Citrus Sinensis ID: 048267

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------11
Protein Sequence
MEALRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHHcHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHcccHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
MEALRQQIAKMRQSFFDEEILDKYFLQLEqledisnpgfvkDVVTLYLRDSTKTLATIEDemakspvdfmnldkcfhqlkgssasvgaNKVLNEVNKAREHckegnlea
Flexible Loop (DISEMBL)
MEALRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLkgssasvganKVLNEVNKarehckegnlea
Low Complexity Region (SEG)
MEALRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA
Disordered region (IsUnstruct)
*************SFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQL******************************
Disordered Region (DISOPRED)
*******IAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREH*K******
Disordered Region (DISEMBL)
MEALRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAR**********
Disordered Region (DISPRO)
MEALRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEG****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MEALRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	109	2.2.26 [Sep-21-2011]
Q9LU15	127	Histidine-containing phos	no	no	0.889	0.763	0.411	2e-17
Q6VAK4	149	Histidine-containing phos	no	no	0.935	0.684	0.398	2e-13
Q9ZNV9	154	Histidine-containing phos	no	no	0.889	0.629	0.474	1e-12
Q8L9T7	157	Histidine-containing phos	no	no	0.972	0.675	0.364	5e-11
Q9ZNV8	156	Histidine-containing phos	no	no	0.972	0.679	0.327	4e-10
Q9SAZ5	155	Histidine-containing phos	no	no	0.972	0.683	0.336	7e-10

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

 Score = 87.8 bits (216), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 42/102 (41%), Positives = 61/102 (59%), Gaps = 5/102 (4%)

Query: 8   IAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPV 67
           I K  Q + DE+     F++LE+L+D +NP FV++V  LY +DS + +  I+  + +   
Sbjct: 4   IGKCMQGYLDEQ-----FMELEELQDDANPNFVEEVSALYFKDSARLINNIDQALERGSF 58

Query: 68  DFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
           DF  LD   HQ KGSS S+GA+KV  E    RE+C+ GN E 
Sbjct: 59  DFNRLDSYMHQFKGSSTSIGASKVKAECTTFREYCRAGNAEG 100

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 = 74.7 bits (182), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 41/103 (39%), Positives = 62/103 (60%), Gaps = 1/103 (0%)

Query: 3   ALRQQIAKMRQSFFDEEILDKYFLQLEQLED-ISNPGFVKDVVTLYLRDSTKTLATIEDE 61
           ALR Q+  +  S F + ++D+ F QL+ L+D    PGFV +VVTL+  D+ + +  I   
Sbjct: 5   ALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEIATL 64

Query: 62  MAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKE 104
           + +  V+F  +D   HQLKGSSASVGA KV     + R+ C++
Sbjct: 65  LEQPVVNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQD 107

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 = 72.0 bits (175), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 46/97 (47%), Positives = 62/97 (63%)

Query: 13  QSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNL 72
           +S F E ILD  FLQL+QL+D SNP FV  VVTL+ +DS + L  +   + +  VDF  +
Sbjct: 15  KSLFLEGILDSQFLQLQQLQDESNPDFVSQVVTLFFQDSDRILNDLSLSLDQQVVDFKKV 74

Query: 73  DKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
           D   HQLKGSS+S+GA +V N     R  C++ N+EA
Sbjct: 75  DPHVHQLKGSSSSIGAQRVKNACVVFRSFCEQQNVEA 111

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 = 66.6 bits (161), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 39/107 (36%), Positives = 58/107 (54%), Gaps = 1/107 (0%)

Query: 4   LRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMA 63
           L++Q      S + +  LD  F +L +L+D   P FV +VV+L+  D +K + T+   + 
Sbjct: 9   LQRQFQDYIVSLYQQGFLDNQFSELRKLQDEGTPDFVAEVVSLFFDDCSKLINTMSISLE 68

Query: 64  KSP-VDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
           +   VDF  +D   HQLKGSS+SVGA +V N     +E C   N E 
Sbjct: 69  RPDNVDFKQVDSGVHQLKGSSSSVGARRVKNVCISFKECCDVQNREG 115

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 = 63.2 bits (152), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 35/107 (32%), Positives = 57/107 (53%), Gaps = 1/107 (0%)

Query: 4   LRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEM- 62
           L++Q      S + +  LD  F +L++L+D  +P FV +V++L+  D  K ++ +   + 
Sbjct: 8   LQRQFRDYTISLYQQGFLDDQFTELKKLQDDGSPDFVSEVLSLFFEDCVKLISNMARALD 67

Query: 63  AKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
               VDF  +    HQLKGSS+SVGA +V       +E C+  N E 
Sbjct: 68  TTGTVDFSQVGASVHQLKGSSSSVGAKRVKTLCVSFKECCEAKNYEG 114

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 = 62.8 bits (151), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 36/107 (33%), Positives = 58/107 (54%), Gaps = 1/107 (0%)

Query: 4   LRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMA 63
           L+++      S + +  LD  F +L++L+D  +P FV +VVTL+  D  K ++ +   + 
Sbjct: 8   LQRRFCDFTISLYHQGFLDDQFTELKKLQDECSPDFVAEVVTLFFEDCEKLISNMARALD 67

Query: 64  KSP-VDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
           ++  VDF  +    HQLKGSS+SVGA +V       +E C   N E 
Sbjct: 68  QTGNVDFKLVGSSVHQLKGSSSSVGAKRVKGLCVTLKECCDSQNYEG 114

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	109
449447821	150	PREDICTED: histidine-containing phosphot	0.972	0.706	0.518	1e-25
357454793	150	Histidine phosphotransfer protein [Medic	0.963	0.7	0.495	9e-25
357454789	150	Histidine phosphotransfer protein [Medic	0.963	0.7	0.495	1e-24
388504598	150	unknown [Medicago truncatula]	0.963	0.7	0.495	2e-24
356526081	151	PREDICTED: histidine-containing phosphot	0.963	0.695	0.490	4e-24
255546331	150	Histidine-containing phosphotransfer pro	0.972	0.706	0.532	7e-24
224054404	224	histidine phosphotransfer protein [Popul	0.972	0.473	0.509	7e-24
391349165	150	histidine phosphotransfer protein [Popul	0.972	0.706	0.509	8e-24
351723223	151	uncharacterized protein LOC100526849 [Gl	0.963	0.695	0.490	9e-24
255549828	150	Histidine-containing phosphotransfer pro	0.972	0.706	0.509	1e-23

>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 =  120 bits (301), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 55/106 (51%), Positives = 78/106 (73%)

Query: 4   LRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMA 63
           LR+Q+A +RQS FD+  LD+ F+QLE+L+D +NP FV+++VTLY RDS++ + +IE  + 
Sbjct: 6   LRRQLANIRQSLFDQGFLDEQFVQLEELQDDANPNFVEEIVTLYYRDSSRLILSIEQALQ 65

Query: 64  KSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
           KSP+DF  LD   HQ KGSS+S+GA KV  E  + RE+CK G+ E 
Sbjct: 66  KSPLDFNKLDALMHQFKGSSSSIGAKKVKAECTQLREYCKAGSGEG 111

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357454793|ref|XP_003597677.1| Histidine phosphotransfer protein [Medicago truncatula] gi|355486725|gb|AES67928.1| Histidine phosphotransfer protein [Medicago truncatula]

 Score =  117 bits (293), Expect = 9e-25,   Method: Compositional matrix adjust.
 Identities = 52/105 (49%), Positives = 77/105 (73%)

Query: 5   RQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAK 64
           R+Q+A M+QS FD+  LD+ F+QLE+L+D +NP FV+++VTLY RDS++ ++++E  + +
Sbjct: 7   RRQLAAMKQSLFDQGHLDEQFIQLEELQDDANPNFVEEIVTLYYRDSSRLISSLEQTLER 66

Query: 65  SPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
           SP+DF  LD   HQ KGSS+S+GA KV  E    RE+C+ GN E 
Sbjct: 67  SPLDFNKLDTIMHQFKGSSSSIGAKKVKAESTLIREYCRTGNAEG 111

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357454789|ref|XP_003597675.1| Histidine phosphotransfer protein [Medicago truncatula] gi|355486723|gb|AES67926.1| Histidine phosphotransfer protein [Medicago truncatula]

 Score =  117 bits (292), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 52/105 (49%), Positives = 77/105 (73%)

Query: 5   RQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAK 64
           R+Q+A M+QS FD+  LD+ F+QLE+L+D +NP FV+++VTLY RDS++ ++++E  + +
Sbjct: 7   RRQLAAMKQSLFDQGHLDEQFIQLEELQDDANPNFVEEIVTLYYRDSSRLISSLEQTLER 66

Query: 65  SPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
           SP+DF  LD   HQ KGSS+S+GA KV  E    RE+C+ GN E 
Sbjct: 67  SPLDFNKLDTIMHQFKGSSSSIGAKKVKAESTLIREYCRTGNAEG 111

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388504598|gb|AFK40365.1| unknown [Medicago truncatula]

 Score =  116 bits (290), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 52/105 (49%), Positives = 77/105 (73%)

Query: 5   RQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAK 64
           R+Q+A M+QS FD+  LD+ F+QLE+L+D +NP FV+++VTLY RDS++ ++++E  + +
Sbjct: 7   RRQLAAMKQSLFDQGHLDEQFIQLEELQDDANPNFVEELVTLYYRDSSRLISSLEQTLER 66

Query: 65  SPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
           SP+DF  LD   HQ KGSS+S+GA KV  E    RE+C+ GN E 
Sbjct: 67  SPLDFNKLDTIMHQFKGSSSSIGAKKVKAESTLIREYCRTGNAEG 111

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  115 bits (288), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 52/106 (49%), Positives = 79/106 (74%), Gaps = 1/106 (0%)

Query: 5   RQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMA- 63
           R+Q+A M+QS FD+ +LD+ F+QLE+L+D +NP FV+++VTL+ RDS++ +++IE  +  
Sbjct: 7   RRQVAAMKQSLFDQGLLDEQFIQLEELQDDANPNFVEEIVTLHYRDSSRLISSIEQALKE 66

Query: 64  KSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
           ++P+DF  LD   HQ KGSS+S+GA KV  E N  RE+C+ GN E 
Sbjct: 67  RNPLDFNKLDTLMHQFKGSSSSIGAKKVKTECNLFREYCRAGNAEG 112

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 =  114 bits (285), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 57/107 (53%), Positives = 77/107 (71%), Gaps = 1/107 (0%)

Query: 4   LRQQIAKMRQSFFDEEILDK-YFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEM 62
           LR+QIAKMRQSFFDE  LD  YF QLEQLE   NP FV++++TL+ R+STK LAT+E  +
Sbjct: 5   LREQIAKMRQSFFDEGTLDSHYFAQLEQLEGPDNPNFVEEIITLFFRESTKMLATMETNL 64

Query: 63  AKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
            K PV+F+ +DK  +Q+K +SAS+GA ++  +V     + KE NLE 
Sbjct: 65  EKCPVNFIGIDKMLNQIKVNSASIGAIRIKEQVIPMLNNLKENNLEG 111

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

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 =  114 bits (285), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 54/106 (50%), Positives = 75/106 (70%)

Query: 4   LRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMA 63
           LR+Q+A  RQS FD+  LD+ F+QLE+L+D +NP FV++VV+L+ RDS + ++ IE  + 
Sbjct: 6   LRRQVALTRQSLFDQGFLDEQFIQLEELQDDANPNFVEEVVSLHYRDSARLISNIEKALE 65

Query: 64  KSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
           K+P+DF  LD   HQ KGSS+S+GA KV  E    RE+CK GN E 
Sbjct: 66  KNPLDFNKLDGYMHQFKGSSSSIGAKKVKAECTLFREYCKAGNGEG 111

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  114 bits (285), Expect = 8e-24,   Method: Compositional matrix adjust.
 Identities = 54/106 (50%), Positives = 75/106 (70%)

Query: 4   LRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMA 63
           LR+Q+A  RQS FD+  LD+ F+QLE+L+D +NP FV++VV+L+ RDS + ++ IE  + 
Sbjct: 6   LRRQVALTRQSLFDQGFLDEQFIQLEELQDDANPNFVEEVVSLHYRDSARLISNIEKALE 65

Query: 64  KSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
           K+P+DF  LD   HQ KGSS+S+GA KV  E    RE+CK GN E 
Sbjct: 66  KNPLDFNKLDGYMHQFKGSSSSIGAKKVKAECTLFREYCKAGNGEG 111

Source: Populus x canadensis

Species: Populus x canadensis

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351723223|ref|NP_001234968.1| uncharacterized protein LOC100526849 [Glycine max] gi|255630982|gb|ACU15855.1| unknown [Glycine max]

 Score =  114 bits (284), Expect = 9e-24,   Method: Compositional matrix adjust.
 Identities = 52/106 (49%), Positives = 78/106 (73%), Gaps = 1/106 (0%)

Query: 5   RQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMA- 63
           R+Q+A M+QS FD+  LD+ F+QLE+L+D +NP FV+++VTL+ RDS++ +++IE  +  
Sbjct: 7   RRQVAAMKQSLFDQGFLDEQFIQLEELQDDANPNFVEEIVTLHYRDSSRLISSIEQALKE 66

Query: 64  KSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
           ++P+DF  LD   HQ KGSS+S+GA KV  E N  RE+C+ GN E 
Sbjct: 67  RNPLDFNKLDTLMHQFKGSSSSIGAKKVKAECNLFREYCRTGNAEG 112

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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 =  113 bits (283), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 54/106 (50%), Positives = 73/106 (68%)

Query: 4   LRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMA 63
           L +Q+A  RQS FD+  LD+ FLQLE+L+D +NP FV++VVTLY RDS + + +IE  + 
Sbjct: 6   LHRQVALARQSLFDQGFLDEQFLQLEELQDDANPNFVEEVVTLYYRDSARLILSIEQGLE 65

Query: 64  KSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
           + P+DF  LD   HQ KGSS+S+GA KV  E    RE+C+ GN E 
Sbjct: 66  RHPLDFNKLDSHMHQFKGSSSSIGAKKVKAECTLFREYCRAGNGEG 111

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	109
TAIR|locus:2089900	154	AHP1 "histidine-containing pho	1.0	0.707	0.432	9.5e-18
TAIR|locus:2020868	157	AHP5 "histidine-containing pho	0.963	0.668	0.367	1.5e-12
TAIR|locus:2093817	156	AHP2 "histidine-containing pho	0.963	0.673	0.330	2.2e-11
TAIR|locus:2016339	154	HP6 "histidine phosphotransfer	0.853	0.603	0.361	3.5e-11
TAIR|locus:2175643	155	AHP3 "histidine-containing pho	0.963	0.677	0.339	3.5e-11
TAIR|locus:504955364	167	AT4G04402 "AT4G04402" [Arabido	0.504	0.329	0.355	0.00065

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

 Score = 216 (81.1 bits), Expect = 9.5e-18, P = 9.5e-18
 Identities = 48/111 (43%), Positives = 69/111 (62%)

Query:     1 MEALRQQ--IAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATI 58
             M+ +++Q  +    +S F E ILD  FLQL+QL+D SNP FV  VVTL+ +DS + L  +
Sbjct:     1 MDLVQKQKSLQDYTKSLFLEGILDSQFLQLQQLQDESNPDFVSQVVTLFFQDSDRILNDL 60

Query:    59 EDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
                + +  VDF  +D   HQLKGSS+S+GA +V N     R  C++ N+EA
Sbjct:    61 SLSLDQQVVDFKKVDPHVHQLKGSSSSIGAQRVKNACVVFRSFCEQQNVEA 111

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

 Score = 167 (63.8 bits), Expect = 1.5e-12, P = 1.5e-12
 Identities = 39/106 (36%), Positives = 58/106 (54%)

Query:     4 LRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMA 63
             L++Q      S + +  LD  F +L +L+D   P FV +VV+L+  D +K + T+   + 
Sbjct:     9 LQRQFQDYIVSLYQQGFLDNQFSELRKLQDEGTPDFVAEVVSLFFDDCSKLINTMSISLE 68

Query:    64 KSP-VDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLE 108
             +   VDF  +D   HQLKGSS+SVGA +V N     +E C   N E
Sbjct:    69 RPDNVDFKQVDSGVHQLKGSSSSVGARRVKNVCISFKECCDVQNRE 114

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

 Score = 156 (60.0 bits), Expect = 2.2e-11, P = 2.2e-11
 Identities = 35/106 (33%), Positives = 57/106 (53%)

Query:     4 LRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEM- 62
             L++Q      S + +  LD  F +L++L+D  +P FV +V++L+  D  K ++ +   + 
Sbjct:     8 LQRQFRDYTISLYQQGFLDDQFTELKKLQDDGSPDFVSEVLSLFFEDCVKLISNMARALD 67

Query:    63 AKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLE 108
                 VDF  +    HQLKGSS+SVGA +V       +E C+  N E
Sbjct:    68 TTGTVDFSQVGASVHQLKGSSSSVGAKRVKTLCVSFKECCEAKNYE 113

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

 Score = 154 (59.3 bits), Expect = 3.5e-11, P = 3.5e-11
 Identities = 34/94 (36%), Positives = 57/94 (60%)

Query:     1 MEALRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIED 60
             ++ L+  I ++  S F + +LD+ FLQL+QL+D ++P FV DV+ +Y  +S K L  +  
Sbjct:     6 VDRLQADINRLLASLFHQGVLDEQFLQLQQLQDETSPNFVYDVINIYFDESEKLLRNLRL 65

Query:    61 E-MAKSPVDFMNLDKCFHQLKGSSASVGANKVLN 93
               M +   D+  +    +QL GSS+S+GA +V N
Sbjct:    66 LLMDREFSDYKKIGLHLNQLVGSSSSIGARRVRN 99

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

 Score = 154 (59.3 bits), Expect = 3.5e-11, P = 3.5e-11
 Identities = 36/106 (33%), Positives = 58/106 (54%)

Query:     4 LRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMA 63
             L+++      S + +  LD  F +L++L+D  +P FV +VVTL+  D  K ++ +   + 
Sbjct:     8 LQRRFCDFTISLYHQGFLDDQFTELKKLQDECSPDFVAEVVTLFFEDCEKLISNMARALD 67

Query:    64 KSP-VDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLE 108
             ++  VDF  +    HQLKGSS+SVGA +V       +E C   N E
Sbjct:    68 QTGNVDFKLVGSSVHQLKGSSSSVGAKRVKGLCVTLKECCDSQNYE 113

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:504955364 AT4G04402 "AT4G04402" [Arabidopsis thaliana (taxid:3702)]

 Score = 87 (35.7 bits), Expect = 0.00065, P = 0.00065
 Identities = 21/59 (35%), Positives = 34/59 (57%)

Query:    21 LDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSP--VDF--MNLDKC 75
             LD  F +L++L+D  +P FV +V++L+  D  K ++ +   + KS   VDF  M L  C
Sbjct:    26 LDDQFTELKKLQDDGSPDFVAEVLSLFFEDCVKLISNMARALDKSTGTVDFGQMKLFSC 84


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        0.316   0.131   0.360    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      109       109   0.00091  102 3  11 22  0.45    30
                                                     29  0.41    32


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:  6
  No. of states in DFA:  522 (56 KB)
  Total size of DFA:  104 KB (2072 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:01
  No. of threads or processors used:  24
  Search cpu time:  13.61u 0.08s 13.69t   Elapsed:  00:00:27
  Total cpu time:  13.61u 0.08s 13.69t   Elapsed:  00:00:28
  Start:  Fri May 10 19:01:25 2013   End:  Fri May 10 19:01:53 2013

GO:0005575 "cellular_component" evidence=ND

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	109
pfam01627	87	pfam01627, Hpt, Hpt domain	6e-04
cd00088	94	cd00088, HPT, Histidine Phosphotransfer domain, in	9e-04

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

 Score = 35.4 bits (82), Expect = 6e-04
 Identities = 15/68 (22%), Positives = 32/68 (47%), Gaps = 1/68 (1%)

Query: 42  DVVTLYLRDSTKTLATIEDEM-AKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKARE 100
           +++ L+L ++ + L  +E  + A    D   L +  H LKGS+ S+G   +    ++  +
Sbjct: 1   ELLELFLEEAPELLEQLEQALLALEAEDLEALFRAAHTLKGSAGSLGLPALAELAHELED 60

Query: 101 HCKEGNLE 108
             + G   
Sbjct: 61  LLRAGRDG 68

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

>gnl|CDD|238041 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

 Score = 35.4 bits (82), Expect = 9e-04
 Identities = 13/54 (24%), Positives = 31/54 (57%), Gaps = 2/54 (3%)

Query: 40 VKDVVTLYLRDSTKTLATIEDEMAK--SPVDFMNLDKCFHQLKGSSASVGANKV 91
          +++++ L+L ++ + L  +E  + +     D   + +  H LKGS+AS+G  ++
Sbjct: 1  MEELLELFLEEAEELLEELERALLELEDAEDLNEIFRAAHTLKGSAASLGLQRL 54

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 involved in important processes such as osmoregulation, cell growth, and differentiation; to date two-component proteins have not been identified in animals; in most prokaryotic systems, the output response is effected directly by the RR, which functions as a transcription factor while in eukaryotic systems, two-component proteins are found at the beginning of signaling pathways where they interface with more conventional eukaryotic signaling strategies such as MAP kinase and cyclic nucleotide cascades. Length = 94

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	109
KOG4747	150	consensus Two-component phosphorelay intermediate	99.91
PF01627	90	Hpt: Hpt domain; InterPro: IPR008207 Two-component	99.58
COG2198	122	ArcB FOG: HPt domain [Signal transduction mechanis	99.58
smart00073	87	HPT Histidine Phosphotransfer domain. Contains an	99.5
cd00088	94	HPT Histidine Phosphotransfer domain, involved in	99.45
TIGR02956	968	TMAO_torS TMAO reductase sytem sensor TorS. This p	99.17
PRK10618	894	phosphotransfer intermediate protein in two-compon	98.85
PRK11466	914	hybrid sensory histidine kinase TorS; Provisional	98.59
PRK11091	779	aerobic respiration control sensor protein ArcB; P	98.48
PRK11107	919	hybrid sensory histidine kinase BarA; Provisional	98.27
COG0643	716	CheA Chemotaxis protein histidine kinase and relat	98.1
PRK10547	670	chemotaxis protein CheA; Provisional	98.03
PRK15347	921	two component system sensor kinase SsrA; Provision	96.98
PRK09959	1197	hybrid sensory histidine kinase in two-component r	96.77
PF07743	78	HSCB_C: HSCB C-terminal oligomerisation domain; In	83.36

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

Probab=99.91  E-value=5.6e-24  Score=149.97  Aligned_cols=108  Identities=38%  Similarity=0.635  Sum_probs=104.0

Q ss_pred             ChHHHHHHHHHHhcccchhhhHHHHHHHHhhhccCCchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhh
Q 048267            1 MEALRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLK   80 (109)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~lD~~~~~L~~L~~~~~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LK   80 (109)
                      |..++.+..+|.+|++++|++|.+|.+|++|+++..|+|+.+++..|++++++.|.+|+.|+..+. |+.+++.+.|.+|
T Consensus         5 i~~~q~~~~d~~~sl~~qgild~qF~qlq~lqD~~~p~fv~ev~~~fF~~s~~~i~~~r~ald~~~-d~k~~~~~~hqlk   83 (150)
T KOG4747|consen    5 IISMQRDVSDYTKSLFDQGILDSQFLQLQELQDDSSPDFVEEVVGLFFEDSERLINNLRLALDCER-DFKKLGSHVHQLK   83 (150)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhcccCccHHHHHHHHHHHHHHHHHHHHHHHHhhHh-HHHHHHHHHHHcc
Confidence            356889999999999999999999999999999999999999999999999999999999999864 9999999999999


Q ss_pred             hhhhhhChHHHHHHHHHHHHHHhccCcCC
Q 048267           81 GSSASVGANKVLNEVNKAREHCKEGNLEA  109 (109)
Q Consensus        81 GSsasiGA~~l~~~c~~lE~~~~~~~~~g  109 (109)
                      |||++|||.++...|..+...|+.+|.+|
T Consensus        84 gssssIGa~kvk~~c~~~~~~~~~~n~eg  112 (150)
T KOG4747|consen   84 GSSSSIGALKVKKVCVGFNEFCEAGNIEG  112 (150)
T ss_pred             CchhhhhHHHHHHHHHHHHHHHhhccchh
Confidence            99999999999999999999999999987

>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=99.58  E-value=7.9e-15  Score=92.67  Aligned_cols=64  Identities=22%  Similarity=0.510  Sum_probs=61.1

Q ss_pred             HHHHHHHHhHHHHHHHHHHHH---hcCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHHhccCc
Q 048267           42 DVVTLYLRDSTKTLATIEDEM---AKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNL  107 (109)
Q Consensus        42 ~li~~F~~d~~~~l~~L~~al---~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~~~~~~  107 (109)
                      +++..|++++++.+..|..++   ..+  |++.+++.+|+|||+++++|+..+..+|..+|..++.++.
T Consensus         1 ell~~f~~~~~~~~~~l~~~~~~~~~~--d~~~l~~~~H~lkG~a~~~g~~~l~~~~~~lE~~~~~~~~   67 (90)
T PF01627_consen    1 ELLDIFLEEAPEDLEQLEQALQALEQE--DWEELRRLAHRLKGSAGNLGAPRLAELAEQLEQALKSGDK   67 (90)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCSSHHC--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHhHh--hHHHHHHHHHHHhhhHHhcCHHHHHHHHHHHHHHHHcCCc
Confidence            589999999999999999999   888  9999999999999999999999999999999999998764

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 ....

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

Probab=99.58  E-value=1.3e-14  Score=98.59  Aligned_cols=78  Identities=23%  Similarity=0.443  Sum_probs=70.3

Q ss_pred             HHHHHhhhccCCchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHHhc
Q 048267           25 FLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKE  104 (109)
Q Consensus        25 ~~~L~~L~~~~~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~~~  104 (109)
                      +..+..+.. +.++++.+++..|+++.+..+..++.++..+  |+..+.+.||+||||++|+|+.+++.+|.++|..++.
T Consensus        11 ~~~~~~~~g-~~~~~~~~ll~~f~~~~~~~l~~l~~~l~~~--d~~~~~~~aH~lkg~a~~lg~~~L~~~~~~lE~~~~~   87 (122)
T COG2198          11 IELLVRLIG-GDPDLLRELLAMFLEEAPAQLEQLESALAAE--DNDGLARLAHRLKGSAASLGLPALAQLCQQLEDALRS   87 (122)
T ss_pred             HHHHHHHcC-CChHHHHHHHHHHHHHhHHHHHHHHHHHhcC--CcHHHHHHHHHHHhHHHhccHHHHHHHHHHHHHHHHc
Confidence            334444432 5699999999999999999999999999999  9999999999999999999999999999999999988


Q ss_pred             c
Q 048267          105 G  105 (109)
Q Consensus       105 ~  105 (109)
                      +
T Consensus        88 ~   88 (122)
T COG2198          88 G   88 (122)
T ss_pred             C
Confidence            3

>smart00073 HPT Histidine Phosphotransfer domain

Probab=99.50  E-value=5e-14  Score=89.50  Aligned_cols=63  Identities=17%  Similarity=0.311  Sum_probs=59.4

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHHhccC
Q 048267           42 DVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGN  106 (109)
Q Consensus        42 ~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~~~~~  106 (109)
                      +++..|+++.++.+..|+.++..+  |++.+.+.+|+|||+++++|+..+..+|..+|..++...
T Consensus         2 e~~~~f~~~~~~~l~~l~~~~~~~--~~~~l~~~~H~LKG~a~~~g~~~l~~~~~~lE~~~~~~~   64 (87)
T smart00073        2 EELAEFLQSLEEGLLELEKALDAQ--DVNEIFRAAHTLKGSAGSLGLQQLAQLCHQLENLLDAAR   64 (87)
T ss_pred             hHHHHHHHHHHHHHHHHHhCcCHh--HHHHHHHHHHhhhhhHHhcCHHHHHHHHHHHHHHHHHHH
Confidence            688999999999999999999888  999999999999999999999999999999999887643

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=99.45  E-value=2.5e-13  Score=87.85  Aligned_cols=64  Identities=20%  Similarity=0.392  Sum_probs=60.8

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHh----cCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHHhccC
Q 048267           41 KDVVTLYLRDSTKTLATIEDEMA----KSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGN  106 (109)
Q Consensus        41 ~~li~~F~~d~~~~l~~L~~al~----~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~~~~~  106 (109)
                      .+++..|+++.+..+..|..++.    .+  |+..+.+.+|+||||++++|+..+..+|..+|.+++.+.
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  999999999999999999999999999999999998864

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=99.17  E-value=1.5e-10  Score=99.25  Aligned_cols=73  Identities=26%  Similarity=0.377  Sum_probs=68.8

Q ss_pred             cCCchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHHhccCcC
Q 048267           34 ISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLE  108 (109)
Q Consensus        34 ~~~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~~~~~~~  108 (109)
                      ..+++.+.+++..|+++.+..+..|..++..+  |+..+++.+|+|||+++++|+..+..+|.+||.+++.++.+
T Consensus       875 ~~~~~~~~~~~~~f~~~~~~~~~~l~~~~~~~--d~~~~~~~~H~lkg~~~~~g~~~l~~~~~~le~~~~~~~~~  947 (968)
T TIGR02956       875 VLGVEKVRQLVALFKTSSAEQLEELSAARAVD--DDAQIKKLAHKLKGSAGSLGLTQLTQLCQQLEKQGKTGALE  947 (968)
T ss_pred             hcCcHHHHHHHHHHHHhhHHHHHHHHHHHhCC--CHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHhcccCCcc
Confidence            34678999999999999999999999999999  99999999999999999999999999999999999988753

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=98.85  E-value=8.1e-09  Score=90.21  Aligned_cols=67  Identities=21%  Similarity=0.239  Sum_probs=62.7

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHHhccCcC
Q 048267           40 VKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLE  108 (109)
Q Consensus        40 ~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~~~~~~~  108 (109)
                      -..++..|++.++..+..|..++.++  |+.++++.||+|||+++.+|+..++.+|..||.+++.++..
T Consensus       809 ~s~~~~lF~~t~~~di~~L~~~~~~~--D~~~l~~~aHrLKG~~aml~l~~l~~~~~~LE~~i~~~~~~  875 (894)
T PRK10618        809 ASDYYALFVDTVPDDVKRLYTEAATS--DFASLAQTAHRLKGVFAMLNLVPGKQLCETLEHLIREKDEP  875 (894)
T ss_pred             hhhHHHHHHHhhHHHHHHHHHHHhcc--CHHHHHHHHHHHHHHHHHcChHHHHHHHHHHHHHHhhCChH
Confidence            34567899999999999999999999  99999999999999999999999999999999999988753

>PRK11466 hybrid sensory histidine kinase TorS; Provisional

Probab=98.59  E-value=1.8e-07  Score=80.17  Aligned_cols=66  Identities=18%  Similarity=0.254  Sum_probs=61.8

Q ss_pred             CchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHHh
Q 048267           36 NPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCK  103 (109)
Q Consensus        36 ~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~~  103 (109)
                      +++.+.+++..|.+++...+..++.+...+  |+..+++.+|.|||+++++|+..+...|.++|..+.
T Consensus       821 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~ah~lkg~~~~lg~~~l~~~~~~le~~~~  886 (914)
T PRK11466        821 GTEKIHEWLALFKQHALPLLDEIDIARASQ--DSEKIKRAAHQLKSSCSSLGMRQASQACAQLEQQPL  886 (914)
T ss_pred             CHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhCCCC
Confidence            567788999999999999999999999999  999999999999999999999999999999998753

>PRK11091 aerobic respiration control sensor protein ArcB; Provisional

Probab=98.48  E-value=5.1e-07  Score=76.54  Aligned_cols=76  Identities=16%  Similarity=0.284  Sum_probs=66.3

Q ss_pred             HhhhccCCchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHHhccC
Q 048267           29 EQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGN  106 (109)
Q Consensus        29 ~~L~~~~~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~~~~~  106 (109)
                      ..+.+..++..+.+.+..|.+..+..+..|..++..+  |+..+...+|+|||+++++|+..++.+|..+|.....+.
T Consensus       672 ~~~~~~~g~~~~~~~l~~~~~~~~~~~~~l~~~l~~~--d~~~~~~~ah~l~g~~~~~g~~~l~~~~~~le~~~~~~~  747 (779)
T PRK11091        672 EQYVELVGPKLITDSLAVFEKMMPGYLSVLDSNLTAR--DQKGIVEEAHKIKGAAGSVGLRHLQQLAQQIQSPDLPAW  747 (779)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhCcCcccc
Confidence            3333333567888999999999999999999999999  999999999999999999999999999999998766544

>PRK11107 hybrid sensory histidine kinase BarA; Provisional

Probab=98.27  E-value=5.1e-06  Score=70.92  Aligned_cols=69  Identities=19%  Similarity=0.331  Sum_probs=64.6

Q ss_pred             CchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHHhccC
Q 048267           36 NPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGN  106 (109)
Q Consensus        36 ~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~~~~~  106 (109)
                      .++...+++..|.+..+..+..|..++...  |...+...+|.+||+++++|+..+..+|..+|..++.+.
T Consensus       822 ~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~h~l~g~~~~~g~~~l~~~~~~le~~~~~~~  890 (919)
T PRK11107        822 KPDLARDMLQMLLDFLPEVRNKVEEALAGE--DPEGLLDLIHKLHGSCSYSGVPRLKKLCQLIEQQLRSGT  890 (919)
T ss_pred             CHHHHHHHHHHHHHhHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHcCC
Confidence            467888999999999999999999999998  999999999999999999999999999999999998653

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

Probab=98.10  E-value=1e-05  Score=69.68  Aligned_cols=64  Identities=16%  Similarity=0.339  Sum_probs=53.8

Q ss_pred             hhHHHHHHHHHHhHHHHHHHHHHHHh---cCCcCH---HHHHHHhHHhhhhhhhhChHHHHHHHHHHHHH
Q 048267           38 GFVKDVVTLYLRDSTKTLATIEDEMA---KSPVDF---MNLDKCFHQLKGSSASVGANKVLNEVNKAREH  101 (109)
Q Consensus        38 ~f~~~li~~F~~d~~~~l~~L~~al~---~~~~D~---~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~  101 (109)
                      .-..++...|++++++.+..|..++-   ..+.|.   .++.|.||+|||+++.+|...++.+|..+|..
T Consensus         4 ~~~~~~~~~F~~Ea~e~l~~l~~~Ll~LE~~~~d~~~ln~ifRaaHTlKG~a~~~g~~~l~~l~H~~E~~   73 (716)
T COG0643           4 MDMEEILEDFLEEAEELLQALEQALLALEPDPEDLDLLNAIFRAAHTLKGGAGTLGLTTLAELAHAMEDL   73 (716)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHhHhhccCCCCCHHHHHHHHHHHHhhhhhhhhcChhHHHHHHHHHHHH
Confidence            45678999999999999999998653   222243   47889999999999999999999999999974

>PRK10547 chemotaxis protein CheA; Provisional

Probab=98.03  E-value=2.2e-05  Score=67.21  Aligned_cols=62  Identities=15%  Similarity=0.262  Sum_probs=52.4

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHh---cCCcCH---HHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHH
Q 048267           41 KDVVTLYLRDSTKTLATIEDEMA---KSPVDF---MNLDKCFHQLKGSSASVGANKVLNEVNKAREHC  102 (109)
Q Consensus        41 ~~li~~F~~d~~~~l~~L~~al~---~~~~D~---~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~  102 (109)
                      .+++..|++++.+++..|+..+-   ..+.|.   ..+-|.+|+|||+|+.+|...+..+|..+|..-
T Consensus         4 ~~~l~~F~~Ea~E~l~~le~~Ll~LE~~p~d~e~in~lFRa~HTiKG~a~~~g~~~i~~l~H~~E~ll   71 (670)
T PRK10547          4 SDFYQTFFDEADELLADMEQHLLVLDPEAPDAEQLNAIFRAAHSIKGGAGTFGFTVLQETTHLMENLL   71 (670)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhhhhHHhhcCchHHHHHHHHHHHHH
Confidence            47899999999999999998774   332253   467789999999999999999999999999754

>PRK15347 two component system sensor kinase SsrA; Provisional

Probab=96.98  E-value=0.0034  Score=53.94  Aligned_cols=62  Identities=19%  Similarity=0.303  Sum_probs=53.0

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHHhccCc
Q 048267           42 DVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNL  107 (109)
Q Consensus        42 ~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~~~~~~  107 (109)
                      .+-..+.+.....+..+..++..+  |  .+++.+|.+||+++.+|+..+...|.++|..++.+..
T Consensus       837 ~l~~~~~~~l~~~~~~~~~~~~~~--~--~l~~~~h~i~~~~~~~g~~~l~~~~~~~e~~~~~~~~  898 (921)
T PRK15347        837 ALNSKLYQSLLLLLAQIEQAVENQ--E--VLSQLLHTLKGCAGQAGLTELQCAVIDLENALETGEI  898 (921)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCH--H--HHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHhcCCC
Confidence            344555666778888999999887  6  8999999999999999999999999999999887653

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

Probab=96.77  E-value=0.019  Score=51.07  Aligned_cols=68  Identities=12%  Similarity=0.309  Sum_probs=61.6

Q ss_pred             CchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHHhcc
Q 048267           36 NPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEG  105 (109)
Q Consensus        36 ~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~~~~  105 (109)
                      ......+++..+...+...+..+..+...+  |...+..++|.+||++..+|+..+...|.++|......
T Consensus      1098 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~h~~~g~~~~l~~~~l~~~~~~~e~~~~~~ 1165 (1197)
T PRK09959       1098 DLQLMQEILMTFQHETHKDLPAAFHALEAG--DNRTFHQCIHRIHGAANILNLQKLINISHQLEITPVSD 1165 (1197)
T ss_pred             CHHHHHHHHHHHHHhhHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHhhhcC
Confidence            446788899999999999999999999999  99999999999999999999999999999999887654

>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=83.36  E-value=8.2  Score=23.71  Aligned_cols=44  Identities=7%  Similarity=0.191  Sum_probs=36.4

Q ss_pred             CCchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhh
Q 048267           35 SNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLK   80 (109)
Q Consensus        35 ~~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LK   80 (109)
                      ++.+-+..+....-......+..|..+++.+  ||.......+.||
T Consensus        24 ~~~~~L~~l~~~~~~~~~~~~~~l~~~f~~~--d~~~A~~~~~kLk   67 (78)
T PF07743_consen   24 DDEAELEELKKEIEERIKELIKELAEAFDAK--DWEEAKEALRKLK   67 (78)
T ss_dssp             TSHHHHHHHHHHHHHHHHHHHHHHHHHHHTT---HHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHccC--cHHHHHHHHHHHH
Confidence            3446677888888888888999999999988  9999999999886

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	109
1wn0_A	145	Crystal Structure Of Histidine-containing Phosphotr		3e-15
1yvi_A	149	X-Ray Structure Of Putative Histidine-Containing Ph		1e-14
4euk_B	159	Crystal Structure Length = 159		9e-14
3us6_A	153	Crystal Structure Of Histidine-Containing Phosphotr		1e-12

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

Iteration: 1
 Score = 77.0 bits (188), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 43/105 (40%), Positives = 64/105 (60%), Gaps = 1/105 (0%)
Query: 3   ALRQQIAKMRQSFFDEEILDKYFLQLEQL-EDISNPGFVKDVVTLYLRDSTKTLATIEDE 61
           ALR+Q+  +  S F   ++D+ F QL+ L ED   PGFV +VVTL+  D+ + ++ +   
Sbjct: 5   ALREQLNALLSSMFASGLVDEQFQQLQMLQEDGGTPGFVAEVVTLFCDDADRIISELAAL 64
Query: 62  MAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGN 106
           + +  VDF  +D   HQLKGSSASVGA KV     + R+ C++ N
Sbjct: 65  LDQPIVDFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQLCQDKN 109

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

Iteration: 1
 Score = 74.7 bits (182), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 41/103 (39%), Positives = 62/103 (60%), Gaps = 1/103 (0%)
Query: 3   ALRQQIAKMRQSFFDEEILDKYFLQLEQLED-ISNPGFVKDVVTLYLRDSTKTLATIEDE 61
           ALR Q+  +  S F + ++D+ F QL+ L+D    PGFV +VVTL+  D+ + +  I   
Sbjct: 5   ALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEIATL 64
Query: 62  MAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKE 104
           + +  V+F  +D   HQLKGSSASVGA KV     + R+ C++
Sbjct: 65  LEQPVVNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQD 107

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

Iteration: 1
 Score = 72.0 bits (175), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 46/97 (47%), Positives = 62/97 (63%)
Query: 13  QSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNL 72
           +S F E ILD  FLQL+QL+D SNP FV  VVTL+ +DS + L  +   + +  VDF  +
Sbjct: 20  KSLFLEGILDSQFLQLQQLQDESNPDFVSQVVTLFFQDSDRILNDLSLSLDQQVVDFKKV 79
Query: 73  DKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
           D   HQLKGSS+S+GA +V N     R  C++ N+EA
Sbjct: 80  DPHVHQLKGSSSSIGAQRVKNACVVFRSFCEQQNVEA 116

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

Iteration: 1
 Score = 68.6 bits (166), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 44/106 (41%), Positives = 64/106 (60%)
Query: 4   LRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMA 63
           +R+Q     +S F E  LD  FLQL+QL+D +NP FV +VV+L+  DS + L  +   + 
Sbjct: 6   MRRQWVDYIKSMFMEGFLDGQFLQLQQLQDENNPEFVFEVVSLFFDDSERILKDLSFAVD 65
Query: 64  KSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
           +  +DF  +D   HQ KGSSAS+GA +V N     R  C+E N++A
Sbjct: 66  QQSIDFKKVDAHVHQFKGSSASIGAQRVKNSCVAFRNFCEEQNIDA 111

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	109
1yvi_A	149	Histidine-containing phosphotransfer protein; stru	1e-28
3us6_A	153	Histidine-containing phosphotransfer protein type	5e-28
2r25_A	167	Phosphorelay intermediate protein YPD1; alpha5-BET	6e-14
1y6d_A	120	Phosphorelay protein LUXU; phosphotransferase, fou	1e-07
2a0b_A	125	HPT domain; sensory transduction, histidine kinase	1e-05

>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 =  100 bits (249), Expect = 1e-28
 Identities = 41/108 (37%), Positives = 64/108 (59%), Gaps = 1/108 (0%)

Query: 2   EALRQQIAKMRQSFFDEEILDKYFLQLEQLEDIS-NPGFVKDVVTLYLRDSTKTLATIED 60
            ALR Q+  +  S F + ++D+ F QL+ L+D    PGFV +VVTL+  D+ + +  I  
Sbjct: 4   AALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEIAT 63

Query: 61  EMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLE 108
            + +  V+F  +D   HQLKGSSASVGA KV     + R+ C++ + +
Sbjct: 64  LLEQPVVNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQDKSRD 111

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

 Score = 98.9 bits (246), Expect = 5e-28
 Identities = 44/109 (40%), Positives = 65/109 (59%)

Query: 1   MEALRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIED 60
           +  +R+Q     +S F E  LD  FLQL+QL+D +NP FV +VV+L+  DS + L  +  
Sbjct: 3   VGQMRRQWVDYIKSMFMEGFLDGQFLQLQQLQDENNPEFVFEVVSLFFDDSERILKDLSF 62

Query: 61  EMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
            + +  +DF  +D   HQ KGSSAS+GA +V N     R  C+E N++A
Sbjct: 63  AVDQQSIDFKKVDAHVHQFKGSSASIGAQRVKNSCVAFRNFCEEQNIDA 111

>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 = 62.9 bits (152), Expect = 6e-14
 Identities = 17/94 (18%), Positives = 41/94 (43%), Gaps = 2/94 (2%)

Query: 13  QSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNL 72
            +   E I      ++  ++D  +  F K ++  ++  +  T A ++ ++     +   L
Sbjct: 2   STIPSEIINWTILNEIISMDD-DDSDFSKGLIIQFIDQAQTTFAQMQRQL-DGEKNLTEL 59

Query: 73  DKCFHQLKGSSASVGANKVLNEVNKAREHCKEGN 106
           D   H LKGSSA++G  ++     + +   ++  
Sbjct: 60  DNLGHFLKGSSAALGLQRIAWVCERIQNLGRKME 93

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

 Score = 45.6 bits (108), Expect = 1e-07
 Identities = 17/98 (17%), Positives = 41/98 (41%), Gaps = 4/98 (4%)

Query: 12  RQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMN 71
                + ++L++   ++E+L        V  ++ ++L +    + T+ +         + 
Sbjct: 3   HHHHMNTDVLNQ--QKIEELSAEIGSDNVPVLLDIFLGEMDSYIGTLTELQGSE--QLLY 58

Query: 72  LDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
           L +  H LK S+AS GA+++        +  K   L+ 
Sbjct: 59  LKEISHALKSSAASFGADRLCERAIAIDKKAKANQLQE 96

>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 = 40.4 bits (94), Expect = 1e-05
 Identities = 16/75 (21%), Positives = 35/75 (46%), Gaps = 4/75 (5%)

Query: 17 DEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCF 76
           E +LD     LEQ  ++  P  + D + ++ +     ++ +E  +     D   + +  
Sbjct: 8  SEALLD--IPMLEQYLELVGPKLITDGLAVFEKMMPGYVSVLESNLTAQ--DKKGIVEEG 63

Query: 77 HQLKGSSASVGANKV 91
          H++KG++ SVG   +
Sbjct: 64 HKIKGAAGSVGLRHL 78

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	109
3us6_A	153	Histidine-containing phosphotransfer protein type	99.97
1yvi_A	149	Histidine-containing phosphotransfer protein; stru	99.97
2r25_A	167	Phosphorelay intermediate protein YPD1; alpha5-BET	99.94
2a0b_A	125	HPT domain; sensory transduction, histidine kinase	99.81
1y6d_A	120	Phosphorelay protein LUXU; phosphotransferase, fou	99.79
3myf_A	119	Sensor protein; HPT, histidine kinase, PSI, MCSG,	99.73
3iqt_A	123	Signal transduction histidine-protein kinase BARA;	99.67
2ooc_A	113	Histidine phosphotransferase; NP_419930.1, hypothe	99.61
1sr2_A	116	Putative sensor-like histidine kinase YOJN; four-h	99.56
1tqg_A	105	Chemotaxis protein CHEA; histidine kinase, phospho	99.51
2ld6_A	139	Chemotaxis protein CHEA; TMP1, transferase; NMR {T	99.38
1i5n_A	146	Chemotaxis protein CHEA; four-helix bundle, transf	99.34
2lch_A	113	Protein OR38; structural genomics, northeast struc	99.34
3kyj_A	144	CHEA3, putative histidine protein kinase; protein-	99.01
2lp4_A	225	Chemotaxis protein CHEA; two component signaling s	98.7
2cw9_A	194	Translocase of inner mitochondrial membrane; struc	85.99
2di0_A	71	Activating signal cointegrator 1 complex subunit 2	84.94
1gp8_A	40	Protein (scaffolding protein); coat protein-bindin	81.76

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

Probab=99.97  E-value=9.7e-32  Score=189.98  Aligned_cols=107  Identities=40%  Similarity=0.639  Sum_probs=103.5

Q ss_pred             hHHHHHHHHHHhcccchhhhHHHHHHHHhhhccCCchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhh
Q 048267            2 EALRQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKG   81 (109)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~lD~~~~~L~~L~~~~~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKG   81 (109)
                      .+|++++..|++|++++|+||++|.+|++|+++++|+|+.++|..|++++++.+..|+.+++++++|+.+++++||+|||
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            57999999999999999999999999999999999999999999999999999999999999887799999999999999


Q ss_pred             hhhhhChHHHHHHHHHHHHHHhccCcC
Q 048267           82 SSASVGANKVLNEVNKAREHCKEGNLE  108 (109)
Q Consensus        82 SsasiGA~~l~~~c~~lE~~~~~~~~~  108 (109)
                      ||+||||.+|+.+|.++|.+|+.++.+
T Consensus        84 ss~~lGa~~l~~~c~~lE~~~~~~~~~  110 (153)
T 3us6_A           84 SSASIGAQRVKNSCVAFRNFCEEQNID  110 (153)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHhcHHHHHHHHHHHHHHHHcCCHH
Confidence            999999999999999999999999865

>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=99.97  E-value=2.2e-30  Score=181.67  Aligned_cols=107  Identities=38%  Similarity=0.625  Sum_probs=100.0

Q ss_pred             hHHHHHHHHHHhcccchhhhHHHHHHHHhhhccCC-chhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhh
Q 048267            2 EALRQQIAKMRQSFFDEEILDKYFLQLEQLEDISN-PGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLK   80 (109)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~lD~~~~~L~~L~~~~~-~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LK   80 (109)
                      ++|+.|++.|++|++++|+||++|.+|++|+++++ |+|+.+||.+|++++++.+..|+.|++.+++|+.++++++|+||
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            58999999999999999999999999999988888 99999999999999999999999999987568999999999999


Q ss_pred             hhhhhhChHHHHHHHHHHHHHHhccCcC
Q 048267           81 GSSASVGANKVLNEVNKAREHCKEGNLE  108 (109)
Q Consensus        81 GSsasiGA~~l~~~c~~lE~~~~~~~~~  108 (109)
                      |||+||||.+|+.+|.++|.+|+.++.+
T Consensus        84 Gssa~lGa~~l~~~c~~lE~~~~~~~~~  111 (149)
T 1yvi_A           84 GSSASVGAQKVKFTCMQFRQFCQDKSRD  111 (149)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTCHH
T ss_pred             hHHHHHhHHHHHHHHHHHHHHHHcCCHH
Confidence            9999999999999999999999999864

>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=99.94  E-value=2.3e-26  Score=164.87  Aligned_cols=90  Identities=20%  Similarity=0.362  Sum_probs=86.6

Q ss_pred             cccchhhhHH-HHHHHHhhhccCCchhHHHHHHHHHHhHHHHHHHHHHHHh-cCCcCHHHHHHHhHHhhhhhhhhChHHH
Q 048267           14 SFFDEEILDK-YFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMA-KSPVDFMNLDKCFHQLKGSSASVGANKV   91 (109)
Q Consensus        14 ~~~~~~~lD~-~~~~L~~L~~~~~~~f~~~li~~F~~d~~~~l~~L~~al~-~~~~D~~~l~~~aH~LKGSsasiGA~~l   91 (109)
                      ||.+.|+||+ +|.+|++|++++ |+|+.+||.+|+++++++|..|+.|++ .+  |+.++++++|+|||||+||||.+|
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            5778899998 699999999887 999999999999999999999999999 77  999999999999999999999999


Q ss_pred             HHHHHHHHHHHhccC
Q 048267           92 LNEVNKAREHCKEGN  106 (109)
Q Consensus        92 ~~~c~~lE~~~~~~~  106 (109)
                      +.+|.+||.+|+.++
T Consensus        79 ~~~C~~le~~~r~~n   93 (167)
T 2r25_A           79 AWVCERIQNLGRKME   93 (167)
T ss_dssp             HHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHhcC
Confidence            999999999999999

>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=99.81  E-value=3.7e-20  Score=125.32  Aligned_cols=88  Identities=17%  Similarity=0.190  Sum_probs=78.7

Q ss_pred             ccchhhhHHH-HHHHHhhhccCCchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhhhhhhhChHHHHH
Q 048267           15 FFDEEILDKY-FLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLN   93 (109)
Q Consensus        15 ~~~~~~lD~~-~~~L~~L~~~~~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~   93 (109)
                      +-..++||+. +.+|.++.   |++++.+++..|++++++.+..|..++..+  |++.+.+.+|+|||||+|+|+.+|+.
T Consensus         6 ~~~~~~lD~~~l~~l~~~~---g~~~~~~ll~~F~~e~~~~l~~L~~a~~~~--d~~~~~~~aH~LKGsa~~lG~~~l~~   80 (125)
T 2a0b_A            6 SKSEALLDIPMLEQYLELV---GPKLITDGLAVFEKMMPGYVSVLESNLTAQ--DKKGIVEEGHKIKGAAGSVGLRHLQQ   80 (125)
T ss_dssp             CHHHHHSCHHHHHHHHHHT---CHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ccccccCCHHHHHHHHHHh---CHHHHHHHHHHHHHHhHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            3456788875 66666654   789999999999999999999999999999  99999999999999999999999999


Q ss_pred             HHHHHHHHHhccCc
Q 048267           94 EVNKAREHCKEGNL  107 (109)
Q Consensus        94 ~c~~lE~~~~~~~~  107 (109)
                      +|..+|..++.++.
T Consensus        81 ~~~~lE~~~~~~~~   94 (125)
T 2a0b_A           81 LGQQIQSPDLPAWE   94 (125)
T ss_dssp             HHHHHTCTTSTTHH
T ss_pred             HHHHHHHHHHcCCH
Confidence            99999999987754

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

Probab=99.79  E-value=1.9e-20  Score=127.05  Aligned_cols=82  Identities=20%  Similarity=0.310  Sum_probs=74.9

Q ss_pred             HHHHHhhhccCCchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHHhc
Q 048267           25 FLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKE  104 (109)
Q Consensus        25 ~~~L~~L~~~~~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~~~  104 (109)
                      |.+|.+|+++.||+++.+++..|++++++.|..|+.+.+.+  |...+.+.+|+|||||+++||.+|+.+|.++|..+|.
T Consensus        14 ~~~l~~L~~~~g~~~~~e~~~~F~~e~~e~l~~L~~a~~~~--~~~~i~r~aH~LKGsAa~~Ga~~l~~~~~~lE~~~r~   91 (120)
T 1y6d_A           14 QQKIEELSAEIGSDNVPVLLDIFLGEMDSYIGTLTELQGSE--QLLYLKEISHALKSSAASFGADRLCERAIAIDKKAKA   91 (120)
T ss_dssp             TTHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHTTTTSSHH--HHHHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHHcccccc--hHHHHHHHHHHHhhhHHHhCHHHHHHHHHHHHHHHhC
Confidence            45666777777899999999999999999999999998888  8899999999999999999999999999999999999


Q ss_pred             cCcC
Q 048267          105 GNLE  108 (109)
Q Consensus       105 ~~~~  108 (109)
                      |+..
T Consensus        92 g~~~   95 (120)
T 1y6d_A           92 NQLQ   95 (120)
T ss_dssp             HHHC
T ss_pred             CChh
Confidence            8654

>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=99.73  E-value=2.5e-17  Score=111.56  Aligned_cols=87  Identities=15%  Similarity=0.200  Sum_probs=76.5

Q ss_pred             cchhhhHHHHHHHHhhhccCCchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhhhhhhhChHHHHHHH
Q 048267           16 FDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEV   95 (109)
Q Consensus        16 ~~~~~lD~~~~~L~~L~~~~~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c   95 (109)
                      ||..++|++  .+.++. .|++++..+++..|+++.++.+..|+.+++.+  |++++.+.+|+|||||+++|+++|..+|
T Consensus         1 ~~~~~~D~~--~~l~~~-~g~~~L~~~lL~~fl~~~~~~~~~l~~a~~~~--d~~~l~~~aHkLkGaa~~~Ga~~L~~~~   75 (119)
T 3myf_A            1 FDLHTLNWD--LCLTQA-NHKSNLALEMLKMLLDSLPETVEKIQTALGQN--DQATMLSTIHKLHGASCYCGVPTTQRLC   75 (119)
T ss_dssp             -CTTTCCHH--HHHHHT-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHHTTTTCHHHHHHH
T ss_pred             CCccccCHH--HHHHHh-CCCHHHHHHHHHHHHHhHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHH
Confidence            456677875  333332 35789999999999999999999999999999  9999999999999999999999999999


Q ss_pred             HHHHHHHhccCc
Q 048267           96 NKAREHCKEGNL  107 (109)
Q Consensus        96 ~~lE~~~~~~~~  107 (109)
                      ..+|.++|.++.
T Consensus        76 ~~LE~~~r~~~~   87 (119)
T 3myf_A           76 QEIESALKRQTP   87 (119)
T ss_dssp             HHHHHHHHTTCC
T ss_pred             HHHHHHHHcCCC
Confidence            999999999863

>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=99.67  E-value=2.2e-16  Score=107.67  Aligned_cols=84  Identities=15%  Similarity=0.222  Sum_probs=75.3

Q ss_pred             hhhHHHHHHHHhhhccCCchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHH
Q 048267           19 EILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKA   98 (109)
Q Consensus        19 ~~lD~~~~~L~~L~~~~~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~l   98 (109)
                      +.+|++  .+.++. .+++++..+++.+|+++.++.+..|+.++..+  |++++.+.+|+|||||+++|+++|..+|..|
T Consensus        13 ~~~D~~--~~l~~a-~g~~~La~elL~~fl~~~~~~~~~l~~a~~~~--d~~~l~~~aHkLkGaa~~~Ga~~L~~~c~~L   87 (123)
T 3iqt_A           13 ATLDWQ--LALRQA-AGKTDLARDMLQMLLDFLPEVRNKVEEQLVGE--NPEGLVDLIHKLHGSCGYSGVPRMKNLCQLI   87 (123)
T ss_dssp             GTCCHH--HHHHHT-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTTC--CCTTHHHHHHHHHHHHTTSCCHHHHHHHHHH
T ss_pred             CccCHH--HHHHHh-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHHHH
Confidence            567765  444443 45799999999999999999999999999999  9999999999999999999999999999999


Q ss_pred             HHHHhccCc
Q 048267           99 REHCKEGNL  107 (109)
Q Consensus        99 E~~~~~~~~  107 (109)
                      |.++|.|+.
T Consensus        88 E~~~r~g~~   96 (123)
T 3iqt_A           88 EQQLRSGTK   96 (123)
T ss_dssp             HHHHHTTCC
T ss_pred             HHHHHcCCC
Confidence            999999864

>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=99.61  E-value=3.4e-16  Score=105.10  Aligned_cols=76  Identities=16%  Similarity=0.261  Sum_probs=64.0

Q ss_pred             hhhHHHHHHHHhhhccCCchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHH
Q 048267           19 EILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKA   98 (109)
Q Consensus        19 ~~lD~~~~~L~~L~~~~~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~l   98 (109)
                      +.+|.+  .|..+ ..++|+|+.+|+.+|++++++.+..|..+  ..  |+   ++++|+|||||++|||.+++.+|.++
T Consensus         9 ~~iD~~--~L~~~-~~gd~~~~~elL~~F~~~~~~~l~~L~~a--~~--~~---~~~aH~LKGsA~~iGA~~l~~~c~~l   78 (113)
T 2ooc_A            9 GAVDFA--YLEGF-AAGDFAVVDEVLALFREQAALWAPMLDPT--HP--GW---KDAVHTVKGAARGVGAFNLGEVCERC   78 (113)
T ss_dssp             CCSCHH--HHHHH-TTTCHHHHHHHHHHHHHHHHHHGGGCSTT--ST--TH---HHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             CCcCHH--HHHhH-hCCCHHHHHHHHHHHHHHhHHHHHHHHHh--hH--HH---HHHHHHHHHHHHHcCHHHHHHHHHHH
Confidence            445543  44444 34578999999999999999999999988  33  65   79999999999999999999999999


Q ss_pred             HHHHhc
Q 048267           99 REHCKE  104 (109)
Q Consensus        99 E~~~~~  104 (109)
                      |..++.
T Consensus        79 E~~~~~   84 (113)
T 2ooc_A           79 EAGQES   84 (113)
T ss_dssp             HTTSSC
T ss_pred             HHHhhh
Confidence            998865

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

Probab=99.56  E-value=4e-15  Score=100.51  Aligned_cols=71  Identities=18%  Similarity=0.203  Sum_probs=66.5

Q ss_pred             CCchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHHhccCc
Q 048267           35 SNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNL  107 (109)
Q Consensus        35 ~~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~~~~~~  107 (109)
                      +.+..-.+++.+|++..++.+..|..++..+  |+..+++.+|+||||++++|+..+..+|.++|..++.++.
T Consensus        28 ~k~~~~~d~l~~fl~s~~~Dl~~L~~A~~~~--D~~~l~~~aHrLKGaa~~lG~~~L~~lc~~LE~~~~~~~~   98 (116)
T 1sr2_A           28 NAQLHASGYYALFVDTVPDDVKRLYTEAATS--DFAALAQTAHRLKGVFAMLNLVPGKQLCETLEHLIREKDV   98 (116)
T ss_dssp             HHHHHHHTTHHHHTTTHHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCH
T ss_pred             cchhchHHHHHHHHHHhHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHcCCH
Confidence            3456778899999999999999999999999  9999999999999999999999999999999999998864

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

Probab=99.51  E-value=4.9e-14  Score=92.44  Aligned_cols=66  Identities=11%  Similarity=0.261  Sum_probs=59.2

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHh--------cCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHH---hccCc
Q 048267           40 VKDVVTLYLRDSTKTLATIEDEMA--------KSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHC---KEGNL  107 (109)
Q Consensus        40 ~~~li~~F~~d~~~~l~~L~~al~--------~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~---~~~~~  107 (109)
                      +.+++..|++++++.+..|+.++.        ..  ++..+.+.+|+|||||+++|+..+..+|..+|..+   |.++.
T Consensus         3 ~~~l~~~F~~e~~e~l~~l~~~l~~le~~~~~~~--~~~~l~r~~HtLKGsa~~~G~~~l~~la~~lE~~l~~~r~~~~   79 (105)
T 1tqg_A            3 HMEYLGVFVDETKEYLQNLNDTLLELEKNPEDME--LINEAFRALHTLKGMAGTMGFSSMAKLCHTLENILDKARNSEI   79 (105)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCTTCHH--HHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHH--HHHHHHHHHHhhhHHHHhcChHHHHHHHHHHHHHHHHHHhCCC
Confidence            468999999999999999999995        34  67899999999999999999999999999999876   56553

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

Probab=99.38  E-value=1.4e-12  Score=90.01  Aligned_cols=65  Identities=11%  Similarity=0.288  Sum_probs=58.3

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHh--------cCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHH---hccCc
Q 048267           41 KDVVTLYLRDSTKTLATIEDEMA--------KSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHC---KEGNL  107 (109)
Q Consensus        41 ~~li~~F~~d~~~~l~~L~~al~--------~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~---~~~~~  107 (109)
                      .+++..|++++++.+..|..++.        ..  ++..+.+.+|+|||||+++|+..++.+|..+|...   |.++.
T Consensus         3 ~ell~~Fl~Ea~e~L~~l~~~l~~le~~~~d~~--~~~~l~R~aHTLKGsA~~~G~~~l~~lah~lE~~l~~lr~g~~   78 (139)
T 2ld6_A            3 EEYLGVFVDETKEYLQNLNDTLLELEKNPEDME--LINEAFRALHTLKGMAGTMGFSSMAKLCHTLENILDKARNSEI   78 (139)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHCSSSSS--HHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHH--HHHHHHHHHHHHhHHHHhcCHHHHHHHHHHHHHHHHHHHcCCC
Confidence            47899999999999999999994        34  78999999999999999999999999999999865   66654

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

Probab=99.34  E-value=1.5e-12  Score=90.55  Aligned_cols=65  Identities=14%  Similarity=0.338  Sum_probs=57.9

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHh--------cCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHH---HhccCc
Q 048267           41 KDVVTLYLRDSTKTLATIEDEMA--------KSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREH---CKEGNL  107 (109)
Q Consensus        41 ~~li~~F~~d~~~~l~~L~~al~--------~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~---~~~~~~  107 (109)
                      .+++..|++++++.|..|+.++.        ..  ++..+.+.+|+|||||+++|+..++.+|..+|..   .|.++.
T Consensus         6 ~ell~~Fl~Ea~e~L~~le~~L~~le~~~~d~~--~l~~lfR~aHTLKGsA~~~G~~~l~~lah~lE~~l~~~r~g~~   81 (146)
T 1i5n_A            6 SDFYQTFFDEADELLADMEQHLLDLVPESPDAE--QLNAIFRAAHSIKGGAGTFGFTILQETTHLMENLLDEARRGEM   81 (146)
T ss_dssp             GGGHHHHHHHHHHHHHHHHHHHHHCCTTSCCHH--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCcCcHH--HHHHHHHHHHHHhHhHHccCHHHHHHHHHHHHHHHHHHHhCCC
Confidence            37899999999999999999993        33  5689999999999999999999999999999987   666654

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

Probab=99.34  E-value=2.5e-12  Score=85.51  Aligned_cols=66  Identities=9%  Similarity=0.236  Sum_probs=55.7

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHhc---CC---cCHHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHH---HhccC
Q 048267           41 KDVVTLYLRDSTKTLATIEDEMAK---SP---VDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREH---CKEGN  106 (109)
Q Consensus        41 ~~li~~F~~d~~~~l~~L~~al~~---~~---~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~---~~~~~  106 (109)
                      .+++..|++++++.+..|..++..   .+   -++..+.+.+|+|||||+++|+..++.+|..+|..   .|.+.
T Consensus         5 ~el~~~F~~Ea~e~l~~l~~~l~~le~~~~d~~~~~~l~R~~HTlKGsa~~~G~~~l~~lah~~E~~l~~~r~~~   79 (113)
T 2lch_A            5 QEYIKKVTDELKELIQNVNDDIKEVEKNPEDMEYWNKIYRLVHTMKEITETMGFSSVAKVLHTIMNLVDKMLNSE   79 (113)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTSTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhHHHHHHhcChHHHHHHHHHHHHHHHHHHhCC
Confidence            489999999999999999999842   11   14568999999999999999999999999999964   45554

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

Probab=99.01  E-value=5.8e-10  Score=77.60  Aligned_cols=63  Identities=19%  Similarity=0.309  Sum_probs=54.6

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHh---cCCcC---HHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHH
Q 048267           40 VKDVVTLYLRDSTKTLATIEDEMA---KSPVD---FMNLDKCFHQLKGSSASVGANKVLNEVNKAREHC  102 (109)
Q Consensus        40 ~~~li~~F~~d~~~~l~~L~~al~---~~~~D---~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~  102 (109)
                      ..+++..|++++++.|..|...+.   +++.|   ...+.|.+|+|||||+.+|+..+..+|..+|...
T Consensus         9 ~~ell~~FleEa~E~L~~le~~Ll~le~~~~d~e~l~~lfR~~HTLKGsA~~~G~~~i~~laH~lE~ll   77 (144)
T 3kyj_A            9 MDEIWALYADDGAQALDAMEASLLALQAGEDAAAHVGPLFRAVHTFKGNSRVLGLSVVESRAHLCEDLI   77 (144)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHhHhhHHHhcCchHHHHHHHHHHHHH
Confidence            568999999999999999999874   22223   4589999999999999999999999999999854

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

Probab=98.70  E-value=1.5e-08  Score=74.50  Aligned_cols=62  Identities=15%  Similarity=0.289  Sum_probs=53.3

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHhc---CCcC---HHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHH
Q 048267           41 KDVVTLYLRDSTKTLATIEDEMAK---SPVD---FMNLDKCFHQLKGSSASVGANKVLNEVNKAREHC  102 (109)
Q Consensus        41 ~~li~~F~~d~~~~l~~L~~al~~---~~~D---~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~  102 (109)
                      .+++..|++++.++|..|...+-.   ++.|   ...+.|.+|+|||||+.+|+..++.+|..+|..-
T Consensus         6 ~~~l~~F~~Ea~e~L~~l~~~Ll~le~~~~d~~~l~~ifR~~HTlKG~a~~~g~~~i~~laH~~E~~l   73 (225)
T 2lp4_A            6 SDFYQTFFDEADELLADMEQHLLDLVPESPDAEQLNAIFRAAHSIKGGAGTFGFTILQETTHLMENLL   73 (225)
T ss_dssp             GGTHHHHHHHHHHHHHHHHHHHHHCCTTSCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhhhHHHhcCHHHHHHHHHHHHHHH
Confidence            468899999999999999998843   3224   4578899999999999999999999999999764

>2cw9_A Translocase of inner mitochondrial membrane; structure genomics, TIM, structural genomics, NPPFSA, riken structural genomics/proteomics initiative; HET: 1PE; 1.90A {Homo sapiens} SCOP: d.17.4.13

Probab=85.99  E-value=2.6  Score=29.66  Aligned_cols=82  Identities=7%  Similarity=0.195  Sum_probs=57.0

Q ss_pred             HHHHHHHHhcccchhhhHHHHHHHHhhhccCCchhHHHHHHHHHHhHHHH-HHHHHHHHhcCCcCHHHHHHHhHHhhhhh
Q 048267            5 RQQIAKMRQSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKT-LATIEDEMAKSPVDFMNLDKCFHQLKGSS   83 (109)
Q Consensus         5 ~~~~~~~~~~~~~~~~lD~~~~~L~~L~~~~~~~f~~~li~~F~~d~~~~-l~~L~~al~~~~~D~~~l~~~aH~LKGSs   83 (109)
                      +..+.+.+.++|...-....+.+++++.+    +|=   ...|++.+... +..|..|...+  |.+.|+.++.      
T Consensus        22 ~~~~~~~~~~~f~~s~~~~~l~~i~~~dp----~Fd---~~~Fl~~ak~~iy~~Iq~A~~~g--D~~~Lr~~~t------   86 (194)
T 2cw9_A           22 TDKVTDLLGGLFSKTEMSEVLTEILRVDP----AFD---KDRFLKQCENDIIPNVLEAMISG--ELDILKDWCY------   86 (194)
T ss_dssp             HHHHHHHTCCTTHHHHHHHHHHHHHHHCT----TCC---HHHHHHHHHHTHHHHHHHHHHHT--CHHHHHHHBC------
T ss_pred             hhhhhhhhccccCCCHHHHHHHHHHhhCC----CCC---HHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHhcC------
Confidence            34555566777777766666778887754    443   36889999998 79999999999  9999998753      


Q ss_pred             hhhChHHHHHHHHHHHHHHhcc
Q 048267           84 ASVGANKVLNEVNKAREHCKEG  105 (109)
Q Consensus        84 asiGA~~l~~~c~~lE~~~~~~  105 (109)
                          =.-+..++.++......|
T Consensus        87 ----~~~~~~~~~~i~~r~~~g  104 (194)
T 2cw9_A           87 ----EATYSQLAHPIQQAKALG  104 (194)
T ss_dssp             ----HHHHHHHHHHHHHHHHTT
T ss_pred             ----HHHHHHHHHHHHHHHHCC
Confidence                233445555555554444

>2di0_A Activating signal cointegrator 1 complex subunit 2; ASCC2, CUE domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.4

Probab=84.94  E-value=1  Score=27.45  Aligned_cols=42  Identities=21%  Similarity=0.270  Sum_probs=36.7

Q ss_pred             chhhhHHHHHHHHhhhccCCchhHHHHHHHHHHhHHHHHHHH
Q 048267           17 DEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATI   58 (109)
Q Consensus        17 ~~~~lD~~~~~L~~L~~~~~~~f~~~li~~F~~d~~~~l~~L   58 (109)
                      +...++..+.+++.|.++-+..|+..++..|=.++++.+..|
T Consensus         9 ~~~~l~s~I~qV~DLfPdLG~gfi~~~L~~y~~nvE~vin~L   50 (71)
T 2di0_A            9 CGVELDSLISQVKDLLPDLGEGFILACLEYYHYDPEQVINNI   50 (71)
T ss_dssp             SSHHHHHHHHHHHHHCCSSCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcccCCHHHHHHHHHHhCCCHHHHHHHH
Confidence            445577779999999999999999999999999999998766

>1gp8_A Protein (scaffolding protein); coat protein-binding domain, helix- loop-helix motif, viral protein; NMR {Enterobacteria phage P22} SCOP: j.58.1.1 PDB: 2gp8_A

Probab=81.76  E-value=1.9  Score=23.38  Aligned_cols=23  Identities=26%  Similarity=0.361  Sum_probs=19.6

Q ss_pred             HHHHHHhcCCcCHHHHHHHhHHhhh
Q 048267           57 TIEDEMAKSPVDFMNLDKCFHQLKG   81 (109)
Q Consensus        57 ~L~~al~~~~~D~~~l~~~aH~LKG   81 (109)
                      +|.-|...+  ||++++.+=|+||+
T Consensus        16 qiyvA~seG--d~etv~~Le~QL~~   38 (40)
T 1gp8_A           16 QMDAAASKG--DVETYRKLKAKLKG   38 (40)
T ss_dssp             HHHHHHTTS--CHHHHHHHHHHHTT
T ss_pred             HHHHHHhcC--CHHHHHHHHHHHHh
Confidence            346677889  99999999999986

---

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	109
d1yvia1	142	a.24.10.2 (A:2-143) Histidine-containing phosphotr	6e-24
d1sr2a_	116	a.24.10.4 (A:) Sensor-like histidine kinase YojN,	4e-12
d2a0ba_	118	a.24.10.1 (A:) Aerobic respiration control sensor	3e-09
d2r25a1	166	a.24.10.2 (A:2-167) Phosphorelay protein ypd1 {Bak	3e-07
d1y6da_	114	a.24.10.5 (A:) Phosphorelay protein luxU {Vibrio h	1e-06

>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 = 86.9 bits (215), Expect = 6e-24
 Identities = 40/109 (36%), Positives = 64/109 (58%), Gaps = 1/109 (0%)

Query: 2   EALRQQIAKMRQSFFDEEILDKYFLQLEQL-EDISNPGFVKDVVTLYLRDSTKTLATIED 60
            ALR Q+  +  S F + ++D+ F QL+ L ++   PGFV +VVTL+  D+ + +  I  
Sbjct: 3   AALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEIAT 62

Query: 61  EMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
            + +  V+F  +D   HQLKGSSASVGA KV     + R+ C++ + + 
Sbjct: 63  LLEQPVVNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQDKSRDG 111

>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 = 55.8 bits (134), Expect = 4e-12
 Identities = 14/97 (14%), Positives = 30/97 (30%), Gaps = 2/97 (2%)

Query: 13  QSFFDEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNL 72
               + ++  +   +     D +          L++      +  +  E A S  DF  L
Sbjct: 6   LQLIEVQLAQEEVTESPLGGDENAQLHASGYYALFVDTVPDDVKRLYTEAATS--DFAAL 63

Query: 73  DKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
            +  H+LKG  A +                +E ++  
Sbjct: 64  AQTAHRLKGVFAMLNLVPGKQLCETLEHLIREKDVPG 100

>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 = 48.4 bits (115), Expect = 3e-09
 Identities = 16/93 (17%), Positives = 38/93 (40%), Gaps = 4/93 (4%)

Query: 17  DEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCF 76
            E +LD     LEQ  ++  P  + D + ++ +     ++ +E  +     D   + +  
Sbjct: 3   SEALLD--IPMLEQYLELVGPKLITDGLAVFEKMMPGYVSVLESNLTAQ--DKKGIVEEG 58

Query: 77  HQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
           H++KG++ SVG   +     + +        + 
Sbjct: 59  HKIKGAAGSVGLRHLQQLGQQIQSPDLPAWEDN 91

>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 = 43.9 bits (103), Expect = 3e-07
 Identities = 18/91 (19%), Positives = 37/91 (40%), Gaps = 1/91 (1%)

Query: 18  EEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFH 77
            EI++   L      D  +  F K ++  ++  +  T A ++        +   LD   H
Sbjct: 5   SEIINWTILNEIISMDDDDSDFSKGLIIQFIDQAQTTFAQMQ-RQLDGEKNLTELDNLGH 63

Query: 78  QLKGSSASVGANKVLNEVNKAREHCKEGNLE 108
            LKGSSA++G  ++     + +   ++    
Sbjct: 64  FLKGSSAALGLQRIAWVCERIQNLGRKMEHF 94

>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 = 41.6 bits (97), Expect = 1e-06
 Identities = 17/93 (18%), Positives = 41/93 (44%), Gaps = 4/93 (4%)

Query: 17  DEEILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCF 76
           + ++L++   ++E+L        V  ++ ++L +    + T+ +         + L +  
Sbjct: 2   NTDVLNQ--QKIEELSAEIGSDNVPVLLDIFLGEMDSYIGTLTELQGSE--QLLYLKEIS 57

Query: 77  HQLKGSSASVGANKVLNEVNKAREHCKEGNLEA 109
           H LK S+AS GA+++        +  K   L+ 
Sbjct: 58  HALKSSAASFGADRLCERAIAIDKKAKANQLQE 90

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	109
d1yvia1	142	Histidine-containing phosphotransfer protein HP1 {	99.95
d2r25a1	166	Phosphorelay protein ypd1 {Baker's yeast (Saccharo	99.85
d1y6da_	114	Phosphorelay protein luxU {Vibrio harveyi [TaxId:	99.8
d2a0ba_	118	Aerobic respiration control sensor protein, ArcB {	99.79
d1sr2a_	116	Sensor-like histidine kinase YojN, C-terminal doma	99.74
d2ooca1	104	Histidine phosphotransferase ShpA {Caulobacter cre	99.68
d1tqga_	105	Chemotaxis protein CheA P1 domain {Thermotoga mari	99.06
d1i5na_	128	Chemotaxis protein CheA P1 domain {Salmonella typh	98.96
d2di0a1	63	Activating signal cointegrator 1 complex subunit 2	90.37
d1fpoa2	95	HSC20 (HSCB), C-terminal oligomerisation domain {E	88.43

>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=99.95  E-value=6.1e-28  Score=166.34  Aligned_cols=107  Identities=38%  Similarity=0.625  Sum_probs=99.2

Q ss_pred             hHHHHHHHHHHhcccchhhhHHHHHHHHhhhcc-CCchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhh
Q 048267            2 EALRQQIAKMRQSFFDEEILDKYFLQLEQLEDI-SNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLK   80 (109)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~lD~~~~~L~~L~~~-~~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LK   80 (109)
                      ++|+.++.+++++++++|++|.+|.++..|.+. ++|+|+.+|+..|++++++.|..|+.+++.++.||+.+++.+|+||
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            579999999999999999999999999999754 5699999999999999999999999999865449999999999999


Q ss_pred             hhhhhhChHHHHHHHHHHHHHHhccCcC
Q 048267           81 GSSASVGANKVLNEVNKAREHCKEGNLE  108 (109)
Q Consensus        81 GSsasiGA~~l~~~c~~lE~~~~~~~~~  108 (109)
                      |||+++||.+++.+|..||.+++.++.+
T Consensus        83 Gss~~lGa~~l~~~~~~lE~~~~~~~~~  110 (142)
T d1yvia1          83 GSSASVGAQKVKFTCMQFRQFCQDKSRD  110 (142)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTCHH
T ss_pred             hHHhhccHHHHHHHHHHHHHHHHcCCHH
Confidence            9999999999999999999999999865

>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=99.85  E-value=2.2e-21  Score=136.50  Aligned_cols=90  Identities=18%  Similarity=0.324  Sum_probs=82.6

Q ss_pred             ccchhhhHHH-HHHHHhhhccCCchhHHHHHHHHHHhHHHHHHHHHHHHhc-CCcCHHHHHHHhHHhhhhhhhhChHHHH
Q 048267           15 FFDEEILDKY-FLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAK-SPVDFMNLDKCFHQLKGSSASVGANKVL   92 (109)
Q Consensus        15 ~~~~~~lD~~-~~~L~~L~~~~~~~f~~~li~~F~~d~~~~l~~L~~al~~-~~~D~~~l~~~aH~LKGSsasiGA~~l~   92 (109)
                      .+-..+||+. |.+|..|. +++|+|+.+||..|++++++.+.+|+.++.+ +  |+.+++++||+|||||++|||.++.
T Consensus         2 ~~p~~~id~~~l~~l~~m~-~~d~~f~~~li~~F~~~~~~~~~~l~~al~~~~--d~~~l~~~aH~lKgss~~~G~~~~~   78 (166)
T d2r25a1           2 TIPSEIINWTILNEIISMD-DDDSDFSKGLIIQFIDQAQTTFAQMQRQLDGEK--NLTELDNLGHFLKGSSAALGLQRIA   78 (166)
T ss_dssp             CCCSCSSCHHHHHHHHHTT-TTSSHHHHHHHHHHHHHHHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             CCcccccCHHHHHHHHHHh-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh--hHHHHHHHHHHHHHHHHHhCHHHHH
Confidence            4456789996 99999995 5689999999999999999999999999965 6  9999999999999999999999999


Q ss_pred             HHHHHHHHHHhccCc
Q 048267           93 NEVNKAREHCKEGNL  107 (109)
Q Consensus        93 ~~c~~lE~~~~~~~~  107 (109)
                      .+|..||.++|.++.
T Consensus        79 ~~~~~ie~~~~~~~~   93 (166)
T d2r25a1          79 WVCERIQNLGRKMEH   93 (166)
T ss_dssp             HHHHHHHHHHTTCCC
T ss_pred             HHHHHHHHHHccccc
Confidence            999999999998764

>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=99.80  E-value=5.8e-21  Score=125.40  Aligned_cols=87  Identities=18%  Similarity=0.321  Sum_probs=78.3

Q ss_pred             chhhhHHH-HHHHHhhhccCCchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhhhhhhhChHHHHHHH
Q 048267           17 DEEILDKY-FLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEV   95 (109)
Q Consensus        17 ~~~~lD~~-~~~L~~L~~~~~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c   95 (109)
                      ++++||.. +++|.+.-   |++++.+++..|+++++..+..|+.++..+  |++.+++.+|+|||||+++|+..++.+|
T Consensus         2 ~~~lld~~~l~~L~~~~---G~e~~~~ll~~F~~~~~~~~~~L~~a~~~~--d~~~l~~~aH~LKGsa~~~Ga~~L~~~~   76 (114)
T d1y6da_           2 NTDVLNQQKIEELSAEI---GSDNVPVLLDIFLGEMDSYIGTLTELQGSE--QLLYLKEISHALKSSAASFGADRLCERA   76 (114)
T ss_dssp             CCTTTTTTHHHHHTHHH---HHHHHHHHHHHHHHHHHHHHHHTTTTSSHH--HHHHHHHHHHHHHHHHHHHTTTHHHHHH
T ss_pred             CHHHCCHHHHHHHHHHh---CHHHHHHHHHHHHHHHHHHHHHHHHHHhCc--CHHHHHHHHHHHHHHHHHcCHHHHHHHH
Confidence            45778874 66666543   578999999999999999999999999999  9999999999999999999999999999


Q ss_pred             HHHHHHHhccCcC
Q 048267           96 NKAREHCKEGNLE  108 (109)
Q Consensus        96 ~~lE~~~~~~~~~  108 (109)
                      .+||.+|+.++.+
T Consensus        77 ~~lE~~~~~~~~~   89 (114)
T d1y6da_          77 IAIDKKAKANQLQ   89 (114)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCChh
Confidence            9999999988754

>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=99.79  E-value=9.3e-20  Score=120.34  Aligned_cols=86  Identities=17%  Similarity=0.230  Sum_probs=76.5

Q ss_pred             hhhhHHH-HHHHHhhhccCCchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHH
Q 048267           18 EEILDKY-FLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVN   96 (109)
Q Consensus        18 ~~~lD~~-~~~L~~L~~~~~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~   96 (109)
                      +++||.. +.++...   .||+++.+++..|++++++.+..|+.++.++  |++.+++.+|+|||||+++|+..++.+|.
T Consensus         4 e~~lD~~~L~~l~~~---~g~~~~~~~l~~F~~~~~~~l~~l~~a~~~~--d~~~~~~~aH~LKgsa~~~G~~~l~~~~~   78 (118)
T d2a0ba_           4 EALLDIPMLEQYLEL---VGPKLITDGLAVFEKMMPGYVSVLESNLTAQ--DKKGIVEEGHKIKGAAGSVGLRHLQQLGQ   78 (118)
T ss_dssp             HHHSCHHHHHHHHHH---TCHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cccCCHHHHHHHHHH---hCHHHHHHHHHHHHHHhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHH
Confidence            5677764 5555444   4789999999999999999999999999999  99999999999999999999999999999


Q ss_pred             HHHHHHhccCcC
Q 048267           97 KAREHCKEGNLE  108 (109)
Q Consensus        97 ~lE~~~~~~~~~  108 (109)
                      ++|.+++.++.+
T Consensus        79 ~lE~~~~~~~~~   90 (118)
T d2a0ba_          79 QIQSPDLPAWED   90 (118)
T ss_dssp             HHTCTTSTTHHH
T ss_pred             HHHHHHHcCCHH
Confidence            999999987653

>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=99.74  E-value=4.3e-20  Score=122.65  Aligned_cols=70  Identities=19%  Similarity=0.200  Sum_probs=67.1

Q ss_pred             chhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHHhccCcC
Q 048267           37 PGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKAREHCKEGNLE  108 (109)
Q Consensus        37 ~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~~~~~~~  108 (109)
                      +.|+.+++..|++++|..+..|+.+++.+  |+..+++.||+|||||+++||..++.+|.+||.+++.++.+
T Consensus        30 ~~~~~~~~~lF~~~~p~~l~~L~~a~~~~--D~~~l~~~aH~LKGs~~~~Ga~~l~~~~~~lE~~~~~~~~~   99 (116)
T d1sr2a_          30 QLHASGYYALFVDTVPDDVKRLYTEAATS--DFAALAQTAHRLKGVFAMLNLVPGKQLCETLEHLIREKDVP   99 (116)
T ss_dssp             HHHHHTTHHHHTTTHHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHCc--CHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHhCCHH
Confidence            55888999999999999999999999999  99999999999999999999999999999999999999864

>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=99.68  E-value=4e-18  Score=111.56  Aligned_cols=78  Identities=17%  Similarity=0.254  Sum_probs=66.9

Q ss_pred             hhhHHHHHHHHhhhccCCchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhhhhhhhhChHHHHHHHHHH
Q 048267           19 EILDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLKGSSASVGANKVLNEVNKA   98 (109)
Q Consensus        19 ~~lD~~~~~L~~L~~~~~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSsasiGA~~l~~~c~~l   98 (109)
                      |.||  |+.|.++.+ |+++++.+|+..|+++++..+..+     .+  |++.+++.+|+|||||+||||.+++.+|.+|
T Consensus         1 gaiD--~~~L~~~~g-gd~~l~~~ll~~F~e~~~~~~~~l-----~~--d~~~~~~~aH~LKGsa~~iGa~~L~~~a~~l   70 (104)
T d2ooca1           1 GAVD--FAYLEGFAA-GDFAVVDEVLALFREQAALWAPML-----DP--THPGWKDAVHTVKGAARGVGAFNLGEVCERC   70 (104)
T ss_dssp             CCSC--HHHHHHHTT-TCHHHHHHHHHHHHHHHHHHGGGC-----ST--TSTTHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             CccC--HHHHHHHhC-CCHHHHHHHHHHHHHHHHHHHHHH-----cc--CHHHHHHHHHHHHhHHHHcCHHHHHHHHHHH
Confidence            3455  457777764 488999999999999999987655     45  8999999999999999999999999999999


Q ss_pred             HHHHhccC
Q 048267           99 REHCKEGN  106 (109)
Q Consensus        99 E~~~~~~~  106 (109)
                      |.+++.++
T Consensus        71 E~~~~~~~   78 (104)
T d2ooca1          71 EAGQESLE   78 (104)
T ss_dssp             HTTSSCHH
T ss_pred             HHHHHccC
Confidence            99988653

>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=99.06  E-value=1.9e-10  Score=73.71  Aligned_cols=62  Identities=15%  Similarity=0.342  Sum_probs=53.2

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHhc---CCcC---HHHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHH
Q 048267           41 KDVVTLYLRDSTKTLATIEDEMAK---SPVD---FMNLDKCFHQLKGSSASVGANKVLNEVNKAREHC  102 (109)
Q Consensus        41 ~~li~~F~~d~~~~l~~L~~al~~---~~~D---~~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~  102 (109)
                      .+++..|++++.+.+..|+..+..   ++.|   ...+.|.+|+|||||+.+|...++.+|..+|.+.
T Consensus         4 ~E~l~~Fl~Ea~e~l~~l~~~l~~le~~~~~~~~~~~l~R~~HTLKG~a~~~gl~~i~~lah~lE~~l   71 (105)
T d1tqga_           4 MEYLGVFVDETKEYLQNLNDTLLELEKNPEDMELINEAFRALHTLKGMAGTMGFSSMAKLCHTLENIL   71 (105)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCchhhcCHHHHHHHHHHHHHHH
Confidence            378899999999999999998842   2213   4678899999999999999999999999999764

>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=98.96  E-value=7.4e-10  Score=72.97  Aligned_cols=62  Identities=15%  Similarity=0.262  Sum_probs=52.9

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHh---cCCcCH---HHHHHHhHHhhhhhhhhChHHHHHHHHHHHHHHh
Q 048267           42 DVVTLYLRDSTKTLATIEDEMA---KSPVDF---MNLDKCFHQLKGSSASVGANKVLNEVNKAREHCK  103 (109)
Q Consensus        42 ~li~~F~~d~~~~l~~L~~al~---~~~~D~---~~l~~~aH~LKGSsasiGA~~l~~~c~~lE~~~~  103 (109)
                      +++..|++++.+.+..|...+.   .++-|.   ..+.|.+|+|||||+.+|...++.+|..+|....
T Consensus         4 e~~~~F~~Ea~e~l~~l~~~l~~le~~~~~~~~~~~l~R~~HTLKG~a~~~gl~~i~~lah~lE~~l~   71 (128)
T d1i5na_           4 DFYQTFFDEADELLADMEQHLLDLVPESPDAEQLNAIFRAAHSIKGGAGTFGFTILQETTHLMENLLD   71 (128)
T ss_dssp             GGHHHHHHHHHHHHHHHHHHHHHCCTTSCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhHHhhcChHHHHHHHHHHHHHHH
Confidence            5789999999999999999873   222244   4888999999999999999999999999998644

>d2di0a1 a.5.2.4 (A:8-70) Activating signal cointegrator 1 complex subunit 2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: CUE domain
domain: Activating signal cointegrator 1 complex subunit 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.37  E-value=0.14  Score=29.22  Aligned_cols=38  Identities=24%  Similarity=0.373  Sum_probs=34.2

Q ss_pred             hHHHHHHHHhhhccCCchhHHHHHHHHHHhHHHHHHHH
Q 048267           21 LDKYFLQLEQLEDISNPGFVKDVVTLYLRDSTKTLATI   58 (109)
Q Consensus        21 lD~~~~~L~~L~~~~~~~f~~~li~~F~~d~~~~l~~L   58 (109)
                      +|..+.+++.|.++-|+.|+...++-|-.++++.+..|
T Consensus         6 l~s~I~qV~Dl~PdLG~GFi~~~L~~Y~~n~E~vI~~l   43 (63)
T d2di0a1           6 LDSLISQVKDLLPDLGEGFILACLEYYHYDPEQVINNI   43 (63)
T ss_dssp             HHHHHHHHHHHCCSSCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCcHHHHHHHHHHhCCCHHHHHHHH
Confidence            56668899999999999999999999999999998766

>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=88.43  E-value=1.5  Score=25.98  Aligned_cols=52  Identities=6%  Similarity=0.167  Sum_probs=39.5

Q ss_pred             HHHhhhccCCchhHHHHHHHHHHhHHHHHHHHHHHHhcCCcCHHHHHHHhHHhh
Q 048267           27 QLEQLEDISNPGFVKDVVTLYLRDSTKTLATIEDEMAKSPVDFMNLDKCFHQLK   80 (109)
Q Consensus        27 ~L~~L~~~~~~~f~~~li~~F~~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LK   80 (109)
                      .|......++++-+..+....-......+..+..+++.+  ||.........||
T Consensus        25 ~lee~~~~~d~~~l~~l~~ei~~~~~~~~~~l~~~~~~~--d~~~A~~~~~kLk   76 (95)
T d1fpoa2          25 ELDEIEQAKDEARLESFIKRVKKMFDTRHQLMVEQLDNE--TWDAAADTCRKLR   76 (95)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHH
T ss_pred             HHHHhhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhc--cHHHHHHHHHHhH
Confidence            344443344566677777777778888888999999999  9999888888775