Citrus Sinensis ID: 023595

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280
Protein Sequence
MSILPYNSLMQLKIPSHSCAKTTRKSFSICARLDNSQQEEQQLNLSVLRFTFGIPGFDESYLPRWIGYGFGSLIVLNHFAFSNSVTSAQLRSEVLGLSLAAFSVTLPYLGKFLKGASPVSQKSLPESGEQIFVMSQNISDALKENLAWATYVLLRNTNSISVLISIRGELCVRGYWQTPDGASKTQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRDLR
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccEEcccccHHHHHHccccEEEEEcccccccccccHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccEEEcccccHHHHHHHHHHHHHHHHcccccEEEEEEccEEEEEEEEcccccccHHHHHHHHHHHHcccccccccccccccccccccccccccccccEEEEEEccccccccccccccccEEEEEEEcccccccHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccEccccccccccccccccccccEEEEEEEccccccccccccEEEEEEEcccccccHcHccHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccEEEEEcccccHHHHHHHHHHHHHHHHccccEEEEEEEccEEEEEEccccccccccHHHHHHHHHHcccEEEEEccccEEccccccccccccccccccEEEEEEccccccccccccccccEEEEEEccccccccHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
msilpynslmqlkipshscakttrKSFSICARLDNSQQEEQQLNLSVLRftfgipgfdesylprwigygFGSLIVLNHfafsnsvtsAQLRSEVLGLSLAAFSVTLPYlgkflkgaspvsqkslpesgEQIFVMSQNISDALKENLAWATYVLLRNTNSISVLISIRGELcvrgywqtpdgaskTQLLEWFERQIENIglsdlkdslyfpqsadagqwemlpkgtcsvfvqpviqapnpsavevEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRDLR
Flexible Loop (DISEMBL)
msilpynslmqlkipshscaKTTRKSFSICARLDNSQQEEQQLNLSVLRFTFGIPGFDESYLPRWIGYGFGSLIVLNHFAFSNSVTSAQLRSEVLGLSLAAFSVTLPYLGKFLKGASPVSQKSLPESGEQIFVMSQNISDALKENLAWATYVLLRNTNSISVLISIRGELCVRGYWQTPDGASKTQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTyayshkdrawIKAVSNKFRDLR
Low Complexity Region (SEG)
MSILPYNSLMQLKIPSHSCAKTTRKSFSICARLDNSQQEEQQLNLSVLRFTFGIPGFDESYLPRWIGYGFGSLIVLNHFAFSNSVTSAQLRSEVLGLSLAAFSVTLPYLGKFLKGASPVSQKSLPESGEQIFVMSQNISDALKENLAWATYVLLRNTNSISVLISIRGELCVRGYWQTPDGASKTQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRDLR
Disordered region (IsUnstruct)
**************************FSICAR*********QLNLSVLRFTFGIPGFDESYLPRWIGYGFGSLIVLNHFAFSNSVTSAQLRSEVLGLSLAAFSVTLPYLGKFLKG***************IFVMSQNISDALKENLAWATYVLLRNTNSISVLISIRGELCVRGYWQTPDGASKTQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVS*******
Disordered Region (DISOPRED)
****PYNSLMQLK*********************************VLRFTFGIPGFDESYLPRWIGYGFGSLIVLNHFAFSNSVTSAQLRSEVLGLSLAAFSVTLPYLGKFL*****************IFVMSQNISDALKENLAWATYVLLRNTNSISVLISIRGELCVRGYWQ*********LLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRD**
Disordered Region (DISEMBL)
MSILPYNSLMQLKIPSHSCAKTTRKSFSICARLDNSQQEEQQLNLSVLRFTFGIPGFDESYLPRWIGYGFGSLIVLNHFAFSNSVTSAQLRSEVLGLSLAAFSVTLPYLGKFLKGASPVSQKSLPESGEQIFVMSQNISDALKENLAWATYVLLRNTNSISVLISIRGELCVRGYWQTPDGASKTQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRDLR
Disordered Region (DISPRO)
*SILPYNSLMQLKIPSHSCA*TTRKSFSICARLDNSQQEEQQLNLSVLRFTFGIPGFDESYLPRWIGYGFGSLIVLNHFAFSNSVTSAQLRSEVLGLSLAAFSVTLPYLGKFLKGASPVSQKSLPESGEQIFVMSQNISDALKENLAWATYVLLRNTNSISVLISIRGELCVRGYWQTPDGASKTQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRDL*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSILPYNSLMQLKIPSHSCAKTTRKSFSICARLDNSQQEEQQLNLSVLRFTFGIPGFDESYLPRWIGYGFGSLIVLNHFAFSNSVTSAQLRSEVLGLSLAAFSVTLPYLGKFLKGASPVSQKSLPESGEQIFVMSQNISDALKENLAWATYVLLRNTNSISVLISIRGELCVRGYWQTPDGASKTQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRDLR
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

No hits with e-value below 0.001 by BLAST

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	280
297741104	313	unnamed protein product [Vitis vinifera]	0.910	0.814	0.725	1e-106
225455453	311	PREDICTED: uncharacterized protein LOC10	0.910	0.819	0.725	1e-106
224136914	265	predicted protein [Populus trichocarpa]	0.921	0.973	0.697	5e-99
255539547	308	conserved hypothetical protein [Ricinus	0.978	0.889	0.644	9e-99
449446061	288	PREDICTED: uncharacterized protein LOC10	0.925	0.899	0.650	8e-95
15242277	275	uncharacterized protein [Arabidopsis tha	0.921	0.938	0.608	2e-89
297796017	272	hypothetical protein ARALYDRAFT_495283 [	0.921	0.948	0.607	3e-89
147816662	349	hypothetical protein VITISV_012455 [Viti	0.910	0.730	0.586	5e-89
356559871	287	PREDICTED: uncharacterized protein LOC10	0.839	0.818	0.637	3e-83
242040471	293	hypothetical protein SORBIDRAFT_01g03118	0.971	0.928	0.537	5e-78

>gi|297741104|emb|CBI31835.3| unnamed protein product [Vitis vinifera]

 Score =  390 bits (1003), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 190/262 (72%), Positives = 217/262 (82%), Gaps = 7/262 (2%)

Query: 18  SCAKTTRKSFSICARLDNSQQEEQQLNLSVLRFTFGIPGFDESYLPRWIGYGFGSLIVLN 77
           S   TTRK  SI A       ++QQLNLSVLRFT GIPGFDESYLPRWIGYGFGS I+LN
Sbjct: 54  STINTTRKFQSISA-----SNQQQQLNLSVLRFTLGIPGFDESYLPRWIGYGFGSFILLN 108

Query: 78  HFAFS--NSVTSAQLRSEVLGLSLAAFSVTLPYLGKFLKGASPVSQKSLPESGEQIFVMS 135
           HF  S  N++T+AQLR+E LGL LAAFSV LPYLGKFLKGA+PV Q +LPE  EQIFVM+
Sbjct: 109 HFVGSDLNTITAAQLRTEALGLCLAAFSVVLPYLGKFLKGAAPVDQTTLPEGIEQIFVMT 168

Query: 136 QNISDALKENLAWATYVLLRNTNSISVLISIRGELCVRGYWQTPDGASKTQLLEWFERQI 195
           QNISD LKE+LAWATY+LLRNTN+I+VLISIRG LCVRGYW TPD  SK ++L+W E++I
Sbjct: 169 QNISDILKEDLAWATYILLRNTNTIAVLISIRGALCVRGYWNTPDDVSKARVLDWVEKEI 228

Query: 196 ENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLAS 255
           E IGLSDLKD+LYFPQSAD+G WEMLPKGTCS+ VQPV Q P+    E+EKI+GFVLLAS
Sbjct: 229 EKIGLSDLKDTLYFPQSADSGLWEMLPKGTCSLLVQPVSQIPSQGTDEMEKIDGFVLLAS 288

Query: 256 SMTYAYSHKDRAWIKAVSNKFR 277
           SM YAY+ KDRAWI AV+NKFR
Sbjct: 289 SMNYAYTDKDRAWIGAVANKFR 310

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225455453|ref|XP_002274647.1| PREDICTED: uncharacterized protein LOC100252183 [Vitis vinifera]

 Score =  390 bits (1003), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 190/262 (72%), Positives = 217/262 (82%), Gaps = 7/262 (2%)

Query: 18  SCAKTTRKSFSICARLDNSQQEEQQLNLSVLRFTFGIPGFDESYLPRWIGYGFGSLIVLN 77
           S   TTRK  SI A       ++QQLNLSVLRFT GIPGFDESYLPRWIGYGFGS I+LN
Sbjct: 54  STINTTRKFQSISA-----SNQQQQLNLSVLRFTLGIPGFDESYLPRWIGYGFGSFILLN 108

Query: 78  HFAFS--NSVTSAQLRSEVLGLSLAAFSVTLPYLGKFLKGASPVSQKSLPESGEQIFVMS 135
           HF  S  N++T+AQLR+E LGL LAAFSV LPYLGKFLKGA+PV Q +LPE  EQIFVM+
Sbjct: 109 HFVGSDLNTITAAQLRTEALGLCLAAFSVVLPYLGKFLKGAAPVDQTTLPEGIEQIFVMT 168

Query: 136 QNISDALKENLAWATYVLLRNTNSISVLISIRGELCVRGYWQTPDGASKTQLLEWFERQI 195
           QNISD LKE+LAWATY+LLRNTN+I+VLISIRG LCVRGYW TPD  SK ++L+W E++I
Sbjct: 169 QNISDILKEDLAWATYILLRNTNTIAVLISIRGALCVRGYWNTPDDVSKARVLDWVEKEI 228

Query: 196 ENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLAS 255
           E IGLSDLKD+LYFPQSAD+G WEMLPKGTCS+ VQPV Q P+    E+EKI+GFVLLAS
Sbjct: 229 EKIGLSDLKDTLYFPQSADSGLWEMLPKGTCSLLVQPVSQIPSQGTDEMEKIDGFVLLAS 288

Query: 256 SMTYAYSHKDRAWIKAVSNKFR 277
           SM YAY+ KDRAWI AV+NKFR
Sbjct: 289 SMNYAYTDKDRAWIGAVANKFR 310

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224136914|ref|XP_002322447.1| predicted protein [Populus trichocarpa] gi|222869443|gb|EEF06574.1| predicted protein [Populus trichocarpa]

 Score =  366 bits (940), Expect = 5e-99,   Method: Compositional matrix adjust.
 Identities = 182/261 (69%), Positives = 216/261 (82%), Gaps = 3/261 (1%)

Query: 20  AKTTRKSFSICARLDN--SQQEEQQLNLSVLRFTFGIPGFDESYLPRWIGYGFGSLIVLN 77
           AK TRKS +I A  DN  SQ+++QQLNLSVLRFTFGIPG DESYLPRWIGYGFGSL++LN
Sbjct: 4   AKKTRKSIAIHASSDNPQSQRQQQQLNLSVLRFTFGIPGLDESYLPRWIGYGFGSLLILN 63

Query: 78  HFAFSN-SVTSAQLRSEVLGLSLAAFSVTLPYLGKFLKGASPVSQKSLPESGEQIFVMSQ 136
           HF  SN   T AQLR+EVLGLSLAAFS  LPY G+FLKGA+PV Q +LP+  EQIF MSQ
Sbjct: 64  HFLGSNPDTTQAQLRTEVLGLSLAAFSAALPYFGRFLKGATPVDQGTLPQDAEQIFAMSQ 123

Query: 137 NISDALKENLAWATYVLLRNTNSISVLISIRGELCVRGYWQTPDGASKTQLLEWFERQIE 196
           NISDA KE+LAWATY+LLRNTN+I+VLISI+GELCVRGYW+T D  SK ++L+WF+ QIE
Sbjct: 124 NISDAQKEDLAWATYILLRNTNTIAVLISIQGELCVRGYWKTSDKMSKDEVLDWFKEQIE 183

Query: 197 NIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASS 256
           NIGLSD+KD+LYFPQ+ ++  WEMLP+GT S+ V+PV+QA   S  + E  EGF+LLASS
Sbjct: 184 NIGLSDVKDTLYFPQTTESEIWEMLPEGTRSLLVEPVLQATVQSGNKTENNEGFILLASS 243

Query: 257 MTYAYSHKDRAWIKAVSNKFR 277
           + YAYS KDRAWI+A  NKFR
Sbjct: 244 IGYAYSDKDRAWIRATGNKFR 264

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255539547|ref|XP_002510838.1| conserved hypothetical protein [Ricinus communis] gi|223549953|gb|EEF51440.1| conserved hypothetical protein [Ricinus communis]

 Score =  365 bits (938), Expect = 9e-99,   Method: Compositional matrix adjust.
 Identities = 183/284 (64%), Positives = 228/284 (80%), Gaps = 10/284 (3%)

Query: 1   MSILPYNSLM-QLKIPSHSCAKTTRKSFSICARLDNSQQ---EEQQLNLSVLRFTFGIPG 56
           MS L  N L+   K  +++  K+  K+ SI  R+DNSQ+   ++Q LNLSVLRFTFGIPG
Sbjct: 1   MSNLSINPLITHPKFRANNSVKS--KNASIIVRIDNSQRKKDQQQDLNLSVLRFTFGIPG 58

Query: 57  FDESYLPRWIGYGFGSLIVLNHFAFSNSVTS-AQLRSEVLGLSLAAFSVTLPYLGKFLKG 115
            DESYLPRWIGYGFGSL+VLNHF  SNSVTS  Q+R+E LGLSLAAFS+ LPY G+FLKG
Sbjct: 59  LDESYLPRWIGYGFGSLLVLNHFLGSNSVTSLPQMRTEALGLSLAAFSIALPYFGRFLKG 118

Query: 116 ASPVSQKSLPESGEQIFVMSQNISDALKENLAWATYVLLRNTNSISVLISIRGELCVRGY 175
           A+PV Q +LP+  EQIFVMS+N+SD LKE+LAWATYVLLRNTNSI+VLI I+GELCVRGY
Sbjct: 119 ATPVDQTALPQGSEQIFVMSENVSDTLKEDLAWATYVLLRNTNSIAVLIYIQGELCVRGY 178

Query: 176 WQTPDGASKTQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQ 235
           W TPD  SK Q+++WF+ +IE+IGL DLKD+LYFPQ+A++  WEMLP+GT S+ V+PV+ 
Sbjct: 179 WNTPDNISKAQVIDWFKGRIEDIGLFDLKDTLYFPQTAESRLWEMLPRGTRSLLVEPVLL 238

Query: 236 APNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRDL 279
               +A E+++ EGFVLLASS+  AY+ KDRAWI AV+NKF D+
Sbjct: 239 Q---NAKEMDRAEGFVLLASSIDTAYTDKDRAWIGAVANKFGDI 279

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449446061|ref|XP_004140790.1| PREDICTED: uncharacterized protein LOC101219803 [Cucumis sativus] gi|449530412|ref|XP_004172189.1| PREDICTED: uncharacterized LOC101219803 [Cucumis sativus]

 Score =  352 bits (904), Expect = 8e-95,   Method: Compositional matrix adjust.
 Identities = 171/263 (65%), Positives = 208/263 (79%), Gaps = 4/263 (1%)

Query: 20  AKTTRKSFSICARLDNSQQE-EQQLNLSVLRFTFGIPGFDESYLPRWIGYGFGSLIVLNH 78
           AK+  K  +I ARLD+S+    QQLNLSVLRFT GIPG DESYLPRWIGYGFGSL++LNH
Sbjct: 22  AKSKTKGPAISARLDDSKNSANQQLNLSVLRFTLGIPGLDESYLPRWIGYGFGSLLLLNH 81

Query: 79  FAFSNS---VTSAQLRSEVLGLSLAAFSVTLPYLGKFLKGASPVSQKSLPESGEQIFVMS 135
           F  SNS    T AQLR+E LG+SLAAFS+ LPYLGKFLKGA P  +  LPE  EQIF++S
Sbjct: 82  FVGSNSAALTTPAQLRTEALGISLAAFSIALPYLGKFLKGALPSGEAILPEGTEQIFLLS 141

Query: 136 QNISDALKENLAWATYVLLRNTNSISVLISIRGELCVRGYWQTPDGASKTQLLEWFERQI 195
           Q +SD LKE++AWATY+LLRNTNSISVLI  +G LCVRGYW +P+  S   LL WFE Q+
Sbjct: 142 QILSDNLKEDIAWATYILLRNTNSISVLIQTQGALCVRGYWNSPNDISSADLLAWFEEQL 201

Query: 196 ENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLAS 255
           ++IGLS LKD++YFPQ +++G W+MLPKGT SV VQPV+Q    S  EV+ + GF+LLAS
Sbjct: 202 QSIGLSALKDAVYFPQISESGLWQMLPKGTRSVLVQPVVQNLKQSGNEVQNMGGFILLAS 261

Query: 256 SMTYAYSHKDRAWIKAVSNKFRD 278
           S++YA+S KDRAWI+AV+NKF D
Sbjct: 262 SLSYAFSDKDRAWIRAVANKFDD 284

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15242277|ref|NP_200024.1| uncharacterized protein [Arabidopsis thaliana] gi|79330641|ref|NP_001032060.1| uncharacterized protein [Arabidopsis thaliana] gi|10177746|dbj|BAB11059.1| unnamed protein product [Arabidopsis thaliana] gi|117959001|gb|ABK59697.1| At5g52110 [Arabidopsis thaliana] gi|332008789|gb|AED96172.1| uncharacterized protein [Arabidopsis thaliana] gi|332008790|gb|AED96173.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  335 bits (858), Expect = 2e-89,   Method: Compositional matrix adjust.
 Identities = 163/268 (60%), Positives = 211/268 (78%), Gaps = 10/268 (3%)

Query: 15  PSHSCAKTTRKSFSICARLDN----SQQEEQQLNLSVLRFTFGIPGFDESYLPRWIGYGF 70
           P  +     ++S  I AR +N    S+  +QQLNLSVLRFTFGIPGFDESYLPRWIGYGF
Sbjct: 12  PKFALQPRAQRSTRIFARTENDSPQSKTSDQQLNLSVLRFTFGIPGFDESYLPRWIGYGF 71

Query: 71  GSLIVLNHFAFSNSVTSAQLRSEVLGLSLAAFSVTLPYLGKFLKGASPVSQKSLPESGEQ 130
           GSL++LNHF+ S  ++ +Q+RSE LGLSLAAFS+ LPY+GKFLKG S V Q+SLPE GEQ
Sbjct: 72  GSLLLLNHFSASAPISESQMRSEALGLSLAAFSIALPYIGKFLKG-SVVEQRSLPEEGEQ 130

Query: 131 IFVMSQNISDALKENLAWATYVLLRNTNSISVLISIRGELCVRGYWQTPDGASKTQLLEW 190
           +FV+S NI D+LKE+LAWATYVLLRNT++I+VLIS++GELCVRGYW  PD  SK QL +W
Sbjct: 131 VFVISSNIGDSLKEDLAWATYVLLRNTSTIAVLISVQGELCVRGYWNCPDQMSKAQLHDW 190

Query: 191 FERQIENIGLSDLKDSLYFPQSADAG-QWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEG 249
           F+++++ IGL+D+K++LYFPQ A +    ++LP GT S+FVQP++Q  N    E +K+ G
Sbjct: 191 FKKKVDEIGLADVKETLYFPQYAGSALSLDILPDGTRSLFVQPLVQNTN----EPQKVNG 246

Query: 250 FVLLASSMTYAYSHKDRAWIKAVSNKFR 277
           F+L+AS+  YAYS KDRAWI A++ KFR
Sbjct: 247 FLLVASTAGYAYSDKDRAWIGAMAEKFR 274

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297796017|ref|XP_002865893.1| hypothetical protein ARALYDRAFT_495283 [Arabidopsis lyrata subsp. lyrata] gi|297311728|gb|EFH42152.1| hypothetical protein ARALYDRAFT_495283 [Arabidopsis lyrata subsp. lyrata]

 Score =  333 bits (855), Expect = 3e-89,   Method: Compositional matrix adjust.
 Identities = 161/265 (60%), Positives = 211/265 (79%), Gaps = 7/265 (2%)

Query: 15  PSHSCAKTTRKSFSICARLDN-SQQEEQQLNLSVLRFTFGIPGFDESYLPRWIGYGFGSL 73
           P  +     ++S  I AR +N S Q++QQLNLSVLRFTFGIPG DESYLPRWIGYGFGSL
Sbjct: 12  PKFALQPRAQRSTRIFARTENDSPQQQQQLNLSVLRFTFGIPGLDESYLPRWIGYGFGSL 71

Query: 74  IVLNHFAFSNSVTSAQLRSEVLGLSLAAFSVTLPYLGKFLKGASPVSQKSLPESGEQIFV 133
           ++LNHF+ S  ++ +Q+RSE LGLSLA+FS+ LPY+GKFLKG S V Q++LPE GEQIFV
Sbjct: 72  LLLNHFSASAPISESQMRSEALGLSLASFSIALPYIGKFLKG-SVVEQRTLPEEGEQIFV 130

Query: 134 MSQNISDALKENLAWATYVLLRNTNSISVLISIRGELCVRGYWQTPDGASKTQLLEWFER 193
           +S NI D+LKE+LAWATYVLLRNT++I+VLI ++GELCVRGYW  PD  SK QL +WF++
Sbjct: 131 ISSNIGDSLKEDLAWATYVLLRNTSTIAVLILVQGELCVRGYWNCPDQMSKAQLHDWFKK 190

Query: 194 QIENIGLSDLKDSLYFPQSADAG-QWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVL 252
           +++ IGL+D+KD+LYFPQ A +   W++LP GT S+F+QP++Q    +  E +K+ GF+L
Sbjct: 191 KVDEIGLADVKDTLYFPQYAGSALSWDILPDGTRSLFMQPLVQ----NISEPQKVNGFLL 246

Query: 253 LASSMTYAYSHKDRAWIKAVSNKFR 277
           +AS+  YAYS KDRAWI A++ KFR
Sbjct: 247 VASTAGYAYSDKDRAWIGAMAEKFR 271

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147816662|emb|CAN68387.1| hypothetical protein VITISV_012455 [Vitis vinifera]

 Score =  333 bits (854), Expect = 5e-89,   Method: Compositional matrix adjust.
 Identities = 176/300 (58%), Positives = 203/300 (67%), Gaps = 45/300 (15%)

Query: 18  SCAKTTRKSFSICARLDNSQQEEQQLNLSVLRFTFGIPGFDESYLPRWIGYGFGSLIVLN 77
           S   TTRK  SI A       ++QQLNLSVLRFT GIPGFDESYLPRWIGYGFGS I+LN
Sbjct: 54  STINTTRKFQSISA-----SNQQQQLNLSVLRFTLGIPGFDESYLPRWIGYGFGSFILLN 108

Query: 78  HFAFS--NSVTSAQLRSEVLGLSLAAFSVTLPYLGKFLKGASPVSQKSLPESGEQIFVMS 135
           HF  S  N++T+AQLR+E LGL LAAFSV LPY GKFLKGA+PV Q +LPE  EQIFVM+
Sbjct: 109 HFVGSDLNTITAAQLRTEALGLCLAAFSVVLPYXGKFLKGAAPVDQTTLPEGIEQIFVMT 168

Query: 136 QNISDALKENLAWAT---------YVLLRNTNSISV------------------------ 162
           QNISD L+  L             +  +   + I V                        
Sbjct: 169 QNISDILERGLGLGNIHFAAEHKHHCCVVKGDIIVVSMRSQLCIYEVCFLFKYQXLLELY 228

Query: 163 -----LISIRGELCVRGYWQTPDGASKTQLLEWFERQIENIGLSDLKDSLYFPQSADAGQ 217
                LISIRG LCVRGYW TPD  SK ++L+W E++IE IGLSDLKD+LYFPQSAD+G 
Sbjct: 229 CLNFQLISIRGALCVRGYWNTPDDVSKARVLDWVEKEIEKIGLSDLKDTLYFPQSADSGL 288

Query: 218 WEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFR 277
           WEMLPKGTCS+ VQPV Q P+    E+EKI+GFVLLASSM YAY+ KDRAWI AV+NKFR
Sbjct: 289 WEMLPKGTCSLLVQPVXQIPSQGTDEMEKIDGFVLLASSMNYAYTDKDRAWIGAVANKFR 348

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356559871|ref|XP_003548220.1| PREDICTED: uncharacterized protein LOC100817953 [Glycine max]

 Score =  314 bits (804), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 151/237 (63%), Positives = 188/237 (79%), Gaps = 2/237 (0%)

Query: 43  LNLSVLRFTFGIPGFDESYLPRWIGYGFGSLIVLNHFAFSNS--VTSAQLRSEVLGLSLA 100
           LNLSVLRFT GIPG DESYLPRWIGYGFGSL++LNHF  S+S  VT AQL +EVLGLSLA
Sbjct: 48  LNLSVLRFTLGIPGLDESYLPRWIGYGFGSLLLLNHFLGSDSATVTPAQLSTEVLGLSLA 107

Query: 101 AFSVTLPYLGKFLKGASPVSQKSLPESGEQIFVMSQNISDALKENLAWATYVLLRNTNSI 160
           +FS+ LPYLGKFLKGA PV +K++P+  EQIFVMS +  D LKE+LAWA+YVLL NTN+I
Sbjct: 108 SFSIVLPYLGKFLKGAQPVDEKTIPDGTEQIFVMSTDRVDGLKEDLAWASYVLLCNTNAI 167

Query: 161 SVLISIRGELCVRGYWQTPDGASKTQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEM 220
           ++LI I+GE+C RGYW  PD  SK  L  WF+++IEN GL DLKD+LYFPQ AD+   ++
Sbjct: 168 AMLIFIQGEICARGYWNIPDDTSKEILPGWFKKKIENAGLYDLKDTLYFPQDADSEFQDL 227

Query: 221 LPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFR 277
           +P GT  + +QPV+Q  N S   ++K  GF+LLAS+  YA+S+KD+AWI AV+NKFR
Sbjct: 228 VPIGTRCLLIQPVLQVSNESDTGLQKPGGFILLASTTRYAFSNKDKAWIAAVANKFR 284

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242040471|ref|XP_002467630.1| hypothetical protein SORBIDRAFT_01g031180 [Sorghum bicolor] gi|241921484|gb|EER94628.1| hypothetical protein SORBIDRAFT_01g031180 [Sorghum bicolor]

 Score =  296 bits (759), Expect = 5e-78,   Method: Compositional matrix adjust.
 Identities = 150/279 (53%), Positives = 196/279 (70%), Gaps = 7/279 (2%)

Query: 3   ILPYNSLMQLKIPSHSCAKTTRKSFSICA--RLDNSQ--QEEQQLNLSVLRFTFGIPGFD 58
           +LP  +    +  +   AK  R++ S  +  R  NS   Q++QQ+NLSVLRFT GIPG D
Sbjct: 16  LLPTATARLRQCSAAPAAKPRRRTLSSSSLVRASNSDPSQQQQQVNLSVLRFTLGIPGLD 75

Query: 59  ESYLPRWIGYGFGSLIVLNHFAFSNSVTSAQLRSEVLGLSLAAFSVTLPYLGKFLKGASP 118
           ESYLPRWIG GFG+L+VLNH   S S T AQLRSE LGL LAAFS TLP+LG+FL+GA  
Sbjct: 76  ESYLPRWIGLGFGALVVLNHL-ISPSPTPAQLRSEALGLCLAAFSATLPFLGRFLEGADA 134

Query: 119 VSQKSLPESGEQIFVMSQNISDALKENLAWATYVLLRNTNSISVLISIRGELCVRGYWQT 178
            S+  LPE   Q+FVMS+N+S   KE++AWA+YVLLRNTN+ SV+I+I    C+RGYW  
Sbjct: 135 ASRVPLPEGSSQVFVMSENLSAVQKEDMAWASYVLLRNTNTTSVVIAIGDLFCIRGYWNP 194

Query: 179 PDGASKTQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPN 238
           P   SK  ++EWF+ Q++ +GL DLKD+LYFP S+D+   ++LP G  SV  QP++   +
Sbjct: 195 PANTSKYAMIEWFKSQMQQLGLVDLKDALYFPNSSDSQLVKILPDGILSVLAQPILSL-D 253

Query: 239 PSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFR 277
           P+  E  K EG +LLAS+  YAYS KDRAWI+ V+NKF+
Sbjct: 254 PANNET-KTEGVILLASNANYAYSEKDRAWIRTVANKFQ 291

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	280
TAIR|locus:2173048	275	HCF208 "AT5G52110" [Arabidopsi	0.921	0.938	0.608	7.2e-84

TAIR|locus:2173048 HCF208 "AT5G52110" [Arabidopsis thaliana (taxid:3702)]

 Score = 840 (300.8 bits), Expect = 7.2e-84, P = 7.2e-84
 Identities = 163/268 (60%), Positives = 211/268 (78%)

Query:    15 PSHSCAKTTRKSFSICARLDN----SQQEEQQLNLSVLRFTFGIPGFDESYLPRWIGYGF 70
             P  +     ++S  I AR +N    S+  +QQLNLSVLRFTFGIPGFDESYLPRWIGYGF
Sbjct:    12 PKFALQPRAQRSTRIFARTENDSPQSKTSDQQLNLSVLRFTFGIPGFDESYLPRWIGYGF 71

Query:    71 GSLIVLNHFAFSNSVTSAQLRSEVLGLSLAAFSVTLPYLGKFLKGASPVSQKSLPESGEQ 130
             GSL++LNHF+ S  ++ +Q+RSE LGLSLAAFS+ LPY+GKFLKG S V Q+SLPE GEQ
Sbjct:    72 GSLLLLNHFSASAPISESQMRSEALGLSLAAFSIALPYIGKFLKG-SVVEQRSLPEEGEQ 130

Query:   131 IFVMSQNISDALKENLAWATYVLLRNTNSISVLISIRGELCVRGYWQTPDGASKTQLLEW 190
             +FV+S NI D+LKE+LAWATYVLLRNT++I+VLIS++GELCVRGYW  PD  SK QL +W
Sbjct:   131 VFVISSNIGDSLKEDLAWATYVLLRNTSTIAVLISVQGELCVRGYWNCPDQMSKAQLHDW 190

Query:   191 FERQIENIGLSDLKDSLYFPQSADAG-QWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEG 249
             F+++++ IGL+D+K++LYFPQ A +    ++LP GT S+FVQP++Q  N    E +K+ G
Sbjct:   191 FKKKVDEIGLADVKETLYFPQYAGSALSLDILPDGTRSLFVQPLVQNTN----EPQKVNG 246

Query:   250 FVLLASSMTYAYSHKDRAWIKAVSNKFR 277
             F+L+AS+  YAYS KDRAWI A++ KFR
Sbjct:   247 FLLVASTAGYAYSDKDRAWIGAMAEKFR 274


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.319   0.133   0.393    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      280       280   0.00082  115 3  11 22  0.50    33
                                                     33  0.41    37


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  1
  No. of states in DFA:  608 (65 KB)
  Total size of DFA:  206 KB (2115 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  24.37u 0.11s 24.48t   Elapsed:  00:00:01
  Total cpu time:  24.37u 0.11s 24.48t   Elapsed:  00:00:01
  Start:  Fri May 10 10:21:16 2013   End:  Fri May 10 10:21:17 2013

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0010190 "cytochrome b6f complex assembly" evidence=IMP

GO:0010207 "photosystem II assembly" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	280
pfam11152	195	pfam11152, DUF2930, Protein of unknown function (D	5e-56

>gnl|CDD|221004 pfam11152, DUF2930, Protein of unknown function (DUF2930)

 Score =  178 bits (454), Expect = 5e-56
 Identities = 66/217 (30%), Positives = 105/217 (48%), Gaps = 23/217 (10%)

Query: 62  LPRWIGYGFGSLIVLNHFAFSNSVTSAQLRSEVLGLSLAAFSVTLPYLGKFLKGASPVSQ 121
           LP   G   G L++LN    +  +T +Q R++VLGL LAA  + +  L    +  SP   
Sbjct: 1   LPLIAGLLGGLLLLLNRL-STADITPSQSRADVLGLLLAAGLILVGLLWTRAQPRSP-EA 58

Query: 122 KSLPESGEQIFVMSQNISDALKENLAWATYVLLRNTNSISVLISIRGELCVR-GYWQTPD 180
             L   GEQ F +S ++S+ALKE LAWA+++LL  T + SVL+   G++ +R G    P 
Sbjct: 59  VDLE--GEQGFELSPDLSEALKEELAWASHLLLTATPAASVLVYWDGQVLLRRGILGPPV 116

Query: 181 GASKTQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPS 240
              K +  E  +R +E   L  L +   +P   +   ++ LP  T +V VQP+       
Sbjct: 117 ---KFEPGEICKRALETQQLVYLVNLKLYPGRIE---FDYLPPNTQAVIVQPLGN----- 165

Query: 241 AVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFR 277
                   G ++L       ++  D  WI+  ++K R
Sbjct: 166 -------RGVLVLGGWSPRCFTRSDERWIEGWADKLR 195

This family of proteins has no known function. Length = 195

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	280
PF11152	195	DUF2930: Protein of unknown function (DUF2930); In	100.0
PF13492	129	GAF_3: GAF domain; PDB: 3EEA_A 4DMZ_A 4DN0_A 1VHM_	95.3
PF13185	148	GAF_2: GAF domain; PDB: 2QYB_A 3KSG_B 3KSF_C 3KSI_	94.81
smart00065	149	GAF Domain present in phytochromes and cGMP-specif	93.36
PF01590	154	GAF: GAF domain; InterPro: IPR003018 This domain i	92.93
PRK11061	748	fused phosphoenolpyruvate-protein phosphotransfera	92.91
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	88.81
TIGR02851	180	spore_V_T stage V sporulation protein T. Members o	88.59
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	86.89

>PF11152 DUF2930: Protein of unknown function (DUF2930); InterPro: IPR021325 This family of proteins has no known function

Probab=100.00  E-value=1.7e-74  Score=512.44  Aligned_cols=194  Identities=37%  Similarity=0.544  Sum_probs=186.5

Q ss_pred             hhHHHHHHHHHHHHhhhhccCCCCChhhHHHHHHHHHHHHhhhhhhhhhhhhcccCCCCCCCCCCCCeeceEeccCchHH
Q 023595           62 LPRWIGYGFGSLIVLNHFAFSNSVTSAQLRSEVLGLSLAAFSVTLPYLGKFLKGASPVSQKSLPESGEQIFVMSQNISDA  141 (280)
Q Consensus        62 LP~~vG~l~g~Lll~N~~~s~a~~t~aQ~RsevLg~~Laa~~v~l~l~G~~w~~~~P~~~~~v~l~geq~F~l~~~Lsd~  141 (280)
                      ||+++|+++++++++||++++ .+||||+||||||++||+++   +++|++|++++|++++.+++.|+|+|+|++||||+
T Consensus         1 LPl~vG~l~~~lll~N~~~~~-~~t~sq~RaevLg~~ls~~l---iL~g~lw~~l~p~~~~~v~L~G~~~f~l~~~L~~~   76 (195)
T PF11152_consen    1 LPLIVGLLGGSLLLLNRLSGA-DATPSQSRAEVLGLILSAVL---ILTGLLWQRLKPRSPEAVDLPGEQGFELSPDLSDA   76 (195)
T ss_pred             CceEehHHHHHHHHhhhcccC-CCCHHHHHHHHHHHHHHHHH---HHHHHHHhhccCCCCCccCCCCccceEECCCCCHH
Confidence            799999999999999997776 68999999999999999665   89999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhccccEEEEEECCEEE-EeeeccCCCCCChHHHHHHHHHHhhhcccccCCCcccccCCcccccccc
Q 023595          142 LKENLAWATYVLLRNTNSISVLISIRGELC-VRGYWQTPDGASKTQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEM  220 (280)
Q Consensus       142 ~k~ELAWas~~LLtnT~a~svlV~~~g~ll-~RG~~~~p~~~~~g~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~  220 (280)
                      +|+|||||||+|||||+|+||+|||||++| +||++++++++++|+||++++++++.+||+|+   .|||||+|   |+|
T Consensus        77 ~k~ELAWas~~LLt~T~a~svlV~~~g~~llrrG~~~~~~~~~~g~i~~~~~~~~~~~yL~nl---~lyPGr~E---f~~  150 (195)
T PF11152_consen   77 AKEELAWASYALLTNTNARSVLVYYDGRVLLRRGILGSPSKFKPGPICQRAMESGKLIYLVNL---KLYPGRVE---FDY  150 (195)
T ss_pred             HHHHHHHHHHHHHhhCCceEEEEEECCEEEEEeeccCCCCCcchHHHHHHHHhcCCceecccc---ccCCCchh---hhh
Confidence            999999999999999999999999999965 68999989999999999999999999999777   89999999   899


Q ss_pred             CCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCccccchhhHHHHHHHHHhhh
Q 023595          221 LPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFR  277 (280)
Q Consensus       221 LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT~kDe~WI~~iA~KL~  277 (280)
                      ||+|||||||||+|+            +||||+|||++||||||||+||++|||||+
T Consensus       151 lP~ntq~VlvqP~g~------------~G~lvlgs~~~R~ft~~D~~Wi~~iA~Kl~  195 (195)
T PF11152_consen  151 LPENTQSVLVQPLGQ------------NGVLVLGSNSPRAFTKSDEAWIAGIADKLR  195 (195)
T ss_pred             cCCCCcEEEEEEcCC------------CeEEEEeeCCccccCHHHHHHHHHHHHhcC
Confidence            999999999999999            699999999999999999999999999996

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

Probab=95.30  E-value=0.099  Score=40.01  Aligned_cols=105  Identities=16%  Similarity=0.214  Sum_probs=68.5

Q ss_pred             HHHhhhccccEEEEE--ECC-E-E-EEeeeccCCC----C-CChHHHHHHHHHHhhhcccccCCCcccccCCcccccccc
Q 023595          151 YVLLRNTNSISVLIS--IRG-E-L-CVRGYWQTPD----G-ASKTQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEM  220 (280)
Q Consensus       151 ~~LLtnT~a~svlV~--~~g-~-l-l~RG~~~~p~----~-~~~g~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~  220 (280)
                      +.+...+.+..+.||  .++ . + +..++ ....    . .....++.++.++.+..+.         |+-.+..+   
T Consensus        11 ~~l~~~~~~~~~~l~~~d~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~~---------~~~~~~~~---   77 (129)
T PF13492_consen   11 ELLRELLGADRAALFLLDEDGNRLRVVAGW-GGDPRLSESLPEDDPLIGRALETGEPVSV---------PDIDERDF---   77 (129)
T ss_dssp             HHHHHHST-SEEEEEEEETTCECEEEEEEE-SS-GCGHHCEETTSHHHHHHHHHTS-EEE---------STCCC-TT---
T ss_pred             HHHHHHhCCCEEEEEEEECCCCEEEEEEEe-CCCccccccCCCCccHHHHHHhhCCeEEe---------cccccccC---
Confidence            445566666666554  434 2 2 34665 2111    1 1556788888888876444         22222111   


Q ss_pred             CCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCccccchhhHHHHHHHHHhhhh
Q 023595          221 LPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRD  278 (280)
Q Consensus       221 LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT~kDe~WI~~iA~KL~~  278 (280)
                        .+.+++++.||..+        .+.-|+|.+++..++.||++|+..++.+|+-+..
T Consensus        78 --~~~~s~~~vPl~~~--------~~~~Gvl~~~~~~~~~~~~~d~~~l~~~a~~~a~  125 (129)
T PF13492_consen   78 --LGIRSLLVVPLRSR--------DRVIGVLCLDSREPEEFSDEDLQLLESLANQLAI  125 (129)
T ss_dssp             --TTTCEEEEEEEEET--------TEEEEEEEEEECTTCG-SHHHHHHHHHHHHHHHH
T ss_pred             --CCCCEEEEEEEeEC--------CEEEEEEEEEECCCCCCCHHHHHHHHHHHHHHHH
Confidence              66799999999773        3668999999999999999999999999998764

>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=94.81  E-value=0.057  Score=42.36  Aligned_cols=72  Identities=22%  Similarity=0.244  Sum_probs=47.9

Q ss_pred             HHHhhhcccccCCCcccccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCccccchhhHHHHHH
Q 023595          192 ERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKA  271 (280)
Q Consensus       192 ~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT~kDe~WI~~  271 (280)
                      .++.+++...  .+..-++..     ..+.=.|.+++++.||..+        .+.=|+|.+.+..++.||+.|+.+++.
T Consensus        74 ~~~~~~~~~~--~~~~~~~~~-----~~~~~~~~~s~l~vPl~~~--------~~~~Gvl~l~~~~~~~f~~~~~~~l~~  138 (148)
T PF13185_consen   74 LRTGEPIIIN--DDDSSFPPW-----ELARHPGIRSILCVPLRSG--------GEVIGVLSLYSKEPNAFSEEDLELLEA  138 (148)
T ss_dssp             HHHTS-EEES--CCCGGGSTT-----HHHCCTT-SEEEEEEEEET--------TEEEEEEEEEESSTT---HHHHHHHHH
T ss_pred             HhcCceEEEe--Cccccccch-----hhhccccCCEEEEEEEeEC--------CEEEEEEEEeeCCCCCcCHHHHHHHHH
Confidence            6667777663  111122221     2345678999999999873        245799999999999999999999999


Q ss_pred             HHHhhhh
Q 023595          272 VSNKFRD  278 (280)
Q Consensus       272 iA~KL~~  278 (280)
                      +|+-+..
T Consensus       139 la~~~a~  145 (148)
T PF13185_consen  139 LADQIAI  145 (148)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9987653

...

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

Probab=93.36  E-value=0.36  Score=35.55  Aligned_cols=80  Identities=15%  Similarity=0.233  Sum_probs=55.2

Q ss_pred             HHHHHHHHHhhhcccccCCCcccccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeC-Cccccchh
Q 023595          186 QLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASS-MTYAYSHK  264 (280)
Q Consensus       186 ~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~-s~R~fT~k  264 (280)
                      .++.+++++.+.....+....   |-..+  ....-..+..+.++.||..+        .+.-|++.+... .+|.|++.
T Consensus        57 ~~~~~~~~~~~~~~~~~~~~~---~~~~~--~~~~~~~~~~s~~~~Pl~~~--------~~~~G~l~~~~~~~~~~~~~~  123 (149)
T smart00065       57 GLAGRVAETGRPLNIPDVEAD---PVFAL--DLLGRYQGVRSFLAVPLVAD--------GELVGVLALHNKDSPRPFTEE  123 (149)
T ss_pred             ChHHHHHHcCCeEEeechhhC---Ccccc--ccccceeceeeEEEeeeeec--------CEEEEEEEEEecCCCCCCCHH
Confidence            678888888777766544221   21111  11111233899999998762        234699999988 89999999


Q ss_pred             hHHHHHHHHHhhhh
Q 023595          265 DRAWIKAVSNKFRD  278 (280)
Q Consensus       265 De~WI~~iA~KL~~  278 (280)
                      |+..++.+|+.+..
T Consensus       124 ~~~~l~~~~~~i~~  137 (149)
T smart00065      124 DEELLQALANQLAI  137 (149)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999988754

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

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

Probab=92.93  E-value=0.21  Score=39.36  Aligned_cols=83  Identities=18%  Similarity=0.192  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHhhhcccccCCCcccccCCcccc-ccccC------------CCCCceeEEEeccCCCCCCcccccccceEE
Q 023595          185 TQLLEWFERQIENIGLSDLKDSLYFPQSADAG-QWEML------------PKGTCSVFVQPVIQAPNPSAVEVEKIEGFV  251 (280)
Q Consensus       185 g~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~-~~~~L------------P~ntqsVlvQPig~~~~~~~~~~~~~~Gvl  251 (280)
                      ..++..+.+..+...+.|.   .-.|-..+.. .-..+            ..+..++++-||..        ..+.-|+|
T Consensus        56 ~~~~~~~~~~~~~~~i~d~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~l~vPi~~--------~g~~~G~l  124 (154)
T PF01590_consen   56 ESICGQVLQSREPIVISDV---AADPRFAPQIAAQSALRALSSAERPFLAEYGVRSYLCVPIIS--------GGRLIGVL  124 (154)
T ss_dssp             SSHHHHHHHHTSCEEESSS---GGSTTSSCHHHHHHTTBTTTHHHHHHHHTTTESEEEEEEEEE--------TTEEEEEE
T ss_pred             ccHHHHHHhCCCeEeeccc---cccccccccccccccccccccccccccccccCceeeEeeeec--------ccCcEEEE
Confidence            4568899999998887666   3333322100 00112            56999999999865        23457999


Q ss_pred             EEeeCCc-cccchhhHHHHHHHHHhhhh
Q 023595          252 LLASSMT-YAYSHKDRAWIKAVSNKFRD  278 (280)
Q Consensus       252 vlgs~s~-R~fT~kDe~WI~~iA~KL~~  278 (280)
                      .+....+ |.||+.|...++.+|+.+..
T Consensus       125 ~l~~~~~~~~~~~~d~~ll~~~a~~~a~  152 (154)
T PF01590_consen  125 SLYRTRPGRPFTEEDLALLESFAQQLAI  152 (154)
T ss_dssp             EEEEESSSSS--HHHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCcCHHHHHHHHHHHHHHHh
Confidence            9999999 99999999999999998763

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 ....

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

Probab=92.91  E-value=1.1  Score=47.84  Aligned_cols=127  Identities=13%  Similarity=0.219  Sum_probs=80.5

Q ss_pred             CchHHHHHHHHHHHHHHhhhccccEEEEEECCE--EEE---eeeccC---CCCCC-hHHHHHHHHHHhhhcccccCCCcc
Q 023595          137 NISDALKENLAWATYVLLRNTNSISVLISIRGE--LCV---RGYWQT---PDGAS-KTQLLEWFERQIENIGLSDLKDSL  207 (280)
Q Consensus       137 ~Lsd~~k~ELAWas~~LLtnT~a~svlV~~~g~--ll~---RG~~~~---p~~~~-~g~i~~r~~~~~~~~~L~~L~~t~  207 (280)
                      ++.+....=+..+...+  +...+++.+++.+.  +..   .|+-..   +-.+. ..-+|.++.++.+++.+.|.....
T Consensus        17 dL~e~L~~Iv~~~~~~l--~~d~~sI~L~D~~~~~L~~~as~Gl~~~~~~~~~l~~geGi~G~Va~tg~pV~V~Dv~~dp   94 (748)
T PRK11061         17 RLNEALDILVTETCLAM--DTEVCSVYLADHDRRCYYLMATRGLKKPRGRTVTLAFDEGIVGLVGRLAEPINLADAQKHP   94 (748)
T ss_pred             CHHHHHHHHHHHHHHHh--CCCEEEEEEEECCCCEEEEEEeeCCChHhccceeccCCcchHHHHhccCceEEECCcccCc
Confidence            44444444444444444  55556666665443  222   443100   11222 234789999999999998875433


Q ss_pred             cccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCccccchhhHHHHHHHHHhhhh
Q 023595          208 YFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRD  278 (280)
Q Consensus       208 lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT~kDe~WI~~iA~KL~~  278 (280)
                      .|..+.+     ..-+++.|+++.||-.+        .+.=|+|-+....+|.||+.|+.++..+|+-+..
T Consensus        95 rf~~~~~-----~~~~~~~S~L~VPL~~~--------geVIGVL~v~~~~~~~Fs~~d~~lL~~LA~~aAi  152 (748)
T PRK11061         95 SFKYIPS-----VKEERFRAFLGVPIIYR--------RQLLGVLVVQQRELRQFDESEESFLVTLATQLAA  152 (748)
T ss_pred             ccccCcc-----ccCccceEEEEEEEeeC--------CEEEEEEEEeeCCCCCCCHHHHHHHHHHHHHHHH
Confidence            3322222     12467999999999752        2457999999999999999999999999987643

>TIGR01817 nifA Nif-specific regulatory protein

Probab=88.81  E-value=3.9  Score=41.21  Aligned_cols=82  Identities=9%  Similarity=0.131  Sum_probs=58.7

Q ss_pred             hHHHHHHHHHHhhhcccccCCCcccccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCC-ccccc
Q 023595          184 KTQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSM-TYAYS  262 (280)
Q Consensus       184 ~g~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s-~R~fT  262 (280)
                      ...++.++.++.+++-+.|..+..-|-...     .....+++|++|.||..+        .+.=|+|.+.+.. ++.||
T Consensus        72 ~~gi~g~v~~~~~pvii~Dv~~d~~~~~~~-----~~~~~~~~S~l~VPL~~~--------g~viGvL~v~s~~~~~~ft  138 (534)
T TIGR01817        72 GEGAIGQIVATGNSLVVPDVAAEPLFLDRL-----SLYDPGPVPFIGVPIKAD--------SETIGVLAADRDFRSRERL  138 (534)
T ss_pred             CccHHHHHHhcCCeEEecccccCchhhhcc-----ccccCCcceEEEEEEcCC--------CEEEEEEEEEecccccccc
Confidence            356889999999988887663221111111     123457899999999752        2347999999875 57789


Q ss_pred             hhhHHHHHHHHHhhhh
Q 023595          263 HKDRAWIKAVSNKFRD  278 (280)
Q Consensus       263 ~kDe~WI~~iA~KL~~  278 (280)
                      +.|..+++.+|+.+..
T Consensus       139 ~~d~~lL~~lA~~ia~  154 (534)
T TIGR01817       139 EEEVRFLEMVANLIGQ  154 (534)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999999999998764

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.

>TIGR02851 spore_V_T stage V sporulation protein T

Probab=88.59  E-value=7.4  Score=34.62  Aligned_cols=145  Identities=13%  Similarity=0.045  Sum_probs=89.6

Q ss_pred             hcccCCCCCCCCCCCCe-eceEeccCchHHHHHHHHHHHHHHhhhccccEEEEEECCEEEE-eeeccC---CCCCChHHH
Q 023595          113 LKGASPVSQKSLPESGE-QIFVMSQNISDALKENLAWATYVLLRNTNSISVLISIRGELCV-RGYWQT---PDGASKTQL  187 (280)
Q Consensus       113 w~~~~P~~~~~v~l~ge-q~F~l~~~Lsd~~k~ELAWas~~LLtnT~a~svlV~~~g~ll~-RG~~~~---p~~~~~g~i  187 (280)
                      =.+++++++..+...++ ++..-.-+.-....+...=....|...|.+ +|.|-...++++ -|.-..   +.  ...+.
T Consensus        24 ~l~i~~gd~~~~~~~~~~~iil~k~~~~~~~~~~A~~~aeII~~~t~~-aVaITDr~~ILA~~G~g~d~~~~~--~is~~  100 (180)
T TIGR02851        24 TLRIREGDPLEIFTDREGEVILKKYSPIGELGDFAKEYAESLYQSLGH-IVLITDRDTVIAVAGVSKKEYLNK--PISDE  100 (180)
T ss_pred             HcCCCCCCeEEEEEeCCCEEEEEECCcccchHHHHHHHHHHHHHHhCC-EEEEECCCcEEEEECCChhhcCCC--ccCHH
Confidence            34677777766643332 222222222234445555567899999999 999999999886 887321   11  13345


Q ss_pred             HHHHHHHhhhcccccCCCcccccCCccccccccCCCC--CceeEEEeccCCCCCCcccccccceEEEEeeCCcc--ccch
Q 023595          188 LEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKG--TCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTY--AYSH  263 (280)
Q Consensus       188 ~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~n--tqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R--~fT~  263 (280)
                      .++++++.+.....+ .+..+||=..        -++  ..+.+|.||-.+        .++-|.|.+- ...+  .+|+
T Consensus       101 t~~~i~~gk~~~~~~-~~~~~i~c~~--------~~~~~l~s~ii~Pl~~~--------g~viGtLkly-~k~~~~~~~~  162 (180)
T TIGR02851       101 LEDTMEERKTVILSD-TKDGPIEIID--------GQEFEYTSQVIAPIIAE--------GDPIGAVIIF-SKEPGEKLGE  162 (180)
T ss_pred             HHHHHHcCCEEEecC-Cccceecccc--------CCCCCcceEEEEEEEEC--------CeEEEEEEEE-ECCccCCCCH
Confidence            666666665543311 1111122211        122  579999999763        2346877777 6666  9999


Q ss_pred             hhHHHHHHHHHhhhh
Q 023595          264 KDRAWIKAVSNKFRD  278 (280)
Q Consensus       264 kDe~WI~~iA~KL~~  278 (280)
                      .++.+..++|+=|..
T Consensus       163 ~e~~la~glA~lLS~  177 (180)
T TIGR02851       163 VEQKAAETAAAFLGK  177 (180)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999997765

Members of this protein family are the stage V sporulation protein T (SpoVT), a protein of the sporulation/germination program in Bacillus subtilis and related species. The amino-terminal 50 amino acids are nearly perfectly conserved across all endospore-forming bacteria. SpoVT is a DNA-binding transcriptional regulator related to AbrB (See PFAM model pfam04014).

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=86.89  E-value=5.2  Score=41.73  Aligned_cols=84  Identities=10%  Similarity=0.154  Sum_probs=59.9

Q ss_pred             hHHHHHHHHHHhhhcccccCCCccccc-CCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCccccc
Q 023595          184 KTQLLEWFERQIENIGLSDLKDSLYFP-QSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYS  262 (280)
Q Consensus       184 ~g~i~~r~~~~~~~~~L~~L~~t~lyP-gr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT  262 (280)
                      .+.+..++.++.++..+.+-....+.+ ++..   .+....++.++++.||...        .++-|||.+++...+.|+
T Consensus       255 ~~~l~g~V~~~~~p~lv~~~~~d~~~~~~~~~---~~~~~~~~~s~l~vPL~~~--------~~v~GvL~l~~~~~~~F~  323 (686)
T PRK15429        255 AGTLTERVFKSKEMLLINLHERDDLAPYERML---FDTWGNQIQTLCLLPLMSG--------DTMLGVLKLAQCEEKVFT  323 (686)
T ss_pred             ccchHHHHHhcCceEEEECccCcccchhhhhh---hhcccccceEEEEEeEEEC--------CEEEEEEEEeeCCCCcCC
Confidence            346889999999887553321111211 1112   3445678999999999762        345799999988889999


Q ss_pred             hhhHHHHHHHHHhhhh
Q 023595          263 HKDRAWIKAVSNKFRD  278 (280)
Q Consensus       263 ~kDe~WI~~iA~KL~~  278 (280)
                      ++|..-++.+|+..+.
T Consensus       324 ~~dl~lL~~iA~~~A~  339 (686)
T PRK15429        324 TTNLKLLRQIAERVAI  339 (686)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999999999987754

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	280
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05

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

 Score = 45.6 bits (107), Expect = 1e-05
 Identities = 38/229 (16%), Positives = 75/229 (32%), Gaps = 72/229 (31%)

Query: 28  SICARLDNSQQEEQQLNL--SVLRFTFGIPGFDESYLPRWIGYGFGSLIVLNHF------ 79
           +  +R D+S   + +++   + LR         + Y           L+VL +       
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQAELRRLL----KSKPY-EN-------CLLVLLNVQNAKAW 259

Query: 80  -AFSNS----VTSAQLRSEVLGLSLAAFSVTLPYLGKFLKGASPVSQKSLPESGEQIF-- 132
            AF+ S    +T+   R + +   L+A + T   L       +P       E  + +   
Sbjct: 260 NAFNLSCKILLTT---RFKQVTDFLSAATTTHISLDHHSMTLTP------DEV-KSLLLK 309

Query: 133 VMSQNISD----ALKEN-LAWATYVLLRNTNSISVLI--SIRGELCVRGYWQTPDGASKT 185
            +     D     L  N               +S +I  SIR  L     W+  +    T
Sbjct: 310 YLDCRPQDLPREVLTTNPRR------------LS-IIAESIRDGLATWDNWKHVNCDKLT 356

Query: 186 QLLEWFERQIENIGLSDLKDSLY-----FPQSADAGQWEMLPKGTCSVF 229
            ++E     +  +  ++ +  ++     FP SA       +P    S+ 
Sbjct: 357 TIIESS---LNVLEPAEYRK-MFDRLSVFPPSAH------IPTILLSLI 395

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	280
3mmh_A	167	FRMSR, methionine-R-sulfoxide reductase; oxidoredu	97.13
3ksh_A	160	Putative uncharacterized protein; FRMSR, free-Met-	97.05
3rfb_A	171	Putative uncharacterized protein; FRMSR, GAF, oxid	97.0
3p01_A	184	Two-component response regulator; PSI-2, midwest c	96.93
3e0y_A	181	Conserved domain protein; APC87688.2, geobacter su	96.71
1vhm_A	195	Protein YEBR; structural genomics, unknown functio	96.55
3trc_A	171	Phosphoenolpyruvate-protein phosphotransferase; si	96.51
3o5y_A	165	Sensor protein; GAF domain, histidine, kinase, PSI	96.42
3ci6_A	171	Phosphoenolpyruvate-protein phosphotransferase; PE	96.27
3dba_A	180	CONE CGMP-specific 3',5'-cyclic phosphodiesterase	96.08
3oov_A	169	Methyl-accepting chemotaxis protein, putative; str	95.92
1f5m_A	180	GAF; CGMP binding, signaling protein; 1.90A {Sacch	95.89
2w3g_A	153	DOSS, two component sensor histidine kinase DEVS (	95.85
2e4s_A	189	CAMP and CAMP-inhibited CGMP 3',5'-cyclic phosphod	95.74
3hcy_A	151	Putative two-component sensor histidine kinase PR;	95.63
2zmf_A	189	CAMP and CAMP-inhibited CGMP 3',5'-cyclic phospho	95.53
2qyb_A	181	Membrane protein, putative; GAF domain, domain of	95.12
2vjw_A	149	GAF-B, GAF family protein; histidine kinase, hypox	94.9
3k2n_A	177	Sigma-54-dependent transcriptional regulator; PSI-	94.08
2k2n_A	172	Sensor protein, SYB-CPH1(GAF); phytochrome, GAF do	93.33
1ykd_A	398	Adenylate cyclase; GAF domain, bound cyclic AMP li	92.55
2lb5_A	208	Sensor histidine kinase; PCB, transferase, GAF dom	92.39
3ibj_A	691	CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE	92.39
1mc0_A	368	3',5'-cyclic nucleotide phosphodiesterase 2A; GAF	91.41
4glq_A	171	Methyl-accepting chemotaxis protein; chromophore,	91.26
1ykd_A	398	Adenylate cyclase; GAF domain, bound cyclic AMP li	87.61

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

Probab=97.13  E-value=0.011  Score=49.70  Aligned_cols=124  Identities=10%  Similarity=0.038  Sum_probs=84.1

Q ss_pred             cCchHHHHHHHHHHHHHHhhhccccEEEEEE--CCEEEEeeeccCCCC--CCh-HHHHHHHHHHhhhcccccCCCccccc
Q 023595          136 QNISDALKENLAWATYVLLRNTNSISVLISI--RGELCVRGYWQTPDG--ASK-TQLLEWFERQIENIGLSDLKDSLYFP  210 (280)
Q Consensus       136 ~~Lsd~~k~ELAWas~~LLtnT~a~svlV~~--~g~ll~RG~~~~p~~--~~~-g~i~~r~~~~~~~~~L~~L~~t~lyP  210 (280)
                      .|+.+.+.+=++-..+.+  ..+.+++.++.  ++++..+-+-+.+..  +.. .-+|-++.++++.+-..|.   .-+|
T Consensus        30 ~dl~~~L~~v~~~l~~~l--~~~~~~iyL~d~~~~~L~l~a~~G~~~~~~i~~geGi~G~v~~~g~~~~v~Dv---~~~p  104 (167)
T 3mmh_A           30 TDWVANLANTAAVLKEAF--GWFWVGFYLVDTRSDELVLAPFQGPLACTRIPFGRGVCGQAWAKGGTVVVGDV---DAHP  104 (167)
T ss_dssp             CCHHHHHHHHHHHHHHHH--CCSEEEEEEEETTTTEEEEEEEESSCCCSEEETTSHHHHHHHHHTSCEEESCG---GGST
T ss_pred             CCHHHHHHHHHHHHHHHc--CCcEEEEEEEECCCCEEEEEEecccccceEeccCCChHHHHHhCCcEEEECCc---ccCc
Confidence            345555555444455544  35666666663  345544333233322  222 3489999999999988766   5566


Q ss_pred             CCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCccccchhhHHHHHHHHHhhhh
Q 023595          211 QSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRD  278 (280)
Q Consensus       211 gr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT~kDe~WI~~iA~KL~~  278 (280)
                      +...   .   -.+++|.+|.||-.+        .+.=|||-+.+..++.||+.|+.+++.+|+-+..
T Consensus       105 ~~~~---~---~~~~~S~i~vPi~~~--------g~viGVL~i~s~~~~~F~~~d~~~L~~lA~~la~  158 (167)
T 3mmh_A          105 DHIA---C---SSLSRSEIVVPLFSD--------GRCIGVLDADSEHLAQFDETDALYLGELAKILEK  158 (167)
T ss_dssp             TCCC---S---STTCCEEEEEEEEET--------TEEEEEEEEEESSTTCCCHHHHHHHHHHHHHHHH
T ss_pred             chhh---c---CccCCeEEEEEeccC--------CEEEEEEEEecCCCCCCCHHHHHHHHHHHHHHHH
Confidence            5433   1   257999999999652        3457999999999999999999999999998765

>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=97.05  E-value=0.014  Score=49.31  Aligned_cols=124  Identities=15%  Similarity=0.182  Sum_probs=85.3

Q ss_pred             CchHHHHHHHHHHHHHHhhhccccEEEEEECCEEEEeeeccCCCC--CCh-HHHHHHHHHHhhhcccccCCCcccccCCc
Q 023595          137 NISDALKENLAWATYVLLRNTNSISVLISIRGELCVRGYWQTPDG--ASK-TQLLEWFERQIENIGLSDLKDSLYFPQSA  213 (280)
Q Consensus       137 ~Lsd~~k~ELAWas~~LLtnT~a~svlV~~~g~ll~RG~~~~p~~--~~~-g~i~~r~~~~~~~~~L~~L~~t~lyPgr~  213 (280)
                      |+.+.+.+=.+-..+.+ ...+.+++-++.++++.+..+-+.++.  +.. .-+|-++.++++.+-+.|.   .-+|+..
T Consensus        31 dl~~~L~~v~~ll~~~l-~~~~~~gfYL~~~~~L~l~~~~G~~a~~ri~~GeGv~G~aa~~~~~i~V~Dv---~~~p~~i  106 (160)
T 3ksh_A           31 HMIAILSNMSALLNDNL-DQINWVGFYLLEQNELILGPFQGHPACVHIPIGKGVCGTAVSERRTQVVADV---HQFKGHI  106 (160)
T ss_dssp             CHHHHHHHHHHHHHHHC-SSCSEEEEEEEETTEEEEEEEEESCCCSEEETTSHHHHHHHHHTSCEEESCG---GGSTTCC
T ss_pred             CHHHHHHHHHHHHHHHc-ccCCEEEEEEEECCEEEEEeccCCcccEEeeCCCCHHHHHHhhCCEEEECCc---ccCcccc
Confidence            44444444333333332 235677877778888554333233332  222 3589999999999988776   5677754


Q ss_pred             cccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCccccchhhHHHHHHHHHhhhh
Q 023595          214 DAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRD  278 (280)
Q Consensus       214 E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT~kDe~WI~~iA~KL~~  278 (280)
                      .   .+   ..++|.+|.||-.+        .+.=|||-+.+..++.|++.|+.+++.+|+-+..
T Consensus       107 ~---~~---~~~~Sei~VPI~~~--------g~viGVL~i~s~~~~~F~e~D~~~L~~lA~~la~  157 (160)
T 3ksh_A          107 A---CD---ANSKSEIVVPIFKD--------DKIIGVLDIDAPITDRFDDNDKEHLEAIVKIIEK  157 (160)
T ss_dssp             G---GG---TTCSEEEEEEEEET--------TEEEEEEEEEESSSSCCCHHHHHHHHHHHHHHHH
T ss_pred             c---cC---cccCceEEEEEEEC--------CEEEEEEEEecCCCCCCCHHHHHHHHHHHHHHHH
Confidence            4   22   46899999999652        2457999999999999999999999999998764

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

Probab=97.00  E-value=0.012  Score=50.32  Aligned_cols=106  Identities=15%  Similarity=0.115  Sum_probs=77.0

Q ss_pred             hccccEEEEEECCEEEEeeeccCCCC--CCh-HHHHHHHHHHhhhcccccCCCcccccCCccccccccCCCCCceeEEEe
Q 023595          156 NTNSISVLISIRGELCVRGYWQTPDG--ASK-TQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQP  232 (280)
Q Consensus       156 nT~a~svlV~~~g~ll~RG~~~~p~~--~~~-g~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQP  232 (280)
                      ..+.+++-++.++++....+-+.++.  +.. .-||-++.++++.+-+.|.   .-+|+...   .+   ..++|.||.|
T Consensus        50 ~~~~~gfYL~~~~~L~l~a~~G~~a~~ri~~GeGv~G~va~tg~~i~V~Dv---~~~p~~i~---~~---~~~~Sei~VP  120 (171)
T 3rfb_A           50 NTVFAGFYLFDGKELVLGPFQGGVSCIRIALGKGVCGEAAHFQETVIVGDV---TTYLNYIS---CD---SLAKSEIVVP  120 (171)
T ss_dssp             TEEEEEEEEECSSEEEEEEEESSSCCCEEETTSHHHHHHHHTTSCEEESCT---TSCSSCCC---SC---TTCCEEEEEE
T ss_pred             CCCEEEEEEEECCEEEEEeccCCccceEeeCCcCHHHHHHhhCCEEEECCc---ccCccccc---cC---cccCceEEEE
Confidence            35566766667777554322222332  222 3589999999999988776   56776543   12   4689999999


Q ss_pred             ccCCCCCCcccccccceEEEEeeCCccccchhhHHHHHHHHHhhhh
Q 023595          233 VIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRD  278 (280)
Q Consensus       233 ig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT~kDe~WI~~iA~KL~~  278 (280)
                      |-.+        .+.=|||-+.+..++.|++.|+.+++.+|+-+..
T Consensus       121 I~~~--------g~viGVL~i~s~~~~~F~e~D~~~L~~lA~~la~  158 (171)
T 3rfb_A          121 MMKN--------GQLLGVLDLDSSEIEDYDAMDRDYLEQFVAILLE  158 (171)
T ss_dssp             EEET--------TEEEEEEEEEESSTTCCCHHHHHHHHHHHHHHHH
T ss_pred             EEEC--------CEEEEEEEEecCCCCCCCHHHHHHHHHHHHHHHH
Confidence            9652        2447999999999999999999999999998865

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

Probab=96.93  E-value=0.0077  Score=48.59  Aligned_cols=106  Identities=9%  Similarity=0.058  Sum_probs=71.9

Q ss_pred             cEEEEEECCEEEE-eeeccCCC----CCChHHHHHHHHHHhhhcccccCCCcccccCCccccccccCCCCCceeEEEecc
Q 023595          160 ISVLISIRGELCV-RGYWQTPD----GASKTQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVI  234 (280)
Q Consensus       160 ~svlV~~~g~ll~-RG~~~~p~----~~~~g~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQPig  234 (280)
                      +++..+.+|++.. .+.+..++    .+....++.++.++++...+.|..+..-|+.+.     .+-..+.+|+++.||-
T Consensus        65 ~~i~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~~~~~~~~~~-----~~~~~~~~s~l~vPL~  139 (184)
T 3p01_A           65 CILQMLEGQTLSTIQGFYSQQGTVNNWLNQDPLTNEAIATGQIQVAANIAKDPKLASIS-----QYQDNGIQSHVVIPIT  139 (184)
T ss_dssp             EEEEEEETTEEEEEEEEEESSSSCCCCGGGCHHHHHHHHHCSCEEESCGGGCHHHHTCH-----HHHHHTCCEEEEEEEE
T ss_pred             EEEEEecCCceeeeeeeccccCccCcccCCCcHHHHHHhhCCeEEEeccccCccccchh-----HHHHhCccEEEEEEEE
Confidence            3444456776543 33222221    133467899999999998876664333333211     1223488999999996


Q ss_pred             CCCCCCcccccccceEEEEeeCCccccchhhHHHHHHHHHhhhh
Q 023595          235 QAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRD  278 (280)
Q Consensus       235 ~~~~~~~~~~~~~~Gvlvlgs~s~R~fT~kDe~WI~~iA~KL~~  278 (280)
                      .+        .+.-|+|.+.+..+|.||+.|...++.+|+.+..
T Consensus       140 ~~--------~~~~GvL~l~~~~~~~f~~~d~~ll~~lA~q~ai  175 (184)
T 3p01_A          140 YR--------NEMLGVLSLQWQQPISLREDELTLIHLSAQLVAI  175 (184)
T ss_dssp             ET--------TEEEEEEEEEESSCCCCCHHHHHHHHHHHHHHHH
T ss_pred             EC--------CEEEEEEEeCcCCCCCCCHHHHHHHHHHHHHHHH
Confidence            52        3457999999999999999999999999998764

>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=96.71  E-value=0.019  Score=44.49  Aligned_cols=81  Identities=11%  Similarity=0.172  Sum_probs=57.9

Q ss_pred             HHHHHHHHHHhhhcccccCCCcccccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCccccchh
Q 023595          185 TQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHK  264 (280)
Q Consensus       185 g~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT~k  264 (280)
                      ..++.++.++.++..+.|..+...|....+     ....+.+++++.||..+        .+.-|+|.+.+..++.||+.
T Consensus        82 ~~~~~~~~~~~~~~~i~d~~~~~~~~~~~~-----~~~~~~~s~l~vPl~~~--------~~~iGvl~~~~~~~~~f~~~  148 (181)
T 3e0y_A           82 DGITGSVARDGQYISLSRASQDPRYRYFPE-----LQEEKYNSMLSFPIGDK--------KEVYGVINLNTTSIRSFHED  148 (181)
T ss_dssp             TSSHHHHHHHCCCEEEEEECCCCCC--------------CEEEEEEEEEECS--------SCEEEEEEEEESSCCCCCHH
T ss_pred             CCeeeehhhcCCeEEecCcccCcccccccc-----ccccCcceEEEEEEEeC--------CeEEEEEEEeeCCCCCCCHH
Confidence            347889999999888766643222222111     12357899999999763        34579999999999999999


Q ss_pred             hHHHHHHHHHhhhh
Q 023595          265 DRAWIKAVSNKFRD  278 (280)
Q Consensus       265 De~WI~~iA~KL~~  278 (280)
                      |...++.+|+-+..
T Consensus       149 ~~~~l~~la~~~a~  162 (181)
T 3e0y_A          149 EIYFVSIIANLILT  162 (181)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999997754

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

Probab=96.55  E-value=0.055  Score=46.69  Aligned_cols=106  Identities=10%  Similarity=0.107  Sum_probs=74.7

Q ss_pred             hccccEEEEEECCEEEEeeeccCCCC--CCh-HHHHHHHHHHhhhcccccCCCcccccCCccccccccCCCCCceeEEEe
Q 023595          156 NTNSISVLISIRGELCVRGYWQTPDG--ASK-TQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQP  232 (280)
Q Consensus       156 nT~a~svlV~~~g~ll~RG~~~~p~~--~~~-g~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQP  232 (280)
                      ..+..++-++.++++....+-+.++.  +.. .-+|-++.++++.+-..|+   .-+|+...   .   ..+++|.||.|
T Consensus        61 ~~~~~~iyL~d~~~L~l~~~~G~~~~~~i~~GeGi~G~aa~tg~~i~V~Dv---~~~p~~~~---~---~~~~~S~l~VP  131 (195)
T 1vhm_A           61 DINWAGFYLLEDDTLVLGPFQGKIACVRIPVGRGVCGTAVARNQVQRIEDV---HVFDGHIA---C---DAASNSEIVLP  131 (195)
T ss_dssp             SCSEEEEEEEETTEEEEEEEEESCCCSEEETTSHHHHHHHHHTSCEEESCT---TTCTTCCC---S---CCCCSEEEEEE
T ss_pred             CCCEEEEEEEECCEEEEEEecCcccceEecCCCChHHHHHhcCCEEEECCc---ccCcchhh---c---CCCccEEEEEe
Confidence            44556666677777543222222222  222 3489999999999888776   34566443   2   24789999999


Q ss_pred             ccCCCCCCcccccccceEEEEeeCCccccchhhHHHHHHHHHhhhh
Q 023595          233 VIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRD  278 (280)
Q Consensus       233 ig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT~kDe~WI~~iA~KL~~  278 (280)
                      |-.+        .+.-|||-+.+..++.|++.|+..++.+|+-+..
T Consensus       132 I~~~--------g~viGVL~i~s~~~~~F~e~d~~~L~~lA~~ia~  169 (195)
T 1vhm_A          132 LVVK--------NQIIGVLDIDSTVFGRFTDEDEQGLRQLVAQLEK  169 (195)
T ss_dssp             EEET--------TEEEEEEEEEESSTTCCCHHHHHHHHHHHHHHHH
T ss_pred             EeEC--------CEEEEEEEecCCCCCCCCHHHHHHHHHHHHHHHH
Confidence            9752        3457999999999999999999999999987754

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

Probab=96.51  E-value=0.066  Score=41.11  Aligned_cols=81  Identities=11%  Similarity=0.217  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHhhhcccccCCCcccccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCccccchh
Q 023595          185 TQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHK  264 (280)
Q Consensus       185 g~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT~k  264 (280)
                      ..++.++.++.++..+.|..+..-|....+     .--.+..++++.||-.+        .+.-|+|.+.+..++.||+.
T Consensus        77 ~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~-----~~~~~~~s~l~vPl~~~--------~~~~Gvl~~~~~~~~~f~~~  143 (171)
T 3trc_A           77 EGLIGLVGEREEPINLADAPLHPAYKHRPE-----LGEEDYHGFLGIPIIEQ--------GELLGILVIQQLESHHFAEE  143 (171)
T ss_dssp             CHHHHHHHHHTSCEEESCGGGSTTCCCCGG-----GCCCCCCEEEEEEEEET--------TEEEEEEEEEESSSCCCCHH
T ss_pred             CChhhHHHhcCCeEEeCCCCCCCccccccc-----CCcccccEEEEEeEEEC--------CEEEEEEEEeecCCCCCCHH
Confidence            467889999999888866643222322222     12368899999999762        34579999999999999999


Q ss_pred             hHHHHHHHHHhhhh
Q 023595          265 DRAWIKAVSNKFRD  278 (280)
Q Consensus       265 De~WI~~iA~KL~~  278 (280)
                      |...++.+|+.+..
T Consensus       144 d~~~l~~la~~~a~  157 (171)
T 3trc_A          144 EEAFCVTLAIHLAA  157 (171)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999987754

>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=96.42  E-value=0.039  Score=45.56  Aligned_cols=108  Identities=17%  Similarity=0.176  Sum_probs=70.7

Q ss_pred             ccccEEEEEECCEEEEeeeccCCC-------CCCh-HHHHHHHHHHhhhcccccCCCcccccCC-ccccccccCCCCCce
Q 023595          157 TNSISVLISIRGELCVRGYWQTPD-------GASK-TQLLEWFERQIENIGLSDLKDSLYFPQS-ADAGQWEMLPKGTCS  227 (280)
Q Consensus       157 T~a~svlV~~~g~ll~RG~~~~p~-------~~~~-g~i~~r~~~~~~~~~L~~L~~t~lyPgr-~E~~~~~~LP~ntqs  227 (280)
                      ....+++.+.+|++..+-..+...       .+.. +.++.++.++++..- .|..+.   |.+ .+  -..+...+.+|
T Consensus        23 ~d~~~l~L~~~~~L~l~a~~~~~~~~~~~~~~ip~~~s~~~~v~~~~~~~v-~~~~~~---~~~~~~--~~~~~~~~~~S   96 (165)
T 3o5y_A           23 FDRISFLLLANETLKLSHVYPKGSHSLDIGSTIPKEQSLYWSALDQRQTIF-RSLTDT---QDNFYE--KQYLAILDLKS   96 (165)
T ss_dssp             CSEEEEEEEETTEEEEEEEESTTCCSSCTTCEECSTTCHHHHHHHHTSCEE-EESCCT---TCCCTT--HHHHHTTTCCE
T ss_pred             cceEEEEEEECCEEEEEEEecCCccccccccccCCccCHHHHHHHhCCeEE-EcCccc---cccccc--chHHHhhCCCE
Confidence            344566667788855422222211       1222 568899999988874 333111   111 00  00134578999


Q ss_pred             eEEEeccCCCCCCcccccccceEEEEeeCCccccchhhHHHHHHHHHhhhh
Q 023595          228 VFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRD  278 (280)
Q Consensus       228 VlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT~kDe~WI~~iA~KL~~  278 (280)
                      ++|.||-.+        .+.-|+|.+++..++.||+.|..+++.+|+.+..
T Consensus        97 ~l~vPL~~~--------~~~iGvl~l~~~~~~~f~~~d~~~l~~la~~~ai  139 (165)
T 3o5y_A           97 ILVIPIYSK--------NKRVGVLSIGRKQQIDWSLDDLAFLEQLTDHLAV  139 (165)
T ss_dssp             EEEEEEECS--------SCEEEEEEEEESSCCCCCHHHHHHHHHHHHHHHH
T ss_pred             EEEeCeeEC--------CEEEEEEEEEeCCCCCCCHHHHHHHHHHHHHHHH
Confidence            999999763        3447999999999999999999999999998753

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

Probab=96.27  E-value=0.082  Score=39.88  Aligned_cols=80  Identities=13%  Similarity=0.195  Sum_probs=57.0

Q ss_pred             HHHHHHHHHhhhcccccCCCcccccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCccccchhh
Q 023595          186 QLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKD  265 (280)
Q Consensus       186 ~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT~kD  265 (280)
                      .++.++.++.+.....|..+...|....+     +-..+..++++.||-.+        .+.-|+|.+++..++.||+.|
T Consensus        80 ~~~~~~~~~~~~~~~~d~~~~~~~~~~~~-----~~~~~~~s~l~vPl~~~--------~~~~Gvl~l~~~~~~~f~~~~  146 (171)
T 3ci6_A           80 GLVGLVGQREEIVNLENASKHERFAYLPE-----TGEEIYNSFLGVPVMYR--------RKVMGVLVVQNKQPQDFSEAA  146 (171)
T ss_dssp             HHHHHHHHHTSCEEESSGGGSTTC--------------CCCEEEEEEEEET--------TEEEEEEEEEESSCCCCCHHH
T ss_pred             CeehhhhccCceEEecCCCcCcchhcccc-----ccccccceEEEEeEEEC--------CEEEEEEEEecCCCCCCCHHH
Confidence            48999999998887766532222222211     24457899999999752        234799999999999999999


Q ss_pred             HHHHHHHHHhhhh
Q 023595          266 RAWIKAVSNKFRD  278 (280)
Q Consensus       266 e~WI~~iA~KL~~  278 (280)
                      ...++.+|+.+..
T Consensus       147 ~~~l~~la~~~a~  159 (171)
T 3ci6_A          147 ESFLVTLCAQLSG  159 (171)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988764

>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=96.08  E-value=0.0072  Score=49.47  Aligned_cols=82  Identities=16%  Similarity=0.250  Sum_probs=59.6

Q ss_pred             HHHHHHHHHHhhhcccccCCCcccccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCcc-ccch
Q 023595          185 TQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTY-AYSH  263 (280)
Q Consensus       185 g~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R-~fT~  263 (280)
                      .-|+.++.++++++-+.|..+..-|+...+    ...-..++|+||.||-.+        .+.=|||.+.+..+. .||+
T Consensus        87 ~gi~g~v~~tg~~v~i~d~~~d~~f~~~~~----~~~~~~~~S~L~vPl~~~--------~~viGVL~l~n~~~~~~Ft~  154 (180)
T 3dba_A           87 IGIAGWVAHTKKFFNIPDVKKNNHFSDYLD----KKTGYTTVNMMAIPITQG--------KEVLAVVMALNKLNASEFSK  154 (180)
T ss_dssp             SSHHHHHHHHTCCEEESCGGGCTTCCCHHH----HHHCCCCCCEEEEEEEET--------TEEEEEEEEEEESSSSSCCH
T ss_pred             CCHHHHHHHhCCEEEecCCCCCcccChhhc----cccCccccEEEEEEeccC--------CEEEEEEEEEeCCCCCCCCH
Confidence            458999999999988877643333332211    001135799999999762        345799999988775 9999


Q ss_pred             hhHHHHHHHHHhhhh
Q 023595          264 KDRAWIKAVSNKFRD  278 (280)
Q Consensus       264 kDe~WI~~iA~KL~~  278 (280)
                      .|+..++.+|+-...
T Consensus       155 ~d~~lL~~lA~~aa~  169 (180)
T 3dba_A          155 EDEEVFKKYLNFISL  169 (180)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999987665

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

Probab=95.92  E-value=0.2  Score=38.21  Aligned_cols=121  Identities=12%  Similarity=0.050  Sum_probs=75.5

Q ss_pred             HHHHHHhhhccccEEEEE-EC-C--EEEEeeeccCCC----C----CC-hHHHHHHHHHHhhhcccccCCCc-ccccCCc
Q 023595          148 WATYVLLRNTNSISVLIS-IR-G--ELCVRGYWQTPD----G----AS-KTQLLEWFERQIENIGLSDLKDS-LYFPQSA  213 (280)
Q Consensus       148 Was~~LLtnT~a~svlV~-~~-g--~ll~RG~~~~p~----~----~~-~g~i~~r~~~~~~~~~L~~L~~t-~lyPgr~  213 (280)
                      -.-+.+...+.+....|+ ++ +  .+..+...+...    .    +. ...++.++.++.++....|..+. .+++.+.
T Consensus        23 ~~~~~~~~~~~~~~~~i~l~d~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~~~~~~~~~~~  102 (169)
T 3oov_A           23 LCAEGLHDVLGYERVNILMADTARTSLSFVAAVGTADFNPAGVVLPLDQRGGVITKCFTDRQVYMIDDVSAYPTDFRLQS  102 (169)
T ss_dssp             HHHHHHHHTTCCSEEEEEEECTTSSEEEEEEEESCSSCCCTTCEEESSGGGHHHHHHHHHTCCEEESCGGGSCGGGSCCT
T ss_pred             HHHHHHHHhhCCceEEEEEEeCCCCeEEEEEEeCchhhhhhcccCCcccccchHHHHHhcCCCEEeccccchhhhhhccc
Confidence            344556666666655554 33 2  333332223221    1    11 46789999999998887665321 2232222


Q ss_pred             cccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCc-cccchhhHHHHHHHHHhhhh
Q 023595          214 DAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMT-YAYSHKDRAWIKAVSNKFRD  278 (280)
Q Consensus       214 E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~-R~fT~kDe~WI~~iA~KL~~  278 (280)
                      +  .-..-..+..++++.||-.+        .+.-|+|.+++..+ +.|++.|...++.+|+.+..
T Consensus       103 ~--~~~~~~~~~~s~l~vPl~~~--------~~~iGvl~~~~~~~~~~f~~~d~~~l~~~a~~~a~  158 (169)
T 3oov_A          103 P--YDAIRALRSKSFVICPIVVK--------GEAIGVFAVDNRSSRRSLNDTDVDTIKLFADQASS  158 (169)
T ss_dssp             T--GGGCGGGCCSSEEEEEEEET--------TEEEEEEEEECTTSSSCCCHHHHHHHHHHHHHHHH
T ss_pred             c--HHHHHhcCcCcEEEEEEEeC--------CcEEEEEEEEccccCCCCCHHHHHHHHHHHHHHHH
Confidence            1  00123467899999999752        34579999998765 56999999999999998754

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

Probab=95.89  E-value=0.22  Score=41.73  Aligned_cols=126  Identities=13%  Similarity=0.078  Sum_probs=79.9

Q ss_pred             CchHHHHHHHHHHHHHHh---hhccccEEEEEEC---CEEEEeeeccCCCC--CCh-HHHHHHHHHHhhhcccccCCCcc
Q 023595          137 NISDALKENLAWATYVLL---RNTNSISVLISIR---GELCVRGYWQTPDG--ASK-TQLLEWFERQIENIGLSDLKDSL  207 (280)
Q Consensus       137 ~Lsd~~k~ELAWas~~LL---tnT~a~svlV~~~---g~ll~RG~~~~p~~--~~~-g~i~~r~~~~~~~~~L~~L~~t~  207 (280)
                      |+.+.+.+-++-..+.+-   ...+..++-++.+   +++....+.+.++.  +.. .-+|-++.++++.+-..|.   .
T Consensus        41 dl~~~L~~v~~~l~~~l~~~~~~~~~~~~yl~d~~~~~~L~l~~~~g~~~~~~i~~g~Gi~G~aa~~g~~v~v~Dv---~  117 (180)
T 1f5m_A           41 NWVCNLSNASSLIWHAYKSLAVDINWAGFYVTQASEENTLILGPFQGKVACQMIQFGKGVCGTAASTKETQIVPDV---N  117 (180)
T ss_dssp             BHHHHHHHHHHHHHHHHHHTTCCEEEEEEEEECSSSSCEEEEEEEEESCCCSEEETTSHHHHHHHHHTSCEEESCG---G
T ss_pred             cHHHHHHHHHHHHHHHHhhccCCccEEEEEEEecCCCCeEEEeecCCCccceeecCCCcchhhhhhcCCEEEeCCc---c
Confidence            344445444444444441   2334455555543   45443222222221  111 2389999999999888666   4


Q ss_pred             cccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCccccchhhHHHHHHHHHhhhh
Q 023595          208 YFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRD  278 (280)
Q Consensus       208 lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT~kDe~WI~~iA~KL~~  278 (280)
                      -+|+...      ...++.|++|.||-.+       ..+.-|||-+.+..++.|++.|+..++.+|+-+..
T Consensus       118 ~dp~~~~------~~~~~~S~l~vPi~~~-------~g~viGVL~l~s~~~~~F~~~d~~~L~~la~~~a~  175 (180)
T 1f5m_A          118 KYPGHIA------CDGETKSEIVVPIISN-------DGKTLGVIDIDCLDYEGFDHVDKEFLEKLAKLINK  175 (180)
T ss_dssp             GSTTCCC------SSTTCCEEEEEEEECT-------TSCEEEEEEEEESSTTCCCHHHHHHHHHHHHHHHH
T ss_pred             cCccccc------cCcccceEEEEEEEcC-------CCeEEEEEEeccCCCCCcCHHHHHHHHHHHHHHHH
Confidence            4444332      2468999999999751       12447999999999999999999999999987654

>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=95.85  E-value=0.026  Score=42.42  Aligned_cols=80  Identities=11%  Similarity=0.073  Sum_probs=59.0

Q ss_pred             HHHHHHHHHHhhhcccccCCCcccccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCc-cccch
Q 023595          185 TQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMT-YAYSH  263 (280)
Q Consensus       185 g~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~-R~fT~  263 (280)
                      ..++.++.++.+.....|..+...|.+.      .....+..++++.||-.+        .+.-|+|.+.+..+ |.||+
T Consensus        61 ~~~~~~~~~~~~~~~~~d~~~~~~~~~~------~~~~~~~~s~l~vPl~~~--------~~~~Gvl~l~~~~~~~~f~~  126 (153)
T 2w3g_A           61 LGVIGLLIEDPKPLRLDDVSAHPASIGF------PPYHPPMRTFLGVPVRVR--------DESFGTLYLTDKTNGQPFSD  126 (153)
T ss_dssp             CTHHHHHHHSCSCEEESSGGGSTTCCCC------CTTCCCCCCEEEEEEEET--------TEEEEEEEEEEETTSCCCCH
T ss_pred             CCHHHHHHhcCCcEEecCcccCchhcCC------CCcCCCCCeEEEeeEEEC--------CEEEEEEEEeeCCCCCCCCH
Confidence            4578899998888877665322222221      113468899999999652        23479999999888 89999


Q ss_pred             hhHHHHHHHHHhhhh
Q 023595          264 KDRAWIKAVSNKFRD  278 (280)
Q Consensus       264 kDe~WI~~iA~KL~~  278 (280)
                      .|...++.+|+-+..
T Consensus       127 ~~~~~l~~la~~~a~  141 (153)
T 2w3g_A          127 DDEVLVQALAAAAGI  141 (153)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999987754

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

Probab=95.63  E-value=0.0052  Score=47.32  Aligned_cols=79  Identities=8%  Similarity=0.110  Sum_probs=52.5

Q ss_pred             HHHHHHHhhhcccccCCCcccccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCccccchhhHH
Q 023595          188 LEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRA  267 (280)
Q Consensus       188 ~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT~kDe~  267 (280)
                      |.++.++.+++.+.|..+...|+...+    .....|.+++++.||..+        .+.-|+|.+.+..+|.||+.|..
T Consensus        57 ~~~~~~~~~~~~i~d~~~~~~~~~~~~----~~~~~g~~s~~~vPl~~~--------~~~iGvl~~~~~~~~~f~~~~~~  124 (151)
T 3hcy_A           57 WITGANEPEPIFVENVDDAEFSRELKE----SIVGEGIAALGFFPLVTE--------GRLIGKFMTYYDRPHRFADSEIG  124 (151)
T ss_dssp             CC---CCCCCEEESCGGGSCCCHHHHH----HHHHHTCCEEEEEEEESS--------SSEEEEEEEEESSCCCCCHHHHH
T ss_pred             hhhhhhcCCcEEEeChhhCcccchhHH----HHHhcCchheEEeceEEC--------CEEEEEEEEecCCCCCCCHHHHH
Confidence            445555566665555432222222111    134568899999999762        23479999999999999999999


Q ss_pred             HHHHHHHhhhh
Q 023595          268 WIKAVSNKFRD  278 (280)
Q Consensus       268 WI~~iA~KL~~  278 (280)
                      .++.+|+.+..
T Consensus       125 ll~~~a~~~a~  135 (151)
T 3hcy_A          125 MALTIARQLGF  135 (151)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999987653

>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=95.53  E-value=0.018  Score=45.13  Aligned_cols=82  Identities=16%  Similarity=0.144  Sum_probs=56.8

Q ss_pred             HHHHHHHHHHhhhcccccCCCcccccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEE-eeCCccccch
Q 023595          185 TQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLL-ASSMTYAYSH  263 (280)
Q Consensus       185 g~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvl-gs~s~R~fT~  263 (280)
                      ..++.++.++++...+.+..+...|+....    .....++++++|.|+..+        .+.-|+|.+ ....+|.||+
T Consensus        90 ~~~~~~v~~~~~~~~i~d~~~~~~~~~~~~----~~~~~~~~s~l~vPl~~~--------~~~~Gvl~l~~~~~~~~f~~  157 (189)
T 2zmf_A           90 KGIAGQVARTGEVLNIPDAYADPRFNREVD----LYTGYTTRNILCMPIVSR--------GSVIGVVQMVNKISGSAFSK  157 (189)
T ss_dssp             SHHHHHHHHHCCCEEESCGGGSTTCCTHHH----HHHCCCCCCEEEEEEEET--------TEEEEEEEEEEETTSSSCCH
T ss_pred             ccHHHHHHHhCCeEEEecccccccccccch----hhcccccceEEEeeeccc--------CceeeEEEEEEcCCCCCcCH
Confidence            457889999999887765532222221111    223457889999998762        234688855 5678899999


Q ss_pred             hhHHHHHHHHHhhhh
Q 023595          264 KDRAWIKAVSNKFRD  278 (280)
Q Consensus       264 kDe~WI~~iA~KL~~  278 (280)
                      .|...++.+|+.+..
T Consensus       158 ~d~~ll~~lA~q~a~  172 (189)
T 2zmf_A          158 TDENNFKMFAVFCAL  172 (189)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999987653

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

Probab=95.12  E-value=0.25  Score=38.70  Aligned_cols=80  Identities=10%  Similarity=0.039  Sum_probs=59.2

Q ss_pred             HHHHHHHHHHhhhcccccCCCcccccCCcccccc-ccCCCCCceeEEEeccCCCCCCcccccc-cceEEEEee-CCcccc
Q 023595          185 TQLLEWFERQIENIGLSDLKDSLYFPQSADAGQW-EMLPKGTCSVFVQPVIQAPNPSAVEVEK-IEGFVLLAS-SMTYAY  261 (280)
Q Consensus       185 g~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~-~~LP~ntqsVlvQPig~~~~~~~~~~~~-~~Gvlvlgs-~s~R~f  261 (280)
                      ..+|.++.+++++....|.   ...|. ..  +. .+...|..++++.||..+        .+ .-|+|.+.+ ..++.|
T Consensus        72 ~~~~~~~~~~~~~~~v~d~---~~~~~-~~--~~~~~~~~g~~s~~~vPl~~~--------~~~~~GvL~l~~~~~~~~f  137 (181)
T 2qyb_A           72 ETYIGEAFLSNRLQFVNDT---QYMTK-PL--TRELMQKEGIKSFAHIPISRK--------GEPPFGILSVFSRTIVGLF  137 (181)
T ss_dssp             TSHHHHHHHHTSCEEESCG---GGCSC-HH--HHHHHHHTTCCEEEEEEECCT--------TSCCCEEEEEEESSCSSCC
T ss_pred             CCchhhhhhcCCCEEecCh---hcCCc-hh--hHHHHHhcCcceEEEEEEEeC--------CCeEEEEEEEecCCCCCCC
Confidence            3589999999998877555   33332 11  00 122458999999999762        22 469999999 999999


Q ss_pred             chhhHHHHHHHHHhhhh
Q 023595          262 SHKDRAWIKAVSNKFRD  278 (280)
Q Consensus       262 T~kDe~WI~~iA~KL~~  278 (280)
                      |+.|...++.+|+-+..
T Consensus       138 ~~~d~~lL~~la~~~a~  154 (181)
T 2qyb_A          138 NEPFLNLLESLAGQLAQ  154 (181)
T ss_dssp             CHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHH
Confidence            99999999999987754

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

Probab=94.90  E-value=0.28  Score=39.17  Aligned_cols=70  Identities=9%  Similarity=0.089  Sum_probs=56.0

Q ss_pred             HHHHHHHHHHhhhcccccCCCcccccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeC-Cccccch
Q 023595          185 TQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASS-MTYAYSH  263 (280)
Q Consensus       185 g~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~-s~R~fT~  263 (280)
                      +.++.++.++++++-+.|..        .+       | +..|+||.||..+        .+.-|+|.+... .++.||+
T Consensus        60 ~g~~g~v~~~g~~v~v~d~~--------~d-------~-~~~s~l~vPL~~~--------~~~~GvL~l~~~~~~~~f~~  115 (149)
T 2vjw_A           60 DNAIGQAFRDRAPRRLDVLD--------GP-------G-LGGPALVLPLRAT--------DTVAGVLVAVQGSGARPFTA  115 (149)
T ss_dssp             SSHHHHHHHHCCCEEESCCC--------TT-------S-CEEEEEEEEEEET--------TEEEEEEEEEEETTCCCCCH
T ss_pred             CCHHHHHhhcCceEEecCcc--------cC-------C-CCCeEEEEEEccC--------CeEEEEEEEeeCCCCCCCCH
Confidence            45889999999998776652        12       1 7899999999752        234799999998 8999999


Q ss_pred             hhHHHHHHHHHhhhh
Q 023595          264 KDRAWIKAVSNKFRD  278 (280)
Q Consensus       264 kDe~WI~~iA~KL~~  278 (280)
                      .|...++.+|+....
T Consensus       116 ~d~~ll~~lA~~aa~  130 (149)
T 2vjw_A          116 EQLEMMTGFADQAAV  130 (149)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999987643

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

Probab=94.08  E-value=0.08  Score=41.25  Aligned_cols=84  Identities=14%  Similarity=0.157  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHhhhcccccCCC-cccccCCcccccc-ccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCccccc
Q 023595          185 TQLLEWFERQIENIGLSDLKD-SLYFPQSADAGQW-EMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYS  262 (280)
Q Consensus       185 g~i~~r~~~~~~~~~L~~L~~-t~lyPgr~E~~~~-~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT  262 (280)
                      +.++.++.+..+.... |..+ ...|+...+ ..+ .....|++++++.||-.+        .+.-|+|.+.+..++.||
T Consensus        77 ~~~~~~v~~~~~~~~~-d~~~~~~~~~~~~~-~~~~~~~~~~~~s~l~vPL~~~--------~~~iGvL~l~~~~~~~f~  146 (177)
T 3k2n_A           77 GTWLEGHLDDRTVTVA-SIARDIPSFGADGA-PLLWTLHELGMRQIVLSPLRSG--------GRVIGFLSFVSAEEKLWS  146 (177)
T ss_dssp             TSGGGGGTTCCSCEEE-ETTTTCTTTTTTTC-HHHHHHHHHTCCEEEEEEEEET--------TEEEEEEEEEESSCCCCC
T ss_pred             ccHHHHHhccCCceEe-chhhcccccCCcch-hHHHHHHHcCceEEEEEEEEEC--------CEEEEEEEEEECCCCCCC
Confidence            3456777777666644 5532 222222100 000 134568999999999763        256899999999999999


Q ss_pred             hhhHHHHHHHHHhhhh
Q 023595          263 HKDRAWIKAVSNKFRD  278 (280)
Q Consensus       263 ~kDe~WI~~iA~KL~~  278 (280)
                      +.|...++.+|+.+..
T Consensus       147 ~~d~~ll~~lA~~~a~  162 (177)
T 3k2n_A          147 DGDKSLLSGVSSSIAI  162 (177)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999999999997754

>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=93.33  E-value=0.055  Score=43.26  Aligned_cols=49  Identities=14%  Similarity=0.327  Sum_probs=42.5

Q ss_pred             CCCCceeEEEeccCCCCCCcccccccceEEEEeeCCccccchhhHHHHHHHHHhhhh
Q 023595          222 PKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRD  278 (280)
Q Consensus       222 P~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT~kDe~WI~~iA~KL~~  278 (280)
                      ..|++|+|+.||-.+        .+.-|+|.+-...+|.||+.|...++.+|+-+..
T Consensus       115 ~~~~~s~l~vPi~~~--------~~l~G~l~~~~~~~~~~~~~e~~~l~~la~~~a~  163 (172)
T 2k2n_A          115 SMGVASSLVVPLMHH--------QELWGLLVSHHAEPRPYSQEELQVVQLLADQVSI  163 (172)
T ss_dssp             TTTCSEEEECCCSCS--------SCCCEEEEEEECSCCCCCHHHHHHHHHHHHHHHH
T ss_pred             hcCCeEEEEEEEEEC--------CEEEEEEEEEeCCCCCCCHHHHHHHHHHHHHHHH
Confidence            568999999999763        2347999999999999999999999999998754

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

Probab=92.55  E-value=0.32  Score=43.71  Aligned_cols=130  Identities=12%  Similarity=0.069  Sum_probs=76.4

Q ss_pred             CchHHHHHHHHHHHHHHhhhccccEEEEE--EC--CEEEE---eeeccCCCCC---ChHHHHHHHHHHhhhcccccCCCc
Q 023595          137 NISDALKENLAWATYVLLRNTNSISVLIS--IR--GELCV---RGYWQTPDGA---SKTQLLEWFERQIENIGLSDLKDS  206 (280)
Q Consensus       137 ~Lsd~~k~ELAWas~~LLtnT~a~svlV~--~~--g~ll~---RG~~~~p~~~---~~g~i~~r~~~~~~~~~L~~L~~t  206 (280)
                      ++.....+=|.-....+...+.+....||  ..  +++..   .|.-.....+   ....+|.++.++++.+.+.|....
T Consensus        22 ~l~~~l~~~l~~i~~~~~~~~~a~~~~i~l~d~~~~~l~~~~~~g~~~~~~~~~~~~~~g~~g~v~~~~~~v~i~d~~~~  101 (398)
T 1ykd_A           22 GFENILQEMLQSITLKTGELLGADRTTIFLLDEEKQELWSIVAAGEGDRSLEIRIPADKGIAGEVATFKQVVNIPFDFYH  101 (398)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHTEEEEEEEEEETTTTEEEEEEECCGGGCCCCCEEETTSHHHHHHHHHCCCEEECSCGGG
T ss_pred             cHHHHHHHHHHHHHHHHHHHhCCceEEEEEEECCCCeEEEEeecCCCCccceeecCCCCchhhhhhccCcEEeccchhcc
Confidence            44444444455555555555666655554  32  33332   3432111111   123588999999998877665322


Q ss_pred             ---ccccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeC---------------CccccchhhHHH
Q 023595          207 ---LYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASS---------------MTYAYSHKDRAW  268 (280)
Q Consensus       207 ---~lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~---------------s~R~fT~kDe~W  268 (280)
                         ..|+...+    .....+++++++.||-..       ..+.-|+|.+...               .++.||+.|+.-
T Consensus       102 ~~~~~~~~~~~----~~~~~~~~s~l~vPl~~~-------~g~~iGvl~l~~~~~~~~~~~~~l~~~~~~~~f~~~d~~~  170 (398)
T 1ykd_A          102 DPRSIFAQKQE----KITGYRTYTMLALPLLSE-------QGRLVAVVQLLNKLKPYSPPDALLAERIDNQGFTSADEQL  170 (398)
T ss_dssp             SGGGHHHHHHH----HHHCCCCSCEEEEEEECS-------SCCEEEEEEEEEEBCSCCCTTCCHHHHBCTTCCCHHHHHH
T ss_pred             cchhhcccccC----cccCcCCceEEEEEEECC-------CCCEEEEEEEeccCCcccccccccccccccCCCCHHHHHH
Confidence               11211111    011246899999999641       1234799999887               789999999999


Q ss_pred             HHHHHHhhh
Q 023595          269 IKAVSNKFR  277 (280)
Q Consensus       269 I~~iA~KL~  277 (280)
                      ++.+|+.+.
T Consensus       171 l~~~a~~~~  179 (398)
T 1ykd_A          171 FQEFAPSIR  179 (398)
T ss_dssp             GGGTHHHHH
T ss_pred             HHHHHHHHH
Confidence            988887654

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

Probab=92.39  E-value=0.19  Score=41.05  Aligned_cols=49  Identities=14%  Similarity=0.327  Sum_probs=42.4

Q ss_pred             CCCCceeEEEeccCCCCCCcccccccceEEEEeeCCccccchhhHHHHHHHHHhhhh
Q 023595          222 PKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRD  278 (280)
Q Consensus       222 P~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT~kDe~WI~~iA~KL~~  278 (280)
                      ..|++|+|+.||-.+        .+.-|+|.+-...+|.||+.|...++.+|+-+..
T Consensus       145 ~~~~~S~l~vPi~~~--------~~l~GvL~~~~~~~~~~~~~e~~ll~~la~~~a~  193 (208)
T 2lb5_A          145 SMGVASSLVVPLMHH--------QELWGLLVSHHAEPRPYSQEELQVVQLLADQVSI  193 (208)
T ss_dssp             HTTCSEEEEEEEEET--------TEEEEEEEEEESCCCCCCHHHHHHHHHHHHHHHH
T ss_pred             hcCCcEEEEEEEEEC--------CEeEEEEEEeeCCCCCCCHHHHHHHHHHHHHHHH
Confidence            458999999999763        3447999999999999999999999999998764

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

Probab=92.39  E-value=1.4  Score=43.73  Aligned_cols=83  Identities=13%  Similarity=0.098  Sum_probs=57.7

Q ss_pred             HHHHHHHHHHhhhcccccCCCcccccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCcc-ccch
Q 023595          185 TQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTY-AYSH  263 (280)
Q Consensus       185 g~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R-~fT~  263 (280)
                      ..++.++.+++++..+.|..+...|+...+    ...-.++++++|.||..+       ..+.-|||.+....++ .||+
T Consensus       250 ~gi~g~v~~~g~~v~i~d~~~d~~~~~~~~----~~~g~~~rS~L~vPL~~~-------~g~viGVL~l~~~~~~~~f~~  318 (691)
T 3ibj_A          250 QGIAGHVATTGQILNIPDAYAHPLFYRGVD----DSTGFRTRNILCFPIKNE-------NQEVIGVAELVNKINGPWFSK  318 (691)
T ss_dssp             SHHHHHHHHHCSCEEESCSTTSTTC----------CCSCCCCCEEEEECCCS-------SSCCCEEEEEEEESSSSSCCT
T ss_pred             CCHHHHHHHhCCEEEecCcccCccccchhh----cccCCeeeeEEEEeEECC-------CCCEEEEEEEEECCCCCCCCH
Confidence            468899999999988766643332322221    112245789999999762       1234699999988776 7999


Q ss_pred             hhHHHHHHHHHhhhh
Q 023595          264 KDRAWIKAVSNKFRD  278 (280)
Q Consensus       264 kDe~WI~~iA~KL~~  278 (280)
                      .|+.-++.+|+-+..
T Consensus       319 ~d~~ll~~lA~~~ai  333 (691)
T 3ibj_A          319 FDEDLATAFSIYCGI  333 (691)
T ss_dssp             TTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999987653

>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=91.41  E-value=0.36  Score=42.50  Aligned_cols=83  Identities=13%  Similarity=0.098  Sum_probs=57.8

Q ss_pred             HHHHHHHHHHhhhcccccCCCcccccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCcc-ccch
Q 023595          185 TQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTY-AYSH  263 (280)
Q Consensus       185 g~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R-~fT~  263 (280)
                      ..++.++.++++.....|..+...|+...+    ....-.++++++.||...       ..+.-|+|.+.+..++ .||+
T Consensus       250 ~~~~~~~~~~~~~~~i~d~~~~~~~~~~~~----~~~~~~~~s~l~vPl~~~-------~~~~iGvl~l~~~~~~~~f~~  318 (368)
T 1mc0_A          250 QGIAGHVATTGQILNIPDAYAHPLFYRGVD----DSTGFRTRNILCFPIKNE-------NQEVIGVAELVNKINGPWFSK  318 (368)
T ss_dssp             SHHHHHHHHHCCCEEESCSTTCTTCCCTTH----HHHTCCCCCEEEEEEECT-------TSCEEEEEEEEEETTSSSCCH
T ss_pred             CceeeeehhhCCEEEecCcccCcccchhhh----hccCCccceEEEEeeECC-------CCcEEEEEEEEECCCCCCCCH
Confidence            458889999998887766543333332211    001113699999999751       1344799999998886 8999


Q ss_pred             hhHHHHHHHHHhhhh
Q 023595          264 KDRAWIKAVSNKFRD  278 (280)
Q Consensus       264 kDe~WI~~iA~KL~~  278 (280)
                      .|...++.+|+-+..
T Consensus       319 ~d~~ll~~la~~~a~  333 (368)
T 1mc0_A          319 FDEDLATAFSIYCGI  333 (368)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999987653

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

Probab=91.26  E-value=1.1  Score=36.71  Aligned_cols=123  Identities=9%  Similarity=0.023  Sum_probs=76.4

Q ss_pred             HHHHHHHHHHHhhhccccEEEEE-----ECCEEEEeeec-cCCC----CCChH---HHHHHHHHHhhhcccccCCCcccc
Q 023595          143 KENLAWATYVLLRNTNSISVLIS-----IRGELCVRGYW-QTPD----GASKT---QLLEWFERQIENIGLSDLKDSLYF  209 (280)
Q Consensus       143 k~ELAWas~~LLtnT~a~svlV~-----~~g~ll~RG~~-~~p~----~~~~g---~i~~r~~~~~~~~~L~~L~~t~ly  209 (280)
                      .+=|.-+...+...+.+.-++||     +.|++++-..- +-++    .+...   +-.....++++...+.|.    +.
T Consensus        13 ~~il~~~v~~v~~~l~~DRv~Iy~f~~d~~g~vvaE~~~~~~~s~lg~~~~~~~~~~~~~~~~~~g~~~~I~Dv----~~   88 (171)
T 4glq_A           13 QAIFETLVAKGRELLACDRVIVYAFDDNYVGTVVAESVAEGWPQARDQVIEDPCFREHWVEAYRQGRIQATTDI----FK   88 (171)
T ss_dssp             HHHHHHHHHHHHHHHTCSEEEEEEECTTCCEEEEEEEECTTSCCCTTCEECCTHHHHHTHHHHHTTCCEEESCG----GG
T ss_pred             HHHHHHHHHHHHHHHCCCeEEEEEEeCCCCeEEEEEEcCCCCccccCCccCccccHHHHHHHHHcCCEEEEcCc----Cc
Confidence            33455567778888888888887     23566653221 1011    11111   122334455555555454    33


Q ss_pred             cCCccccccc-cCCCCCceeEEEeccCCCCCCcccccccceEEEEee-CCccccchhhHHHHHHHHHhhhh
Q 023595          210 PQSADAGQWE-MLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLAS-SMTYAYSHKDRAWIKAVSNKFRD  278 (280)
Q Consensus       210 Pgr~E~~~~~-~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs-~s~R~fT~kDe~WI~~iA~KL~~  278 (280)
                      ++..+.. -+ +-.-|.+|.|+.||..+        .+.-|+|.+-. ..+|.|++.|..+++.+|+.+..
T Consensus        89 ~~~~~~~-~~~l~~~~v~S~L~vPi~~~--------~~l~GlL~~~~~~~~r~w~~~ei~ll~~lA~ql~i  150 (171)
T 4glq_A           89 AGLTECH-LNQLRPLKVRANLVVPMVID--------DQLFGLLIAHQASEPRQWQEIEIDQFSELASTGSL  150 (171)
T ss_dssp             TTCCHHH-HHHHGGGTEEEEEEEEEEET--------TEEEEEEEEEEESSCCCCCHHHHHHHHHHHHHHHH
T ss_pred             CCCCHHH-HHHHHhcCCcEEEEEEEEEC--------CEEEEEEEEEeCCCCCCCCHHHHHHHHHHHHHHHH
Confidence            3322210 12 23679999999999763        23479999988 78999999999999999998864

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

Probab=87.61  E-value=0.53  Score=42.22  Aligned_cols=85  Identities=14%  Similarity=0.189  Sum_probs=56.4

Q ss_pred             HHHHHHHHHHhhhcccc-cCCCcccccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCC------
Q 023595          185 TQLLEWFERQIENIGLS-DLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSM------  257 (280)
Q Consensus       185 g~i~~r~~~~~~~~~L~-~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s------  257 (280)
                      ..++.++.++++..... |..+...|....+  +-......++|++|.||-..       ..+.-|+|.+....      
T Consensus       267 ~~~~~~v~~~~~~~~i~~d~~~~~~~~~~~~--~~~~~~~~~~s~l~vPl~~~-------~~~~iGvl~l~~~~~~~~~~  337 (398)
T 1ykd_A          267 KGFAGIVAASGQKLNIPFDLYDHPDSATAKQ--IDQQNGYRTCSLLCMPVFNG-------DQELIGVTQLVNKKKTGEFP  337 (398)
T ss_dssp             SHHHHHHHHHCCCEEECSCGGGSTTCHHHHH--HHHHHTCCCCCEEEEEEECS-------SSCEEEEEEEEEECCSSCCC
T ss_pred             CchhhHHhccCCeEEeccccccCcccCcccc--hhhhcCCeeeeEEEEeeecC-------CCCEEEEEEEEecCCccccc
Confidence            35788999998887665 5422111111100  00001224899999999731       12346999999888      


Q ss_pred             --------------ccccchhhHHHHHHHHHhhhh
Q 023595          258 --------------TYAYSHKDRAWIKAVSNKFRD  278 (280)
Q Consensus       258 --------------~R~fT~kDe~WI~~iA~KL~~  278 (280)
                                    ++.||+.|..-++.+|+.+..
T Consensus       338 ~~~~~~~~~~~~~~~~~f~~~d~~ll~~la~~~a~  372 (398)
T 1ykd_A          338 PYNPETWPIAPECFQASFDRNDEEFMEAFNIQAGV  372 (398)
T ss_dssp             CCCGGGTTCCCGGGCCCCCHHHHHHHHHHHHHHHH
T ss_pred             ccccccccccccccCCCCCHHHHHHHHHHHHHHHH
Confidence                          899999999999999987654

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	280
d1vhma_	159	Hypothetical protein YebR {Escherichia coli [TaxId	97.36
d1f5ma_	176	Hypothetical protein ykl069wp {Baker's yeast (Sacc	96.9
d1mc0a1	187	3',5'-cyclic nucleotide phosphodiesterase 2A, GAF	91.92
d1mc0a2	154	3',5'-cyclic nucleotide phosphodiesterase 2A, GAF	91.02

>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=97.36  E-value=0.0016  Score=51.65  Aligned_cols=116  Identities=12%  Similarity=0.125  Sum_probs=79.7

Q ss_pred             HHHHHHHHhh---hccccEEEEEECCEEEEeeeccCCC--CCCh-HHHHHHHHHHhhhcccccCCCcccccCCccccccc
Q 023595          146 LAWATYVLLR---NTNSISVLISIRGELCVRGYWQTPD--GASK-TQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWE  219 (280)
Q Consensus       146 LAWas~~LLt---nT~a~svlV~~~g~ll~RG~~~~p~--~~~~-g~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~  219 (280)
                      |+..+..|.+   ++...++.+..++.....-+-....  .+.. .-+|.++.++++++...|..   -.|..      -
T Consensus        27 L~~i~~~l~~~~~~~~~~~~yl~d~~~~~l~~~~~~~~~~~i~~g~g~~g~v~~~~~~~~v~d~~---~d~~~------~   97 (159)
T d1vhma_          27 LANTSALLYERLTDINWAGFYLLEDDTLVLGPFQGKIACVRIPVGRGVCGTAVARNQVQRIEDVH---VFDGH------I   97 (159)
T ss_dssp             HHHHHHHHHHHSSSCSEEEEEEEETTEEEEEEEEESCCCSEEETTSHHHHHHHHHTSCEEESCTT---TCTTC------C
T ss_pred             HHHHHHHHHHhhccCceEEEEEEECCEeeeeeecCCcceeEEecCCChHHHHHHcCCcEEecChH---Hhhhh------h
Confidence            5666665633   4444566666666644322222222  2222 34899999999999887763   22332      3


Q ss_pred             cCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCccccchhhHHHHHHHHHhhhh
Q 023595          220 MLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKDRAWIKAVSNKFRD  278 (280)
Q Consensus       220 ~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT~kDe~WI~~iA~KL~~  278 (280)
                      ....+.+|++|.||..+        .+.-|+|.+++..++.||+.|...++.+|+.+..
T Consensus        98 ~~~~~~~S~l~vPl~~~--------~~viGvl~v~s~~~~~F~~~d~~ll~~la~qia~  148 (159)
T d1vhma_          98 ACDAASNSEIVLPLVVK--------NQIIGVLDIDSTVFGRFTDEDEQGLRQLVAQLEK  148 (159)
T ss_dssp             CSCCCCSEEEEEEEEET--------TEEEEEEEEEESSTTCCCHHHHHHHHHHHHHHHH
T ss_pred             hcccccceeEEeCEEEC--------CEEEEEEEecCCCCCCCCHHHHHHHHHHHHHHHH
Confidence            34678999999999652        2447999999999999999999999999998764

>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=96.90  E-value=0.0015  Score=52.89  Aligned_cols=77  Identities=16%  Similarity=0.157  Sum_probs=61.0

Q ss_pred             HHHHHHHHHhhhcccccCCCcccccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEEeeCCccccchhh
Q 023595          186 QLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLLASSMTYAYSHKD  265 (280)
Q Consensus       186 ~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvlgs~s~R~fT~kD  265 (280)
                      -+|.++.++++++...|.   .-.|.      |.....+++|.+|.||...       ..+.=|||-+.+..++.||+.|
T Consensus        96 Gi~G~v~~~g~~i~v~D~---~~dpr------~~~~~~~~~S~l~vPl~~~-------~g~~~GVl~v~s~~~~~F~~~d  159 (176)
T d1f5ma_          96 GVCGTAASTKETQIVPDV---NKYPG------HIACDGETKSEIVVPIISN-------DGKTLGVIDIDCLDYEGFDHVD  159 (176)
T ss_dssp             HHHHHHHHHTSCEEESCG---GGSTT------CCCSSTTCCEEEEEEEECT-------TSCEEEEEEEEESSTTCCCHHH
T ss_pred             cHHHHHHHhCCeEEecCc---ccCcc------hhhccccccceEEeccccc-------CCcEEEEEEeccCCCCCcCHHH
Confidence            589999999999988665   33342      2445678999999999542       1234699999999999999999


Q ss_pred             HHHHHHHHHhhhh
Q 023595          266 RAWIKAVSNKFRD  278 (280)
Q Consensus       266 e~WI~~iA~KL~~  278 (280)
                      +.+++.+|+-+..
T Consensus       160 ~~~l~~~A~~ia~  172 (176)
T d1f5ma_         160 KEFLEKLAKLINK  172 (176)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999997753

>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=91.92  E-value=0.33  Score=37.60  Aligned_cols=80  Identities=15%  Similarity=0.093  Sum_probs=56.2

Q ss_pred             HHHHHHHHHhhhcccccCCCcccccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEE-EEeeCCccccchh
Q 023595          186 QLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFV-LLASSMTYAYSHK  264 (280)
Q Consensus       186 ~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvl-vlgs~s~R~fT~k  264 (280)
                      .++.++.+.+++..+.|..+...|..      ....-.++.+++|.||-..      ...+.-||+ +.-....+.||+.
T Consensus        73 g~~~~v~~~~~~~~i~d~~~d~~~~~------~~~~~~~~~s~l~vPl~~~------~~~~~iGvl~~~~~~~~~~fs~~  140 (187)
T d1mc0a1          73 GRLGQVVEDKQCIQLKDLTSDDVQQL------QNMLGCELQAMLCVPVISR------ATDQVVALACAFNKLGGDFFTDE  140 (187)
T ss_dssp             SSHHHHHHHCCCEEGGGSCHHHHHHH------HHHHCSCCCCEEEEEEECT------TTCSEEEEEEEEEESSCSSCCSH
T ss_pred             cHHHHHHHhhhhhhhhcccccccccc------chhhhhhHHHHHhhhhhcc------ccccceEEEEEEcccccchhhhH
Confidence            46789999999998877643332221      2234467889999999531      112336888 4456777999999


Q ss_pred             hHHHHHHHHHhhh
Q 023595          265 DRAWIKAVSNKFR  277 (280)
Q Consensus       265 De~WI~~iA~KL~  277 (280)
                      |..++.++|+-+.
T Consensus       141 d~~~l~~~a~~~a  153 (187)
T d1mc0a1         141 DEHVIQHCFHYTG  153 (187)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999998664

>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=91.02  E-value=1.9  Score=30.81  Aligned_cols=83  Identities=13%  Similarity=0.081  Sum_probs=49.7

Q ss_pred             hHHHHHHHHHHhhhcccccCCCcccccCCccccccccCCCCCceeEEEeccCCCCCCcccccccceEEEE-eeCCccccc
Q 023595          184 KTQLLEWFERQIENIGLSDLKDSLYFPQSADAGQWEMLPKGTCSVFVQPVIQAPNPSAVEVEKIEGFVLL-ASSMTYAYS  262 (280)
Q Consensus       184 ~g~i~~r~~~~~~~~~L~~L~~t~lyPgr~E~~~~~~LP~ntqsVlvQPig~~~~~~~~~~~~~~Gvlvl-gs~s~R~fT  262 (280)
                      ...++.++.++.+.+...+......++...+    ........+.++.|+-..       ..+.-|++.+ ....+|.||
T Consensus        54 ~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~-------~~~~~g~~~~~~~~~~~~f~  122 (154)
T d1mc0a2          54 DQGIAGHVATTGQILNIPDAYAHPLFYRGVD----DSTGFRTRNILCFPIKNE-------NQEVIGVAELVNKINGPWFS  122 (154)
T ss_dssp             TSHHHHHHHHHCCCEEESCSTTCTTCCCTTH----HHHTCCCCCEEEEEEECT-------TSCEEEEEEEEEETTSSSCC
T ss_pred             CccchhheeccCcEEEEEeccccccccchhh----hhhcccceeEEEEecccc-------cceeeEEEEeeccccccccc
Confidence            3568889999888876655432223333322    112223334455554221       1223455544 467999999


Q ss_pred             hhhHHHHHHHHHhhh
Q 023595          263 HKDRAWIKAVSNKFR  277 (280)
Q Consensus       263 ~kDe~WI~~iA~KL~  277 (280)
                      +.|..-++.+|+-+.
T Consensus       123 ~~d~~ll~~la~q~a  137 (154)
T d1mc0a2         123 KFDEDLATAFSIYCG  137 (154)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999998765