Citrus Sinensis ID: 047910

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-----
Protein Sequence
MEALRQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLEVK
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHcccccHHHHHHHHHHccccccccHHHHHHHHHHHcHHHHHHHHHHHHHcccccHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHcccHHHHHHHHHHHcccccccHHHHHHHHHHHcHHHHHHHHHHHHHcccccHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
MEALRQQISAMRQsffdedilDTHIFQLeqvehisdpslfEDFVNVYLRDSTKTLAIIEEEiannpvnymdLDKYFHQLksssnciganKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLEVK
Flexible Loop (DISEMBL)
MEALRQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKlqaylevk
Low Complexity Region (SEG)
MEALRQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLEVK
Disordered region (IsUnstruct)
*************SFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKE*******************************
Disordered Region (DISOPRED)
*******ISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIE*******EAAKASFEKMKVEHTTLKTKLQAYLEVK
Disordered Region (DISEMBL)
********SAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLEVK
Disordered Region (DISPRO)
MEALRQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLEVK
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEALRQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLEVK
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	135	2.2.26 [Sep-21-2011]
Q9LU15	127	Histidine-containing phos	no	no	0.866	0.921	0.316	9e-15
Q9ZNV9	154	Histidine-containing phos	no	no	0.903	0.792	0.295	7e-09
Q6VAK4	149	Histidine-containing phos	no	no	0.977	0.885	0.248	2e-08
Q8L9T7	157	Histidine-containing phos	no	no	0.844	0.726	0.294	8e-08
Q9ZNV8	156	Histidine-containing phos	no	no	0.933	0.807	0.236	3e-07
Q9SAZ5	155	Histidine-containing phos	no	no	0.859	0.748	0.247	2e-06

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

 Score = 79.0 bits (193), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 37/117 (31%), Positives = 65/117 (55%)

Query: 18  EDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFH 77
           +  LD    +LE+++  ++P+  E+   +Y +DS + +  I++ +     ++  LD Y H
Sbjct: 9   QGYLDEQFMELEELQDDANPNFVEEVSALYFKDSARLINNIDQALERGSFDFNRLDSYMH 68

Query: 78  QLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLEV 134
           Q K SS  IGA+KV  E     E C+  N E    +F+++K EH+TL+ KL+ Y + 
Sbjct: 69  QFKGSSTSIGASKVKAECTTFREYCRAGNAEGCLRTFQQLKKEHSTLRKKLEHYFQA 125

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

 Score = 59.3 bits (142), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 36/122 (29%), Positives = 67/122 (54%)

Query: 13  QSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDL 72
           +S F E ILD+   QL+Q++  S+P      V ++ +DS + L  +   +    V++  +
Sbjct: 15  KSLFLEGILDSQFLQLQQLQDESNPDFVSQVVTLFFQDSDRILNDLSLSLDQQVVDFKKV 74

Query: 73  DKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYL 132
           D + HQLK SS+ IGA +V N        C+++N+EA     +++K E+  +K +L+   
Sbjct: 75  DPHVHQLKGSSSSIGAQRVKNACVVFRSFCEQQNVEACHRCLQQVKQEYYLVKNRLETLF 134

Query: 133 EV 134
           ++
Sbjct: 135 KL 136

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 = 57.4 bits (137), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 33/133 (24%), Positives = 66/133 (49%), Gaps = 1/133 (0%)

Query: 3   ALRQQISAMRQSFFDEDILDTHIFQLEQVE-HISDPSLFEDFVNVYLRDSTKTLAIIEEE 61
           ALR Q++A+  S F + ++D    QL+ ++     P    + V ++  D+ + +  I   
Sbjct: 5   ALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEIATL 64

Query: 62  IANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEH 121
           +    VN+  +D Y HQLK SS  +GA KV     +  + C++++ +    +   ++ + 
Sbjct: 65  LEQPVVNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQDKSRDGCLMALAVVRNDF 124

Query: 122 TTLKTKLQAYLEV 134
             L+ K Q  L++
Sbjct: 125 YDLRNKFQTMLQL 137

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score = 55.8 bits (133), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 35/119 (29%), Positives = 59/119 (49%), Gaps = 5/119 (4%)

Query: 14  SFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTK---TLAIIEEEIANNPVNYM 70
           S + +  LD    +L +++    P    + V+++  D +K   T++I  E   N  V++ 
Sbjct: 19  SLYQQGFLDNQFSELRKLQDEGTPDFVAEVVSLFFDDCSKLINTMSISLERPDN--VDFK 76

Query: 71  DLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQ 129
            +D   HQLK SS+ +GA +V N      E C  +N E      +++  E+  LKTKLQ
Sbjct: 77  QVDSGVHQLKGSSSSVGARRVKNVCISFKECCDVQNREGCLRCLQQVDYEYKMLKTKLQ 135

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 = 53.9 bits (128), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 30/127 (23%), Positives = 61/127 (48%), Gaps = 1/127 (0%)

Query: 4   LRQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEI- 62
           L++Q      S + +  LD    +L++++    P    + ++++  D  K ++ +   + 
Sbjct: 8   LQRQFRDYTISLYQQGFLDDQFTELKKLQDDGSPDFVSEVLSLFFEDCVKLISNMARALD 67

Query: 63  ANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHT 122
               V++  +    HQLK SS+ +GA +V        E C+ +N E      +++ +E+ 
Sbjct: 68  TTGTVDFSQVGASVHQLKGSSSSVGAKRVKTLCVSFKECCEAKNYEGCVRCLQQVDIEYK 127

Query: 123 TLKTKLQ 129
            LKTKLQ
Sbjct: 128 ALKTKLQ 134

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 = 51.2 bits (121), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 29/117 (24%), Positives = 55/117 (47%), Gaps = 1/117 (0%)

Query: 14  SFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEI-ANNPVNYMDL 72
           S + +  LD    +L++++    P    + V ++  D  K ++ +   +     V++  +
Sbjct: 18  SLYHQGFLDDQFTELKKLQDECSPDFVAEVVTLFFEDCEKLISNMARALDQTGNVDFKLV 77

Query: 73  DKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQ 129
               HQLK SS+ +GA +V        E C  +N E      +++ +E+ TLK KLQ
Sbjct: 78  GSSVHQLKGSSSSVGAKRVKGLCVTLKECCDSQNYEGCVRCLQQVDIEYKTLKAKLQ 134

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	135
255546331	150	Histidine-containing phosphotransfer pro	0.977	0.88	0.451	4e-26
356550496	150	PREDICTED: histidine-containing phosphot	0.962	0.866	0.384	2e-22
225445098	214	PREDICTED: histidine-containing phosphot	0.977	0.616	0.386	2e-22
356556499	150	PREDICTED: histidine-containing phosphot	0.962	0.866	0.376	4e-22
224056833	147	histidine phosphotransfer protein [Popul	0.970	0.891	0.428	1e-21
224054404	224	histidine phosphotransfer protein [Popul	0.970	0.584	0.389	1e-21
391349165	150	histidine phosphotransfer protein [Popul	0.970	0.873	0.389	1e-21
224106473	146	histidine phosphotransfer protein [Popul	0.955	0.883	0.415	1e-21
449447821	150	PREDICTED: histidine-containing phosphot	0.970	0.873	0.374	3e-21
388504598	150	unknown [Medicago truncatula]	0.962	0.866	0.361	4e-21

>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 =  122 bits (307), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 60/133 (45%), Positives = 90/133 (67%), Gaps = 1/133 (0%)

Query: 4   LRQQISAMRQSFFDEDILDTHIF-QLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEI 62
           LR+QI+ MRQSFFDE  LD+H F QLEQ+E   +P+  E+ + ++ R+STK LA +E  +
Sbjct: 5   LREQIAKMRQSFFDEGTLDSHYFAQLEQLEGPDNPNFVEEIITLFFRESTKMLATMETNL 64

Query: 63  ANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHT 122
              PVN++ +DK  +Q+K +S  IGA ++  +    +   KE NLE AKASF+ +KVE+ 
Sbjct: 65  EKCPVNFIGIDKMLNQIKVNSASIGAIRIKEQVIPMLNNLKENNLEGAKASFQGLKVEYD 124

Query: 123 TLKTKLQAYLEVK 135
           TLK KL+ Y +++
Sbjct: 125 TLKRKLEPYFQLQ 137

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  110 bits (275), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 50/130 (38%), Positives = 82/130 (63%)

Query: 5   RQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIAN 64
           R+Q++AM+QS FD+  LD    QLE+++  ++P+  E+ V +Y RDS++ ++ ++  +  
Sbjct: 7   RRQVAAMKQSLFDQGYLDEQFIQLEELQDDANPNFVEEIVTLYYRDSSRLISNLDHTLER 66

Query: 65  NPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTL 124
           NPV++  LD   HQ K SS+ IGA KV  E    +E C+  N E  + SF++MK E+ TL
Sbjct: 67  NPVDFNKLDTIMHQFKGSSSSIGAKKVKAECTLFMEYCRARNGEGCRRSFQQMKKEYATL 126

Query: 125 KTKLQAYLEV 134
           + KL+ Y  +
Sbjct: 127 RKKLETYFHL 136

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  110 bits (274), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 51/132 (38%), Positives = 82/132 (62%)

Query: 3   ALRQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEI 62
            L QQISAM+QS  DE  +D H  +LE +E   +    E+ + ++  DS + +  +E+E+
Sbjct: 4   TLHQQISAMKQSLLDEGFVDGHFVELELLEDGDNLHFTEEIITLFFTDSARLIVDVEKEL 63

Query: 63  ANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHT 122
            N+P++Y  +DK  HQ K SS+ +GAN+V  +  K  E CK+ ++E  KA+ +++K EH 
Sbjct: 64  NNDPIDYSKVDKILHQFKGSSSSVGANRVRLQGTKLRESCKDGDVEGWKAALKQLKKEHA 123

Query: 123 TLKTKLQAYLEV 134
           TLK KL  Y ++
Sbjct: 124 TLKEKLDTYFQL 135

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  109 bits (272), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 49/130 (37%), Positives = 83/130 (63%)

Query: 5   RQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIAN 64
           R+Q++AM+QS FD+  LD    QLE+++  ++P+  E+ V +Y RDS++ ++ ++  + +
Sbjct: 7   RRQVAAMKQSLFDQGYLDEQFIQLEELQDDANPNFVEEIVTLYYRDSSRLISSLDHTLES 66

Query: 65  NPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTL 124
           NP+++  LD   HQ K SS+ IGA KV  E     E C+  N E  + SF++MK E+ TL
Sbjct: 67  NPLDFNKLDTIMHQFKGSSSSIGAKKVKAECTLFREYCRARNGEGCRRSFQQMKREYATL 126

Query: 125 KTKLQAYLEV 134
           + KL+ Y ++
Sbjct: 127 RKKLETYFQL 136

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224056833|ref|XP_002299046.1| histidine phosphotransfer protein [Populus trichocarpa] gi|222846304|gb|EEE83851.1| histidine phosphotransfer protein [Populus trichocarpa]

 Score =  107 bits (268), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 57/133 (42%), Positives = 83/133 (62%), Gaps = 2/133 (1%)

Query: 4   LRQQISAMRQSFFDEDILD-THIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEI 62
           LRQQ+S MRQSFFDE +LD   +  LE +E+  DP   E+   ++LRDS+K +A IE+ +
Sbjct: 6   LRQQLSTMRQSFFDEGLLDHGQVSYLETLENEDDPDFIENIFTLFLRDSSKYIASIEKAL 65

Query: 63  ANNPVNY-MDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEH 121
              P ++   L++  ++LK SS  IGA K+ +E  K    C E +LE+AKAS +K+K EH
Sbjct: 66  ETAPDDFTFVLERMMYRLKGSSASIGATKINDETNKLRGFCHEGDLESAKASLQKLKAEH 125

Query: 122 TTLKTKLQAYLEV 134
              K KL  Y+ +
Sbjct: 126 ANFKQKLAVYVGI 138

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  107 bits (267), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 51/131 (38%), Positives = 82/131 (62%)

Query: 4   LRQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIA 63
           LR+Q++  RQS FD+  LD    QLE+++  ++P+  E+ V+++ RDS + ++ IE+ + 
Sbjct: 6   LRRQVALTRQSLFDQGFLDEQFIQLEELQDDANPNFVEEVVSLHYRDSARLISNIEKALE 65

Query: 64  NNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTT 123
            NP+++  LD Y HQ K SS+ IGA KV  E     E CK  N E    +F+++K E+ T
Sbjct: 66  KNPLDFNKLDGYMHQFKGSSSSIGAKKVKAECTLFREYCKAGNGEGCMRTFQQIKKEYAT 125

Query: 124 LKTKLQAYLEV 134
           LK KL+ Y ++
Sbjct: 126 LKRKLETYFQL 136

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 =  107 bits (267), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 51/131 (38%), Positives = 82/131 (62%)

Query: 4   LRQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIA 63
           LR+Q++  RQS FD+  LD    QLE+++  ++P+  E+ V+++ RDS + ++ IE+ + 
Sbjct: 6   LRRQVALTRQSLFDQGFLDEQFIQLEELQDDANPNFVEEVVSLHYRDSARLISNIEKALE 65

Query: 64  NNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTT 123
            NP+++  LD Y HQ K SS+ IGA KV  E     E CK  N E    +F+++K E+ T
Sbjct: 66  KNPLDFNKLDGYMHQFKGSSSSIGAKKVKAECTLFREYCKAGNGEGCMRTFQQIKKEYAT 125

Query: 124 LKTKLQAYLEV 134
           LK KL+ Y ++
Sbjct: 126 LKRKLETYFQL 136

Source: Populus x canadensis

Species: Populus x canadensis

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224106473|ref|XP_002333678.1| histidine phosphotransfer protein [Populus trichocarpa] gi|222837979|gb|EEE76344.1| histidine phosphotransfer protein [Populus trichocarpa]

 Score =  107 bits (267), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 54/130 (41%), Positives = 84/130 (64%), Gaps = 1/130 (0%)

Query: 4   LRQQISAMRQSFFDEDILD-THIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEI 62
           LRQQ+S MRQSFFDE +LD   +  LE +E+  DP   E+   ++LRDS++ +A IE+ +
Sbjct: 6   LRQQLSIMRQSFFDEGLLDQGQVSYLETLENEDDPDFIENVFTMFLRDSSRYIASIEKAL 65

Query: 63  ANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHT 122
              PV+ + +++  ++LK SS  IGA+K+ +E  K  +L  E +LE+ KA+ +K+K EH 
Sbjct: 66  ETTPVDRLVMERMMYRLKGSSASIGASKINDENNKLRKLFHEGDLESGKAALQKLKAEHV 125

Query: 123 TLKTKLQAYL 132
             K KL  Y+
Sbjct: 126 NFKEKLSVYV 135

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>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 =  106 bits (265), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 49/131 (37%), Positives = 84/131 (64%)

Query: 4   LRQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIA 63
           LR+Q++ +RQS FD+  LD    QLE+++  ++P+  E+ V +Y RDS++ +  IE+ + 
Sbjct: 6   LRRQLANIRQSLFDQGFLDEQFVQLEELQDDANPNFVEEIVTLYYRDSSRLILSIEQALQ 65

Query: 64  NNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTT 123
            +P+++  LD   HQ K SS+ IGA KV  E  +  E CK  + E    +F+++K E+T+
Sbjct: 66  KSPLDFNKLDALMHQFKGSSSSIGAKKVKAECTQLREYCKAGSGEGCMRTFQQLKKEYTS 125

Query: 124 LKTKLQAYLEV 134
           L+ KL+AY ++
Sbjct: 126 LRKKLEAYFQL 136

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  105 bits (263), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 47/130 (36%), Positives = 83/130 (63%)

Query: 5   RQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIAN 64
           R+Q++AM+QS FD+  LD    QLE+++  ++P+  E+ V +Y RDS++ ++ +E+ +  
Sbjct: 7   RRQLAAMKQSLFDQGHLDEQFIQLEELQDDANPNFVEELVTLYYRDSSRLISSLEQTLER 66

Query: 65  NPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTL 124
           +P+++  LD   HQ K SS+ IGA KV  E+    E C+  N E  + SF++MK E+  L
Sbjct: 67  SPLDFNKLDTIMHQFKGSSSSIGAKKVKAESTLIREYCRTGNAEGCRKSFQQMKKEYVAL 126

Query: 125 KTKLQAYLEV 134
           + +L+ Y ++
Sbjct: 127 RKRLETYFQL 136

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	135
TAIR|locus:2089900	154	AHP1 "histidine-containing pho	1.0	0.876	0.284	7.9e-14
TAIR|locus:2020868	157	AHP5 "histidine-containing pho	0.918	0.789	0.286	6.6e-10
TAIR|locus:2183184	114	AT5G19710 "AT5G19710" [Arabido	0.362	0.429	0.408	1.8e-09
TAIR|locus:2093817	156	AHP2 "histidine-containing pho	0.933	0.807	0.236	1.8e-09
TAIR|locus:2175643	155	AHP3 "histidine-containing pho	0.859	0.748	0.247	2e-08
TAIR|locus:2016339	154	HP6 "histidine phosphotransfer	1.0	0.876	0.227	1.8e-07

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

 Score = 179 (68.1 bits), Expect = 7.9e-14, P = 7.9e-14
 Identities = 39/137 (28%), Positives = 75/137 (54%)

Query:     1 MEALRQQISAM--RQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAII 58
             M+ +++Q S     +S F E ILD+   QL+Q++  S+P      V ++ +DS + L  +
Sbjct:     1 MDLVQKQKSLQDYTKSLFLEGILDSQFLQLQQLQDESNPDFVSQVVTLFFQDSDRILNDL 60

Query:    59 EEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMK 118
                +    V++  +D + HQLK SS+ IGA +V N        C+++N+EA     +++K
Sbjct:    61 SLSLDQQVVDFKKVDPHVHQLKGSSSSIGAQRVKNACVVFRSFCEQQNVEACHRCLQQVK 120

Query:   119 VEHTTLKTKLQAYLEVK 135
              E+  +K +L+   +++
Sbjct:   121 QEYYLVKNRLETLFKLE 137

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 = 142 (55.0 bits), Expect = 6.6e-10, P = 6.6e-10
 Identities = 37/129 (28%), Positives = 63/129 (48%)

Query:     4 LRQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTK---TLAIIEE 60
             L++Q      S + +  LD    +L +++    P    + V+++  D +K   T++I  E
Sbjct:     9 LQRQFQDYIVSLYQQGFLDNQFSELRKLQDEGTPDFVAEVVSLFFDDCSKLINTMSISLE 68

Query:    61 EIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVE 120
                N  V++  +D   HQLK SS+ +GA +V N      E C  +N E      +++  E
Sbjct:    69 RPDN--VDFKQVDSGVHQLKGSSSSVGARRVKNVCISFKECCDVQNREGCLRCLQQVDYE 126

Query:   121 HTTLKTKLQ 129
             +  LKTKLQ
Sbjct:   127 YKMLKTKLQ 135

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

 Score = 96 (38.9 bits), Expect = 1.8e-09, Sum P(2) = 1.8e-09
 Identities = 20/49 (40%), Positives = 28/49 (57%)

Query:    86 IGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLEV 134
             IGA KVV E KKA    K  N+E  K +   +K EH+ L+ K + Y ++
Sbjct:    52 IGAIKVVKELKKANTFLKAGNIEGVKGALPDIKKEHSELRAKFETYFQL 100

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

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

 Score = 138 (53.6 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 30/127 (23%), Positives = 61/127 (48%)

Query:     4 LRQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEI- 62
             L++Q      S + +  LD    +L++++    P    + ++++  D  K ++ +   + 
Sbjct:     8 LQRQFRDYTISLYQQGFLDDQFTELKKLQDDGSPDFVSEVLSLFFEDCVKLISNMARALD 67

Query:    63 ANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHT 122
                 V++  +    HQLK SS+ +GA +V        E C+ +N E      +++ +E+ 
Sbjct:    68 TTGTVDFSQVGASVHQLKGSSSSVGAKRVKTLCVSFKECCEAKNYEGCVRCLQQVDIEYK 127

Query:   123 TLKTKLQ 129
              LKTKLQ
Sbjct:   128 ALKTKLQ 134

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

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

GO:0007165 "signal transduction" evidence=ISS

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

GO:0005515 "protein binding" evidence=IPI

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

GO:0005737 "cytoplasm" evidence=IDA;NAS

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

GO:0005634 "nucleus" evidence=IDA

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

GO:0005829 "cytosol" evidence=IDA

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

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

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

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

 Score = 128 (50.1 bits), Expect = 2.0e-08, P = 2.0e-08
 Identities = 29/117 (24%), Positives = 55/117 (47%)

Query:    14 SFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEI-ANNPVNYMDL 72
             S + +  LD    +L++++    P    + V ++  D  K ++ +   +     V++  +
Sbjct:    18 SLYHQGFLDDQFTELKKLQDECSPDFVAEVVTLFFEDCEKLISNMARALDQTGNVDFKLV 77

Query:    73 DKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQ 129
                 HQLK SS+ +GA +V        E C  +N E      +++ +E+ TLK KLQ
Sbjct:    78 GSSVHQLKGSSSSVGAKRVKGLCVTLKECCDSQNYEGCVRCLQQVDIEYKTLKAKLQ 134

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

 Score = 119 (46.9 bits), Expect = 1.8e-07, P = 1.8e-07
 Identities = 31/136 (22%), Positives = 63/136 (46%)

Query:     1 MEALRQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEE 60
             ++ L+  I+ +  S F + +LD    QL+Q++  + P+   D +N+Y  +S K L  +  
Sbjct:     6 VDRLQADINRLLASLFHQGVLDEQFLQLQQLQDETSPNFVYDVINIYFDESEKLLRNLRL 65

Query:    61 EIANNPVN-YMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKV 119
              + +   + Y  +  + +QL  SS+ IGA +V N         +  N        E ++ 
Sbjct:    66 LLMDREFSDYKKIGLHLNQLVGSSSSIGARRVRNVCVAFRSASELSNRPGCLRGLEVVEH 125

Query:   120 EHTTLKTKLQAYLEVK 135
             E+  LK  +    +++
Sbjct:   126 EYHYLKNMMHELFQLE 141


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.315   0.129   0.347    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      135       135   0.00091  102 3  10 22  0.43    31
                                                     30  0.44    33


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  6
  No. of states in DFA:  573 (61 KB)
  Total size of DFA:  167 KB (2099 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  22.32u 0.13s 22.45t   Elapsed:  00:00:01
  Total cpu time:  22.32u 0.13s 22.45t   Elapsed:  00:00:01
  Start:  Fri May 10 00:27:11 2013   End:  Fri May 10 00:27:12 2013

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

---

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	135
KOG4747	150	consensus Two-component phosphorelay intermediate	99.95
COG2198	122	ArcB FOG: HPt domain [Signal transduction mechanis	99.69
PF01627	90	Hpt: Hpt domain; InterPro: IPR008207 Two-component	99.68
smart00073	87	HPT Histidine Phosphotransfer domain. Contains an	99.56
cd00088	94	HPT Histidine Phosphotransfer domain, involved in	99.46
TIGR02956	968	TMAO_torS TMAO reductase sytem sensor TorS. This p	99.42
PRK11091	779	aerobic respiration control sensor protein ArcB; P	99.12
PRK10618	894	phosphotransfer intermediate protein in two-compon	98.97
PRK11466	914	hybrid sensory histidine kinase TorS; Provisional	98.67
PRK11107	919	hybrid sensory histidine kinase BarA; Provisional	98.66
COG0643	716	CheA Chemotaxis protein histidine kinase and relat	98.0
PRK10547	670	chemotaxis protein CheA; Provisional	97.97
PRK09959	1197	hybrid sensory histidine kinase in two-component r	97.14
PRK15347	921	two component system sensor kinase SsrA; Provision	96.76
TIGR02302	851	aProt_lowcomp conserved hypothetical protein TIGR0	86.79
TIGR00984	378	3a0801s03tim44 mitochondrial import inner membrane	83.4

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

Probab=99.95  E-value=1.7e-27  Score=172.94  Aligned_cols=133  Identities=28%  Similarity=0.506  Sum_probs=128.3

Q ss_pred             ChHHHHHHHHHHHhccchhhhhHHHHHHHhccccCCcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhc
Q 047910            1 MEALRQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLK   80 (135)
Q Consensus         1 ~~~~~~~~~~~~~~~~d~~~lD~~~~~L~~L~~~~~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LK   80 (135)
                      |.+++++..+|.+|++++|++|++|.+|++|+++..|+|+.+++..|++++.+.+..|+.|+..+. |+.+++.+-|.||
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            457899999999999999999999999999999999999999999999999999999999999864 9999999999999


Q ss_pred             ccccccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 047910           81 SSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLEV  134 (135)
Q Consensus        81 GSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~  134 (135)
                      |||++|||.++...|..+...|+.++.++|...+++++.||..++.+|++|.++
T Consensus        84 gssssIGa~kvk~~c~~~~~~~~~~n~egcvr~l~~v~ie~~~lkkkL~~~f~L  137 (150)
T KOG4747|consen   84 GSSSSIGALKVKKVCVGFNEFCEAGNIEGCVRCLQQVKIEYSLLKKKLETLFQL  137 (150)
T ss_pred             CchhhhhHHHHHHHHHHHHHHHhhccchhHhhchHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999998753

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

Probab=99.69  E-value=3.7e-16  Score=110.35  Aligned_cols=103  Identities=20%  Similarity=0.350  Sum_probs=90.0

Q ss_pred             HHHHhccccCCcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHHHHHHHHHhh-
Q 047910           26 FQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKE-  104 (135)
Q Consensus        26 ~~L~~L~~~~~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~-  104 (135)
                      ..+..+.. +.|+++.+++.+|+++++..+..++.++..+  |+..+.+.||+||||++|+|+.+++.+|.++|..++. 
T Consensus        12 ~~~~~~~g-~~~~~~~~ll~~f~~~~~~~l~~l~~~l~~~--d~~~~~~~aH~lkg~a~~lg~~~L~~~~~~lE~~~~~~   88 (122)
T COG2198          12 ELLVRLIG-GDPDLLRELLAMFLEEAPAQLEQLESALAAE--DNDGLARLAHRLKGSAASLGLPALAQLCQQLEDALRSG   88 (122)
T ss_pred             HHHHHHcC-CChHHHHHHHHHHHHHhHHHHHHHHHHHhcC--CcHHHHHHHHHHHhHHHhccHHHHHHHHHHHHHHHHcC
Confidence            34444432 5699999999999999999999999999998  8899999999999999999999999999999999998 


Q ss_pred             cCHHHHHHHHHHHHHH--HHHHHHHHHHH
Q 047910          105 ENLEAAKASFEKMKVE--HTTLKTKLQAY  131 (135)
Q Consensus       105 ~~~~~~~~~l~~l~~e--f~~~~~~L~~~  131 (135)
                      ...+....++..++.+  ...+...+.++
T Consensus        89 ~~~~~~~~~i~~l~~~~~~~~~~~~~~~~  117 (122)
T COG2198          89 ASLEELEELIAELKDELQLDVLALELLTY  117 (122)
T ss_pred             CcHHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence            6889999999999999  55555555554

>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=99.68  E-value=2.8e-16  Score=103.39  Aligned_cols=83  Identities=16%  Similarity=0.385  Sum_probs=73.8

Q ss_pred             HHHHHHHHcHHHHHHHHHHHH---hcCCCCHHHHHHHHhhhcccccccChHHHHHHHHHHHHHHhhcCHHH---HHHHHH
Q 047910           42 DFVNVYLRDSTKTLAIIEEEI---ANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEA---AKASFE  115 (135)
Q Consensus        42 ~li~~fl~d~~~~l~~L~~al---~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~---~~~~l~  115 (135)
                      +++..|++++++.+..|++++   ..+  |++.+++.+|+|||+++++|+.++..+|..+|..++.++.+.   +...+.
T Consensus         1 ell~~f~~~~~~~~~~l~~~~~~~~~~--d~~~l~~~~H~lkG~a~~~g~~~l~~~~~~lE~~~~~~~~~~~~~~~~~~~   78 (90)
T PF01627_consen    1 ELLDIFLEEAPEDLEQLEQALQALEQE--DWEELRRLAHRLKGSAGNLGAPRLAELAEQLEQALKSGDKPEAEELEQLLD   78 (90)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCSSHHC--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTHHHHSHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHhHh--hHHHHHHHHHHHhhhHHhcCHHHHHHHHHHHHHHHHcCCccchhHHHHHHH
Confidence            589999999999999999999   766  999999999999999999999999999999999999998888   666666


Q ss_pred             HHHHHHHHHHH
Q 047910          116 KMKVEHTTLKT  126 (135)
Q Consensus       116 ~l~~ef~~~~~  126 (135)
                      .+...++++.+
T Consensus        79 ~l~~~l~~l~~   89 (90)
T PF01627_consen   79 ELEAMLEQLRQ   89 (90)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            66666665544

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

>smart00073 HPT Histidine Phosphotransfer domain

Probab=99.56  E-value=5e-15  Score=97.84  Aligned_cols=85  Identities=13%  Similarity=0.155  Sum_probs=74.6

Q ss_pred             HHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHH
Q 047910           42 DFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEH  121 (135)
Q Consensus        42 ~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef  121 (135)
                      +++..|+++.+..+..|..++..+  |+..+++.+|+||||++|+|+..|..+|..+|...+... ++...++..+...|
T Consensus         2 e~~~~f~~~~~~~l~~l~~~~~~~--~~~~l~~~~H~LKG~a~~~g~~~l~~~~~~lE~~~~~~~-~~~~~~~~~l~~~~   78 (87)
T smart00073        2 EELAEFLQSLEEGLLELEKALDAQ--DVNEIFRAAHTLKGSAGSLGLQQLAQLCHQLENLLDAAR-SGEVELTPDLLDLL   78 (87)
T ss_pred             hHHHHHHHHHHHHHHHHHhCcCHh--HHHHHHHHHHhhhhhHHhcCHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHH
Confidence            678999999999999999999766  899999999999999999999999999999999988644 34446788888888


Q ss_pred             HHHHHHHH
Q 047910          122 TTLKTKLQ  129 (135)
Q Consensus       122 ~~~~~~L~  129 (135)
                      ..+...|.
T Consensus        79 ~~~~~~l~   86 (87)
T smart00073       79 LELVDVLK   86 (87)
T ss_pred             HHHHHHHc
Confidence            88877764

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=99.46  E-value=1.6e-13  Score=92.30  Aligned_cols=64  Identities=17%  Similarity=0.352  Sum_probs=60.1

Q ss_pred             HHHHHHHHHcHHHHHHHHHHHHh----cCCCCHHHHHHHHhhhcccccccChHHHHHHHHHHHHHHhhcC
Q 047910           41 EDFVNVYLRDSTKTLAIIEEEIA----NNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEEN  106 (135)
Q Consensus        41 ~~li~~fl~d~~~~l~~L~~al~----~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~  106 (135)
                      .+++..|+++.+..+..|..++.    .+  |+..++..+|+||||++++|+.+|..+|..+|..++.+.
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            47899999999999999999998    55  899999999999999999999999999999999998764

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=99.42  E-value=9.6e-13  Score=117.98  Aligned_cols=93  Identities=17%  Similarity=0.254  Sum_probs=88.1

Q ss_pred             CCcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHHHHHHHHHhhcCHHHHHHHH
Q 047910           35 SDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASF  114 (135)
Q Consensus        35 ~~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l  114 (135)
                      .|++.+.+++..|+++++..+..|..++..+  |+..++..+|.|||+++++||.+++.+|+.||..++.|+.  ....+
T Consensus       876 ~~~~~~~~~~~~f~~~~~~~~~~l~~~~~~~--d~~~~~~~~H~lkg~~~~~g~~~l~~~~~~le~~~~~~~~--~~~~~  951 (968)
T TIGR02956       876 LGVEKVRQLVALFKTSSAEQLEELSAARAVD--DDAQIKKLAHKLKGSAGSLGLTQLTQLCQQLEKQGKTGAL--ELSDI  951 (968)
T ss_pred             cCcHHHHHHHHHHHHhhHHHHHHHHHHHhCC--CHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHhcccCCc--chhHH
Confidence            5788999999999999999999999999987  9999999999999999999999999999999999999988  45789


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 047910          115 EKMKVEHTTLKTKLQAY  131 (135)
Q Consensus       115 ~~l~~ef~~~~~~L~~~  131 (135)
                      +.++..|.++..+|++|
T Consensus       952 ~~l~~~~~~~~~~l~~~  968 (968)
T TIGR02956       952 DEIKQAWQASKTALDQW  968 (968)
T ss_pred             HHHHHHHHHHHHHHHhC
Confidence            99999999999999875

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).

>PRK11091 aerobic respiration control sensor protein ArcB; Provisional

Probab=99.12  E-value=3.6e-10  Score=100.03  Aligned_cols=97  Identities=15%  Similarity=0.223  Sum_probs=92.1

Q ss_pred             CCcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHHHHHHHHHhhcCHHHHHHHH
Q 047910           35 SDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASF  114 (135)
Q Consensus        35 ~~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l  114 (135)
                      .++..+.+.+..|.+..+..+..|..++..+  |...+...+|.|||+++++|+..++.+|..+|.....+.++....++
T Consensus       678 ~g~~~~~~~l~~~~~~~~~~~~~l~~~l~~~--d~~~~~~~ah~l~g~~~~~g~~~l~~~~~~le~~~~~~~~~~~~~~~  755 (779)
T PRK11091        678 VGPKLITDSLAVFEKMMPGYLSVLDSNLTAR--DQKGIVEEAHKIKGAAGSVGLRHLQQLAQQIQSPDLPAWWDNVQDWV  755 (779)
T ss_pred             cCHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhCcCccccHHHHHHHH
Confidence            4667888999999999999999999999987  89999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhc
Q 047910          115 EKMKVEHTTLKTKLQAYLE  133 (135)
Q Consensus       115 ~~l~~ef~~~~~~L~~~l~  133 (135)
                      +++..+|+....+|+.|+.
T Consensus       756 ~~l~~~~~~~~~~~~~~~~  774 (779)
T PRK11091        756 EELKNEWRHDVEVLKAWLA  774 (779)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999985

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

Probab=98.97  E-value=2.7e-09  Score=97.08  Aligned_cols=83  Identities=12%  Similarity=0.162  Sum_probs=77.2

Q ss_pred             HHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHH
Q 047910           40 FEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKV  119 (135)
Q Consensus        40 ~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~  119 (135)
                      ...+...|++.+|.-+..|..++.++  |+..+++.||.|||+++++|+..++.+|+.||..++.++..++...+.+|..
T Consensus       809 ~s~~~~lF~~t~~~di~~L~~~~~~~--D~~~l~~~aHrLKG~~aml~l~~l~~~~~~LE~~i~~~~~~~i~~~i~~id~  886 (894)
T PRK10618        809 ASDYYALFVDTVPDDVKRLYTEAATS--DFASLAQTAHRLKGVFAMLNLVPGKQLCETLEHLIREKDEPGIENYISDIDS  886 (894)
T ss_pred             hhhHHHHHHHhhHHHHHHHHHHHhcc--CHHHHHHHHHHHHHHHHHcChHHHHHHHHHHHHHHhhCChHHHHHHHHHHHH
Confidence            34567899999999999999999998  9999999999999999999999999999999999999999999999999998


Q ss_pred             HHHHH
Q 047910          120 EHTTL  124 (135)
Q Consensus       120 ef~~~  124 (135)
                      .+.++
T Consensus       887 ~v~~l  891 (894)
T PRK10618        887 FVKSL  891 (894)
T ss_pred             HHHHH
Confidence            76654

>PRK11466 hybrid sensory histidine kinase TorS; Provisional

Probab=98.67  E-value=8.6e-08  Score=85.98  Aligned_cols=67  Identities=15%  Similarity=0.210  Sum_probs=62.1

Q ss_pred             CCcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHHHHHHHHHh
Q 047910           35 SDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCK  103 (135)
Q Consensus        35 ~~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~  103 (135)
                      .+++.+.+++..|.+.++..+..++.+...+  |+..+++.||.|||+++++|+.+++.+|.++|..+.
T Consensus       820 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~ah~lkg~~~~lg~~~l~~~~~~le~~~~  886 (914)
T PRK11466        820 MGTEKIHEWLALFKQHALPLLDEIDIARASQ--DSEKIKRAAHQLKSSCSSLGMRQASQACAQLEQQPL  886 (914)
T ss_pred             cCHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhCCCC
Confidence            4667788999999999999999999999987  899999999999999999999999999999998753

>PRK11107 hybrid sensory histidine kinase BarA; Provisional

Probab=98.66  E-value=2.6e-07  Score=82.54  Aligned_cols=97  Identities=15%  Similarity=0.205  Sum_probs=85.0

Q ss_pred             CCcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHHHHHHHHHhhc-CHHHHHHH
Q 047910           35 SDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEE-NLEAAKAS  113 (135)
Q Consensus        35 ~~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~-~~~~~~~~  113 (135)
                      +.++...+++..|++..+..+..|..++..+  |...++..+|.+||+++++|+.++..+|..+|...+.+ ..+.....
T Consensus       821 ~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~h~l~g~~~~~g~~~l~~~~~~le~~~~~~~~~~~~~~~  898 (919)
T PRK11107        821 GKPDLARDMLQMLLDFLPEVRNKVEEALAGE--DPEGLLDLIHKLHGSCSYSGVPRLKKLCQLIEQQLRSGTSVEDLEPE  898 (919)
T ss_pred             CCHHHHHHHHHHHHHhHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHcCCChhhHHHH
Confidence            4567788999999999999999999999987  89999999999999999999999999999999998876 46777777


Q ss_pred             HHHHHHHHHHHHHHHHHHhc
Q 047910          114 FEKMKVEHTTLKTKLQAYLE  133 (135)
Q Consensus       114 l~~l~~ef~~~~~~L~~~l~  133 (135)
                      +..+..++.++..+++++++
T Consensus       899 ~~~~~~~~~~~~~~~~~~~~  918 (919)
T PRK11107        899 LLELLDEMENVARAAKKVLS  918 (919)
T ss_pred             HHHHHHHHHHHHHHHHHHhh
Confidence            77888888888888777653

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

Probab=98.00  E-value=4.7e-05  Score=68.31  Aligned_cols=79  Identities=16%  Similarity=0.319  Sum_probs=60.7

Q ss_pred             hHHHHHHHHHHcHHHHHHHHHHHHh---cCCCCHH---HHHHHHhhhcccccccChHHHHHHHHHHHHH---HhhcCHHH
Q 047910           39 LFEDFVNVYLRDSTKTLAIIEEEIA---NNPVNYM---DLDKYFHQLKSSSNCIGANKVVNEAKKAIEL---CKEENLEA  109 (135)
Q Consensus        39 f~~~li~~fl~d~~~~l~~L~~al~---~~~~D~~---~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~---~~~~~~~~  109 (135)
                      -..++...|++++++++..|..++-   .++.|.+   ++.+.||+|||+|+.+|...++.+|-.+|..   .++|...-
T Consensus         5 ~~~~~~~~F~~Ea~e~l~~l~~~Ll~LE~~~~d~~~ln~ifRaaHTlKG~a~~~g~~~l~~l~H~~E~~ld~~r~g~~~~   84 (716)
T COG0643           5 DMEEILEDFLEEAEELLQALEQALLALEPDPEDLDLLNAIFRAAHTLKGGAGTLGLTTLAELAHAMEDLLDALRNGELEL   84 (716)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHhHhhccCCCCCHHHHHHHHHHHHhhhhhhhhcChhHHHHHHHHHHHHHHHHhcCCccC
Confidence            4568899999999999999998753   3233444   6788999999999999999999999999985   56665433


Q ss_pred             HHHHHHHH
Q 047910          110 AKASFEKM  117 (135)
Q Consensus       110 ~~~~l~~l  117 (135)
                      -..++..+
T Consensus        85 ~~~l~d~~   92 (716)
T COG0643          85 TSELLDLL   92 (716)
T ss_pred             cHHHHHHH
Confidence            33333333

>PRK10547 chemotaxis protein CheA; Provisional

Probab=97.97  E-value=5.6e-05  Score=67.38  Aligned_cols=66  Identities=14%  Similarity=0.256  Sum_probs=54.7

Q ss_pred             HHHHHHHHHcHHHHHHHHHHHHh---cCCCCH---HHHHHHHhhhcccccccChHHHHHHHHHHHHH---HhhcC
Q 047910           41 EDFVNVYLRDSTKTLAIIEEEIA---NNPVNY---MDLDKYFHQLKSSSNCIGANKVVNEAKKAIEL---CKEEN  106 (135)
Q Consensus        41 ~~li~~fl~d~~~~l~~L~~al~---~~~~D~---~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~---~~~~~  106 (135)
                      .+++..|++++.++|+.|+..+-   ..+.|.   ..+-+.+|+|||+|+.+|...+..+|-.+|..   .|.|.
T Consensus         4 ~~~l~~F~~Ea~E~l~~le~~Ll~LE~~p~d~e~in~lFRa~HTiKG~a~~~g~~~i~~l~H~~E~lld~vR~g~   78 (670)
T PRK10547          4 SDFYQTFFDEADELLADMEQHLLVLDPEAPDAEQLNAIFRAAHSIKGGAGTFGFTVLQETTHLMENLLDEARRGE   78 (670)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhhhhHHhhcCchHHHHHHHHHHHHHHHHHCCC
Confidence            47899999999999999999863   333353   36778999999999999999999999999987   35553

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

Probab=97.14  E-value=0.013  Score=54.57  Aligned_cols=95  Identities=11%  Similarity=0.221  Sum_probs=75.8

Q ss_pred             CcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHHHHHHHHHhhcC-HHHHHHHH
Q 047910           36 DPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEEN-LEAAKASF  114 (135)
Q Consensus        36 ~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~-~~~~~~~l  114 (135)
                      ......+++..+...+...+..+..+...+  |...++..+|.+||++..+|+..+...|.++|......+ .+.....+
T Consensus      1098 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~h~~~g~~~~l~~~~l~~~~~~~e~~~~~~~~~~~l~~~~ 1175 (1197)
T PRK09959       1098 DLQLMQEILMTFQHETHKDLPAAFHALEAG--DNRTFHQCIHRIHGAANILNLQKLINISHQLEITPVSDDSKPEILQLL 1175 (1197)
T ss_pred             CHHHHHHHHHHHHHhhHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHhhhcCCchHHHHHHH
Confidence            445678888999999999998998999988  789999999999999999999999999999998876554 34455556


Q ss_pred             HHHHHHHHHHHHHHHHHh
Q 047910          115 EKMKVEHTTLKTKLQAYL  132 (135)
Q Consensus       115 ~~l~~ef~~~~~~L~~~l  132 (135)
                      ..+..........++.++
T Consensus      1176 ~~~~~~~~~~~~~~~~~~ 1193 (1197)
T PRK09959       1176 NSVKEHIAELDQEIAVFC 1193 (1197)
T ss_pred             HHHHHHHHHHHHHHHHhc
Confidence            666655555555555554

>PRK15347 two component system sensor kinase SsrA; Provisional

Probab=96.76  E-value=0.0038  Score=56.11  Aligned_cols=61  Identities=16%  Similarity=0.199  Sum_probs=51.8

Q ss_pred             HHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHHHHHHHHHhhcCH
Q 047910           43 FVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENL  107 (135)
Q Consensus        43 li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~  107 (135)
                      +-..+.+.....+..+..++..+  |  .++..+|.+||+++++|+.++...|.++|...+.+..
T Consensus       838 l~~~~~~~l~~~~~~~~~~~~~~--~--~l~~~~h~i~~~~~~~g~~~l~~~~~~~e~~~~~~~~  898 (921)
T PRK15347        838 LNSKLYQSLLLLLAQIEQAVENQ--E--VLSQLLHTLKGCAGQAGLTELQCAVIDLENALETGEI  898 (921)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCH--H--HHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHhcCCC
Confidence            44555566678888899999876  4  8999999999999999999999999999999877653

>TIGR02302 aProt_lowcomp conserved hypothetical protein TIGR02302

Probab=86.79  E-value=5.1  Score=37.25  Aligned_cols=82  Identities=11%  Similarity=0.231  Sum_probs=54.9

Q ss_pred             chHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHH
Q 047910           38 SLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKM  117 (135)
Q Consensus        38 df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l  117 (135)
                      +=+.+|+..+-+-...+|.+|.+...+++ +-..     -..-+.+.+++-.-|..+...||+++++|+.+.+.++|++|
T Consensus       523 eEI~~Lm~eLR~Am~~ym~~LAeq~~~~~-~~~~-----~~~~~~~~~l~~~dLq~Mmd~ieela~~G~~~~A~qlL~ql  596 (851)
T TIGR02302       523 EEIKQLTDKLRAAMQTYMRQLAQQLRNNP-QQLA-----RPLDPNTKVLRQQDLQNMMDQIENLARSGDRDQAKQLLSQL  596 (851)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhCc-cccc-----ccCCccccccCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34445555555555555555555444321 1000     11123357799999999999999999999999999999999


Q ss_pred             HHHHHHHH
Q 047910          118 KVEHTTLK  125 (135)
Q Consensus       118 ~~ef~~~~  125 (135)
                      ++-.+..+
T Consensus       597 q~mmenlq  604 (851)
T TIGR02302       597 QQMMNNLQ  604 (851)
T ss_pred             HHHHHHHh
Confidence            88666554

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

>TIGR00984 3a0801s03tim44 mitochondrial import inner membrane, translocase subunit

Probab=83.40  E-value=12  Score=31.68  Aligned_cols=81  Identities=16%  Similarity=0.174  Sum_probs=60.2

Q ss_pred             HHHHHHHhccchhhhhHHHHHHHhccccCCcchHHHHHHHHHHcHHHH-HHHHHHHHhcCCCCHHHHHHHHhhhcccccc
Q 047910            7 QISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKT-LAIIEEEIANNPVNYMDLDKYFHQLKSSSNC   85 (135)
Q Consensus         7 ~~~~~~~~~~d~~~lD~~~~~L~~L~~~~~~df~~~li~~fl~d~~~~-l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~   85 (135)
                      .+..++-++|.+.=+-..+.+++.+    +|+|-   +..|+..+... +..|-.|...|  |.+.|+.+          
T Consensus       213 kv~~~~~~lF~ete~a~~l~eIk~~----DPsFd---~~~Fl~gar~aI~p~ILeAf~kG--D~e~LK~~----------  273 (378)
T TIGR00984       213 KIGGVFSGMFSETEVSEVLTEFKKI----DPTFD---KEHFLRFLREYIVPEILEAYVKG--DLEVLKSW----------  273 (378)
T ss_pred             hhhhhhhcccCCCHHHHHHHHHHHh----CCCCC---HHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHh----------
Confidence            4444555577777777667788877    45554   46788889998 68999999998  89999988          


Q ss_pred             cChHHHHHHHHHHHHHHhhcC
Q 047910           86 IGANKVVNEAKKAIELCKEEN  106 (135)
Q Consensus        86 iGA~~l~~~c~~lE~~~~~~~  106 (135)
                      ++-......|..+......|.
T Consensus       274 lse~vy~~f~a~I~qr~~~G~  294 (378)
T TIGR00984       274 CSEAPFSVYATVVKEYKKMGV  294 (378)
T ss_pred             hCHHHHHHHHHHHHHHHHCCC
Confidence            455667777778877776663

translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family is specific for the Tim proteins.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	135
4euk_B	159	Crystal Structure Length = 159		8e-10
1wn0_A	145	Crystal Structure Of Histidine-containing Phosphotr		8e-10
3us6_A	153	Crystal Structure Of Histidine-Containing Phosphotr		1e-09
1yvi_A	149	X-Ray Structure Of Putative Histidine-Containing Ph		2e-09

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

Iteration: 1
 Score = 58.9 bits (141), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 36/122 (29%), Positives = 67/122 (54%)
Query: 13  QSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDL 72
           +S F E ILD+   QL+Q++  S+P      V ++ +DS + L  +   +    V++  +
Sbjct: 20  KSLFLEGILDSQFLQLQQLQDESNPDFVSQVVTLFFQDSDRILNDLSLSLDQQVVDFKKV 79
Query: 73  DKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYL 132
           D + HQLK SS+ IGA +V N        C+++N+EA     +++K E+  +K +L+   
Sbjct: 80  DPHVHQLKGSSSSIGAQRVKNACVVFRSFCEQQNVEACHRCLQQVKQEYYLVKNRLETLF 139
Query: 133 EV 134
           ++
Sbjct: 140 KL 141

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

Iteration: 1
 Score = 58.9 bits (141), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 35/131 (26%), Positives = 66/131 (50%), Gaps = 1/131 (0%)
Query: 3   ALRQQISAMRQSFFDEDILDTHIFQLEQV-EHISDPSLFEDFVNVYLRDSTKTLAIIEEE 61
           ALR+Q++A+  S F   ++D    QL+ + E    P    + V ++  D+ + ++ +   
Sbjct: 5   ALREQLNALLSSMFASGLVDEQFQQLQMLQEDGGTPGFVAEVVTLFCDDADRIISELAAL 64
Query: 62  IANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEH 121
           +    V++  +D Y HQLK SS  +GA KV     +  +LC+++N +    +   ++ E 
Sbjct: 65  LDQPIVDFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQLCQDKNRDGCIMALAVVRNEF 124
Query: 122 TTLKTKLQAYL 132
             L+ K Q  L
Sbjct: 125 YDLRNKFQTML 135

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

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 36/131 (27%), Positives = 69/131 (52%)
Query: 4   LRQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIA 63
           +R+Q     +S F E  LD    QL+Q++  ++P    + V+++  DS + L  +   + 
Sbjct: 6   MRRQWVDYIKSMFMEGFLDGQFLQLQQLQDENNPEFVFEVVSLFFDDSERILKDLSFAVD 65
Query: 64  NNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTT 123
              +++  +D + HQ K SS  IGA +V N        C+E+N++A +   +++K E+  
Sbjct: 66  QQSIDFKKVDAHVHQFKGSSASIGAQRVKNSCVAFRNFCEEQNIDACRRCLQQVKQEYLL 125
Query: 124 LKTKLQAYLEV 134
           +K KL+  L +
Sbjct: 126 VKNKLETLLRL 136

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

Iteration: 1
 Score = 57.4 bits (137), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 33/133 (24%), Positives = 66/133 (49%), Gaps = 1/133 (0%)
Query: 3   ALRQQISAMRQSFFDEDILDTHIFQLEQVE-HISDPSLFEDFVNVYLRDSTKTLAIIEEE 61
           ALR Q++A+  S F + ++D    QL+ ++     P    + V ++  D+ + +  I   
Sbjct: 5   ALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEIATL 64
Query: 62  IANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEH 121
           +    VN+  +D Y HQLK SS  +GA KV     +  + C++++ +    +   ++ + 
Sbjct: 65  LEQPVVNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQDKSRDGCLMALAVVRNDF 124
Query: 122 TTLKTKLQAYLEV 134
             L+ K Q  L++
Sbjct: 125 YDLRNKFQTMLQL 137

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	135
3us6_A	153	Histidine-containing phosphotransfer protein type	5e-29
1yvi_A	149	Histidine-containing phosphotransfer protein; stru	2e-27
1y6d_A	120	Phosphorelay protein LUXU; phosphotransferase, fou	7e-08
2r25_A	167	Phosphorelay intermediate protein YPD1; alpha5-BET	1e-07
2a0b_A	125	HPT domain; sensory transduction, histidine kinase	5e-05
2ooc_A	113	Histidine phosphotransferase; NP_419930.1, hypothe	6e-04

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

 Score =  102 bits (255), Expect = 5e-29
 Identities = 36/135 (26%), Positives = 71/135 (52%)

Query: 1   MEALRQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEE 60
           +  +R+Q     +S F E  LD    QL+Q++  ++P    + V+++  DS + L  +  
Sbjct: 3   VGQMRRQWVDYIKSMFMEGFLDGQFLQLQQLQDENNPEFVFEVVSLFFDDSERILKDLSF 62

Query: 61  EIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVE 120
            +    +++  +D + HQ K SS  IGA +V N        C+E+N++A +   +++K E
Sbjct: 63  AVDQQSIDFKKVDAHVHQFKGSSASIGAQRVKNSCVAFRNFCEEQNIDACRRCLQQVKQE 122

Query: 121 HTTLKTKLQAYLEVK 135
           +  +K KL+  L ++
Sbjct: 123 YLLVKNKLETLLRLE 137

>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 = 98.1 bits (244), Expect = 2e-27
 Identities = 33/134 (24%), Positives = 66/134 (49%), Gaps = 1/134 (0%)

Query: 2   EALRQQISAMRQSFFDEDILDTHIFQLEQVEHIS-DPSLFEDFVNVYLRDSTKTLAIIEE 60
            ALR Q++A+  S F + ++D    QL+ ++     P    + V ++  D+ + +  I  
Sbjct: 4   AALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEIAT 63

Query: 61  EIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVE 120
            +    VN+  +D Y HQLK SS  +GA KV     +  + C++++ +    +   ++ +
Sbjct: 64  LLEQPVVNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQDKSRDGCLMALAVVRND 123

Query: 121 HTTLKTKLQAYLEV 134
              L+ K Q  L++
Sbjct: 124 FYDLRNKFQTMLQL 137

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

 Score = 46.8 bits (111), Expect = 7e-08
 Identities = 17/121 (14%), Positives = 44/121 (36%), Gaps = 4/121 (3%)

Query: 12  RQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMD 71
                + D+L+     +E++            ++++L +    +  + E   +     + 
Sbjct: 3   HHHHMNTDVLNQQK--IEELSAEIGSDNVPVLLDIFLGEMDSYIGTLTELQGSE--QLLY 58

Query: 72  LDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAY 131
           L +  H LKSS+   GA+++   A    +  K   L+       +M       +   +++
Sbjct: 59  LKEISHALKSSAASFGADRLCERAIAIDKKAKANQLQEQGMETSEMLALLHITRDAYRSW 118

Query: 132 L 132
            
Sbjct: 119 T 119

>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 = 47.1 bits (111), Expect = 1e-07
 Identities = 15/121 (12%), Positives = 46/121 (38%), Gaps = 3/121 (2%)

Query: 16  FDEDILDTHIF-QLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDK 74
              +I++  I  ++  ++   D    +  +  ++  +  T A ++ ++     N  +LD 
Sbjct: 4   IPSEIINWTILNEIISMDD-DDSDFSKGLIIQFIDQAQTTFAQMQRQLDG-EKNLTELDN 61

Query: 75  YFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLEV 134
             H LK SS  +G  ++    ++   L ++        +     +   ++   +    + 
Sbjct: 62  LGHFLKGSSAALGLQRIAWVCERIQNLGRKMEHFFPNKTELVNTLSDKSIINGINIDEDD 121

Query: 135 K 135
           +
Sbjct: 122 E 122

>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 = 39.2 bits (91), Expect = 5e-05
 Identities = 20/117 (17%), Positives = 47/117 (40%), Gaps = 4/117 (3%)

Query: 17  DEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYF 76
            E +LD  +  LEQ   +  P L  D + V+ +     ++++E  +     +   + +  
Sbjct: 8   SEALLDIPM--LEQYLELVGPKLITDGLAVFEKMMPGYVSVLESNLTAQ--DKKGIVEEG 63

Query: 77  HQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLE 133
           H++K ++  +G   +    ++          +      E+MK E       L+A++ 
Sbjct: 64  HKIKGAAGSVGLRHLQQLGQQIQSPDLPAWEDNVGEWIEEMKEEWRHDVEVLKAWVA 120

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

 Score = 36.1 bits (83), Expect = 6e-04
 Identities = 15/98 (15%), Positives = 35/98 (35%), Gaps = 16/98 (16%)

Query: 36  DPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEA 95
           D ++ ++ + ++   +          +      + D     H +K ++  +GA  +    
Sbjct: 23  DFAVVDEVLALFREQAALWAP----MLDPTHPGWKDA---VHTVKGAARGVGAFNL---- 71

Query: 96  KKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLE 133
               E+C  E  EA + S E ++         + AY  
Sbjct: 72  ---GEVC--ERCEAGQESLEGVRTALDAALLDIAAYAH 104

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	135
3us6_A	153	Histidine-containing phosphotransfer protein type	100.0
1yvi_A	149	Histidine-containing phosphotransfer protein; stru	100.0
2r25_A	167	Phosphorelay intermediate protein YPD1; alpha5-BET	99.97
2a0b_A	125	HPT domain; sensory transduction, histidine kinase	99.9
3myf_A	119	Sensor protein; HPT, histidine kinase, PSI, MCSG,	99.82
1y6d_A	120	Phosphorelay protein LUXU; phosphotransferase, fou	99.81
3iqt_A	123	Signal transduction histidine-protein kinase BARA;	99.79
2ooc_A	113	Histidine phosphotransferase; NP_419930.1, hypothe	99.74
1sr2_A	116	Putative sensor-like histidine kinase YOJN; four-h	99.67
1tqg_A	105	Chemotaxis protein CHEA; histidine kinase, phospho	99.59
2ld6_A	139	Chemotaxis protein CHEA; TMP1, transferase; NMR {T	99.44
1i5n_A	146	Chemotaxis protein CHEA; four-helix bundle, transf	99.41
2lch_A	113	Protein OR38; structural genomics, northeast struc	99.4
3kyj_A	144	CHEA3, putative histidine protein kinase; protein-	99.02
2lp4_A	225	Chemotaxis protein CHEA; two component signaling s	98.69
2cw9_A	194	Translocase of inner mitochondrial membrane; struc	87.34

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

Probab=100.00  E-value=2e-37  Score=227.49  Aligned_cols=133  Identities=27%  Similarity=0.482  Sum_probs=129.6

Q ss_pred             hHHHHHHHHHHHhccchhhhhHHHHHHHhccccCCcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcc
Q 047910            2 EALRQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKS   81 (135)
Q Consensus         2 ~~~~~~~~~~~~~~~d~~~lD~~~~~L~~L~~~~~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKG   81 (135)
                      .+|++|+.++++|++++|+||.+|++|++|+++++|+|+.++|.+|++|+++.+..|+.|+.++++|+..++++||+|||
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            68999999999999999999988999999999999999999999999999999999999999876799999999999999


Q ss_pred             cccccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 047910           82 SSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLEV  134 (135)
Q Consensus        82 SSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~  134 (135)
                      ||+||||.+|+.+|..||.+++.++.+++...+.+|+.+|..++.+|++|+++
T Consensus        84 ss~~lGa~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~e~~~v~~~L~~~~~l  136 (153)
T 3us6_A           84 SSASIGAQRVKNSCVAFRNFCEEQNIDACRRCLQQVKQEYLLVKNKLETLLRL  136 (153)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999875

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

Probab=100.00  E-value=4.7e-36  Score=218.75  Aligned_cols=133  Identities=25%  Similarity=0.470  Sum_probs=126.3

Q ss_pred             hHHHHHHHHHHHhccchhhhhHHHHHHHhccccCC-cchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhc
Q 047910            2 EALRQQISAMRQSFFDEDILDTHIFQLEQVEHISD-PSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLK   80 (135)
Q Consensus         2 ~~~~~~~~~~~~~~~d~~~lD~~~~~L~~L~~~~~-~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LK   80 (135)
                      ++|++|+.+|++||+++|+||++|++|++|+++++ |+|+.+||.+|++|+++.+..|+.|++++++|+..++.++|+||
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            68999999999999999999999999999988888 99999999999999999999999999987679999999999999


Q ss_pred             ccccccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 047910           81 SSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLEV  134 (135)
Q Consensus        81 GSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~  134 (135)
                      |||+||||.+|+.+|..||..++.++++++..++.+++.+|..++.+|++|+++
T Consensus        84 Gssa~lGa~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~e~~~~~~~L~~~~~~  137 (149)
T 1yvi_A           84 GSSASVGAQKVKFTCMQFRQFCQDKSRDGCLMALAVVRNDFYDLRNKFQTMLQL  137 (149)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHhHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999865

>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=99.97  E-value=2.9e-30  Score=191.58  Aligned_cols=118  Identities=15%  Similarity=0.302  Sum_probs=111.7

Q ss_pred             hccchhhhhH-HHHHHHhccccCCcchHHHHHHHHHHcHHHHHHHHHHHHh-cCCCCHHHHHHHHhhhcccccccChHHH
Q 047910           14 SFFDEDILDT-HIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIA-NNPVNYMDLDKYFHQLKSSSNCIGANKV   91 (135)
Q Consensus        14 ~~~d~~~lD~-~~~~L~~L~~~~~~df~~~li~~fl~d~~~~l~~L~~al~-~~~~D~~~l~~~aH~LKGSSa~iGA~~l   91 (135)
                      ||.++|+||+ +|.+|++|++++ |+|+.+||.+|++|+++++..|++|++ .+  |+.+++.++|+|||||+||||.+|
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            6788999998 699999999987 999999999999999999999999999 55  999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhcC------------HH--------------------------------HHHHHHHHHHHHHHHHHHH
Q 047910           92 VNEAKKAIELCKEEN------------LE--------------------------------AAKASFEKMKVEHTTLKTK  127 (135)
Q Consensus        92 ~~~c~~lE~~~~~~~------------~~--------------------------------~~~~~l~~l~~ef~~~~~~  127 (135)
                      +.+|.+||.+|+.++            .+                                +|...|.+++.+|..++.+
T Consensus        79 ~~~C~~le~~~r~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~L~~~k~e~~~~~~~  158 (167)
T 2r25_A           79 AWVCERIQNLGRKMEHFFPNKTELVNTLSDKSIINGINIDEDDEEIKIQVDDKDENSIYLILIAKALNQSRLEFKLARIE  158 (167)
T ss_dssp             HHHHHHHHHHHTTCCCCCCCHHHHHTTCSSGGGGSSSCTTTTCCCCCCCSSSCCTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCccccccccccccccccccccccccchhhhcccccccccchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999            44                                7889999999999999999


Q ss_pred             HHHHhcC
Q 047910          128 LQAYLEV  134 (135)
Q Consensus       128 L~~~l~~  134 (135)
                      |++|++-
T Consensus       159 L~~~~~~  165 (167)
T 2r25_A          159 LSKYYNT  165 (167)
T ss_dssp             HHHHTTS
T ss_pred             HHHHHcc
Confidence            9999874

>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=99.90  E-value=1.1e-23  Score=148.41  Aligned_cols=114  Identities=16%  Similarity=0.182  Sum_probs=104.8

Q ss_pred             ccchhhhhHH-HHHHHhccccCCcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHH
Q 047910           15 FFDEDILDTH-IFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVN   93 (135)
Q Consensus        15 ~~d~~~lD~~-~~~L~~L~~~~~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~   93 (135)
                      +.+.++||.. +.+|..+   .|++|+.+++..|++++++.+..|..++..+  |+..+++.+|+|||||+|+|+.+|+.
T Consensus         6 ~~~~~~lD~~~l~~l~~~---~g~~~~~~ll~~F~~e~~~~l~~L~~a~~~~--d~~~~~~~aH~LKGsa~~lG~~~l~~   80 (125)
T 2a0b_A            6 SKSEALLDIPMLEQYLEL---VGPKLITDGLAVFEKMMPGYVSVLESNLTAQ--DKKGIVEEGHKIKGAAGSVGLRHLQQ   80 (125)
T ss_dssp             CHHHHHSCHHHHHHHHHH---TCHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ccccccCCHHHHHHHHHH---hCHHHHHHHHHHHHHHhHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            4456788875 6666655   6899999999999999999999999999987  99999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 047910           94 EAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLE  133 (135)
Q Consensus        94 ~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~  133 (135)
                      +|..+|..++.++.+++...+..|..+|.+++.+|+.|++
T Consensus        81 ~~~~lE~~~~~~~~~~~~~~~~~l~~~~~~~~~~L~~~l~  120 (125)
T 2a0b_A           81 LGQQIQSPDLPAWEDNVGEWIEEMKEEWRHDVEVLKAWVA  120 (125)
T ss_dssp             HHHHHTCTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999998874

>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=99.82  E-value=7.3e-20  Score=128.73  Aligned_cols=113  Identities=15%  Similarity=0.183  Sum_probs=99.5

Q ss_pred             cchhhhhHHHHHHHhccccCCcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHH
Q 047910           16 FDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEA   95 (135)
Q Consensus        16 ~d~~~lD~~~~~L~~L~~~~~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c   95 (135)
                      ||..++|++  .+..+ -.|+|++..+++.+|+++.|+.+..|+.++..+  |++.+.+.+|+|||||+|+||++|..+|
T Consensus         1 ~~~~~~D~~--~~l~~-~~g~~~L~~~lL~~fl~~~~~~~~~l~~a~~~~--d~~~l~~~aHkLkGaa~~~Ga~~L~~~~   75 (119)
T 3myf_A            1 FDLHTLNWD--LCLTQ-ANHKSNLALEMLKMLLDSLPETVEKIQTALGQN--DQATMLSTIHKLHGASCYCGVPTTQRLC   75 (119)
T ss_dssp             -CTTTCCHH--HHHHH-TTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHHTTTTCHHHHHHH
T ss_pred             CCccccCHH--HHHHH-hCCCHHHHHHHHHHHHHhHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHH
Confidence            467788876  22222 227899999999999999999999999999988  8999999999999999999999999999


Q ss_pred             HHHHHHHhhcC-HHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 047910           96 KKAIELCKEEN-LEAAKASFEKMKVEHTTLKTKLQAYLE  133 (135)
Q Consensus        96 ~~lE~~~~~~~-~~~~~~~l~~l~~ef~~~~~~L~~~l~  133 (135)
                      ..||..++.|. .+.....+..+..+...+..+++.|+.
T Consensus        76 ~~LE~~~r~~~~~~~l~~~~~~L~~ei~~v~~~~~~~l~  114 (119)
T 3myf_A           76 QEIESALKRQTPVEDLEPEILELLDELTKVESAVKQVLS  114 (119)
T ss_dssp             HHHHHHHHTTCCGGGGHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999986 477888889999999999999999874

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

Probab=99.81  E-value=5.8e-22  Score=139.60  Aligned_cols=110  Identities=15%  Similarity=0.247  Sum_probs=91.7

Q ss_pred             hhhhHHHHHHHhccccCCcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHHHHH
Q 047910           19 DILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKA   98 (135)
Q Consensus        19 ~~lD~~~~~L~~L~~~~~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~l   98 (135)
                      +.+|+  ..|.+|+++.||+++.+++..|++++++.|..|+.+...+  |+..+.+.+|+|||||+|+||.+|+.+|..+
T Consensus        10 ~~~d~--~~l~~L~~~~g~~~~~e~~~~F~~e~~e~l~~L~~a~~~~--~~~~i~r~aH~LKGsAa~~Ga~~l~~~~~~l   85 (120)
T 1y6d_A           10 DVLNQ--QKIEELSAEIGSDNVPVLLDIFLGEMDSYIGTLTELQGSE--QLLYLKEISHALKSSAASFGADRLCERAIAI   85 (120)
T ss_dssp             TTTTT--THHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHTTTTSSHH--HHHHHHHHHHHHHHHHHHHTTTHHHHHHHHH
T ss_pred             ccccH--HHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHHcccccc--hHHHHHHHHHHHhhhHHHhCHHHHHHHHHHH
Confidence            44554  4666777778999999999999999999999999987766  7788999999999999999999999999999


Q ss_pred             HHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 047910           99 IELCKEENLEAAKASFEKMKVEHTTLKTKLQAYL  132 (135)
Q Consensus        99 E~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l  132 (135)
                      |..+|.|+.+.+......+...+.+++..++.++
T Consensus        86 E~~~r~g~~~~~~~~~~~l~~~l~~~~d~l~~~~  119 (120)
T 1y6d_A           86 DKKAKANQLQEQGMETSEMLALLHITRDAYRSWT  119 (120)
T ss_dssp             HHHHHHHHHCTTTSTTTTTTHHHHHHHHHHHHHC
T ss_pred             HHHHhCCChhhhHhhHHHHHHHHHHHHHHHHHHh
Confidence            9999999887555555666666666666666654

>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=99.79  E-value=3.3e-19  Score=126.16  Aligned_cols=111  Identities=15%  Similarity=0.157  Sum_probs=98.2

Q ss_pred             hhhhhHHHHHHHhccccCCcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHHHH
Q 047910           18 EDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKK   97 (135)
Q Consensus        18 ~~~lD~~~~~L~~L~~~~~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~   97 (135)
                      .+++|++  .+..+- .|+|++..+++.+|+++.|+.+..|+.++..+  |++.+++.+|+|||||+++||++|..+|..
T Consensus        12 ~~~~D~~--~~l~~a-~g~~~La~elL~~fl~~~~~~~~~l~~a~~~~--d~~~l~~~aHkLkGaa~~~Ga~~L~~~c~~   86 (123)
T 3iqt_A           12 NATLDWQ--LALRQA-AGKTDLARDMLQMLLDFLPEVRNKVEEQLVGE--NPEGLVDLIHKLHGSCGYSGVPRMKNLCQL   86 (123)
T ss_dssp             GGTCCHH--HHHHHT-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTTC--CCTTHHHHHHHHHHHHTTSCCHHHHHHHHH
T ss_pred             CCccCHH--HHHHHh-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHHH
Confidence            4678876  333332 37899999999999999999999999999988  889999999999999999999999999999


Q ss_pred             HHHHHhhcCH-HHHHHHHHHHHHHHHHHHHHHHHHhc
Q 047910           98 AIELCKEENL-EAAKASFEKMKVEHTTLKTKLQAYLE  133 (135)
Q Consensus        98 lE~~~~~~~~-~~~~~~l~~l~~ef~~~~~~L~~~l~  133 (135)
                      ||..++.|+. +.....+..+..+...+..+.++|+.
T Consensus        87 LE~~~r~g~~~~~l~~~l~~L~del~~v~~~~~~~~~  123 (123)
T 3iqt_A           87 IEQQLRSGTKEEDLEPELLELLDEMDNVAREASKILG  123 (123)
T ss_dssp             HHHHHHTTCCGGGGHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            9999999964 47788899999999999999999874

>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=99.74  E-value=1.2e-18  Score=121.49  Aligned_cols=101  Identities=8%  Similarity=0.125  Sum_probs=85.4

Q ss_pred             hhhhhHHHHHHHhccccCCcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHHHH
Q 047910           18 EDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKK   97 (135)
Q Consensus        18 ~~~lD~~~~~L~~L~~~~~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~   97 (135)
                      .+.+|..  .|..+ ..|+|+|+.+|+.+|++++++.+..|..+  ..  |+   +++||+|||||+||||.+|+.+|..
T Consensus         8 ~~~iD~~--~L~~~-~~gd~~~~~elL~~F~~~~~~~l~~L~~a--~~--~~---~~~aH~LKGsA~~iGA~~l~~~c~~   77 (113)
T 2ooc_A            8 SGAVDFA--YLEGF-AAGDFAVVDEVLALFREQAALWAPMLDPT--HP--GW---KDAVHTVKGAARGVGAFNLGEVCER   77 (113)
T ss_dssp             -CCSCHH--HHHHH-TTTCHHHHHHHHHHHHHHHHHHGGGCSTT--ST--TH---HHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             CCCcCHH--HHHhH-hCCCHHHHHHHHHHHHHHhHHHHHHHHHh--hH--HH---HHHHHHHHHHHHHcCHHHHHHHHHH
Confidence            3456654  44444 34789999999999999999999999998  22  54   8999999999999999999999999


Q ss_pred             HHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 047910           98 AIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLE  133 (135)
Q Consensus        98 lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~  133 (135)
                      +|..++.     ....+..|+.++.+++.+|..+++
T Consensus        78 lE~~~~~-----~~~~~~~L~~a~~~~~~~l~~~~~  108 (113)
T 2ooc_A           78 CEAGQES-----LEGVRTALDAALLDIAAYAHEQAL  108 (113)
T ss_dssp             HHTTSSC-----HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhh-----hHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999877     567789999999999999998765

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

Probab=99.67  E-value=7.1e-17  Score=113.14  Aligned_cols=88  Identities=10%  Similarity=0.141  Sum_probs=81.0

Q ss_pred             CCcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHHHHHHHHHhhcCHHHHHHHH
Q 047910           35 SDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASF  114 (135)
Q Consensus        35 ~~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l  114 (135)
                      +.++.-.+++.+|+++.++-+..|+.++.++  |+..+++.+|+||||++|+|+.+++.+|.++|..++.++.+.+...+
T Consensus        28 ~k~~~~~d~l~~fl~s~~~Dl~~L~~A~~~~--D~~~l~~~aHrLKGaa~~lG~~~L~~lc~~LE~~~~~~~~~~l~~~i  105 (116)
T 1sr2_A           28 NAQLHASGYYALFVDTVPDDVKRLYTEAATS--DFAALAQTAHRLKGVFAMLNLVPGKQLCETLEHLIREKDVPGIEKYI  105 (116)
T ss_dssp             HHHHHHHTTHHHHTTTHHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cchhchHHHHHHHHHHhHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            4456777899999999999999999999998  99999999999999999999999999999999999999999998888


Q ss_pred             HHHHHHHHHH
Q 047910          115 EKMKVEHTTL  124 (135)
Q Consensus       115 ~~l~~ef~~~  124 (135)
                      ..|+..+.++
T Consensus       106 ~~L~~~l~~L  115 (116)
T 1sr2_A          106 SDIDSYVKSL  115 (116)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            8888877654

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

Probab=99.59  E-value=1.6e-15  Score=103.41  Aligned_cols=92  Identities=8%  Similarity=0.204  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHcHHHHHHHHHHHHhc------CCCCHHHHHHHHhhhcccccccChHHHHHHHHHHHHHH---hhcCHHHH
Q 047910           40 FEDFVNVYLRDSTKTLAIIEEEIAN------NPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELC---KEENLEAA  110 (135)
Q Consensus        40 ~~~li~~fl~d~~~~l~~L~~al~~------~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~---~~~~~~~~  110 (135)
                      +.+++..|++++++.+..|+.++..      ...++..+.+.+|+|||||+++|+..+..+|..+|...   +.|..+..
T Consensus         3 ~~~l~~~F~~e~~e~l~~l~~~l~~le~~~~~~~~~~~l~r~~HtLKGsa~~~G~~~l~~la~~lE~~l~~~r~~~~~~~   82 (105)
T 1tqg_A            3 HMEYLGVFVDETKEYLQNLNDTLLELEKNPEDMELINEAFRALHTLKGMAGTMGFSSMAKLCHTLENILDKARNSEIKIT   82 (105)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTTSSCCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhhhHHHHhcChHHHHHHHHHHHHHHHHHHhCCCCCC
Confidence            4689999999999999999999851      11256799999999999999999999999999999875   77877777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 047910          111 KASFEKMKVEHTTLKTKLQAY  131 (135)
Q Consensus       111 ~~~l~~l~~ef~~~~~~L~~~  131 (135)
                      ...+..+...++.++..+..+
T Consensus        83 ~~~~~~l~~~~d~l~~~l~~~  103 (105)
T 1tqg_A           83 SDLLDKIFAGVDMITRMVDKI  103 (105)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHh
Confidence            788888888888888877653

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

Probab=99.44  E-value=1.2e-13  Score=98.97  Aligned_cols=90  Identities=9%  Similarity=0.232  Sum_probs=71.8

Q ss_pred             HHHHHHHHHcHHHHHHHHHHHHhc------CCCCHHHHHHHHhhhcccccccChHHHHHHHHHHHHHH---hhcCHHHHH
Q 047910           41 EDFVNVYLRDSTKTLAIIEEEIAN------NPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELC---KEENLEAAK  111 (135)
Q Consensus        41 ~~li~~fl~d~~~~l~~L~~al~~------~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~---~~~~~~~~~  111 (135)
                      .+++..|++++++.+..|..++..      +..++..+.+.+|+|||||+++|+..++.+|..+|...   |.|......
T Consensus         3 ~ell~~Fl~Ea~e~L~~l~~~l~~le~~~~d~~~~~~l~R~aHTLKGsA~~~G~~~l~~lah~lE~~l~~lr~g~~~~~~   82 (139)
T 2ld6_A            3 EEYLGVFVDETKEYLQNLNDTLLELEKNPEDMELINEAFRALHTLKGMAGTMGFSSMAKLCHTLENILDKARNSEIKITS   82 (139)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHCSSSSSHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHTSCCCCS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhHHHHhcCHHHHHHHHHHHHHHHHHHHcCCCCCCH
Confidence            478999999999999999999841      12267899999999999999999999999999999865   677655445


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 047910          112 ASFEKMKVEHTTLKTKLQA  130 (135)
Q Consensus       112 ~~l~~l~~ef~~~~~~L~~  130 (135)
                      ..++.+...++.+...+..
T Consensus        83 ~l~~~l~~~~D~l~~~l~~  101 (139)
T 2ld6_A           83 DLLDKIFAGVDMITRMVDK  101 (139)
T ss_dssp             SHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            5666666666666655554

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

Probab=99.41  E-value=1.8e-13  Score=98.87  Aligned_cols=90  Identities=12%  Similarity=0.243  Sum_probs=71.5

Q ss_pred             HHHHHHHHHcHHHHHHHHHHHHhc---CCC---CHHHHHHHHhhhcccccccChHHHHHHHHHHHHH---HhhcCHHHHH
Q 047910           41 EDFVNVYLRDSTKTLAIIEEEIAN---NPV---NYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIEL---CKEENLEAAK  111 (135)
Q Consensus        41 ~~li~~fl~d~~~~l~~L~~al~~---~~~---D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~---~~~~~~~~~~  111 (135)
                      .+++..|++++++.|..|+.++..   ++.   ++..+.+.+|+|||||+++|+..+..+|..+|..   .|.|......
T Consensus         6 ~ell~~Fl~Ea~e~L~~le~~L~~le~~~~d~~~l~~lfR~aHTLKGsA~~~G~~~l~~lah~lE~~l~~~r~g~~~~~~   85 (146)
T 1i5n_A            6 SDFYQTFFDEADELLADMEQHLLDLVPESPDAEQLNAIFRAAHSIKGGAGTFGFTILQETTHLMENLLDEARRGEMQLNT   85 (146)
T ss_dssp             GGGHHHHHHHHHHHHHHHHHHHHHCCTTSCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTTSSCCCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHhHhHHccCHHHHHHHHHHHHHHHHHHHhCCCCCCH
Confidence            378999999999999999999932   111   4589999999999999999999999999999987   6777655555


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 047910          112 ASFEKMKVEHTTLKTKLQA  130 (135)
Q Consensus       112 ~~l~~l~~ef~~~~~~L~~  130 (135)
                      ..+..+...++.++..+..
T Consensus        86 ~l~~~l~~~~D~l~~~l~~  104 (146)
T 1i5n_A           86 DIINLFLETKDIMQEQLDA  104 (146)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            5666666666666555544

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

Probab=99.40  E-value=3e-13  Score=93.47  Aligned_cols=91  Identities=12%  Similarity=0.307  Sum_probs=75.3

Q ss_pred             HHHHHHHHHcHHHHHHHHHHHHhc---CCCC---HHHHHHHHhhhcccccccChHHHHHHHHHHHHH---HhhcCHHHHH
Q 047910           41 EDFVNVYLRDSTKTLAIIEEEIAN---NPVN---YMDLDKYFHQLKSSSNCIGANKVVNEAKKAIEL---CKEENLEAAK  111 (135)
Q Consensus        41 ~~li~~fl~d~~~~l~~L~~al~~---~~~D---~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~---~~~~~~~~~~  111 (135)
                      .+++..|++++++++..|..++..   ++.|   +..+.+.+|+|||||+++|+..+..+|..+|..   .+.+......
T Consensus         5 ~el~~~F~~Ea~e~l~~l~~~l~~le~~~~d~~~~~~l~R~~HTlKGsa~~~G~~~l~~lah~~E~~l~~~r~~~~~~~~   84 (113)
T 2lch_A            5 QEYIKKVTDELKELIQNVNDDIKEVEKNPEDMEYWNKIYRLVHTMKEITETMGFSSVAKVLHTIMNLVDKMLNSEIKITS   84 (113)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTSTTTCCCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhHHHHHHhcChHHHHHHHHHHHHHHHHHHhCCCCCCH
Confidence            489999999999999999999842   2223   457999999999999999999999999999974   5777766667


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 047910          112 ASFEKMKVEHTTLKTKLQAY  131 (135)
Q Consensus       112 ~~l~~l~~ef~~~~~~L~~~  131 (135)
                      ..++.+...++.+...++.+
T Consensus        85 ~l~~~l~~~~d~l~~~l~~~  104 (113)
T 2lch_A           85 DLIDKVKKKLDMVTRELDKK  104 (113)
T ss_dssp             HHHHHHHHHHHHHHHHHGGG
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            78888888888887777654

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

Probab=99.02  E-value=4.3e-10  Score=81.19  Aligned_cols=89  Identities=18%  Similarity=0.269  Sum_probs=66.0

Q ss_pred             HHHHHHHHHHcHHHHHHHHHHHHh---cCCCC---HHHHHHHHhhhcccccccChHHHHHHHHHHHHH---HhhcCHHHH
Q 047910           40 FEDFVNVYLRDSTKTLAIIEEEIA---NNPVN---YMDLDKYFHQLKSSSNCIGANKVVNEAKKAIEL---CKEENLEAA  110 (135)
Q Consensus        40 ~~~li~~fl~d~~~~l~~L~~al~---~~~~D---~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~---~~~~~~~~~  110 (135)
                      ..+++..|+++++++|..|...+.   .++.|   ...+.+.+|+|||||+++|...+..+|-.+|..   .+.|...-.
T Consensus         9 ~~ell~~FleEa~E~L~~le~~Ll~le~~~~d~e~l~~lfR~~HTLKGsA~~~G~~~i~~laH~lE~ll~~lr~g~~~~~   88 (144)
T 3kyj_A            9 MDEIWALYADDGAQALDAMEASLLALQAGEDAAAHVGPLFRAVHTFKGNSRVLGLSVVESRAHLCEDLIGLVRDAGVPMD   88 (144)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHSCCCCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHhHhhHHHhcCchHHHHHHHHHHHHHHHHHcCCCCCC
Confidence            468999999999999999999874   23223   357999999999999999999999999999986   356643333


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 047910          111 KASFEKMKVEHTTLKTKL  128 (135)
Q Consensus       111 ~~~l~~l~~ef~~~~~~L  128 (135)
                      ...++.+-..++.+...+
T Consensus        89 ~~l~dlll~~~D~l~~lv  106 (144)
T 3kyj_A           89 GEIVEILLFASDTLRAML  106 (144)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            344444444444444433

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

Probab=98.69  E-value=3.9e-08  Score=75.18  Aligned_cols=88  Identities=11%  Similarity=0.234  Sum_probs=64.6

Q ss_pred             HHHHHHHHHcHHHHHHHHHHHHhc---CCCCH---HHHHHHHhhhcccccccChHHHHHHHHHHHHH---HhhcCHHHHH
Q 047910           41 EDFVNVYLRDSTKTLAIIEEEIAN---NPVNY---MDLDKYFHQLKSSSNCIGANKVVNEAKKAIEL---CKEENLEAAK  111 (135)
Q Consensus        41 ~~li~~fl~d~~~~l~~L~~al~~---~~~D~---~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~---~~~~~~~~~~  111 (135)
                      .+++..|++++.++|..|...+..   ++.|.   ..+.+.+|+|||||+.+|...+..+|-.+|..   .|.|...--.
T Consensus         6 ~~~l~~F~~Ea~e~L~~l~~~Ll~le~~~~d~~~l~~ifR~~HTlKG~a~~~g~~~i~~laH~~E~~l~~~r~g~~~~~~   85 (225)
T 2lp4_A            6 SDFYQTFFDEADELLADMEQHLLDLVPESPDAEQLNAIFRAAHSIKGGAGTFGFTILQETTHLMENLLDEARRGEMQLNT   85 (225)
T ss_dssp             GGTHHHHHHHHHHHHHHHHHHHHHCCTTSCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTTSSCCCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhhhHHHhcCHHHHHHHHHHHHHHHHHHHcCCCCCCH
Confidence            367899999999999999998743   33343   47789999999999999999999999999977   4566433333


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 047910          112 ASFEKMKVEHTTLKTKL  128 (135)
Q Consensus       112 ~~l~~l~~ef~~~~~~L  128 (135)
                      ..+..+-..++.++.-+
T Consensus        86 ~~~~ll~~~~D~l~~~l  102 (225)
T 2lp4_A           86 DIINLFLETKDIMQEQL  102 (225)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            44444444444444333

>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=87.34  E-value=3.7  Score=30.01  Aligned_cols=82  Identities=9%  Similarity=0.157  Sum_probs=59.8

Q ss_pred             HHHHHHHHHhccchhhhhHHHHHHHhccccCCcchHHHHHHHHHHcHHHH-HHHHHHHHhcCCCCHHHHHHHHhhhcccc
Q 047910            5 RQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKT-LAIIEEEIANNPVNYMDLDKYFHQLKSSS   83 (135)
Q Consensus         5 ~~~~~~~~~~~~d~~~lD~~~~~L~~L~~~~~~df~~~li~~fl~d~~~~-l~~L~~al~~~~~D~~~l~~~aH~LKGSS   83 (135)
                      ...+.+++.+++.+.=....+..|+.+.    |+|=   ...|++.+... +..|..|..+|  |.+.|+.+        
T Consensus        22 ~~~~~~~~~~~f~~s~~~~~l~~i~~~d----p~Fd---~~~Fl~~ak~~iy~~Iq~A~~~g--D~~~Lr~~--------   84 (194)
T 2cw9_A           22 TDKVTDLLGGLFSKTEMSEVLTEILRVD----PAFD---KDRFLKQCENDIIPNVLEAMISG--ELDILKDW--------   84 (194)
T ss_dssp             HHHHHHHTCCTTHHHHHHHHHHHHHHHC----TTCC---HHHHHHHHHHTHHHHHHHHHHHT--CHHHHHHH--------
T ss_pred             hhhhhhhhccccCCCHHHHHHHHHHhhC----CCCC---HHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHh--------
Confidence            3455555666666665555577777774    4443   37899999998 79999999998  89999998        


Q ss_pred             cccChHHHHHHHHHHHHHHhhc
Q 047910           84 NCIGANKVVNEAKKAIELCKEE  105 (135)
Q Consensus        84 a~iGA~~l~~~c~~lE~~~~~~  105 (135)
                        +.-.-...++..+......|
T Consensus        85 --~t~~~~~~~~~~i~~r~~~g  104 (194)
T 2cw9_A           85 --CYEATYSQLAHPIQQAKALG  104 (194)
T ss_dssp             --BCHHHHHHHHHHHHHHHHTT
T ss_pred             --cCHHHHHHHHHHHHHHHHCC
Confidence              55566777777777766554

---

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	135
d1yvia1	142	a.24.10.2 (A:2-143) Histidine-containing phosphotr	2e-24
d2a0ba_	118	a.24.10.1 (A:) Aerobic respiration control sensor	2e-10
d1sr2a_	116	a.24.10.4 (A:) Sensor-like histidine kinase YojN,	1e-08
d1y6da_	114	a.24.10.5 (A:) Phosphorelay protein luxU {Vibrio h	7e-06
d2r25a1	166	a.24.10.2 (A:2-167) Phosphorelay protein ypd1 {Bak	4e-05

>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 = 89.2 bits (221), Expect = 2e-24
 Identities = 33/134 (24%), Positives = 66/134 (49%), Gaps = 1/134 (0%)

Query: 2   EALRQQISAMRQSFFDEDILDTHIFQLEQVEH-ISDPSLFEDFVNVYLRDSTKTLAIIEE 60
            ALR Q++A+  S F + ++D    QL+ ++     P    + V ++  D+ + +  I  
Sbjct: 3   AALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEIAT 62

Query: 61  EIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVE 120
            +    VN+  +D Y HQLK SS  +GA KV     +  + C++++ +    +   ++ +
Sbjct: 63  LLEQPVVNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQDKSRDGCLMALAVVRND 122

Query: 121 HTTLKTKLQAYLEV 134
              L+ K Q  L++
Sbjct: 123 FYDLRNKFQTMLQL 136

>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 = 52.3 bits (125), Expect = 2e-10
 Identities = 20/117 (17%), Positives = 46/117 (39%), Gaps = 4/117 (3%)

Query: 17  DEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYF 76
            E +LD     LEQ   +  P L  D + V+ +     ++++E  +     +   + +  
Sbjct: 3   SEALLDIP--MLEQYLELVGPKLITDGLAVFEKMMPGYVSVLESNLTAQ--DKKGIVEEG 58

Query: 77  HQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLE 133
           H++K ++  +G   +    ++          +      E+MK E       L+A++ 
Sbjct: 59  HKIKGAAGSVGLRHLQQLGQQIQSPDLPAWEDNVGEWIEEMKEEWRHDVEVLKAWVA 115

>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 = 47.7 bits (113), Expect = 1e-08
 Identities = 9/112 (8%), Positives = 34/112 (30%), Gaps = 2/112 (1%)

Query: 13  QSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDL 72
               +  +    + +       +       +  +++      +  +  E A +  ++  L
Sbjct: 6   LQLIEVQLAQEEVTESPLGGDENAQLHASGYYALFVDTVPDDVKRLYTEAATS--DFAAL 63

Query: 73  DKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTL 124
            +  H+LK     +         +    L +E+++   +     +     +L
Sbjct: 64  AQTAHRLKGVFAMLNLVPGKQLCETLEHLIREKDVPGIEKYISDIDSYVKSL 115

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

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

 Score = 40.5 bits (94), Expect = 7e-06
 Identities = 17/116 (14%), Positives = 45/116 (38%), Gaps = 4/116 (3%)

Query: 17  DEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYF 76
           + D+L+    ++E++            ++++L +    +  + E   +     + L +  
Sbjct: 2   NTDVLNQQ--KIEELSAEIGSDNVPVLLDIFLGEMDSYIGTLTELQGSE--QLLYLKEIS 57

Query: 77  HQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYL 132
           H LKSS+   GA+++   A    +  K   L+       +M       +   +++ 
Sbjct: 58  HALKSSAASFGADRLCERAIAIDKKAKANQLQEQGMETSEMLALLHITRDAYRSWT 113

>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 = 38.9 bits (90), Expect = 4e-05
 Identities = 15/116 (12%), Positives = 42/116 (36%), Gaps = 1/116 (0%)

Query: 18  EDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFH 77
            +I++  I          D    +  +  ++  +  T A ++ ++ +   N  +LD   H
Sbjct: 5   SEIINWTILNEIISMDDDDSDFSKGLIIQFIDQAQTTFAQMQRQL-DGEKNLTELDNLGH 63

Query: 78  QLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLE 133
            LK SS  +G  ++    ++   L ++        +     +   ++   +    +
Sbjct: 64  FLKGSSAALGLQRIAWVCERIQNLGRKMEHFFPNKTELVNTLSDKSIINGINIDED 119

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	135
d1yvia1	142	Histidine-containing phosphotransfer protein HP1 {	100.0
d2a0ba_	118	Aerobic respiration control sensor protein, ArcB {	99.91
d2r25a1	166	Phosphorelay protein ypd1 {Baker's yeast (Saccharo	99.89
d1y6da_	114	Phosphorelay protein luxU {Vibrio harveyi [TaxId:	99.87
d1sr2a_	116	Sensor-like histidine kinase YojN, C-terminal doma	99.83
d2ooca1	104	Histidine phosphotransferase ShpA {Caulobacter cre	99.71
d1tqga_	105	Chemotaxis protein CheA P1 domain {Thermotoga mari	99.08
d1i5na_	128	Chemotaxis protein CheA P1 domain {Salmonella typh	98.96
d2cw9a1	182	Translocase of inner mitochondrial membrane TIMM44	91.05
d2di0a1	63	Activating signal cointegrator 1 complex subunit 2	83.16
d1fpoa2	95	HSC20 (HSCB), C-terminal oligomerisation domain {E	82.76
d1nzea_	112	Oxygen-evolving enhancer protein 3, {Spinach (Spin	81.96

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

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

Probab=100.00  E-value=1.3e-33  Score=202.63  Aligned_cols=133  Identities=25%  Similarity=0.469  Sum_probs=125.9

Q ss_pred             hHHHHHHHHHHHhccchhhhhHHHHHHHhcccc-CCcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhc
Q 047910            2 EALRQQISAMRQSFFDEDILDTHIFQLEQVEHI-SDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLK   80 (135)
Q Consensus         2 ~~~~~~~~~~~~~~~d~~~lD~~~~~L~~L~~~-~~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LK   80 (135)
                      ++|++++.++++|++++|++|.+|.+|..|.++ ++|+|+.+|+.+|++++|+.+..|++++..++.|++.++..||+||
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            579999999999999999999999999988875 5789999999999999999999999999876569999999999999


Q ss_pred             ccccccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 047910           81 SSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLEV  134 (135)
Q Consensus        81 GSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~~  134 (135)
                      |||+|+||.+++.+|..||.+++.++.+++..++.+|+.+|..++.+|++|+++
T Consensus        83 Gss~~lGa~~l~~~~~~lE~~~~~~~~~~~~~~~~~L~~e~~~l~~~L~~~l~~  136 (142)
T d1yvia1          83 GSSASVGAQKVKFTCMQFRQFCQDKSRDGCLMALAVVRNDFYDLRNKFQTMLQL  136 (142)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHhhccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999875

>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=99.91  E-value=1.4e-24  Score=149.69  Aligned_cols=111  Identities=16%  Similarity=0.204  Sum_probs=102.3

Q ss_pred             hhhhhHH-HHHHHhccccCCcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHHH
Q 047910           18 EDILDTH-IFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAK   96 (135)
Q Consensus        18 ~~~lD~~-~~~L~~L~~~~~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~   96 (135)
                      +++||.. +.++...   .||+++.+++..|++++|+.+..|+.++.++  |++.+++.+|+|||||+|+||.+++.+|.
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            4566654 4455544   7899999999999999999999999999998  99999999999999999999999999999


Q ss_pred             HHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 047910           97 KAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYLE  133 (135)
Q Consensus        97 ~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l~  133 (135)
                      .||..++.++.+.+..++..|+.+|..+..+|+.|+.
T Consensus        79 ~lE~~~~~~~~~~~~~~l~~l~~~~~~~~~~L~~~l~  115 (118)
T d2a0ba_          79 QIQSPDLPAWEDNVGEWIEEMKEEWRHDVEVLKAWVA  115 (118)
T ss_dssp             HHTCTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999984

>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=99.89  E-value=4.9e-23  Score=150.63  Aligned_cols=115  Identities=16%  Similarity=0.313  Sum_probs=103.3

Q ss_pred             hhhhhHH-HHHHHhccccCCcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHHH
Q 047910           18 EDILDTH-IFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAK   96 (135)
Q Consensus        18 ~~~lD~~-~~~L~~L~~~~~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~   96 (135)
                      .++||+. |.+|..|. +++|+|+.+||..|++++|+.+..|++|+.+. .|+.+++.+||+|||||+||||.+++.+|.
T Consensus         5 ~~~id~~~l~~l~~m~-~~d~~f~~~li~~F~~~~~~~~~~l~~al~~~-~d~~~l~~~aH~lKgss~~~G~~~~~~~~~   82 (166)
T d2r25a1           5 SEIINWTILNEIISMD-DDDSDFSKGLIIQFIDQAQTTFAQMQRQLDGE-KNLTELDNLGHFLKGSSAALGLQRIAWVCE   82 (166)
T ss_dssp             SCSSCHHHHHHHHHTT-TTSSHHHHHHHHHHHHHHHHHHHHHHHHHHTT-CCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHh-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hhHHHHHHHHHHHHHHHHHhCHHHHHHHHH
Confidence            4688986 99999995 57899999999999999999999999999663 299999999999999999999999999999


Q ss_pred             HHHHHHhhcC--------------------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 047910           97 KAIELCKEEN--------------------------------------------LEAAKASFEKMKVEHTTLKTKLQAYL  132 (135)
Q Consensus        97 ~lE~~~~~~~--------------------------------------------~~~~~~~l~~l~~ef~~~~~~L~~~l  132 (135)
                      .||++++.++                                            +......+.+.+..|.+++..|..|+
T Consensus        83 ~ie~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~e~~~~~~l~~I~~~L~~a~d~~~~a~~~L~~~~  162 (166)
T d2r25a1          83 RIQNLGRKMEHFFPNKTELVNTLSDKSIINGINIDEDDEEIKIQVDDKDENSIYLILIAKALNQSRLEFKLARIELSKYY  162 (166)
T ss_dssp             HHHHHHTTCCCCCCCHHHHHTTCSSGGGGSSSCTTTTCCCCCCCSSSCCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHcccccchhHHHHHHHHHHHHHHHHHhhhhcccccccccCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999988642                                            34567889999999999999999998


Q ss_pred             cC
Q 047910          133 EV  134 (135)
Q Consensus       133 ~~  134 (135)
                      +-
T Consensus       163 ~~  164 (166)
T d2r25a1         163 NT  164 (166)
T ss_dssp             TS
T ss_pred             cc
Confidence            64

>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=99.87  E-value=2.2e-24  Score=147.70  Aligned_cols=111  Identities=16%  Similarity=0.245  Sum_probs=101.7

Q ss_pred             chhhhhHH-HHHHHhccccCCcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHH
Q 047910           17 DEDILDTH-IFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEA   95 (135)
Q Consensus        17 d~~~lD~~-~~~L~~L~~~~~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c   95 (135)
                      ++++||.. +++|.   +..|++++.+++..|++++|..+..|++++.++  |++.+++.+|+|||||+|+||.+|+.+|
T Consensus         2 ~~~lld~~~l~~L~---~~~G~e~~~~ll~~F~~~~~~~~~~L~~a~~~~--d~~~l~~~aH~LKGsa~~~Ga~~L~~~~   76 (114)
T d1y6da_           2 NTDVLNQQKIEELS---AEIGSDNVPVLLDIFLGEMDSYIGTLTELQGSE--QLLYLKEISHALKSSAASFGADRLCERA   76 (114)
T ss_dssp             CCTTTTTTHHHHHT---HHHHHHHHHHHHHHHHHHHHHHHHHTTTTSSHH--HHHHHHHHHHHHHHHHHHHTTTHHHHHH
T ss_pred             CHHHCCHHHHHHHH---HHhCHHHHHHHHHHHHHHHHHHHHHHHHHHhCc--CHHHHHHHHHHHHHHHHHcCHHHHHHHH
Confidence            45777875 55555   446789999999999999999999999999998  9999999999999999999999999999


Q ss_pred             HHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 047910           96 KKAIELCKEENLEAAKASFEKMKVEHTTLKTKLQAYL  132 (135)
Q Consensus        96 ~~lE~~~~~~~~~~~~~~l~~l~~ef~~~~~~L~~~l  132 (135)
                      ..||..++.++.+.+...+..+...+.+++.+++.|.
T Consensus        77 ~~lE~~~~~~~~~~~~~~~~~l~~~~~~t~~a~r~w~  113 (114)
T d1y6da_          77 IAIDKKAKANQLQEQGMETSEMLALLHITRDAYRSWT  113 (114)
T ss_dssp             HHHHHHHHHHHHCTTTSTTTTTTHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCChhHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            9999999999999999999999999999999999875

>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=99.83  E-value=3.3e-22  Score=138.11  Aligned_cols=86  Identities=10%  Similarity=0.142  Sum_probs=82.3

Q ss_pred             cchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHHHHHHHHHhhcCHHHHHHHHHH
Q 047910           37 PSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASFEK  116 (135)
Q Consensus        37 ~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l~~  116 (135)
                      +.|+.+++.+|++++|..+..|+.|++++  |+..+++.||+|||||+|+||.+++.+|..||..++.++.+.+..++.+
T Consensus        30 ~~~~~~~~~lF~~~~p~~l~~L~~a~~~~--D~~~l~~~aH~LKGs~~~~Ga~~l~~~~~~lE~~~~~~~~~~~~~ll~~  107 (116)
T d1sr2a_          30 QLHASGYYALFVDTVPDDVKRLYTEAATS--DFAALAQTAHRLKGVFAMLNLVPGKQLCETLEHLIREKDVPGIEKYISD  107 (116)
T ss_dssp             HHHHHTTHHHHTTTHHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHCc--CHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            45888899999999999999999999998  9999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHH
Q 047910          117 MKVEHTTL  124 (135)
Q Consensus       117 l~~ef~~~  124 (135)
                      |+.++.++
T Consensus       108 le~~~~~l  115 (116)
T d1sr2a_         108 IDSYVKSL  115 (116)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99988765

>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=99.71  E-value=1.7e-18  Score=117.47  Aligned_cols=77  Identities=10%  Similarity=0.147  Sum_probs=65.5

Q ss_pred             hhhhHHHHHHHhccccCCcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHHHHH
Q 047910           19 DILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKA   98 (135)
Q Consensus        19 ~~lD~~~~~L~~L~~~~~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~l   98 (135)
                      |.||..  .|.++-. |+++|+.+|+.+|+++++..+..+     ++  |++.+++.+|+|||||+||||.+|+.+|.+|
T Consensus         1 gaiD~~--~L~~~~g-gd~~l~~~ll~~F~e~~~~~~~~l-----~~--d~~~~~~~aH~LKGsa~~iGa~~L~~~a~~l   70 (104)
T d2ooca1           1 GAVDFA--YLEGFAA-GDFAVVDEVLALFREQAALWAPML-----DP--THPGWKDAVHTVKGAARGVGAFNLGEVCERC   70 (104)
T ss_dssp             CCSCHH--HHHHHTT-TCHHHHHHHHHHHHHHHHHHGGGC-----ST--TSTTHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             CccCHH--HHHHHhC-CCHHHHHHHHHHHHHHHHHHHHHH-----cc--CHHHHHHHHHHHHhHHHHcCHHHHHHHHHHH
Confidence            456643  6666654 789999999999999999988655     23  7889999999999999999999999999999


Q ss_pred             HHHHhhc
Q 047910           99 IELCKEE  105 (135)
Q Consensus        99 E~~~~~~  105 (135)
                      |..++.+
T Consensus        71 E~~~~~~   77 (104)
T d2ooca1          71 EAGQESL   77 (104)
T ss_dssp             HTTSSCH
T ss_pred             HHHHHcc
Confidence            9998764

>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=99.08  E-value=2.3e-10  Score=76.15  Aligned_cols=90  Identities=10%  Similarity=0.281  Sum_probs=67.9

Q ss_pred             HHHHHHHHHcHHHHHHHHHHHHhc---CCCC---HHHHHHHHhhhcccccccChHHHHHHHHHHHHH---HhhcCHHHHH
Q 047910           41 EDFVNVYLRDSTKTLAIIEEEIAN---NPVN---YMDLDKYFHQLKSSSNCIGANKVVNEAKKAIEL---CKEENLEAAK  111 (135)
Q Consensus        41 ~~li~~fl~d~~~~l~~L~~al~~---~~~D---~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~---~~~~~~~~~~  111 (135)
                      .+++..|++++++++..|...+..   ++.|   ...+.+.+|+|||||+.+|...++.+|..+|.+   .+.+..+.-.
T Consensus         4 ~E~l~~Fl~Ea~e~l~~l~~~l~~le~~~~~~~~~~~l~R~~HTLKG~a~~~gl~~i~~lah~lE~~l~~~~~~~~~~~~   83 (105)
T d1tqga_           4 MEYLGVFVDETKEYLQNLNDTLLELEKNPEDMELINEAFRALHTLKGMAGTMGFSSMAKLCHTLENILDKARNSEIKITS   83 (105)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTTSSCCCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCchhhcCHHHHHHHHHHHHHHHHHHHhCCCCCCH
Confidence            378999999999999999998832   2223   457889999999999999999999999999986   4555443334


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 047910          112 ASFEKMKVEHTTLKTKLQA  130 (135)
Q Consensus       112 ~~l~~l~~ef~~~~~~L~~  130 (135)
                      ..+..+...++.++..++.
T Consensus        84 ~~~~~l~~~~d~l~~~l~~  102 (105)
T d1tqga_          84 DLLDKIFAGVDMITRMVDK  102 (105)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555544

>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=6.4e-10  Score=76.18  Aligned_cols=87  Identities=11%  Similarity=0.224  Sum_probs=63.2

Q ss_pred             HHHHHHHHcHHHHHHHHHHHHh---cCCCCH---HHHHHHHhhhcccccccChHHHHHHHHHHHHH---HhhcCHHHHHH
Q 047910           42 DFVNVYLRDSTKTLAIIEEEIA---NNPVNY---MDLDKYFHQLKSSSNCIGANKVVNEAKKAIEL---CKEENLEAAKA  112 (135)
Q Consensus        42 ~li~~fl~d~~~~l~~L~~al~---~~~~D~---~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~---~~~~~~~~~~~  112 (135)
                      +++..|++++.+++..|...+.   .++.|.   ..+.+.+|+|||||+.+|...+..+|..+|..   .+.+...--..
T Consensus         4 e~~~~F~~Ea~e~l~~l~~~l~~le~~~~~~~~~~~l~R~~HTLKG~a~~~gl~~i~~lah~lE~~l~~lr~~~~~~~~~   83 (128)
T d1i5na_           4 DFYQTFFDEADELLADMEQHLLDLVPESPDAEQLNAIFRAAHSIKGGAGTFGFTILQETTHLMENLLDEARRGEMQLNTD   83 (128)
T ss_dssp             GGHHHHHHHHHHHHHHHHHHHHHCCTTSCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTTSSCCCHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhHHhhcChHHHHHHHHHHHHHHHHHHhCCCCCCHH
Confidence            5789999999999999999973   333344   37889999999999999999999999999986   34454333333


Q ss_pred             HHHHHHHHHHHHHHHH
Q 047910          113 SFEKMKVEHTTLKTKL  128 (135)
Q Consensus       113 ~l~~l~~ef~~~~~~L  128 (135)
                      .+..+...++.++..+
T Consensus        84 ~~~~l~~~~d~l~~~l   99 (128)
T d1i5na_          84 IINLFLETKDIMQEQL   99 (128)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3444444444444433

>d2cw9a1 d.17.4.13 (A:270-451) Translocase of inner mitochondrial membrane TIMM44 (TIM44), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cystatin-like
superfamily: NTF2-like
family: TIM44-like
domain: Translocase of inner mitochondrial membrane TIMM44 (TIM44), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.05  E-value=0.86  Score=31.30  Aligned_cols=84  Identities=12%  Similarity=0.184  Sum_probs=66.0

Q ss_pred             HHHHHHHHHHHhccchhhhhHHHHHHHhccccCCcchHHHHHHHHHHcHHH-HHHHHHHHHhcCCCCHHHHHHHHhhhcc
Q 047910            3 ALRQQISAMRQSFFDEDILDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTK-TLAIIEEEIANNPVNYMDLDKYFHQLKS   81 (135)
Q Consensus         3 ~~~~~~~~~~~~~~d~~~lD~~~~~L~~L~~~~~~df~~~li~~fl~d~~~-~l~~L~~al~~~~~D~~~l~~~aH~LKG   81 (135)
                      ++..++..+..+++.+.-+...+..|+..    +|+|-   ...|+..+.. .+..|-+|...|  |.+.|+.+      
T Consensus         9 ~~~~~v~~~~~~~~~~~~~~~~l~~i~~~----Dp~F~---~~~Fl~gAk~~~~~~i~~A~~~g--D~~~L~~l------   73 (182)
T d2cw9a1           9 ALTDKVTDLLGGLFSKTEMSEVLTEILRV----DPAFD---KDRFLKQCENDIIPNVLEAMISG--ELDILKDW------   73 (182)
T ss_dssp             HHHHHHHHHTCCTTHHHHHHHHHHHHHHH----CTTCC---HHHHHHHHHHTHHHHHHHHHHHT--CHHHHHHH------
T ss_pred             hhhhhhhhhhcCCCCCCHHHHHHHHHHhh----CCCCC---HHHHHHHHHHHHHHHHHHHHHcc--CHHHHHHH------
Confidence            55667778888888887777678888887    45554   5678889976 789999999998  89999988      


Q ss_pred             cccccChHHHHHHHHHHHHHHhhc
Q 047910           82 SSNCIGANKVVNEAKKAIELCKEE  105 (135)
Q Consensus        82 SSa~iGA~~l~~~c~~lE~~~~~~  105 (135)
                          ++-.-+..++..+......|
T Consensus        74 ----lt~~~~~~f~~~i~~r~~~g   93 (182)
T d2cw9a1          74 ----CYEATYSQLAHPIQQAKALG   93 (182)
T ss_dssp             ----BCHHHHHHHHHHHHHHHHTT
T ss_pred             ----hhHHHHHHHHHHHHHHHHCC
Confidence                77777888888887766555

>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=83.16  E-value=0.56  Score=27.40  Aligned_cols=40  Identities=20%  Similarity=0.201  Sum_probs=34.8

Q ss_pred             hhHHHHHHHhccccCCcchHHHHHHHHHHcHHHHHHHHHH
Q 047910           21 LDTHIFQLEQVEHISDPSLFEDFVNVYLRDSTKTLAIIEE   60 (135)
Q Consensus        21 lD~~~~~L~~L~~~~~~df~~~li~~fl~d~~~~l~~L~~   60 (135)
                      +|..+++++.|-.+-|+.|+...++-|-.|+++.+..|=+
T Consensus         6 l~s~I~qV~Dl~PdLG~GFi~~~L~~Y~~n~E~vI~~lLe   45 (63)
T d2di0a1           6 LDSLISQVKDLLPDLGEGFILACLEYYHYDPEQVINNILE   45 (63)
T ss_dssp             HHHHHHHHHHHCCSSCHHHHHHHHHHTTTCHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCCcHHHHHHHHHHhCCCHHHHHHHHHc
Confidence            5666889999999999999999999999999998877643

>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=82.76  E-value=2.6  Score=25.74  Aligned_cols=76  Identities=13%  Similarity=0.264  Sum_probs=43.4

Q ss_pred             CCcchHHHHHHHHHHcHHHHHHHHHHHHhcCCCCHHHHHHHHhhhcccccccChHHHHHHHHHHHHHHhhcCHHHHHHHH
Q 047910           35 SDPSLFEDFVNVYLRDSTKTLAIIEEEIANNPVNYMDLDKYFHQLKSSSNCIGANKVVNEAKKAIELCKEENLEAAKASF  114 (135)
Q Consensus        35 ~~~df~~~li~~fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSa~iGA~~l~~~c~~lE~~~~~~~~~~~~~~l  114 (135)
                      .+|+|+.+.+..     .+   .|..+-..+  |...+..+...+++        ++..+...+..+-..++++.+...+
T Consensus        11 ~DpeFLMeqME~-----RE---~lee~~~~~--d~~~l~~l~~ei~~--------~~~~~~~~l~~~~~~~d~~~A~~~~   72 (95)
T d1fpoa2          11 RDTAFLMEQLEL-----RE---ELDEIEQAK--DEARLESFIKRVKK--------MFDTRHQLMVEQLDNETWDAAADTC   72 (95)
T ss_dssp             SCHHHHHHHHHH-----HH---HHHHHHHHT--CHHHHHHHHHHHHH--------HHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHH-----HH---HHHHhhcCC--CHHHHHHHHHHHHH--------HHHHHHHHHHHHHhhccHHHHHHHH
Confidence            456777665542     12   222332333  55666666666653        5666666777776777877777766


Q ss_pred             HHHHHHHHHHHHHHH
Q 047910          115 EKMKVEHTTLKTKLQ  129 (135)
Q Consensus       115 ~~l~~ef~~~~~~L~  129 (135)
                      .+|+= |.++...++
T Consensus        73 ~kLkF-~~kl~~ei~   86 (95)
T d1fpoa2          73 RKLRF-LDKLRSSAE   86 (95)
T ss_dssp             HHHHH-HHHHHHHHH
T ss_pred             HHhHH-HHHHHHHHH
Confidence            66643 444444444

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

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

Probab=81.96  E-value=4.4  Score=25.63  Aligned_cols=76  Identities=11%  Similarity=0.107  Sum_probs=46.7

Q ss_pred             HcHHHHHHHHHHHHhcCCCCHHHHHHHHhh--------hcccccccC----------hHHHHHHHHHHHHHHhhcCHHHH
Q 047910           49 RDSTKTLAIIEEEIANNPVNYMDLDKYFHQ--------LKSSSNCIG----------ANKVVNEAKKAIELCKEENLEAA  110 (135)
Q Consensus        49 ~d~~~~l~~L~~al~~~~~D~~~l~~~aH~--------LKGSSa~iG----------A~~l~~~c~~lE~~~~~~~~~~~  110 (135)
                      .++.+.|.+|+..|+.+  ++..++...|.        |+.-.++.+          |..+..--..|..+++.++...+
T Consensus        16 ~~sa~~L~~l~~lI~k~--~W~~v~~~Lr~~~~~Lr~dl~~li~~~~~~~k~~~~~la~~lf~~le~LD~Aar~kd~~~a   93 (112)
T d1nzea_          16 KVSASEILNVKQFIDRK--AWPSLQNDLRLRASYLRYDLKTVISAKPKDEKKSLQELTSKLFSSIDNLDHAAKIKSPTEA   93 (112)
T ss_dssp             HHHHHHHHTTHHHHHTT--CHHHHHHHHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHhhc--cHHHHHHHHHHHHHHHHHHHHHHHHhCCHhhhHHHHHHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            55667777777777776  67777766664        333333333          23455666667777788887776


Q ss_pred             HHHHHHHHHHHHHHHH
Q 047910          111 KASFEKMKVEHTTLKT  126 (135)
Q Consensus       111 ~~~l~~l~~ef~~~~~  126 (135)
                      ..........++.+.+
T Consensus        94 ~~~Y~~t~~~ld~~la  109 (112)
T d1nzea_          94 EKYYGQTVSNINEVLA  109 (112)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            6665555555555443