Citrus Sinensis ID: 033537

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------
Protein Sequence
MDAVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIESKIIVFFYPILYLYIVTA
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHccccHHHHHHHHHHHHHHccEEEEEcEEEEEEEcc
Coil and Loop (DISEMBL)
MDAVTRLHRQLVDYSNSLFQEGILDNQfghlqqlqdesnpDFVAEVVNLYFKDSERLLNEITVALDqqnvdftkvgghvhqlkgsssrFIFLHFIDLIESKIIVFFYPILYLYIVTA
Flexible Loop (DISEMBL)
MDAVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIESKIIVFFYPILYLYIVTA
Low Complexity Region (SEG)
MDAVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIESKIIVFFYPILYLYIVTA
Disordered region (IsUnstruct)
*******HRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIESKIIVFFYPILYLYIV**
Disordered Region (DISOPRED)
*******HRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIESKIIVFFYPILYLYIVTA
Disordered Region (DISEMBL)
MDAVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIESKIIVFFYPILYLYIVTA
Disordered Region (DISPRO)
MDAVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIESKIIVFFYPILYLYIVTA
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MDAVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIESKIIVFFYPILYLYIVTA
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	117	2.2.26 [Sep-21-2011]
Q9ZNV9	154	Histidine-containing phos	yes	no	0.735	0.558	0.655	1e-20
Q9SAZ5	155	Histidine-containing phos	no	no	0.743	0.561	0.550	1e-20
Q8L9T7	157	Histidine-containing phos	no	no	0.717	0.535	0.564	2e-20
Q9ZNV8	156	Histidine-containing phos	no	no	0.863	0.647	0.454	5e-20
Q6VAK4	149	Histidine-containing phos	no	no	0.846	0.664	0.420	8e-16
Q9LU15	127	Histidine-containing phos	no	no	0.572	0.527	0.522	5e-14
Q9SSC9	154	Histidine-containing phos	no	no	0.726	0.551	0.465	8e-05

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

 Score = 98.2 bits (243), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 57/87 (65%), Positives = 72/87 (82%), Gaps = 1/87 (1%)

Query: 1  MDAVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNE 60
          MD V +  + L DY+ SLF EGILD+QF  LQQLQDESNPDFV++VV L+F+DS+R+LN+
Sbjct: 1  MDLVQK-QKSLQDYTKSLFLEGILDSQFLQLQQLQDESNPDFVSQVVTLFFQDSDRILND 59

Query: 61 ITVALDQQNVDFTKVGGHVHQLKGSSS 87
          ++++LDQQ VDF KV  HVHQLKGSSS
Sbjct: 60 LSLSLDQQVVDFKKVDPHVHQLKGSSS 86

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 = 98.2 bits (243), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 49/89 (55%), Positives = 66/89 (74%), Gaps = 2/89 (2%)

Query: 1  MDA-VTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLN 59
          MD  + +L R+  D++ SL+ +G LD+QF  L++LQDE +PDFVAEVV L+F+D E+L++
Sbjct: 1  MDTLIAQLQRRFCDFTISLYHQGFLDDQFTELKKLQDECSPDFVAEVVTLFFEDCEKLIS 60

Query: 60 EITVALDQQ-NVDFTKVGGHVHQLKGSSS 87
           +  ALDQ  NVDF  VG  VHQLKGSSS
Sbjct: 61 NMARALDQTGNVDFKLVGSSVHQLKGSSS 89

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 = 97.4 bits (241), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 48/85 (56%), Positives = 64/85 (75%), Gaps = 1/85 (1%)

Query: 4  VTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITV 63
          V +L RQ  DY  SL+Q+G LDNQF  L++LQDE  PDFVAEVV+L+F D  +L+N +++
Sbjct: 6  VAQLQRQFQDYIVSLYQQGFLDNQFSELRKLQDEGTPDFVAEVVSLFFDDCSKLINTMSI 65

Query: 64 ALDQ-QNVDFTKVGGHVHQLKGSSS 87
          +L++  NVDF +V   VHQLKGSSS
Sbjct: 66 SLERPDNVDFKQVDSGVHQLKGSSS 90

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 = 96.3 bits (238), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 50/110 (45%), Positives = 76/110 (69%), Gaps = 9/110 (8%)

Query: 1   MDA-VTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLN 59
           MDA + +L RQ  DY+ SL+Q+G LD+QF  L++LQD+ +PDFV+EV++L+F+D  +L++
Sbjct: 1   MDALIAQLQRQFRDYTISLYQQGFLDDQFTELKKLQDDGSPDFVSEVLSLFFEDCVKLIS 60

Query: 60  EITVALDQQN-VDFTKVGGHVHQLKGSSS-------RFIFLHFIDLIESK 101
            +  ALD    VDF++VG  VHQLKGSSS       + + + F +  E+K
Sbjct: 61  NMARALDTTGTVDFSQVGASVHQLKGSSSSVGAKRVKTLCVSFKECCEAK 110

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 = 82.4 bits (202), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 45/107 (42%), Positives = 63/107 (58%), Gaps = 8/107 (7%)

Query: 3   AVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESN-PDFVAEVVNLYFKDSERLLNEI 61
           A   L  QL    +S+F +G++D QF  LQ LQDE   P FV+EVV L+  D++R++NEI
Sbjct: 2   AAAALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEI 61

Query: 62  TVALDQQNVDFTKVGGHVHQLKGSSS-------RFIFLHFIDLIESK 101
              L+Q  V+F KV  +VHQLKGSS+       +F  + F    + K
Sbjct: 62  ATLLEQPVVNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQDK 108

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score = 76.3 bits (186), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 35/67 (52%), Positives = 50/67 (74%)

Query: 21 EGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVH 80
          +G LD QF  L++LQD++NP+FV EV  LYFKDS RL+N I  AL++ + DF ++  ++H
Sbjct: 9  QGYLDEQFMELEELQDDANPNFVEEVSALYFKDSARLINNIDQALERGSFDFNRLDSYMH 68

Query: 81 QLKGSSS 87
          Q KGSS+
Sbjct: 69 QFKGSST 75

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

Arabidopsis thaliana (taxid: 3702)

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

 Score = 45.8 bits (107), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 40/86 (46%), Positives = 59/86 (68%), Gaps = 1/86 (1%)

Query: 3  AVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSER-LLNEI 61
           V RL   +     SLF +G+LD QF  LQQLQDE++P+FV +V+N+YF +SE+ L N  
Sbjct: 5  GVDRLQADINRLLASLFHQGVLDEQFLQLQQLQDETSPNFVYDVINIYFDESEKLLRNLR 64

Query: 62 TVALDQQNVDFTKVGGHVHQLKGSSS 87
           + +D++  D+ K+G H++QL GSSS
Sbjct: 65 LLLMDREFSDYKKIGLHLNQLVGSSS 90

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	117
255542502	152	Histidine-containing phosphotransfer pro	0.743	0.572	0.724	2e-29
224123262	152	histidine phosphotransfer protein [Popul	0.743	0.572	0.701	6e-28
298103712	152	putative histidine phosphotransfer prote	0.743	0.572	0.701	7e-28
225451088	150	PREDICTED: histidine-containing phosphot	0.743	0.58	0.689	1e-27
356576753	150	PREDICTED: histidine-containing phosphot	0.743	0.58	0.666	1e-26
351726317	146	uncharacterized protein LOC100306665 [Gl	0.743	0.595	0.666	1e-26
225432442	152	PREDICTED: histidine-containing phosphot	0.717	0.552	0.678	3e-26
224131434	152	histidine phosphotransfer protein [Popul	0.743	0.572	0.643	3e-26
298103708	152	putative histidine phosphotransfer prote	0.743	0.572	0.632	4e-26
356571146	152	PREDICTED: histidine-containing phosphot	0.743	0.572	0.643	5e-26

>gi|255542502|ref|XP_002512314.1| Histidine-containing phosphotransfer protein, putative [Ricinus communis] gi|223548275|gb|EEF49766.1| Histidine-containing phosphotransfer protein, putative [Ricinus communis]

 Score =  132 bits (333), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 63/87 (72%), Positives = 74/87 (85%)

Query: 1  MDAVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNE 60
          MDAV +L RQLVDY+ SLF EG LD+QF  LQQLQDESNPDFV EVV+L+F+DSERLLNE
Sbjct: 1  MDAVVQLQRQLVDYTASLFHEGFLDDQFNQLQQLQDESNPDFVVEVVSLFFEDSERLLNE 60

Query: 61 ITVALDQQNVDFTKVGGHVHQLKGSSS 87
          +  ALDQ++VDF ++  HVHQLKGSSS
Sbjct: 61 LAKALDQKSVDFKRIDAHVHQLKGSSS 87

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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 =  127 bits (320), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 61/87 (70%), Positives = 72/87 (82%)

Query: 1  MDAVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNE 60
          MD+V +L RQLVDYS  LF EG LD+QF  LQQLQDESNPDFV EVV L+F+DSERLL+E
Sbjct: 1  MDSVVQLQRQLVDYSAQLFNEGFLDDQFNQLQQLQDESNPDFVVEVVTLFFEDSERLLDE 60

Query: 61 ITVALDQQNVDFTKVGGHVHQLKGSSS 87
          +  AL+QQ+VD+ K+  HVHQLKGSSS
Sbjct: 61 LAKALEQQSVDYRKIDAHVHQLKGSSS 87

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  127 bits (320), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 61/87 (70%), Positives = 72/87 (82%)

Query: 1  MDAVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNE 60
          MD+V +L RQLVDYS  LF EG LD+QF  LQQLQDESNPDFV EVV L+F+DSERLL+E
Sbjct: 1  MDSVVQLQRQLVDYSAQLFNEGFLDDQFNQLQQLQDESNPDFVVEVVTLFFEDSERLLDE 60

Query: 61 ITVALDQQNVDFTKVGGHVHQLKGSSS 87
          +  AL+QQ+VD+ K+  HVHQLKGSSS
Sbjct: 61 LAKALEQQSVDYRKIDAHVHQLKGSSS 87

Source: Populus x canadensis

Species: Populus x canadensis

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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 =  127 bits (318), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 60/87 (68%), Positives = 72/87 (82%)

Query: 1  MDAVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNE 60
          MD V +L RQL+DY+  LFQEG L++QF  LQQLQDE+NPDFV EVV+L+F+DSERLLNE
Sbjct: 1  MDGVVQLQRQLLDYTTQLFQEGFLNDQFTQLQQLQDETNPDFVVEVVSLFFEDSERLLNE 60

Query: 61 ITVALDQQNVDFTKVGGHVHQLKGSSS 87
          +   LDQQ++DF KV  HVHQLKGSSS
Sbjct: 61 LANTLDQQSIDFRKVDSHVHQLKGSSS 87

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356576753|ref|XP_003556494.1| PREDICTED: histidine-containing phosphotransfer protein 1-like [Glycine max]

 Score =  123 bits (309), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 58/87 (66%), Positives = 71/87 (81%)

Query: 1  MDAVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNE 60
          MD + +L RQLVDY+ SLF EG LD+QF  LQQLQDESNPDFV EVV L+F+D++RLLNE
Sbjct: 1  MDGIVQLERQLVDYTASLFHEGFLDDQFNQLQQLQDESNPDFVVEVVTLFFEDADRLLNE 60

Query: 61 ITVALDQQNVDFTKVGGHVHQLKGSSS 87
          +T AL Q ++DF ++  HVHQLKGSSS
Sbjct: 61 LTKALGQPSIDFKRLDAHVHQLKGSSS 87

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351726317|ref|NP_001238402.1| uncharacterized protein LOC100306665 [Glycine max] gi|255629219|gb|ACU14954.1| unknown [Glycine max]

 Score =  123 bits (309), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 58/87 (66%), Positives = 70/87 (80%)

Query: 1  MDAVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNE 60
          MD + +L RQLVDY+ SLF EG LD+QF  LQQLQDESNPDFV EVV L+F+D+ERLLNE
Sbjct: 1  MDGIVQLQRQLVDYTASLFHEGFLDDQFNQLQQLQDESNPDFVVEVVTLFFEDAERLLNE 60

Query: 61 ITVALDQQNVDFTKVGGHVHQLKGSSS 87
          +T  L Q ++DF ++  HVHQLKGSSS
Sbjct: 61 LTKTLGQPSIDFKRLDAHVHQLKGSSS 87

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225432442|ref|XP_002278411.1| PREDICTED: histidine-containing phosphotransfer protein 1 isoform 1 [Vitis vinifera] gi|297736940|emb|CBI26141.3| unnamed protein product [Vitis vinifera]

 Score =  122 bits (306), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 57/84 (67%), Positives = 71/84 (84%)

Query: 4  VTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITV 63
          V ++ R+ V+Y+ SLF+EG LD QF  LQQLQDESNPDFV EVV+L+F+DSE+LLN+++ 
Sbjct: 3  VVQMQRRFVEYAASLFREGFLDGQFTQLQQLQDESNPDFVVEVVSLFFEDSEKLLNDLSR 62

Query: 64 ALDQQNVDFTKVGGHVHQLKGSSS 87
          ALDQQNVDF +V  HVHQLKGSSS
Sbjct: 63 ALDQQNVDFKRVDSHVHQLKGSSS 86

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224131434|ref|XP_002328538.1| histidine phosphotransfer protein [Populus trichocarpa] gi|222838253|gb|EEE76618.1| histidine phosphotransfer protein [Populus trichocarpa]

 Score =  122 bits (305), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 56/87 (64%), Positives = 71/87 (81%)

Query: 1  MDAVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNE 60
          MD+V +L RQLVDY+  LF EG LD+QF  LQQLQDESNPDFV E+V L+F+DSE+L+NE
Sbjct: 1  MDSVVQLQRQLVDYTGQLFNEGFLDDQFNQLQQLQDESNPDFVVELVTLFFEDSEKLINE 60

Query: 61 ITVALDQQNVDFTKVGGHVHQLKGSSS 87
          +   L+QQ++D+ K+  HVHQLKGSSS
Sbjct: 61 LAKDLEQQSIDYRKIDAHVHQLKGSSS 87

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|298103708|emb|CBM42555.1| putative histidine phosphotransfer protein 7 [Populus x canadensis]

 Score =  121 bits (304), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 55/87 (63%), Positives = 71/87 (81%)

Query: 1  MDAVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNE 60
          MD+V +L RQL+DY+  LF EG LD+QF  LQQLQDESNPDFV E+V L+F+DSE+L+NE
Sbjct: 1  MDSVVQLQRQLIDYTGQLFNEGFLDDQFNQLQQLQDESNPDFVVELVTLFFEDSEKLINE 60

Query: 61 ITVALDQQNVDFTKVGGHVHQLKGSSS 87
          +   L+QQ++D+ K+  HVHQLKGSSS
Sbjct: 61 LAKDLEQQSIDYRKIDAHVHQLKGSSS 87

Source: Populus x canadensis

Species: Populus x canadensis

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356571146|ref|XP_003553741.1| PREDICTED: histidine-containing phosphotransfer protein 1-like [Glycine max]

 Score =  121 bits (304), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 56/87 (64%), Positives = 71/87 (81%)

Query: 1  MDAVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNE 60
          M  V+RL RQL +Y++SLF+EG LD+QF  LQQLQDESNP+FV EVV L+F+D+ERLLNE
Sbjct: 1  MYGVSRLQRQLAEYTSSLFEEGFLDDQFNQLQQLQDESNPEFVVEVVTLFFEDAERLLNE 60

Query: 61 ITVALDQQNVDFTKVGGHVHQLKGSSS 87
          +  AL Q+++DF +V  HV QLKGSSS
Sbjct: 61 LAKALGQESIDFKRVEAHVRQLKGSSS 87

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	117
TAIR|locus:2089900	154	AHP1 "histidine-containing pho	0.735	0.558	0.655	2.9e-25
TAIR|locus:2020868	157	AHP5 "histidine-containing pho	0.717	0.535	0.564	1e-20
TAIR|locus:2175643	155	AHP3 "histidine-containing pho	0.743	0.561	0.550	3.5e-20
TAIR|locus:2093817	156	AHP2 "histidine-containing pho	0.743	0.557	0.528	1.5e-19
TAIR|locus:2016339	154	HP6 "histidine phosphotransfer	0.717	0.545	0.482	4.7e-16
TAIR|locus:504955364	167	AT4G04402 "AT4G04402" [Arabido	0.435	0.305	0.490	7.6e-09

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

 Score = 287 (106.1 bits), Expect = 2.9e-25, P = 2.9e-25
 Identities = 57/87 (65%), Positives = 72/87 (82%)

Query:     1 MDAVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNE 60
             MD V +  + L DY+ SLF EGILD+QF  LQQLQDESNPDFV++VV L+F+DS+R+LN+
Sbjct:     1 MDLVQK-QKSLQDYTKSLFLEGILDSQFLQLQQLQDESNPDFVSQVVTLFFQDSDRILND 59

Query:    61 ITVALDQQNVDFTKVGGHVHQLKGSSS 87
             ++++LDQQ VDF KV  HVHQLKGSSS
Sbjct:    60 LSLSLDQQVVDFKKVDPHVHQLKGSSS 86

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 = 244 (91.0 bits), Expect = 1.0e-20, P = 1.0e-20
 Identities = 48/85 (56%), Positives = 64/85 (75%)

Query:     4 VTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITV 63
             V +L RQ  DY  SL+Q+G LDNQF  L++LQDE  PDFVAEVV+L+F D  +L+N +++
Sbjct:     6 VAQLQRQFQDYIVSLYQQGFLDNQFSELRKLQDEGTPDFVAEVVSLFFDDCSKLINTMSI 65

Query:    64 ALDQ-QNVDFTKVGGHVHQLKGSSS 87
             +L++  NVDF +V   VHQLKGSSS
Sbjct:    66 SLERPDNVDFKQVDSGVHQLKGSSS 90

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

 Score = 239 (89.2 bits), Expect = 3.5e-20, P = 3.5e-20
 Identities = 49/89 (55%), Positives = 66/89 (74%)

Query:     1 MDA-VTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLN 59
             MD  + +L R+  D++ SL+ +G LD+QF  L++LQDE +PDFVAEVV L+F+D E+L++
Sbjct:     1 MDTLIAQLQRRFCDFTISLYHQGFLDDQFTELKKLQDECSPDFVAEVVTLFFEDCEKLIS 60

Query:    60 EITVALDQQ-NVDFTKVGGHVHQLKGSSS 87
              +  ALDQ  NVDF  VG  VHQLKGSSS
Sbjct:    61 NMARALDQTGNVDFKLVGSSVHQLKGSSS 89

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

 Score = 233 (87.1 bits), Expect = 1.5e-19, P = 1.5e-19
 Identities = 47/89 (52%), Positives = 68/89 (76%)

Query:     1 MDA-VTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLN 59
             MDA + +L RQ  DY+ SL+Q+G LD+QF  L++LQD+ +PDFV+EV++L+F+D  +L++
Sbjct:     1 MDALIAQLQRQFRDYTISLYQQGFLDDQFTELKKLQDDGSPDFVSEVLSLFFEDCVKLIS 60

Query:    60 EITVALDQQN-VDFTKVGGHVHQLKGSSS 87
              +  ALD    VDF++VG  VHQLKGSSS
Sbjct:    61 NMARALDTTGTVDFSQVGASVHQLKGSSS 89

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

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

GO:0007165 "signal transduction" evidence=ISS

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

GO:0005515 "protein binding" evidence=IPI

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

GO:0005737 "cytoplasm" evidence=IDA;NAS

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

GO:0005634 "nucleus" evidence=IDA

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

GO:0005829 "cytosol" evidence=IDA

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

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

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

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

 Score = 200 (75.5 bits), Expect = 4.7e-16, P = 4.7e-16
 Identities = 41/85 (48%), Positives = 60/85 (70%)

Query:     4 VTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITV 63
             V RL   +     SLF +G+LD QF  LQQLQDE++P+FV +V+N+YF +SE+LL  + +
Sbjct:     6 VDRLQADINRLLASLFHQGVLDEQFLQLQQLQDETSPNFVYDVINIYFDESEKLLRNLRL 65

Query:    64 AL-DQQNVDFTKVGGHVHQLKGSSS 87
              L D++  D+ K+G H++QL GSSS
Sbjct:    66 LLMDREFSDYKKIGLHLNQLVGSSS 90

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

GO:0004871 "signal transducer activity" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

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

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

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

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

GO:0010089 "xylem development" evidence=IMP

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

 Score = 132 (51.5 bits), Expect = 7.6e-09, P = 7.6e-09
 Identities = 26/53 (49%), Positives = 40/53 (75%)

Query:    22 GILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQN--VDF 72
             G LD+QF  L++LQD+ +PDFVAEV++L+F+D  +L++ +  ALD+    VDF
Sbjct:    24 GFLDDQFTELKKLQDDGSPDFVAEVLSLFFEDCVKLISNMARALDKSTGTVDF 76


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        0.326   0.142   0.405    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      117       117   0.00091  102 3  11 22  0.42    30
                                                     29  0.46    32


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  6
  No. of states in DFA:  466 (50 KB)
  Total size of DFA:  101 KB (2074 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:  14.14u 0.14s 14.28t   Elapsed:  00:00:00
  Total cpu time:  14.14u 0.14s 14.28t   Elapsed:  00:00:00
  Start:  Mon May 20 23:30:32 2013   End:  Mon May 20 23:30:32 2013

GO:0005575 "cellular_component" evidence=ND

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	estExt_Genewise1_v1.C_LG_XIII1173	histidine phosphotransfer protein (152 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	eugene3.00140701	response regulator (144 aa)							•		0.681
	PtpRR3	response regulator (687 aa)							•		0.679

---

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	117
pfam01627	87	pfam01627, Hpt, Hpt domain	0.003

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

 Score = 33.9 bits (78), Expect = 0.003
 Identities = 12/44 (27%), Positives = 23/44 (52%), Gaps = 1/44 (2%)

Query: 45 EVVNLYFKDSERLLNEITVALDQ-QNVDFTKVGGHVHQLKGSSS 87
          E++ L+ +++  LL ++  AL   +  D   +    H LKGS+ 
Sbjct: 1  ELLELFLEEAPELLEQLEQALLALEAEDLEALFRAAHTLKGSAG 44

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	117
KOG4747	150	consensus Two-component phosphorelay intermediate	99.94
COG2198	122	ArcB FOG: HPt domain [Signal transduction mechanis	99.28
PF01627	90	Hpt: Hpt domain; InterPro: IPR008207 Two-component	99.26
smart00073	87	HPT Histidine Phosphotransfer domain. Contains an	99.18
cd00088	94	HPT Histidine Phosphotransfer domain, involved in	99.07
TIGR02956	968	TMAO_torS TMAO reductase sytem sensor TorS. This p	98.66
PRK11466	914	hybrid sensory histidine kinase TorS; Provisional	98.07
PRK10618	894	phosphotransfer intermediate protein in two-compon	97.92
PRK11091	779	aerobic respiration control sensor protein ArcB; P	97.86
PRK11107	919	hybrid sensory histidine kinase BarA; Provisional	97.48
PRK10547	670	chemotaxis protein CheA; Provisional	97.24
COG0643	716	CheA Chemotaxis protein histidine kinase and relat	97.14
PRK09959	1197	hybrid sensory histidine kinase in two-component r	93.93
PRK15347	921	two component system sensor kinase SsrA; Provision	92.49
KOG4747	150	consensus Two-component phosphorelay intermediate	80.49

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

Probab=99.94  E-value=2.3e-26  Score=170.91  Aligned_cols=99  Identities=54%  Similarity=0.849  Sum_probs=94.3

Q ss_pred             Chh-HHHHHHHHHHHHhchhhcCchhHHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhh
Q 033537            1 MDA-VTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHV   79 (117)
Q Consensus         1 ~~~-~~~l~~ql~~~~~sl~~egiLD~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~a   79 (117)
                      |++ +..++++...+.+|++++|++|+||.||++|+|+++|+||.+++..||+||++++++++.|++.+ .|+++++.+.
T Consensus         1 m~~~i~~~q~~~~d~~~sl~~qgild~qF~qlq~lqD~~~p~fv~ev~~~fF~~s~~~i~~~r~ald~~-~d~k~~~~~~   79 (150)
T KOG4747|consen    1 MDLLIISMQRDVSDYTKSLFDQGILDSQFLQLQELQDDSSPDFVEEVVGLFFEDSERLINNLRLALDCE-RDFKKLGSHV   79 (150)
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhcccCccHHHHHHHHHHHHHHHHHHHHHHHHhhH-hHHHHHHHHH
Confidence            443 67899999999999999999999999999999999999999999999999999999999999986 5999999999


Q ss_pred             hhhhhhHHHHhHHHHHHHHHH
Q 033537           80 HQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        80 H~LKGSSasiGA~~l~~lC~~  100 (117)
                      |+|||||++|||.+|.+.|..
T Consensus        80 hqlkgssssIGa~kvk~~c~~  100 (150)
T KOG4747|consen   80 HQLKGSSSSIGALKVKKVCVG  100 (150)
T ss_pred             HHccCchhhhhHHHHHHHHHH
Confidence            999999999999999999975

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

Probab=99.28  E-value=1.5e-11  Score=86.46  Aligned_cols=61  Identities=21%  Similarity=0.449  Sum_probs=58.2

Q ss_pred             CChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           38 SNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        38 ~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      +.|+++.+++..|+++++..++.++.++..+  |+..+.+.+|+||||++|+|+.++..+|..
T Consensus        20 ~~~~~~~~ll~~f~~~~~~~l~~l~~~l~~~--d~~~~~~~aH~lkg~a~~lg~~~L~~~~~~   80 (122)
T COG2198          20 GDPDLLRELLAMFLEEAPAQLEQLESALAAE--DNDGLARLAHRLKGSAASLGLPALAQLCQQ   80 (122)
T ss_pred             CChHHHHHHHHHHHHHhHHHHHHHHHHHhcC--CcHHHHHHHHHHHhHHHhccHHHHHHHHHH
Confidence            5699999999999999999999999999986  889999999999999999999999999986

>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=99.26  E-value=1.4e-11  Score=79.83  Aligned_cols=54  Identities=24%  Similarity=0.464  Sum_probs=50.9

Q ss_pred             HHHHHHHHhHHHHHHHHHHHH---hcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           45 EVVNLYFKDSERLLNEITVAL---DQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        45 elI~~Fl~Ds~~~l~~L~~al---~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      |+++.|++++++.+..|++++   +.  .|++.+++.+|+|||+++++|+.+++.+|+.
T Consensus         1 ell~~f~~~~~~~~~~l~~~~~~~~~--~d~~~l~~~~H~lkG~a~~~g~~~l~~~~~~   57 (90)
T PF01627_consen    1 ELLDIFLEEAPEDLEQLEQALQALEQ--EDWEELRRLAHRLKGSAGNLGAPRLAELAEQ   57 (90)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCSSHH--CHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHhH--hhHHHHHHHHHHHhhhHHhcCHHHHHHHHHH
Confidence            689999999999999999999   65  4999999999999999999999999999975

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

>smart00073 HPT Histidine Phosphotransfer domain

Probab=99.18  E-value=3.8e-11  Score=78.59  Aligned_cols=54  Identities=26%  Similarity=0.327  Sum_probs=50.5

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           45 EVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        45 elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      ++++.|+++.++.+..|+++++.  .|+..+.+.+|+||||++++|+.+|..+|..
T Consensus         2 e~~~~f~~~~~~~l~~l~~~~~~--~~~~~l~~~~H~LKG~a~~~g~~~l~~~~~~   55 (87)
T smart00073        2 EELAEFLQSLEEGLLELEKALDA--QDVNEIFRAAHTLKGSAGSLGLQQLAQLCHQ   55 (87)
T ss_pred             hHHHHHHHHHHHHHHHHHhCcCH--hHHHHHHHHHHhhhhhHHhcCHHHHHHHHHH
Confidence            68899999999999999999875  4999999999999999999999999999974

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=99.07  E-value=2.5e-10  Score=76.23  Aligned_cols=57  Identities=26%  Similarity=0.452  Sum_probs=51.7

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHhc--CCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           44 AEVVNLYFKDSERLLNEITVALDQ--QNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        44 ~elI~~Fl~Ds~~~l~~L~~al~~--~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      .+++..|+++.++.+..|++++++  .+.|+..+...+|+||||++++|+.++..+|..
T Consensus         2 ~~l~~~f~~~~~~~l~~l~~~~~~~~~~~d~~~l~~~~H~LkGsa~~~G~~~l~~~~~~   60 (94)
T cd00088           2 EELLELFLEEAEELLEELERALLELEDAEDLNEIFRAAHTLKGSAASLGLQRLAQLAHQ   60 (94)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhHHhcCChHHHHHHHHH
Confidence            589999999999999999999981  125999999999999999999999999999984

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=98.66  E-value=1e-07  Score=84.42  Aligned_cols=61  Identities=23%  Similarity=0.316  Sum_probs=58.0

Q ss_pred             CChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           38 SNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        38 ~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      .+|+.+.+++..|+++.+..+..|..++..+  |+..++..+|.|||+++++||.+++.+|+.
T Consensus       876 ~~~~~~~~~~~~f~~~~~~~~~~l~~~~~~~--d~~~~~~~~H~lkg~~~~~g~~~l~~~~~~  936 (968)
T TIGR02956       876 LGVEKVRQLVALFKTSSAEQLEELSAARAVD--DDAQIKKLAHKLKGSAGSLGLTQLTQLCQQ  936 (968)
T ss_pred             cCcHHHHHHHHHHHHhhHHHHHHHHHHHhCC--CHHHHHHHHHHHHHHHHHhCHHHHHHHHHH
Confidence            5889999999999999999999999999875  999999999999999999999999999974

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).

>PRK11466 hybrid sensory histidine kinase TorS; Provisional

Probab=98.07  E-value=1.8e-05  Score=70.16  Aligned_cols=61  Identities=26%  Similarity=0.279  Sum_probs=56.8

Q ss_pred             CChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           38 SNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        38 ~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      .+++.+.+++..|.+++...+++++.+.+.+  |...++..+|.+||+++++|+.++..+|+.
T Consensus       820 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~ah~lkg~~~~lg~~~l~~~~~~  880 (914)
T PRK11466        820 MGTEKIHEWLALFKQHALPLLDEIDIARASQ--DSEKIKRAAHQLKSSCSSLGMRQASQACAQ  880 (914)
T ss_pred             cCHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            5678889999999999999999999998875  999999999999999999999999999986

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

Probab=97.92  E-value=2.7e-05  Score=71.36  Aligned_cols=57  Identities=16%  Similarity=0.246  Sum_probs=52.2

Q ss_pred             hHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           42 FVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        42 Fv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      +..+....|.+..+.-++.|..++.++  |+..+.+.||.|||+++++|+..++.+||+
T Consensus       808 ~~s~~~~lF~~t~~~di~~L~~~~~~~--D~~~l~~~aHrLKG~~aml~l~~l~~~~~~  864 (894)
T PRK10618        808 HASDYYALFVDTVPDDVKRLYTEAATS--DFASLAQTAHRLKGVFAMLNLVPGKQLCET  864 (894)
T ss_pred             hhhhHHHHHHHhhHHHHHHHHHHHhcc--CHHHHHHHHHHHHHHHHHcChHHHHHHHHH
Confidence            344567899999999999999999986  999999999999999999999999999984

>PRK11091 aerobic respiration control sensor protein ArcB; Provisional

Probab=97.86  E-value=7.4e-05  Score=65.62  Aligned_cols=60  Identities=17%  Similarity=0.318  Sum_probs=56.0

Q ss_pred             CChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHH
Q 033537           38 SNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIE   99 (117)
Q Consensus        38 ~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~   99 (117)
                      -+++.+.+.+..|.+..+..++.+..++...  |...+...+|.+||+++++|+.+++++|+
T Consensus       678 ~g~~~~~~~l~~~~~~~~~~~~~l~~~l~~~--d~~~~~~~ah~l~g~~~~~g~~~l~~~~~  737 (779)
T PRK11091        678 VGPKLITDSLAVFEKMMPGYLSVLDSNLTAR--DQKGIVEEAHKIKGAAGSVGLRHLQQLAQ  737 (779)
T ss_pred             cCHHHHHHHHHHHHHhhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            4678889999999999999999999999875  99999999999999999999999999996

>PRK11107 hybrid sensory histidine kinase BarA; Provisional

Probab=97.48  E-value=0.00052  Score=60.53  Aligned_cols=62  Identities=19%  Similarity=0.253  Sum_probs=56.3

Q ss_pred             cCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           37 ESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        37 ~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      .+.++...+++..|.++.+..+..|..+++..  |...+...+|.+||+++++|+.++..+|..
T Consensus       820 ~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~h~l~g~~~~~g~~~l~~~~~~  881 (919)
T PRK11107        820 AGKPDLARDMLQMLLDFLPEVRNKVEEALAGE--DPEGLLDLIHKLHGSCSYSGVPRLKKLCQL  881 (919)
T ss_pred             CCCHHHHHHHHHHHHHhHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            35688899999999999999999999999875  889999999999999999999999998864

>PRK10547 chemotaxis protein CheA; Provisional

Probab=97.24  E-value=0.00075  Score=60.57  Aligned_cols=57  Identities=19%  Similarity=0.377  Sum_probs=47.4

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHH---hcCCCcHH---HHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           44 AEVVNLYFKDSERLLNEITVAL---DQQNVDFT---KVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        44 ~elI~~Fl~Ds~~~l~~L~~al---~~~~~D~~---~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      .+++..|++++.++++.|+..+   ++.+.|.+   .+=+.+|++||+|+.+|...+.++|-.
T Consensus         4 ~~~l~~F~~Ea~E~l~~le~~Ll~LE~~p~d~e~in~lFRa~HTiKG~a~~~g~~~i~~l~H~   66 (670)
T PRK10547          4 SDFYQTFFDEADELLADMEQHLLVLDPEAPDAEQLNAIFRAAHSIKGGAGTFGFTVLQETTHL   66 (670)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhhhhHHhhcCchHHHHHHHH
Confidence            4789999999999999999874   45555655   455789999999999999999998864

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

Probab=97.14  E-value=0.0011  Score=59.88  Aligned_cols=61  Identities=20%  Similarity=0.338  Sum_probs=49.9

Q ss_pred             hhHHHHHHHHHHhHHHHHHHHHHH---HhcCCCcHH---HHHHhhhhhhhhHHHHhHHHHHHHHHHh
Q 033537           41 DFVAEVVNLYFKDSERLLNEITVA---LDQQNVDFT---KVGGHVHQLKGSSSRFIFLHFIDLIESK  101 (117)
Q Consensus        41 dFv~elI~~Fl~Ds~~~l~~L~~a---l~~~~~D~~---~l~~~aH~LKGSSasiGA~~l~~lC~~~  101 (117)
                      +-..++.+.|+.++++++..|+..   ++..+.|.+   .+-+.+|+|||+++.+|...+.++|-.-
T Consensus         4 ~~~~~~~~~F~~Ea~e~l~~l~~~Ll~LE~~~~d~~~ln~ifRaaHTlKG~a~~~g~~~l~~l~H~~   70 (716)
T COG0643           4 MDMEEILEDFLEEAEELLQALEQALLALEPDPEDLDLLNAIFRAAHTLKGGAGTLGLTTLAELAHAM   70 (716)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHhHhhccCCCCCHHHHHHHHHHHHhhhhhhhhcChhHHHHHHHHH
Confidence            445688999999999999999975   344445655   5577899999999999999999999653

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

Probab=93.93  E-value=0.69  Score=42.81  Aligned_cols=62  Identities=13%  Similarity=0.268  Sum_probs=54.0

Q ss_pred             CChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHHh
Q 033537           38 SNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIESK  101 (117)
Q Consensus        38 ~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~~  101 (117)
                      ......+++...+...+..-+..+..+.+.+  |...++..+|.+||++..+|+..+...|+..
T Consensus      1097 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~h~~~g~~~~l~~~~l~~~~~~~ 1158 (1197)
T PRK09959       1097 NDLQLMQEILMTFQHETHKDLPAAFHALEAG--DNRTFHQCIHRIHGAANILNLQKLINISHQL 1158 (1197)
T ss_pred             CCHHHHHHHHHHHHHhhHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHHHH
Confidence            4567788899999998888888888888875  7889999999999999999999999999843

>PRK15347 two component system sensor kinase SsrA; Provisional

Probab=92.49  E-value=0.38  Score=42.74  Aligned_cols=52  Identities=17%  Similarity=0.222  Sum_probs=42.3

Q ss_pred             HHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHHh
Q 033537           46 VVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIESK  101 (117)
Q Consensus        46 lI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~~  101 (117)
                      +-..+.+.....+..+.++++.+  |  .++..+|.+||+++.+|+.++...|..-
T Consensus       838 l~~~~~~~l~~~~~~~~~~~~~~--~--~l~~~~h~i~~~~~~~g~~~l~~~~~~~  889 (921)
T PRK15347        838 LNSKLYQSLLLLLAQIEQAVENQ--E--VLSQLLHTLKGCAGQAGLTELQCAVIDL  889 (921)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCH--H--HHHHHHHHHHHHHHHcCHHHHHHHHHHH
Confidence            44455566677888888888864  4  8999999999999999999999998653

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

Probab=80.49  E-value=11  Score=28.42  Aligned_cols=59  Identities=14%  Similarity=0.028  Sum_probs=50.1

Q ss_pred             ChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           39 NPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        39 ~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      --+|...++.-++.|  ..+.+|.+..+....|+ ..+-..|.||+|+.-+|-.+.+.-|++
T Consensus        12 ~~d~~~sl~~qgild--~qF~qlq~lqD~~~p~f-v~ev~~~fF~~s~~~i~~~r~ald~~~   70 (150)
T KOG4747|consen   12 VSDYTKSLFDQGILD--SQFLQLQELQDDSSPDF-VEEVVGLFFEDSERLINNLRLALDCER   70 (150)
T ss_pred             HHHHHHHHHHHHhhH--HHHHHHHHHhcccCccH-HHHHHHHHHHHHHHHHHHHHHHHhhHh
Confidence            467888888888888  77889999988865664 456778999999999999999999996

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	117
4euk_B	159	Crystal Structure Length = 159		1e-21
3us6_A	153	Crystal Structure Of Histidine-Containing Phosphotr		2e-20
1yvi_A	149	X-Ray Structure Of Putative Histidine-Containing Ph		6e-17
1wn0_A	145	Crystal Structure Of Histidine-containing Phosphotr		7e-17

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

Iteration: 1
 Score = 98.2 bits (243), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 57/87 (65%), Positives = 72/87 (82%), Gaps = 1/87 (1%)
Query: 1  MDAVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNE 60
          MD V +  + L DY+ SLF EGILD+QF  LQQLQDESNPDFV++VV L+F+DS+R+LN+
Sbjct: 6  MDLVQK-QKSLQDYTKSLFLEGILDSQFLQLQQLQDESNPDFVSQVVTLFFQDSDRILND 64
Query: 61 ITVALDQQNVDFTKVGGHVHQLKGSSS 87
          ++++LDQQ VDF KV  HVHQLKGSSS
Sbjct: 65 LSLSLDQQVVDFKKVDPHVHQLKGSSS 91

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

Iteration: 1
 Score = 94.0 bits (232), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 51/84 (60%), Positives = 66/84 (78%)
Query: 4  VTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITV 63
          V ++ RQ VDY  S+F EG LD QF  LQQLQDE+NP+FV EVV+L+F DSER+L +++ 
Sbjct: 3  VGQMRRQWVDYIKSMFMEGFLDGQFLQLQQLQDENNPEFVFEVVSLFFDDSERILKDLSF 62
Query: 64 ALDQQNVDFTKVGGHVHQLKGSSS 87
          A+DQQ++DF KV  HVHQ KGSS+
Sbjct: 63 AVDQQSIDFKKVDAHVHQFKGSSA 86

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

Iteration: 1
 Score = 82.4 bits (202), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 45/107 (42%), Positives = 63/107 (58%), Gaps = 8/107 (7%)
Query: 3   AVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESN-PDFVAEVVNLYFKDSERLLNEI 61
           A   L  QL    +S+F +G++D QF  LQ LQDE   P FV+EVV L+  D++R++NEI
Sbjct: 2   AAAALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEI 61
Query: 62  TVALDQQNVDFTKVGGHVHQLKGSSS-------RFIFLHFIDLIESK 101
              L+Q  V+F KV  +VHQLKGSS+       +F  + F    + K
Sbjct: 62  ATLLEQPVVNFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQFCQDK 108

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

Iteration: 1
 Score = 82.0 bits (201), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 46/107 (42%), Positives = 62/107 (57%), Gaps = 8/107 (7%)
Query: 3   AVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQ-DESNPDFVAEVVNLYFKDSERLLNEI 61
           A   L  QL    +S+F  G++D QF  LQ LQ D   P FVAEVV L+  D++R+++E+
Sbjct: 2   AAAALREQLNALLSSMFASGLVDEQFQQLQMLQEDGGTPGFVAEVVTLFCDDADRIISEL 61
Query: 62  TVALDQQNVDFTKVGGHVHQLKGSSS-------RFIFLHFIDLIESK 101
              LDQ  VDF KV  +VHQLKGSS+       +F  + F  L + K
Sbjct: 62  AALLDQPIVDFDKVDAYVHQLKGSSASVGAQKVKFTCMQFRQLCQDK 108

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	117
3us6_A	153	Histidine-containing phosphotransfer protein type	2e-30
1yvi_A	149	Histidine-containing phosphotransfer protein; stru	7e-30
2r25_A	167	Phosphorelay intermediate protein YPD1; alpha5-BET	1e-16
1y6d_A	120	Phosphorelay protein LUXU; phosphotransferase, fou	2e-08
2a0b_A	125	HPT domain; sensory transduction, histidine kinase	2e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04

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

 Score =  105 bits (262), Expect = 2e-30
 Identities = 51/85 (60%), Positives = 66/85 (77%)

Query: 3  AVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEIT 62
           V ++ RQ VDY  S+F EG LD QF  LQQLQDE+NP+FV EVV+L+F DSER+L +++
Sbjct: 2  EVGQMRRQWVDYIKSMFMEGFLDGQFLQLQQLQDENNPEFVFEVVSLFFDDSERILKDLS 61

Query: 63 VALDQQNVDFTKVGGHVHQLKGSSS 87
           A+DQQ++DF KV  HVHQ KGSS+
Sbjct: 62 FAVDQQSIDFKKVDAHVHQFKGSSA 86

>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 =  103 bits (259), Expect = 7e-30
 Identities = 42/86 (48%), Positives = 57/86 (66%), Gaps = 1/86 (1%)

Query: 3  AVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDES-NPDFVAEVVNLYFKDSERLLNEI 61
          A   L  QL    +S+F +G++D QF  LQ LQDE   P FV+EVV L+  D++R++NEI
Sbjct: 2  AAAALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEI 61

Query: 62 TVALDQQNVDFTKVGGHVHQLKGSSS 87
             L+Q  V+F KV  +VHQLKGSS+
Sbjct: 62 ATLLEQPVVNFDKVDAYVHQLKGSSA 87

>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 = 70.2 bits (171), Expect = 1e-16
 Identities = 14/71 (19%), Positives = 32/71 (45%), Gaps = 2/71 (2%)

Query: 17 SLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVG 76
          ++  E I       +  + D+ + DF   ++  +   ++    ++   LD +  + T++ 
Sbjct: 3  TIPSEIINWTILNEIISM-DDDDSDFSKGLIIQFIDQAQTTFAQMQRQLDGEK-NLTELD 60

Query: 77 GHVHQLKGSSS 87
             H LKGSS+
Sbjct: 61 NLGHFLKGSSA 71

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

 Score = 47.9 bits (114), Expect = 2e-08
 Identities = 11/64 (17%), Positives = 28/64 (43%), Gaps = 4/64 (6%)

Query: 23 ILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQL 82
          +L+ Q   +++L  E   D V  +++++  + +  +  +T     +      +    H L
Sbjct: 11 VLNQQ--KIEELSAEIGSDNVPVLLDIFLGEMDSYIGTLTELQGSE--QLLYLKEISHAL 66

Query: 83 KGSS 86
          K S+
Sbjct: 67 KSSA 70

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

 Score = 40.0 bits (93), Expect = 2e-05
 Identities = 13/68 (19%), Positives = 29/68 (42%), Gaps = 4/68 (5%)

Query: 20 QEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHV 79
           E +LD     L+Q  +   P  + + + ++ K     ++ +   L  Q  D   +    
Sbjct: 8  SEALLDIP--MLEQYLELVGPKLITDGLAVFEKMMPGYVSVLESNLTAQ--DKKGIVEEG 63

Query: 80 HQLKGSSS 87
          H++KG++ 
Sbjct: 64 HKIKGAAG 71

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

 Score = 38.3 bits (88), Expect = 2e-04
 Identities = 22/123 (17%), Positives = 38/123 (30%), Gaps = 21/123 (17%)

Query: 1   MDAVTRLHRQLVD-------YSNSLFQEGILDNQF----G-HLQQL-QDESNPDFVAEVV 47
           ++    LHR +VD       + +       LD  F    G HL+ +   E    F    +
Sbjct: 439 LENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFL 498

Query: 48  NLYF-----KDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFI--FLHFIDLIES 100
           +  F     +      N     L+           ++        R +   L F+  IE 
Sbjct: 499 DFRFLEQKIRHDSTAWNASGSILNTLQ-QLKFYKPYICDNDPKYERLVNAILDFLPKIEE 557

Query: 101 KII 103
            +I
Sbjct: 558 NLI 560

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	117
3us6_A	153	Histidine-containing phosphotransfer protein type	99.97
1yvi_A	149	Histidine-containing phosphotransfer protein; stru	99.96
2r25_A	167	Phosphorelay intermediate protein YPD1; alpha5-BET	99.92
2a0b_A	125	HPT domain; sensory transduction, histidine kinase	99.66
1y6d_A	120	Phosphorelay protein LUXU; phosphotransferase, fou	99.66
2ooc_A	113	Histidine phosphotransferase; NP_419930.1, hypothe	99.46
3myf_A	119	Sensor protein; HPT, histidine kinase, PSI, MCSG,	99.36
3iqt_A	123	Signal transduction histidine-protein kinase BARA;	99.29
1sr2_A	116	Putative sensor-like histidine kinase YOJN; four-h	99.14
1tqg_A	105	Chemotaxis protein CHEA; histidine kinase, phospho	99.12
2lch_A	113	Protein OR38; structural genomics, northeast struc	98.93
2ld6_A	139	Chemotaxis protein CHEA; TMP1, transferase; NMR {T	98.92
1i5n_A	146	Chemotaxis protein CHEA; four-helix bundle, transf	98.84
3kyj_A	144	CHEA3, putative histidine protein kinase; protein-	98.53
2lp4_A	225	Chemotaxis protein CHEA; two component signaling s	98.09

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

Probab=99.97  E-value=4.3e-31  Score=194.20  Aligned_cols=99  Identities=53%  Similarity=0.811  Sum_probs=95.8

Q ss_pred             ChhHHHHHHHHHHHHhchhhcCchhHHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhh
Q 033537            1 MDAVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVH   80 (117)
Q Consensus         1 ~~~~~~l~~ql~~~~~sl~~egiLD~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH   80 (117)
                      |+ +.+||+|+.+|++|++++|+||++|++|++|+++++|+|+.++|+.|++|+++.+..|+++++++++|+++++..+|
T Consensus         1 ~~-~~~~~~~~~~~~~~l~~~g~LD~~f~qL~~L~~~~~~~~~~ell~~Fl~d~~~~l~~L~~al~~~~~D~~~l~~~aH   79 (153)
T 3us6_A            1 ME-VGQMRRQWVDYIKSMFMEGFLDGQFLQLQQLQDENNPEFVFEVVSLFFDDSERILKDLSFAVDQQSIDFKKVDAHVH   79 (153)
T ss_dssp             -C-HHHHHHHHHHHHHHHHHTTSCCHHHHHHHHTCBTTBTTHHHHHHHHHHHHHHHHHHHHHHHHTSSSCCHHHHHHHHH
T ss_pred             Cc-HHHHHHHHHHHHHhcccccchHHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccHHHHHHHHH
Confidence            77 89999999999999999999999999999999999999999999999999999999999999987789999999999


Q ss_pred             hhhhhHHHHhHHHHHHHHHH
Q 033537           81 QLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        81 ~LKGSSasiGA~~l~~lC~~  100 (117)
                      +|||||+|+||.+|+++|+.
T Consensus        80 ~LKGss~~lGa~~l~~~c~~   99 (153)
T 3us6_A           80 QFKGSSASIGAQRVKNSCVA   99 (153)
T ss_dssp             HHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHhcHHHHHHHHHH
Confidence            99999999999999999986

>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=99.96  E-value=6e-29  Score=180.86  Aligned_cols=98  Identities=43%  Similarity=0.613  Sum_probs=91.7

Q ss_pred             hHHHHHHHHHHHHhchhhcCchhHHHHHHhhccccCC-hhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhh
Q 033537            3 AVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESN-PDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQ   81 (117)
Q Consensus         3 ~~~~l~~ql~~~~~sl~~egiLD~qf~qL~~Lqd~~~-pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~   81 (117)
                      |+++||+|++.+++|++++|+||.+|++|++|+++++ |+|+.+||++|++|+++++..|+.+++++++|+++++.++|+
T Consensus         2 ~~~~~~~~~~~~~~~~~~~~~lD~~~~~L~~L~~~~~~~~~~~elv~~Fl~d~~~~l~~L~~Al~~~~~D~~~l~~~aH~   81 (149)
T 1yvi_A            2 AAAALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEIATLLEQPVVNFDKVDAYVHQ   81 (149)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTSCCHHHHHHHHHHC---CTTHHHHHHHHHHHHHHHHHHHHHHHHTSSSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcccccccccHHHHHHHHhhCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccHHHHHHHHHH
Confidence            5889999999999999999999977999999999999 999999999999999999999999999877899999999999


Q ss_pred             hhhhHHHHhHHHHHHHHHH
Q 033537           82 LKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        82 LKGSSasiGA~~l~~lC~~  100 (117)
                      |||||+||||.+|+++|+.
T Consensus        82 LKGssa~lGa~~l~~~c~~  100 (149)
T 1yvi_A           82 LKGSSASVGAQKVKFTCMQ  100 (149)
T ss_dssp             HHHHHHHHTCHHHHHHHHH
T ss_pred             HHhHHHHHhHHHHHHHHHH
Confidence            9999999999999999975

>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=99.92  E-value=3e-25  Score=166.78  Aligned_cols=82  Identities=18%  Similarity=0.321  Sum_probs=77.5

Q ss_pred             chhhcCchh-HHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHH
Q 033537           17 SLFQEGILD-NQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFI   95 (117)
Q Consensus        17 sl~~egiLD-~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~   95 (117)
                      ||.++|+|| ++|++|++|++++ |+||.+||++|++|+++++.+|++|++ +++|+++++.++|+||||||||||.+|+
T Consensus         2 ~~~~~~~LD~~~f~qL~el~dd~-p~Fv~elV~~F~edse~~l~~L~~AL~-~~~D~~~L~~~aH~LKGSSAnLGA~rV~   79 (167)
T 2r25_A            2 STIPSEIINWTILNEIISMDDDD-SDFSKGLIIQFIDQAQTTFAQMQRQLD-GEKNLTELDNLGHFLKGSSAALGLQRIA   79 (167)
T ss_dssp             CCCCSCSSCHHHHHHHHHTTTTS-SHHHHHHHHHHHHHHHHHHHHHHHHHH-TTCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             CCCCcCCcCHHHHHHHHHhcccC-chHHHHHHHHHHHhHHHHHHHHHHHHh-cccCHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            577899999 5899999999988 999999999999999999999999999 4479999999999999999999999999


Q ss_pred             HHHHH
Q 033537           96 DLIES  100 (117)
Q Consensus        96 ~lC~~  100 (117)
                      ++|+.
T Consensus        80 ~~C~~   84 (167)
T 2r25_A           80 WVCER   84 (167)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            99986

>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=99.66  E-value=1.7e-16  Score=110.86  Aligned_cols=78  Identities=18%  Similarity=0.262  Sum_probs=68.8

Q ss_pred             hhhcCchh-HHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHH
Q 033537           18 LFQEGILD-NQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFID   96 (117)
Q Consensus        18 l~~egiLD-~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~   96 (117)
                      +...+++| +.+.+|++.   .+|+|+.+++..|++++++.+..|+.++.++  |+..+.+.+|+|||||+|+|+.+|+.
T Consensus         6 ~~~~~~lD~~~l~~l~~~---~g~~~~~~ll~~F~~e~~~~l~~L~~a~~~~--d~~~~~~~aH~LKGsa~~lG~~~l~~   80 (125)
T 2a0b_A            6 SKSEALLDIPMLEQYLEL---VGPKLITDGLAVFEKMMPGYVSVLESNLTAQ--DKKGIVEEGHKIKGAAGSVGLRHLQQ   80 (125)
T ss_dssp             CHHHHHSCHHHHHHHHHH---TCHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ccccccCCHHHHHHHHHH---hCHHHHHHHHHHHHHHhHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            34556788 446676665   6899999999999999999999999999985  99999999999999999999999999


Q ss_pred             HHHH
Q 033537           97 LIES  100 (117)
Q Consensus        97 lC~~  100 (117)
                      +|..
T Consensus        81 ~~~~   84 (125)
T 2a0b_A           81 LGQQ   84 (125)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9964

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

Probab=99.66  E-value=1.3e-17  Score=117.47  Aligned_cols=73  Identities=14%  Similarity=0.205  Sum_probs=65.8

Q ss_pred             HHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           26 NQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        26 ~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      .++.+|.+|+++.+|+++.++++.|++++++.|+.|+.+.+.+  |...+.+.+|+|||||+|+||.+|+++|..
T Consensus        12 ~d~~~l~~L~~~~g~~~~~e~~~~F~~e~~e~l~~L~~a~~~~--~~~~i~r~aH~LKGsAa~~Ga~~l~~~~~~   84 (120)
T 1y6d_A           12 LNQQKIEELSAEIGSDNVPVLLDIFLGEMDSYIGTLTELQGSE--QLLYLKEISHALKSSAASFGADRLCERAIA   84 (120)
T ss_dssp             TTTTHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHTTTTSSHH--HHHHHHHHHHHHHHHHHHHTTTHHHHHHHH
T ss_pred             ccHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHHcccccc--hHHHHHHHHHHHhhhHHHhCHHHHHHHHHH
Confidence            3466888888889999999999999999999999999887664  777899999999999999999999999975

>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=99.46  E-value=3.4e-14  Score=99.15  Aligned_cols=70  Identities=19%  Similarity=0.298  Sum_probs=57.8

Q ss_pred             cCchhHHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           21 EGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        21 egiLD~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      .+.+|  ++.|..+ ..|+|+|+.+|++.|++|+++.+..|+.+    +.|+   +..+|+|||||+||||.+|.++|..
T Consensus         8 ~~~iD--~~~L~~~-~~gd~~~~~elL~~F~~~~~~~l~~L~~a----~~~~---~~~aH~LKGsA~~iGA~~l~~~c~~   77 (113)
T 2ooc_A            8 SGAVD--FAYLEGF-AAGDFAVVDEVLALFREQAALWAPMLDPT----HPGW---KDAVHTVKGAARGVGAFNLGEVCER   77 (113)
T ss_dssp             -CCSC--HHHHHHH-TTTCHHHHHHHHHHHHHHHHHHGGGCSTT----STTH---HHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             CCCcC--HHHHHhH-hCCCHHHHHHHHHHHHHHhHHHHHHHHHh----hHHH---HHHHHHHHHHHHHcCHHHHHHHHHH
Confidence            45667  2344443 55899999999999999999999999887    2354   8999999999999999999999975

>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=99.36  E-value=1.8e-12  Score=91.09  Aligned_cols=62  Identities=18%  Similarity=0.265  Sum_probs=59.3

Q ss_pred             cCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           37 ESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        37 ~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      .|+|++..+++.+|+++.++.+..|+.+++.+  |++.+...+|+|||||+++||.+|..+|+.
T Consensus        16 ~g~~~L~~~lL~~fl~~~~~~~~~l~~a~~~~--d~~~l~~~aHkLkGaa~~~Ga~~L~~~~~~   77 (119)
T 3myf_A           16 NHKSNLALEMLKMLLDSLPETVEKIQTALGQN--DQATMLSTIHKLHGASCYCGVPTTQRLCQE   77 (119)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHHTTTTCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHHH
Confidence            47899999999999999999999999999986  999999999999999999999999999974

>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=99.29  E-value=3e-12  Score=90.73  Aligned_cols=62  Identities=13%  Similarity=0.175  Sum_probs=59.0

Q ss_pred             cCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           37 ESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        37 ~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      .|+|++..+++.+|+++.++.+..|+++++.+  |++.+...+|+|||||+++||.+|..+|..
T Consensus        25 ~g~~~La~elL~~fl~~~~~~~~~l~~a~~~~--d~~~l~~~aHkLkGaa~~~Ga~~L~~~c~~   86 (123)
T 3iqt_A           25 AGKTDLARDMLQMLLDFLPEVRNKVEEQLVGE--NPEGLVDLIHKLHGSCGYSGVPRMKNLCQL   86 (123)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTTC--CCTTHHHHHHHHHHHHTTSCCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHHH
Confidence            47899999999999999999999999999986  888999999999999999999999999974

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

Probab=99.14  E-value=2.9e-11  Score=84.97  Aligned_cols=61  Identities=15%  Similarity=0.188  Sum_probs=57.2

Q ss_pred             CChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           38 SNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        38 ~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      +.+..-.+++.+|++..++-+..|+++++++  |+..+...+|.||||++++|+.++.++|+.
T Consensus        28 ~k~~~~~d~l~~fl~s~~~Dl~~L~~A~~~~--D~~~l~~~aHrLKGaa~~lG~~~L~~lc~~   88 (116)
T 1sr2_A           28 NAQLHASGYYALFVDTVPDDVKRLYTEAATS--DFAALAQTAHRLKGVFAMLNLVPGKQLCET   88 (116)
T ss_dssp             HHHHHHHTTHHHHTTTHHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             cchhchHHHHHHHHHHhHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHcCHHHHHHHHHH
Confidence            5677788999999999999999999999986  999999999999999999999999999975

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

Probab=99.12  E-value=8.8e-11  Score=79.48  Aligned_cols=58  Identities=16%  Similarity=0.241  Sum_probs=50.7

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHhc------CCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           43 VAEVVNLYFKDSERLLNEITVALDQ------QNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        43 v~elI~~Fl~Ds~~~l~~L~~al~~------~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      +.+++..|++++++.+..|+.++.+      ...++..+.+.+|+|||||+++|+..+.++|..
T Consensus         3 ~~~l~~~F~~e~~e~l~~l~~~l~~le~~~~~~~~~~~l~r~~HtLKGsa~~~G~~~l~~la~~   66 (105)
T 1tqg_A            3 HMEYLGVFVDETKEYLQNLNDTLLELEKNPEDMELINEAFRALHTLKGMAGTMGFSSMAKLCHT   66 (105)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhhhHHHHhcChHHHHHHHHH
Confidence            4689999999999999999999851      123677999999999999999999999999964

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

Probab=98.93  E-value=1.3e-09  Score=74.83  Aligned_cols=57  Identities=14%  Similarity=0.269  Sum_probs=48.6

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHhc---CCCc---HHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           44 AEVVNLYFKDSERLLNEITVALDQ---QNVD---FTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        44 ~elI~~Fl~Ds~~~l~~L~~al~~---~~~D---~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      .+++..|++++++++..|+.++..   ++.|   ...+.+.+|+|||||+++|+..+.++|..
T Consensus         5 ~el~~~F~~Ea~e~l~~l~~~l~~le~~~~d~~~~~~l~R~~HTlKGsa~~~G~~~l~~lah~   67 (113)
T 2lch_A            5 QEYIKKVTDELKELIQNVNDDIKEVEKNPEDMEYWNKIYRLVHTMKEITETMGFSSVAKVLHT   67 (113)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhHHHHHHhcChHHHHHHHHH
Confidence            489999999999999999998742   3333   45789999999999999999999999864

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

Probab=98.92  E-value=1.6e-09  Score=77.42  Aligned_cols=57  Identities=16%  Similarity=0.261  Sum_probs=50.0

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHhc------CCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           44 AEVVNLYFKDSERLLNEITVALDQ------QNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        44 ~elI~~Fl~Ds~~~l~~L~~al~~------~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      .+++..|++++++.+..|+.++.+      +..++..+.+.+|+|||||+++|+..+.++|..
T Consensus         3 ~ell~~Fl~Ea~e~L~~l~~~l~~le~~~~d~~~~~~l~R~aHTLKGsA~~~G~~~l~~lah~   65 (139)
T 2ld6_A            3 EEYLGVFVDETKEYLQNLNDTLLELEKNPEDMELINEAFRALHTLKGMAGTMGFSSMAKLCHT   65 (139)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHCSSSSSHHHHHHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhHHHHhcCHHHHHHHHHH
Confidence            478999999999999999999841      234678999999999999999999999999954

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

Probab=98.84  E-value=2.1e-09  Score=77.45  Aligned_cols=55  Identities=16%  Similarity=0.367  Sum_probs=48.2

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHhc---CC---CcHHHHHHhhhhhhhhHHHHhHHHHHHHH
Q 033537           44 AEVVNLYFKDSERLLNEITVALDQ---QN---VDFTKVGGHVHQLKGSSSRFIFLHFIDLI   98 (117)
Q Consensus        44 ~elI~~Fl~Ds~~~l~~L~~al~~---~~---~D~~~l~~~aH~LKGSSasiGA~~l~~lC   98 (117)
                      .+++..|++++++.+..|+.++.+   ++   .++..+.+.+|+|||||+++|+..+.++|
T Consensus         6 ~ell~~Fl~Ea~e~L~~le~~L~~le~~~~d~~~l~~lfR~aHTLKGsA~~~G~~~l~~la   66 (146)
T 1i5n_A            6 SDFYQTFFDEADELLADMEQHLLDLVPESPDAEQLNAIFRAAHSIKGGAGTFGFTILQETT   66 (146)
T ss_dssp             GGGHHHHHHHHHHHHHHHHHHHHHCCTTSCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHhHhHHccCHHHHHHHH
Confidence            378999999999999999999832   22   24579999999999999999999999999

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

Probab=98.53  E-value=1.3e-07  Score=68.34  Aligned_cols=58  Identities=19%  Similarity=0.178  Sum_probs=49.2

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHh---cCCCc---HHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           43 VAEVVNLYFKDSERLLNEITVALD---QQNVD---FTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        43 v~elI~~Fl~Ds~~~l~~L~~al~---~~~~D---~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      ..+++..|++++++++..|+..+.   +++.|   ...+.+.+|+|||||+.+|...+.++|-.
T Consensus         9 ~~ell~~FleEa~E~L~~le~~Ll~le~~~~d~e~l~~lfR~~HTLKGsA~~~G~~~i~~laH~   72 (144)
T 3kyj_A            9 MDEIWALYADDGAQALDAMEASLLALQAGEDAAAHVGPLFRAVHTFKGNSRVLGLSVVESRAHL   72 (144)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHhHhhHHHhcCchHHHHHHHH
Confidence            468999999999999999999864   34444   45788999999999999999999988864

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

Probab=98.09  E-value=4.3e-06  Score=63.61  Aligned_cols=57  Identities=18%  Similarity=0.336  Sum_probs=47.9

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHh---cCCCcH---HHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           44 AEVVNLYFKDSERLLNEITVALD---QQNVDF---TKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        44 ~elI~~Fl~Ds~~~l~~L~~al~---~~~~D~---~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      .++.+.|++++.++|..|+..+-   +++.|-   ..+.+.+|+|||||+.+|...+.++|-.
T Consensus         6 ~~~l~~F~~Ea~e~L~~l~~~Ll~le~~~~d~~~l~~ifR~~HTlKG~a~~~g~~~i~~laH~   68 (225)
T 2lp4_A            6 SDFYQTFFDEADELLADMEQHLLDLVPESPDAEQLNAIFRAAHSIKGGAGTFGFTILQETTHL   68 (225)
T ss_dssp             GGTHHHHHHHHHHHHHHHHHHHHHCCTTSCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhhhHHHhcCHHHHHHHHHH
Confidence            36789999999999999999864   344554   4667899999999999999999998864

---

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	117
d1yvia1	142	a.24.10.2 (A:2-143) Histidine-containing phosphotr	5e-26
d1sr2a_	116	a.24.10.4 (A:) Sensor-like histidine kinase YojN,	7e-11
d2a0ba_	118	a.24.10.1 (A:) Aerobic respiration control sensor	4e-10
d2r25a1	166	a.24.10.2 (A:2-167) Phosphorelay protein ypd1 {Bak	3e-08
d1y6da_	114	a.24.10.5 (A:) Phosphorelay protein luxU {Vibrio h	4e-07

>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 = 92.7 bits (230), Expect = 5e-26
 Identities = 42/86 (48%), Positives = 57/86 (66%), Gaps = 1/86 (1%)

Query: 3  AVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDE-SNPDFVAEVVNLYFKDSERLLNEI 61
          A   L  QL    +S+F +G++D QF  LQ LQDE   P FV+EVV L+  D++R++NEI
Sbjct: 1  AAAALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEI 60

Query: 62 TVALDQQNVDFTKVGGHVHQLKGSSS 87
             L+Q  V+F KV  +VHQLKGSS+
Sbjct: 61 ATLLEQPVVNFDKVDAYVHQLKGSSA 86

>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 = 53.1 bits (127), Expect = 7e-11
 Identities = 10/71 (14%), Positives = 21/71 (29%), Gaps = 2/71 (2%)

Query: 17 SLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVG 76
           L +  +   +        DE+     +    L+       +  +         DF  + 
Sbjct: 7  QLIEVQLAQEEVTESPLGGDENAQLHASGYYALFVDTVPDDVKRLYTEAATS--DFAALA 64

Query: 77 GHVHQLKGSSS 87
             H+LKG  +
Sbjct: 65 QTAHRLKGVFA 75

>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 = 51.1 bits (122), Expect = 4e-10
 Identities = 13/68 (19%), Positives = 29/68 (42%), Gaps = 4/68 (5%)

Query: 20 QEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHV 79
           E +LD     L+Q  +   P  + + + ++ K     ++ +   L  Q  D   +    
Sbjct: 3  SEALLD--IPMLEQYLELVGPKLITDGLAVFEKMMPGYVSVLESNLTAQ--DKKGIVEEG 58

Query: 80 HQLKGSSS 87
          H++KG++ 
Sbjct: 59 HKIKGAAG 66

>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 = 47.0 bits (111), Expect = 3e-08
 Identities = 14/72 (19%), Positives = 31/72 (43%), Gaps = 3/72 (4%)

Query: 30 HLQQLQ--DESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSS 87
           L ++   D+ + DF   ++  +   ++    ++   LD +  + T++    H LKGSS+
Sbjct: 12 ILNEIISMDDDDSDFSKGLIIQFIDQAQTTFAQMQRQLDGEK-NLTELDNLGHFLKGSSA 70

Query: 88 RFIFLHFIDLIE 99
                   + E
Sbjct: 71 ALGLQRIAWVCE 82

>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 = 43.2 bits (101), Expect = 4e-07
 Identities = 11/67 (16%), Positives = 29/67 (43%), Gaps = 4/67 (5%)

Query: 21 EGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVH 80
            +L+ Q   +++L  E   D V  +++++  + +  +  +T     +      +    H
Sbjct: 3  TDVLNQQ--KIEELSAEIGSDNVPVLLDIFLGEMDSYIGTLTELQGSE--QLLYLKEISH 58

Query: 81 QLKGSSS 87
           LK S++
Sbjct: 59 ALKSSAA 65

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	117
d1yvia1	142	Histidine-containing phosphotransfer protein HP1 {	99.93
d2r25a1	166	Phosphorelay protein ypd1 {Baker's yeast (Saccharo	99.76
d2a0ba_	118	Aerobic respiration control sensor protein, ArcB {	99.65
d1y6da_	114	Phosphorelay protein luxU {Vibrio harveyi [TaxId:	99.6
d1sr2a_	116	Sensor-like histidine kinase YojN, C-terminal doma	99.52
d2ooca1	104	Histidine phosphotransferase ShpA {Caulobacter cre	99.45
d1tqga_	105	Chemotaxis protein CheA P1 domain {Thermotoga mari	98.61
d1i5na_	128	Chemotaxis protein CheA P1 domain {Salmonella typh	98.46
d2di0a1	63	Activating signal cointegrator 1 complex subunit 2	88.94
d2cw9a1	182	Translocase of inner mitochondrial membrane TIMM44	82.18

>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=99.93  E-value=1.9e-26  Score=164.70  Aligned_cols=98  Identities=43%  Similarity=0.613  Sum_probs=91.7

Q ss_pred             hHHHHHHHHHHHHhchhhcCchhHHHHHHhhcccc-CChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhh
Q 033537            3 AVTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDE-SNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQ   81 (117)
Q Consensus         3 ~~~~l~~ql~~~~~sl~~egiLD~qf~qL~~Lqd~-~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~   81 (117)
                      |-+.||+++..+++|++++|++|++|.+++.|+++ |+|+|+.+|+++|++|+++.+..|++++++++.|+..++..+|+
T Consensus         1 a~~~l~~~~~~~~~~~~~~g~lD~~f~~l~~l~~~~~~~~fl~eli~~Fl~~~~~~l~~l~~al~~~~~D~~~~~~~aH~   80 (142)
T d1yvia1           1 AAAALRDQLTALLSSMFSQGLVDEQFQQLQMLQDEGGTPGFVSEVVTLFCDDADRIINEIATLLEQPVVNFDKVDAYVHQ   80 (142)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTSCCHHHHHHHHHHC---CTTHHHHHHHHHHHHHHHHHHHHHHHHTSSSCCHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHhHHhcccccHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            45899999999999999999999999999999875 57999999999999999999999999999877899999999999


Q ss_pred             hhhhHHHHhHHHHHHHHHH
Q 033537           82 LKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        82 LKGSSasiGA~~l~~lC~~  100 (117)
                      |||||+++||.+++++|.+
T Consensus        81 LKGss~~lGa~~l~~~~~~   99 (142)
T d1yvia1          81 LKGSSASVGAQKVKFTCMQ   99 (142)
T ss_dssp             HHHHHHHHTCHHHHHHHHH
T ss_pred             HHhHHhhccHHHHHHHHHH
Confidence            9999999999999999975

>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=99.76  E-value=8.3e-19  Score=127.93  Aligned_cols=80  Identities=18%  Similarity=0.334  Sum_probs=72.9

Q ss_pred             hhcCchh-HHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHH
Q 033537           19 FQEGILD-NQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDL   97 (117)
Q Consensus        19 ~~egiLD-~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~l   97 (117)
                      ...++|| ..|.+|.+| ++++|+|+.+||..|++++++.+++|++++++. .|+.+++..+|+|||||++|||.+++++
T Consensus         3 ~p~~~id~~~l~~l~~m-~~~d~~f~~~li~~F~~~~~~~~~~l~~al~~~-~d~~~l~~~aH~lKgss~~~G~~~~~~~   80 (166)
T d2r25a1           3 IPSEIINWTILNEIISM-DDDDSDFSKGLIIQFIDQAQTTFAQMQRQLDGE-KNLTELDNLGHFLKGSSAALGLQRIAWV   80 (166)
T ss_dssp             CCSCSSCHHHHHHHHHT-TTTSSHHHHHHHHHHHHHHHHHHHHHHHHHHTT-CCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CcccccCHHHHHHHHHH-hCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hhHHHHHHHHHHHHHHHHHhCHHHHHHH
Confidence            3467899 569999999 577999999999999999999999999999753 4999999999999999999999999999


Q ss_pred             HHH
Q 033537           98 IES  100 (117)
Q Consensus        98 C~~  100 (117)
                      |+.
T Consensus        81 ~~~   83 (166)
T d2r25a1          81 CER   83 (166)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            964

>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=99.65  E-value=1.4e-16  Score=108.36  Aligned_cols=76  Identities=18%  Similarity=0.292  Sum_probs=67.9

Q ss_pred             hcCchh-HHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHH
Q 033537           20 QEGILD-NQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLI   98 (117)
Q Consensus        20 ~egiLD-~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC   98 (117)
                      .+++|| +.+.++.+.   .+|+++.++++.|++++++.+..|+.+++++  |++.+++.+|+|||||+++||.+++.+|
T Consensus         3 ~e~~lD~~~L~~l~~~---~g~~~~~~~l~~F~~~~~~~l~~l~~a~~~~--d~~~~~~~aH~LKgsa~~~G~~~l~~~~   77 (118)
T d2a0ba_           3 SEALLDIPMLEQYLEL---VGPKLITDGLAVFEKMMPGYVSVLESNLTAQ--DKKGIVEEGHKIKGAAGSVGLRHLQQLG   77 (118)
T ss_dssp             HHHHSCHHHHHHHHHH---TCHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ccccCCHHHHHHHHHH---hCHHHHHHHHHHHHHHhHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHHHcCHHHHHHHH
Confidence            456778 446666555   7899999999999999999999999999986  9999999999999999999999999999


Q ss_pred             HH
Q 033537           99 ES  100 (117)
Q Consensus        99 ~~  100 (117)
                      ..
T Consensus        78 ~~   79 (118)
T d2a0ba_          78 QQ   79 (118)
T ss_dssp             HH
T ss_pred             HH
Confidence            75

>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=9.5e-17  Score=108.41  Aligned_cols=76  Identities=16%  Similarity=0.255  Sum_probs=67.3

Q ss_pred             hcCchhHH-HHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHH
Q 033537           20 QEGILDNQ-FGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLI   98 (117)
Q Consensus        20 ~egiLD~q-f~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC   98 (117)
                      ++++||.. +++|.+   ..+++++.+++..|+++.++.+..|++++.++  |++.++..+|+|||||+++||.+|+++|
T Consensus         2 ~~~lld~~~l~~L~~---~~G~e~~~~ll~~F~~~~~~~~~~L~~a~~~~--d~~~l~~~aH~LKGsa~~~Ga~~L~~~~   76 (114)
T d1y6da_           2 NTDVLNQQKIEELSA---EIGSDNVPVLLDIFLGEMDSYIGTLTELQGSE--QLLYLKEISHALKSSAASFGADRLCERA   76 (114)
T ss_dssp             CCTTTTTTHHHHHTH---HHHHHHHHHHHHHHHHHHHHHHHHTTTTSSHH--HHHHHHHHHHHHHHHHHHHTTTHHHHHH
T ss_pred             CHHHCCHHHHHHHHH---HhCHHHHHHHHHHHHHHHHHHHHHHHHHHhCc--CHHHHHHHHHHHHHHHHHcCHHHHHHHH
Confidence            46788844 666554   36799999999999999999999999999986  9999999999999999999999999999


Q ss_pred             HH
Q 033537           99 ES  100 (117)
Q Consensus        99 ~~  100 (117)
                      ..
T Consensus        77 ~~   78 (114)
T d1y6da_          77 IA   78 (114)
T ss_dssp             HH
T ss_pred             HH
Confidence            74

>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=99.52  E-value=7.9e-16  Score=105.56  Aligned_cols=82  Identities=15%  Similarity=0.171  Sum_probs=65.9

Q ss_pred             chhhcCchhHHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHH
Q 033537           17 SLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFID   96 (117)
Q Consensus        17 sl~~egiLD~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~   96 (117)
                      ++.+++++++++..--.-.+++.+.|+.+++.+|+++.+..++.|+.+++++  |+..++..+|+|||||+++||.++++
T Consensus         7 ~l~~~~l~~~~~~~~~~~~d~~~~~~~~~~~~lF~~~~p~~l~~L~~a~~~~--D~~~l~~~aH~LKGs~~~~Ga~~l~~   84 (116)
T d1sr2a_           7 QLIEVQLAQEEVTESPLGGDENAQLHASGYYALFVDTVPDDVKRLYTEAATS--DFAALAQTAHRLKGVFAMLNLVPGKQ   84 (116)
T ss_dssp             CSCSSSSCSCCCCCCCSCSSHHHHHHHHTTHHHHTTTHHHHHHHHHHHHHHT--CHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHhhhhHHHHHHhHhhcccchHHHHHHHHHHHHHhhHHHHHHHHHHHHCc--CHHHHHHHHHHHHHHHHHcCchHHHH
Confidence            4556666664421111111233467999999999999999999999999986  99999999999999999999999999


Q ss_pred             HHHH
Q 033537           97 LIES  100 (117)
Q Consensus        97 lC~~  100 (117)
                      +|+.
T Consensus        85 ~~~~   88 (116)
T d1sr2a_          85 LCET   88 (116)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9975

>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=99.45  E-value=2.8e-14  Score=96.76  Aligned_cols=69  Identities=20%  Similarity=0.289  Sum_probs=58.2

Q ss_pred             CchhHHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHHHHHhcCCCcHHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           22 GILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEITVALDQQNVDFTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        22 giLD~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~~al~~~~~D~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      |-||  ++.|.++- +|+++++.+++.+|.++++..+..+    +   .|++.++..+|+|||||+|+||.+|+++|+.
T Consensus         1 gaiD--~~~L~~~~-ggd~~l~~~ll~~F~e~~~~~~~~l----~---~d~~~~~~~aH~LKGsa~~iGa~~L~~~a~~   69 (104)
T d2ooca1           1 GAVD--FAYLEGFA-AGDFAVVDEVLALFREQAALWAPML----D---PTHPGWKDAVHTVKGAARGVGAFNLGEVCER   69 (104)
T ss_dssp             CCSC--HHHHHHHT-TTCHHHHHHHHHHHHHHHHHHGGGC----S---TTSTTHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             CccC--HHHHHHHh-CCCHHHHHHHHHHHHHHHHHHHHHH----c---cCHHHHHHHHHHHHhHHHHcCHHHHHHHHHH
Confidence            3455  45677774 4699999999999999999987554    2   3888999999999999999999999999985

>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=98.61  E-value=5.8e-08  Score=64.03  Aligned_cols=56  Identities=18%  Similarity=0.322  Sum_probs=47.9

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHh---cCCCc---HHHHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           45 EVVNLYFKDSERLLNEITVALD---QQNVD---FTKVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        45 elI~~Fl~Ds~~~l~~L~~al~---~~~~D---~~~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      |+++.|++++++++..++..+.   +++.|   ...+.+.+|+|||||+.+|...+.++|..
T Consensus         5 E~l~~Fl~Ea~e~l~~l~~~l~~le~~~~~~~~~~~l~R~~HTLKG~a~~~gl~~i~~lah~   66 (105)
T d1tqga_           5 EYLGVFVDETKEYLQNLNDTLLELEKNPEDMELINEAFRALHTLKGMAGTMGFSSMAKLCHT   66 (105)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCchhhcCHHHHHHHHHH
Confidence            8899999999999999999874   23334   45778999999999999999999998865

>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=98.46  E-value=1.1e-07  Score=64.42  Aligned_cols=56  Identities=18%  Similarity=0.338  Sum_probs=47.4

Q ss_pred             HHHHHHHHhHHHHHHHHHHHH---hcCCCcHH---HHHHhhhhhhhhHHHHhHHHHHHHHHH
Q 033537           45 EVVNLYFKDSERLLNEITVAL---DQQNVDFT---KVGGHVHQLKGSSSRFIFLHFIDLIES  100 (117)
Q Consensus        45 elI~~Fl~Ds~~~l~~L~~al---~~~~~D~~---~l~~~aH~LKGSSasiGA~~l~~lC~~  100 (117)
                      ++.+.|++++.+++..++..+   ++++.|.+   .+.+.+|+|||||+.+|...+..+|..
T Consensus         4 e~~~~F~~Ea~e~l~~l~~~l~~le~~~~~~~~~~~l~R~~HTLKG~a~~~gl~~i~~lah~   65 (128)
T d1i5na_           4 DFYQTFFDEADELLADMEQHLLDLVPESPDAEQLNAIFRAAHSIKGGAGTFGFTILQETTHL   65 (128)
T ss_dssp             GGHHHHHHHHHHHHHHHHHHHHHCCTTSCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhHHhhcChHHHHHHHHH
Confidence            578899999999999999986   33444543   778899999999999999999999864

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

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

Probab=88.94  E-value=0.18  Score=30.45  Aligned_cols=39  Identities=23%  Similarity=0.484  Sum_probs=35.0

Q ss_pred             hhHHHHHHhhccccCChhhHHHHHHHHHHhHHHHHHHHH
Q 033537           24 LDNQFGHLQQLQDESNPDFVAEVVNLYFKDSERLLNEIT   62 (117)
Q Consensus        24 LD~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~~l~~L~   62 (117)
                      +|+...|+++|-.+=++.|+...++-|-.|+|+.++.|=
T Consensus         6 l~s~I~qV~Dl~PdLG~GFi~~~L~~Y~~n~E~vI~~lL   44 (63)
T d2di0a1           6 LDSLISQVKDLLPDLGEGFILACLEYYHYDPEQVINNIL   44 (63)
T ss_dssp             HHHHHHHHHHHCCSSCHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCcHHHHHHHHHHhCCCHHHHHHHHH
Confidence            567788999999999999999999999999999997763

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

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

Probab=82.18  E-value=1.7  Score=29.81  Aligned_cols=66  Identities=14%  Similarity=0.311  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHHHhchhhcCchhHHHHHHhhccccCChhhHHHHHHHHHHhHHH-HHHHHHHHHhcCCCcHHHHHHh
Q 033537            4 VTRLHRQLVDYSNSLFQEGILDNQFGHLQQLQDESNPDFVAEVVNLYFKDSER-LLNEITVALDQQNVDFTKVGGH   78 (117)
Q Consensus         4 ~~~l~~ql~~~~~sl~~egiLD~qf~qL~~Lqd~~~pdFv~elI~~Fl~Ds~~-~l~~L~~al~~~~~D~~~l~~~   78 (117)
                      ..++..++..+..+++.+.=+...+.+|++.    +|+|-   .+.|+..+++ .+..+-++..++  |.+.++.+
T Consensus         7 ~~~~~~~v~~~~~~~~~~~~~~~~l~~i~~~----Dp~F~---~~~Fl~gAk~~~~~~i~~A~~~g--D~~~L~~l   73 (182)
T d2cw9a1           7 SRALTDKVTDLLGGLFSKTEMSEVLTEILRV----DPAFD---KDRFLKQCENDIIPNVLEAMISG--ELDILKDW   73 (182)
T ss_dssp             HHHHHHHHHHHTCCTTHHHHHHHHHHHHHHH----CTTCC---HHHHHHHHHHTHHHHHHHHHHHT--CHHHHHHH
T ss_pred             hhhhhhhhhhhhcCCCCCCHHHHHHHHHHhh----CCCCC---HHHHHHHHHHHHHHHHHHHHHcc--CHHHHHHH
Confidence            3566778888888888888777778899988    45554   4678888886 788888898886  88888765