTGLPASFL 59

Query: 63 YSTADEVEVPWGVGILGHVAVTGETVNL 90
              +    P  + +L  +    + + L
Sbjct: 60 PVFREMPLAPDKIPLLKSMLRKRQHLML 87

>3o5y_A Sensor protein; GAF domain, histidine, kinase, PSI, MCSG, structural genomics, midwest center for structural genomics, protein S initiative; 2.45A {Bacillus halodurans} Length = 165

 Score = 40.8 bits (96), Expect = 2e-05
 Identities = 8/78 (10%), Positives = 19/78 (24%), Gaps = 9/78 (11%)

Query: 11 LDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVE 70
          + L  +    +D + +L+  D  S   +                     G          
Sbjct: 4  MSLDDIINNMIDKLKLLVHFDRISFLLLANETL--------KLSHVYPKGSHSLDIGS-T 54

Query: 71 VPWGVGILGHVAVTGETV 88
          +P    +        +T+
Sbjct: 55 IPKEQSLYWSALDQRQTI 72

>3k2n_A Sigma-54-dependent transcriptional regulator; PSI-2, protein structure initiative, structural genomics; 2.50A {Chlorobium tepidum tls} Length = 177

 Score = 38.6 bits (90), Expect = 1e-04
 Identities = 18/87 (20%), Positives = 29/87 (33%), Gaps = 5/87 (5%)

Query: 2  AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGL 61
           I   I    D + L +   D + +L   D A +  ++R R       + VF       L
Sbjct: 10 YIGDAIGTIRDPQELFRTVTDKLRLLFAFDSAVIITIDRERR-----EASVFFEMLRFEL 64

Query: 62 VYSTADEVEVPWGVGILGHVAVTGETV 88
                +     G  + GH+     TV
Sbjct: 65 PEQLRHQTRSIAGTWLEGHLDDRTVTV 91

>2qyb_A Membrane protein, putative; GAF domain, domain of putative membrane protein, PSI-2, MCSG structural genomics; 2.40A {Geobacter sulfurreducens pca} Length = 181

 Score = 37.0 bits (86), Expect = 4e-04
 Identities = 13/90 (14%), Positives = 29/90 (32%), Gaps = 10/90 (11%)

Query: 3  IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLV 62
              + R LDL+ +    ++ +      D A +  V+            V  + S +G  
Sbjct: 8  ASEIMNRTLDLQIIMDDLLNLLLKEFKLDLAVIRLVDE---------KGVLRVRSYSGKG 58

Query: 63 YST-ADEVEVPWGVGILGHVAVTGETVNLQ 91
           +  A +   P     +G   ++     + 
Sbjct: 59 IAGIAGKDWEPEIETYIGEAFLSNRLQFVN 88

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	122
3dba_A	180	CONE CGMP-specific 3',5'-cyclic phosphodiesterase	99.71
3mmh_A	167	FRMSR, methionine-R-sulfoxide reductase; oxidoredu	99.6
2zmf_A	189	CAMP and CAMP-inhibited CGMP 3',5'-cyclic phospho	99.51
3ksh_A	160	Putative uncharacterized protein; FRMSR, free-Met-	99.42
3rfb_A	171	Putative uncharacterized protein; FRMSR, GAF, oxid	99.41
2e4s_A	189	CAMP and CAMP-inhibited CGMP 3',5'-cyclic phosphod	99.41
1vhm_A	195	Protein YEBR; structural genomics, unknown functio	99.39
1f5m_A	180	GAF; CGMP binding, signaling protein; 1.90A {Sacch	99.34
3trc_A	171	Phosphoenolpyruvate-protein phosphotransferase; si	99.29
3oov_A	169	Methyl-accepting chemotaxis protein, putative; str	99.22
3bjc_A	878	CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5	99.21
3ibj_A	691	CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE	99.2
3e0y_A	181	Conserved domain protein; APC87688.2, geobacter su	99.19
3ci6_A	171	Phosphoenolpyruvate-protein phosphotransferase; PE	99.13
3k2n_A	177	Sigma-54-dependent transcriptional regulator; PSI-	99.12
2vjw_A	149	GAF-B, GAF family protein; histidine kinase, hypox	99.11
1ykd_A	398	Adenylate cyclase; GAF domain, bound cyclic AMP li	99.1
1ykd_A	398	Adenylate cyclase; GAF domain, bound cyclic AMP li	99.09
1mc0_A	368	3',5'-cyclic nucleotide phosphodiesterase 2A; GAF	99.08
3ibj_A	691	CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE	99.0
1mc0_A	368	3',5'-cyclic nucleotide phosphodiesterase 2A; GAF	98.97
3p01_A	184	Two-component response regulator; PSI-2, midwest c	98.93
2lb5_A	208	Sensor histidine kinase; PCB, transferase, GAF dom	98.89
3hcy_A	151	Putative two-component sensor histidine kinase PR;	98.85
2qyb_A	181	Membrane protein, putative; GAF domain, domain of	98.85
2w3g_A	153	DOSS, two component sensor histidine kinase DEVS (	98.79
3bjc_A	878	CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5	98.75
2k2n_A	172	Sensor protein, SYB-CPH1(GAF); phytochrome, GAF do	98.65
3o5y_A	165	Sensor protein; GAF domain, histidine, kinase, PSI	98.45
4glq_A	171	Methyl-accepting chemotaxis protein; chromophore,	98.36
3cit_A	160	Sensor histidine kinase; MEGA: 3.30.450.40, struct	98.06
4e04_A	327	Bacteriophytochrome (light-regulated signal trans	97.57
3s7o_A	343	Bacteriophytochrome; biliverdin, PAS, GAF, photore	97.54
2ool_A	337	Sensor protein; bacteriophytochrome, photoconversi	97.49
3zq5_A	520	Phytochrome-like protein CPH1; arginine finger, ta	97.4
3nhq_A	505	Bacteriophytochrome; photoreceptor, PAS, signaling	97.36
4eho_A	635	Bacteriophytochrome, PAS/PAC sensor; photoreceptor	96.81
2o8m_C	26	Protease; NS3, NS4A, viral protein; 2.00A {Hepatit	93.24

>3dba_A CONE CGMP-specific 3',5'-cyclic phosphodiesterase alpha'; 3', GAF domain, cyclic nucleotide phosphodiesterase hydrolase, lipoprotein, membrane; HET: 35G; 2.57A {Gallus gallus}

Probab=99.71  E-value=4.4e-18  Score=118.09  Aligned_cols=104  Identities=22%  Similarity=0.375  Sum_probs=83.7

Q ss_pred             ChhHHHHHhcc-CHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCccc---CCCceeeeeCCCc
Q psy680            1 MAIVRDIARDL-DLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVY---STADEVEVPWGVG   76 (122)
Q Consensus         1 ~ei~~~l~~~l-dl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~---~~~~~i~~~~g~G   76 (122)
                      +++++.|++++ |++++|..++..++++++|++|+||++|++. +..++++..|+...|..+++   .....+++|+++|
T Consensus        10 ~eis~~l~~~~~dl~~ll~~il~~~~~~~~a~~~~i~L~d~~~-~~~~l~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g   88 (180)
T 3dba_A           10 FELLTEIQDEAGSMEKIVHKTLQRLSQLLAADRCSMFICRSRN-GIPEVATRLLNVTPTSKFEDNLVNPDKETVFPLDIG   88 (180)
T ss_dssp             HHHHTTSCSSSSHHHHHHHHHHHHHHHHHTEEEEEEEEEEEET-TEEEEEEEEEEECTTCCHHHHBCCGGGCCEECTTSS
T ss_pred             HHHHHHHHHhhhcHHHHHHHHHHHHHHHhCcceEEEEEEeCCC-CcceeeeeeeccccCccchhhccccccceeeeCCCC
Confidence            36788888999 9999999999999999999999999999864 22367766665433322210   1234678999999


Q ss_pred             eeeeeeccCCeEeccCCCCCCCCChHHHH
Q psy680           77 ILGHVAVTGETVNLQKKKEKKKKKKKKKK  105 (122)
Q Consensus        77 I~G~Va~tg~pi~i~Dv~~d~rF~~~~~~  105 (122)
                      |+|+|+++|+|++|+|+..||+|....+.
T Consensus        89 i~g~v~~tg~~v~i~d~~~d~~f~~~~~~  117 (180)
T 3dba_A           89 IAGWVAHTKKFFNIPDVKKNNHFSDYLDK  117 (180)
T ss_dssp             HHHHHHHHTCCEEESCGGGCTTCCCHHHH
T ss_pred             HHHHHHHhCCEEEecCCCCCcccChhhcc
Confidence            99999999999999999999999987664

>3mmh_A FRMSR, methionine-R-sulfoxide reductase; oxidoreductase; HET: SME MRD; 1.25A {Neisseria meningitidis} SCOP: d.110.2.0

Probab=99.60  E-value=2.3e-15  Score=104.62  Aligned_cols=88  Identities=18%  Similarity=0.198  Sum_probs=74.6

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV   81 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V   81 (122)
                      ++.+.++.+.|+...|..++..+.+.+++++|++|++|++.   .+|....|.+.         ....++|+|+|++|+|
T Consensus        21 ~i~~ll~~~~dl~~~L~~v~~~l~~~l~~~~~~iyL~d~~~---~~L~l~a~~G~---------~~~~~i~~geGi~G~v   88 (167)
T 3mmh_A           21 QIESVVADETDWVANLANTAAVLKEAFGWFWVGFYLVDTRS---DELVLAPFQGP---------LACTRIPFGRGVCGQA   88 (167)
T ss_dssp             HHHHHHHTCCCHHHHHHHHHHHHHHHHCCSEEEEEEEETTT---TEEEEEEEESS---------CCCSEEETTSHHHHHH
T ss_pred             HHHHHHccCCCHHHHHHHHHHHHHHHcCCcEEEEEEEECCC---CEEEEEEeccc---------ccceEeccCCChHHHH
Confidence            45666777889999999999999999999999999999864   35666554432         1346899999999999


Q ss_pred             eccCCeEeccCCCCCCCCCh
Q psy680           82 AVTGETVNLQKKKEKKKKKK  101 (122)
Q Consensus        82 a~tg~pi~i~Dv~~d~rF~~  101 (122)
                      +++|+|++|+|++.||+|..
T Consensus        89 ~~~g~~~~v~Dv~~~p~~~~  108 (167)
T 3mmh_A           89 WAKGGTVVVGDVDAHPDHIA  108 (167)
T ss_dssp             HHHTSCEEESCGGGSTTCCC
T ss_pred             HhCCcEEEECCcccCcchhh
Confidence            99999999999999999964

>2zmf_A CAMP and CAMP-inhibited CGMP 3',5'-cyclic phospho 10A; GAF domain, phosphodiesterase, CGMP-binding, HYD nucleotide-binding, structural genomics; HET: MSE CMP; 2.10A {Homo sapiens}

Probab=99.51  E-value=2.7e-14  Score=97.07  Aligned_cols=102  Identities=23%  Similarity=0.342  Sum_probs=77.5

Q ss_pred             ChhHHHH-HhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcc--cCCCceeeeeCCCce
Q psy680            1 MAIVRDI-ARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLV--YSTADEVEVPWGVGI   77 (122)
Q Consensus         1 ~ei~~~l-~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~--~~~~~~i~~~~g~GI   77 (122)
                      +++++.+ ++.+|++++|..++..+.++++|++|+||++|++.   ..++...+.........  ......+++|.+.|+
T Consensus        16 l~~~~~i~~~~~dld~ll~~i~~~~~~~l~ad~~~i~l~d~~~---~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (189)
T 2zmf_A           16 LDVSKTYFDNIVAIDSLLEHIMIYAKNLVNADRCALFQVDHKN---KELYSDLFDIGEEKEGKPVFKKTKEIRFSIEKGI   92 (189)
T ss_dssp             HHHHHHHHHCSSCHHHHHHHHHHHHHHHHTEEEEEEEEEETTT---TEEEEEEECCSCEETTEECCEECCCCEEETTSHH
T ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHHHhCCCEEEEEEEecCC---cEEEEEEEecccccccccccccccccccCCCccH
Confidence            3677775 45589999999999999999999999999999865   34554443322111100  113455688999999


Q ss_pred             eeeeeccCCeEeccCCCCCCCCChHHHH
Q psy680           78 LGHVAVTGETVNLQKKKEKKKKKKKKKK  105 (122)
Q Consensus        78 ~G~Va~tg~pi~i~Dv~~d~rF~~~~~~  105 (122)
                      +|+|+++|+|++++|+..||+|......
T Consensus        93 ~~~v~~~~~~~~i~d~~~~~~~~~~~~~  120 (189)
T 2zmf_A           93 AGQVARTGEVLNIPDAYADPRFNREVDL  120 (189)
T ss_dssp             HHHHHHHCCCEEESCGGGSTTCCTHHHH
T ss_pred             HHHHHHhCCeEEEecccccccccccchh
Confidence            9999999999999999999999876543

>3ksh_A Putative uncharacterized protein; FRMSR, free-Met-R-SO, oxidoreductase; 1.50A {Staphylococcus aureus} SCOP: d.110.2.0 PDB: 3ksf_A 3ksi_A 3ksg_A*

Probab=99.42  E-value=2.5e-13  Score=93.80  Aligned_cols=83  Identities=17%  Similarity=0.217  Sum_probs=69.6

Q ss_pred             HHHHhccCHHHHHHHHHHHHHHHhc-CCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeec
Q psy680            5 RDIARDLDLKSLSKKTVDNVSVLLD-ADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAV   83 (122)
Q Consensus         5 ~~l~~~ldl~~ll~~il~~~~~~l~-~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~   83 (122)
                      ..+..+.|+...|..++..+.+.++ +++|++|+++++     +|...+|.+..         ...++|+|+||+|+|++
T Consensus        24 ~ll~~~~dl~~~L~~v~~ll~~~l~~~~~~gfYL~~~~-----~L~l~~~~G~~---------a~~ri~~GeGv~G~aa~   89 (160)
T 3ksh_A           24 SLIEDEHHMIAILSNMSALLNDNLDQINWVGFYLLEQN-----ELILGPFQGHP---------ACVHIPIGKGVCGTAVS   89 (160)
T ss_dssp             HTTTTCCCHHHHHHHHHHHHHHHCSSCSEEEEEEEETT-----EEEEEEEEESC---------CCSEEETTSHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHHHHHHHHcccCCEEEEEEEECC-----EEEEEeccCCc---------ccEEeeCCCCHHHHHHh
Confidence            3344567999999999999999997 999999999852     46666655421         25799999999999999


Q ss_pred             cCCeEeccCCCCCCCCCh
Q psy680           84 TGETVNLQKKKEKKKKKK  101 (122)
Q Consensus        84 tg~pi~i~Dv~~d~rF~~  101 (122)
                      +|+|++|+|+..+|+|..
T Consensus        90 ~~~~i~V~Dv~~~p~~i~  107 (160)
T 3ksh_A           90 ERRTQVVADVHQFKGHIA  107 (160)
T ss_dssp             HTSCEEESCGGGSTTCCG
T ss_pred             hCCEEEECCcccCccccc
Confidence            999999999999999965

>3rfb_A Putative uncharacterized protein; FRMSR, GAF, oxidoreductase, SME; HET: SME; 2.30A {Streptococcus pneumoniae}

Probab=99.41  E-value=3.6e-13  Score=93.94  Aligned_cols=85  Identities=13%  Similarity=0.099  Sum_probs=70.4

Q ss_pred             hHHHHHhccCHHHHHHHHHHHHHHHhc-CCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680            3 IVRDIARDLDLKSLSKKTVDNVSVLLD-ADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV   81 (122)
Q Consensus         3 i~~~l~~~ldl~~ll~~il~~~~~~l~-~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V   81 (122)
                      +...+..+.|+...|..++..+.+.++ +++|++|+++++     +|...+|.+.         ...+++|+|+||+|+|
T Consensus        23 l~~ll~~~~dl~~~L~nv~~lL~~~l~~~~~~gfYL~~~~-----~L~l~a~~G~---------~a~~ri~~GeGv~G~v   88 (171)
T 3rfb_A           23 LSFLLEGETNVLANLSNASALIKSRFPNTVFAGFYLFDGK-----ELVLGPFQGG---------VSCIRIALGKGVCGEA   88 (171)
T ss_dssp             HHHHHTTCCBHHHHHHHHHHHHHHHCTTEEEEEEEEECSS-----EEEEEEEESS---------SCCCEEETTSHHHHHH
T ss_pred             HHHHHcCCCCHHHHHHHHHHHHHHHccCCCEEEEEEEECC-----EEEEEeccCC---------ccceEeeCCcCHHHHH
Confidence            344455667999999999999999997 999999999852     4665555432         1257999999999999


Q ss_pred             eccCCeEeccCCCCCCCCCh
Q psy680           82 AVTGETVNLQKKKEKKKKKK  101 (122)
Q Consensus        82 a~tg~pi~i~Dv~~d~rF~~  101 (122)
                      +++|+|++|+|+..+|+|..
T Consensus        89 a~tg~~i~V~Dv~~~p~~i~  108 (171)
T 3rfb_A           89 AHFQETVIVGDVTTYLNYIS  108 (171)
T ss_dssp             HHTTSCEEESCTTSCSSCCC
T ss_pred             HhhCCEEEECCcccCccccc
Confidence            99999999999999999954

>1vhm_A Protein YEBR; structural genomics, unknown function; HET: MES; 2.10A {Escherichia coli} SCOP: d.110.2.1

Probab=99.39  E-value=7.5e-13  Score=93.97  Aligned_cols=86  Identities=16%  Similarity=0.173  Sum_probs=71.3

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHh-cCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeee
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLL-DADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGH   80 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l-~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~   80 (122)
                      ++.+.|..+.|+..+|..++..+.+.+ ++++|++|++|+.     +|....|.+         .....++|+|+|++|+
T Consensus        33 ~l~~ll~~~~dl~~~L~~v~~ll~~~l~~~~~~~iyL~d~~-----~L~l~~~~G---------~~~~~~i~~GeGi~G~   98 (195)
T 1vhm_A           33 DFNALMAGETSFLATLANTSALLYERLTDINWAGFYLLEDD-----TLVLGPFQG---------KIACVRIPVGRGVCGT   98 (195)
T ss_dssp             HHHHHHTTCCCHHHHHHHHHHHHHHHSSSCSEEEEEEEETT-----EEEEEEEEE---------SCCCSEEETTSHHHHH
T ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHHhCCCCCEEEEEEEECC-----EEEEEEecC---------cccceEecCCCChHHH
Confidence            355666677899999999999999999 9999999999862     354444332         1236789999999999


Q ss_pred             eeccCCeEeccCCCCCCCCCh
Q psy680           81 VAVTGETVNLQKKKEKKKKKK  101 (122)
Q Consensus        81 Va~tg~pi~i~Dv~~d~rF~~  101 (122)
                      |+++|+|++|+|+..+|+|..
T Consensus        99 aa~tg~~i~V~Dv~~~p~~~~  119 (195)
T 1vhm_A           99 AVARNQVQRIEDVHVFDGHIA  119 (195)
T ss_dssp             HHHHTSCEEESCTTTCTTCCC
T ss_pred             HHhcCCEEEECCcccCcchhh
Confidence            999999999999999999964

>1f5m_A GAF; CGMP binding, signaling protein; 1.90A {Saccharomyces cerevisiae} SCOP: d.110.2.1 PDB: 3ko6_A*

Probab=99.34  E-value=2e-12  Score=90.39  Aligned_cols=88  Identities=13%  Similarity=0.079  Sum_probs=70.8

Q ss_pred             hHHHHHhccCHHHHHHHHHHHHHHHh-----cCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCce
Q psy680            3 IVRDIARDLDLKSLSKKTVDNVSVLL-----DADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGI   77 (122)
Q Consensus         3 i~~~l~~~ldl~~ll~~il~~~~~~l-----~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI   77 (122)
                      +...+..+.|+..+|..++..+.+.+     ++++|++|++|+++++  +|....|.+         ....+++++|+|+
T Consensus        32 l~~ll~~~~dl~~~L~~v~~~l~~~l~~~~~~~~~~~~yl~d~~~~~--~L~l~~~~g---------~~~~~~i~~g~Gi  100 (180)
T 1f5m_A           32 YEGLSDGQVNWVCNLSNASSLIWHAYKSLAVDINWAGFYVTQASEEN--TLILGPFQG---------KVACQMIQFGKGV  100 (180)
T ss_dssp             HHHHHTTCCBHHHHHHHHHHHHHHHHHHTTCCEEEEEEEEECSSSSC--EEEEEEEEE---------SCCCSEEETTSHH
T ss_pred             HHHHHhcCccHHHHHHHHHHHHHHHHhhccCCccEEEEEEEecCCCC--eEEEeecCC---------CccceeecCCCcc
Confidence            44455556799999999999999999     9999999999975312  455444322         2236789999999


Q ss_pred             eeeeeccCCeEeccCCCCCCCCCh
Q psy680           78 LGHVAVTGETVNLQKKKEKKKKKK  101 (122)
Q Consensus        78 ~G~Va~tg~pi~i~Dv~~d~rF~~  101 (122)
                      +|+|+.+|+|++|+|+..||+|..
T Consensus       101 ~G~aa~~g~~v~v~Dv~~dp~~~~  124 (180)
T 1f5m_A          101 CGTAASTKETQIVPDVNKYPGHIA  124 (180)
T ss_dssp             HHHHHHHTSCEEESCGGGSTTCCC
T ss_pred             hhhhhhcCCEEEeCCcccCccccc
Confidence            999999999999999999999973

>3trc_A Phosphoenolpyruvate-protein phosphotransferase; signal transduction; HET: MSE; 1.65A {Coxiella burnetii}

Probab=99.29  E-value=1.1e-11  Score=82.85  Aligned_cols=93  Identities=24%  Similarity=0.339  Sum_probs=74.2

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV   81 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V   81 (122)
                      ++++.|++..|+++++..+++.+.+++++++|+||++|++. +  .+......   |  ..+.......++.+.|++|+|
T Consensus        12 ~i~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~l~d~~~-~--~l~~~~~~---g--~~~~~~~~~~~~~~~~~~~~~   83 (171)
T 3trc_A           12 QITQEVNAAPNLEQALKLVVVRLCEALPADACSLFICDDVH-G--EYVLMATQ---G--LNSKQVGKLRLKFGEGLIGLV   83 (171)
T ss_dssp             HHHHHHHHCSSHHHHHHHHHHHHHHHTTCSEEEEEEEETTT-T--EEEEEEEE---S--SCGGGTTTCEEETTCHHHHHH
T ss_pred             HHHHHHhcccCHHHHHHHHHHHHHHHhCCcEEEEEEEECCC-C--eEEEEEec---C--CCccccccEeecCCCChhhHH
Confidence            67888999999999999999999999999999999999864 2  33322211   1  111133345789999999999


Q ss_pred             eccCCeEeccCCCCCCCCChH
Q psy680           82 AVTGETVNLQKKKEKKKKKKK  102 (122)
Q Consensus        82 a~tg~pi~i~Dv~~d~rF~~~  102 (122)
                      +.+++|++++|+..||+|...
T Consensus        84 ~~~~~~~~~~d~~~~~~~~~~  104 (171)
T 3trc_A           84 GEREEPINLADAPLHPAYKHR  104 (171)
T ss_dssp             HHHTSCEEESCGGGSTTCCCC
T ss_pred             HhcCCeEEeCCCCCCCccccc
Confidence            999999999999999999653

>3oov_A Methyl-accepting chemotaxis protein, putative; structural genomics, PSI-2, protein structure initiative; 2.20A {Geobacter sulfurreducens}

Probab=99.22  E-value=1.8e-11  Score=81.52  Aligned_cols=92  Identities=11%  Similarity=0.170  Sum_probs=72.6

Q ss_pred             ChhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeC--CCcee
Q psy680            1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPW--GVGIL   78 (122)
Q Consensus         1 ~ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~--g~GI~   78 (122)
                      .++++.|++..|+++++..+++.+.+++++++|+||++|++.   ..+......   +....  ......+++  +.|++
T Consensus         5 ~~i~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~l~d~~~---~~l~~~~~~---g~~~~--~~~~~~~~~~~~~~~~   76 (169)
T 3oov_A            5 HQISSRIQKSIDVDEVLRLCAEGLHDVLGYERVNILMADTAR---TSLSFVAAV---GTADF--NPAGVVLPLDQRGGVI   76 (169)
T ss_dssp             -CHHHHHHHCCCHHHHHHHHHHHHHHTTCCSEEEEEEECTTS---SEEEEEEEE---SCSSC--CCTTCEEESSGGGHHH
T ss_pred             HHHHHHHhhhcCHHHHHHHHHHHHHHhhCCceEEEEEEeCCC---CeEEEEEEe---Cchhh--hhhcccCCcccccchH
Confidence            368899999999999999999999999999999999999864   234433211   11111  334566777  68999


Q ss_pred             eeeeccCCeEeccCCCCCCCCC
Q psy680           79 GHVAVTGETVNLQKKKEKKKKK  100 (122)
Q Consensus        79 G~Va~tg~pi~i~Dv~~d~rF~  100 (122)
                      |+|+.+|+|+.++|+..++++.
T Consensus        77 ~~~~~~~~~~~i~d~~~~~~~~   98 (169)
T 3oov_A           77 TKCFTDRQVYMIDDVSAYPTDF   98 (169)
T ss_dssp             HHHHHHTCCEEESCGGGSCGGG
T ss_pred             HHHHhcCCCEEeccccchhhhh
Confidence            9999999999999999998765

>3bjc_A CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5, erectIle dysfunction, inhibitor design, allosteric enzyme, alternative splicing, CGMP binding; HET: WAN; 2.00A {Homo sapiens} SCOP: a.211.1.2 PDB: 3mf0_A 3lfv_A 2xss_A 2k31_A*

Probab=99.21  E-value=1.3e-12  Score=109.65  Aligned_cols=105  Identities=30%  Similarity=0.542  Sum_probs=0.0

Q ss_pred             ChhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeee
Q psy680            1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGH   80 (122)
Q Consensus         1 ~ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~   80 (122)
                      +++++.|++.+|+++++..++..++++++|++|+||++|++.++...+++..|....|...++.....+++|++.|++|+
T Consensus       156 ~eis~~L~~~ldl~~ll~~il~~l~~~l~ad~~~I~L~d~~~~~~~~lv~~~f~~~~G~~~~~~~~~~~~~p~~~gi~g~  235 (878)
T 3bjc_A          156 LELVKDISSHLDVTALCHKIFLHIHGLISADRYSLFLVCEDSSNDKFLISRLFDVAEGSTLEEVSNNCIRLEWNKGIVGH  235 (878)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHhhcCCHHHHHHHHHHHHHHHhCCCeEEEEEEeCCCCCceeEEeeecccccCccccccCCcceeeeCCccHHHH
Confidence            36788889999999999999999999999999999999986422234554444433332221112456788999999999


Q ss_pred             eeccCCeEeccCCCCCCCCChHHHH
Q psy680           81 VAVTGETVNLQKKKEKKKKKKKKKK  105 (122)
Q Consensus        81 Va~tg~pi~i~Dv~~d~rF~~~~~~  105 (122)
                      |+.+|+|++|+|+..||+|....+.
T Consensus       236 v~~~g~pv~I~D~~~dp~f~~~~~~  260 (878)
T 3bjc_A          236 VAALGEPLNIKDAYEDPRFNAEVDQ  260 (878)
T ss_dssp             -------------------------
T ss_pred             HHhcCceEEeCCcccCccccccccc
Confidence            9999999999999999999887663

>3ibj_A CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE2A, GAF-domains, allosteric regulation hydrolase, membrane; 3.02A {Homo sapiens}

Probab=99.20  E-value=4.8e-12  Score=103.51  Aligned_cols=87  Identities=24%  Similarity=0.344  Sum_probs=71.7

Q ss_pred             ChhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeee
Q psy680            1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGH   80 (122)
Q Consensus         1 ~ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~   80 (122)
                      +++++.|+ ++|++++++.++..++++++|++|+||++|++.   ..+++..   ..|..+    ...+++|++ ||+|+
T Consensus        18 ~~i~~~ls-~ldl~~ll~~il~~l~~~l~ad~~~i~L~d~~~---~~l~~~~---~~g~~~----~~~~~~p~~-Gi~g~   85 (691)
T 3ibj_A           18 LQLCGELY-DLDASSLQLKVLQYLQQETRASRCCLLLVSEDN---LQLSCKV---IGDKVL----GEEVSFPLT-GCLGQ   85 (691)
T ss_dssp             HHHHHHCC-CSSHHHHHHHHHHHHHHHTTBSCEEEEEECTTS---SEEEEEE---ETTEEE----EEEEEEECC-SSSHH
T ss_pred             HHHHHHHH-hccHHHHHHHHHHHHHHHhCCCEEEEEEEECCC---CeEEEEe---cCCCcc----ccceecCCc-cHHHH
Confidence            36889999 999999999999999999999999999999864   3455433   222112    235789999 99999


Q ss_pred             eeccCCeEeccCCCCCCCC
Q psy680           81 VAVTGETVNLQKKKEKKKK   99 (122)
Q Consensus        81 Va~tg~pi~i~Dv~~d~rF   99 (122)
                      |+++|+|++|+|+..||+|
T Consensus        86 v~~~~~pv~i~d~~~~~~~  104 (691)
T 3ibj_A           86 VVEDKKSIQLKDLTSEDVQ  104 (691)
T ss_dssp             HHHHCCCEEGGGSCHHHHH
T ss_pred             HHHHCCeEEeccchhcccc
Confidence            9999999999999998865

>3e0y_A Conserved domain protein; APC87688.2, geobacter sulfurreducens PCA, structural genomics, PSI-2, midwest center for structural G MCSG; 3.10A {Geobacter sulfurreducens}

Probab=99.19  E-value=3.7e-11  Score=80.72  Aligned_cols=90  Identities=18%  Similarity=0.303  Sum_probs=71.9

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV   81 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V   81 (122)
                      ++++.|+...|+++++..++..+.+++++++|+||++|++.   ..+.+. .+      ..+.......++++.|++|+|
T Consensus        19 ~i~~~l~~~~~~~~~l~~i~~~~~~~~~~~~~~i~l~d~~~---~~~~~~-~g------~~~~~~~~~~~~~~~~~~~~~   88 (181)
T 3e0y_A           19 EISMLVSSDFDLPEVLQHVTAKVATQLKVSVCNIYLREGDE---VVLAAT-HG------FDPAFIGKIRIKIGDGITGSV   88 (181)
T ss_dssp             HHHHHHSTTSCHHHHHHHHHHHHHHHTTCSCEEEEEEETTE---EEEEEE-ES------SCGGGTTTCEEETTTSSHHHH
T ss_pred             HHHHHHhhcCCHHHHHHHHHHHHHHHhCCCeEEEEEEcCCC---ceEEEe-cC------CCHHHhccccccCCCCeeeeh
Confidence            67888888999999999999999999999999999999864   233321 11      111133455789999999999


Q ss_pred             eccCCeEeccCCCCCCCCCh
Q psy680           82 AVTGETVNLQKKKEKKKKKK  101 (122)
Q Consensus        82 a~tg~pi~i~Dv~~d~rF~~  101 (122)
                      +.+|+|++++|+..+|+|..
T Consensus        89 ~~~~~~~~i~d~~~~~~~~~  108 (181)
T 3e0y_A           89 ARDGQYISLSRASQDPRYRY  108 (181)
T ss_dssp             HHHCCCEEEEEECCCCCC--
T ss_pred             hhcCCeEEecCcccCccccc
Confidence            99999999999999999864

>3ci6_A Phosphoenolpyruvate-protein phosphotransferase; PEP-phosphotransferase, GAF domain, structura genomics, PSI-2, protein structure initiative; HET: MSE P4G; 1.55A {Acinetobacter SP}

Probab=99.13  E-value=1.8e-10  Score=76.09  Aligned_cols=94  Identities=20%  Similarity=0.299  Sum_probs=71.8

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV   81 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V   81 (122)
                      ++++.|.+..++++++..+++.+.+++++++|+|+++|++. +  .+.....   .+  ..+.......++.+.|++|+|
T Consensus        14 ~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~l~~~~~-~--~l~~~~~---~g--~~~~~~~~~~~~~~~~~~~~~   85 (171)
T 3ci6_A           14 RIVQEINSSVSLHDSLDIMVNQVADAMKVDVCSIYLLDERN-Q--RYLLMAS---KG--LNPESVGHVSLQLSEGLVGLV   85 (171)
T ss_dssp             HHHHHHHTCSSHHHHHHHHHHHHHHHHTCSEEEEEEEETTT-T--EEEEEEE---ES--SCGGGTTTCEEETTSHHHHHH
T ss_pred             HHHHHHhcCCCHHHHHHHHHHHHHHHhCCCeEEEEEEeCCC-C--EEEEEec---cC--CCcccccceeeeccCCeehhh
Confidence            57788888899999999999999999999999999999864 2  2332221   11  111123355788999999999


Q ss_pred             eccCCeEeccCCCCCCCCChHH
Q psy680           82 AVTGETVNLQKKKEKKKKKKKK  103 (122)
Q Consensus        82 a~tg~pi~i~Dv~~d~rF~~~~  103 (122)
                      +.+++|+.++|+..+|+|....
T Consensus        86 ~~~~~~~~~~d~~~~~~~~~~~  107 (171)
T 3ci6_A           86 GQREEIVNLENASKHERFAYLP  107 (171)
T ss_dssp             HHHTSCEEESSGGGSTTC----
T ss_pred             hccCceEEecCCCcCcchhccc
Confidence            9999999999999999987543

>3k2n_A Sigma-54-dependent transcriptional regulator; PSI-2, protein structure initiative, structural genomics; 2.50A {Chlorobium tepidum tls}

Probab=99.12  E-value=2.7e-10  Score=76.70  Aligned_cols=94  Identities=13%  Similarity=-0.001  Sum_probs=70.8

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV   81 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V   81 (122)
                      ++++.|.+.+|+++++..++..+.+++++++|+|+++|++. +  .+.... ..... .. +.......+|.+.|++|+|
T Consensus        10 ~i~~~l~~~~d~~~~l~~i~~~~~~~~~~~~~~i~l~d~~~-~--~l~~~~-~~~~~-~~-~~~~~~~~~~~~~~~~~~v   83 (177)
T 3k2n_A           10 YIGDAIGTIRDPQELFRTVTDKLRLLFAFDSAVIITIDRER-R--EASVFF-EMLRF-EL-PEQLRHQTRSIAGTWLEGH   83 (177)
T ss_dssp             HHHHHHTTCCSHHHHHHHHHHHHTTTCCCSEEEEEEEETTT-T--EEEEEE-EECSS-CC-CSTTCCSEEECTTSGGGGG
T ss_pred             HHHHHHhcccCHHHHHHHHHHHHHHhcCCCeEEEEEEcCCC-C--eEEeEE-ecccC-CC-CchhhcccCCccccHHHHH
Confidence            68888999999999999999999999999999999999864 2  232211 00010 11 1123455788999999999


Q ss_pred             eccCCeEeccCCCC-CCCCChH
Q psy680           82 AVTGETVNLQKKKE-KKKKKKK  102 (122)
Q Consensus        82 a~tg~pi~i~Dv~~-d~rF~~~  102 (122)
                      +++++|+++ |+.. +++|...
T Consensus        84 ~~~~~~~~~-d~~~~~~~~~~~  104 (177)
T 3k2n_A           84 LDDRTVTVA-SIARDIPSFGAD  104 (177)
T ss_dssp             TTCCSCEEE-ETTTTCTTTTTT
T ss_pred             hccCCceEe-chhhcccccCCc
Confidence            999999999 7777 7777653

>2vjw_A GAF-B, GAF family protein; histidine kinase, hypoxia sensing, hydrolase; HET: MSE; 2.0A {Mycobacterium smegmatis} PDB: 2vks_A

Probab=99.11  E-value=1.3e-10  Score=78.45  Aligned_cols=79  Identities=15%  Similarity=0.121  Sum_probs=60.3

Q ss_pred             CHHHHHHHHHHHHHHHhcCCeEEEEEEeccCC---CceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCeE
Q psy680           12 DLKSLSKKTVDNVSVLLDADGASLFFVERRRG---GKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETV   88 (122)
Q Consensus        12 dl~~ll~~il~~~~~~l~~er~si~l~d~~~~---~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~pi   88 (122)
                      |++++|..+++.+++++++++|+|++.|++..   +  .+.....   .|  .........++|+++|++|+|+++|+|+
T Consensus         1 ~~~~~L~~i~~~a~~~~~ad~~~i~l~~~~~~~~~~--~l~~~a~---~g--~~~~~~~~~~~~~~~g~~g~v~~~g~~v   73 (149)
T 2vjw_A            1 DPATVFRLVAAEALTLTGADGTLVAVPADPDASAAE--ELVIVEV---AG--AVPAEVEASAIPVQDNAIGQAFRDRAPR   73 (149)
T ss_dssp             CTHHHHHHHHHHHHHHHCCSEEEEEEECC----CCS--EEEEEEE---EE--TSCGGGTTCEEESSSSHHHHHHHHCCCE
T ss_pred             CHHHHHHHHHHHHHHHhCCCEEEEEEEcCCCCCcCc--eEEEEEE---ec--CChHhhcCcccCCCCCHHHHHhhcCceE
Confidence            57899999999999999999999999987420   2  2433221   11  1111345678999999999999999999


Q ss_pred             eccCCCCCC
Q psy680           89 NLQKKKEKK   97 (122)
Q Consensus        89 ~i~Dv~~d~   97 (122)
                      +++|+..||
T Consensus        74 ~v~d~~~d~   82 (149)
T 2vjw_A           74 RLDVLDGPG   82 (149)
T ss_dssp             EESCCCTTS
T ss_pred             EecCcccCC
Confidence            999999887

>1ykd_A Adenylate cyclase; GAF domain, bound cyclic AMP ligand, lyase; HET: CMP; 1.90A {Anabaena SP}

Probab=99.10  E-value=8.3e-11  Score=89.38  Aligned_cols=94  Identities=20%  Similarity=0.241  Sum_probs=68.9

Q ss_pred             hhHHHHHhccCHHHHHHHHHHH----HHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCce
Q psy680            2 AIVRDIARDLDLKSLSKKTVDN----VSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGI   77 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~----~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI   77 (122)
                      ++.+.+++ .|++.+|..+++.    +.++++|++|+||++|++.   .+++..+..+     ... ....+++|.+.|+
T Consensus        13 ~~~~~l~~-~~l~~~l~~~l~~i~~~~~~~~~a~~~~i~l~d~~~---~~l~~~~~~g-----~~~-~~~~~~~~~~~g~   82 (398)
T 1ykd_A           13 QTLSMLDS-HGFENILQEMLQSITLKTGELLGADRTTIFLLDEEK---QELWSIVAAG-----EGD-RSLEIRIPADKGI   82 (398)
T ss_dssp             HHHHHHTT-SCHHHHHHHHHHHHHHHHHHHHTEEEEEEEEEETTT---TEEEEEEECC-----GGG-CCCCCEEETTSHH
T ss_pred             HHHHHHHh-ccHHHHHHHHHHHHHHHHHHHhCCceEEEEEEECCC---CeEEEEeecC-----CCC-ccceeecCCCCch
Confidence            34555544 7877766665555    8999999999999999864   3455443211     111 2335688999999


Q ss_pred             eeeeeccCCeEeccCCCCC---CCCChHHHH
Q psy680           78 LGHVAVTGETVNLQKKKEK---KKKKKKKKK  105 (122)
Q Consensus        78 ~G~Va~tg~pi~i~Dv~~d---~rF~~~~~~  105 (122)
                      +|+|+.+|+|++|+|+..+   ++|....+.
T Consensus        83 ~g~v~~~~~~v~i~d~~~~~~~~~~~~~~~~  113 (398)
T 1ykd_A           83 AGEVATFKQVVNIPFDFYHDPRSIFAQKQEK  113 (398)
T ss_dssp             HHHHHHHCCCEEECSCGGGSGGGHHHHHHHH
T ss_pred             hhhhhccCcEEeccchhcccchhhcccccCc
Confidence            9999999999999999998   888776653

>1ykd_A Adenylate cyclase; GAF domain, bound cyclic AMP ligand, lyase; HET: CMP; 1.90A {Anabaena SP}

Probab=99.09  E-value=1.7e-10  Score=87.67  Aligned_cols=91  Identities=26%  Similarity=0.493  Sum_probs=75.5

Q ss_pred             hhHHHHHh-ccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeee
Q psy680            2 AIVRDIAR-DLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGH   80 (122)
Q Consensus         2 ei~~~l~~-~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~   80 (122)
                      ++++.|.. ..++++++..++..+..++++++|+||++|++.   ..+.....  ..+  .   ....+++|++.|++|+
T Consensus       203 ~~~~~l~~~~~dl~~~l~~i~~~~~~~~~~~~~~i~l~d~~~---~~l~~~~~--~~~--~---~~~~~~~~~~~~~~~~  272 (398)
T 1ykd_A          203 KAVKSLSQSSLDLEDTLKRVMDEAKELMNADRSTLWLIDRDR---HELWTKIT--QDN--G---STKELRVPIGKGFAGI  272 (398)
T ss_dssp             HHHHHHHHCCCCHHHHHHHHHHHHHHHTTEEEEEEEEEETTT---TEEEEEEE--CSS--S---CEEEEEEETTSHHHHH
T ss_pred             HHHHHHhcccCCHHHHHHHHHHHHHHHhCcCeEEEEEEECCC---CEEEEEEe--cCC--C---ceeeeeccCCCchhhH
Confidence            56778888 899999999999999999999999999999864   24554331  111  1   3456789999999999


Q ss_pred             eeccCCeEecc-CCCCCCCCChH
Q psy680           81 VAVTGETVNLQ-KKKEKKKKKKK  102 (122)
Q Consensus        81 Va~tg~pi~i~-Dv~~d~rF~~~  102 (122)
                      |+.+|+|++++ |+..+|+|...
T Consensus       273 v~~~~~~~~i~~d~~~~~~~~~~  295 (398)
T 1ykd_A          273 VAASGQKLNIPFDLYDHPDSATA  295 (398)
T ss_dssp             HHHHCCCEEECSCGGGSTTCHHH
T ss_pred             HhccCCeEEeccccccCcccCcc
Confidence            99999999999 99999999876

>1mc0_A 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF domain, 3',5' guanosine monophosphate, hydrolase; HET: PCG; 2.86A {Mus musculus} SCOP: d.110.2.1 d.110.2.1

Probab=99.08  E-value=3.4e-11  Score=90.32  Aligned_cols=86  Identities=24%  Similarity=0.332  Sum_probs=70.1

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV   81 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V   81 (122)
                      ++++.| +++|+++++..++..+++++++++|+||++|++.   ..+++....   +  ..  ....+.+|.+.|++|+|
T Consensus        18 ~l~~~l-~~~dl~~~l~~i~~~~~~~~~~~~~~i~l~d~~~---~~l~~~~~~---g--~~--~~~~~~~~~~~g~~g~~   86 (368)
T 1mc0_A           18 QLCGEL-FDLDATSLQLKVLQYLQQETQATHCCLLLVSEDN---LQLSCKVIG---D--KV--LGEEVSFPLTMGRLGQV   86 (368)
T ss_dssp             HHHHTC-CCSSHHHHHHHHHHHHHHHSCEEEEEEEEECSSS---CEEEEEEET---T--EE--EEEEEEEESSSSSHHHH
T ss_pred             HHHHHH-hhhhHHHHHHHHHHHHHHHhCCcEEEEEEEeCCC---CeEEEEecC---C--Cc--cccceeeccccCHHHHH
Confidence            566777 6789999999999999999999999999999864   345544321   1  11  23467889999999999


Q ss_pred             eccCCeEeccCCCCCCC
Q psy680           82 AVTGETVNLQKKKEKKK   98 (122)
Q Consensus        82 a~tg~pi~i~Dv~~d~r   98 (122)
                      +.+|+|++|+|+..||+
T Consensus        87 ~~~~~~~~i~d~~~~~~  103 (368)
T 1mc0_A           87 VEDKQCIQLKDLTSDDV  103 (368)
T ss_dssp             HHHCCCEEGGGSCHHHH
T ss_pred             HhcCCeEEecccccccc
Confidence            99999999999998886

>3ibj_A CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE2A, GAF-domains, allosteric regulation hydrolase, membrane; 3.02A {Homo sapiens}

Probab=99.00  E-value=4.9e-10  Score=91.67  Aligned_cols=94  Identities=26%  Similarity=0.364  Sum_probs=73.1

Q ss_pred             hhHHHHHh-ccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeee
Q psy680            2 AIVRDIAR-DLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGH   80 (122)
Q Consensus         2 ei~~~l~~-~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~   80 (122)
                      ++++.+++ ..++++++..++..+.++++|++|+|+++|+.     +++..++.+..    .+......++|.+.|++|+
T Consensus       185 ei~~~l~~~~~dl~~ll~~i~~~~~~~l~ad~~~i~L~d~~-----~l~~~~~~g~~----~~~~~~~~~~~~~~gi~g~  255 (691)
T 3ibj_A          185 QVAKNLFTHLDDVSVLLQEIITEARNLSNAEICSVFLLDQN-----ELVAKVFDGGV----VDDESYEIRIPADQGIAGH  255 (691)
T ss_dssp             HHHHHHTTCCSCTTTHHHHHHHHHHHHHTEEEEEEEEECSS-----EEEEECCSSSC----CSSCCCEEEEETTSHHHHH
T ss_pred             HHHHHHhhccccHHHHHHHHHHHHHHHhCCCeEEEEEEeCC-----eEEEEeecCCc----ccccccceeccCCCCHHHH
Confidence            56777888 58999999999999999999999999999972     35544432211    1114457789999999999


Q ss_pred             eeccCCeEeccCCCCCCCCChHHH
Q psy680           81 VAVTGETVNLQKKKEKKKKKKKKK  104 (122)
Q Consensus        81 Va~tg~pi~i~Dv~~d~rF~~~~~  104 (122)
                      |+++|+|++++|+..||+|....+
T Consensus       256 v~~~g~~v~i~d~~~d~~~~~~~~  279 (691)
T 3ibj_A          256 VATTGQILNIPDAYAHPLFYRGVD  279 (691)
T ss_dssp             HHHHCSCEEESCSTTSTTC-----
T ss_pred             HHHhCCEEEecCcccCccccchhh
Confidence            999999999999999999976544

>1mc0_A 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF domain, 3',5' guanosine monophosphate, hydrolase; HET: PCG; 2.86A {Mus musculus} SCOP: d.110.2.1 d.110.2.1

Probab=98.97  E-value=1.2e-09  Score=81.79  Aligned_cols=95  Identities=26%  Similarity=0.415  Sum_probs=75.1

Q ss_pred             hhHHHHHhc-cCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeee
Q psy680            2 AIVRDIARD-LDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGH   80 (122)
Q Consensus         2 ei~~~l~~~-ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~   80 (122)
                      ++++.|.+. .|+++++..++..+++++++++|+||++|+.     .+....+.+    +..+.......+|.+.|++|+
T Consensus       185 ~i~~~l~~~~~~~~~~l~~i~~~~~~~~~~~~~~i~l~d~~-----~l~~~~~~g----~~~~~~~~~~~~~~~~~~~~~  255 (368)
T 1mc0_A          185 QVAKNLFTHLDDVSVLLQEIITEARNLSNAEICSVFLLDQN-----ELVAKVFDG----GVVDDESYEIRIPADQGIAGH  255 (368)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHHHHTEEEEEEEEECSS-----SEEEEEETT----EECCCSTTCCEECTTSHHHHH
T ss_pred             HHHHHHHhcccCHHHHHHHHHHHHHHHhcccEEEEEEEeCC-----ceEEEEecc----ccccccccceeecCCCceeee
Confidence            567778888 5999999999999999999999999999972     244333221    111113456688999999999


Q ss_pred             eeccCCeEeccCCCCCCCCChHHHH
Q psy680           81 VAVTGETVNLQKKKEKKKKKKKKKK  105 (122)
Q Consensus        81 Va~tg~pi~i~Dv~~d~rF~~~~~~  105 (122)
                      |+.+|+|++|+|+..+|+|....+.
T Consensus       256 ~~~~~~~~~i~d~~~~~~~~~~~~~  280 (368)
T 1mc0_A          256 VATTGQILNIPDAYAHPLFYRGVDD  280 (368)
T ss_dssp             HHHHCCCEEESCSTTCTTCCCTTHH
T ss_pred             ehhhCCEEEecCcccCcccchhhhh
Confidence            9999999999999999999876543

>3p01_A Two-component response regulator; PSI-2, midwest center for structural genomics, protein struc initiative, MCSG, signali protein; 2.65A {Nostoc SP}

Probab=98.93  E-value=5.9e-10  Score=76.37  Aligned_cols=88  Identities=9%  Similarity=0.084  Sum_probs=66.2

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV   81 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V   81 (122)
                      +|++.|.+.+|+++++..+++.+.+++++++|+||+++++.   .......+. ..  +.     ....+| +.|++|+|
T Consensus        34 ~is~~l~~~~dl~~il~~i~~~l~~~l~~d~~~i~l~~~~~---~~~~~~~~~-~~--~~-----~~~~~~-~~~~~~~~  101 (184)
T 3p01_A           34 VLVQVTQASNSLEAILTPIATAFAESFAVNACILQMLEGQT---LSTIQGFYS-QQ--GT-----VNNWLN-QDPLTNEA  101 (184)
T ss_dssp             HHHHHHHHCSSSHHHHHHHHHHHHHHHTCSEEEEEEEETTE---EEEEEEEEE-SS--SS-----CCCCGG-GCHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHhCCCeEEEEEecCCc---eeeeeeecc-cc--Cc-----cCcccC-CCcHHHHH
Confidence            67888999999999999999999999999999999995431   222221111 11  11     111244 48899999


Q ss_pred             eccCCeEeccCCCCCCCCCh
Q psy680           82 AVTGETVNLQKKKEKKKKKK  101 (122)
Q Consensus        82 a~tg~pi~i~Dv~~d~rF~~  101 (122)
                      +.+|+|+.|+|+..||+|..
T Consensus       102 ~~~~~~~~i~d~~~~~~~~~  121 (184)
T 3p01_A          102 IATGQIQVAANIAKDPKLAS  121 (184)
T ss_dssp             HHHCSCEEESCGGGCHHHHT
T ss_pred             HhhCCeEEEeccccCccccc
Confidence            99999999999999998754

>2lb5_A Sensor histidine kinase; PCB, transferase, GAF domain, phosphoprotein; HET: CYC; NMR {Synechococcus SP} PDB: 2lb9_A*

Probab=98.89  E-value=3.4e-09  Score=73.87  Aligned_cols=100  Identities=15%  Similarity=0.097  Sum_probs=58.5

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCc-c---c-C--C---------
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGL-V---Y-S--T---------   65 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~-~---~-~--~---------   65 (122)
                      ++++.|.+++|+++++..++..+.++++++||+||++|++.+  ..+++..........+ .   + .  +         
T Consensus        20 ~i~~~i~~~~dl~~il~~~~~~l~~~l~~dr~~i~~~d~~~~--~~~~~~~~~~~~~~~~~g~~~~~~~~p~~~~~~~~~   97 (208)
T 2lb5_A           20 RITHQIRQSLELDQILRATVEEVRAFLGTDRVKVYRFDPEGH--GTVVAEARGGERLPSLLGLTFPAGDIPEEARRLFRL   97 (208)
T ss_dssp             -----------CHHHHHHHHHHHHHHHCCSEEEEEECCTTSE--EEEEEEEESSCCSCCCTTCEEEGGGCCSHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHCCCEEEEEEEcCCCC--EEEEEEEecCCCCccccCCcCChhhCcHHHHHHHHh
Confidence            678888999999999999999999999999999999998642  2344333211000000 0   0 0  0         


Q ss_pred             -CceeeeeCCCceeee----eeccCCeEeccCCCCCCCCChHH
Q psy680           66 -ADEVEVPWGVGILGH----VAVTGETVNLQKKKEKKKKKKKK  103 (122)
Q Consensus        66 -~~~i~~~~g~GI~G~----Va~tg~pi~i~Dv~~d~rF~~~~  103 (122)
                       ...+-...+.|++|+    |+.+|+|++++|+..++.+....
T Consensus        98 ~~~~~i~d~~~~~~~~~~~~~~~~~~~i~i~d~~~~~~~~~~~  140 (208)
T 2lb5_A           98 AQVRVIVDVEAQSRSISQPESWGLSARVPLGEPLQRPVDPCHV  140 (208)
T ss_dssp             TCCCEECCGGGCCCCCCCSSCCCCCSCCCCCSCSSCCCCHHHH
T ss_pred             CCeEEEeccccccccccccccccccccccccchhhccCCHHHH
Confidence             000111234677887    79999999999999998876543

>3hcy_A Putative two-component sensor histidine kinase PR; two-component sensor histidine kinase protein, structural GE PSI, MCSG; 2.80A {Sinorhizobium meliloti}

Probab=98.85  E-value=3.1e-09  Score=70.05  Aligned_cols=80  Identities=14%  Similarity=0.100  Sum_probs=57.6

Q ss_pred             cCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCeEec
Q psy680           11 LDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETVNL   90 (122)
Q Consensus        11 ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~pi~i   90 (122)
                      .|+++++..+++.+.+++++++|+|+++|++.    .+.....   .  ++.+   .....+.+.|++|+++.+|+|++|
T Consensus         2 ~~l~~~l~~~~~~~~~~~~~~~~~i~l~d~~~----~l~~~a~---~--g~~~---~~~~~~~~~~~~~~~~~~~~~~~i   69 (151)
T 3hcy_A            2 NAIEEVYEATLDAIQGALNCDRASILLFDEAG----TMRFVAA---R--GLSE---HYQRAVDGHSPWITGANEPEPIFV   69 (151)
T ss_dssp             CCCHHHHHHHHHHHHHHHCCSEEEEEEECTTS----CEEEEEE---E--SCCH---HHHHHTCBCCSCC---CCCCCEEE
T ss_pred             ccHHHHHHHHHHHHHHhhcCCEEEEEEEcCCC----cEEEEee---C--CCCH---HHHhhccCCCchhhhhhcCCcEEE
Confidence            58999999999999999999999999999853    2322221   1  1111   011124678899999999999999


Q ss_pred             cCCCCCCCCChH
Q psy680           91 QKKKEKKKKKKK  102 (122)
Q Consensus        91 ~Dv~~d~rF~~~  102 (122)
                      +|+..||+|...
T Consensus        70 ~d~~~~~~~~~~   81 (151)
T 3hcy_A           70 ENVDDAEFSREL   81 (151)
T ss_dssp             SCGGGSCCCHHH
T ss_pred             eChhhCcccchh
Confidence            999999999553

>2qyb_A Membrane protein, putative; GAF domain, domain of putative membrane protein, PSI-2, MCSG structural genomics; 2.40A {Geobacter sulfurreducens pca}

Probab=98.85  E-value=3.5e-09  Score=71.66  Aligned_cols=90  Identities=14%  Similarity=0.110  Sum_probs=64.7

Q ss_pred             ChhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeee
Q psy680            1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGH   80 (122)
Q Consensus         1 ~ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~   80 (122)
                      +++++.|++..|+++++..++..+.++++++.|+|+++++.  +  .+......+... ..   .......|.+.|++|+
T Consensus         6 ~~i~~~l~~~~~~~~~l~~i~~~~~~~~~~~~~~i~l~~~~--~--~l~~~a~~g~~~-~~---~~~~~~~~~~~~~~~~   77 (181)
T 2qyb_A            6 LRASEIMNRTLDLQIIMDDLLNLLLKEFKLDLAVIRLVDEK--G--VLRVRSYSGKGI-AG---IAGKDWEPEIETYIGE   77 (181)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHHHHHHHSSCSEEEEEEECTT--S--CEEEEEEEESCT-TS---TTCSCBCCCTTSHHHH
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHHHHhCCcEEEEEEECCC--C--CEEEEEEeCCCc-ce---ecccccccCCCCchhh
Confidence            36788999999999999999999999999999999999542  2  232222111111 00   1111234447899999


Q ss_pred             eeccCCeEeccCCCCCCC
Q psy680           81 VAVTGETVNLQKKKEKKK   98 (122)
Q Consensus        81 Va~tg~pi~i~Dv~~d~r   98 (122)
                      |+.+|+|+.++|+..+++
T Consensus        78 ~~~~~~~~~v~d~~~~~~   95 (181)
T 2qyb_A           78 AFLSNRLQFVNDTQYMTK   95 (181)
T ss_dssp             HHHHTSCEEESCGGGCSC
T ss_pred             hhhcCCCEEecChhcCCc
Confidence            999999999999999887

>2w3g_A DOSS, two component sensor histidine kinase DEVS (GAF family protein); redox sensor, heme, hypoxia, GAF domain, transferase; HET: HEM; 1.40A {Mycobacterium tuberculosis} PDB: 2w3d_A* 2w3f_A* 2w3e_A* 2w3h_A* 2y79_A* 2y8h_A* 2vzw_A*

Probab=98.79  E-value=1.2e-09  Score=71.37  Aligned_cols=85  Identities=19%  Similarity=0.275  Sum_probs=63.7

Q ss_pred             hccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCce-eeeeCCCceeeeeeccCCe
Q psy680            9 RDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADE-VEVPWGVGILGHVAVTGET   87 (122)
Q Consensus         9 ~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~-i~~~~g~GI~G~Va~tg~p   87 (122)
                      +++|+++++..+++.+.+++++++|+|+++|++  +  .+.....   .+  ..+..... ..+|.+.|++|+|+.+++|
T Consensus         3 ~~~~~~~~l~~i~~~~~~~~~~~~~~i~l~d~~--~--~l~~~~~---~g--~~~~~~~~~~~~~~~~~~~~~~~~~~~~   73 (153)
T 2w3g_A            3 MDPDLEATLRAIVHSATSLVDARYGAMEVHDRQ--H--RVLHFVY---EG--IDEETVRRIGHLPKGLGVIGLLIEDPKP   73 (153)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTTEEEEEEEEECTT--C--CEEEEEE---ES--CCHHHHHHHCSCCCSCTHHHHHHHSCSC
T ss_pred             CccCHHHHHHHHHHHHHHHhCCCEEEEEEECCC--C--CEEEEEE---ec--CCHHHHHhhccCCCCCCHHHHHHhcCCc
Confidence            457899999999999999999999999999953  2  2332221   11  11001122 2677889999999999999


Q ss_pred             EeccCCCCCCCCChH
Q psy680           88 VNLQKKKEKKKKKKK  102 (122)
Q Consensus        88 i~i~Dv~~d~rF~~~  102 (122)
                      +.++|+..+++|...
T Consensus        74 ~~~~d~~~~~~~~~~   88 (153)
T 2w3g_A           74 LRLDDVSAHPASIGF   88 (153)
T ss_dssp             EEESSGGGSTTCCCC
T ss_pred             EEecCcccCchhcCC
Confidence            999999999988654

>3bjc_A CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5, erectIle dysfunction, inhibitor design, allosteric enzyme, alternative splicing, CGMP binding; HET: WAN; 2.00A {Homo sapiens} SCOP: a.211.1.2 PDB: 3mf0_A 3lfv_A 2xss_A 2k31_A*

Probab=98.75  E-value=9.2e-10  Score=92.42  Aligned_cols=101  Identities=15%  Similarity=0.106  Sum_probs=0.0

Q ss_pred             hhHHHHHh-ccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCc---ccCCCceeeeeCCCce
Q psy680            2 AIVRDIAR-DLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGL---VYSTADEVEVPWGVGI   77 (122)
Q Consensus         2 ei~~~l~~-~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~---~~~~~~~i~~~~g~GI   77 (122)
                      ++++.|.. ..++++++..++..+++++++++|+||++|++.   .++++.++........   ........++|++.|+
T Consensus       338 ~ls~~L~~~s~dl~~ll~~I~~~a~~ll~a~~~~V~L~d~~~---~~l~a~a~~~~s~~~~~~~~~~~~~~~~~p~~~gi  414 (878)
T 3bjc_A          338 DLASLIFEEQQSLEVILKKIAATIISFMQVQKCTIFIVDEDC---SDSFSSVFHMECEELEKSSDTLTREHDANKINYMY  414 (878)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHhhhccccHHHHHHHHHHHHHHHhCcceeEEEEEcCcc---cchhHHHhhccccccccccccccccccccchhhhH
Confidence            45666654 469999999999999999999999999999853   3566554432211000   0001235678999999


Q ss_pred             eeeeeccCCeEeccCCCCCCCCChHHHH
Q psy680           78 LGHVAVTGETVNLQKKKEKKKKKKKKKK  105 (122)
Q Consensus        78 ~G~Va~tg~pi~i~Dv~~d~rF~~~~~~  105 (122)
                      +|+|+.+|+|++|+|+..|++|....+.
T Consensus       415 ~g~v~~~g~~v~i~D~~~d~r~~~~~~~  442 (878)
T 3bjc_A          415 AQYVKNTMEPLNIPDVSKDKRFPWTTEN  442 (878)
T ss_dssp             ----------------------------
T ss_pred             HHHHhhcCCeeeecCccccccccccccc
Confidence            9999999999999999999999876554

>2k2n_A Sensor protein, SYB-CPH1(GAF); phytochrome, GAF domain, phycocyanobilin, PCB, bacteriophytochrome, cyanobacterial phytochrome, kinase; HET: CYC; NMR {Synechococcus SP} SCOP: d.110.2.1 PDB: 2kli_A* 2koi_A*

Probab=98.65  E-value=8.4e-08  Score=64.99  Aligned_cols=90  Identities=16%  Similarity=0.144  Sum_probs=59.3

Q ss_pred             HHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeecccc-CC--Cc--ccCCC----------ceeee--eCCC
Q psy680           13 LKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHS-GA--GL--VYSTA----------DEVEV--PWGV   75 (122)
Q Consensus        13 l~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~-~~--~~--~~~~~----------~~i~~--~~g~   75 (122)
                      ++++|..+++.+++++++|||+||++|++.++  .+++....... .+  +.  .....          ..+++  ....
T Consensus         1 l~~il~~~~~~~~~~l~~dr~~i~~~~~~~~~--~~~~e~~~~~~~~~~~g~~~~~~~~p~~~~~~~~~~~~~~i~d~~~   78 (172)
T 2k2n_A            1 LDQILRATVEEVRAFLGTDRVKVYRFDPEGHG--TVVAEARGGERLPSLLGLTFPAGDIPEEARRLFRLAQVRVIVDVEA   78 (172)
T ss_dssp             CHHHHHHHHHHHHHHHCCSEEEEEECCTTSCC--EEEEEEESSTTSCCCTTCBCCTTCSCSHHHHHHHHTCCEECCCGGG
T ss_pred             CHHHHHHHHHHHHHHhCCCeEEEEEECCCCCE--EEEEEEecCCCCccccCCccCcccCcHHHHHHHHhCCeEEEeeccc
Confidence            47899999999999999999999999986433  34443322110 00  00  00000          01111  1236


Q ss_pred             ceeeee----eccCCeEeccCCCCCCCCChHHH
Q psy680           76 GILGHV----AVTGETVNLQKKKEKKKKKKKKK  104 (122)
Q Consensus        76 GI~G~V----a~tg~pi~i~Dv~~d~rF~~~~~  104 (122)
                      |++|+|    +.+|+|++++|++.++.|....+
T Consensus        79 ~~~g~v~~~~~~~~~~~~i~d~~~~~~~~~~~~  111 (172)
T 2k2n_A           79 QSRSISQPESWGLSARVPLGEPLQRPVDPCHVH  111 (172)
T ss_dssp             CCCCCSCCCSCCCSSCCCCCSSSSCCCCHHHHH
T ss_pred             cccccccccccccCCceeccchhhcCCCHHHHH
Confidence            888886    99999999999999999875543

>3o5y_A Sensor protein; GAF domain, histidine, kinase, PSI, MCSG, structural genomics, midwest center for structural genomics, protein S initiative; 2.45A {Bacillus halodurans}

Probab=98.45  E-value=5.3e-07  Score=61.69  Aligned_cols=85  Identities=11%  Similarity=0.100  Sum_probs=59.7

Q ss_pred             hccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCeE
Q psy680            9 RDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETV   88 (122)
Q Consensus         9 ~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~pi   88 (122)
                      ..+++++++..++..+++++++++++|++++++     .+....+.+... ..   ......+|.+.+++++|+++|+|+
T Consensus         2 ~~~sldevL~~v~~~l~~~~~~d~~~l~L~~~~-----~L~l~a~~~~~~-~~---~~~~~~ip~~~s~~~~v~~~~~~~   72 (165)
T 3o5y_A            2 NAMSLDDIINNMIDKLKLLVHFDRISFLLLANE-----TLKLSHVYPKGS-HS---LDIGSTIPKEQSLYWSALDQRQTI   72 (165)
T ss_dssp             --CCHHHHHHHHHHHHHHHSCCSEEEEEEEETT-----EEEEEEEESTTC-CS---SCTTCEECSTTCHHHHHHHHTSCE
T ss_pred             CCCCHHHHHHHHHHHHHHhcCcceEEEEEEECC-----EEEEEEEecCCc-cc---cccccccCCccCHHHHHHHhCCeE
Confidence            457999999999999999999999999999863     243333221111 00   112346788889999999999999


Q ss_pred             eccCCCCCCCCChH
Q psy680           89 NLQKKKEKKKKKKK  102 (122)
Q Consensus        89 ~i~Dv~~d~rF~~~  102 (122)
                      ++++...+++|...
T Consensus        73 v~~~~~~~~~~~~~   86 (165)
T 3o5y_A           73 FRSLTDTQDNFYEK   86 (165)
T ss_dssp             EEESCCTTCCCTTH
T ss_pred             EEcCcccccccccc
Confidence            86554444577644

>4glq_A Methyl-accepting chemotaxis protein; chromophore, phytochrome, cyanobacteriochrome, phycoviolobil bilin, BILI-protein; HET: PVN; 1.77A {Thermosynechococcus elongatus} PDB: 4fof_A*

Probab=98.36  E-value=4.7e-07  Score=62.24  Aligned_cols=88  Identities=11%  Similarity=0.049  Sum_probs=57.6

Q ss_pred             hHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCC--ceeee
Q psy680            3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGV--GILGH   80 (122)
Q Consensus         3 i~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~--GI~G~   80 (122)
                      .+..|.+++|+++++..+++.+++++++|||.||.++++.+|  ++++...    .++..  +.....+|...  .-...
T Consensus         2 ~a~~Ir~sldl~~il~~~v~~v~~~l~~DRv~Iy~f~~d~~g--~vvaE~~----~~~~~--s~lg~~~~~~~~~~~~~~   73 (171)
T 4glq_A            2 AAVQLSELRDRQAIFETLVAKGRELLACDRVIVYAFDDNYVG--TVVAESV----AEGWP--QARDQVIEDPCFREHWVE   73 (171)
T ss_dssp             ------CTTHHHHHHHHHHHHHHHHHTCSEEEEEEECTTCCE--EEEEEEE----CTTSC--CCTTCEECCTHHHHHTHH
T ss_pred             hHHHHhhcCCHHHHHHHHHHHHHHHHCCCeEEEEEEeCCCCe--EEEEEEc----CCCCc--cccCCccCccccHHHHHH
Confidence            367788999999999999999999999999999999986433  3443321    12222  22233444321  12345


Q ss_pred             eeccCCeEeccCCCCCCC
Q psy680           81 VAVTGETVNLQKKKEKKK   98 (122)
Q Consensus        81 Va~tg~pi~i~Dv~~d~r   98 (122)
                      ...+|+++.|+|+..++.
T Consensus        74 ~~~~g~~~~I~Dv~~~~~   91 (171)
T 4glq_A           74 AYRQGRIQATTDIFKAGL   91 (171)
T ss_dssp             HHHTTCCEEESCGGGTTC
T ss_pred             HHHcCCEEEEcCcCcCCC
Confidence            789999999999987543

>3cit_A Sensor histidine kinase; MEGA: 3.30.450.40, structural genomics, sensor histidine KIN pseudomonas syringae, PSI-2; HET: MSE; 1.90A {Pseudomonas syringae PV}

Probab=98.06  E-value=1.8e-06  Score=59.36  Aligned_cols=40  Identities=10%  Similarity=0.125  Sum_probs=34.6

Q ss_pred             ChhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEecc
Q psy680            1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERR   41 (122)
Q Consensus         1 ~ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~   41 (122)
                      +++++.| ..++.+.++..++..++.+++||+|+||++|++
T Consensus        18 ~e~~~~L-~~l~~~~~l~~il~~a~~~~~~d~gsL~l~d~~   57 (160)
T 3cit_A           18 VDTGQEL-IQLPPEAMRKCVLQRACAFVAMDHGLLLEWGAD   57 (160)
T ss_dssp             HHHHHHH-HHSCHHHHHHHHHHHHHHHTTCSEEEEEECC--
T ss_pred             HHHHHHH-hcCCHHHHHHHHHHHHHHHhccCeeEEEEEcCC
Confidence            3678888 667889999999999999999999999999984

>4e04_A Bacteriophytochrome (light-regulated signal trans histidine kinase), PHYB1; bacteriophytochrome chromophore binding domain; HET: LBV; 1.79A {Rhodopseudomonas palustris}

Probab=97.57  E-value=0.00022  Score=54.05  Aligned_cols=87  Identities=9%  Similarity=0.054  Sum_probs=60.2

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCC--ceee
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGV--GILG   79 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~--GI~G   79 (122)
                      .+...|.+++|+++++..+++.+++++++||+.||-++++.+|  ++++....    ++++  +.....+|-..  --+.
T Consensus       138 ~i~~rIr~sldl~~il~~av~evr~llg~DRVmIYrF~~d~~G--~VvAEs~~----~~~~--s~LGl~~p~~dip~~ar  209 (327)
T 4e04_A          138 SAIRRLQAAETLESACAAAAQEVREITGFDRVMIYRFASDFSG--EVIAEDRC----AEVE--SYLGLHFPASDIPAQAR  209 (327)
T ss_dssp             HHHHHHHHCCSHHHHHHHHHHHHHHHHCCSEEEEEEECTTSCE--EEEEEEEC----TTSC--CCTTCEECGGGSCHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHCCCeEEEEEEcCCCCE--EEEEEEec----CCCc--CccCCccccccchHHHH
Confidence            3567788889999999999999999999999999999987544  55554321    2333  33344444321  1233


Q ss_pred             eeeccCCeEeccCCCCC
Q psy680           80 HVAVTGETVNLQKKKEK   96 (122)
Q Consensus        80 ~Va~tg~pi~i~Dv~~d   96 (122)
                      .....|....|+|++..
T Consensus       210 ~ly~~~~vr~I~Di~~~  226 (327)
T 4e04_A          210 RLYTINPVRIIPDINYR  226 (327)
T ss_dssp             HHHHHSCEEEESCTTCC
T ss_pred             HHHHcCCEEEEeCCCCC
Confidence            45667777788888765

>3s7o_A Bacteriophytochrome; biliverdin, PAS, GAF, photoreceptor, fluorescent protein; HET: LBV GOL; 1.24A {Deinococcus radiodurans} PDB: 3s7n_A* 3s7p_A* 3s7q_A* 2o9c_A* 2o9b_A* 1ztu_A*

Probab=97.54  E-value=0.00025  Score=54.07  Aligned_cols=88  Identities=11%  Similarity=0.066  Sum_probs=60.3

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCC--Cceee
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWG--VGILG   79 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g--~GI~G   79 (122)
                      .+...|.+++|+++++..++..+++++++||+.||-++++.+|  ++++....    ++++  +.....+|-.  ---+.
T Consensus       156 ~i~~rIr~sldl~~ilq~tV~eVR~llg~DRVmIYrF~~d~~G--eVvAEs~~----~~~~--s~LGl~~pasdiP~~ar  227 (343)
T 3s7o_A          156 NAMFALESAPNLRALAEVATQTVRELTGFDRVMLYKFAPDATG--EVIAEARR----EGLH--AFLGHRFPASHIPAQAR  227 (343)
T ss_dssp             HHHHHHHHCCSHHHHHHHHHHHHHHHHCCSEEEEEEECTTSCE--EEEEEEEC----TTCC--CCTTCEECGGGSCHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHhCCCeEEEEEEcCCCCE--EEEEEEec----CCcc--cccCCccccccCHHHHH
Confidence            3567788889999999999999999999999999999986544  56554321    2333  3333444432  11234


Q ss_pred             eeeccCCeEeccCCCCCC
Q psy680           80 HVAVTGETVNLQKKKEKK   97 (122)
Q Consensus        80 ~Va~tg~pi~i~Dv~~d~   97 (122)
                      .....+....|+|++..|
T Consensus       228 ~ly~~~~vr~I~Di~~~p  245 (343)
T 3s7o_A          228 ALYTRHLLRLTADTRAAA  245 (343)
T ss_dssp             HHHHHSCEEEESCTTCCC
T ss_pred             HHHHcCCEEEEeccCCCc
Confidence            455667777788877653

>2ool_A Sensor protein; bacteriophytochrome, photoconversion, photoreceptor, biliver signaling protein; HET: LBV; 2.20A {Rhodopseudomonas palustris} SCOP: d.110.2.1 d.110.3.9

Probab=97.49  E-value=0.00032  Score=53.28  Aligned_cols=87  Identities=9%  Similarity=0.087  Sum_probs=59.7

Q ss_pred             hHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCC--ceeee
Q psy680            3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGV--GILGH   80 (122)
Q Consensus         3 i~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~--GI~G~   80 (122)
                      +...|.+++|+++++..++..+++++++||+.||-++++.+|  ++++...    .++++  +....++|...  --+..
T Consensus       152 i~~~Ir~sl~l~~il~~tv~evr~ll~~DRV~IYrF~~d~~G--~VvaEs~----~~~~~--s~lGl~~p~~dip~~ar~  223 (337)
T 2ool_A          152 AIRRLQTAADLPTACWIAASEVRRITGFDRIKVYQFAADWSG--QVIAEDR----DSGIP--SLLDFHFPSSDIPAQSRA  223 (337)
T ss_dssp             HHHHHHTCCSHHHHHHHHHHHHHHHHCCSEEEEEEECTTSCE--EEEEEEE----CTTCC--CCTTCEECGGGSCHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhCCCeeEEEEEcCCCCE--EEEEEEc----cCCCc--cccCCCCCccccHHHHHH
Confidence            567777889999999999999999999999999999986544  5555432    12333  33344444321  12334


Q ss_pred             eeccCCeEeccCCCCCC
Q psy680           81 VAVTGETVNLQKKKEKK   97 (122)
Q Consensus        81 Va~tg~pi~i~Dv~~d~   97 (122)
                      ....+....|+|++..|
T Consensus       224 ly~~~~vr~I~Di~~~~  240 (337)
T 2ool_A          224 LYTINPVRIIPDIGYRP  240 (337)
T ss_dssp             HHHHSCEEEESCTTCCC
T ss_pred             HHHhCCEEEEEccCCCc
Confidence            55667777788887653

>3zq5_A Phytochrome-like protein CPH1; arginine finger, tandem GAF domain, receptor, PAS domain, chromophore, sensory transduction; HET: CYC; 1.95A {Synechocystis SP} PDB: 2vea_A*

Probab=97.40  E-value=0.00049  Score=55.09  Aligned_cols=87  Identities=9%  Similarity=0.085  Sum_probs=61.6

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCC--ceee
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGV--GILG   79 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~--GI~G   79 (122)
                      .+...|.+++|+++++..+++.+++++++||+.||-++++.+|  ++++....    ++++  +....++|...  -.+.
T Consensus       142 ~i~~~Ir~sl~l~~il~~~v~evr~ll~~DRVmIYrF~~d~~G--~VvAEs~~----~~~~--s~LGl~~p~~diP~~ar  213 (520)
T 3zq5_A          142 AALNRLRQQANLRDFYDVIVEEVRRMTGFDRVMLYRFDENNHG--DVIAEDKR----DDME--PYLGLHYPESDIPQPAR  213 (520)
T ss_dssp             HHHHHHHHSCCHHHHHHHHHHHHHHHHCCSEEEEEEECTTSCE--EEEEEEEC----TTSC--CCTTEEECGGGSCHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHhCCCEEEEEEEcCCCcE--EEEEEEeC----CCch--hhcCCccChhhhhHHHH
Confidence            3567788889999999999999999999999999999987543  55544321    2333  34445555421  1234


Q ss_pred             eeeccCCeEeccCCCCC
Q psy680           80 HVAVTGETVNLQKKKEK   96 (122)
Q Consensus        80 ~Va~tg~pi~i~Dv~~d   96 (122)
                      .....|....|+|+...
T Consensus       214 ~ly~~~~vr~I~Di~~~  230 (520)
T 3zq5_A          214 RLFIHNPIRVIPDVYGV  230 (520)
T ss_dssp             HHHHHCCEEEESCTTCC
T ss_pred             HHHHcCCEEEEcCCCCC
Confidence            45677888888888765

>3nhq_A Bacteriophytochrome; photoreceptor, PAS, signaling, signaling protei; HET: BLA; 2.55A {Pseudomonas aeruginosa} PDB: 3c2w_A* 3nop_C* 3not_C* 3nou_C* 3g6o_A* 3ibr_A*

Probab=97.36  E-value=0.00051  Score=54.79  Aligned_cols=88  Identities=11%  Similarity=0.063  Sum_probs=61.5

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCC--ceee
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGV--GILG   79 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~--GI~G   79 (122)
                      .+...|.+++|+++++..+++.+++++++||+.||-++++.+|  ++++....    ++++  +....++|...  -.+.
T Consensus       129 ~i~~~Ir~sl~l~~il~~~v~evr~ll~~DRV~IYrF~~d~~G--~VvaEs~~----~~~~--s~LGl~~p~~diP~~ar  200 (505)
T 3nhq_A          129 RIIAQVQLHNDTASLLSNVTDELRRMTGYDRVMAYRFRHDDSG--EVVAESRR----EDLE--SYLGQRYPASDIPAQAR  200 (505)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHCCSEEEEEEECTTSCE--EEEEEEEC----TTSC--CCTTCEECGGGSCHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHhCCCeEEEEEecCCCCE--EEEEEEeC----CCch--hhcCCccCcccCHHHHH
Confidence            3667788889999999999999999999999999999987544  55554321    2333  33344444321  1334


Q ss_pred             eeeccCCeEeccCCCCCC
Q psy680           80 HVAVTGETVNLQKKKEKK   97 (122)
Q Consensus        80 ~Va~tg~pi~i~Dv~~d~   97 (122)
                      .....|....|+|+...|
T Consensus       201 ~ly~~~~vr~I~Dv~~~~  218 (505)
T 3nhq_A          201 RLYIQNPIRLIADVAYTP  218 (505)
T ss_dssp             HHHHHCSEEEESCTTCCC
T ss_pred             HHHHcCCEEEEcCCCCCc
Confidence            556677777888887654

>2o8m_C Protease; NS3, NS4A, viral protein; 2.00A {Hepatitis c virus} PDB: 2obq_B 3lon_B* 1n1l_C* 1rtl_C* 2a4g_B* 1a1r_C* 2a4q_B* 2f9u_B* 2f9v_B* 2fm2_B* 2gvf_B* 2obo_B* 2a4r_B* 2oc1_B* 2oc7_B* 2oc8_B* 2xcf_C* 2xcn_C* 2xni_C* 3eyd_B* ...

Probab=93.24  E-value=0.061  Score=25.40  Aligned_cols=18  Identities=28%  Similarity=0.564  Sum_probs=16.5

Q ss_pred             ceeeeeeccCCeEeccCC
Q psy680           76 GILGHVAVTGETVNLQKK   93 (122)
Q Consensus        76 GI~G~Va~tg~pi~i~Dv   93 (122)
                      -|+|++..+|+|.++||-
T Consensus         6 vIvGri~l~gkp~v~Pdr   23 (26)
T 2o8m_C            6 VIVGRIVLSGKPAIIPKK   23 (26)
T ss_dssp             EEEEEEECSCCCEECCCC
T ss_pred             EEEEEEEECCceEEcCCc
Confidence            489999999999999983

---

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	122
d1mc0a2	154	d.110.2.1 (A:402-555) 3',5'-cyclic nucleotide phos	1e-07
d1mc0a1	187	d.110.2.1 (A:215-401) 3',5'-cyclic nucleotide phos	2e-07

>d1mc0a2 d.110.2.1 (A:402-555) 3',5'-cyclic nucleotide phosphodiesterase 2A, GAF A and GAF B domains {Mouse (Mus musculus) [TaxId: 10090]} Length = 154

class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: GAF domain-like
family: GAF domain
domain: 3',5'-cyclic nucleotide phosphodiesterase 2A, GAF A and GAF B domains
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 45.4 bits (106), Expect = 1e-07
 Identities = 24/80 (30%), Positives = 42/80 (52%), Gaps = 9/80 (11%)

Query: 12 DLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEV 71
          D+  L ++ +     L +A+  S+F +++       LV+KVFD      +V   + E+ +
Sbjct: 1  DVSVLLQEIITEARNLSNAEICSVFLLDQNE-----LVAKVFDGG----VVDDESYEIRI 51

Query: 72 PWGVGILGHVAVTGETVNLQ 91
          P   GI GHVA TG+ +N+ 
Sbjct: 52 PADQGIAGHVATTGQILNIP 71

>d1mc0a1 d.110.2.1 (A:215-401) 3',5'-cyclic nucleotide phosphodiesterase 2A, GAF A and GAF B domains {Mouse (Mus musculus) [TaxId: 10090]} Length = 187

class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: GAF domain-like
family: GAF domain
domain: 3',5'-cyclic nucleotide phosphodiesterase 2A, GAF A and GAF B domains
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 45.0 bits (105), Expect = 2e-07
 Identities = 17/89 (19%), Positives = 27/89 (30%), Gaps = 11/89 (12%)

Query: 1  MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
          + +  ++  DLD  SL  K +  +     A    L  V                L     
Sbjct: 9  LQLCGELF-DLDATSLQLKVLQYLQQETQATHCCLLLVSEDN----------LQLSCKVI 57

Query: 61 LVYSTADEVEVPWGVGILGHVAVTGETVN 89
                +EV  P  +G LG V    + + 
Sbjct: 58 GDKVLGEEVSFPLTMGRLGQVVEDKQCIQ 86

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	122
d1mc0a1	187	3',5'-cyclic nucleotide phosphodiesterase 2A, GAF	99.42
d1vhma_	159	Hypothetical protein YebR {Escherichia coli [TaxId	99.1
d1mc0a2	154	3',5'-cyclic nucleotide phosphodiesterase 2A, GAF	99.07
d1f5ma_	176	Hypothetical protein ykl069wp {Baker's yeast (Sacc	99.03
d3c2wa1	192	Bacteriophytochrome BphP {Pseudomonas aeruginosa [	97.91
d2oola1	194	Sensor protein PhyB2 {Rhodopseudomonas palustris [	97.81
d2o9ca1	187	Bacteriophytochrome BphP {Deinococcus radiodurans	97.68
d2veaa1	196	Phytochrome-like protein Cph1 {Synechocystis sp. p	97.6
d2k2na1	170	Sensor protein CYB2465 {Synechococcus sp. [TaxId:	97.52

>d1mc0a1 d.110.2.1 (A:215-401) 3',5'-cyclic nucleotide phosphodiesterase 2A, GAF A and GAF B domains {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: GAF domain-like
family: GAF domain
domain: 3',5'-cyclic nucleotide phosphodiesterase 2A, GAF A and GAF B domains
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.42  E-value=1.5e-14  Score=98.93  Aligned_cols=88  Identities=23%  Similarity=0.310  Sum_probs=71.1

Q ss_pred             hHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeee
Q psy680            3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVA   82 (122)
Q Consensus         3 i~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va   82 (122)
                      ++..|+ ++|++.+++.++..+.++++|++|+||++|++.   ..+.+..+....       ....+.+|+++|++|+|+
T Consensus        11 l~~~l~-~ld~~~l~~~il~~~~~~~~ad~~~i~L~d~~~---~~l~~~~~~~~~-------~~~~~~~~~~~g~~~~v~   79 (187)
T d1mc0a1          11 LCGELF-DLDATSLQLKVLQYLQQETQATHCCLLLVSEDN---LQLSCKVIGDKV-------LGEEVSFPLTMGRLGQVV   79 (187)
T ss_dssp             HHHTCC-CSSHHHHHHHHHHHHHHHSCEEEEEEEEECSSS---CEEEEEEETTEE-------EEEEEEEESSSSSHHHHH
T ss_pred             HHHHHH-hCCHHHHHHHHHHHHHHHhCCCEEEEEEEECCC---ceEEEEEeccCC-------cccceeecCCccHHHHHH
Confidence            444444 479999999999999999999999999999865   456655432211       345678999999999999


Q ss_pred             ccCCeEeccCCCCCCCCCh
Q psy680           83 VTGETVNLQKKKEKKKKKK  101 (122)
Q Consensus        83 ~tg~pi~i~Dv~~d~rF~~  101 (122)
                      .+|+|++++|+..||+|..
T Consensus        80 ~~~~~~~i~d~~~d~~~~~   98 (187)
T d1mc0a1          80 EDKQCIQLKDLTSDDVQQL   98 (187)
T ss_dssp             HHCCCEEGGGSCHHHHHHH
T ss_pred             Hhhhhhhhhcccccccccc
Confidence            9999999999999987743

>d1vhma_ d.110.2.1 (A:) Hypothetical protein YebR {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: GAF domain-like
family: GAF domain
domain: Hypothetical protein YebR
species: Escherichia coli [TaxId: 562]

Probab=99.10  E-value=1.1e-10  Score=78.28  Aligned_cols=83  Identities=14%  Similarity=0.131  Sum_probs=63.6

Q ss_pred             HHHHhccCHHHHHHHHHHHHHHHh-cCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeec
Q psy680            5 RDIARDLDLKSLSKKTVDNVSVLL-DADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAV   83 (122)
Q Consensus         5 ~~l~~~ldl~~ll~~il~~~~~~l-~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~   83 (122)
                      ..|..+.|+..+|..++..+.+.+ +++.|.+|+.+++.   ..+...  ..         .....++|.|+|++|+|++
T Consensus        15 ~ll~~e~dl~~~L~~i~~~l~~~~~~~~~~~~yl~d~~~---~~l~~~--~~---------~~~~~~i~~g~g~~g~v~~   80 (159)
T d1vhma_          15 ALMAGETSFLATLANTSALLYERLTDINWAGFYLLEDDT---LVLGPF--QG---------KIACVRIPVGRGVCGTAVA   80 (159)
T ss_dssp             HHHTTCCCHHHHHHHHHHHHHHHSSSCSEEEEEEEETTE---EEEEEE--EE---------SCCCSEEETTSHHHHHHHH
T ss_pred             HHHcCCccHHHHHHHHHHHHHHhhccCceEEEEEEECCE---eeeeee--cC---------CcceeEEecCCChHHHHHH
Confidence            334445689999999988887777 56788899998743   333322  11         2345678999999999999


Q ss_pred             cCCeEeccCCCCCCCCCh
Q psy680           84 TGETVNLQKKKEKKKKKK  101 (122)
Q Consensus        84 tg~pi~i~Dv~~d~rF~~  101 (122)
                      +|+|++++|+..||+|..
T Consensus        81 ~~~~~~v~d~~~d~~~~~   98 (159)
T d1vhma_          81 RNQVQRIEDVHVFDGHIA   98 (159)
T ss_dssp             HTSCEEESCTTTCTTCCC
T ss_pred             cCCcEEecChHHhhhhhh
Confidence            999999999999999965

>d1mc0a2 d.110.2.1 (A:402-555) 3',5'-cyclic nucleotide phosphodiesterase 2A, GAF A and GAF B domains {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: GAF domain-like
family: GAF domain
domain: 3',5'-cyclic nucleotide phosphodiesterase 2A, GAF A and GAF B domains
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.07  E-value=1e-10  Score=75.83  Aligned_cols=84  Identities=25%  Similarity=0.353  Sum_probs=65.1

Q ss_pred             CHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCeEecc
Q psy680           12 DLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETVNLQ   91 (122)
Q Consensus        12 dl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~pi~i~   91 (122)
                      |++++|..++..++++++|++|+||++|++.   ..+.  .+....    .+......++|.+.+++|+|+.+++++++.
T Consensus         1 Dld~ll~~i~~~~~~~~~ad~~~i~l~d~~~---~~~~--~~~~~~----~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~   71 (154)
T d1mc0a2           1 DVSVLLQEIITEARNLSNAEICSVFLLDQNE---LVAK--VFDGGV----VDDESYEIRIPADQGIAGHVATTGQILNIP   71 (154)
T ss_dssp             CHHHHHHHHHHHHHHHHTEEEEEEEEECSSS---EEEE--EETTEE----CCCSTTCCEECTTSHHHHHHHHHCCCEEES
T ss_pred             CHHHHHHHHHHHHHHHHCCCEEEEEEEECCc---cEEE--EEEecc----ccccccceeecCCccchhheeccCcEEEEE
Confidence            7899999999999999999999999999753   2222  111111    111445678899999999999999999999


Q ss_pred             CCCCCCCCChHHH
Q psy680           92 KKKEKKKKKKKKK  104 (122)
Q Consensus        92 Dv~~d~rF~~~~~  104 (122)
                      |+..++++.....
T Consensus        72 ~~~~~~~~~~~~~   84 (154)
T d1mc0a2          72 DAYAHPLFYRGVD   84 (154)
T ss_dssp             CSTTCTTCCCTTH
T ss_pred             eccccccccchhh
Confidence            9999888766543

>d1f5ma_ d.110.2.1 (A:) Hypothetical protein ykl069wp {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: GAF domain-like
family: GAF domain
domain: Hypothetical protein ykl069wp
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.03  E-value=2.1e-10  Score=78.11  Aligned_cols=81  Identities=12%  Similarity=0.099  Sum_probs=55.2

Q ss_pred             cCHHHHHHHHHHHHHHHhc-----CCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccC
Q psy680           11 LDLKSLSKKTVDNVSVLLD-----ADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTG   85 (122)
Q Consensus        11 ldl~~ll~~il~~~~~~l~-----~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg   85 (122)
                      .++...|..+...+...++     .+++.+|+++...+  ..+......+         ....+++|+|+|++|+|+++|
T Consensus        37 ~~l~~~L~~i~~ll~~~~~~~~~~~d~~g~yl~~~~~~--~~l~~~~~~g---------~~~~~~i~~g~Gi~G~v~~~g  105 (176)
T d1f5ma_          37 VNWVCNLSNASSLIWHAYKSLAVDINWAGFYVTQASEE--NTLILGPFQG---------KVACQMIQFGKGVCGTAASTK  105 (176)
T ss_dssp             CBHHHHHHHHHHHHHHHHHHTTCCEEEEEEEEECSSSS--CEEEEEEEEE---------SCCCSEEETTSHHHHHHHHHT
T ss_pred             ccHHHHHHHHHHHHHHHHHhhhcccCceEEEEEecCCC--ceEEEeecCC---------CccceeecCCCcHHHHHHHhC
Confidence            3555555555444433333     45688899987542  2344332211         234568999999999999999


Q ss_pred             CeEeccCCCCCCCCChH
Q psy680           86 ETVNLQKKKEKKKKKKK  102 (122)
Q Consensus        86 ~pi~i~Dv~~d~rF~~~  102 (122)
                      +|++|+|+..||||...
T Consensus       106 ~~i~v~D~~~dpr~~~~  122 (176)
T d1f5ma_         106 ETQIVPDVNKYPGHIAC  122 (176)
T ss_dssp             SCEEESCGGGSTTCCCS
T ss_pred             CeEEecCcccCcchhhc
Confidence            99999999999999643

>d3c2wa1 d.110.2.1 (A:118-309) Bacteriophytochrome BphP {Pseudomonas aeruginosa [TaxId: 287]}

class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: GAF domain-like
family: GAF domain
domain: Bacteriophytochrome BphP
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=97.91  E-value=2.1e-05  Score=53.26  Aligned_cols=47  Identities=17%  Similarity=0.237  Sum_probs=40.2

Q ss_pred             hHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEee
Q psy680            3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSK   51 (122)
Q Consensus         3 i~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~   51 (122)
                      |...|.+++|++++|..++..++++++|||+.||-++++.+|  ++++.
T Consensus        13 i~~~Ir~sldl~~Il~ttv~evr~lL~~DRV~IYqf~~d~~g--~vvaE   59 (192)
T d3c2wa1          13 IIAQVQLHNDTASLLSNVTDELRRMTGYDRVMAYRFRHDDSG--EVVAE   59 (192)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHTCCSEEEEEEECTTSCE--EEEEE
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHhCCCeEEEEEECCCCCc--EEEEE
Confidence            567788899999999999999999999999999999986533  45544

>d2oola1 d.110.2.1 (A:140-333) Sensor protein PhyB2 {Rhodopseudomonas palustris [TaxId: 1076]}

class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: GAF domain-like
family: GAF domain
domain: Sensor protein PhyB2
species: Rhodopseudomonas palustris [TaxId: 1076]

Probab=97.81  E-value=3.8e-05  Score=52.00  Aligned_cols=48  Identities=13%  Similarity=0.189  Sum_probs=40.4

Q ss_pred             hHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeee
Q psy680            3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKV   52 (122)
Q Consensus         3 i~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~   52 (122)
                      +.+.|.+++|+++++..++..+++++++||+.||-++++.++  ++++..
T Consensus        13 i~~~Ir~sldl~~Il~tav~eir~~L~~DRv~Iy~f~~~~~~--~vvaEs   60 (194)
T d2oola1          13 AIRRLQTAADLPTACWIAASEVRRITGFDRIKVYQFAADWSG--QVIAED   60 (194)
T ss_dssp             HHHHHHTCCSHHHHHHHHHHHHHHHHCCSEEEEEEECTTSCE--EEEEEE
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHCCCEEEEEEEcCCCCc--EEEEee
Confidence            566788899999999999999999999999999999986433  455443

>d2o9ca1 d.110.2.1 (A:135-321) Bacteriophytochrome BphP {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: GAF domain-like
family: GAF domain
domain: Bacteriophytochrome BphP
species: Deinococcus radiodurans [TaxId: 1299]

Probab=97.68  E-value=7.2e-05  Score=50.58  Aligned_cols=86  Identities=12%  Similarity=0.071  Sum_probs=56.2

Q ss_pred             hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCC--Cceee
Q psy680            2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWG--VGILG   79 (122)
Q Consensus         2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g--~GI~G   79 (122)
                      ++...|.+++|+++++..++..++++++|||+.||-++++.+|  ++++.+..    ++..  +.....+|..  ..-..
T Consensus         8 ~~~~~ir~s~dl~~Il~tav~evr~~L~~DRV~IYrf~~d~~g--~vvaEs~~----~~~~--S~lg~~~p~~~~~~~~~   79 (187)
T d2o9ca1           8 NAMFALESAPNLRALAEVATQTVRELTGFDRVMLYKFAPDATG--EVIAEARR----EGLH--AFLGHRFPASDIPAQAR   79 (187)
T ss_dssp             HHHHHHHHCCSHHHHHHHHHHHHHHHHCCSEEEEEEECTTSCE--EEEEEEEC----TTSC--CCTTCEECGGGSCHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHHHhCCCEeEEEEECCCCCE--EEEEEEEC----CCCC--CCCCCccChHHHHHHHH
Confidence            3567888899999999999999999999999999999986433  45544321    1222  2222333321  12233


Q ss_pred             eeeccCCeEeccCCCC
Q psy680           80 HVAVTGETVNLQKKKE   95 (122)
Q Consensus        80 ~Va~tg~pi~i~Dv~~   95 (122)
                      .....+....|.|+..
T Consensus        80 ~~~~~~~~~~i~dv~~   95 (187)
T d2o9ca1          80 ALYTRHLLRLTADTRA   95 (187)
T ss_dssp             HHHHHSCEEEESCTTC
T ss_pred             HHHHcCCeEEEeeccc
Confidence            3455666666776654

>d2veaa1 d.110.2.1 (A:131-326) Phytochrome-like protein Cph1 {Synechocystis sp. pcc 6803 [TaxId: 1148]}

class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: GAF domain-like
family: GAF domain
domain: Phytochrome-like protein Cph1
species: Synechocystis sp. pcc 6803 [TaxId: 1148]

Probab=97.60  E-value=6.5e-05  Score=51.01  Aligned_cols=48  Identities=10%  Similarity=0.212  Sum_probs=36.0

Q ss_pred             hHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeee
Q psy680            3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKV   52 (122)
Q Consensus         3 i~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~   52 (122)
                      +.+.|.+++|+++++..++..+++++++||+.||-++++.+  .++++..
T Consensus        13 ii~~Ir~Sldl~~Il~tav~eir~lL~~DRV~iy~f~~d~~--g~vvaEs   60 (196)
T d2veaa1          13 ALNRLRQQANLRDFYDVIVEEVRRMTGFDRVMLYRFDENNH--GDVIAED   60 (196)
T ss_dssp             HHHCC----CHHHHHHHHHHHHHHHHCCSEEEEEEECTTSC--EEEEEEE
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHCCCeEEEEEECCCCC--cceEEEe
Confidence            34455567899999999999999999999999999998643  3555554

>d2k2na1 d.110.2.1 (A:31-200) Sensor protein CYB2465 {Synechococcus sp. [TaxId: 1131]}

class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: GAF domain-like
family: GAF domain
domain: Sensor protein CYB2465
species: Synechococcus sp. [TaxId: 1131]

Probab=97.52  E-value=7.6e-05  Score=48.86  Aligned_cols=79  Identities=14%  Similarity=0.183  Sum_probs=52.0

Q ss_pred             HHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCC--CceeeeeeccCCeEec
Q psy680           13 LKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWG--VGILGHVAVTGETVNL   90 (122)
Q Consensus        13 l~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g--~GI~G~Va~tg~pi~i   90 (122)
                      |+++|..+++.+++++++|||.||.++++.++  .+++.....   ...+  ......+|..  ....+.....|+++.|
T Consensus         1 L~~il~~av~el~~~l~~dRv~iy~f~~d~~~--~vvae~~~~---~~~~--s~lg~~~~~~~~~~~~~~~~~~~~~~~i   73 (170)
T d2k2na1           1 LDQILRATVEEVRAFLGTDRVKVYRFDPEGHG--TVVAEARGG---ERLP--SLLGLTFPAGDIPEEARRLFRLAQVRVI   73 (170)
T ss_dssp             CHHHHHHHHHHHHHHHCCSEEEEEECCTTSCC--EEEEEEESS---TTSC--CCTTCBCCTTCSCSHHHHHHHHTCCEEC
T ss_pred             CHHHHHHHHHHHHHHhCCCeEEEEEEcCCCCE--EEEEEEECC---CCCc--cccCCcccccccHHHHHHHHHcCCeEEE
Confidence            57899999999999999999999999986533  444443211   1111  1122222221  1245667889999999


Q ss_pred             cCCCCCCC
Q psy680           91 QKKKEKKK   98 (122)
Q Consensus        91 ~Dv~~d~r   98 (122)
                      +|+...+.
T Consensus        74 ~d~~~~~~   81 (170)
T d2k2na1          74 VDVEAQSR   81 (170)
T ss_dssp             CCGGGCCC
T ss_pred             eccccCCe
Confidence            99876543