Citrus Sinensis ID: 042062

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140--
Protein Sequence
MEALRQQIAEMRQSFFDEEILDRYFIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFELVAQLGTDSD
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHcccHHHHHHHHHHcccccccHHHHHHHHHHHcHHHHHHHHHHHHccccccHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
MEALRQQIAEMRQSFFDEEILDRYFIQLEqlgennpgfvEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYnlkgssasigankvrNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFELVAQLGTDSD
Flexible Loop (DISEMBL)
MEALRQQIAEMRQSFFDEEILDRYFIQLEqlgennpgfvEDVLTVYFRDSTRTLANIEkelqktevnyVELDRYFYNlkgssasigankvrnEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFELVAQLGTDSD
Low Complexity Region (SEG)
MEALRQQIAEMRQSFFDEEILDRYFIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFELVAQLGTDSD
Disordered region (IsUnstruct)
*************SFFDEEILDRYFIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFELVAQ******
Disordered Region (DISOPRED)
********AEMRQSFFDEEILDRYFIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELC***NWEEAKVSLEQLKVEHSTLKDKLTAYFELVAQLG****
Disordered Region (DISEMBL)
MEALRQQIAEMRQSFFDEEILDRYFIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFELVAQLGTDSD
Disordered Region (DISPRO)
MEALRQQIAEMRQSFFDEEILDRYFIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFELVAQLG****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MEALRQQIAEMRQSFFDEEILDRYFIQLEQLGENNPGFVEDVLTVYxxxxxxxxxxxxxxxxxxxxxxxxxxxxFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFELVAQLGTDSD
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	142	2.2.26 [Sep-21-2011]
Q9LU15	127	Histidine-containing phos	no	no	0.845	0.944	0.436	2e-23
Q9ZNV8	156	Histidine-containing phos	no	no	0.943	0.858	0.316	5e-15
Q6VAK4	149	Histidine-containing phos	no	no	0.950	0.906	0.313	6e-15
Q9ZNV9	154	Histidine-containing phos	no	no	0.880	0.811	0.396	6e-15
Q9SAZ5	155	Histidine-containing phos	no	no	0.943	0.864	0.316	1e-14
Q8L9T7	157	Histidine-containing phos	no	no	0.943	0.853	0.308	1e-12
Q9SSC9	154	Histidine-containing phos	no	no	0.697	0.642	0.33	9e-05

>sp|Q9LU15|AHP4_ARATH Histidine-containing phosphotransfer protein 4 OS=Arabidopsis thaliana GN=AHP4 PE=1 SV=2

 Score =  107 bits (267), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 55/126 (43%), Positives = 80/126 (63%), Gaps = 6/126 (4%)

Query: 8   IAEMRQSFFDEEILDRYFIQLEQLGEN-NPGFVEDVLTVYFRDSTRTLANIEKELQKTEV 66
           I +  Q + DE+     F++LE+L ++ NP FVE+V  +YF+DS R + NI++ L++   
Sbjct: 4   IGKCMQGYLDEQ-----FMELEELQDDANPNFVEEVSALYFKDSARLINNIDQALERGSF 58

Query: 67  NYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDK 126
           ++  LD Y +  KGSS SIGA+KV+ E    RE CRA N E    + +QLK EHSTL+ K
Sbjct: 59  DFNRLDSYMHQFKGSSTSIGASKVKAECTTFREYCRAGNAEGCLRTFQQLKKEHSTLRKK 118

Query: 127 LTAYFE 132
           L  YF+
Sbjct: 119 LEHYFQ 124

Functions as two-component phosphorelay mediators between cytokinin sensor histidine kinases and response regulators (B-type ARRs). Plays an important role in propagating cytokinin signal transduction through the multistep His-to-Asp phosphorelay.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZNV8|AHP2_ARATH Histidine-containing phosphotransfer protein 2 OS=Arabidopsis thaliana GN=AHP2 PE=1 SV=1

 Score = 79.7 bits (195), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 43/136 (31%), Positives = 79/136 (58%), Gaps = 2/136 (1%)

Query: 4   LRQQIAEMRQSFFDEEILDRYFIQLEQLGEN-NPGFVEDVLTVYFRDSTRTLANIEKELQ 62
           L++Q  +   S + +  LD  F +L++L ++ +P FV +VL+++F D  + ++N+ + L 
Sbjct: 8   LQRQFRDYTISLYQQGFLDDQFTELKKLQDDGSPDFVSEVLSLFFEDCVKLISNMARALD 67

Query: 63  KT-EVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHS 121
            T  V++ ++    + LKGSS+S+GA +V+      +E C A N+E     L+Q+ +E+ 
Sbjct: 68  TTGTVDFSQVGASVHQLKGSSSSVGAKRVKTLCVSFKECCEAKNYEGCVRCLQQVDIEYK 127

Query: 122 TLKDKLTAYFELVAQL 137
            LK KL   F L  Q+
Sbjct: 128 ALKTKLQDMFNLEKQI 143

Functions as two-component phosphorelay mediators between cytokinin sensor histidine kinases and response regulators (B-type ARRs). Plays an important role in propagating cytokinin signal transduction through the multistep His-to-Asp phosphorelay.

Arabidopsis thaliana (taxid: 3702)

>sp|Q6VAK4|HP1_ORYSJ Histidine-containing phosphotransfer protein 1 OS=Oryza sativa subsp. japonica GN=HP1 PE=1 SV=1

 Score = 79.7 bits (195), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 43/137 (31%), Positives = 78/137 (56%), Gaps = 2/137 (1%)

Query: 3   ALRQQIAEMRQSFFDEEILDRYFIQLEQLGE--NNPGFVEDVLTVYFRDSTRTLANIEKE 60
           ALR Q+  +  S F + ++D  F QL+ L +    PGFV +V+T++  D+ R +  I   
Sbjct: 5   ALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEIATL 64

Query: 61  LQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEH 120
           L++  VN+ ++D Y + LKGSSAS+GA KV+    + R+ C+  + +   ++L  ++ + 
Sbjct: 65  LEQPVVNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQDKSRDGCLMALAVVRNDF 124

Query: 121 STLKDKLTAYFELVAQL 137
             L++K     +L  Q+
Sbjct: 125 YDLRNKFQTMLQLEQQI 141

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9ZNV9|AHP1_ARATH Histidine-containing phosphotransfer protein 1 OS=Arabidopsis thaliana GN=AHP1 PE=1 SV=1

 Score = 79.3 bits (194), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 50/126 (39%), Positives = 78/126 (61%), Gaps = 1/126 (0%)

Query: 13  QSFFDEEILDRYFIQLEQL-GENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVEL 71
           +S F E ILD  F+QL+QL  E+NP FV  V+T++F+DS R L ++   L +  V++ ++
Sbjct: 15  KSLFLEGILDSQFLQLQQLQDESNPDFVSQVVTLFFQDSDRILNDLSLSLDQQVVDFKKV 74

Query: 72  DRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYF 131
           D + + LKGSS+SIGA +V+N     R  C   N E     L+Q+K E+  +K++L   F
Sbjct: 75  DPHVHQLKGSSSSIGAQRVKNACVVFRSFCEQQNVEACHRCLQQVKQEYYLVKNRLETLF 134

Query: 132 ELVAQL 137
           +L  Q+
Sbjct: 135 KLEQQI 140

Functions as two-component phosphorelay mediators between cytokinin sensor histidine kinases and response regulators (B-type ARRs). Plays an important role in propagating cytokinin signal transduction through the multistep His-to-Asp phosphorelay.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SAZ5|AHP3_ARATH Histidine-containing phosphotransfer protein 3 OS=Arabidopsis thaliana GN=AHP3 PE=1 SV=2

 Score = 78.2 bits (191), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 43/136 (31%), Positives = 79/136 (58%), Gaps = 2/136 (1%)

Query: 4   LRQQIAEMRQSFFDEEILDRYFIQLEQL-GENNPGFVEDVLTVYFRDSTRTLANIEKELQ 62
           L+++  +   S + +  LD  F +L++L  E +P FV +V+T++F D  + ++N+ + L 
Sbjct: 8   LQRRFCDFTISLYHQGFLDDQFTELKKLQDECSPDFVAEVVTLFFEDCEKLISNMARALD 67

Query: 63  KT-EVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHS 121
           +T  V++  +    + LKGSS+S+GA +V+      +E C + N+E     L+Q+ +E+ 
Sbjct: 68  QTGNVDFKLVGSSVHQLKGSSSSVGAKRVKGLCVTLKECCDSQNYEGCVRCLQQVDIEYK 127

Query: 122 TLKDKLTAYFELVAQL 137
           TLK KL   F L  Q+
Sbjct: 128 TLKAKLQDLFNLEQQI 143

Functions as two-component phosphorelay mediators between cytokinin sensor histidine kinases and response regulators (B-type ARRs). Plays an important role in propagating cytokinin signal transduction through the multistep His-to-Asp phosphorelay.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8L9T7|AHP5_ARATH Histidine-containing phosphotransfer protein 5 OS=Arabidopsis thaliana GN=AHP5 PE=1 SV=2

 Score = 71.6 bits (174), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 42/136 (30%), Positives = 75/136 (55%), Gaps = 2/136 (1%)

Query: 4   LRQQIAEMRQSFFDEEILDRYFIQLEQL-GENNPGFVEDVLTVYFRDSTRTLANIEKELQ 62
           L++Q  +   S + +  LD  F +L +L  E  P FV +V++++F D ++ +  +   L+
Sbjct: 9   LQRQFQDYIVSLYQQGFLDNQFSELRKLQDEGTPDFVAEVVSLFFDDCSKLINTMSISLE 68

Query: 63  KTE-VNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHS 121
           + + V++ ++D   + LKGSS+S+GA +V+N     +E C   N E     L+Q+  E+ 
Sbjct: 69  RPDNVDFKQVDSGVHQLKGSSSSVGARRVKNVCISFKECCDVQNREGCLRCLQQVDYEYK 128

Query: 122 TLKDKLTAYFELVAQL 137
            LK KL   F L  Q+
Sbjct: 129 MLKTKLQDLFNLEKQI 144

Functions as two-component phosphorelay mediators between cytokinin sensor histidine kinases and response regulators (B-type ARRs). Plays an important role in propagating cytokinin signal transduction through the multistep His-to-Asp phosphorelay.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SSC9|AHP6_ARATH Histidine-containing phosphotransfer protein 6 OS=Arabidopsis thaliana GN=AHP6 PE=2 SV=2

 Score = 45.8 bits (107), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 33/100 (33%), Positives = 52/100 (52%), Gaps = 1/100 (1%)

Query: 35  NPGFVEDVLTVYFRDSTRTLANIEKELQKTEV-NYVELDRYFYNLKGSSASIGANKVRNE 93
           +P FV DV+ +YF +S + L N+   L   E  +Y ++  +   L GSS+SIGA +VRN 
Sbjct: 41  SPNFVYDVINIYFDESEKLLRNLRLLLMDREFSDYKKIGLHLNQLVGSSSSIGARRVRNV 100

Query: 94  VNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFEL 133
               R     +N       LE ++ E+  LK+ +   F+L
Sbjct: 101 CVAFRSASELSNRPGCLRGLEVVEHEYHYLKNMMHELFQL 140

Functions as two-component phosphorelay mediators between cytokinin sensor histidine kinases and response regulators (B-type ARRs). Plays an important role in propagating cytokinin signal transduction through the multistep His-to-Asp phosphorelay.

Arabidopsis thaliana (taxid: 3702)

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	142
449447821	150	PREDICTED: histidine-containing phosphot	0.957	0.906	0.459	2e-29
391349165	150	histidine phosphotransfer protein [Popul	0.957	0.906	0.481	2e-29
224054404	224	histidine phosphotransfer protein [Popul	0.957	0.607	0.481	4e-29
225442470	150	PREDICTED: histidine-containing phosphot	0.943	0.893	0.451	7e-29
225445098	214	PREDICTED: histidine-containing phosphot	0.971	0.644	0.446	1e-28
255549828	150	Histidine-containing phosphotransfer pro	0.957	0.906	0.467	2e-28
356526081	151	PREDICTED: histidine-containing phosphot	0.950	0.894	0.467	2e-28
255546331	150	Histidine-containing phosphotransfer pro	0.957	0.906	0.492	3e-28
356556499	150	PREDICTED: histidine-containing phosphot	0.950	0.9	0.448	5e-28
356550496	150	PREDICTED: histidine-containing phosphot	0.950	0.9	0.455	6e-28

>gi|449447821|ref|XP_004141666.1| PREDICTED: histidine-containing phosphotransfer protein 4-like [Cucumis sativus] gi|449480619|ref|XP_004155947.1| PREDICTED: histidine-containing phosphotransfer protein 4-like [Cucumis sativus]

 Score =  134 bits (336), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 63/137 (45%), Positives = 98/137 (71%), Gaps = 1/137 (0%)

Query: 4   LRQQIAEMRQSFFDEEILDRYFIQLEQLGEN-NPGFVEDVLTVYFRDSTRTLANIEKELQ 62
           LR+Q+A +RQS FD+  LD  F+QLE+L ++ NP FVE+++T+Y+RDS+R + +IE+ LQ
Sbjct: 6   LRRQLANIRQSLFDQGFLDEQFVQLEELQDDANPNFVEEIVTLYYRDSSRLILSIEQALQ 65

Query: 63  KTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHST 122
           K+ +++ +LD   +  KGSS+SIGA KV+ E  + RE C+A + E    + +QLK E+++
Sbjct: 66  KSPLDFNKLDALMHQFKGSSSSIGAKKVKAECTQLREYCKAGSGEGCMRTFQQLKKEYTS 125

Query: 123 LKDKLTAYFELVAQLGT 139
           L+ KL AYF+L  Q G 
Sbjct: 126 LRKKLEAYFQLARQAGP 142

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|391349165|emb|CCI55474.1| histidine phosphotransfer protein [Populus x canadensis]

 Score =  133 bits (335), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 66/137 (48%), Positives = 95/137 (69%), Gaps = 1/137 (0%)

Query: 4   LRQQIAEMRQSFFDEEILDRYFIQLEQLGEN-NPGFVEDVLTVYFRDSTRTLANIEKELQ 62
           LR+Q+A  RQS FD+  LD  FIQLE+L ++ NP FVE+V+++++RDS R ++NIEK L+
Sbjct: 6   LRRQVALTRQSLFDQGFLDEQFIQLEELQDDANPNFVEEVVSLHYRDSARLISNIEKALE 65

Query: 63  KTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHST 122
           K  +++ +LD Y +  KGSS+SIGA KV+ E    RE C+A N E    + +Q+K E++T
Sbjct: 66  KNPLDFNKLDGYMHQFKGSSSSIGAKKVKAECTLFREYCKAGNGEGCMRTFQQIKKEYAT 125

Query: 123 LKDKLTAYFELVAQLGT 139
           LK KL  YF+L  Q G 
Sbjct: 126 LKRKLETYFQLARQAGP 142

Source: Populus x canadensis

Species: Populus x canadensis

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224054404|ref|XP_002298243.1| histidine phosphotransfer protein [Populus trichocarpa] gi|222845501|gb|EEE83048.1| histidine phosphotransfer protein [Populus trichocarpa]

 Score =  132 bits (332), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 66/137 (48%), Positives = 95/137 (69%), Gaps = 1/137 (0%)

Query: 4   LRQQIAEMRQSFFDEEILDRYFIQLEQLGEN-NPGFVEDVLTVYFRDSTRTLANIEKELQ 62
           LR+Q+A  RQS FD+  LD  FIQLE+L ++ NP FVE+V+++++RDS R ++NIEK L+
Sbjct: 6   LRRQVALTRQSLFDQGFLDEQFIQLEELQDDANPNFVEEVVSLHYRDSARLISNIEKALE 65

Query: 63  KTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHST 122
           K  +++ +LD Y +  KGSS+SIGA KV+ E    RE C+A N E    + +Q+K E++T
Sbjct: 66  KNPLDFNKLDGYMHQFKGSSSSIGAKKVKAECTLFREYCKAGNGEGCMRTFQQIKKEYAT 125

Query: 123 LKDKLTAYFELVAQLGT 139
           LK KL  YF+L  Q G 
Sbjct: 126 LKRKLETYFQLARQAGP 142

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225442470|ref|XP_002283686.1| PREDICTED: histidine-containing phosphotransfer protein 4 [Vitis vinifera] gi|297743193|emb|CBI36060.3| unnamed protein product [Vitis vinifera]

 Score =  131 bits (330), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 61/135 (45%), Positives = 94/135 (69%), Gaps = 1/135 (0%)

Query: 6   QQIAEMRQSFFDEEILDRYFIQLEQLGEN-NPGFVEDVLTVYFRDSTRTLANIEKELQKT 64
           +Q+A MRQS FD+ +LD  F+QLE+L ++ NP FVE+V+T+++RDS R + NI++ L KT
Sbjct: 8   RQVAHMRQSLFDQGLLDEQFVQLEELQDDANPNFVEEVVTLFYRDSARLVLNIDQALDKT 67

Query: 65  EVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLK 124
            +++ +LD Y +  KGS++SIGA KV+ E    RE C+A N E    + +QLK +++ L+
Sbjct: 68  PLDFSKLDSYMHQFKGSASSIGAKKVKGECTLFREYCKAGNGEGCMKTFQQLKKDYAVLR 127

Query: 125 DKLTAYFELVAQLGT 139
            KL  YF+L  Q+G 
Sbjct: 128 KKLETYFQLARQVGP 142

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225445098|ref|XP_002283696.1| PREDICTED: histidine-containing phosphotransfer protein 4 [Vitis vinifera] gi|297738760|emb|CBI28005.3| unnamed protein product [Vitis vinifera]

 Score =  130 bits (328), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 62/139 (44%), Positives = 97/139 (69%), Gaps = 1/139 (0%)

Query: 3   ALRQQIAEMRQSFFDEEILDRYFIQLEQLGE-NNPGFVEDVLTVYFRDSTRTLANIEKEL 61
            L QQI+ M+QS  DE  +D +F++LE L + +N  F E+++T++F DS R + ++EKEL
Sbjct: 4   TLHQQISAMKQSLLDEGFVDGHFVELELLEDGDNLHFTEEIITLFFTDSARLIVDVEKEL 63

Query: 62  QKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHS 121
               ++Y ++D+  +  KGSS+S+GAN+VR +  K RE C+  + E  K +L+QLK EH+
Sbjct: 64  NNDPIDYSKVDKILHQFKGSSSSVGANRVRLQGTKLRESCKDGDVEGWKAALKQLKKEHA 123

Query: 122 TLKDKLTAYFELVAQLGTD 140
           TLK+KL  YF+LV QLG++
Sbjct: 124 TLKEKLDTYFQLVKQLGSE 142

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255549828|ref|XP_002515965.1| Histidine-containing phosphotransfer protein, putative [Ricinus communis] gi|223544870|gb|EEF46385.1| Histidine-containing phosphotransfer protein, putative [Ricinus communis]

 Score =  130 bits (326), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 64/137 (46%), Positives = 95/137 (69%), Gaps = 1/137 (0%)

Query: 4   LRQQIAEMRQSFFDEEILDRYFIQLEQLGEN-NPGFVEDVLTVYFRDSTRTLANIEKELQ 62
           L +Q+A  RQS FD+  LD  F+QLE+L ++ NP FVE+V+T+Y+RDS R + +IE+ L+
Sbjct: 6   LHRQVALARQSLFDQGFLDEQFLQLEELQDDANPNFVEEVVTLYYRDSARLILSIEQGLE 65

Query: 63  KTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHST 122
           +  +++ +LD + +  KGSS+SIGA KV+ E    RE CRA N E    + +QLK E++T
Sbjct: 66  RHPLDFNKLDSHMHQFKGSSSSIGAKKVKAECTLFREYCRAGNGEGCARTFQQLKKEYAT 125

Query: 123 LKDKLTAYFELVAQLGT 139
           LK KL +YF+L  Q+G 
Sbjct: 126 LKKKLESYFQLARQVGP 142

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356526081|ref|XP_003531648.1| PREDICTED: histidine-containing phosphotransfer protein 4-like [Glycine max]

 Score =  130 bits (326), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 64/137 (46%), Positives = 97/137 (70%), Gaps = 2/137 (1%)

Query: 5   RQQIAEMRQSFFDEEILDRYFIQLEQLGEN-NPGFVEDVLTVYFRDSTRTLANIEKEL-Q 62
           R+Q+A M+QS FD+ +LD  FIQLE+L ++ NP FVE+++T+++RDS+R +++IE+ L +
Sbjct: 7   RRQVAAMKQSLFDQGLLDEQFIQLEELQDDANPNFVEEIVTLHYRDSSRLISSIEQALKE 66

Query: 63  KTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHST 122
           +  +++ +LD   +  KGSS+SIGA KV+ E N  RE CRA N E    S +QLK E++ 
Sbjct: 67  RNPLDFNKLDTLMHQFKGSSSSIGAKKVKTECNLFREYCRAGNAEGCMRSFQQLKREYAA 126

Query: 123 LKDKLTAYFELVAQLGT 139
           L+ KL AYF+L  Q G 
Sbjct: 127 LRKKLEAYFQLARQAGP 143

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255546331|ref|XP_002514225.1| Histidine-containing phosphotransfer protein, putative [Ricinus communis] gi|223546681|gb|EEF48179.1| Histidine-containing phosphotransfer protein, putative [Ricinus communis]

 Score =  129 bits (325), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 68/138 (49%), Positives = 94/138 (68%), Gaps = 2/138 (1%)

Query: 4   LRQQIAEMRQSFFDEEILD-RYFIQLEQL-GENNPGFVEDVLTVYFRDSTRTLANIEKEL 61
           LR+QIA+MRQSFFDE  LD  YF QLEQL G +NP FVE+++T++FR+ST+ LA +E  L
Sbjct: 5   LREQIAKMRQSFFDEGTLDSHYFAQLEQLEGPDNPNFVEEIITLFFRESTKMLATMETNL 64

Query: 62  QKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHS 121
           +K  VN++ +D+    +K +SASIGA +++ +V       +  N E AK S + LKVE+ 
Sbjct: 65  EKCPVNFIGIDKMLNQIKVNSASIGAIRIKEQVIPMLNNLKENNLEGAKASFQGLKVEYD 124

Query: 122 TLKDKLTAYFELVAQLGT 139
           TLK KL  YF+L  Q G 
Sbjct: 125 TLKRKLEPYFQLQRQAGP 142

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356556499|ref|XP_003546562.1| PREDICTED: histidine-containing phosphotransfer protein 4-like [Glycine max]

 Score =  129 bits (323), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 61/136 (44%), Positives = 95/136 (69%), Gaps = 1/136 (0%)

Query: 5   RQQIAEMRQSFFDEEILDRYFIQLEQLGEN-NPGFVEDVLTVYFRDSTRTLANIEKELQK 63
           R+Q+A M+QS FD+  LD  FIQLE+L ++ NP FVE+++T+Y+RDS+R +++++  L+ 
Sbjct: 7   RRQVAAMKQSLFDQGYLDEQFIQLEELQDDANPNFVEEIVTLYYRDSSRLISSLDHTLES 66

Query: 64  TEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTL 123
             +++ +LD   +  KGSS+SIGA KV+ E    RE CRA N E  + S +Q+K E++TL
Sbjct: 67  NPLDFNKLDTIMHQFKGSSSSIGAKKVKAECTLFREYCRARNGEGCRRSFQQMKREYATL 126

Query: 124 KDKLTAYFELVAQLGT 139
           + KL  YF+L  Q+G 
Sbjct: 127 RKKLETYFQLARQVGP 142

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356550496|ref|XP_003543622.1| PREDICTED: histidine-containing phosphotransfer protein 4-like [Glycine max]

 Score =  129 bits (323), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 62/136 (45%), Positives = 93/136 (68%), Gaps = 1/136 (0%)

Query: 5   RQQIAEMRQSFFDEEILDRYFIQLEQLGEN-NPGFVEDVLTVYFRDSTRTLANIEKELQK 63
           R+Q+A M+QS FD+  LD  FIQLE+L ++ NP FVE+++T+Y+RDS+R ++N++  L++
Sbjct: 7   RRQVAAMKQSLFDQGYLDEQFIQLEELQDDANPNFVEEIVTLYYRDSSRLISNLDHTLER 66

Query: 64  TEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTL 123
             V++ +LD   +  KGSS+SIGA KV+ E     E CRA N E  + S +Q+K E++TL
Sbjct: 67  NPVDFNKLDTIMHQFKGSSSSIGAKKVKAECTLFMEYCRARNGEGCRRSFQQMKKEYATL 126

Query: 124 KDKLTAYFELVAQLGT 139
           + KL  YF L  Q G 
Sbjct: 127 RKKLETYFHLARQAGP 142

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	142
TAIR|locus:2089900	154	AHP1 "histidine-containing pho	0.964	0.889	0.371	1.9e-19
TAIR|locus:2093817	156	AHP2 "histidine-containing pho	0.943	0.858	0.316	6e-16
TAIR|locus:2175643	155	AHP3 "histidine-containing pho	0.943	0.864	0.316	3.3e-15
TAIR|locus:2020868	157	AHP5 "histidine-containing pho	0.943	0.853	0.308	3.8e-14
TAIR|locus:2016339	154	HP6 "histidine phosphotransfer	0.957	0.883	0.333	6.2e-14
TAIR|locus:2183184	114	AT5G19710 "AT5G19710" [Arabido	0.394	0.491	0.438	8e-11
CGD|CAL0001843	184	YPD1 [Candida albicans (taxid:	0.725	0.559	0.231	0.00087
UNIPROTKB|Q59WC6	184	YPD1 "Putative uncharacterized	0.725	0.559	0.231	0.00087

TAIR|locus:2089900 AHP1 "histidine-containing phosphotransmitter 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 232 (86.7 bits), Expect = 1.9e-19, P = 1.9e-19
 Identities = 52/140 (37%), Positives = 86/140 (61%)

Query:     1 MEALRQQ--IAEMRQSFFDEEILDRYFIQLEQL-GENNPGFVEDVLTVYFRDSTRTLANI 57
             M+ +++Q  + +  +S F E ILD  F+QL+QL  E+NP FV  V+T++F+DS R L ++
Sbjct:     1 MDLVQKQKSLQDYTKSLFLEGILDSQFLQLQQLQDESNPDFVSQVVTLFFQDSDRILNDL 60

Query:    58 EKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLK 117
                L +  V++ ++D + + LKGSS+SIGA +V+N     R  C   N E     L+Q+K
Sbjct:    61 SLSLDQQVVDFKKVDPHVHQLKGSSSSIGAQRVKNACVVFRSFCEQQNVEACHRCLQQVK 120

Query:   118 VEHSTLKDKLTAYFELVAQL 137
              E+  +K++L   F+L  Q+
Sbjct:   121 QEYYLVKNRLETLFKLEQQI 140

GO:0000160 "phosphorelay signal transduction system" evidence=IEA;IMP

GO:0004871 "signal transducer activity" evidence=IEA

GO:0009927 "histidine phosphotransfer kinase activity" evidence=ISS;IDA

GO:0005515 "protein binding" evidence=IPI

GO:0043424 "protein histidine kinase binding" evidence=IPI

GO:0005737 "cytoplasm" evidence=IDA;NAS

GO:0009736 "cytokinin mediated signaling pathway" evidence=RCA;IMP;TAS

GO:0005634 "nucleus" evidence=IDA

GO:0080036 "regulation of cytokinin mediated signaling pathway" evidence=IGI

GO:0009553 "embryo sac development" evidence=IGI

GO:0016049 "cell growth" evidence=IGI

GO:0051301 "cell division" evidence=IGI

GO:0000041 "transition metal ion transport" evidence=RCA

GO:0010029 "regulation of seed germination" evidence=RCA

GO:0015698 "inorganic anion transport" evidence=RCA

GO:0031537 "regulation of anthocyanin metabolic process" evidence=RCA

GO:0048831 "regulation of shoot system development" evidence=RCA

TAIR|locus:2093817 AHP2 "histidine-containing phosphotransmitter 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 199 (75.1 bits), Expect = 6.0e-16, P = 6.0e-16
 Identities = 43/136 (31%), Positives = 79/136 (58%)

Query:     4 LRQQIAEMRQSFFDEEILDRYFIQLEQLGEN-NPGFVEDVLTVYFRDSTRTLANIEKELQ 62
             L++Q  +   S + +  LD  F +L++L ++ +P FV +VL+++F D  + ++N+ + L 
Sbjct:     8 LQRQFRDYTISLYQQGFLDDQFTELKKLQDDGSPDFVSEVLSLFFEDCVKLISNMARALD 67

Query:    63 KT-EVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHS 121
              T  V++ ++    + LKGSS+S+GA +V+      +E C A N+E     L+Q+ +E+ 
Sbjct:    68 TTGTVDFSQVGASVHQLKGSSSSVGAKRVKTLCVSFKECCEAKNYEGCVRCLQQVDIEYK 127

Query:   122 TLKDKLTAYFELVAQL 137
              LK KL   F L  Q+
Sbjct:   128 ALKTKLQDMFNLEKQI 143

GO:0000160 "phosphorelay signal transduction system" evidence=IEA;IDA

GO:0004871 "signal transducer activity" evidence=IEA;ISS

GO:0007165 "signal transduction" evidence=ISS

GO:0009927 "histidine phosphotransfer kinase activity" evidence=ISS;IDA

GO:0005515 "protein binding" evidence=IPI

GO:0043424 "protein histidine kinase binding" evidence=IPI

GO:0005737 "cytoplasm" evidence=IDA;NAS

GO:0009736 "cytokinin mediated signaling pathway" evidence=RCA;IMP;TAS

GO:0005634 "nucleus" evidence=IDA

GO:0080036 "regulation of cytokinin mediated signaling pathway" evidence=IGI

GO:0005829 "cytosol" evidence=IDA

GO:0010029 "regulation of seed germination" evidence=RCA

GO:0031537 "regulation of anthocyanin metabolic process" evidence=RCA

GO:0048831 "regulation of shoot system development" evidence=RCA

TAIR|locus:2175643 AHP3 "histidine-containing phosphotransmitter 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 192 (72.6 bits), Expect = 3.3e-15, P = 3.3e-15
 Identities = 43/136 (31%), Positives = 79/136 (58%)

Query:     4 LRQQIAEMRQSFFDEEILDRYFIQLEQL-GENNPGFVEDVLTVYFRDSTRTLANIEKELQ 62
             L+++  +   S + +  LD  F +L++L  E +P FV +V+T++F D  + ++N+ + L 
Sbjct:     8 LQRRFCDFTISLYHQGFLDDQFTELKKLQDECSPDFVAEVVTLFFEDCEKLISNMARALD 67

Query:    63 KT-EVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHS 121
             +T  V++  +    + LKGSS+S+GA +V+      +E C + N+E     L+Q+ +E+ 
Sbjct:    68 QTGNVDFKLVGSSVHQLKGSSSSVGAKRVKGLCVTLKECCDSQNYEGCVRCLQQVDIEYK 127

Query:   122 TLKDKLTAYFELVAQL 137
             TLK KL   F L  Q+
Sbjct:   128 TLKAKLQDLFNLEQQI 143

GO:0000160 "phosphorelay signal transduction system" evidence=IEA;ISS

GO:0004871 "signal transducer activity" evidence=IEA

GO:0009927 "histidine phosphotransfer kinase activity" evidence=ISS;IDA

GO:0005515 "protein binding" evidence=IPI

GO:0043424 "protein histidine kinase binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0009736 "cytokinin mediated signaling pathway" evidence=RCA;IMP

GO:0080036 "regulation of cytokinin mediated signaling pathway" evidence=IGI

GO:0010029 "regulation of seed germination" evidence=RCA

GO:0031537 "regulation of anthocyanin metabolic process" evidence=RCA

GO:0048831 "regulation of shoot system development" evidence=RCA

TAIR|locus:2020868 AHP5 "histidine-containing phosphotransfer factor 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 182 (69.1 bits), Expect = 3.8e-14, P = 3.8e-14
 Identities = 42/136 (30%), Positives = 75/136 (55%)

Query:     4 LRQQIAEMRQSFFDEEILDRYFIQLEQL-GENNPGFVEDVLTVYFRDSTRTLANIEKELQ 62
             L++Q  +   S + +  LD  F +L +L  E  P FV +V++++F D ++ +  +   L+
Sbjct:     9 LQRQFQDYIVSLYQQGFLDNQFSELRKLQDEGTPDFVAEVVSLFFDDCSKLINTMSISLE 68

Query:    63 KTE-VNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHS 121
             + + V++ ++D   + LKGSS+S+GA +V+N     +E C   N E     L+Q+  E+ 
Sbjct:    69 RPDNVDFKQVDSGVHQLKGSSSSVGARRVKNVCISFKECCDVQNREGCLRCLQQVDYEYK 128

Query:   122 TLKDKLTAYFELVAQL 137
              LK KL   F L  Q+
Sbjct:   129 MLKTKLQDLFNLEKQI 144

GO:0000160 "phosphorelay signal transduction system" evidence=IEA;TAS

GO:0004871 "signal transducer activity" evidence=IEA

GO:0009927 "histidine phosphotransfer kinase activity" evidence=ISS;IDA

GO:0043424 "protein histidine kinase binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0009736 "cytokinin mediated signaling pathway" evidence=RCA;IMP

GO:0080036 "regulation of cytokinin mediated signaling pathway" evidence=IGI

GO:0000165 "MAPK cascade" evidence=RCA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=RCA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009617 "response to bacterium" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0009863 "salicylic acid mediated signaling pathway" evidence=RCA

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

GO:0010029 "regulation of seed germination" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0031537 "regulation of anthocyanin metabolic process" evidence=RCA

GO:0035304 "regulation of protein dephosphorylation" evidence=RCA

GO:0043069 "negative regulation of programmed cell death" evidence=RCA

GO:0048831 "regulation of shoot system development" evidence=RCA

GO:0051707 "response to other organism" evidence=RCA

TAIR|locus:2016339 HP6 "histidine phosphotransfer protein 6" [Arabidopsis thaliana (taxid:3702)]

 Score = 180 (68.4 bits), Expect = 6.2e-14, P = 6.2e-14
 Identities = 46/138 (33%), Positives = 73/138 (52%)

Query:     1 MEALRQQIAEMRQSFFDEEILDRYFIQLEQL-GENNPGFVEDVLTVYFRDSTRTLANIEK 59
             ++ L+  I  +  S F + +LD  F+QL+QL  E +P FV DV+ +YF +S + L N+  
Sbjct:     6 VDRLQADINRLLASLFHQGVLDEQFLQLQQLQDETSPNFVYDVINIYFDESEKLLRNLRL 65

Query:    60 ELQKTEVN-YVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKV 118
              L   E + Y ++  +   L GSS+SIGA +VRN     R     +N       LE ++ 
Sbjct:    66 LLMDREFSDYKKIGLHLNQLVGSSSSIGARRVRNVCVAFRSASELSNRPGCLRGLEVVEH 125

Query:   119 EHSTLKDKLTAYFELVAQ 136
             E+  LK+ +   F+L  Q
Sbjct:   126 EYHYLKNMMHELFQLEQQ 143

GO:0000160 "phosphorelay signal transduction system" evidence=IEA;IDA

GO:0004871 "signal transducer activity" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0016772 "transferase activity, transferring phosphorus-containing groups" evidence=ISS

GO:0009735 "response to cytokinin stimulus" evidence=IEP

GO:0009736 "cytokinin mediated signaling pathway" evidence=IMP

GO:0009927 "histidine phosphotransfer kinase activity" evidence=IDA

GO:0010089 "xylem development" evidence=IMP

TAIR|locus:2183184 AT5G19710 "AT5G19710" [Arabidopsis thaliana (taxid:3702)]

 Score = 104 (41.7 bits), Expect = 8.0e-11, Sum P(2) = 8.0e-11
 Identities = 25/57 (43%), Positives = 32/57 (56%)

Query:    85 IGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFELVAQLG-TD 140
             IGA KV  E+ K     +A N E  K +L  +K EHS L+ K   YF+L+ Q G TD
Sbjct:    52 IGAIKVVKELKKANTFLKAGNIEGVKGALPDIKKEHSELRAKFETYFQLMRQAGPTD 108

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

CGD|CAL0001843 YPD1 [Candida albicans (taxid:5476)]

 Score = 96 (38.9 bits), Expect = 0.00087, P = 0.00087
 Identities = 25/108 (23%), Positives = 53/108 (49%)

Query:    13 QSFFDEEILD-RYFIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVEL 71
             Q   D  ++D   F ++  + E+  GF + ++ V+      T   I+K L++  +  +  
Sbjct:     7 QKLQDSGLVDWAVFSEIVTMDEDEEGFSKSLVEVFVSQVEETFEEIDKYLKEKNLEKLSS 66

Query:    72 DRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVE 119
               +F  LKGS+A++G  K+ N+  + +      N++  +  LE +K +
Sbjct:    67 SGHF--LKGSAAALGLTKISNQCERIQNYGHKINFDNFQ--LEDIKTK 110

GO:0007234 "osmosensory signaling via phosphorelay pathway" evidence=IGI

GO:0016772 "transferase activity, transferring phosphorus-containing groups" evidence=IGI

GO:0005829 "cytosol" evidence=ISS

GO:0005634 "nucleus" evidence=IEA

GO:0043424 "protein histidine kinase binding" evidence=IEA

UNIPROTKB|Q59WC6 YPD1 "Putative uncharacterized protein YPD1" [Candida albicans SC5314 (taxid:237561)]

 Score = 96 (38.9 bits), Expect = 0.00087, P = 0.00087
 Identities = 25/108 (23%), Positives = 53/108 (49%)

Query:    13 QSFFDEEILD-RYFIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVEL 71
             Q   D  ++D   F ++  + E+  GF + ++ V+      T   I+K L++  +  +  
Sbjct:     7 QKLQDSGLVDWAVFSEIVTMDEDEEGFSKSLVEVFVSQVEETFEEIDKYLKEKNLEKLSS 66

Query:    72 DRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVE 119
               +F  LKGS+A++G  K+ N+  + +      N++  +  LE +K +
Sbjct:    67 SGHF--LKGSAAALGLTKISNQCERIQNYGHKINFDNFQ--LEDIKTK 110


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        0.315   0.131   0.355    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      142       142   0.00091  102 3  11 23  0.47    31
                                                     30  0.47    33


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:  8
  No. of states in DFA:  571 (61 KB)
  Total size of DFA:  127 KB (2081 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:  17.61u 0.13s 17.74t   Elapsed:  00:00:00
  Total cpu time:  17.62u 0.13s 17.75t   Elapsed:  00:00:00
  Start:  Thu May  9 13:47:11 2013   End:  Thu May  9 13:47:11 2013

GO:0005829 "cytosol" evidence=ISS

GO:0007234 "osmosensory signaling via phosphorelay pathway" evidence=IGI

GO:0016772 "transferase activity, transferring phosphorus-containing groups" evidence=IGI

---

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

Your Input: HP2 SubName- Full=Chromosome chr9 scaffold_7, whole genome shotgun sequence; (206 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	142
pfam01627	87	pfam01627, Hpt, Hpt domain	4e-04

>gnl|CDD|216615 pfam01627, Hpt, Hpt domain

 Score = 36.6 bits (85), Expect = 4e-04
 Identities = 22/87 (25%), Positives = 43/87 (49%), Gaps = 2/87 (2%)

Query: 41  DVLTVYFRDSTRTLANIEKELQKTEV-NYVELDRYFYNLKGSSASIGANKVRNEVNKTRE 99
           ++L ++  ++   L  +E+ L   E  +   L R  + LKGS+ S+G   +    ++  +
Sbjct: 1   ELLELFLEEAPELLEQLEQALLALEAEDLEALFRAAHTLKGSAGSLGLPALAELAHELED 60

Query: 100 LCRAANWEEAKV-SLEQLKVEHSTLKD 125
           L RA    E  + +L++LK E   L+ 
Sbjct: 61  LLRAGRDGELLLQALDELKDELEALRA 87

The histidine-containing phosphotransfer (HPt) domain is a novel protein module with an active histidine residue that mediates phosphotransfer reactions in the two-component signaling systems. A multistep phosphorelay involving the HPt domain has been suggested for these signaling pathways. The crystal structure of the HPt domain of the anaerobic sensor kinase ArcB has been determined. The domain consists of six alpha helices containing a four-helix bundle-folding. The pattern of sequence similarity of the HPt domains of ArcB and components in other signaling systems can be interpreted in light of the three-dimensional structure and supports the conclusion that the HPt domains have a common structural motif both in prokaryotes and eukaryotes. In S. cerevisiae ypd1p this domain has been shown to contain a binding surface for Ssk1p (response regulator receiver domain containing protein pfam00072). Length = 87

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	142
KOG4747	150	consensus Two-component phosphorelay intermediate	99.92
COG2198	122	ArcB FOG: HPt domain [Signal transduction mechanis	99.73
PF01627	90	Hpt: Hpt domain; InterPro: IPR008207 Two-component	99.7
smart00073	87	HPT Histidine Phosphotransfer domain. Contains an	99.56
cd00088	94	HPT Histidine Phosphotransfer domain, involved in	99.47
TIGR02956	968	TMAO_torS TMAO reductase sytem sensor TorS. This p	99.38
PRK10618	894	phosphotransfer intermediate protein in two-compon	99.15
PRK11091	779	aerobic respiration control sensor protein ArcB; P	99.12
PRK11107	919	hybrid sensory histidine kinase BarA; Provisional	98.72
PRK11466	914	hybrid sensory histidine kinase TorS; Provisional	98.7
COG0643	716	CheA Chemotaxis protein histidine kinase and relat	98.22
PRK10547	670	chemotaxis protein CheA; Provisional	98.1
PRK09959	1197	hybrid sensory histidine kinase in two-component r	97.81
PRK15347	921	two component system sensor kinase SsrA; Provision	97.07
TIGR03042	142	PS_II_psbQ_bact photosystem II protein PsbQ. This	88.7
PF13779	820	DUF4175: Domain of unknown function (DUF4175)	82.49
cd08323	86	CARD_APAF1 Caspase activation and recruitment doma	82.04
PF07743	78	HSCB_C: HSCB C-terminal oligomerisation domain; In	81.83
TIGR02302	851	aProt_lowcomp conserved hypothetical protein TIGR0	81.72
TIGR03042	142	PS_II_psbQ_bact photosystem II protein PsbQ. This	80.62

>KOG4747 consensus Two-component phosphorelay intermediate involved in MAP kinase cascade regulation [Signal transduction mechanisms]

Probab=99.92  E-value=2.1e-24  Score=154.07  Aligned_cols=139  Identities=36%  Similarity=0.575  Sum_probs=132.8

Q ss_pred             hHHHHHHHHHHHhccCcchhhHHHHHHhhc-CCCChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhc
Q 042062            2 EALRQQIAEMRQSFFDEEILDRYFIQLEQL-GENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKG   80 (142)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~lD~~l~~L~~l-~~~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKG   80 (142)
                      ..+..+...+-+|++++|++|.+|.+|++| ++.+|+|+.+++..|++++.+.+..++.|+..+ .|+..+..+.|.+||
T Consensus         6 ~~~q~~~~d~~~sl~~qgild~qF~qlq~lqD~~~p~fv~ev~~~fF~~s~~~i~~~r~ald~~-~d~k~~~~~~hqlkg   84 (150)
T KOG4747|consen    6 ISMQRDVSDYTKSLFDQGILDSQFLQLQELQDDSSPDFVEEVVGLFFEDSERLINNLRLALDCE-RDFKKLGSHVHQLKG   84 (150)
T ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhcccCccHHHHHHHHHHHHHHHHHHHHHHHHhhH-hHHHHHHHHHHHccC
Confidence            467889999999999999999889999999 999999999999999999999999999999974 499999999999999


Q ss_pred             cccccChHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hcccC
Q 042062           81 SSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFELVAQ-LGTDS  141 (142)
Q Consensus        81 ss~~lGA~~L~~~c~~LE~~~~~~~~~~~~~~~~~l~~~~~~~~~~L~~~l~~~~~-~~~~~  141 (142)
                      ||++|||.++...|..+...|+.++.+++...+++++.+|..++..|+++.+++|| |.++|
T Consensus        85 ssssIGa~kvk~~c~~~~~~~~~~n~egcvr~l~~v~ie~~~lkkkL~~~f~L~rq~i~~~~  146 (150)
T KOG4747|consen   85 SSSSIGALKVKKVCVGFNEFCEAGNIEGCVRCLQQVKIEYSLLKKKLETLFQLERQEILAAG  146 (150)
T ss_pred             chhhhhHHHHHHHHHHHHHHHhhccchhHhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999999999 66654

>COG2198 ArcB FOG: HPt domain [Signal transduction mechanisms]

Probab=99.73  E-value=9.5e-17  Score=112.47  Aligned_cols=109  Identities=25%  Similarity=0.350  Sum_probs=94.8

Q ss_pred             hhhHH-HHHHhhcCCCChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHHHHHH
Q 042062           20 ILDRY-FIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTR   98 (142)
Q Consensus        20 ~lD~~-l~~L~~l~~~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE   98 (142)
                      .++.. +..+..+..++|+++++++..|+++.+..+..+..++..+  |+..+.+.||+|||+|+|+|+.+|+..|..+|
T Consensus         5 ~~~~~~~~~~~~~~g~~~~~~~~ll~~f~~~~~~~l~~l~~~l~~~--d~~~~~~~aH~lkg~a~~lg~~~L~~~~~~lE   82 (122)
T COG2198           5 PLSTSDIELLVRLIGGDPDLLRELLAMFLEEAPAQLEQLESALAAE--DNDGLARLAHRLKGSAASLGLPALAQLCQQLE   82 (122)
T ss_pred             ccccccHHHHHHHcCCChHHHHHHHHHHHHHhHHHHHHHHHHHhcC--CcHHHHHHHHHHHhHHHhccHHHHHHHHHHHH
Confidence            34444 6677777447899999999999999999999999999999  99999999999999999999999999999999


Q ss_pred             HHHHh-cCHHHHHHHHHHHHHH--HHHHHHHHHHH
Q 042062           99 ELCRA-ANWEEAKVSLEQLKVE--HSTLKDKLTAY  130 (142)
Q Consensus        99 ~~~~~-~~~~~~~~~~~~l~~~--~~~~~~~L~~~  130 (142)
                      ..++. ...+....++.+++.+  ...+...+.++
T Consensus        83 ~~~~~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~~  117 (122)
T COG2198          83 DALRSGASLEELEELIAELKDELQLDVLALELLTY  117 (122)
T ss_pred             HHHHcCCcHHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence            99999 6778899999999999  55555544444

>PF01627 Hpt: Hpt domain; InterPro: IPR008207 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []

Probab=99.70  E-value=2.2e-16  Score=103.45  Aligned_cols=82  Identities=21%  Similarity=0.434  Sum_probs=72.0

Q ss_pred             HHHHHHHHcHHHHHHHHHHHH---hcCccCHHHHHHHHhHhhccccccChHHHHHHHHHHHHHHHhcCHHH---HHHHHH
Q 042062           41 DVLTVYFRDSTRTLANIEKEL---QKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEE---AKVSLE  114 (142)
Q Consensus        41 eli~~F~~d~~~~l~~L~~al---~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~~~~~~~~~---~~~~~~  114 (142)
                      ++++.|+++.++.+..|..++   ..+  |++.+.+.+|+|||+++++|+.++..+|..+|..++.++...   +...+.
T Consensus         1 ell~~f~~~~~~~~~~l~~~~~~~~~~--d~~~l~~~~H~lkG~a~~~g~~~l~~~~~~lE~~~~~~~~~~~~~~~~~~~   78 (90)
T PF01627_consen    1 ELLDIFLEEAPEDLEQLEQALQALEQE--DWEELRRLAHRLKGSAGNLGAPRLAELAEQLEQALKSGDKPEAEELEQLLD   78 (90)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCSSHHC--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTHHHHSHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHhHh--hHHHHHHHHHHHhhhHHhcCHHHHHHHHHHHHHHHHcCCccchhHHHHHHH
Confidence            579999999999999999999   888  999999999999999999999999999999999999998777   555555


Q ss_pred             HHHHHHHHHH
Q 042062          115 QLKVEHSTLK  124 (142)
Q Consensus       115 ~l~~~~~~~~  124 (142)
                      .+...+.++.
T Consensus        79 ~l~~~l~~l~   88 (90)
T PF01627_consen   79 ELEAMLEQLR   88 (90)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            5555555444

Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents a domain present at the N terminus in proteins which undergo autophosphorylation. The group includes, the gliding motility regulatory protein from Myxococcus xanthus and a number of bacterial chemotaxis proteins.; GO: 0004871 signal transducer activity, 0000160 two-component signal transduction system (phosphorelay); PDB: 3KYJ_A 3KYI_A 3IQT_A 1Y6D_A 2LD6_A 1TQG_A 2R25_A 1OXB_A 1QSP_B 1C03_B ....

>smart00073 HPT Histidine Phosphotransfer domain

Probab=99.56  E-value=5.3e-15  Score=97.09  Aligned_cols=84  Identities=24%  Similarity=0.241  Sum_probs=71.9

Q ss_pred             HHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH
Q 042062           41 DVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEH  120 (142)
Q Consensus        41 eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~~~~~~~~~~~~~~~~l~~~~  120 (142)
                      +++..|+++.++.+..|..++..+  |+..+.+.+|+|||+|+++|+..|..+|..+|..++... .+...+...+...|
T Consensus         2 e~~~~f~~~~~~~l~~l~~~~~~~--~~~~l~~~~H~LKG~a~~~g~~~l~~~~~~lE~~~~~~~-~~~~~~~~~l~~~~   78 (87)
T smart00073        2 EELAEFLQSLEEGLLELEKALDAQ--DVNEIFRAAHTLKGSAGSLGLQQLAQLCHQLENLLDAAR-SGEVELTPDLLDLL   78 (87)
T ss_pred             hHHHHHHHHHHHHHHHHHhCcCHh--HHHHHHHHHHhhhhhHHhcCHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHH
Confidence            678999999999999999999888  999999999999999999999999999999999988644 22335666777777


Q ss_pred             HHHHHHH
Q 042062          121 STLKDKL  127 (142)
Q Consensus       121 ~~~~~~L  127 (142)
                      ..+...|
T Consensus        79 ~~~~~~l   85 (87)
T smart00073       79 LELVDVL   85 (87)
T ss_pred             HHHHHHH
Confidence            6666654

Contains an active histidine residue that mediates phosphotransfer reactions. Domain detected only in eubacteria. This alignment is an extension to that shown in the Cell structure paper.

>cd00088 HPT Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is modulated by phosphorylation and dephosphorylation of a conserved aspartic acid residue; two-component proteins are abundant in most eubacteria; In E

Probab=99.47  E-value=3.5e-13  Score=89.91  Aligned_cols=64  Identities=25%  Similarity=0.423  Sum_probs=60.6

Q ss_pred             HHHHHHHHHcHHHHHHHHHHHHh----cCccCHHHHHHHHhHhhccccccChHHHHHHHHHHHHHHHhcC
Q 042062           40 EDVLTVYFRDSTRTLANIEKELQ----KTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAAN  105 (142)
Q Consensus        40 ~eli~~F~~d~~~~l~~L~~al~----~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~~~~~~  105 (142)
                      .+++..|+++.++.+..|..++.    .+  |+..+.+.+|+|||+++++|+..|..+|..+|..++.+.
T Consensus         2 ~~l~~~f~~~~~~~l~~l~~~~~~~~~~~--d~~~l~~~~H~LkGsa~~~G~~~l~~~~~~lE~~~~~~~   69 (94)
T cd00088           2 EELLELFLEEAEELLEELERALLELEDAE--DLNEIFRAAHTLKGSAASLGLQRLAQLAHQLEDLLDALR   69 (94)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHcCCHH--HHHHHHHHHHhhhhHHhcCChHHHHHHHHHHHHHHHHHH
Confidence            47899999999999999999999    77  999999999999999999999999999999999999854

coli there are 62 two-component proteins involved in a variety of processes such as chemotaxis, osmoregulation, metabolism and transport 1; also present in both Gram positive and Gram negative pathogenic bacteria where they regulate basic housekeeping functions and control expression of toxins and other proteins important for pathogenesis; in archaea and eukaryotes, two-component pathways constitute a very small number of all signaling systems; in fungi they mediate environmental stress responses and, in pathogenic yeast, hyphal development. In Dictyostelium and in plants, they are i

>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS

Probab=99.38  E-value=2.9e-12  Score=114.66  Aligned_cols=105  Identities=14%  Similarity=0.231  Sum_probs=92.6

Q ss_pred             hhhHH-HHHHhhcCCCChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHHHHHH
Q 042062           20 ILDRY-FIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTR   98 (142)
Q Consensus        20 ~lD~~-l~~L~~l~~~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE   98 (142)
                      ++|.. +......  .+++.+.+++..|+++.+..+..|..++..+  |+..+++.+|+|||+++++|+..|..+|+.||
T Consensus       863 ll~~~~~~~~~~~--~~~~~~~~~~~~f~~~~~~~~~~l~~~~~~~--d~~~~~~~~H~lkg~~~~~g~~~l~~~~~~le  938 (968)
T TIGR02956       863 LLDEEQLQQDIEV--LGVEKVRQLVALFKTSSAEQLEELSAARAVD--DDAQIKKLAHKLKGSAGSLGLTQLTQLCQQLE  938 (968)
T ss_pred             hcCHHHHHHHHHh--cCcHHHHHHHHHHHHhhHHHHHHHHHHHhCC--CHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHH
Confidence            66666 5544333  4558899999999999999999999999999  99999999999999999999999999999999


Q ss_pred             HHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042062           99 ELCRAANWEEAKVSLEQLKVEHSTLKDKLTAY  130 (142)
Q Consensus        99 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~L~~~  130 (142)
                      ..++.|+.  ....+..++..|..+..+|+.|
T Consensus       939 ~~~~~~~~--~~~~~~~l~~~~~~~~~~l~~~  968 (968)
T TIGR02956       939 KQGKTGAL--ELSDIDEIKQAWQASKTALDQW  968 (968)
T ss_pred             HhcccCCc--chhHHHHHHHHHHHHHHHHHhC
Confidence            99999987  4577899999999999988764

This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (pfam02518), HAMP (pfam00672), phosphoacceptor (pfam00512), and phosphotransfer (pfam01627) domains and a response regulator receiver domain (pfam00072).

>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional

Probab=99.15  E-value=2.4e-10  Score=102.99  Aligned_cols=83  Identities=12%  Similarity=0.139  Sum_probs=77.1

Q ss_pred             HHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Q 042062           40 EDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVE  119 (142)
Q Consensus        40 ~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~~~~~~~~~~~~~~~~l~~~  119 (142)
                      ..++..|++.+|..+..|..++.++  |+..+...||+|||+++++|+..+..+|..||+.++.++..++...+.+|...
T Consensus       810 s~~~~lF~~t~~~di~~L~~~~~~~--D~~~l~~~aHrLKG~~aml~l~~l~~~~~~LE~~i~~~~~~~i~~~i~~id~~  887 (894)
T PRK10618        810 SDYYALFVDTVPDDVKRLYTEAATS--DFASLAQTAHRLKGVFAMLNLVPGKQLCETLEHLIREKDEPGIENYISDIDSF  887 (894)
T ss_pred             hhHHHHHHHhhHHHHHHHHHHHhcc--CHHHHHHHHHHHHHHHHHcChHHHHHHHHHHHHHHhhCChHHHHHHHHHHHHH
Confidence            4456899999999999999999999  99999999999999999999999999999999999999999999999988887


Q ss_pred             HHHHH
Q 042062          120 HSTLK  124 (142)
Q Consensus       120 ~~~~~  124 (142)
                      +.++.
T Consensus       888 v~~ll  892 (894)
T PRK10618        888 VKSLL  892 (894)
T ss_pred             HHHHh
Confidence            76654

>PRK11091 aerobic respiration control sensor protein ArcB; Provisional

Probab=99.12  E-value=7.6e-10  Score=97.62  Aligned_cols=112  Identities=20%  Similarity=0.274  Sum_probs=98.9

Q ss_pred             hhhHH-HHHHhhcCCCChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHHHHHH
Q 042062           20 ILDRY-FIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTR   98 (142)
Q Consensus        20 ~lD~~-l~~L~~l~~~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE   98 (142)
                      .+|.. +..+.+.  .++..+.+.+..|.+..+..+..+..++..+  |+..+...||+|||+++++|+..++.+|+.+|
T Consensus       665 ~l~~~~l~~~~~~--~g~~~~~~~l~~~~~~~~~~~~~l~~~l~~~--d~~~~~~~ah~l~g~~~~~g~~~l~~~~~~le  740 (779)
T PRK11091        665 LLDIPMLEQYVEL--VGPKLITDSLAVFEKMMPGYLSVLDSNLTAR--DQKGIVEEAHKIKGAAGSVGLRHLQQLAQQIQ  740 (779)
T ss_pred             ccCHHHHHHHHHh--cCHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHh
Confidence            45555 5555444  3346778899999999999999999999999  99999999999999999999999999999999


Q ss_pred             HHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042062           99 ELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFELVA  135 (142)
Q Consensus        99 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~L~~~l~~~~  135 (142)
                      .....+.++....++.++..+|......|+.|+...+
T Consensus       741 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  777 (779)
T PRK11091        741 SPDLPAWWDNVQDWVEELKNEWRHDVEVLKAWLAQAE  777 (779)
T ss_pred             CcCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            9999989999999999999999999999999987643

>PRK11107 hybrid sensory histidine kinase BarA; Provisional

Probab=98.72  E-value=2e-07  Score=83.14  Aligned_cols=97  Identities=15%  Similarity=0.197  Sum_probs=84.8

Q ss_pred             CChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHHHHHHHHHHhc-CHHHHHHH
Q 042062           34 NNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAA-NWEEAKVS  112 (142)
Q Consensus        34 ~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~~~~~-~~~~~~~~  112 (142)
                      +.+....+++..|.+..+.....+..++...  |+..+...+|++||+++++|+..+..+|..+|..++.+ ..+.+...
T Consensus       821 ~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~h~l~g~~~~~g~~~l~~~~~~le~~~~~~~~~~~~~~~  898 (919)
T PRK11107        821 GKPDLARDMLQMLLDFLPEVRNKVEEALAGE--DPEGLLDLIHKLHGSCSYSGVPRLKKLCQLIEQQLRSGTSVEDLEPE  898 (919)
T ss_pred             CCHHHHHHHHHHHHHhHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHcCCChhhHHHH
Confidence            4567888999999999999999999999999  99999999999999999999999999999999999976 45667777


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 042062          113 LEQLKVEHSTLKDKLTAYFE  132 (142)
Q Consensus       113 ~~~l~~~~~~~~~~L~~~l~  132 (142)
                      +..+..++.++...+..+++
T Consensus       899 ~~~~~~~~~~~~~~~~~~~~  918 (919)
T PRK11107        899 LLELLDEMENVARAAKKVLS  918 (919)
T ss_pred             HHHHHHHHHHHHHHHHHHhh
Confidence            77777777777777776653

>PRK11466 hybrid sensory histidine kinase TorS; Provisional

Probab=98.70  E-value=2.1e-07  Score=83.33  Aligned_cols=66  Identities=14%  Similarity=0.182  Sum_probs=61.5

Q ss_pred             ChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHHHHHHHHHH
Q 042062           35 NPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCR  102 (142)
Q Consensus        35 ~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~~~  102 (142)
                      +++.+.+++..|.++.+..+..+..+...+  |+..+++.||+|||+++++|+..+...|..+|..+.
T Consensus       821 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~ah~lkg~~~~lg~~~l~~~~~~le~~~~  886 (914)
T PRK11466        821 GTEKIHEWLALFKQHALPLLDEIDIARASQ--DSEKIKRAAHQLKSSCSSLGMRQASQACAQLEQQPL  886 (914)
T ss_pred             CHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhCCCC
Confidence            446678899999999999999999999999  999999999999999999999999999999998764

>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]

Probab=98.22  E-value=8.6e-06  Score=72.21  Aligned_cols=89  Identities=17%  Similarity=0.238  Sum_probs=64.6

Q ss_pred             hhHHHHHHHHHHcHHHHHHHHHHHHhc---CccC---HHHHHHHHhHhhccccccChHHHHHHHHHHHH---HHHhcCHH
Q 042062           37 GFVEDVLTVYFRDSTRTLANIEKELQK---TEVN---YVELDRYFYNLKGSSASIGANKVRNEVNKTRE---LCRAANWE  107 (142)
Q Consensus        37 ~~~~eli~~F~~d~~~~l~~L~~al~~---~~~D---~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~---~~~~~~~~  107 (142)
                      ....+++..|++++++.+..|...+-.   .+.|   ...+.+.||+|||+|+.+|...+..+|..+|.   ..++|...
T Consensus         4 ~~~~~~~~~F~~Ea~e~l~~l~~~Ll~LE~~~~d~~~ln~ifRaaHTlKG~a~~~g~~~l~~l~H~~E~~ld~~r~g~~~   83 (716)
T COG0643           4 MDMEEILEDFLEEAEELLQALEQALLALEPDPEDLDLLNAIFRAAHTLKGGAGTLGLTTLAELAHAMEDLLDALRNGELE   83 (716)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHhHhhccCCCCCHHHHHHHHHHHHhhhhhhhhcChhHHHHHHHHHHHHHHHHhcCCcc
Confidence            446688999999999999999985542   2223   45788999999999999999999999999997   45566543


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 042062          108 EAKVSLEQLKVEHSTLKD  125 (142)
Q Consensus       108 ~~~~~~~~l~~~~~~~~~  125 (142)
                      --..++..+-.+...+..
T Consensus        84 ~~~~l~d~~l~~~D~l~~  101 (716)
T COG0643          84 LTSELLDLLLEALDALEE  101 (716)
T ss_pred             CcHHHHHHHhhhhHHHHH
Confidence            323444444444333333

>PRK10547 chemotaxis protein CheA; Provisional

Probab=98.10  E-value=2.3e-05  Score=69.16  Aligned_cols=63  Identities=17%  Similarity=0.317  Sum_probs=52.8

Q ss_pred             HHHHHHHHHcHHHHHHHHHHHHh---cCccC---HHHHHHHHhHhhccccccChHHHHHHHHHHHHHHH
Q 042062           40 EDVLTVYFRDSTRTLANIEKELQ---KTEVN---YVELDRYFYNLKGSSASIGANKVRNEVNKTRELCR  102 (142)
Q Consensus        40 ~eli~~F~~d~~~~l~~L~~al~---~~~~D---~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~~~  102 (142)
                      .+++..|++++.+.++.|+..+-   ..+.|   ...+.+.+|+|||+|+.+|...+..+|..+|....
T Consensus         4 ~~~l~~F~~Ea~E~l~~le~~Ll~LE~~p~d~e~in~lFRa~HTiKG~a~~~g~~~i~~l~H~~E~lld   72 (670)
T PRK10547          4 SDFYQTFFDEADELLADMEQHLLVLDPEAPDAEQLNAIFRAAHSIKGGAGTFGFTVLQETTHLMENLLD   72 (670)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhhhhHHhhcCchHHHHHHHHHHHHHH
Confidence            47789999999999998888765   22224   45788999999999999999999999999996544

>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional

Probab=97.81  E-value=0.00073  Score=62.54  Aligned_cols=102  Identities=12%  Similarity=0.200  Sum_probs=79.4

Q ss_pred             HHhhcCCCChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHHHHHHHHHHhcC-
Q 042062           27 QLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAAN-  105 (142)
Q Consensus        27 ~L~~l~~~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~~~~~~-  105 (142)
                      .+......+...+++++..+...+...+..+..+...+  |...+..++|++||++..+|+..+...|..+|......+ 
T Consensus      1090 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~h~~~g~~~~l~~~~l~~~~~~~e~~~~~~~~ 1167 (1197)
T PRK09959       1090 ALKNNTANDLQLMQEILMTFQHETHKDLPAAFHALEAG--DNRTFHQCIHRIHGAANILNLQKLINISHQLEITPVSDDS 1167 (1197)
T ss_pred             HHHhHhCCCHHHHHHHHHHHHHhhHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHhhhcCCc
Confidence            33333334557788999999999999999999999999  999999999999999999999999999999998887654 


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 042062          106 WEEAKVSLEQLKVEHSTLKDKLTAY  130 (142)
Q Consensus       106 ~~~~~~~~~~l~~~~~~~~~~L~~~  130 (142)
                      .+.+...+..+..........+..+
T Consensus      1168 ~~~l~~~~~~~~~~~~~~~~~~~~~ 1192 (1197)
T PRK09959       1168 KPEILQLLNSVKEHIAELDQEIAVF 1192 (1197)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3455555666665555555444444

>PRK15347 two component system sensor kinase SsrA; Provisional

Probab=97.07  E-value=0.0022  Score=57.54  Aligned_cols=78  Identities=17%  Similarity=0.200  Sum_probs=58.7

Q ss_pred             HHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHH
Q 042062           42 VLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHS  121 (142)
Q Consensus        42 li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~~~~~~~~~~~~~~~~l~~~~~  121 (142)
                      +-..+.+.....+..+..+++.+  |  .+.+.+|.+||+++.+|+..+...|..+|..++.+.... ...+..++..+.
T Consensus       838 l~~~~~~~l~~~~~~~~~~~~~~--~--~l~~~~h~i~~~~~~~g~~~l~~~~~~~e~~~~~~~~~~-~~~~~~~~~~~~  912 (921)
T PRK15347        838 LNSKLYQSLLLLLAQIEQAVENQ--E--VLSQLLHTLKGCAGQAGLTELQCAVIDLENALETGEILS-LEELTDLRELIH  912 (921)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCH--H--HHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHH
Confidence            34455566677888889998887  5  899999999999999999999999999999998875432 222444444444


Q ss_pred             HHH
Q 042062          122 TLK  124 (142)
Q Consensus       122 ~~~  124 (142)
                      .+.
T Consensus       913 ~~~  915 (921)
T PRK15347        913 ALF  915 (921)
T ss_pred             HHh
Confidence            333

>TIGR03042 PS_II_psbQ_bact photosystem II protein PsbQ

Probab=88.70  E-value=5.1  Score=28.94  Aligned_cols=79  Identities=13%  Similarity=0.241  Sum_probs=49.9

Q ss_pred             HHHHHHc---HHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccCh---------------------HHHHHHHHHHH
Q 042062           43 LTVYFRD---STRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGA---------------------NKVRNEVNKTR   98 (142)
Q Consensus        43 i~~F~~d---~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA---------------------~~L~~~c~~LE   98 (142)
                      |..|.+.   +.+.+.+|+..++++  ||..++...|   |..+.++-                     ..|.+....|-
T Consensus        38 i~~~~~~i~~~~~r~~eLk~lI~kk--~W~~vrn~ir---gp~g~Lr~dl~~l~~sl~p~dqk~a~~L~~~Lf~~L~~LD  112 (142)
T TIGR03042        38 IQRQAEGIEAAKDRLPELASLVAKE--DWVFTRNLIH---GPMGEVRREMTYLNQSLLPKDQKEALALAKELKDDLEKLD  112 (142)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHhhc--chHHHHHHHh---ccHHHHHHHHHHHHHccCHHhHHHHHHHHHHHHHHHHHHH
Confidence            5555444   778899999999999  9999998866   45554442                     22333334444


Q ss_pred             HHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042062           99 ELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFEL  133 (142)
Q Consensus        99 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~L~~~l~~  133 (142)
                      .+++.+|...       ...+|..+...|+.|+++
T Consensus       113 ~AA~~kd~~~-------a~k~Y~~av~~~dafl~~  140 (142)
T TIGR03042       113 EAARLQDGPQ-------AQKAYQKAAADFDAYLDL  140 (142)
T ss_pred             HHHHhcCHHH-------HHHHHHHHHHHHHHHHhh
Confidence            5555555444       444566666666666654

This protein through the member sll1638 from Synechocystis sp. PCC 6803, was shown to be part of the cyanobacteria photosystem II. It is homologous to (but quite diverged from) the chloroplast PsbQ protein, called oxygen-evolving enhancer protein 3 (OEE3). We designate this cyanobacteria protein PsbQ by homology.

>PF13779 DUF4175: Domain of unknown function (DUF4175)

Probab=82.49  E-value=10  Score=34.88  Aligned_cols=85  Identities=14%  Similarity=0.198  Sum_probs=60.1

Q ss_pred             ChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHHHHHHHHHHhcCHHHHHHHHH
Q 042062           35 NPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLE  114 (142)
Q Consensus        35 ~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~~~~~~~~~~~~~~~  114 (142)
                      +++=+.+++..+.+-..+++.+|.+-..+.  .-..   .-+.--+.+.+++-..|..+...||+.+++|+.+.+..+++
T Consensus       490 s~eEI~rLm~eLR~A~~~ym~~LAeq~~~~--~~~~---~~p~~~~~~~~~~~~dL~~mmd~ie~la~~G~~~~A~q~L~  564 (820)
T PF13779_consen  490 SDEEIARLMQELREAMQDYMQALAEQAQRN--PQQQ---DQPPDQGNSQMMSQQDLQRMMDRIEELARSGRMDEARQLLE  564 (820)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHhHhC--cccc---cCcccchhhhccCHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            344556666666666666676666665543  1110   00111356778999999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 042062          115 QLKVEHSTLK  124 (142)
Q Consensus       115 ~l~~~~~~~~  124 (142)
                      ++.+-++.++
T Consensus       565 qlq~mmenmq  574 (820)
T PF13779_consen  565 QLQQMMENMQ  574 (820)
T ss_pred             HHHHHHHhcc
Confidence            9888776544

>cd08323 CARD_APAF1 Caspase activation and recruitment domain similar to that found in Apoptotic Protease-Activating Factor 1

Probab=82.04  E-value=8.6  Score=25.27  Aligned_cols=66  Identities=6%  Similarity=0.110  Sum_probs=51.7

Q ss_pred             HHHHHhccCcchhhHH-HHHHhhcCCCChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhH
Q 042062            9 AEMRQSFFDEEILDRY-FIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYN   77 (142)
Q Consensus         9 ~~~~~~~~~~~~lD~~-l~~L~~l~~~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~   77 (142)
                      ..++..+..+|+++.+ .+.++.-+ ...+-...+|+....-.+.-+.....++...  .|+.++.+.|.
T Consensus        17 ~~ild~L~~~gvlt~~~~e~I~~~~-t~~~qa~~Lld~L~trG~~Af~~F~~aL~~~--~~~~La~lL~~   83 (86)
T cd08323          17 SYIMDHMISDGVLTLDEEEKVKSKA-TQKEKAVMLINMILTKDNHAYVSFYNALLHE--GYKDLALLLHD   83 (86)
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHcCC-ChHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CChHHHHHHhc
Confidence            4467778889999999 88888872 2245667888988888999999999998876  68888777653

Caspase activation and recruitment domain (CARD) similar to that found in apoptotic protease-activating factor 1 (APAF-1), which is an activator of caspase-9. APAF-1 contains WD-40 repeats, a CARD, and an ATPase domain. Upon stimulation, APAF-1, together with caspase-9, forms the heptameric 'apoptosome', which leads to the processing and activation of caspase-9, starting a caspase cascade which leads to apoptosis. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and DED (Death Effect

>PF07743 HSCB_C: HSCB C-terminal oligomerisation domain; InterPro: IPR009073 This entry represents the C-terminal oligomerisation domain found in HscB (heat shock cognate protein B), which is also known as HSC20 (20K heat shock cognate protein)

Probab=81.83  E-value=10  Score=23.82  Aligned_cols=41  Identities=10%  Similarity=0.157  Sum_probs=24.8

Q ss_pred             hhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhh
Q 042062           37 GFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLK   79 (142)
Q Consensus        37 ~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LK   79 (142)
                      .-+..+....-......+..|..++..+  ||.......+.||
T Consensus        27 ~~L~~l~~~~~~~~~~~~~~l~~~f~~~--d~~~A~~~~~kLk   67 (78)
T PF07743_consen   27 AELEELKKEIEERIKELIKELAEAFDAK--DWEEAKEALRKLK   67 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTT---HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHccC--cHHHHHHHHHHHH
Confidence            4444555555555556666666666666  7777777666664

HscB acts as a co-chaperone to regulate the ATPase activity and peptide-binding specificity of the molecular chaperone HscA, also known as HSC66 (HSP70 class). HscB proteins contain two domains, an N-terminal J-domain, which is involved in interactions with HscA, connected by a short loop to the C-terminal oligomerisation domain; the two domains make contact through a hydrophobic interface. The core of the oligomerisation domain is thought to bind and target proteins to HscA and consists of an open, three-helical bundle []. HscB, along with HscA, has been shown to play a role in the biogenesis of iron-sulphur proteins.; GO: 0006457 protein folding; PDB: 1FPO_C 3BVO_B 3HHO_A 3UO2_B 3UO3_B.

>TIGR02302 aProt_lowcomp conserved hypothetical protein TIGR02302

Probab=81.72  E-value=13  Score=34.38  Aligned_cols=84  Identities=13%  Similarity=0.221  Sum_probs=60.7

Q ss_pred             ChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHHHHHHHHHHhcCHHHHHHHHH
Q 042062           35 NPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLE  114 (142)
Q Consensus        35 ~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~~~~~~~~~~~~~~~  114 (142)
                      +++=+.+|+..+.+-..+++.+|.+...+++ +-..     -..-+.+.+++-..|.++...||+++++|+.+++..+++
T Consensus       521 sdeEI~~Lm~eLR~Am~~ym~~LAeq~~~~~-~~~~-----~~~~~~~~~l~~~dLq~Mmd~ieela~~G~~~~A~qlL~  594 (851)
T TIGR02302       521 SDEEIKQLTDKLRAAMQTYMRQLAQQLRNNP-QQLA-----RPLDPNTKVLRQQDLQNMMDQIENLARSGDRDQAKQLLS  594 (851)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHhhhCc-cccc-----ccCCccccccCHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            3455667777777777777777766555430 1000     111234578999999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 042062          115 QLKVEHSTLK  124 (142)
Q Consensus       115 ~l~~~~~~~~  124 (142)
                      +|.+-++.++
T Consensus       595 qlq~mmenlq  604 (851)
T TIGR02302       595 QLQQMMNNLQ  604 (851)
T ss_pred             HHHHHHHHHh
Confidence            9988887766

Members of this family are long (~850 residue) bacterial proteins from the alpha Proteobacteria. Each has 2-3 predicted transmembrane helices near the N-terminus and a long C-terminal region that includes stretches of Gln/Gly-rich low complexity sequence, predicted by TMHMM to be outside the membrane. In Bradyrhizobium japonicum, two tandem reading frames are together homologous the single members found in other species; the cutoffs scores are set low enough that the longer scores above the trusted cutoff and the shorter above the noise cutoff for this model.

>TIGR03042 PS_II_psbQ_bact photosystem II protein PsbQ

Probab=80.62  E-value=19  Score=26.02  Aligned_cols=61  Identities=13%  Similarity=0.172  Sum_probs=43.0

Q ss_pred             HHHHhhc-CCCChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccCh
Q 042062           25 FIQLEQL-GENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGA   87 (142)
Q Consensus        25 l~~L~~l-~~~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA   87 (142)
                      +.+|+.+ +..+=.+++..|..=+.+....+..|.+.+-..  |-+.+++++-.|++.-.+++.
T Consensus        52 ~~eLk~lI~kk~W~~vrn~irgp~g~Lr~dl~~l~~sl~p~--dqk~a~~L~~~Lf~~L~~LD~  113 (142)
T TIGR03042        52 LPELASLVAKEDWVFTRNLIHGPMGEVRREMTYLNQSLLPK--DQKEALALAKELKDDLEKLDE  113 (142)
T ss_pred             hHHHHHHHhhcchHHHHHHHhccHHHHHHHHHHHHHccCHH--hHHHHHHHHHHHHHHHHHHHH
Confidence            6666666 555555566666666666777777777776666  888888888888887776664

This protein through the member sll1638 from Synechocystis sp. PCC 6803, was shown to be part of the cyanobacteria photosystem II. It is homologous to (but quite diverged from) the chloroplast PsbQ protein, called oxygen-evolving enhancer protein 3 (OEE3). We designate this cyanobacteria protein PsbQ by homology.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	142
1wn0_A	145	Crystal Structure Of Histidine-containing Phosphotr		3e-16
1yvi_A	149	X-Ray Structure Of Putative Histidine-Containing Ph		6e-16
4euk_B	159	Crystal Structure Length = 159		6e-16
3us6_A	153	Crystal Structure Of Histidine-Containing Phosphotr		1e-14

>pdb|1WN0|A Chain A, Crystal Structure Of Histidine-containing Phosphotransfer Protein, Zmhp2, From Maize Length = 145

Iteration: 1
 Score = 80.1 bits (196), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 43/127 (33%), Positives = 76/127 (59%), Gaps = 2/127 (1%)
Query: 3   ALRQQIAEMRQSFFDEEILDRYFIQLEQLGENN--PGFVEDVLTVYFRDSTRTLANIEKE 60
           ALR+Q+  +  S F   ++D  F QL+ L E+   PGFV +V+T++  D+ R ++ +   
Sbjct: 5   ALREQLNALLSSMFASGLVDEQFQQLQMLQEDGGTPGFVAEVVTLFCDDADRIISELAAL 64
Query: 61  LQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEH 120
           L +  V++ ++D Y + LKGSSAS+GA KV+    + R+LC+  N +   ++L  ++ E 
Sbjct: 65  LDQPIVDFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQLCQDKNRDGCIMALAVVRNEF 124
Query: 121 STLKDKL 127
             L++K 
Sbjct: 125 YDLRNKF 131

>pdb|1YVI|A Chain A, X-Ray Structure Of Putative Histidine-Containing Phosphotransfer Protein From Rice, Ak104879 Length = 149

Iteration: 1
 Score = 79.7 bits (195), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 43/137 (31%), Positives = 78/137 (56%), Gaps = 2/137 (1%)
Query: 3   ALRQQIAEMRQSFFDEEILDRYFIQLEQLGE--NNPGFVEDVLTVYFRDSTRTLANIEKE 60
           ALR Q+  +  S F + ++D  F QL+ L +    PGFV +V+T++  D+ R +  I   
Sbjct: 5   ALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEIATL 64
Query: 61  LQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEH 120
           L++  VN+ ++D Y + LKGSSAS+GA KV+    + R+ C+  + +   ++L  ++ + 
Sbjct: 65  LEQPVVNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQDKSRDGCLMALAVVRNDF 124
Query: 121 STLKDKLTAYFELVAQL 137
             L++K     +L  Q+
Sbjct: 125 YDLRNKFQTMLQLEQQI 141

>pdb|4EUK|B Chain B, Crystal Structure Length = 159

Iteration: 1
 Score = 79.3 bits (194), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 50/126 (39%), Positives = 78/126 (61%), Gaps = 1/126 (0%)
Query: 13  QSFFDEEILDRYFIQLEQL-GENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVEL 71
           +S F E ILD  F+QL+QL  E+NP FV  V+T++F+DS R L ++   L +  V++ ++
Sbjct: 20  KSLFLEGILDSQFLQLQQLQDESNPDFVSQVVTLFFQDSDRILNDLSLSLDQQVVDFKKV 79
Query: 72  DRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYF 131
           D + + LKGSS+SIGA +V+N     R  C   N E     L+Q+K E+  +K++L   F
Sbjct: 80  DPHVHQLKGSSSSIGAQRVKNACVVFRSFCEQQNVEACHRCLQQVKQEYYLVKNRLETLF 139
Query: 132 ELVAQL 137
           +L  Q+
Sbjct: 140 KLEQQI 145

>pdb|3US6|A Chain A, Crystal Structure Of Histidine-Containing Phosphotransfer Protein Mthpt1 From Medicago Truncatula Length = 153

Iteration: 1
 Score = 75.1 bits (183), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 43/135 (31%), Positives = 76/135 (56%), Gaps = 1/135 (0%)
Query: 4   LRQQIAEMRQSFFDEEILD-RYFIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQ 62
           +R+Q  +  +S F E  LD ++    +   ENNP FV +V++++F DS R L ++   + 
Sbjct: 6   MRRQWVDYIKSMFMEGFLDGQFLQLQQLQDENNPEFVFEVVSLFFDDSERILKDLSFAVD 65
Query: 63  KTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHST 122
           +  +++ ++D + +  KGSSASIGA +V+N     R  C   N +  +  L+Q+K E+  
Sbjct: 66  QQSIDFKKVDAHVHQFKGSSASIGAQRVKNSCVAFRNFCEEQNIDACRRCLQQVKQEYLL 125
Query: 123 LKDKLTAYFELVAQL 137
           +K+KL     L  Q+
Sbjct: 126 VKNKLETLLRLEQQI 140

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	142
1yvi_A	149	Histidine-containing phosphotransfer protein; stru	1e-33
3us6_A	153	Histidine-containing phosphotransfer protein type	2e-32
2r25_A	167	Phosphorelay intermediate protein YPD1; alpha5-BET	3e-15
1y6d_A	120	Phosphorelay protein LUXU; phosphotransferase, fou	3e-07
2a0b_A	125	HPT domain; sensory transduction, histidine kinase	1e-05
2ooc_A	113	Histidine phosphotransferase; NP_419930.1, hypothe	4e-04

>1yvi_A Histidine-containing phosphotransfer protein; structural genomics, protein structure initiative, PSI, CESG, AK104879, phosphorelay mediator, HP1; 2.00A {Oryza sativa} SCOP: a.24.10.2 PDB: 2q4f_A 1wn0_A Length = 149

 Score =  114 bits (286), Expect = 1e-33
 Identities = 43/140 (30%), Positives = 77/140 (55%), Gaps = 2/140 (1%)

Query: 2   EALRQQIAEMRQSFFDEEILDRYFIQLEQLG--ENNPGFVEDVLTVYFRDSTRTLANIEK 59
            ALR Q+  +  S F + ++D  F QL+ L      PGFV +V+T++  D+ R +  I  
Sbjct: 4   AALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEIAT 63

Query: 60  ELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVE 119
            L++  VN+ ++D Y + LKGSSAS+GA KV+    + R+ C+  + +   ++L  ++ +
Sbjct: 64  LLEQPVVNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQDKSRDGCLMALAVVRND 123

Query: 120 HSTLKDKLTAYFELVAQLGT 139
              L++K     +L  Q+  
Sbjct: 124 FYDLRNKFQTMLQLEQQIQA 143

>3us6_A Histidine-containing phosphotransfer protein type MTHPT1; helix bundle, plant hormone signal transduction, cytokinin S transduction; 1.45A {Medicago truncatula} Length = 153

 Score =  111 bits (279), Expect = 2e-32
 Identities = 48/139 (34%), Positives = 81/139 (58%), Gaps = 1/139 (0%)

Query: 1   MEALRQQIAEMRQSFFDEEILDRYFIQLEQL-GENNPGFVEDVLTVYFRDSTRTLANIEK 59
           +  +R+Q  +  +S F E  LD  F+QL+QL  ENNP FV +V++++F DS R L ++  
Sbjct: 3   VGQMRRQWVDYIKSMFMEGFLDGQFLQLQQLQDENNPEFVFEVVSLFFDDSERILKDLSF 62

Query: 60  ELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVE 119
            + +  +++ ++D + +  KGSSASIGA +V+N     R  C   N +  +  L+Q+K E
Sbjct: 63  AVDQQSIDFKKVDAHVHQFKGSSASIGAQRVKNSCVAFRNFCEEQNIDACRRCLQQVKQE 122

Query: 120 HSTLKDKLTAYFELVAQLG 138
           +  +K+KL     L  Q+ 
Sbjct: 123 YLLVKNKLETLLRLEQQIV 141

>2r25_A Phosphorelay intermediate protein YPD1; alpha5-BETA5, response regulator, four helix bundle, histidine phosphotransfer (HPT) protein; 1.70A {Saccharomyces cerevisiae} SCOP: a.24.10.2 PDB: 1c03_A 1oxk_A 1oxb_A 1c02_A 1qsp_A Length = 167

 Score = 67.5 bits (164), Expect = 3e-15
 Identities = 20/115 (17%), Positives = 49/115 (42%), Gaps = 1/115 (0%)

Query: 13  QSFFDEEILDRYFIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELD 72
            +   E I      ++  + +++  F + ++  +   +  T A ++++L   E N  ELD
Sbjct: 2   STIPSEIINWTILNEIISMDDDDSDFSKGLIIQFIDQAQTTFAQMQRQLD-GEKNLTELD 60

Query: 73  RYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKL 127
              + LKGSSA++G  ++     + + L R         +     +   ++ + +
Sbjct: 61  NLGHFLKGSSAALGLQRIAWVCERIQNLGRKMEHFFPNKTELVNTLSDKSIINGI 115

>1y6d_A Phosphorelay protein LUXU; phosphotransferase, four-helix bundle, quorum sensing; NMR {Vibrio harveyi} SCOP: a.24.10.5 Length = 120

 Score = 45.2 bits (107), Expect = 3e-07
 Identities = 17/121 (14%), Positives = 48/121 (39%), Gaps = 5/121 (4%)

Query: 12  RQSFFDEEILDRYFIQLEQL-GENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVE 70
                + ++L++   ++E+L  E     V  +L ++  +    +  + +     ++    
Sbjct: 3   HHHHMNTDVLNQ--QKIEELSAEIGSDNVPVLLDIFLGEMDSYIGTLTELQGSEQLL--Y 58

Query: 71  LDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAY 130
           L    + LK S+AS GA+++        +  +A   +E  +   ++       +D   ++
Sbjct: 59  LKEISHALKSSAASFGADRLCERAIAIDKKAKANQLQEQGMETSEMLALLHITRDAYRSW 118

Query: 131 F 131
            
Sbjct: 119 T 119

>2a0b_A HPT domain; sensory transduction, histidine kinase, phosphotransfer, two-component system, four-helix bundle; 1.57A {Escherichia coli} SCOP: a.24.10.1 PDB: 1bdj_B 1fr0_A 1a0b_A Length = 125

 Score = 41.2 bits (96), Expect = 1e-05
 Identities = 22/124 (17%), Positives = 51/124 (41%), Gaps = 8/124 (6%)

Query: 9   AEMRQSFFDEEILDRYFIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNY 68
               ++  D  +L++Y   LE +G   P  + D L V+ +     ++ +E  L     + 
Sbjct: 5   NSKSEALLDIPMLEQY---LELVG---PKLITDGLAVFEKMMPGYVSVLESNLTAQ--DK 56

Query: 69  VELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLT 128
             +    + +KG++ S+G   ++    + +     A  +     +E++K E     + L 
Sbjct: 57  KGIVEEGHKIKGAAGSVGLRHLQQLGQQIQSPDLPAWEDNVGEWIEEMKEEWRHDVEVLK 116

Query: 129 AYFE 132
           A+  
Sbjct: 117 AWVA 120

>2ooc_A Histidine phosphotransferase; NP_419930.1, hypothetical protein, structural genomics, JOIN for structural genomics, JCSG; HET: MSE PG4; 1.52A {Caulobacter crescentus} SCOP: a.24.10.6 Length = 113

 Score = 36.9 bits (85), Expect = 4e-04
 Identities = 19/112 (16%), Positives = 39/112 (34%), Gaps = 16/112 (14%)

Query: 25  FIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSAS 84
           F  LE     +   V++VL ++   +      ++         +       + +KG++  
Sbjct: 13  FAYLEGFAAGDFAVVDEVLALFREQAALWAPMLDP-------THPGWKDAVHTVKGAARG 65

Query: 85  IGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFELVAQ 136
           +GA  +        E+C     E  + SLE ++         + AY    A 
Sbjct: 66  VGAFNL-------GEVCERC--EAGQESLEGVRTALDAALLDIAAYAHEQAL 108

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	142
3us6_A	153	Histidine-containing phosphotransfer protein type	100.0
1yvi_A	149	Histidine-containing phosphotransfer protein; stru	100.0
2r25_A	167	Phosphorelay intermediate protein YPD1; alpha5-BET	99.95
2a0b_A	125	HPT domain; sensory transduction, histidine kinase	99.89
3myf_A	119	Sensor protein; HPT, histidine kinase, PSI, MCSG,	99.85
3iqt_A	123	Signal transduction histidine-protein kinase BARA;	99.81
1y6d_A	120	Phosphorelay protein LUXU; phosphotransferase, fou	99.76
2ooc_A	113	Histidine phosphotransferase; NP_419930.1, hypothe	99.76
1sr2_A	116	Putative sensor-like histidine kinase YOJN; four-h	99.72
1tqg_A	105	Chemotaxis protein CHEA; histidine kinase, phospho	99.61
2ld6_A	139	Chemotaxis protein CHEA; TMP1, transferase; NMR {T	99.48
1i5n_A	146	Chemotaxis protein CHEA; four-helix bundle, transf	99.44
2lch_A	113	Protein OR38; structural genomics, northeast struc	99.42
3kyj_A	144	CHEA3, putative histidine protein kinase; protein-	99.16
2lp4_A	225	Chemotaxis protein CHEA; two component signaling s	98.81
3ls0_A	133	SLL1638 protein, PSBQ; photosynthesis, four helix	91.69
3zsu_A	130	TLL2057 protein, cyanoq; photosystem II assembly,	89.85
1vyk_A	149	Oxygen-evolving enhancer protein 3; photosystem II	87.04

>3us6_A Histidine-containing phosphotransfer protein type MTHPT1; helix bundle, plant hormone signal transduction, cytokinin S transduction; 1.45A {Medicago truncatula}

Probab=100.00  E-value=4.2e-37  Score=223.41  Aligned_cols=140  Identities=34%  Similarity=0.557  Sum_probs=136.0

Q ss_pred             hHHHHHHHHHHHhccCcchhhHHHHHHhhc-CCCChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhc
Q 042062            2 EALRQQIAEMRQSFFDEEILDRYFIQLEQL-GENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKG   80 (142)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~lD~~l~~L~~l-~~~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKG   80 (142)
                      .+|++|+.+++++++++|+||.+|++|++| ++++|+|+.++|..|++++++.+..|..+++++++|++.+.++||+|||
T Consensus         4 ~~~~~~~~~~~~~l~~~g~LD~~f~qL~~L~~~~~~~~~~ell~~Fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKG   83 (153)
T 3us6_A            4 GQMRRQWVDYIKSMFMEGFLDGQFLQLQQLQDENNPEFVFEVVSLFFDDSERILKDLSFAVDQQSIDFKKVDAHVHQFKG   83 (153)
T ss_dssp             HHHHHHHHHHHHHHHHTTSCCHHHHHHHHTCBTTBTTHHHHHHHHHHHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccccchHHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHHH
Confidence            579999999999999999999669999999 8899999999999999999999999999999877799999999999999


Q ss_pred             cccccChHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Q 042062           81 SSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFELVAQLGTDS  141 (142)
Q Consensus        81 ss~~lGA~~L~~~c~~LE~~~~~~~~~~~~~~~~~l~~~~~~~~~~L~~~l~~~~~~~~~~  141 (142)
                      ||+|+||.+|+.+|..||.+|+.++.+++...+.+|+.+|.+++.+|++|+++|||+.++|
T Consensus        84 ss~~lGa~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~e~~~v~~~L~~~~~le~q~~~~~  144 (153)
T 3us6_A           84 SSASIGAQRVKNSCVAFRNFCEEQNIDACRRCLQQVKQEYLLVKNKLETLLRLEQQIVAAG  144 (153)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHhcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999999999999999999999999999999887

>1yvi_A Histidine-containing phosphotransfer protein; structural genomics, protein structure initiative, PSI, CESG, AK104879, phosphorelay mediator, HP1; 2.00A {Oryza sativa} SCOP: a.24.10.2 PDB: 2q4f_A 1wn0_A

Probab=100.00  E-value=9.6e-36  Score=215.15  Aligned_cols=140  Identities=31%  Similarity=0.558  Sum_probs=131.8

Q ss_pred             hHHHHHHHHHHHhccCcchhhHHHHHHhhc-CCCC-hhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhh
Q 042062            2 EALRQQIAEMRQSFFDEEILDRYFIQLEQL-GENN-PGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLK   79 (142)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~lD~~l~~L~~l-~~~~-~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LK   79 (142)
                      ++|++|+..+++|++++|+||++|++|++| ++++ |+|+.+||..|++++++.+..|..+++++++|+..++.++|+||
T Consensus         4 ~~~~~~~~~~~~~~~~~~~lD~~~~~L~~L~~~~~~~~~~~elv~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~LK   83 (149)
T 1yvi_A            4 AALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEIATLLEQPVVNFDKVDAYVHQLK   83 (149)
T ss_dssp             HHHHHHHHHHHHHHHHTTSCCHHHHHHHHHHC---CTTHHHHHHHHHHHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccccccccHHHHHHHHhhCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHH
Confidence            589999999999999999999999999999 8888 99999999999999999999999999987568999999999999


Q ss_pred             ccccccChHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Q 042062           80 GSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFELVAQLGTDS  141 (142)
Q Consensus        80 Gss~~lGA~~L~~~c~~LE~~~~~~~~~~~~~~~~~l~~~~~~~~~~L~~~l~~~~~~~~~~  141 (142)
                      |||+||||.+|+.+|..+|..++.++.+++...+.+++.+|..++.+|++|+++|||++++|
T Consensus        84 Gssa~lGa~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~e~~~~~~~L~~~~~~e~q~~~~~  145 (149)
T 1yvi_A           84 GSSASVGAQKVKFTCMQFRQFCQDKSRDGCLMALAVVRNDFYDLRNKFQTMLQLEQQIQAYD  145 (149)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             hHHHHHhHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999999999999999876

>2r25_A Phosphorelay intermediate protein YPD1; alpha5-BETA5, response regulator, four helix bundle, histidine phosphotransfer (HPT) protein; 1.70A {Saccharomyces cerevisiae} SCOP: a.24.10.2 PDB: 1c03_A 1oxk_A 1oxb_A 1c02_A 1qsp_A

Probab=99.95  E-value=3.2e-27  Score=172.74  Aligned_cols=116  Identities=22%  Similarity=0.381  Sum_probs=109.0

Q ss_pred             hccCcchhhHH-HHHHhhc-CCCChhhHHHHHHHHHHcHHHHHHHHHHHHh-cCccCHHHHHHHHhHhhccccccChHHH
Q 042062           14 SFFDEEILDRY-FIQLEQL-GENNPGFVEDVLTVYFRDSTRTLANIEKELQ-KTEVNYVELDRYFYNLKGSSASIGANKV   90 (142)
Q Consensus        14 ~~~~~~~lD~~-l~~L~~l-~~~~~~~~~eli~~F~~d~~~~l~~L~~al~-~~~~D~~~l~~~aH~LKGss~~lGA~~L   90 (142)
                      ||..+|+||.. |++|++| +++ |+|+.+||..|++|+++.+..|+.|++ .+  |+..++.+||+|||||+||||.+|
T Consensus         2 ~~~~~~~LD~~~f~qL~el~dd~-p~Fv~elV~~F~edse~~l~~L~~AL~~~~--D~~~L~~~aH~LKGSSAnLGA~rV   78 (167)
T 2r25_A            2 STIPSEIINWTILNEIISMDDDD-SDFSKGLIIQFIDQAQTTFAQMQRQLDGEK--NLTELDNLGHFLKGSSAALGLQRI   78 (167)
T ss_dssp             CCCCSCSSCHHHHHHHHHTTTTS-SHHHHHHHHHHHHHHHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             CCCCcCCcCHHHHHHHHHhcccC-chHHHHHHHHHHHhHHHHHHHHHHHHhccc--CHHHHHHHHHhhhhhHHHHHHHHH
Confidence            57788999997 9999999 555 999999999999999999999999999 77  999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcC------------HH--------------------------------HHHHHHHHHHHHHHHHHHH
Q 042062           91 RNEVNKTRELCRAAN------------WE--------------------------------EAKVSLEQLKVEHSTLKDK  126 (142)
Q Consensus        91 ~~~c~~LE~~~~~~~------------~~--------------------------------~~~~~~~~l~~~~~~~~~~  126 (142)
                      ..+|..+|.+|+.++            .+                                .|...+.+++.+|..++.+
T Consensus        79 ~~~C~~le~~~r~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~L~~~k~e~~~~~~~  158 (167)
T 2r25_A           79 AWVCERIQNLGRKMEHFFPNKTELVNTLSDKSIINGINIDEDDEEIKIQVDDKDENSIYLILIAKALNQSRLEFKLARIE  158 (167)
T ss_dssp             HHHHHHHHHHHTTCCCCCCCHHHHHTTCSSGGGGSSSCTTTTCCCCCCCSSSCCTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCccccccccccccccccccccccccchhhhcccccccccchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999            33                                7889999999999999999


Q ss_pred             HHHHHH
Q 042062          127 LTAYFE  132 (142)
Q Consensus       127 L~~~l~  132 (142)
                      |+.|++
T Consensus       159 L~~~~~  164 (167)
T 2r25_A          159 LSKYYN  164 (167)
T ss_dssp             HHHHTT
T ss_pred             HHHHHc
Confidence            999975

>2a0b_A HPT domain; sensory transduction, histidine kinase, phosphotransfer, two-component system, four-helix bundle; 1.57A {Escherichia coli} SCOP: a.24.10.1 PDB: 1bdj_B 1fr0_A 1a0b_A

Probab=99.89  E-value=5.9e-23  Score=143.51  Aligned_cols=115  Identities=18%  Similarity=0.164  Sum_probs=107.5

Q ss_pred             ccCcchhhHH-HHHHhhcCCCChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHH
Q 042062           15 FFDEEILDRY-FIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNE   93 (142)
Q Consensus        15 ~~~~~~lD~~-l~~L~~l~~~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~   93 (142)
                      +...++||.. |.+|+++  .+++++.+++..|++++++.+..|..++..+  |+..+.+.||+|||||+|+|+..|+.+
T Consensus         6 ~~~~~~lD~~~l~~l~~~--~g~~~~~~ll~~F~~e~~~~l~~L~~a~~~~--d~~~~~~~aH~LKGsa~~lG~~~l~~~   81 (125)
T 2a0b_A            6 SKSEALLDIPMLEQYLEL--VGPKLITDGLAVFEKMMPGYVSVLESNLTAQ--DKKGIVEEGHKIKGAAGSVGLRHLQQL   81 (125)
T ss_dssp             CHHHHHSCHHHHHHHHHH--TCHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccccccCCHHHHHHHHHH--hCHHHHHHHHHHHHHHhHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            4456789999 9999988  3458999999999999999999999999999  999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042062           94 VNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFEL  133 (142)
Q Consensus        94 c~~LE~~~~~~~~~~~~~~~~~l~~~~~~~~~~L~~~l~~  133 (142)
                      |..+|..++.++.+++...+.+|..+|.++...|..|+..
T Consensus        82 ~~~lE~~~~~~~~~~~~~~~~~l~~~~~~~~~~L~~~l~~  121 (125)
T 2a0b_A           82 GQQIQSPDLPAWEDNVGEWIEEMKEEWRHDVEVLKAWVAK  121 (125)
T ss_dssp             HHHHTCTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999998875

>3myf_A Sensor protein; HPT, histidine kinase, PSI, MCSG, structural genomics, midwe for structural genomics, protein structure initiative, TRAN; HET: MSE; 1.80A {Shewanella SP}

Probab=99.85  E-value=1e-20  Score=131.69  Aligned_cols=114  Identities=12%  Similarity=0.174  Sum_probs=101.5

Q ss_pred             cCcchhhHHHHHHhhcCCCChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHHH
Q 042062           16 FDEEILDRYFIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVN   95 (142)
Q Consensus        16 ~~~~~lD~~l~~L~~l~~~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~   95 (142)
                      |+..++|++  .+..+..|+++++.+|+..|+++.|+.+..|+.+++.+  ||+.+.+++|+|||+|+++|+++|..+|.
T Consensus         1 ~~~~~~D~~--~~l~~~~g~~~L~~~lL~~fl~~~~~~~~~l~~a~~~~--d~~~l~~~aHkLkGaa~~~Ga~~L~~~~~   76 (119)
T 3myf_A            1 FDLHTLNWD--LCLTQANHKSNLALEMLKMLLDSLPETVEKIQTALGQN--DQATMLSTIHKLHGASCYCGVPTTQRLCQ   76 (119)
T ss_dssp             -CTTTCCHH--HHHHHTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             CCccccCHH--HHHHHhCCCHHHHHHHHHHHHHhHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHH
Confidence            456678876  33344568899999999999999999999999999999  99999999999999999999999999999


Q ss_pred             HHHHHHHhcC-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042062           96 KTRELCRAAN-WEEAKVSLEQLKVEHSTLKDKLTAYFEL  133 (142)
Q Consensus        96 ~LE~~~~~~~-~~~~~~~~~~l~~~~~~~~~~L~~~l~~  133 (142)
                      .||..++.|. .+.+...+..+..++..+..+++.|+..
T Consensus        77 ~LE~~~r~~~~~~~l~~~~~~L~~ei~~v~~~~~~~l~~  115 (119)
T 3myf_A           77 EIESALKRQTPVEDLEPEILELLDELTKVESAVKQVLSQ  115 (119)
T ss_dssp             HHHHHHHTTCCGGGGHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999986 4677888899999999999999999874

>3iqt_A Signal transduction histidine-protein kinase BARA; histidine phosphotransfer domain, HTP, structural genomics, protein structure initiative; HET: MSE BTB; 1.40A {Escherichia coli}

Probab=99.81  E-value=9.5e-20  Score=127.54  Aligned_cols=110  Identities=16%  Similarity=0.176  Sum_probs=98.0

Q ss_pred             cchhhHHHHHHhhcCCCChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHHHHH
Q 042062           18 EEILDRYFIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKT   97 (142)
Q Consensus        18 ~~~lD~~l~~L~~l~~~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~L   97 (142)
                      .+++|++  .+..+..|+++++.+|+..|+++.++.+..|+.++..+  ||+.+.+++|+|||+|+++|+++|..+|..|
T Consensus        12 ~~~~D~~--~~l~~a~g~~~La~elL~~fl~~~~~~~~~l~~a~~~~--d~~~l~~~aHkLkGaa~~~Ga~~L~~~c~~L   87 (123)
T 3iqt_A           12 NATLDWQ--LALRQAAGKTDLARDMLQMLLDFLPEVRNKVEEQLVGE--NPEGLVDLIHKLHGSCGYSGVPRMKNLCQLI   87 (123)
T ss_dssp             GGTCCHH--HHHHHTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTTC--CCTTHHHHHHHHHHHHTTSCCHHHHHHHHHH
T ss_pred             CCccCHH--HHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHHHH
Confidence            4567765  44455668899999999999999999999999999999  9999999999999999999999999999999


Q ss_pred             HHHHHhcCH-HHHHHHHHHHHHHHHHHHHHHHHHH
Q 042062           98 RELCRAANW-EEAKVSLEQLKVEHSTLKDKLTAYF  131 (142)
Q Consensus        98 E~~~~~~~~-~~~~~~~~~l~~~~~~~~~~L~~~l  131 (142)
                      |..++.|+. +.+...+..|..++..+..+.+.|+
T Consensus        88 E~~~r~g~~~~~l~~~l~~L~del~~v~~~~~~~~  122 (123)
T 3iqt_A           88 EQQLRSGTKEEDLEPELLELLDEMDNVAREASKIL  122 (123)
T ss_dssp             HHHHHTTCCGGGGHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999865 3677888889999999988888775

>1y6d_A Phosphorelay protein LUXU; phosphotransferase, four-helix bundle, quorum sensing; NMR {Vibrio harveyi} SCOP: a.24.10.5

Probab=99.76  E-value=3.3e-20  Score=129.29  Aligned_cols=110  Identities=14%  Similarity=0.212  Sum_probs=88.1

Q ss_pred             CcchhhHH-HHHHhhcCCCChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHHH
Q 042062           17 DEEILDRY-FIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVN   95 (142)
Q Consensus        17 ~~~~lD~~-l~~L~~l~~~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~   95 (142)
                      +.+.+|.. +.+|+..  .+|+++.+++..|++++++.+..|..+...+  |+..+.+.+|+|||||+|+|+.+|+.+|.
T Consensus         8 ~~~~~d~~~l~~L~~~--~g~~~~~e~~~~F~~e~~e~l~~L~~a~~~~--~~~~i~r~aH~LKGsAa~~Ga~~l~~~~~   83 (120)
T 1y6d_A            8 NTDVLNQQKIEELSAE--IGSDNVPVLLDIFLGEMDSYIGTLTELQGSE--QLLYLKEISHALKSSAASFGADRLCERAI   83 (120)
T ss_dssp             CCTTTTTTHHHHHTHH--HHHHHHHHHHHHHHHHHHHHHHHTTTTSSHH--HHHHHHHHHHHHHHHHHHHTTTHHHHHHH
T ss_pred             CCccccHHHHHHHHHH--hCHHHHHHHHHHHHHHHHHHHHHHHcccccc--hHHHHHHHHHHHhhhHHHhCHHHHHHHHH
Confidence            45677877 7777755  4458999999999999999999999988777  88999999999999999999999999999


Q ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042062           96 KTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAY  130 (142)
Q Consensus        96 ~LE~~~~~~~~~~~~~~~~~l~~~~~~~~~~L~~~  130 (142)
                      .+|..+|.|+...+......+...+.+....+..+
T Consensus        84 ~lE~~~r~g~~~~~~~~~~~l~~~l~~~~d~l~~~  118 (120)
T 1y6d_A           84 AIDKKAKANQLQEQGMETSEMLALLHITRDAYRSW  118 (120)
T ss_dssp             HHHHHHHHHHHCTTTSTTTTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCChhhhHhhHHHHHHHHHHHHHHHHHH
Confidence            99999999877643334444444444444544443

>2ooc_A Histidine phosphotransferase; NP_419930.1, hypothetical protein, structural genomics, JOIN for structural genomics, JCSG; HET: MSE PG4; 1.52A {Caulobacter crescentus} SCOP: a.24.10.6

Probab=99.76  E-value=1.1e-18  Score=120.30  Aligned_cols=102  Identities=11%  Similarity=0.108  Sum_probs=86.7

Q ss_pred             cchhhHHHHHHhhcCCCChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHHHHH
Q 042062           18 EEILDRYFIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKT   97 (142)
Q Consensus        18 ~~~lD~~l~~L~~l~~~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~L   97 (142)
                      .+.+|.+  .|..++.++|+|+.+|+..|++++++.+..|..+  ..  ||   +++||+|||||+||||.+|..+|..+
T Consensus         8 ~~~iD~~--~L~~~~~gd~~~~~elL~~F~~~~~~~l~~L~~a--~~--~~---~~~aH~LKGsA~~iGA~~l~~~c~~l   78 (113)
T 2ooc_A            8 SGAVDFA--YLEGFAAGDFAVVDEVLALFREQAALWAPMLDPT--HP--GW---KDAVHTVKGAARGVGAFNLGEVCERC   78 (113)
T ss_dssp             -CCSCHH--HHHHHTTTCHHHHHHHHHHHHHHHHHHGGGCSTT--ST--TH---HHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             CCCcCHH--HHHhHhCCCHHHHHHHHHHHHHHhHHHHHHHHHh--hH--HH---HHHHHHHHHHHHHcCHHHHHHHHHHH
Confidence            4567766  3444566889999999999999999999999988  44  76   79999999999999999999999999


Q ss_pred             HHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042062           98 RELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFEL  133 (142)
Q Consensus        98 E~~~~~~~~~~~~~~~~~l~~~~~~~~~~L~~~l~~  133 (142)
                      |..++.     ....+..|+.++..+...|..+++.
T Consensus        79 E~~~~~-----~~~~~~~L~~a~~~~~~~l~~~~~~  109 (113)
T 2ooc_A           79 EAGQES-----LEGVRTALDAALLDIAAYAHEQALR  109 (113)
T ss_dssp             HTTSSC-----HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhh-----hHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            998877     4667888999999999998887753

>1sr2_A Putative sensor-like histidine kinase YOJN; four-helical bundle, transferase; NMR {Escherichia coli} SCOP: a.24.10.4

Probab=99.72  E-value=1.8e-17  Score=114.87  Aligned_cols=87  Identities=10%  Similarity=0.117  Sum_probs=80.3

Q ss_pred             ChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHHHHHHHHHHhcCHHHHHHHHH
Q 042062           35 NPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLE  114 (142)
Q Consensus        35 ~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~~~~~~~~~~~~~~~  114 (142)
                      .+..-.+++..|+++.++.+..|..++..+  ||..++++||+|||+++++|++.|+.+|..+|..++.++..++...+.
T Consensus        29 k~~~~~d~l~~fl~s~~~Dl~~L~~A~~~~--D~~~l~~~aHrLKGaa~~lG~~~L~~lc~~LE~~~~~~~~~~l~~~i~  106 (116)
T 1sr2_A           29 AQLHASGYYALFVDTVPDDVKRLYTEAATS--DFAALAQTAHRLKGVFAMLNLVPGKQLCETLEHLIREKDVPGIEKYIS  106 (116)
T ss_dssp             HHHHHHTTHHHHTTTHHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             chhchHHHHHHHHHHhHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            345677899999999999999999999999  999999999999999999999999999999999999999998888888


Q ss_pred             HHHHHHHHH
Q 042062          115 QLKVEHSTL  123 (142)
Q Consensus       115 ~l~~~~~~~  123 (142)
                      +|...+.++
T Consensus       107 ~L~~~l~~L  115 (116)
T 1sr2_A          107 DIDSYVKSL  115 (116)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            888877654

>1tqg_A Chemotaxis protein CHEA; histidine kinase, phosphotransfer, signal transduction, transferase; 0.98A {Thermotoga maritima} SCOP: a.24.10.3

Probab=99.61  E-value=1.7e-15  Score=102.49  Aligned_cols=89  Identities=15%  Similarity=0.190  Sum_probs=76.2

Q ss_pred             HHHHHHHHHHcHHHHHHHHHHHHh--------cCccCHHHHHHHHhHhhccccccChHHHHHHHHHHHHHH---HhcCHH
Q 042062           39 VEDVLTVYFRDSTRTLANIEKELQ--------KTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELC---RAANWE  107 (142)
Q Consensus        39 ~~eli~~F~~d~~~~l~~L~~al~--------~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~~---~~~~~~  107 (142)
                      +.+++..|++++++.+..|..++.        ..  ++..+.+.+|+|||+|+++|+..+..+|..+|...   +.++..
T Consensus         3 ~~~l~~~F~~e~~e~l~~l~~~l~~le~~~~~~~--~~~~l~r~~HtLKGsa~~~G~~~l~~la~~lE~~l~~~r~~~~~   80 (105)
T 1tqg_A            3 HMEYLGVFVDETKEYLQNLNDTLLELEKNPEDME--LINEAFRALHTLKGMAGTMGFSSMAKLCHTLENILDKARNSEIK   80 (105)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCTTCHH--HHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHH--HHHHHHHHHHhhhHHHHhcChHHHHHHHHHHHHHHHHHHhCCCC
Confidence            468999999999999999999995        33  67899999999999999999999999999999876   677665


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 042062          108 EAKVSLEQLKVEHSTLKDKLTA  129 (142)
Q Consensus       108 ~~~~~~~~l~~~~~~~~~~L~~  129 (142)
                      .....+..+...+..+...+..
T Consensus        81 ~~~~~~~~l~~~~d~l~~~l~~  102 (105)
T 1tqg_A           81 ITSDLLDKIFAGVDMITRMVDK  102 (105)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHH
Confidence            5677778888888777776643

>2ld6_A Chemotaxis protein CHEA; TMP1, transferase; NMR {Thermotoga maritima}

Probab=99.48  E-value=3.5e-14  Score=100.90  Aligned_cols=89  Identities=16%  Similarity=0.216  Sum_probs=72.2

Q ss_pred             HHHHHHHHHcHHHHHHHHHHHHh--------cCccCHHHHHHHHhHhhccccccChHHHHHHHHHHHHHH---HhcCHHH
Q 042062           40 EDVLTVYFRDSTRTLANIEKELQ--------KTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELC---RAANWEE  108 (142)
Q Consensus        40 ~eli~~F~~d~~~~l~~L~~al~--------~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~~---~~~~~~~  108 (142)
                      .+++..|++++++.+..|..++.        ..  ++..+.+.+|+|||+|+++|+..+..+|..+|...   +.|....
T Consensus         3 ~ell~~Fl~Ea~e~L~~l~~~l~~le~~~~d~~--~~~~l~R~aHTLKGsA~~~G~~~l~~lah~lE~~l~~lr~g~~~~   80 (139)
T 2ld6_A            3 EEYLGVFVDETKEYLQNLNDTLLELEKNPEDME--LINEAFRALHTLKGMAGTMGFSSMAKLCHTLENILDKARNSEIKI   80 (139)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHCSSSSS--HHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHTSCCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHH--HHHHHHHHHHHHhHHHHhcCHHHHHHHHHHHHHHHHHHHcCCCCC
Confidence            47899999999999999999984        34  78999999999999999999999999999999866   6665444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 042062          109 AKVSLEQLKVEHSTLKDKLTAY  130 (142)
Q Consensus       109 ~~~~~~~l~~~~~~~~~~L~~~  130 (142)
                      ....++.+...+..+...+..+
T Consensus        81 ~~~l~~~l~~~~D~l~~~l~~~  102 (139)
T 2ld6_A           81 TSDLLDKIFAGVDMITRMVDKI  102 (139)
T ss_dssp             CSSHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHH
Confidence            4455666666666666655544

>1i5n_A Chemotaxis protein CHEA; four-helix bundle, transferase; 2.14A {Salmonella typhimurium} SCOP: a.24.10.3

Probab=99.44  E-value=1.6e-13  Score=98.22  Aligned_cols=89  Identities=15%  Similarity=0.269  Sum_probs=68.6

Q ss_pred             HHHHHHHHHcHHHHHHHHHHHHhcC------ccCHHHHHHHHhHhhccccccChHHHHHHHHHHHHH---HHhcCHHHHH
Q 042062           40 EDVLTVYFRDSTRTLANIEKELQKT------EVNYVELDRYFYNLKGSSASIGANKVRNEVNKTREL---CRAANWEEAK  110 (142)
Q Consensus        40 ~eli~~F~~d~~~~l~~L~~al~~~------~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~---~~~~~~~~~~  110 (142)
                      .+++..|++++++.+..|..++..-      ..++..+.+.+|+|||+|+++|+..+..+|..+|..   .+.+......
T Consensus         6 ~ell~~Fl~Ea~e~L~~le~~L~~le~~~~d~~~l~~lfR~aHTLKGsA~~~G~~~l~~lah~lE~~l~~~r~g~~~~~~   85 (146)
T 1i5n_A            6 SDFYQTFFDEADELLADMEQHLLDLVPESPDAEQLNAIFRAAHSIKGGAGTFGFTILQETTHLMENLLDEARRGEMQLNT   85 (146)
T ss_dssp             GGGHHHHHHHHHHHHHHHHHHHHHCCTTSCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTTSSCCCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHhHhHHccCHHHHHHHHHHHHHHHHHHHhCCCCCCH
Confidence            3789999999999999999999321      115689999999999999999999999999999987   6777544334


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 042062          111 VSLEQLKVEHSTLKDKLT  128 (142)
Q Consensus       111 ~~~~~l~~~~~~~~~~L~  128 (142)
                      ..+..+...+..+...+.
T Consensus        86 ~l~~~l~~~~D~l~~~l~  103 (146)
T 1i5n_A           86 DIINLFLETKDIMQEQLD  103 (146)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            445555555555554443

>2lch_A Protein OR38; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, de novo protein; NMR {Thermotoga maritima}

Probab=99.42  E-value=2.3e-13  Score=93.19  Aligned_cols=89  Identities=8%  Similarity=0.172  Sum_probs=70.8

Q ss_pred             HHHHHHHHHcHHHHHHHHHHHHhc---Cc---cCHHHHHHHHhHhhccccccChHHHHHHHHHHHH---HHHhcCHHHHH
Q 042062           40 EDVLTVYFRDSTRTLANIEKELQK---TE---VNYVELDRYFYNLKGSSASIGANKVRNEVNKTRE---LCRAANWEEAK  110 (142)
Q Consensus        40 ~eli~~F~~d~~~~l~~L~~al~~---~~---~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~---~~~~~~~~~~~  110 (142)
                      .+++..|++++++.+..|..++..   .+   .++..+.+.+|+|||+|+++|+..+..+|..+|.   ..+.+......
T Consensus         5 ~el~~~F~~Ea~e~l~~l~~~l~~le~~~~d~~~~~~l~R~~HTlKGsa~~~G~~~l~~lah~~E~~l~~~r~~~~~~~~   84 (113)
T 2lch_A            5 QEYIKKVTDELKELIQNVNDDIKEVEKNPEDMEYWNKIYRLVHTMKEITETMGFSSVAKVLHTIMNLVDKMLNSEIKITS   84 (113)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTSTTTCCCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhHHHHHHhcChHHHHHHHHHHHHHHHHHHhCCCCCCH
Confidence            478999999999999999998842   11   1456899999999999999999999999999996   45666655455


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 042062          111 VSLEQLKVEHSTLKDKLT  128 (142)
Q Consensus       111 ~~~~~l~~~~~~~~~~L~  128 (142)
                      ..+..+...+..+...+.
T Consensus        85 ~l~~~l~~~~d~l~~~l~  102 (113)
T 2lch_A           85 DLIDKVKKKLDMVTRELD  102 (113)
T ss_dssp             HHHHHHHHHHHHHHHHHG
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            667777777766666553

>3kyj_A CHEA3, putative histidine protein kinase; protein-protein interaction, histidine kinase, response regulator, phosphorylation; 1.40A {Rhodobacter sphaeroides} PDB: 3kyi_A

Probab=99.16  E-value=8.3e-11  Score=84.00  Aligned_cols=92  Identities=23%  Similarity=0.269  Sum_probs=68.7

Q ss_pred             HHHHHHHHHHcHHHHHHHHHHHHh---cCccC---HHHHHHHHhHhhccccccChHHHHHHHHHHHHHH---HhcCHHHH
Q 042062           39 VEDVLTVYFRDSTRTLANIEKELQ---KTEVN---YVELDRYFYNLKGSSASIGANKVRNEVNKTRELC---RAANWEEA  109 (142)
Q Consensus        39 ~~eli~~F~~d~~~~l~~L~~al~---~~~~D---~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~~---~~~~~~~~  109 (142)
                      ..+++..|++++++.+..|...+.   .++.|   ...+.+.+|+|||+|+++|+..+..+|..+|...   +.+...--
T Consensus         9 ~~ell~~FleEa~E~L~~le~~Ll~le~~~~d~e~l~~lfR~~HTLKGsA~~~G~~~i~~laH~lE~ll~~lr~g~~~~~   88 (144)
T 3kyj_A            9 MDEIWALYADDGAQALDAMEASLLALQAGEDAAAHVGPLFRAVHTFKGNSRVLGLSVVESRAHLCEDLIGLVRDAGVPMD   88 (144)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHSCCCCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHhHhhHHHhcCchHHHHHHHHHHHHHHHHHcCCCCCC
Confidence            468899999999999999999875   22223   4689999999999999999999999999999755   55543323


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 042062          110 KVSLEQLKVEHSTLKDKLTAY  130 (142)
Q Consensus       110 ~~~~~~l~~~~~~~~~~L~~~  130 (142)
                      ..+++.+...+..+...+..+
T Consensus        89 ~~l~dlll~~~D~l~~lv~~~  109 (144)
T 3kyj_A           89 GEIVEILLFASDTLRAMLEET  109 (144)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            455555555555555544443

>2lp4_A Chemotaxis protein CHEA; two component signaling system, histidine phosphotransfer DO response regulator; NMR {Escherichia coli}

Probab=98.81  E-value=1.3e-08  Score=77.25  Aligned_cols=86  Identities=14%  Similarity=0.261  Sum_probs=62.4

Q ss_pred             HHHHHHHHHcHHHHHHHHHHHHhc---CccC---HHHHHHHHhHhhccccccChHHHHHHHHHHHHHH---HhcCHHHHH
Q 042062           40 EDVLTVYFRDSTRTLANIEKELQK---TEVN---YVELDRYFYNLKGSSASIGANKVRNEVNKTRELC---RAANWEEAK  110 (142)
Q Consensus        40 ~eli~~F~~d~~~~l~~L~~al~~---~~~D---~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~~---~~~~~~~~~  110 (142)
                      .+++..|++++.+.+..|...+..   ++.|   ...+.|.+|+|||+|+.+|...+..+|..+|..-   ++|...--.
T Consensus         6 ~~~l~~F~~Ea~e~L~~l~~~Ll~le~~~~d~~~l~~ifR~~HTlKG~a~~~g~~~i~~laH~~E~~l~~~r~g~~~~~~   85 (225)
T 2lp4_A            6 SDFYQTFFDEADELLADMEQHLLDLVPESPDAEQLNAIFRAAHSIKGGAGTFGFTILQETTHLMENLLDEARRGEMQLNT   85 (225)
T ss_dssp             GGTHHHHHHHHHHHHHHHHHHHHHCCTTSCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTTSSCCCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhhhHHHhcCHHHHHHHHHHHHHHHHHHHcCCCCCCH
Confidence            367899999999999999998753   2224   4688899999999999999999999999999654   445432223


Q ss_pred             HHHHHHHHHHHHHHH
Q 042062          111 VSLEQLKVEHSTLKD  125 (142)
Q Consensus       111 ~~~~~l~~~~~~~~~  125 (142)
                      ..+.-+...+..+..
T Consensus        86 ~~~~ll~~~~D~l~~  100 (225)
T 2lp4_A           86 DIINLFLETKDIMQE  100 (225)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333444444443333

>3ls0_A SLL1638 protein, PSBQ; photosynthesis, four helix bundle; 1.80A {Synechocystis SP} PDB: 3ls1_A

Probab=91.69  E-value=2.3  Score=29.37  Aligned_cols=82  Identities=17%  Similarity=0.299  Sum_probs=52.3

Q ss_pred             HHHHH---HcHHHHHHH-HHHHHhcCccCHHHHHHHHhHhhccc--------ccc----------ChHHHHHHHHHHHHH
Q 042062           43 LTVYF---RDSTRTLAN-IEKELQKTEVNYVELDRYFYNLKGSS--------ASI----------GANKVRNEVNKTREL  100 (142)
Q Consensus        43 i~~F~---~d~~~~l~~-L~~al~~~~~D~~~l~~~aH~LKGss--------~~l----------GA~~L~~~c~~LE~~  100 (142)
                      |..|.   .++.+.+.+ |...++.+  ||..++...|.-=|.-        .++          =+..|......|-.+
T Consensus        25 Iq~y~~~i~~ar~Rl~e~L~~lI~~~--~W~~~Rn~IhGPlg~lr~~m~~l~~~Llp~dqk~A~~lak~l~~~L~~LD~A  102 (133)
T 3ls0_A           25 LQVYVNPIAVARDGMEKRLQGLIADQ--NWVDTQTYIHGPLGQLRRDMLGLASSLLPKDQDKAKTLAKEVFGHLERLDAA  102 (133)
T ss_dssp             HHHHHHHHHHHHHHHHHTHHHHHHTT--CHHHHHHHHHTTTTTHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHhhhc--chHHHHHHHhchHHHHHHHHHHHHHhcChhhhHHHHHHHHHHHHHHHHHHHH
Confidence            55554   447788899 99999999  9999999999644432        222          122334444455566


Q ss_pred             HHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042062          101 CRAANWEEAKVSLEQLKVEHSTLKDKLTAYFEL  133 (142)
Q Consensus       101 ~~~~~~~~~~~~~~~l~~~~~~~~~~L~~~l~~  133 (142)
                      ++.+|...+.       .+|..+...+..|+++
T Consensus       103 A~~~n~~~a~-------k~Y~~a~adfdafl~l  128 (133)
T 3ls0_A          103 AKDRNGSQAK-------IQYQEALADFDSFLNL  128 (133)
T ss_dssp             HHTTCHHHHH-------HHHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHH-------HHHHHHHHHHHHHHHh
Confidence            6666655444       4566666666666655

>3zsu_A TLL2057 protein, cyanoq; photosystem II assembly, photosynthesis, extrinsic protein; 1.60A {Thermosynechococcus elongatus}

Probab=89.85  E-value=2.2  Score=29.38  Aligned_cols=85  Identities=13%  Similarity=0.214  Sum_probs=55.4

Q ss_pred             HHHHHH---cHHHHHHHHHHHHhcCccCHHHHHHHHhHhhcccc--------cc----------ChHHHHHHHHHHHHHH
Q 042062           43 LTVYFR---DSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSA--------SI----------GANKVRNEVNKTRELC  101 (142)
Q Consensus        43 i~~F~~---d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~--------~l----------GA~~L~~~c~~LE~~~  101 (142)
                      |..|.+   ++.+.+.+|...++.+  ||..++...|.-=|.-+        ++          =+..|......|-.++
T Consensus        23 iq~y~~~i~~~r~Rl~eL~~lI~~~--~W~~~Rn~IhGPlg~lr~~m~~l~~~Llp~dqk~A~~lak~l~~~L~~LD~AA  100 (130)
T 3zsu_A           23 IQDYLRDIEKNAERFADLEVSVAKG--DWQEARNIMRGPLGEMLMDMRALNRNLLAKDQPTPTALTRALTDDFLKIDQGA  100 (130)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHTT--CHHHHHHHHHTHHHHHHHHHHHHHHTSCGGGSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhc--chHHHHHHHhchHHHHHHHHHHHHHhcCHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            555544   4677889999999999  99999999986444322        21          1234445555666777


Q ss_pred             HhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 042062          102 RAANWEEAKVSLEQLKVEHSTLKDKLTAYFELVAQ  136 (142)
Q Consensus       102 ~~~~~~~~~~~~~~l~~~~~~~~~~L~~~l~~~~~  136 (142)
                      +.+|...+..       +|..+...+..|+++-++
T Consensus       101 ~~~n~~~a~k-------~Y~~a~adfdafl~liP~  128 (130)
T 3zsu_A          101 DLDSVTVAQE-------GFREAEADFKAYLNSLPE  128 (130)
T ss_dssp             HTTCHHHHHH-------HHHHHHHHHHHHHHHCCC
T ss_pred             HhcCHHHHHH-------HHHHHHHHHHHHHHhccC
Confidence            7777655444       566666666677665443

>1vyk_A Oxygen-evolving enhancer protein 3; photosystem II, oxygen-enhancer evolving complex, water oxidizing complex, PSBQ, OEE3, photosynthesis; 1.49A {Spinacia oleracea} PDB: 1nze_A

Probab=87.04  E-value=6.1  Score=27.71  Aligned_cols=77  Identities=12%  Similarity=0.100  Sum_probs=50.7

Q ss_pred             HHcHHHHHHHHHHHHhcCccCHHHHHHHHhH--------hhccccccCh----------HHHHHHHHHHHHHHHhcCHHH
Q 042062           47 FRDSTRTLANIEKELQKTEVNYVELDRYFYN--------LKGSSASIGA----------NKVRNEVNKTRELCRAANWEE  108 (142)
Q Consensus        47 ~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~--------LKGss~~lGA----------~~L~~~c~~LE~~~~~~~~~~  108 (142)
                      ++++.+.|..++..++.+  +|..++...|.        |+....++.-          ..|......|..+++.+|...
T Consensus        52 Ik~~a~~i~~vk~lI~k~--~W~~vrn~LR~~~~~Lr~Dl~~li~slp~~~kk~l~~La~~Lf~~le~LD~AAr~kd~~~  129 (149)
T 1vyk_A           52 AKVSASEILNVKQFIDRK--AWPSLQNDLRLRASYLRYDLKTVISAKPKDEKKSLQELTSKLFSSIDNLDHAAKIKSPTE  129 (149)
T ss_dssp             HHHHHHHHHTTHHHHHTT--CHHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHhhhc--cHHHHHHHHHHhHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHH
Confidence            344666678889999999  99999988775        2222333332          455666667778888888777


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 042062          109 AKVSLEQLKVEHSTLKD  125 (142)
Q Consensus       109 ~~~~~~~l~~~~~~~~~  125 (142)
                      +...+......|..+.+
T Consensus       130 a~~~Y~~t~~~ld~vl~  146 (149)
T 1vyk_A          130 AEKYYGQTVSNINEVLA  146 (149)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            66655555555544443

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	142
d1yvia1	142	a.24.10.2 (A:2-143) Histidine-containing phosphotr	7e-30
d1sr2a_	116	a.24.10.4 (A:) Sensor-like histidine kinase YojN,	3e-11
d2a0ba_	118	a.24.10.1 (A:) Aerobic respiration control sensor	1e-09
d2r25a1	166	a.24.10.2 (A:2-167) Phosphorelay protein ypd1 {Bak	8e-09
d1y6da_	114	a.24.10.5 (A:) Phosphorelay protein luxU {Vibrio h	4e-06
d2ooca1	104	a.24.10.6 (A:8-111) Histidine phosphotransferase S	0.003

>d1yvia1 a.24.10.2 (A:2-143) Histidine-containing phosphotransfer protein HP1 {Rice (Oryza sativa) [TaxId: 4530]} Length = 142

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Histidine-containing phosphotransfer domain, HPT domain
family: Phosphorelay protein-like
domain: Histidine-containing phosphotransfer protein HP1
species: Rice (Oryza sativa) [TaxId: 4530]

 Score =  103 bits (258), Expect = 7e-30
 Identities = 43/138 (31%), Positives = 77/138 (55%), Gaps = 2/138 (1%)

Query: 2   EALRQQIAEMRQSFFDEEILDRYFIQLEQL--GENNPGFVEDVLTVYFRDSTRTLANIEK 59
            ALR Q+  +  S F + ++D  F QL+ L      PGFV +V+T++  D+ R +  I  
Sbjct: 3   AALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEIAT 62

Query: 60  ELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVE 119
            L++  VN+ ++D Y + LKGSSAS+GA KV+    + R+ C+  + +   ++L  ++ +
Sbjct: 63  LLEQPVVNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQDKSRDGCLMALAVVRND 122

Query: 120 HSTLKDKLTAYFELVAQL 137
              L++K     +L  Q+
Sbjct: 123 FYDLRNKFQTMLQLEQQI 140

>d1sr2a_ a.24.10.4 (A:) Sensor-like histidine kinase YojN, C-terminal domain {Escherichia coli [TaxId: 562]} Length = 116

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Histidine-containing phosphotransfer domain, HPT domain
family: Sensor-like histidine kinase YojN, C-terminal domain
domain: Sensor-like histidine kinase YojN, C-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 54.6 bits (131), Expect = 3e-11
 Identities = 12/112 (10%), Positives = 32/112 (28%), Gaps = 3/112 (2%)

Query: 13  QSFFDEEILDRYFIQLEQLG-ENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVEL 71
               + ++      +    G EN          ++       +  +  E   +  ++  L
Sbjct: 6   LQLIEVQLAQEEVTESPLGGDENAQLHASGYYALFVDTVPDDVKRLYTEAATS--DFAAL 63

Query: 72  DRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTL 123
            +  + LKG  A +     +        L R  +    +  +  +     +L
Sbjct: 64  AQTAHRLKGVFAMLNLVPGKQLCETLEHLIREKDVPGIEKYISDIDSYVKSL 115

>d2a0ba_ a.24.10.1 (A:) Aerobic respiration control sensor protein, ArcB {Escherichia coli [TaxId: 562]} Length = 118

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Histidine-containing phosphotransfer domain, HPT domain
family: Aerobic respiration control sensor protein, ArcB
domain: Aerobic respiration control sensor protein, ArcB
species: Escherichia coli [TaxId: 562]

 Score = 50.4 bits (120), Expect = 1e-09
 Identities = 22/120 (18%), Positives = 51/120 (42%), Gaps = 8/120 (6%)

Query: 13  QSFFDEEILDRYFIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELD 72
           ++  D  +L++Y   LE +G   P  + D L V+ +     ++ +E  L     +   + 
Sbjct: 4   EALLDIPMLEQY---LELVG---PKLITDGLAVFEKMMPGYVSVLESNLTAQ--DKKGIV 55

Query: 73  RYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFE 132
              + +KG++ S+G   ++    + +     A  +     +E++K E     + L A+  
Sbjct: 56  EEGHKIKGAAGSVGLRHLQQLGQQIQSPDLPAWEDNVGEWIEEMKEEWRHDVEVLKAWVA 115

>d2r25a1 a.24.10.2 (A:2-167) Phosphorelay protein ypd1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Histidine-containing phosphotransfer domain, HPT domain
family: Phosphorelay protein-like
domain: Phosphorelay protein ypd1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 49.3 bits (117), Expect = 8e-09
 Identities = 20/111 (18%), Positives = 46/111 (41%), Gaps = 3/111 (2%)

Query: 18  EEILDRY-FIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFY 76
            EI++     ++  + +++  F + ++  +   +  T A ++++L   + N  ELD   +
Sbjct: 5   SEIINWTILNEIISMDDDDSDFSKGLIIQFIDQAQTTFAQMQRQLDGEK-NLTELDNLGH 63

Query: 77  NLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKL 127
            LKGSSA++G  ++     + + L R           E +           
Sbjct: 64  FLKGSSAALGLQRIAWVCERIQNLGRKME-HFFPNKTELVNTLSDKSIING 113

>d1y6da_ a.24.10.5 (A:) Phosphorelay protein luxU {Vibrio harveyi [TaxId: 669]} Length = 114

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Histidine-containing phosphotransfer domain, HPT domain
family: Phosphorelay protein luxU
domain: Phosphorelay protein luxU
species: Vibrio harveyi [TaxId: 669]

 Score = 40.9 bits (95), Expect = 4e-06
 Identities = 17/115 (14%), Positives = 47/115 (40%), Gaps = 5/115 (4%)

Query: 17  DEEILDRYFIQLEQL-GENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYF 75
           + ++L++   ++E+L  E     V  +L ++  +    +  + +         + L    
Sbjct: 2   NTDVLNQ--QKIEELSAEIGSDNVPVLLDIFLGEMDSYIGTLTELQGSE--QLLYLKEIS 57

Query: 76  YNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAY 130
           + LK S+AS GA+++        +  +A   +E  +   ++       +D   ++
Sbjct: 58  HALKSSAASFGADRLCERAIAIDKKAKANQLQEQGMETSEMLALLHITRDAYRSW 112

>d2ooca1 a.24.10.6 (A:8-111) Histidine phosphotransferase ShpA {Caulobacter crescentus [TaxId: 155892]} Length = 104

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Histidine-containing phosphotransfer domain, HPT domain
family: SphA-like
domain: Histidine phosphotransferase ShpA
species: Caulobacter crescentus [TaxId: 155892]

 Score = 33.1 bits (75), Expect = 0.003
 Identities = 17/104 (16%), Positives = 36/104 (34%), Gaps = 16/104 (15%)

Query: 27  QLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIG 86
            LE     +   V++VL ++   +              +  +       + +KG++  +G
Sbjct: 7   YLEGFAAGDFAVVDEVLALFREQAALWAP-------MLDPTHPGWKDAVHTVKGAARGVG 59

Query: 87  ANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAY 130
           A  +        E+C     E  + SLE ++         + AY
Sbjct: 60  AFNL-------GEVCERC--EAGQESLEGVRTALDAALLDIAAY 94

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	142
d1yvia1	142	Histidine-containing phosphotransfer protein HP1 {	100.0
d2a0ba_	118	Aerobic respiration control sensor protein, ArcB {	99.9
d2r25a1	166	Phosphorelay protein ypd1 {Baker's yeast (Saccharo	99.88
d1y6da_	114	Phosphorelay protein luxU {Vibrio harveyi [TaxId:	99.86
d1sr2a_	116	Sensor-like histidine kinase YojN, C-terminal doma	99.84
d2ooca1	104	Histidine phosphotransferase ShpA {Caulobacter cre	99.74
d1tqga_	105	Chemotaxis protein CheA P1 domain {Thermotoga mari	99.13
d1i5na_	128	Chemotaxis protein CheA P1 domain {Salmonella typh	99.06
d1nzea_	112	Oxygen-evolving enhancer protein 3, {Spinach (Spin	93.52
d1fpoa2	95	HSC20 (HSCB), C-terminal oligomerisation domain {E	89.39

>d1yvia1 a.24.10.2 (A:2-143) Histidine-containing phosphotransfer protein HP1 {Rice (Oryza sativa) [TaxId: 4530]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Histidine-containing phosphotransfer domain, HPT domain
family: Phosphorelay protein-like
domain: Histidine-containing phosphotransfer protein HP1
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=100.00  E-value=5.6e-34  Score=202.67  Aligned_cols=138  Identities=31%  Similarity=0.559  Sum_probs=130.1

Q ss_pred             hHHHHHHHHHHHhccCcchhhHHHHHHhhc--CCCChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhh
Q 042062            2 EALRQQIAEMRQSFFDEEILDRYFIQLEQL--GENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLK   79 (142)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~lD~~l~~L~~l--~~~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LK   79 (142)
                      ++||+++.+++.+++++|++|.+|.++..+  ..++|+|+.+|+..|++++++.+..|..+++.++.||..+++.||+||
T Consensus         3 ~~l~~~~~~~~~~~~~~g~lD~~f~~l~~l~~~~~~~~fl~eli~~Fl~~~~~~l~~l~~al~~~~~D~~~~~~~aH~LK   82 (142)
T d1yvia1           3 AALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEIATLLEQPVVNFDKVDAYVHQLK   82 (142)
T ss_dssp             HHHHHHHHHHHHHHHHTTSCCHHHHHHHHHHC---CTTHHHHHHHHHHHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhHHhcccccHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            589999999999999999999999999888  457899999999999999999999999999864459999999999999


Q ss_pred             ccccccChHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 042062           80 GSSASIGANKVRNEVNKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFELVAQLGT  139 (142)
Q Consensus        80 Gss~~lGA~~L~~~c~~LE~~~~~~~~~~~~~~~~~l~~~~~~~~~~L~~~l~~~~~~~~  139 (142)
                      |||+++||.+++.+|..||.+++.++.+.+..++.+|+.+|..++.+|++|+++++||+|
T Consensus        83 Gss~~lGa~~l~~~~~~lE~~~~~~~~~~~~~~~~~L~~e~~~l~~~L~~~l~~~~qi~~  142 (142)
T d1yvia1          83 GSSASVGAQKVKFTCMQFRQFCQDKSRDGCLMALAVVRNDFYDLRNKFQTMLQLEQQIQA  142 (142)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             hHHhhccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhC
Confidence            999999999999999999999999999999999999999999999999999999999975

>d2a0ba_ a.24.10.1 (A:) Aerobic respiration control sensor protein, ArcB {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Histidine-containing phosphotransfer domain, HPT domain
family: Aerobic respiration control sensor protein, ArcB
domain: Aerobic respiration control sensor protein, ArcB
species: Escherichia coli [TaxId: 562]

Probab=99.90  E-value=1.6e-23  Score=143.28  Aligned_cols=113  Identities=19%  Similarity=0.185  Sum_probs=106.7

Q ss_pred             CcchhhHH-HHHHhhcCCCChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHHH
Q 042062           17 DEEILDRY-FIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVN   95 (142)
Q Consensus        17 ~~~~lD~~-l~~L~~l~~~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~   95 (142)
                      .+++||.. +.++...  .+|+++.+++..|+++.|+.+..|+.++.++  |++.+++.+|+|||+|+++|+..|+.+|.
T Consensus         3 ~e~~lD~~~L~~l~~~--~g~~~~~~~l~~F~~~~~~~l~~l~~a~~~~--d~~~~~~~aH~LKgsa~~~G~~~l~~~~~   78 (118)
T d2a0ba_           3 SEALLDIPMLEQYLEL--VGPKLITDGLAVFEKMMPGYVSVLESNLTAQ--DKKGIVEEGHKIKGAAGSVGLRHLQQLGQ   78 (118)
T ss_dssp             HHHHSCHHHHHHHHHH--TCHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccccCCHHHHHHHHHH--hCHHHHHHHHHHHHHHhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHH
Confidence            46789998 8888877  4469999999999999999999999999999  99999999999999999999999999999


Q ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042062           96 KTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYFEL  133 (142)
Q Consensus        96 ~LE~~~~~~~~~~~~~~~~~l~~~~~~~~~~L~~~l~~  133 (142)
                      .||..++.++.+.+..++.+|+.++......|+.|+..
T Consensus        79 ~lE~~~~~~~~~~~~~~l~~l~~~~~~~~~~L~~~l~~  116 (118)
T d2a0ba_          79 QIQSPDLPAWEDNVGEWIEEMKEEWRHDVEVLKAWVAK  116 (118)
T ss_dssp             HHTCTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999864

>d2r25a1 a.24.10.2 (A:2-167) Phosphorelay protein ypd1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Histidine-containing phosphotransfer domain, HPT domain
family: Phosphorelay protein-like
domain: Phosphorelay protein ypd1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.88  E-value=2.9e-22  Score=145.08  Aligned_cols=115  Identities=21%  Similarity=0.382  Sum_probs=102.5

Q ss_pred             cCcchhhHH-HHHHhhcCCCChhhHHHHHHHHHHcHHHHHHHHHHHHh-cCccCHHHHHHHHhHhhccccccChHHHHHH
Q 042062           16 FDEEILDRY-FIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQ-KTEVNYVELDRYFYNLKGSSASIGANKVRNE   93 (142)
Q Consensus        16 ~~~~~lD~~-l~~L~~l~~~~~~~~~eli~~F~~d~~~~l~~L~~al~-~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~   93 (142)
                      .-..+||+. |++|..|++++|+|+.+||..|++++++.+..|+.++. .+  |+..+.++||+|||||+++|+.++...
T Consensus         3 ~p~~~id~~~l~~l~~m~~~d~~f~~~li~~F~~~~~~~~~~l~~al~~~~--d~~~l~~~aH~lKgss~~~G~~~~~~~   80 (166)
T d2r25a1           3 IPSEIINWTILNEIISMDDDDSDFSKGLIIQFIDQAQTTFAQMQRQLDGEK--NLTELDNLGHFLKGSSAALGLQRIAWV   80 (166)
T ss_dssp             CCSCSSCHHHHHHHHHTTTTSSHHHHHHHHHHHHHHHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CcccccCHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh--hHHHHHHHHHHHHHHHHHhCHHHHHHH
Confidence            456799999 99999997789999999999999999999999999996 47  999999999999999999999999999


Q ss_pred             HHHHHHHHHhcC--------------------------------------------HHHHHHHHHHHHHHHHHHHHHHHH
Q 042062           94 VNKTRELCRAAN--------------------------------------------WEEAKVSLEQLKVEHSTLKDKLTA  129 (142)
Q Consensus        94 c~~LE~~~~~~~--------------------------------------------~~~~~~~~~~l~~~~~~~~~~L~~  129 (142)
                      |..||+.++.++                                            ...+...+.+.+..|..++..|..
T Consensus        81 ~~~ie~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~e~~~~~~l~~I~~~L~~a~d~~~~a~~~L~~  160 (166)
T d2r25a1          81 CERIQNLGRKMEHFFPNKTELVNTLSDKSIINGINIDEDDEEIKIQVDDKDENSIYLILIAKALNQSRLEFKLARIELSK  160 (166)
T ss_dssp             HHHHHHHHTTCCCCCCCHHHHHTTCSSGGGGSSSCTTTTCCCCCCCSSSCCTTHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcccccchhHHHHHHHHHHHHHHHHHhhhhcccccccccCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999998642                                            234667788888888888888888


Q ss_pred             HHH
Q 042062          130 YFE  132 (142)
Q Consensus       130 ~l~  132 (142)
                      |++
T Consensus       161 ~~~  163 (166)
T d2r25a1         161 YYN  163 (166)
T ss_dssp             HTT
T ss_pred             Hhc
Confidence            864

>d1y6da_ a.24.10.5 (A:) Phosphorelay protein luxU {Vibrio harveyi [TaxId: 669]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Histidine-containing phosphotransfer domain, HPT domain
family: Phosphorelay protein luxU
domain: Phosphorelay protein luxU
species: Vibrio harveyi [TaxId: 669]

Probab=99.86  E-value=1.5e-23  Score=142.45  Aligned_cols=110  Identities=15%  Similarity=0.232  Sum_probs=103.0

Q ss_pred             CcchhhHH-HHHHhhc-CCCChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHH
Q 042062           17 DEEILDRY-FIQLEQL-GENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEV   94 (142)
Q Consensus        17 ~~~~lD~~-l~~L~~l-~~~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c   94 (142)
                      ++++||.. +++|.+. |+   +++.+++..|+++.+..+..|..++..+  |++.+++.||+|||+|+++|+.+|+.+|
T Consensus         2 ~~~lld~~~l~~L~~~~G~---e~~~~ll~~F~~~~~~~~~~L~~a~~~~--d~~~l~~~aH~LKGsa~~~Ga~~L~~~~   76 (114)
T d1y6da_           2 NTDVLNQQKIEELSAEIGS---DNVPVLLDIFLGEMDSYIGTLTELQGSE--QLLYLKEISHALKSSAASFGADRLCERA   76 (114)
T ss_dssp             CCTTTTTTHHHHHTHHHHH---HHHHHHHHHHHHHHHHHHHHTTTTSSHH--HHHHHHHHHHHHHHHHHHHTTTHHHHHH
T ss_pred             CHHHCCHHHHHHHHHHhCH---HHHHHHHHHHHHHHHHHHHHHHHHHhCc--CHHHHHHHHHHHHHHHHHcCHHHHHHHH
Confidence            57899999 9999877 54   8999999999999999999999999999  9999999999999999999999999999


Q ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042062           95 NKTRELCRAANWEEAKVSLEQLKVEHSTLKDKLTAYF  131 (142)
Q Consensus        95 ~~LE~~~~~~~~~~~~~~~~~l~~~~~~~~~~L~~~l  131 (142)
                      ..||..++.++.+.+...+..+...+.++..+++.|.
T Consensus        77 ~~lE~~~~~~~~~~~~~~~~~l~~~~~~t~~a~r~w~  113 (114)
T d1y6da_          77 IAIDKKAKANQLQEQGMETSEMLALLHITRDAYRSWT  113 (114)
T ss_dssp             HHHHHHHHHHHHCTTTSTTTTTTHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCChhHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            9999999999988888899999999999999988774

>d1sr2a_ a.24.10.4 (A:) Sensor-like histidine kinase YojN, C-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Histidine-containing phosphotransfer domain, HPT domain
family: Sensor-like histidine kinase YojN, C-terminal domain
domain: Sensor-like histidine kinase YojN, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.84  E-value=4e-22  Score=136.43  Aligned_cols=108  Identities=10%  Similarity=0.089  Sum_probs=91.8

Q ss_pred             hccCcchhhHH-HHHHhhcCCCChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHH
Q 042062           14 SFFDEEILDRY-FIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRN   92 (142)
Q Consensus        14 ~~~~~~~lD~~-l~~L~~l~~~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~   92 (142)
                      ++.+.++++.+ +......+.+.+.|+.+++..|++++|..+..|+.+++++  ||..+++.||+|||+|+++|+.+++.
T Consensus         7 ~l~~~~l~~~~~~~~~~~~d~~~~~~~~~~~~lF~~~~p~~l~~L~~a~~~~--D~~~l~~~aH~LKGs~~~~Ga~~l~~   84 (116)
T d1sr2a_           7 QLIEVQLAQEEVTESPLGGDENAQLHASGYYALFVDTVPDDVKRLYTEAATS--DFAALAQTAHRLKGVFAMLNLVPGKQ   84 (116)
T ss_dssp             CSCSSSSCSCCCCCCCSCSSHHHHHHHHTTHHHHTTTHHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHhhhhHHHHHHhHhhcccchHHHHHHHHHHHHHhhHHHHHHHHHHHHCc--CHHHHHHHHHHHHHHHHHcCchHHHH
Confidence            34555555554 3222222233456888999999999999999999999999  99999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHH
Q 042062           93 EVNKTRELCRAANWEEAKVSLEQLKVEHSTL  123 (142)
Q Consensus        93 ~c~~LE~~~~~~~~~~~~~~~~~l~~~~~~~  123 (142)
                      +|..||..++.++.+.+..++.+|+..+.++
T Consensus        85 ~~~~lE~~~~~~~~~~~~~ll~~le~~~~~l  115 (116)
T d1sr2a_          85 LCETLEHLIREKDVPGIEKYISDIDSYVKSL  115 (116)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999888765

>d2ooca1 a.24.10.6 (A:8-111) Histidine phosphotransferase ShpA {Caulobacter crescentus [TaxId: 155892]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Histidine-containing phosphotransfer domain, HPT domain
family: SphA-like
domain: Histidine phosphotransferase ShpA
species: Caulobacter crescentus [TaxId: 155892]

Probab=99.74  E-value=1e-18  Score=117.30  Aligned_cols=77  Identities=13%  Similarity=0.164  Sum_probs=66.7

Q ss_pred             chhhHHHHHHhhcCCCChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHHHHHH
Q 042062           19 EILDRYFIQLEQLGENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTR   98 (142)
Q Consensus        19 ~~lD~~l~~L~~l~~~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE   98 (142)
                      |.||.  +.|.++..||++++.+|+..|+++++..+..+     .+  |++.+++.||+|||+|+|+||.+|+.+|..||
T Consensus         1 gaiD~--~~L~~~~ggd~~l~~~ll~~F~e~~~~~~~~l-----~~--d~~~~~~~aH~LKGsa~~iGa~~L~~~a~~lE   71 (104)
T d2ooca1           1 GAVDF--AYLEGFAAGDFAVVDEVLALFREQAALWAPML-----DP--THPGWKDAVHTVKGAARGVGAFNLGEVCERCE   71 (104)
T ss_dssp             CCSCH--HHHHHHTTTCHHHHHHHHHHHHHHHHHHGGGC-----ST--TSTTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             CccCH--HHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHH-----cc--CHHHHHHHHHHHHhHHHHcCHHHHHHHHHHHH
Confidence            45664  46677756799999999999999999887554     45  89999999999999999999999999999999


Q ss_pred             HHHHhc
Q 042062           99 ELCRAA  104 (142)
Q Consensus        99 ~~~~~~  104 (142)
                      ..++.+
T Consensus        72 ~~~~~~   77 (104)
T d2ooca1          72 AGQESL   77 (104)
T ss_dssp             TTSSCH
T ss_pred             HHHHcc
Confidence            998763

>d1tqga_ a.24.10.3 (A:) Chemotaxis protein CheA P1 domain {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Histidine-containing phosphotransfer domain, HPT domain
family: Chemotaxis protein CheA P1 domain
domain: Chemotaxis protein CheA P1 domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.13  E-value=7.5e-11  Score=77.89  Aligned_cols=88  Identities=15%  Similarity=0.231  Sum_probs=64.5

Q ss_pred             HHHHHHHHcHHHHHHHHHHHHhc---CccC---HHHHHHHHhHhhccccccChHHHHHHHHHHHHHH---HhcCHHHHHH
Q 042062           41 DVLTVYFRDSTRTLANIEKELQK---TEVN---YVELDRYFYNLKGSSASIGANKVRNEVNKTRELC---RAANWEEAKV  111 (142)
Q Consensus        41 eli~~F~~d~~~~l~~L~~al~~---~~~D---~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~~---~~~~~~~~~~  111 (142)
                      +++..|++++.+.+..+...+..   ++.|   ...+.+.+|+|||+|+.+|...+..+|..+|...   +.+....-..
T Consensus         5 E~l~~Fl~Ea~e~l~~l~~~l~~le~~~~~~~~~~~l~R~~HTLKG~a~~~gl~~i~~lah~lE~~l~~~~~~~~~~~~~   84 (105)
T d1tqga_           5 EYLGVFVDETKEYLQNLNDTLLELEKNPEDMELINEAFRALHTLKGMAGTMGFSSMAKLCHTLENILDKARNSEIKITSD   84 (105)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTTSSCCCHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCchhhcCHHHHHHHHHHHHHHHHHHHhCCCCCCHH
Confidence            78999999999999999998842   2223   5688999999999999999999999999999754   4443322234


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 042062          112 SLEQLKVEHSTLKDKLT  128 (142)
Q Consensus       112 ~~~~l~~~~~~~~~~L~  128 (142)
                      .+..+...+..++..++
T Consensus        85 ~~~~l~~~~d~l~~~l~  101 (105)
T d1tqga_          85 LLDKIFAGVDMITRMVD  101 (105)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            44555555555544443

>d1i5na_ a.24.10.3 (A:) Chemotaxis protein CheA P1 domain {Salmonella typhimurium [TaxId: 90371]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Histidine-containing phosphotransfer domain, HPT domain
family: Chemotaxis protein CheA P1 domain
domain: Chemotaxis protein CheA P1 domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=99.06  E-value=2.8e-10  Score=77.41  Aligned_cols=86  Identities=13%  Similarity=0.242  Sum_probs=62.0

Q ss_pred             HHHHHHHHcHHHHHHHHHHHHh---cCccC---HHHHHHHHhHhhccccccChHHHHHHHHHHHHHHH---hcCHHHHHH
Q 042062           41 DVLTVYFRDSTRTLANIEKELQ---KTEVN---YVELDRYFYNLKGSSASIGANKVRNEVNKTRELCR---AANWEEAKV  111 (142)
Q Consensus        41 eli~~F~~d~~~~l~~L~~al~---~~~~D---~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~~~---~~~~~~~~~  111 (142)
                      +++..|++++.+.+..+...+.   +++.|   ...+.+.+|+|||+|+.+|...+..+|..+|....   .+...--..
T Consensus         4 e~~~~F~~Ea~e~l~~l~~~l~~le~~~~~~~~~~~l~R~~HTLKG~a~~~gl~~i~~lah~lE~~l~~lr~~~~~~~~~   83 (128)
T d1i5na_           4 DFYQTFFDEADELLADMEQHLLDLVPESPDAEQLNAIFRAAHSIKGGAGTFGFTILQETTHLMENLLDEARRGEMQLNTD   83 (128)
T ss_dssp             GGHHHHHHHHHHHHHHHHHHHHHCCTTSCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTTSSCCCHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhHHhhcChHHHHHHHHHHHHHHHHHHhCCCCCCHH
Confidence            5689999999999999999874   22223   45889999999999999999999999999997644   444322233


Q ss_pred             HHHHHHHHHHHHHHH
Q 042062          112 SLEQLKVEHSTLKDK  126 (142)
Q Consensus       112 ~~~~l~~~~~~~~~~  126 (142)
                      .+.-+...+..++..
T Consensus        84 ~~~~l~~~~d~l~~~   98 (128)
T d1i5na_          84 IINLFLETKDIMQEQ   98 (128)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            334444444444433

>d1nzea_ a.24.18.1 (A:) Oxygen-evolving enhancer protein 3, {Spinach (Spinacia oleracea) [TaxId: 3562]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Oxygen-evolving enhancer protein 3,
family: Oxygen-evolving enhancer protein 3,
domain: Oxygen-evolving enhancer protein 3,
species: Spinach (Spinacia oleracea) [TaxId: 3562]

Probab=93.52  E-value=0.35  Score=30.81  Aligned_cols=77  Identities=12%  Similarity=0.100  Sum_probs=56.1

Q ss_pred             HHcHHHHHHHHHHHHhcCccCHHHHHHHHhH--------hhccccccCh----------HHHHHHHHHHHHHHHhcCHHH
Q 042062           47 FRDSTRTLANIEKELQKTEVNYVELDRYFYN--------LKGSSASIGA----------NKVRNEVNKTRELCRAANWEE  108 (142)
Q Consensus        47 ~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~--------LKGss~~lGA----------~~L~~~c~~LE~~~~~~~~~~  108 (142)
                      +.++.+.|.+|...++.+  +|..++...|.        |+....+.+.          ..|......|..+++.++...
T Consensus        15 i~~sa~~L~~l~~lI~k~--~W~~v~~~Lr~~~~~Lr~dl~~li~~~~~~~k~~~~~la~~lf~~le~LD~Aar~kd~~~   92 (112)
T d1nzea_          15 AKVSASEILNVKQFIDRK--AWPSLQNDLRLRASYLRYDLKTVISAKPKDEKKSLQELTSKLFSSIDNLDHAAKIKSPTE   92 (112)
T ss_dssp             HHHHHHHHHTTHHHHHTT--CHHHHHHHHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHhhc--cHHHHHHHHHHHHHHHHHHHHHHHHhCCHhhhHHHHHHHHHHHHHHHHHHHHHHcCCHHH
Confidence            466778889999999999  99999998886        4444445543          456677777888888888887


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 042062          109 AKVSLEQLKVEHSTLKD  125 (142)
Q Consensus       109 ~~~~~~~l~~~~~~~~~  125 (142)
                      +...+......+..+..
T Consensus        93 a~~~Y~~t~~~ld~~la  109 (112)
T d1nzea_          93 AEKYYGQTVSNINEVLA  109 (112)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            77766666665555443

>d1fpoa2 a.23.1.1 (A:77-171) HSC20 (HSCB), C-terminal oligomerisation domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: Open three-helical up-and-down bundle
superfamily: HSC20 (HSCB), C-terminal oligomerisation domain
family: HSC20 (HSCB), C-terminal oligomerisation domain
domain: HSC20 (HSCB), C-terminal oligomerisation domain
species: Escherichia coli [TaxId: 562]

Probab=89.39  E-value=0.63  Score=28.44  Aligned_cols=78  Identities=13%  Similarity=0.224  Sum_probs=47.9

Q ss_pred             CCChhhHHHHHHHHHHcHHHHHHHHHHHHhcCccCHHHHHHHHhHhhccccccChHHHHHHHHHHHHHHHhcCHHHHHHH
Q 042062           33 ENNPGFVEDVLTVYFRDSTRTLANIEKELQKTEVNYVELDRYFYNLKGSSASIGANKVRNEVNKTRELCRAANWEEAKVS  112 (142)
Q Consensus        33 ~~~~~~~~eli~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGss~~lGA~~L~~~c~~LE~~~~~~~~~~~~~~  112 (142)
                      -.+|+|+-+.+. +.       +.|..+-..+  |...+..+...+++        ++..+...+..+-..++++.+...
T Consensus        10 ~~DpeFLMeqME-~R-------E~lee~~~~~--d~~~l~~l~~ei~~--------~~~~~~~~l~~~~~~~d~~~A~~~   71 (95)
T d1fpoa2          10 VRDTAFLMEQLE-LR-------EELDEIEQAK--DEARLESFIKRVKK--------MFDTRHQLMVEQLDNETWDAAADT   71 (95)
T ss_dssp             CSCHHHHHHHHH-HH-------HHHHHHHHHT--CHHHHHHHHHHHHH--------HHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHH-HH-------HHHHHhhcCC--CHHHHHHHHHHHHH--------HHHHHHHHHHHHHhhccHHHHHHH
Confidence            356777766332 11       2333443456  77777777777765        455666777777778888888777


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 042062          113 LEQLKVEHSTLKDKLTA  129 (142)
Q Consensus       113 ~~~l~~~~~~~~~~L~~  129 (142)
                      +.+|+= |..+...+..
T Consensus        72 ~~kLkF-~~kl~~ei~~   87 (95)
T d1fpoa2          72 CRKLRF-LDKLRSSAEQ   87 (95)
T ss_dssp             HHHHHH-HHHHHHHHHH
T ss_pred             HHHhHH-HHHHHHHHHH
Confidence            777754 4555554443