Citrus Sinensis ID: 043345

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80
Protein Sequence
DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTLFQVCLKSLASS
Secondary Structure (PSIPRED)
ccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Coil and Loop (DISEMBL)
dqqnvdftkvgghvhqlkgssssigaqrVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTLFQVCLKSLASS
Flexible Loop (DISEMBL)
dqqnvdftkvgghvhqlkgssssigaqrvNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTLFQVCLKSLASS
Low Complexity Region (SEG)
DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTLFQVCLKSLASS
Disordered region (IsUnstruct)
************************GAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTLFQVCLK*****
Disordered Region (DISOPRED)
**QNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTLFQVCLKSL***
Disordered Region (DISEMBL)
DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTLFQVCLKSLASS
Disordered Region (DISPRO)
**QNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTLFQVCLKSLASS
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTLFQVCLKSLASS
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	80	2.2.26 [Sep-21-2011]
Q9ZNV9	154	Histidine-containing phos	yes	no	0.987	0.512	0.670	1e-24
Q9ZNV8	156	Histidine-containing phos	no	no	0.837	0.429	0.537	6e-15
Q8L9T7	157	Histidine-containing phos	no	no	0.837	0.426	0.567	6e-15
Q6VAK4	149	Histidine-containing phos	no	no	0.9	0.483	0.444	1e-13
Q9SSC9	154	Histidine-containing phos	no	no	0.9	0.467	0.5	1e-13
Q9SAZ5	155	Histidine-containing phos	no	no	0.862	0.445	0.521	2e-13
Q9LU15	127	Histidine-containing phos	no	no	0.862	0.543	0.434	1e-11

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

 Score =  111 bits (277), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 53/79 (67%), Positives = 64/79 (81%)

Query: 1   DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
           DQQ VDF KV  HVHQLKGSSSSIGAQRV N C  FRSFCE++N+E C + LQ +KQEYY
Sbjct: 65  DQQVVDFKKVDPHVHQLKGSSSSIGAQRVKNACVVFRSFCEQQNVEACHRCLQQVKQEYY 124

Query: 61  LVKNKLQTLFQVCLKSLAS 79
           LVKN+L+TLF++  + +AS
Sbjct: 125 LVKNRLETLFKLEQQIVAS 143

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

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

 Score = 79.3 bits (194), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 36/67 (53%), Positives = 48/67 (71%)

Query: 4   NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVK 63
            VDF++VG  VHQLKGSSSS+GA+RV  +C +F+  CE +N EGC + LQ +  EY  +K
Sbjct: 71  TVDFSQVGASVHQLKGSSSSVGAKRVKTLCVSFKECCEAKNYEGCVRCLQQVDIEYKALK 130

Query: 64  NKLQTLF 70
            KLQ +F
Sbjct: 131 TKLQDMF 137

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

Arabidopsis thaliana (taxid: 3702)

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

 Score = 79.3 bits (194), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 38/67 (56%), Positives = 49/67 (73%)

Query: 4   NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVK 63
           NVDF +V   VHQLKGSSSS+GA+RV NVC +F+  C+ +N EGC + LQ +  EY ++K
Sbjct: 72  NVDFKQVDSGVHQLKGSSSSVGARRVKNVCISFKECCDVQNREGCLRCLQQVDYEYKMLK 131

Query: 64  NKLQTLF 70
            KLQ LF
Sbjct: 132 TKLQDLF 138

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 = 75.1 bits (183), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 32/72 (44%), Positives = 51/72 (70%)

Query: 1   DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
           +Q  V+F KV  +VHQLKGSS+S+GAQ+V   C  FR FC++++ +GC   L  ++ ++Y
Sbjct: 66  EQPVVNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQDKSRDGCLMALAVVRNDFY 125

Query: 61  LVKNKLQTLFQV 72
            ++NK QT+ Q+
Sbjct: 126 DLRNKFQTMLQL 137

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score = 75.1 bits (183), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 36/72 (50%), Positives = 51/72 (70%)

Query: 1   DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
           D++  D+ K+G H++QL GSSSSIGA+RV NVC AFRS  E  N  GC + L+ ++ EY+
Sbjct: 69  DREFSDYKKIGLHLNQLVGSSSSIGARRVRNVCVAFRSASELSNRPGCLRGLEVVEHEYH 128

Query: 61  LVKNKLQTLFQV 72
            +KN +  LFQ+
Sbjct: 129 YLKNMMHELFQL 140

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

Arabidopsis thaliana (taxid: 3702)

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

 Score = 74.7 bits (182), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 36/69 (52%), Positives = 46/69 (66%)

Query: 4   NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVK 63
           NVDF  VG  VHQLKGSSSS+GA+RV  +C   +  C+ +N EGC + LQ +  EY  +K
Sbjct: 71  NVDFKLVGSSVHQLKGSSSSVGAKRVKGLCVTLKECCDSQNYEGCVRCLQQVDIEYKTLK 130

Query: 64  NKLQTLFQV 72
            KLQ LF +
Sbjct: 131 AKLQDLFNL 139

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

 Score = 68.2 bits (165), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 30/69 (43%), Positives = 44/69 (63%)

Query: 4   NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVK 63
           + DF ++  ++HQ KGSS+SIGA +V   CT FR +C   N EGC +  Q LK+E+  ++
Sbjct: 57  SFDFNRLDSYMHQFKGSSTSIGASKVKAECTTFREYCRAGNAEGCLRTFQQLKKEHSTLR 116

Query: 64  NKLQTLFQV 72
            KL+  FQ 
Sbjct: 117 KKLEHYFQA 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)

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	80
297835126	154	histidine-containing phosphotransmitter	0.987	0.512	0.670	5e-23
15233079	154	histidine-containing phosphotransmitter	0.987	0.512	0.670	6e-23
451928654	159	Chain B, Crystal Structure	0.987	0.496	0.670	7e-23
298103712	152	putative histidine phosphotransfer prote	0.987	0.519	0.658	2e-22
449454450	154	PREDICTED: histidine-containing phosphot	0.9	0.467	0.736	2e-22
224123262	152	histidine phosphotransfer protein [Popul	0.987	0.519	0.658	2e-22
116791049	151	unknown [Picea sitchensis]	0.887	0.470	0.718	3e-22
225451088	150	PREDICTED: histidine-containing phosphot	0.987	0.526	0.670	3e-22
13774348	151	histidine-containing phosphotransfer pro	0.987	0.523	0.658	8e-22
224107315	154	histidine phosphotransfer protein [Popul	0.9	0.467	0.708	8e-22

>gi|297835126|ref|XP_002885445.1| histidine-containing phosphotransmitter 3 [Arabidopsis lyrata subsp. lyrata] gi|297331285|gb|EFH61704.1| histidine-containing phosphotransmitter 3 [Arabidopsis lyrata subsp. lyrata]

 Score =  111 bits (278), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 53/79 (67%), Positives = 64/79 (81%)

Query: 1   DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
           DQQ VDF KV  HVHQLKGSSSSIGAQRV N C  FRSFCE++N+E C + LQ +KQEYY
Sbjct: 65  DQQVVDFKKVDPHVHQLKGSSSSIGAQRVKNACVVFRSFCEQQNVEACHRCLQQVKQEYY 124

Query: 61  LVKNKLQTLFQVCLKSLAS 79
           LVKN+L+TLF++  + +AS
Sbjct: 125 LVKNRLETLFKLEQQIVAS 143

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15233079|ref|NP_188788.1| histidine-containing phosphotransmitter 1 [Arabidopsis thaliana] gi|73622113|sp|Q9ZNV9.1|AHP1_ARATH RecName: Full=Histidine-containing phosphotransfer protein 1 gi|13878005|gb|AAK44080.1|AF370265_1 putative two-component phosphorelay mediator protein [Arabidopsis thaliana] gi|4107099|dbj|BAA36335.1| AHP1 [Arabidopsis thaliana] gi|4156245|dbj|BAA37112.1| ATHP3 [Arabidopsis thaliana] gi|11994387|dbj|BAB02346.1| histidine-containing phosphotransfer protein-like [Arabidopsis thaliana] gi|17104735|gb|AAL34256.1| putative two-component phosphorelay mediator protein [Arabidopsis thaliana] gi|332642997|gb|AEE76518.1| histidine-containing phosphotransmitter 1 [Arabidopsis thaliana]

 Score =  111 bits (277), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 53/79 (67%), Positives = 64/79 (81%)

Query: 1   DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
           DQQ VDF KV  HVHQLKGSSSSIGAQRV N C  FRSFCE++N+E C + LQ +KQEYY
Sbjct: 65  DQQVVDFKKVDPHVHQLKGSSSSIGAQRVKNACVVFRSFCEQQNVEACHRCLQQVKQEYY 124

Query: 61  LVKNKLQTLFQVCLKSLAS 79
           LVKN+L+TLF++  + +AS
Sbjct: 125 LVKNRLETLFKLEQQIVAS 143

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|451928654|pdb|4EUK|B Chain B, Crystal Structure

 Score =  111 bits (277), Expect = 7e-23,   Method: Compositional matrix adjust.
 Identities = 53/79 (67%), Positives = 64/79 (81%)

Query: 1   DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
           DQQ VDF KV  HVHQLKGSSSSIGAQRV N C  FRSFCE++N+E C + LQ +KQEYY
Sbjct: 70  DQQVVDFKKVDPHVHQLKGSSSSIGAQRVKNACVVFRSFCEQQNVEACHRCLQQVKQEYY 129

Query: 61  LVKNKLQTLFQVCLKSLAS 79
           LVKN+L+TLF++  + +AS
Sbjct: 130 LVKNRLETLFKLEQQIVAS 148

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|298103712|emb|CBM42557.1| putative histidine phosphotransfer protein 9 [Populus x canadensis]

 Score =  109 bits (272), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 52/79 (65%), Positives = 64/79 (81%)

Query: 1   DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
           +QQ+VD+ K+  HVHQLKGSSSSIGAQRV  VC  FR+FC+ERNIEGCQ+ LQ +K EY 
Sbjct: 66  EQQSVDYRKIDAHVHQLKGSSSSIGAQRVQKVCIGFRNFCDERNIEGCQKCLQQVKHEYS 125

Query: 61  LVKNKLQTLFQVCLKSLAS 79
           LVK KL+TLF++  K LA+
Sbjct: 126 LVKTKLETLFKLEQKVLAA 144

Source: Populus x canadensis

Species: Populus x canadensis

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449454450|ref|XP_004144968.1| PREDICTED: histidine-containing phosphotransfer protein 1-like [Cucumis sativus] gi|449471211|ref|XP_004153242.1| PREDICTED: histidine-containing phosphotransfer protein 1-like [Cucumis sativus] gi|449515185|ref|XP_004164630.1| PREDICTED: histidine-containing phosphotransfer protein 1-like [Cucumis sativus]

 Score =  109 bits (272), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 53/72 (73%), Positives = 60/72 (83%)

Query: 1   DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
           DQ +VDF KV GHVHQLKGSSSSIGAQRV NVC A RSFCEE+NI+GC + LQ LKQE  
Sbjct: 65  DQPDVDFQKVDGHVHQLKGSSSSIGAQRVKNVCIAMRSFCEEQNIDGCLRCLQQLKQETC 124

Query: 61  LVKNKLQTLFQV 72
           LVKNKL+ LF++
Sbjct: 125 LVKNKLENLFRM 136

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224123262|ref|XP_002319035.1| histidine phosphotransfer protein [Populus trichocarpa] gi|222857411|gb|EEE94958.1| histidine phosphotransfer protein [Populus trichocarpa]

 Score =  109 bits (272), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 52/79 (65%), Positives = 64/79 (81%)

Query: 1   DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
           +QQ+VD+ K+  HVHQLKGSSSSIGAQRV  VC  FR+FCEERNIEGCQ+ LQ ++ EY 
Sbjct: 66  EQQSVDYRKIDAHVHQLKGSSSSIGAQRVQKVCIGFRNFCEERNIEGCQKCLQQVRHEYS 125

Query: 61  LVKNKLQTLFQVCLKSLAS 79
           LVK KL+TLF++  K LA+
Sbjct: 126 LVKTKLETLFKLEQKILAA 144

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|116791049|gb|ABK25839.1| unknown [Picea sitchensis]

 Score =  108 bits (271), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 51/71 (71%), Positives = 58/71 (81%)

Query: 2   QQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYL 61
           QQ VDF KV  HVHQ KGSSSSIGAQRV N C +FR+FCE+RN EGC Q L+ LKQEYYL
Sbjct: 66  QQPVDFKKVDAHVHQFKGSSSSIGAQRVKNECVSFRAFCEQRNREGCLQCLEQLKQEYYL 125

Query: 62  VKNKLQTLFQV 72
            KNKL++LFQ+
Sbjct: 126 AKNKLESLFQL 136

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225451088|ref|XP_002265307.1| PREDICTED: histidine-containing phosphotransfer protein 1 [Vitis vinifera] gi|298205016|emb|CBI34323.3| unnamed protein product [Vitis vinifera]

 Score =  108 bits (271), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 53/79 (67%), Positives = 64/79 (81%)

Query: 1   DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
           DQQ++DF KV  HVHQLKGSSSSIGAQRV NVC AFR+FC+ +N EGC + LQ +K EY 
Sbjct: 66  DQQSIDFRKVDSHVHQLKGSSSSIGAQRVQNVCIAFRNFCDAQNTEGCLKCLQQVKNEYA 125

Query: 61  LVKNKLQTLFQVCLKSLAS 79
           LVKNKL+TLFQ+  + LA+
Sbjct: 126 LVKNKLETLFQLEQQILAA 144

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|13774348|gb|AAK38843.1|AF346308_1 histidine-containing phosphotransfer protein [Catharanthus roseus]

 Score =  107 bits (268), Expect = 8e-22,   Method: Compositional matrix adjust.
 Identities = 52/79 (65%), Positives = 64/79 (81%)

Query: 1   DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
           DQQ+VDF KV   VHQLKGSSSSIGA+RV N C AFR+FC+E NI+ C + LQH+KQEY 
Sbjct: 65  DQQDVDFKKVDACVHQLKGSSSSIGAERVKNACIAFRNFCDELNIDACLRCLQHVKQEYL 124

Query: 61  LVKNKLQTLFQVCLKSLAS 79
           LVKNKL+TLF++  + LA+
Sbjct: 125 LVKNKLETLFRLEQQILAA 143

Source: Catharanthus roseus

Species: Catharanthus roseus

Genus: Catharanthus

Family: Apocynaceae

Order: Gentianales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224107315|ref|XP_002314442.1| histidine phosphotransfer protein [Populus trichocarpa] gi|222863482|gb|EEF00613.1| histidine phosphotransfer protein [Populus trichocarpa]

 Score =  107 bits (267), Expect = 8e-22,   Method: Compositional matrix adjust.
 Identities = 51/72 (70%), Positives = 61/72 (84%)

Query: 1   DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
           +QQ+VDF KV  HVHQLKGSSSSIGAQRV N C AFRSFCEE+NIEGCQ+ LQ +KQ+Y 
Sbjct: 65  EQQSVDFKKVDAHVHQLKGSSSSIGAQRVKNDCIAFRSFCEEQNIEGCQRCLQQVKQDYC 124

Query: 61  LVKNKLQTLFQV 72
           LVK+KL+ L ++
Sbjct: 125 LVKSKLEALIRL 136

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	80
TAIR|locus:2089900	154	AHP1 "histidine-containing pho	0.987	0.512	0.670	2.6e-24
TAIR|locus:2020868	157	AHP5 "histidine-containing pho	0.862	0.439	0.550	6e-16
TAIR|locus:2093817	156	AHP2 "histidine-containing pho	0.85	0.435	0.529	1.6e-15
TAIR|locus:2175643	155	AHP3 "histidine-containing pho	0.9	0.464	0.520	1.1e-14
TAIR|locus:2016339	154	HP6 "histidine phosphotransfer	0.9	0.467	0.5	6.2e-14

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

 Score = 278 (102.9 bits), Expect = 2.6e-24, P = 2.6e-24
 Identities = 53/79 (67%), Positives = 64/79 (81%)

Query:     1 DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
             DQQ VDF KV  HVHQLKGSSSSIGAQRV N C  FRSFCE++N+E C + LQ +KQEYY
Sbjct:    65 DQQVVDFKKVDPHVHQLKGSSSSIGAQRVKNACVVFRSFCEQQNVEACHRCLQQVKQEYY 124

Query:    61 LVKNKLQTLFQVCLKSLAS 79
             LVKN+L+TLF++  + +AS
Sbjct:   125 LVKNRLETLFKLEQQIVAS 143

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 = 199 (75.1 bits), Expect = 6.0e-16, P = 6.0e-16
 Identities = 38/69 (55%), Positives = 50/69 (72%)

Query:     4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVK 63
             NVDF +V   VHQLKGSSSS+GA+RV NVC +F+  C+ +N EGC + LQ +  EY ++K
Sbjct:    72 NVDFKQVDSGVHQLKGSSSSVGARRVKNVCISFKECCDVQNREGCLRCLQQVDYEYKMLK 131

Query:    64 NKLQTLFQV 72
              KLQ LF +
Sbjct:   132 TKLQDLFNL 140

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

GO:0004871 "signal transducer activity" evidence=IEA

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

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

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

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

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

GO:0000165 "MAPK cascade" evidence=RCA

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

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

GO:0009617 "response to bacterium" evidence=RCA

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

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

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

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

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

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

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

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

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

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

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

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

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

 Score = 195 (73.7 bits), Expect = 1.6e-15, P = 1.6e-15
 Identities = 36/68 (52%), Positives = 49/68 (72%)

Query:     5 VDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKN 64
             VDF++VG  VHQLKGSSSS+GA+RV  +C +F+  CE +N EGC + LQ +  EY  +K 
Sbjct:    72 VDFSQVGASVHQLKGSSSSVGAKRVKTLCVSFKECCEAKNYEGCVRCLQQVDIEYKALKT 131

Query:    65 KLQTLFQV 72
             KLQ +F +
Sbjct:   132 KLQDMFNL 139

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 = 187 (70.9 bits), Expect = 1.1e-14, P = 1.1e-14
 Identities = 38/73 (52%), Positives = 48/73 (65%)

Query:     1 DQQ-NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEY 59
             DQ  NVDF  VG  VHQLKGSSSS+GA+RV  +C   +  C+ +N EGC + LQ +  EY
Sbjct:    67 DQTGNVDFKLVGSSVHQLKGSSSSVGAKRVKGLCVTLKECCDSQNYEGCVRCLQQVDIEY 126

Query:    60 YLVKNKLQTLFQV 72
               +K KLQ LF +
Sbjct:   127 KTLKAKLQDLFNL 139

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 = 180 (68.4 bits), Expect = 6.2e-14, P = 6.2e-14
 Identities = 36/72 (50%), Positives = 51/72 (70%)

Query:     1 DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
             D++  D+ K+G H++QL GSSSSIGA+RV NVC AFRS  E  N  GC + L+ ++ EY+
Sbjct:    69 DREFSDYKKIGLHLNQLVGSSSSIGARRVRNVCVAFRSASELSNRPGCLRGLEVVEHEYH 128

Query:    61 LVKNKLQTLFQV 72
              +KN +  LFQ+
Sbjct:   129 YLKNMMHELFQL 140


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.319   0.131   0.382    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       80        80   0.00091  102 3  11 22  0.38    29
                                                     29  0.41    30


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:  5
  No. of states in DFA:  477 (51 KB)
  Total size of DFA:  97 KB (2071 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:  9.20u 0.10s 9.30t   Elapsed:  00:00:02
  Total cpu time:  9.20u 0.10s 9.30t   Elapsed:  00:00:02
  Start:  Thu May  9 22:01:06 2013   End:  Thu May  9 22:01:08 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

ID	Length	Definition	E-value
Query	80
pfam01627	87	pfam01627, Hpt, Hpt domain	6e-07
cd00088	94	cd00088, HPT, Histidine Phosphotransfer domain, in	7e-05
COG2198	122	COG2198, ArcB, FOG: HPt domain [Signal transductio	6e-04

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

 Score = 42.4 bits (100), Expect = 6e-07
 Identities = 13/65 (20%), Positives = 21/65 (32%), Gaps = 1/65 (1%)

Query: 1  DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQ-QYLQHLKQEY 59
            +  D   +    H LKGS+ S+G   +  +                  Q L  LK E 
Sbjct: 23 ALEAEDLEALFRAAHTLKGSAGSLGLPALAELAHELEDLLRAGRDGELLLQALDELKDEL 82

Query: 60 YLVKN 64
            ++ 
Sbjct: 83 EALRA 87

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

>gnl|CDD|238041 cd00088, HPT, Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is modulated by phosphorylation and dephosphorylation of a conserved aspartic acid residue; two-component proteins are abundant in most eubacteria; In E

 Score = 37.4 bits (87), Expect = 7e-05
 Identities = 15/67 (22%), Positives = 25/67 (37%), Gaps = 9/67 (13%)

Query: 2  QQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERN---------IEGCQQYL 52
          +   D  ++    H LKGS++S+G QR+  +        +            I+     L
Sbjct: 27 EDAEDLNEIFRAAHTLKGSAASLGLQRLAQLAHQLEDLLDALRDGLEVTPELIDLLLDAL 86

Query: 53 QHLKQEY 59
            LK E 
Sbjct: 87 DALKAEL 93

coli there are 62 two-component proteins involved in a variety of processes such as chemotaxis, osmoregulation, metabolism and transport 1; also present in both Gram positive and Gram negative pathogenic bacteria where they regulate basic housekeeping functions and control expression of toxins and other proteins important for pathogenesis; in archaea and eukaryotes, two-component pathways constitute a very small number of all signaling systems; in fungi they mediate environmental stress responses and, in pathogenic yeast, hyphal development. In Dictyostelium and in plants, they are involved in important processes such as osmoregulation, cell growth, and differentiation; to date two-component proteins have not been identified in animals; in most prokaryotic systems, the output response is effected directly by the RR, which functions as a transcription factor while in eukaryotic systems, two-component proteins are found at the beginning of signaling pathways where they interface with more conventional eukaryotic signaling strategies such as MAP kinase and cyclic nucleotide cascades. Length = 94

>gnl|CDD|225108 COG2198, ArcB, FOG: HPt domain [Signal transduction mechanisms]

 Score = 35.1 bits (81), Expect = 6e-04
 Identities = 14/59 (23%), Positives = 25/59 (42%), Gaps = 1/59 (1%)

Query: 6   DFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERN-IEGCQQYLQHLKQEYYLVK 63
           D   +    H+LKGS++S+G   +  +C            +E  ++ +  LK E  L  
Sbjct: 51  DNDGLARLAHRLKGSAASLGLPALAQLCQQLEDALRSGASLEELEELIAELKDELQLDV 109

Length = 122

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	80
PF01627	90	Hpt: Hpt domain; InterPro: IPR008207 Two-component	99.51
KOG4747	150	consensus Two-component phosphorelay intermediate	99.5
COG2198	122	ArcB FOG: HPt domain [Signal transduction mechanis	99.41
smart00073	87	HPT Histidine Phosphotransfer domain. Contains an	99.36
cd00088	94	HPT Histidine Phosphotransfer domain, involved in	99.21
TIGR02956	968	TMAO_torS TMAO reductase sytem sensor TorS. This p	99.03
PRK10618	894	phosphotransfer intermediate protein in two-compon	98.98
PRK11091	779	aerobic respiration control sensor protein ArcB; P	98.86
PRK11107	919	hybrid sensory histidine kinase BarA; Provisional	98.25
PRK11466	914	hybrid sensory histidine kinase TorS; Provisional	98.17
COG0643	716	CheA Chemotaxis protein histidine kinase and relat	97.85
PRK10547	670	chemotaxis protein CheA; Provisional	97.82
PRK09959	1197	hybrid sensory histidine kinase in two-component r	97.06
PRK15347	921	two component system sensor kinase SsrA; Provision	96.71
PF08900	217	DUF1845: Domain of unknown function (DUF1845); Int	83.9
PF13779	820	DUF4175: Domain of unknown function (DUF4175)	81.71

>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=99.51  E-value=1.4e-13  Score=78.44  Aligned_cols=60  Identities=20%  Similarity=0.347  Sum_probs=50.7

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcCHHH---HHHHHHHHHHHHHHHH
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEG---CQQYLQHLKQEYYLVK   63 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~~~~---~~~~~~~l~~~~~~l~   63 (80)
                      ..|++.+.+.+|+|||+++++|+..+..+|..+|..++.++.+.   +...++.|...++.+.
T Consensus        26 ~~d~~~l~~~~H~lkG~a~~~g~~~l~~~~~~lE~~~~~~~~~~~~~~~~~~~~l~~~l~~l~   88 (90)
T PF01627_consen   26 QEDWEELRRLAHRLKGSAGNLGAPRLAELAEQLEQALKSGDKPEAEELEQLLDELEAMLEQLR   88 (90)
T ss_dssp             HCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTHHHHSHHHHHHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHhhhHHhcCHHHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHHHHh
Confidence            57999999999999999999999999999999999999988877   5555555555555544

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 ....

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

Probab=99.50  E-value=1.3e-13  Score=86.76  Aligned_cols=75  Identities=57%  Similarity=0.936  Sum_probs=71.9

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTLFQVCLKSLA   78 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~l~~~~~~~~   78 (80)
                      ++|+..++...|.+||||.+|||.++...|..+...|+.+|.+++...+++++.+|..++.+|++++++|||.+.
T Consensus        69 ~~d~k~~~~~~hqlkgssssIGa~kvk~~c~~~~~~~~~~n~egcvr~l~~v~ie~~~lkkkL~~~f~L~rq~i~  143 (150)
T KOG4747|consen   69 ERDFKKLGSHVHQLKGSSSSIGALKVKKVCVGFNEFCEAGNIEGCVRCLQQVKIEYSLLKKKLETLFQLERQEIL  143 (150)
T ss_pred             HhHHHHHHHHHHHccCchhhhhHHHHHHHHHHHHHHHhhccchhHhhchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            349999999999999999999999999999999999999999999999999999999999999999999999554

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

Probab=99.41  E-value=1.9e-12  Score=78.76  Aligned_cols=67  Identities=22%  Similarity=0.380  Sum_probs=58.2

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhh-cCHHHHHHHHHHHHHH--HHHHHHHHHHHH
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEE-RNIEGCQQYLQHLKQE--YYLVKNKLQTLF   70 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~-~~~~~~~~~~~~l~~~--~~~l~~~L~~~l   70 (80)
                      ..|+..+.+++|+|||+++++|+..|...|.+||..++. ...+....++.++..+  +..+...+.++.
T Consensus        49 ~~d~~~~~~~aH~lkg~a~~lg~~~L~~~~~~lE~~~~~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~~~  118 (122)
T COG2198          49 AEDNDGLARLAHRLKGSAASLGLPALAQLCQQLEDALRSGASLEELEELIAELKDELQLDVLALELLTYL  118 (122)
T ss_pred             cCCcHHHHHHHHHHHhHHHhccHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHhcchHHHHHHHHHh
Confidence            568899999999999999999999999999999999988 5677889999999999  666666665554

>smart00073 HPT Histidine Phosphotransfer domain

Probab=99.36  E-value=1.3e-12  Score=74.63  Aligned_cols=64  Identities=20%  Similarity=0.352  Sum_probs=52.1

Q ss_pred             CchhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            3 QNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQ   67 (80)
Q Consensus         3 ~~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~~~~~~~~~~~l~~~~~~l~~~L~   67 (80)
                      ...|+..+.+.+|+|||+++++|+..|..+|..+|..++... ++...+++.+...|..+...|.
T Consensus        23 ~~~~~~~l~~~~H~LKG~a~~~g~~~l~~~~~~lE~~~~~~~-~~~~~~~~~l~~~~~~~~~~l~   86 (87)
T smart00073       23 DAQDVNEIFRAAHTLKGSAGSLGLQQLAQLCHQLENLLDAAR-SGEVELTPDLLDLLLELVDVLK   86 (87)
T ss_pred             CHhHHHHHHHHHHhhhhhHHhcCHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHHHHHHHc
Confidence            357899999999999999999999999999999999987644 3334566777777777766553

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=99.21  E-value=4.9e-11  Score=69.25  Aligned_cols=41  Identities=24%  Similarity=0.429  Sum_probs=38.9

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcC
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERN   44 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~   44 (80)
                      +.|+..+...+|+|||+++++|+..|...|..+|..++.+.
T Consensus        29 ~~d~~~l~~~~H~LkGsa~~~G~~~l~~~~~~lE~~~~~~~   69 (94)
T cd00088          29 AEDLNEIFRAAHTLKGSAASLGLQRLAQLAHQLEDLLDALR   69 (94)
T ss_pred             HHHHHHHHHHHHhhhhHHhcCChHHHHHHHHHHHHHHHHHH
Confidence            68999999999999999999999999999999999998754

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=99.03  E-value=5.9e-10  Score=85.10  Aligned_cols=64  Identities=20%  Similarity=0.330  Sum_probs=58.3

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTL   69 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~   69 (80)
                      .+|+..++..+|+|||+++++|+..|...|.+||..++.+++  ....++.|...|..+...|+.|
T Consensus       905 ~~d~~~~~~~~H~lkg~~~~~g~~~l~~~~~~le~~~~~~~~--~~~~~~~l~~~~~~~~~~l~~~  968 (968)
T TIGR02956       905 VDDDAQIKKLAHKLKGSAGSLGLTQLTQLCQQLEKQGKTGAL--ELSDIDEIKQAWQASKTALDQW  968 (968)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHhcccCCc--chhHHHHHHHHHHHHHHHHHhC
Confidence            579999999999999999999999999999999999999887  4567899999999999988764

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

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

Probab=98.98  E-value=2e-09  Score=83.32  Aligned_cols=61  Identities=16%  Similarity=0.348  Sum_probs=55.8

Q ss_pred             CchhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHH
Q 043345            3 QNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVK   63 (80)
Q Consensus         3 ~~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~~~~~~~~~~~l~~~~~~l~   63 (80)
                      ..+||..+...||+|||+++++|+..+.++|..||+.++.++..++...+.+|...+..+.
T Consensus       832 ~~~D~~~l~~~aHrLKG~~aml~l~~l~~~~~~LE~~i~~~~~~~i~~~i~~id~~v~~ll  892 (894)
T PRK10618        832 ATSDFASLAQTAHRLKGVFAMLNLVPGKQLCETLEHLIREKDEPGIENYISDIDSFVKSLL  892 (894)
T ss_pred             hccCHHHHHHHHHHHHHHHHHcChHHHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHHHHh
Confidence            3579999999999999999999999999999999999999999999888888888776654

>PRK11091 aerobic respiration control sensor protein ArcB; Provisional

Probab=98.86  E-value=8.9e-09  Score=77.65  Aligned_cols=70  Identities=17%  Similarity=0.261  Sum_probs=65.7

Q ss_pred             CchhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            3 QNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTLFQV   72 (80)
Q Consensus         3 ~~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~l~~   72 (80)
                      +..|+..+...+|+|||+++++|+..|..+|..+|.....+.++....++++|..+|......|+.|+..
T Consensus       706 ~~~d~~~~~~~ah~l~g~~~~~g~~~l~~~~~~le~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  775 (779)
T PRK11091        706 TARDQKGIVEEAHKIKGAAGSVGLRHLQQLAQQIQSPDLPAWWDNVQDWVEELKNEWRHDVEVLKAWLAQ  775 (779)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhCcCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3578899999999999999999999999999999999888889999999999999999999999999875

>PRK11107 hybrid sensory histidine kinase BarA; Provisional

Probab=98.25  E-value=7.8e-06  Score=62.30  Aligned_cols=67  Identities=21%  Similarity=0.276  Sum_probs=55.4

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcC-HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERN-IEGCQQYLQHLKQEYYLVKNKLQTLF   70 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~-~~~~~~~~~~l~~~~~~l~~~L~~~l   70 (80)
                      ..|+..+..++|++||+++++|+..+...|..+|..++.+. .+.+...+..+..++..+...+..++
T Consensus       850 ~~~~~~~~~~~h~l~g~~~~~g~~~l~~~~~~le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  917 (919)
T PRK11107        850 GEDPEGLLDLIHKLHGSCSYSGVPRLKKLCQLIEQQLRSGTSVEDLEPELLELLDEMENVARAAKKVL  917 (919)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHcCCChhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            46788999999999999999999999999999999998764 45666667777777777777776665

>PRK11466 hybrid sensory histidine kinase TorS; Provisional

Probab=98.17  E-value=3.6e-06  Score=64.40  Aligned_cols=38  Identities=29%  Similarity=0.415  Sum_probs=35.4

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHh
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCE   41 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~   41 (80)
                      .+|+..+...+|+|||+++++|+..+...|.++|..+.
T Consensus       849 ~~~~~~~~~~ah~lkg~~~~lg~~~l~~~~~~le~~~~  886 (914)
T PRK11466        849 SQDSEKIKRAAHQLKSSCSSLGMRQASQACAQLEQQPL  886 (914)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhCCCC
Confidence            47899999999999999999999999999999999764

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

Probab=97.85  E-value=6.2e-05  Score=57.76  Aligned_cols=63  Identities=16%  Similarity=0.269  Sum_probs=46.6

Q ss_pred             hHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHH---HhhcCHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            6 DFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSF---CEERNIEGCQQYLQHLKQEYYLVKNKLQT   68 (80)
Q Consensus         6 D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~---~~~~~~~~~~~~~~~l~~~~~~l~~~L~~   68 (80)
                      ....+.+.+|+|||+++.+|+..+..+|..+|..   .+++...--..++..+-.+.+.+...++.
T Consensus        40 ~ln~ifRaaHTlKG~a~~~g~~~l~~l~H~~E~~ld~~r~g~~~~~~~l~d~~l~~~D~l~~~~~~  105 (716)
T COG0643          40 LLNAIFRAAHTLKGGAGTLGLTTLAELAHAMEDLLDALRNGELELTSELLDLLLEALDALEEMLDA  105 (716)
T ss_pred             HHHHHHHHHHhhhhhhhhcChhHHHHHHHHHHHHHHHHhcCCccCcHHHHHHHhhhhHHHHHHHHh
Confidence            3567899999999999999999999999999975   46666554455555555555555554443

>PRK10547 chemotaxis protein CheA; Provisional

Probab=97.82  E-value=8.7e-05  Score=56.61  Aligned_cols=59  Identities=7%  Similarity=0.191  Sum_probs=41.8

Q ss_pred             hHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHH---hhcCHHHHHHHHHHHHHHHHHHHH
Q 043345            6 DFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFC---EERNIEGCQQYLQHLKQEYYLVKN   64 (80)
Q Consensus         6 D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~---~~~~~~~~~~~~~~l~~~~~~l~~   64 (80)
                      ....+.+.+|+|||+|+.+|+..|..+|..+|...   |+|...-...++.-+-.+++.+..
T Consensus        37 ~in~lFRa~HTiKG~a~~~g~~~i~~l~H~~E~lld~vR~g~l~~~~~~~dlll~~~D~l~~   98 (670)
T PRK10547         37 QLNAIFRAAHSIKGGAGTFGFTVLQETTHLMENLLDEARRGEMQLNTDIINLFLETKDIMQE   98 (670)
T ss_pred             HHHHHHHHHHhhhhHHhhcCchHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHH
Confidence            35678899999999999999999999999999766   555433223344444444444433

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

Probab=97.06  E-value=0.0049  Score=48.90  Aligned_cols=67  Identities=12%  Similarity=0.177  Sum_probs=53.6

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcC-HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERN-IEGCQQYLQHLKQEYYLVKNKLQTLF   70 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~-~~~~~~~~~~l~~~~~~l~~~L~~~l   70 (80)
                      .+|...+..++|+++|++..+|+..|...|.++|......+ .+.+...++.+...+..+...+..|+
T Consensus      1126 ~~~~~~~~~~~h~~~g~~~~l~~~~l~~~~~~~e~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 1193 (1197)
T PRK09959       1126 AGDNRTFHQCIHRIHGAANILNLQKLINISHQLEITPVSDDSKPEILQLLNSVKEHIAELDQEIAVFC 1193 (1197)
T ss_pred             cCCHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHhhhcCCchHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            35667889999999999999999999999999998886655 45667777777777766666666654

>PRK15347 two component system sensor kinase SsrA; Provisional

Probab=96.71  E-value=0.0049  Score=47.32  Aligned_cols=54  Identities=17%  Similarity=0.201  Sum_probs=41.5

Q ss_pred             HHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHH
Q 043345            9 KVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVK   63 (80)
Q Consensus         9 ~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~~~~~~~~~~~l~~~~~~l~   63 (80)
                      .+..++|.+||+++.+|+..+...|.++|..++.+...... .+..++..+..+.
T Consensus       862 ~l~~~~h~i~~~~~~~g~~~l~~~~~~~e~~~~~~~~~~~~-~~~~~~~~~~~~~  915 (921)
T PRK15347        862 VLSQLLHTLKGCAGQAGLTELQCAVIDLENALETGEILSLE-ELTDLRELIHALF  915 (921)
T ss_pred             HHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHhcCCCCCHH-HHHHHHHHHHHHh
Confidence            78899999999999999999999999999999876644322 2455555444433

>PF08900 DUF1845: Domain of unknown function (DUF1845); InterPro: IPR014996 Members of this protein family, such as PFL4669, are found in integrating conjugative elements (ICE) of the PFGI-1 class as in Pseudomonas fluorescens

Probab=83.90  E-value=10  Score=25.36  Aligned_cols=54  Identities=13%  Similarity=0.159  Sum_probs=36.6

Q ss_pred             hhhhccChHHHHHHHHHHHHHHhhcCHHH------HHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345           19 GSSSSIGAQRVNNVCTAFRSFCEERNIEG------CQQYLQHLKQEYYLVKNKLQTLFQV   72 (80)
Q Consensus        19 Gss~nlGa~~L~~~c~~lE~~~~~~~~~~------~~~~~~~l~~~~~~l~~~L~~~l~~   72 (80)
                      |..+.+|.......+..|.+.+.+.|+-.      +.+.++.+...+......|+..+..
T Consensus        32 ~~~~I~Gm~~~~~~~~~i~~~a~~DdPyAD~~L~~iEe~i~~~~~~l~~~~~~l~~~l~~   91 (217)
T PF08900_consen   32 GKPAIIGMPGFASRLNRIWRDARQDDPYADWWLLRIEEKINEARQELQELIARLDALLAE   91 (217)
T ss_pred             CCCCCcCHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34488999999999999999998887432      3444555555555555555544443

>PF13779 DUF4175: Domain of unknown function (DUF4175)

Probab=81.71  E-value=4.6  Score=32.19  Aligned_cols=45  Identities=16%  Similarity=0.297  Sum_probs=39.9

Q ss_pred             hhhhccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHH
Q 043345           19 GSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVK   63 (80)
Q Consensus        19 Gss~nlGa~~L~~~c~~lE~~~~~~~~~~~~~~~~~l~~~~~~l~   63 (80)
                      +.+.+++-..|.++..+||+.+++|+.+++..++++|++-++.++
T Consensus       530 ~~~~~~~~~dL~~mmd~ie~la~~G~~~~A~q~L~qlq~mmenmq  574 (820)
T PF13779_consen  530 GNSQMMSQQDLQRMMDRIEELARSGRMDEARQLLEQLQQMMENMQ  574 (820)
T ss_pred             hhhhccCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcc
Confidence            456689999999999999999999999999999999988877654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	80
4euk_B	159	Crystal Structure Length = 159		1e-25
3us6_A	153	Crystal Structure Of Histidine-Containing Phosphotr		3e-24
1wn0_A	145	Crystal Structure Of Histidine-containing Phosphotr		8e-16
1yvi_A	149	X-Ray Structure Of Putative Histidine-Containing Ph		1e-14

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

Iteration: 1
 Score =  111 bits (277), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 53/79 (67%), Positives = 64/79 (81%)
Query: 1   DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
           DQQ VDF KV  HVHQLKGSSSSIGAQRV N C  FRSFCE++N+E C + LQ +KQEYY
Sbjct: 70  DQQVVDFKKVDPHVHQLKGSSSSIGAQRVKNACVVFRSFCEQQNVEACHRCLQQVKQEYY 129
Query: 61  LVKNKLQTLFQVCLKSLAS 79
           LVKN+L+TLF++  + +AS
Sbjct: 130 LVKNRLETLFKLEQQIVAS 148

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

Iteration: 1
 Score =  106 bits (265), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 48/72 (66%), Positives = 60/72 (83%)
Query: 1   DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
           DQQ++DF KV  HVHQ KGSS+SIGAQRV N C AFR+FCEE+NI+ C++ LQ +KQEY 
Sbjct: 65  DQQSIDFKKVDAHVHQFKGSSASIGAQRVKNSCVAFRNFCEEQNIDACRRCLQQVKQEYL 124
Query: 61  LVKNKLQTLFQV 72
           LVKNKL+TL ++
Sbjct: 125 LVKNKLETLLRL 136

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

Iteration: 1
 Score = 78.6 bits (192), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 34/70 (48%), Positives = 48/70 (68%)
Query: 1   DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
           DQ  VDF KV  +VHQLKGSS+S+GAQ+V   C  FR  C+++N +GC   L  ++ E+Y
Sbjct: 66  DQPIVDFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQLCQDKNRDGCIMALAVVRNEFY 125
Query: 61  LVKNKLQTLF 70
            ++NK QT+ 
Sbjct: 126 DLRNKFQTML 135

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

Iteration: 1
 Score = 75.1 bits (183), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 32/72 (44%), Positives = 51/72 (70%)
Query: 1   DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
           +Q  V+F KV  +VHQLKGSS+S+GAQ+V   C  FR FC++++ +GC   L  ++ ++Y
Sbjct: 66  EQPVVNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQDKSRDGCLMALAVVRNDFY 125
Query: 61  LVKNKLQTLFQV 72
            ++NK QT+ Q+
Sbjct: 126 DLRNKFQTMLQL 137

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	80
1yvi_A	149	Histidine-containing phosphotransfer protein; stru	3e-24
3us6_A	153	Histidine-containing phosphotransfer protein type	2e-22
2r25_A	167	Phosphorelay intermediate protein YPD1; alpha5-BET	4e-11
1y6d_A	120	Phosphorelay protein LUXU; phosphotransferase, fou	2e-08
2a0b_A	125	HPT domain; sensory transduction, histidine kinase	2e-07
3myf_A	119	Sensor protein; HPT, histidine kinase, PSI, MCSG,	3e-06
2ooc_A	113	Histidine phosphotransferase; NP_419930.1, hypothe	2e-05
3iqt_A	123	Signal transduction histidine-protein kinase BARA;	1e-04

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

 Score = 87.7 bits (217), Expect = 3e-24
 Identities = 32/72 (44%), Positives = 51/72 (70%)

Query: 1   DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
           +Q  V+F KV  +VHQLKGSS+S+GAQ+V   C  FR FC++++ +GC   L  ++ ++Y
Sbjct: 66  EQPVVNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQDKSRDGCLMALAVVRNDFY 125

Query: 61  LVKNKLQTLFQV 72
            ++NK QT+ Q+
Sbjct: 126 DLRNKFQTMLQL 137

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

 Score = 83.5 bits (206), Expect = 2e-22
 Identities = 48/72 (66%), Positives = 60/72 (83%)

Query: 1   DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
           DQQ++DF KV  HVHQ KGSS+SIGAQRV N C AFR+FCEE+NI+ C++ LQ +KQEY 
Sbjct: 65  DQQSIDFKKVDAHVHQFKGSSASIGAQRVKNSCVAFRNFCEEQNIDACRRCLQQVKQEYL 124

Query: 61  LVKNKLQTLFQV 72
           LVKNKL+TL ++
Sbjct: 125 LVKNKLETLLRL 136

>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 = 54.4 bits (130), Expect = 4e-11
 Identities = 12/43 (27%), Positives = 22/43 (51%)

Query: 2  QQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERN 44
              + T++    H LKGSS+++G QR+  VC   ++   +  
Sbjct: 51 DGEKNLTELDNLGHFLKGSSAALGLQRIAWVCERIQNLGRKME 93

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

 Score = 46.4 bits (110), Expect = 2e-08
 Identities = 9/65 (13%), Positives = 23/65 (35%)

Query: 6   DFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNK 65
               +    H LK S++S GA R+     A     +   ++        +    ++ ++ 
Sbjct: 55  QLLYLKEISHALKSSAASFGADRLCERAIAIDKKAKANQLQEQGMETSEMLALLHITRDA 114

Query: 66  LQTLF 70
            ++  
Sbjct: 115 YRSWT 119

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

 Score = 43.8 bits (103), Expect = 2e-07
 Identities = 10/65 (15%), Positives = 29/65 (44%)

Query: 3   QNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLV 62
              D   +    H++KG++ S+G + +  +    +S       +   ++++ +K+E+   
Sbjct: 52  TAQDKKGIVEEGHKIKGAAGSVGLRHLQQLGQQIQSPDLPAWEDNVGEWIEEMKEEWRHD 111

Query: 63  KNKLQ 67
              L+
Sbjct: 112 VEVLK 116

>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} Length = 119

 Score = 40.5 bits (95), Expect = 3e-06
 Identities = 12/67 (17%), Positives = 26/67 (38%), Gaps = 1/67 (1%)

Query: 6   DFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFC-EERNIEGCQQYLQHLKQEYYLVKN 64
           D   +   +H+L G+S   G      +C    S    +  +E  +  +  L  E   V++
Sbjct: 48  DQATMLSTIHKLHGASCYCGVPTTQRLCQEIESALKRQTPVEDLEPEILELLDELTKVES 107

Query: 65  KLQTLFQ 71
            ++ +  
Sbjct: 108 AVKQVLS 114

>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 = 38.5 bits (89), Expect = 2e-05
 Identities = 10/64 (15%), Positives = 18/64 (28%), Gaps = 9/64 (14%)

Query: 4   NVDFTKVGGHVHQLKGSSSSIGAQRVNNVC----TAFRSF-----CEERNIEGCQQYLQH 54
           +         VH +KG++  +GA  +  VC        S        +  +     Y   
Sbjct: 46  DPTHPGWKDAVHTVKGAARGVGAFNLGEVCERCEAGQESLEGVRTALDAALLDIAAYAHE 105

Query: 55  LKQE 58
               
Sbjct: 106 QALR 109

>3iqt_A Signal transduction histidine-protein kinase BARA; histidine phosphotransfer domain, HTP, structural genomics, protein structure initiative; HET: MSE BTB; 1.40A {Escherichia coli} Length = 123

 Score = 36.8 bits (85), Expect = 1e-04
 Identities = 13/65 (20%), Positives = 22/65 (33%), Gaps = 1/65 (1%)

Query: 6   DFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFC-EERNIEGCQQYLQHLKQEYYLVKN 64
           +   +   +H+L GS    G  R+ N+C             E  +  L  L  E   V  
Sbjct: 57  NPEGLVDLIHKLHGSCGYSGVPRMKNLCQLIEQQLRSGTKEEDLEPELLELLDEMDNVAR 116

Query: 65  KLQTL 69
           +   +
Sbjct: 117 EASKI 121

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	80
3us6_A	153	Histidine-containing phosphotransfer protein type	99.89
1yvi_A	149	Histidine-containing phosphotransfer protein; stru	99.88
2r25_A	167	Phosphorelay intermediate protein YPD1; alpha5-BET	99.73
2a0b_A	125	HPT domain; sensory transduction, histidine kinase	99.65
3myf_A	119	Sensor protein; HPT, histidine kinase, PSI, MCSG,	99.64
3iqt_A	123	Signal transduction histidine-protein kinase BARA;	99.58
1sr2_A	116	Putative sensor-like histidine kinase YOJN; four-h	99.57
1y6d_A	120	Phosphorelay protein LUXU; phosphotransferase, fou	99.44
2ooc_A	113	Histidine phosphotransferase; NP_419930.1, hypothe	99.42
1tqg_A	105	Chemotaxis protein CHEA; histidine kinase, phospho	99.42
2ld6_A	139	Chemotaxis protein CHEA; TMP1, transferase; NMR {T	99.25
1i5n_A	146	Chemotaxis protein CHEA; four-helix bundle, transf	99.23
2lch_A	113	Protein OR38; structural genomics, northeast struc	99.2
3kyj_A	144	CHEA3, putative histidine protein kinase; protein-	98.82
2lp4_A	225	Chemotaxis protein CHEA; two component signaling s	98.6

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

Probab=99.89  E-value=1.9e-22  Score=127.06  Aligned_cols=76  Identities=61%  Similarity=1.004  Sum_probs=73.5

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTLFQVCLKSLAS   79 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~l~~~~~~~~~   79 (80)
                      +.||+.+.+++|+|||||+||||.+|+.+|..||.+++.++.+++...+++|+.+|..++.+|++|+++|||+.++
T Consensus        68 ~~D~~~l~~~aH~LKGss~~lGa~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~e~~~v~~~L~~~~~le~q~~~~  143 (153)
T 3us6_A           68 SIDFKKVDAHVHQFKGSSASIGAQRVKNSCVAFRNFCEEQNIDACRRCLQQVKQEYLLVKNKLETLLRLEQQIVAA  143 (153)
T ss_dssp             SCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CccHHHHHHHHHHHHHHHHHhcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3499999999999999999999999999999999999999999999999999999999999999999999999875

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

Probab=99.88  E-value=5.4e-22  Score=124.20  Aligned_cols=75  Identities=43%  Similarity=0.769  Sum_probs=72.6

Q ss_pred             hhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 043345            5 VDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTLFQVCLKSLAS   79 (80)
Q Consensus         5 ~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~l~~~~~~~~~   79 (80)
                      .||+.+..++|+|||||+||||.+|+..|.+||..++.++.+++...+.+|+.+|..+..+|++|+++||||+++
T Consensus        70 ~D~~~l~~~aH~LKGssa~lGa~~l~~~c~~lE~~~~~~~~~~~~~~l~~l~~e~~~~~~~L~~~~~~e~q~~~~  144 (149)
T 1yvi_A           70 VNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQDKSRDGCLMALAVVRNDFYDLRNKFQTMLQLEQQIQAY  144 (149)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             ccHHHHHHHHHHHHhHHHHHhHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            589999999999999999999999999999999999999999999999999999999999999999999999875

>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=99.73  E-value=9.6e-18  Score=106.94  Aligned_cols=69  Identities=23%  Similarity=0.410  Sum_probs=64.7

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcC------------HH-------------------------
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERN------------IE-------------------------   46 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~------------~~-------------------------   46 (80)
                      ++||..+..++|+|||||+||||.+|..+|.+||.+++.++            .+                         
T Consensus        53 ~~D~~~L~~~aH~LKGSSAnLGA~rV~~~C~~le~~~r~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  132 (167)
T 2r25_A           53 EKNLTELDNLGHFLKGSSAALGLQRIAWVCERIQNLGRKMEHFFPNKTELVNTLSDKSIINGINIDEDDEEIKIQVDDKD  132 (167)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTCCCCCCCHHHHHTTCSSGGGGSSSCTTTTCCCCCCCSSSCC
T ss_pred             ccCHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHhcCccccccccccccccccccccccccchhhhcccccccccc
Confidence            68999999999999999999999999999999999999999            43                         


Q ss_pred             -------HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345           47 -------GCQQYLQHLKQEYYLVKNKLQTLFQV   72 (80)
Q Consensus        47 -------~~~~~~~~l~~~~~~l~~~L~~~l~~   72 (80)
                             .|...+++++.+|..++.+|+.|++.
T Consensus       133 ~~~~~l~~i~~~L~~~k~e~~~~~~~L~~~~~~  165 (167)
T 2r25_A          133 ENSIYLILIAKALNQSRLEFKLARIELSKYYNT  165 (167)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence                   68899999999999999999999864

>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=99.65  E-value=2.8e-16  Score=95.17  Aligned_cols=69  Identities=14%  Similarity=0.211  Sum_probs=65.1

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTLFQV   72 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~l~~   72 (80)
                      ..|+..+.+.+|+|||+|+|+|+..|..+|..+|..++.++.+++...+..|...|......|..|+..
T Consensus        53 ~~d~~~~~~~aH~LKGsa~~lG~~~l~~~~~~lE~~~~~~~~~~~~~~~~~l~~~~~~~~~~L~~~l~~  121 (125)
T 2a0b_A           53 AQDKKGIVEEGHKIKGAAGSVGLRHLQQLGQQIQSPDLPAWEDNVGEWIEEMKEEWRHDVEVLKAWVAK  121 (125)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHTCTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            468999999999999999999999999999999999999999999999999999999999999998864

>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=99.64  E-value=1e-15  Score=92.67  Aligned_cols=69  Identities=17%  Similarity=0.282  Sum_probs=63.8

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcCH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNI-EGCQQYLQHLKQEYYLVKNKLQTLFQV   72 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~~-~~~~~~~~~l~~~~~~l~~~L~~~l~~   72 (80)
                      .+||+.+.+++|+|||+|+++|+++|..+|..||.+++.++. +.+...+..|..++..+...++.|+..
T Consensus        46 ~~d~~~l~~~aHkLkGaa~~~Ga~~L~~~~~~LE~~~r~~~~~~~l~~~~~~L~~ei~~v~~~~~~~l~~  115 (119)
T 3myf_A           46 QNDQATMLSTIHKLHGASCYCGVPTTQRLCQEIESALKRQTPVEDLEPEILELLDELTKVESAVKQVLSQ  115 (119)
T ss_dssp             HTCHHHHHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHHTTCCGGGGHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            478999999999999999999999999999999999999874 577888999999999999999999874

>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=99.58  E-value=2.6e-15  Score=91.48  Aligned_cols=67  Identities=19%  Similarity=0.254  Sum_probs=61.1

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcCHH-HHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIE-GCQQYLQHLKQEYYLVKNKLQTLF   70 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~~~-~~~~~~~~l~~~~~~l~~~L~~~l   70 (80)
                      ..||+.+.+++|+|||+|+++|+++|..+|..||+.++.++.. .+...+..|..++..+....+.|+
T Consensus        55 ~~d~~~l~~~aHkLkGaa~~~Ga~~L~~~c~~LE~~~r~g~~~~~l~~~l~~L~del~~v~~~~~~~~  122 (123)
T 3iqt_A           55 GENPEGLVDLIHKLHGSCGYSGVPRMKNLCQLIEQQLRSGTKEEDLEPELLELLDEMDNVAREASKIL  122 (123)
T ss_dssp             TCCCTTHHHHHHHHHHHHTTSCCHHHHHHHHHHHHHHHTTCCGGGGHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             cCCHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4689999999999999999999999999999999999998865 777888999999999999888875

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

Probab=99.57  E-value=1e-14  Score=88.04  Aligned_cols=59  Identities=17%  Similarity=0.414  Sum_probs=53.8

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHH
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLV   62 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~~~~~~~~~~~l~~~~~~l   62 (80)
                      .+||..+.+++|+|||+++++|++.|..+|.+||..++.++..++...+..|...+.++
T Consensus        57 ~~D~~~l~~~aHrLKGaa~~lG~~~L~~lc~~LE~~~~~~~~~~l~~~i~~L~~~l~~L  115 (116)
T 1sr2_A           57 TSDFAALAQTAHRLKGVFAMLNLVPGKQLCETLEHLIREKDVPGIEKYISDIDSYVKSL  115 (116)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh
Confidence            46999999999999999999999999999999999999999988888888888777654

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

Probab=99.44  E-value=2.1e-14  Score=86.93  Aligned_cols=67  Identities=13%  Similarity=0.162  Sum_probs=50.6

Q ss_pred             CchhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            3 QNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTL   69 (80)
Q Consensus         3 ~~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~   69 (80)
                      +..|+..+.+.+|+|||||+++|+..|...|..+|..+++|+...+......+...+......+..+
T Consensus        52 ~~~~~~~i~r~aH~LKGsAa~~Ga~~l~~~~~~lE~~~r~g~~~~~~~~~~~l~~~l~~~~d~l~~~  118 (120)
T 1y6d_A           52 GSEQLLYLKEISHALKSSAASFGADRLCERAIAIDKKAKANQLQEQGMETSEMLALLHITRDAYRSW  118 (120)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHCTTTSTTTTTTHHHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHhhhHHHhCHHHHHHHHHHHHHHHhCCChhhhHhhHHHHHHHHHHHHHHHHHH
Confidence            3467888999999999999999999999999999999999887744334444444444444444433

>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=99.42  E-value=3.8e-13  Score=80.66  Aligned_cols=57  Identities=18%  Similarity=0.199  Sum_probs=51.0

Q ss_pred             HHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345           11 GGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTLFQV   72 (80)
Q Consensus        11 ~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~l~~   72 (80)
                      .+++|+|||||+||||..|...|..||..++.     ....++.|...+..+...|..+++.
T Consensus        53 ~~~aH~LKGsA~~iGA~~l~~~c~~lE~~~~~-----~~~~~~~L~~a~~~~~~~l~~~~~~  109 (113)
T 2ooc_A           53 KDAVHTVKGAARGVGAFNLGEVCERCEAGQES-----LEGVRTALDAALLDIAAYAHEQALR  109 (113)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHTTSSC-----HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCHHHHHHHHHHHHHHhhh-----hHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            79999999999999999999999999998876     4566888999999999988887764

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

Probab=99.42  E-value=4.8e-13  Score=78.63  Aligned_cols=65  Identities=12%  Similarity=0.244  Sum_probs=56.1

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHH---hhcCHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFC---EERNIEGCQQYLQHLKQEYYLVKNKLQT   68 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~---~~~~~~~~~~~~~~l~~~~~~l~~~L~~   68 (80)
                      ..++..+.+.+|+|||+|+++|+..|..+|..+|...   +.++.......++.|...++.+...+..
T Consensus        35 ~~~~~~l~r~~HtLKGsa~~~G~~~l~~la~~lE~~l~~~r~~~~~~~~~~~~~l~~~~d~l~~~l~~  102 (105)
T 1tqg_A           35 MELINEAFRALHTLKGMAGTMGFSSMAKLCHTLENILDKARNSEIKITSDLLDKIFAGVDMITRMVDK  102 (105)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTTSSCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHhcChHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            4678899999999999999999999999999999876   7777776777888888888888776654

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

Probab=99.25  E-value=1.1e-11  Score=76.37  Aligned_cols=66  Identities=12%  Similarity=0.255  Sum_probs=54.2

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHH---hhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFC---EERNIEGCQQYLQHLKQEYYLVKNKLQTL   69 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~---~~~~~~~~~~~~~~l~~~~~~l~~~L~~~   69 (80)
                      ..++..+.+.+|+|||+|+++|+..|..+|..+|...   +.++.......++.|...++.+...+..+
T Consensus        34 ~~~~~~l~R~aHTLKGsA~~~G~~~l~~lah~lE~~l~~lr~g~~~~~~~l~~~l~~~~D~l~~~l~~~  102 (139)
T 2ld6_A           34 MELINEAFRALHTLKGMAGTMGFSSMAKLCHTLENILDKARNSEIKITSDLLDKIFAGVDMITRMVDKI  102 (139)
T ss_dssp             SSHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHTSCCCCSSHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHhcCHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            4678999999999999999999999999999999865   67766555566777777777777766554

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

Probab=99.23  E-value=2.9e-11  Score=75.16  Aligned_cols=66  Identities=8%  Similarity=0.203  Sum_probs=52.2

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHH---HhhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSF---CEERNIEGCQQYLQHLKQEYYLVKNKLQTL   69 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~---~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~   69 (80)
                      ..++..+.+.+|+|||+|+++|+..|..+|..+|..   .+.++......+++.|...++.+...+..+
T Consensus        37 ~~~l~~lfR~aHTLKGsA~~~G~~~l~~lah~lE~~l~~~r~g~~~~~~~l~~~l~~~~D~l~~~l~~~  105 (146)
T 1i5n_A           37 AEQLNAIFRAAHSIKGGAGTFGFTILQETTHLMENLLDEARRGEMQLNTDIINLFLETKDIMQEQLDAY  105 (146)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTTSSCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHhHHccCHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            356789999999999999999999999999999987   577765555556666666666666655443

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

Probab=99.20  E-value=2.4e-11  Score=72.34  Aligned_cols=63  Identities=17%  Similarity=0.243  Sum_probs=52.2

Q ss_pred             hhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHH---HHhhcCHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            5 VDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRS---FCEERNIEGCQQYLQHLKQEYYLVKNKLQ   67 (80)
Q Consensus         5 ~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~---~~~~~~~~~~~~~~~~l~~~~~~l~~~L~   67 (80)
                      .++..+.+.+|+|||+|+++|+..|..+|..+|.   ..+.+.......+++.|...++.+...+.
T Consensus        37 ~~~~~l~R~~HTlKGsa~~~G~~~l~~lah~~E~~l~~~r~~~~~~~~~l~~~l~~~~d~l~~~l~  102 (113)
T 2lch_A           37 EYWNKIYRLVHTMKEITETMGFSSVAKVLHTIMNLVDKMLNSEIKITSDLIDKVKKKLDMVTRELD  102 (113)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTSTTTCCCHHHHHHHHHHHHHHHHHHG
T ss_pred             HHHHHHHHHHHhHHHHHHhcChHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHH
Confidence            4567899999999999999999999999999997   44677666666778888888877777554

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

Probab=98.82  E-value=1.5e-08  Score=62.82  Aligned_cols=65  Identities=14%  Similarity=0.125  Sum_probs=50.7

Q ss_pred             HHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHH---hhcCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            7 FTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFC---EERNIEGCQQYLQHLKQEYYLVKNKLQTLFQ   71 (80)
Q Consensus         7 ~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~---~~~~~~~~~~~~~~l~~~~~~l~~~L~~~l~   71 (80)
                      ...+.+.+|+|||+|+++|+..|..+|..+|...   +.+...-...+++.|...++.+...+..+-.
T Consensus        44 l~~lfR~~HTLKGsA~~~G~~~i~~laH~lE~ll~~lr~g~~~~~~~l~dlll~~~D~l~~lv~~~~~  111 (144)
T 3kyj_A           44 VGPLFRAVHTFKGNSRVLGLSVVESRAHLCEDLIGLVRDAGVPMDGEIVEILLFASDTLRAMLEETAA  111 (144)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHSCCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHhhHHHhcCchHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHc
Confidence            5689999999999999999999999999999865   5665544456667777777776665555443

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

Probab=98.60  E-value=1.4e-07  Score=61.87  Aligned_cols=63  Identities=8%  Similarity=0.213  Sum_probs=47.3

Q ss_pred             hHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHH---hhcCHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            6 DFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFC---EERNIEGCQQYLQHLKQEYYLVKNKLQT   68 (80)
Q Consensus         6 D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~---~~~~~~~~~~~~~~l~~~~~~l~~~L~~   68 (80)
                      ....+.+.+|+|||+|+.+|+..|..+|..+|...   ++|...--..+++-|...++.+..-+..
T Consensus        39 ~l~~ifR~~HTlKG~a~~~g~~~i~~laH~~E~~l~~~r~g~~~~~~~~~~ll~~~~D~l~~~l~~  104 (225)
T 2lp4_A           39 QLNAIFRAAHSIKGGAGTFGFTILQETTHLMENLLDEARRGEMQLNTDIINLFLETKDIMQEQLDA  104 (225)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTTSSCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHhcCHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            35688999999999999999999999999999766   5555443345556666666655554443

---

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	80
d1yvia1	142	a.24.10.2 (A:2-143) Histidine-containing phosphotr	8e-18
d2a0ba_	118	a.24.10.1 (A:) Aerobic respiration control sensor	8e-11
d1sr2a_	116	a.24.10.4 (A:) Sensor-like histidine kinase YojN,	2e-09
d1y6da_	114	a.24.10.5 (A:) Phosphorelay protein luxU {Vibrio h	3e-07
d2r25a1	166	a.24.10.2 (A:2-167) Phosphorelay protein ypd1 {Bak	2e-06
d2ooca1	104	a.24.10.6 (A:8-111) Histidine phosphotransferase S	0.001

>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 = 69.9 bits (171), Expect = 8e-18
 Identities = 32/72 (44%), Positives = 51/72 (70%)

Query: 1   DQQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYY 60
           +Q  V+F KV  +VHQLKGSS+S+GAQ+V   C  FR FC++++ +GC   L  ++ ++Y
Sbjct: 65  EQPVVNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQDKSRDGCLMALAVVRNDFY 124

Query: 61  LVKNKLQTLFQV 72
            ++NK QT+ Q+
Sbjct: 125 DLRNKFQTMLQL 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 = 51.5 bits (123), Expect = 8e-11
 Identities = 10/62 (16%), Positives = 29/62 (46%)

Query: 6   DFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNK 65
           D   +    H++KG++ S+G + +  +    +S       +   ++++ +K+E+      
Sbjct: 50  DKKGIVEEGHKIKGAAGSVGLRHLQQLGQQIQSPDLPAWEDNVGEWIEEMKEEWRHDVEV 109

Query: 66  LQ 67
           L+
Sbjct: 110 LK 111

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

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

 Score = 47.7 bits (113), Expect = 2e-09
 Identities = 10/57 (17%), Positives = 22/57 (38%)

Query: 3   QNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEY 59
              DF  +    H+LKG  + +       +C        E+++ G ++Y+  +    
Sbjct: 56  ATSDFAALAQTAHRLKGVFAMLNLVPGKQLCETLEHLIREKDVPGIEKYISDIDSYV 112

>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 = 42.4 bits (99), Expect = 3e-07
 Identities = 9/63 (14%), Positives = 23/63 (36%)

Query: 6   DFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNK 65
               +    H LK S++S GA R+     A     +   ++        +    ++ ++ 
Sbjct: 49  QLLYLKEISHALKSSAASFGADRLCERAIAIDKKAKANQLQEQGMETSEMLALLHITRDA 108

Query: 66  LQT 68
            ++
Sbjct: 109 YRS 111

>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 = 40.5 bits (94), Expect = 2e-06
 Identities = 13/68 (19%), Positives = 26/68 (38%)

Query: 2   QQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYL 61
               + T++    H LKGSS+++G QR+  VC   ++   +       +           
Sbjct: 50  DGEKNLTELDNLGHFLKGSSAALGLQRIAWVCERIQNLGRKMEHFFPNKTELVNTLSDKS 109

Query: 62  VKNKLQTL 69
           + N +   
Sbjct: 110 IINGINID 117

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

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

 Score = 32.7 bits (74), Expect = 0.001
 Identities = 8/32 (25%), Positives = 14/32 (43%)

Query: 2  QQNVDFTKVGGHVHQLKGSSSSIGAQRVNNVC 33
            +         VH +KG++  +GA  +  VC
Sbjct: 36 MLDPTHPGWKDAVHTVKGAARGVGAFNLGEVC 67

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	80
d1yvia1	142	Histidine-containing phosphotransfer protein HP1 {	99.87
d2a0ba_	118	Aerobic respiration control sensor protein, ArcB {	99.68
d1sr2a_	116	Sensor-like histidine kinase YojN, C-terminal doma	99.63
d1y6da_	114	Phosphorelay protein luxU {Vibrio harveyi [TaxId:	99.6
d2r25a1	166	Phosphorelay protein ypd1 {Baker's yeast (Saccharo	99.5
d2ooca1	104	Histidine phosphotransferase ShpA {Caulobacter cre	99.37
d1tqga_	105	Chemotaxis protein CheA P1 domain {Thermotoga mari	98.84
d1i5na_	128	Chemotaxis protein CheA P1 domain {Salmonella typh	98.78
d1wjta_	103	Transcription elongation factor S-II protein 3 {Mo	83.11

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

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

Probab=99.87  E-value=6.1e-22  Score=121.63  Aligned_cols=76  Identities=42%  Similarity=0.757  Sum_probs=73.5

Q ss_pred             CchhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 043345            3 QNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTLFQVCLKSLA   78 (80)
Q Consensus         3 ~~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~l~~~~~~~~   78 (80)
                      .+.||..++.++|+|||||+++||.+|...|..||.++++++.+.+..++++|+.+|..++..|++|+++|+||++
T Consensus        67 ~~~D~~~~~~~aH~LKGss~~lGa~~l~~~~~~lE~~~~~~~~~~~~~~~~~L~~e~~~l~~~L~~~l~~~~qi~~  142 (142)
T d1yvia1          67 PVVNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQDKSRDGCLMALAVVRNDFYDLRNKFQTMLQLEQQIQA  142 (142)
T ss_dssp             SSCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             CCCCHHHHHHHHHHHHhHHhhccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhC
Confidence            4579999999999999999999999999999999999999999999999999999999999999999999999974

>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=99.68  E-value=2.6e-17  Score=97.22  Aligned_cols=69  Identities=14%  Similarity=0.211  Sum_probs=66.5

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTLFQV   72 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~l~~   72 (80)
                      .+||+.+.+.+|+|||+|+++|+..|..+|..||.+++.++.+.+..++++|...+......|+.|+..
T Consensus        48 ~~d~~~~~~~aH~LKgsa~~~G~~~l~~~~~~lE~~~~~~~~~~~~~~l~~l~~~~~~~~~~L~~~l~~  116 (118)
T d2a0ba_          48 AQDKKGIVEEGHKIKGAAGSVGLRHLQQLGQQIQSPDLPAWEDNVGEWIEEMKEEWRHDVEVLKAWVAK  116 (118)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHTCTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            579999999999999999999999999999999999999999999999999999999999999999874

>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=99.63  E-value=5e-16  Score=91.95  Aligned_cols=59  Identities=17%  Similarity=0.414  Sum_probs=56.1

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHH
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLV   62 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~~~~~~~~~~~l~~~~~~l   62 (80)
                      .+||+.+.+.+|+|||+++|+|+..+..+|..||..+++++++.+..++.+|...+.++
T Consensus        57 ~~D~~~l~~~aH~LKGs~~~~Ga~~l~~~~~~lE~~~~~~~~~~~~~ll~~le~~~~~l  115 (116)
T d1sr2a_          57 TSDFAALAQTAHRLKGVFAMLNLVPGKQLCETLEHLIREKDVPGIEKYISDIDSYVKSL  115 (116)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHh
Confidence            57999999999999999999999999999999999999999999999999999888765

>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=99.60  E-value=9.9e-17  Score=94.11  Aligned_cols=68  Identities=13%  Similarity=0.149  Sum_probs=63.5

Q ss_pred             CchhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            3 QNVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQEYYLVKNKLQTLF   70 (80)
Q Consensus         3 ~~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~~~~~~~~~~~l~~~~~~l~~~L~~~l   70 (80)
                      ..+|++.+.+.+|+|||+|+|+|+..|...|.+||..++.++.+.+...+..|...+.++..+++.|.
T Consensus        46 ~~~d~~~l~~~aH~LKGsa~~~Ga~~L~~~~~~lE~~~~~~~~~~~~~~~~~l~~~~~~t~~a~r~w~  113 (114)
T d1y6da_          46 GSEQLLYLKEISHALKSSAASFGADRLCERAIAIDKKAKANQLQEQGMETSEMLALLHITRDAYRSWT  113 (114)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHCTTTSTTTTTTHHHHHHHHHHHHHC
T ss_pred             hCcCHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            45799999999999999999999999999999999999999999888899999999999999988773

>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=99.50  E-value=3.7e-14  Score=88.45  Aligned_cols=69  Identities=23%  Similarity=0.396  Sum_probs=59.5

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhcC---------------------------------------
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEERN---------------------------------------   44 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~~---------------------------------------   44 (80)
                      .+|+..+.+++|+|||||++||+..+...|..||+.++.++                                       
T Consensus        52 ~~d~~~l~~~aH~lKgss~~~G~~~~~~~~~~ie~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~e~  131 (166)
T d2r25a1          52 EKNLTELDNLGHFLKGSSAALGLQRIAWVCERIQNLGRKMEHFFPNKTELVNTLSDKSIINGINIDEDDEEIKIQVDDKD  131 (166)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTCCCCCCCHHHHHTTCSSGGGGSSSCTTTTCCCCCCCSSSCC
T ss_pred             hhhHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHcccccchhHHHHHHHHHHHHHHHHHhhhhcccccccccCCccc
Confidence            36999999999999999999999999999999999988653                                       


Q ss_pred             -----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345           45 -----IEGCQQYLQHLKQEYYLVKNKLQTLFQV   72 (80)
Q Consensus        45 -----~~~~~~~~~~l~~~~~~l~~~L~~~l~~   72 (80)
                           ...+...+.+.+..|..++..|..|+..
T Consensus       132 ~~~~~l~~I~~~L~~a~d~~~~a~~~L~~~~~~  164 (166)
T d2r25a1         132 ENSIYLILIAKALNQSRLEFKLARIELSKYYNT  164 (166)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence                 2235677888889999999999998753

>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=99.37  E-value=2.9e-13  Score=78.72  Aligned_cols=40  Identities=23%  Similarity=0.336  Sum_probs=36.8

Q ss_pred             chhHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHHhhc
Q 043345            4 NVDFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFCEER   43 (80)
Q Consensus         4 ~~D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~~~~   43 (80)
                      ..|++.+++.+|+|||+|+|+||.+|.++|.+||..++.+
T Consensus        38 ~~d~~~~~~~aH~LKGsa~~iGa~~L~~~a~~lE~~~~~~   77 (104)
T d2ooca1          38 DPTHPGWKDAVHTVKGAARGVGAFNLGEVCERCEAGQESL   77 (104)
T ss_dssp             STTSTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHTTSSCH
T ss_pred             ccCHHHHHHHHHHHHhHHHHcCHHHHHHHHHHHHHHHHcc
Confidence            3588899999999999999999999999999999988763

>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=98.84  E-value=5.7e-09  Score=59.72  Aligned_cols=62  Identities=13%  Similarity=0.277  Sum_probs=46.6

Q ss_pred             hHHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHH---hhcCHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            6 DFTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFC---EERNIEGCQQYLQHLKQEYYLVKNKLQ   67 (80)
Q Consensus         6 D~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~---~~~~~~~~~~~~~~l~~~~~~l~~~L~   67 (80)
                      ....+.+.+|+|||+|+.+|+..+..+|..+|...   +.+..+.-...++.|...++.++..++
T Consensus        37 ~~~~l~R~~HTLKG~a~~~gl~~i~~lah~lE~~l~~~~~~~~~~~~~~~~~l~~~~d~l~~~l~  101 (105)
T d1tqga_          37 LINEAFRALHTLKGMAGTMGFSSMAKLCHTLENILDKARNSEIKITSDLLDKIFAGVDMITRMVD  101 (105)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTTSSCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCchhhcCHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHH
Confidence            36788999999999999999999999999999764   444443334555666666666655443

>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=98.78  E-value=1.2e-08  Score=60.12  Aligned_cols=62  Identities=8%  Similarity=0.212  Sum_probs=46.6

Q ss_pred             HHHHHHHHHHhhhhhhccChHHHHHHHHHHHHHH---hhcCHHHHHHHHHHHHHHHHHHHHHHHH
Q 043345            7 FTKVGGHVHQLKGSSSSIGAQRVNNVCTAFRSFC---EERNIEGCQQYLQHLKQEYYLVKNKLQT   68 (80)
Q Consensus         7 ~~~~~~laH~LKGss~nlGa~~L~~~c~~lE~~~---~~~~~~~~~~~~~~l~~~~~~l~~~L~~   68 (80)
                      ...+.+.+|+|||+|+.+|...+..+|..+|...   +.+...-....++.+...++.++..+..
T Consensus        37 ~~~l~R~~HTLKG~a~~~gl~~i~~lah~lE~~l~~lr~~~~~~~~~~~~~l~~~~d~l~~~l~~  101 (128)
T d1i5na_          37 LNAIFRAAHSIKGGAGTFGFTILQETTHLMENLLDEARRGEMQLNTDIINLFLETKDIMQEQLDA  101 (128)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTTSSCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHhhcChHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            5688999999999999999999999999999865   4555443344556666666666554443

>d1wjta_ a.48.3.1 (A:) Transcription elongation factor S-II protein 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: N-cbl like
superfamily: Conserved domain common to transcription factors TFIIS, elongin A, CRSP70
family: Conserved domain common to transcription factors TFIIS, elongin A, CRSP70
domain: Transcription elongation factor S-II protein 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=83.11  E-value=0.59  Score=25.58  Aligned_cols=39  Identities=23%  Similarity=0.442  Sum_probs=30.4

Q ss_pred             hhhhccC---hHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHH
Q 043345           19 GSSSSIG---AQRVNNVCTAFRSFCEERNIEGCQQYLQHLKQ   57 (80)
Q Consensus        19 Gss~nlG---a~~L~~~c~~lE~~~~~~~~~~~~~~~~~l~~   57 (80)
                      ||+++.|   -..+..+...|+.+....+.+.+..++..|+.
T Consensus         1 ~~~~~~~m~~eeei~~i~k~L~~~~~~~~~~~vl~~L~~L~~   42 (103)
T d1wjta_           1 GSSGSSGMGLEEELLRIAKKLEKMVSRKKTEGALDLLKKLNS   42 (103)
T ss_dssp             CCSSCCSSCSHHHHHHHHHHHHHHHHTTCCSSHHHHHHHHHT
T ss_pred             CCCCCCCCcHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHc
Confidence            4555555   68899999999999988888777777777654