Citrus Sinensis ID: 045936

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-----
Protein Sequence
MMIGAEGASSSKKARISENPVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccEEEEEcccHHHHHHHHHHHHHcccEEEEEccHHHHHHHHHccccccEEEEccccccccHHHHHHHHHHccccccEEEEcccccHHHHHHHHHccccccccccccHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccEEEEEcccHHHHHHHHHHHHHcccEEEEEccHHHHHHHHHHcccccEEEEEcccccccHHHHHHHHHHccccccEEEEEEccccccEEEEEEccccccccccccHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
mmigaegassskkarisenpvsknrpyfalvvdddpmIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIdmempvmdGIEATKAMRAMKVESKIVgvtsrnsetEREVFMQAGLdlcytkpltmAKIVPLLEELQKN
Flexible Loop (DISEMBL)
mmigaegassskkarisenpvsknrpyfalvvdddpMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESkivgvtsrnseterEVFMQAGLDLCYTKPLTMAKIVPLLEELQKN
Low Complexity Region (SEG)
MMIGAEGASSSKKARISENPVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN
Disordered region (IsUnstruct)
*************************PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT*******REVFMQAGLDLCYTKPLTMAKIVPLL******
Disordered Region (DISOPRED)
****************************ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK*
Disordered Region (DISEMBL)
*******************PVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN
Disordered Region (DISPRO)
************************RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MMIGAEGASSSKKARISENPVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN
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	145	2.2.26 [Sep-21-2011]
Q9M8Y4	142	Two-component response re	yes	no	0.827	0.845	0.516	1e-27
P14376	949	Sensor kinase protein Rcs	N/A	no	0.793	0.121	0.318	1e-12
Q56128	948	Sensor protein RcsC OS=Sa	N/A	no	0.793	0.121	0.318	2e-12
P58662	948	Sensor protein RcsC OS=Sa	yes	no	0.793	0.121	0.318	2e-12
Q55E44	1699	Hybrid signal transductio	no	no	0.772	0.065	0.322	1e-11
Q54U87	2150	Hybrid signal transductio	no	no	0.737	0.049	0.312	1e-11
Q86AT9	1736	Hybrid signal transductio	no	no	0.751	0.062	0.290	8e-11
A1TEL7	231	Response regulator MprA O	no	no	0.758	0.476	0.333	1e-10
Q9P896	682	Two-component system prot	no	no	0.758	0.161	0.294	3e-10
P39663	257	Alkaline phosphatase synt	no	no	0.737	0.416	0.286	3e-10

>sp|Q9M8Y4|ARR22_ARATH Two-component response regulator ARR22 OS=Arabidopsis thaliana GN=ARR22 PE=2 SV=1

 Score =  121 bits (303), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 63/122 (51%), Positives = 83/122 (68%), Gaps = 2/122 (1%)

Query: 23  KNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTG-AKFHIVFIDMEM 81
           K +    L+VDDDP+ RR+H MI+K++G   + A+NG+EAV L R G A F ++ +D EM
Sbjct: 18  KKKLINVLIVDDDPLNRRLHEMIIKTIGGISQTAKNGEEAVILHRDGEASFDLILMDKEM 77

Query: 82  PVMDGIEATKAMRAMKVESKIVGVTS-RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLE 140
           P  DG+  TK +R MKV S IVGVTS  + E ER+ FM+AGL+ C  KPLT AKI PL+ 
Sbjct: 78  PERDGVSTTKKLREMKVTSMIVGVTSVADQEEERKAFMEAGLNHCLEKPLTKAKIFPLIS 137

Query: 141 EL 142
            L
Sbjct: 138 HL 139

Functions as response regulator involved in His-to-Asp phosphorelay signal transduction system. Phosphorylation of the Asp residue in the receiver domain activates the ability of the protein to promote the transcription of target genes. Type-A response regulators seem to act as negative regulators of the cytokinin signaling.
Arabidopsis thaliana (taxid: 3702)

>sp|P14376|RCSC_ECOLI Sensor kinase protein RcsC OS=Escherichia coli (strain K12) GN=rcsC PE=1 SV=3

 Score = 72.0 bits (175), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 37/116 (31%), Positives = 69/116 (59%), Gaps = 1/116 (0%)

Query: 17  SENPVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVF 76
           ++  VS N     LVVDD P+ RR+ +  L S+G++ + A +G +A+++  +     IV 
Sbjct: 815 TDKAVSDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVL-SKNHIDIVL 873

Query: 77  IDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTM 132
            D+ MP MDG   T+ +R + +   ++GVT+     E++  +++G+D C +KP+T+
Sbjct: 874 SDVNMPNMDGYRLTQRIRQLGLTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTL 929

Member of the two-component regulatory system RcsC/RcsB involved in the regulation of the expression of genes involved in colanic acid capsule synthesis. Together with RcsF, RcsC probably functions as a membrane-associated protein kinase that phosphorylates RcsB in response to environmental signals. The two-component system interacts with a phosphotransfer intermediate, RcsD, which receives a phosphoryl group from RcsC and transfers it to RscB. Activity is probably up-regulated by YmgA/AriR, and possibly down-regulated by YcgZ, all 3 are connector proteins providing additional signal input into the two-component system.

Escherichia coli (strain K12) (taxid: 83333)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 3

EC: .

EC: 3

>sp|Q56128|RCSC_SALTI Sensor protein RcsC OS=Salmonella typhi GN=rcsC PE=3 SV=2

 Score = 71.2 bits (173), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 37/116 (31%), Positives = 67/116 (57%), Gaps = 1/116 (0%)

Query: 17  SENPVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVF 76
           ++     N     LVVDD P+ RR+ +  L S+G++ + A +G +A+++    A   IV 
Sbjct: 815 TDKTADSNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNA-IDIVL 873

Query: 77  IDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTM 132
            D+ MP MDG   T+ +R + +   +VGVT+     E++  +++G+D C +KP+T+
Sbjct: 874 SDVNMPNMDGYRLTQRIRQLGLTLPVVGVTANALAEEKQRCLESGMDSCLSKPVTL 929

Member of the two-component regulatory system rcsC/rcsB involved in the regulation of the expression of genes involved in colanic acid capsule synthesis. Together with rcsF, rcsC probably functions as a membrane-associated protein kinase that phosphorylates rcsB in response to environmental signals. The two-component system interacts with a phosphotransfer intermediate, yojN, which receives a phosphoryl group from rcsC and transfers it to rscB.

Salmonella typhi (taxid: 90370)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 3

EC: .

EC: 3

>sp|P58662|RCSC_SALTY Sensor protein RcsC OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=rcsC PE=3 SV=1

 Score = 71.2 bits (173), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 37/116 (31%), Positives = 67/116 (57%), Gaps = 1/116 (0%)

Query: 17  SENPVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVF 76
           ++     N     LVVDD P+ RR+ +  L S+G++ + A +G +A+++    A   IV 
Sbjct: 815 TDKTADSNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNA-IDIVL 873

Query: 77  IDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTM 132
            D+ MP MDG   T+ +R + +   +VGVT+     E++  +++G+D C +KP+T+
Sbjct: 874 SDVNMPNMDGYRLTQRIRQLGLTLPVVGVTANALAEEKQRCLESGMDSCLSKPVTL 929

Member of the two-component regulatory system rcsC/rcsB involved in the regulation of the expression of genes involved in colanic acid capsule synthesis. Together with rcsF, rcsC probably functions as a membrane-associated protein kinase that phosphorylates rcsB in response to environmental signals. The two-component system interacts with a phosphotransfer intermediate, yojN, which receives a phosphoryl group from rcsC and transfers it to rscB.

Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (taxid: 99287)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 3

EC: .

EC: 3

>sp|Q55E44|DHKE_DICDI Hybrid signal transduction histidine kinase E OS=Dictyostelium discoideum GN=dhkE PE=3 SV=1

 Score = 68.9 bits (167), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 38/118 (32%), Positives = 70/118 (59%), Gaps = 6/118 (5%)

Query: 20   PVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDM 79
            PV+ +R   AL+VDD  + R++ + +L+ + + V  AENG EA+    +   F I+F+D 
Sbjct: 1568 PVTPHRRN-ALIVDDTELNRKVLAQLLRRMDWSVSFAENGIEALKEITSERCFDIIFMDC 1626

Query: 80   EMPVMDGIEATKAMRAMKVES-----KIVGVTSRNSETEREVFMQAGLDLCYTKPLTM 132
            +MP++DG E TK +R  ++E+      IV +++ +S +  +V    G++    KP+T+
Sbjct: 1627 QMPILDGFETTKLLRLRELENNWKPLNIVALSADSSSSFGQVCFDCGMNGYLGKPITL 1684

May act in a signal transduction pathway. This protein undergoes an ATP-dependent autophosphorylation at a conserved histidine residue in the kinase core, and a phosphoryl group is then transferred to a conserved aspartate residue in the receiver domain.

Dictyostelium discoideum (taxid: 44689)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 3

EC: .

EC: 3

>sp|Q54U87|DHKA_DICDI Hybrid signal transduction histidine kinase A OS=Dictyostelium discoideum GN=dhkA PE=1 SV=1

 Score = 68.6 bits (166), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 35/112 (31%), Positives = 68/112 (60%), Gaps = 5/112 (4%)

Query: 29   ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
            AL+V+D+ + R++ + + K + + +  AENG+EA+        F IVF+D +MPV+DG +
Sbjct: 2027 ALIVEDNELNRKVLAQLFKKIDWTISFAENGREALKEITGERCFDIVFMDCQMPVLDGFQ 2086

Query: 89   ATKAMRAMKVES-----KIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             TK +R+ + E+      IV +++ +S +  +  + +G+D    KP+T+A +
Sbjct: 2087 TTKIIRSKERENNWKRMNIVALSAGSSSSFVQDCLDSGMDSFMGKPITLATL 2138

Acts as a receptor histidine kinase for the cytokinin SDF-2 in a signal transduction pathway that regulates prestalk gene expression and controls terminal differentiation of prespore cells. Binding of SDF-2 to this protein inhibits phosphorelay and induces rapid sporulation. This protein undergoes an ATP-dependent autophosphorylation at a conserved histidine residue in the kinase core, and a phosphoryl group is then transferred to a conserved aspartate residue in the receiver domain.

Dictyostelium discoideum (taxid: 44689)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 3

EC: .

EC: 3

>sp|Q86AT9|DHKI_DICDI Hybrid signal transduction histidine kinase I OS=Dictyostelium discoideum GN=dhkI-1 PE=3 SV=1

 Score = 65.9 bits (159), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 34/117 (29%), Positives = 69/117 (58%), Gaps = 8/117 (6%)

Query: 22   SKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVF----I 77
            S+  P   LV +D+ M +++   +L   GF + +A++GK+A+D +       I++    +
Sbjct: 1545 SQMIPQKVLVAEDNTMNQKLIKTLLTKRGFDITIAKDGKQALDFYHESKNKSILYDCILM 1604

Query: 78   DMEMPVMDGIEATKAMRAMKVES----KIVGVTSRNSETEREVFMQAGLDLCYTKPL 130
            D++MP++ G+EAT A+R ++        I+ VT+   + ++E F+++G+D   TKP+
Sbjct: 1605 DIQMPILSGLEATCAIREIEANEGGHIPIIAVTAHAMKGDKEKFLESGVDDYVTKPI 1661

Acts as a receptor histidine kinase for a signal transduction pathway. This protein undergoes an ATP-dependent autophosphorylation at a conserved histidine residue in the kinase core, and a phosphoryl group is then transferred to a conserved aspartate residue in the receiver domain.

Dictyostelium discoideum (taxid: 44689)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 3

EC: .

EC: 3

>sp|A1TEL7|MPRA_MYCVP Response regulator MprA OS=Mycobacterium vanbaalenii (strain DSM 7251 / PYR-1) GN=mprA PE=3 SV=1

 Score = 65.1 bits (157), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 37/111 (33%), Positives = 63/111 (56%), Gaps = 1/111 (0%)

Query: 26  PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMD 85
           P   LVVDDD  +R      L   G+ VE+A++G+EA+DL     +   V +D+ MP +D
Sbjct: 2   PVRILVVDDDRAVRESLRRSLSFNGYSVELAQDGREALDLI-ASDRPDAVVLDVMMPRLD 60

Query: 86  GIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
           G+E  + +R+   +  I+ +T+R+S +ER   + AG D    KP  + +++
Sbjct: 61  GLEVCRQLRSTGDDLPILVLTARDSVSERVAGLDAGADDYLPKPFALEELL 111

Member of the two-component regulatory system mprB/mprA which contributes to maintaining a balance among several systems involved in stress resistance and is required for establishment and maintenance of persistent infection in the host. Functions as a transcriptional regulator that recognizes a 19-bp nucleotide motif comprizing two loosely conserved 8-bp direct DNA-binding motif repeats separated by a 3-bp spacer region.

Mycobacterium vanbaalenii (strain DSM 7251 / PYR-1) (taxid: 350058)

>sp|Q9P896|TCSA_EMENI Two-component system protein A OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) GN=tcsA PE=3 SV=2

 Score = 63.9 bits (154), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 33/112 (29%), Positives = 66/112 (58%), Gaps = 2/112 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGA-KFHIVFIDMEMPVMDGI 87
           L+V+D+ +   +   +L ++GF +++ A NG EAV + R     + I+ +D+ MPV+DG+
Sbjct: 565 LLVEDNIVNHTVMLKLLHTIGFQRIDGAWNGAEAVRMVRQKPLSYDIILMDVSMPVLDGL 624

Query: 88  EATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLL 139
            AT+ +R M +   I+ +T    + + E ++  G+D C  KP+   +++ +L
Sbjct: 625 AATEQIRDMGLTMPIIAITGNAMKGDAETYIAQGMDDCICKPVHRDQLLRVL 676

May be part of a two-component regulatory system required for formation of conidia on certain growth media.

Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) (taxid: 227321)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 3

EC: .

EC: 3

>sp|P39663|SPHR_SYNE7 Alkaline phosphatase synthesis transcriptional regulatory protein SphR OS=Synechococcus elongatus (strain PCC 7942) GN=sphR PE=1 SV=1

 Score = 63.5 bits (153), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 33/115 (28%), Positives = 70/115 (60%), Gaps = 8/115 (6%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGA--------KFHIVFIDMEM 81
           LVV+D+ +IR + +++L+  GF V+VA +G+ A++ FR+ +           +V +D+ +
Sbjct: 27  LVVEDEAVIRDMVALVLQQEGFTVDVAADGRTALNYFRSDSPEAGSVTENPDLVVLDLML 86

Query: 82  PVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
           P ++G++  + +R   V   I+ ++++++ET+R V ++ G D   TKP    ++V
Sbjct: 87  PAVNGLDFCRLLRRQGVTVPILMLSAKDTETDRVVGLEIGADDYLTKPFGTRELV 141

Member of the two-component regulatory system sphR/sphS. Response regulator. Involved in inducible production of alkaline phosphatase in response to phosphate limitation as it is directly involved in the regulation of phoA transcription in response to phosphate limitation. Binds to two distinct sites upstream from the phoA promoter.

Synechococcus elongatus (strain PCC 7942) (taxid: 1140)

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	145
225430668	130	PREDICTED: two-component response regula	0.806	0.9	0.547	2e-33
225430664	131	PREDICTED: two-component response regula	0.8	0.885	0.543	5e-32
225430645	140	PREDICTED: two-component response regula	0.944	0.978	0.453	3e-31
297833110	137	hypothetical protein ARALYDRAFT_477689 [	0.779	0.824	0.535	2e-26
15229263	142	two-component response regulator ARR22 [	0.827	0.845	0.516	1e-25
224105501	129	extra response regulator [Populus tricho	0.806	0.906	0.487	2e-25
255560269	148	sensory transduction histidine kinase ba	0.924	0.905	0.427	4e-25
356503660	132	PREDICTED: two-component response regula	0.793	0.871	0.486	8e-25
356570702	150	PREDICTED: two-component response regula	0.917	0.886	0.437	1e-24
30690228	139	response regulator 24 [Arabidopsis thali	0.793	0.827	0.469	2e-24

>gi|225430668|ref|XP_002268738.1| PREDICTED: two-component response regulator ARR22 [Vitis vinifera]

 Score =  147 bits (370), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 64/117 (54%), Positives = 90/117 (76%)

Query: 29  ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
            L+VDDDP+ RRIH ++L  VG + +  ENGKEAVDL+R+GA F ++ +D+EMP+MDG +
Sbjct: 13  TLIVDDDPLTRRIHKVLLTKVGLETQAVENGKEAVDLYRSGASFDLILMDLEMPIMDGPK 72

Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN 145
           ATK +RAM V+S IVGVT+R+ E E+++FM +GLD CY KPLT   +  L+E+L K+
Sbjct: 73  ATKELRAMGVQSMIVGVTARDLEVEKQMFMASGLDDCYVKPLTTDTVTALVEKLNKD 129

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225430664|ref|XP_002268656.1| PREDICTED: two-component response regulator ARR22 [Vitis vinifera] gi|147770071|emb|CAN76616.1| hypothetical protein VITISV_013274 [Vitis vinifera]

 Score =  142 bits (358), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 63/116 (54%), Positives = 90/116 (77%)

Query: 29  ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           ALV DDD +I++IH  +L  +G +V V  NGKE +DL+R+G  F ++F+DMEMP+MDG E
Sbjct: 14  ALVADDDTIIQKIHKALLTKLGLEVNVVANGKEVLDLYRSGTSFDLIFMDMEMPIMDGPE 73

Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK 144
            TK +RAM V+S I+GVTSR+ ++E+E FM +GL+ CY KPLT++KI  LL++L+K
Sbjct: 74  VTKELRAMGVQSIIMGVTSRDLDSEKEAFMASGLNDCYMKPLTISKISSLLQDLKK 129

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225430645|ref|XP_002269033.1| PREDICTED: two-component response regulator ARR22 [Vitis vinifera] gi|296085160|emb|CBI28655.3| unnamed protein product [Vitis vinifera]

 Score =  139 bits (351), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 64/141 (45%), Positives = 96/141 (68%), Gaps = 4/141 (2%)

Query: 5   AEGASSSKKARISENPVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVD 64
            +  SSSK  +I    +   +    L+V+DDP+I++IH +++   G +V+V  NGKE VD
Sbjct: 4   GKATSSSKAMKI----IDTEKKISVLIVEDDPLIQKIHKVMMAKFGTEVQVVANGKEVVD 59

Query: 65  LFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDL 124
           L+R+GA F ++ +D EMP+MDG EATK +R+M V S IVGVTSR+ ++E + FM++GL+ 
Sbjct: 60  LYRSGASFDLILMDFEMPIMDGFEATKELRSMGVTSMIVGVTSRSQDSEIQAFMKSGLNA 119

Query: 125 CYTKPLTMAKIVPLLEELQKN 145
           CY KPL   K+  +L EL+ N
Sbjct: 120 CYVKPLNAEKVTAVLNELKNN 140

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297833110|ref|XP_002884437.1| hypothetical protein ARALYDRAFT_477689 [Arabidopsis lyrata subsp. lyrata] gi|297330277|gb|EFH60696.1| hypothetical protein ARALYDRAFT_477689 [Arabidopsis lyrata subsp. lyrata]

 Score =  123 bits (309), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 61/114 (53%), Positives = 81/114 (71%), Gaps = 1/114 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDDDP+  R+H MI+K++G   + A+NG+EAV L R GA F ++ +D EMP  DG+  
Sbjct: 21  LIVDDDPLNCRLHEMIIKTIGGISQTAKNGEEAVILHRGGASFDLILMDKEMPERDGVST 80

Query: 90  TKAMRAMKVESKIVGVTS-RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
           TK +R MKV S IVGVTS  + E ER+ FM+AGL+ C  KPLT AKI+PL+  L
Sbjct: 81  TKKLREMKVTSMIVGVTSLADQEEERKAFMEAGLNHCLEKPLTKAKILPLINHL 134

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15229263|ref|NP_187078.1| two-component response regulator ARR22 [Arabidopsis thaliana] gi|30679083|ref|NP_850511.1| two-component response regulator ARR22 [Arabidopsis thaliana] gi|145331750|ref|NP_001078102.1| two-component response regulator ARR22 [Arabidopsis thaliana] gi|51316101|sp|Q9M8Y4.1|ARR22_ARATH RecName: Full=Two-component response regulator ARR22 gi|6721158|gb|AAF26786.1|AC016829_10 putative response regulator protein (receiver component) [Arabidopsis thaliana] gi|21553766|gb|AAM62859.1| putative response regulator protein (receiver component) [Arabidopsis thaliana] gi|332640539|gb|AEE74060.1| two-component response regulator ARR22 [Arabidopsis thaliana] gi|332640540|gb|AEE74061.1| two-component response regulator ARR22 [Arabidopsis thaliana] gi|332640541|gb|AEE74062.1| two-component response regulator ARR22 [Arabidopsis thaliana]

 Score =  121 bits (303), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 63/122 (51%), Positives = 83/122 (68%), Gaps = 2/122 (1%)

Query: 23  KNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTG-AKFHIVFIDMEM 81
           K +    L+VDDDP+ RR+H MI+K++G   + A+NG+EAV L R G A F ++ +D EM
Sbjct: 18  KKKLINVLIVDDDPLNRRLHEMIIKTIGGISQTAKNGEEAVILHRDGEASFDLILMDKEM 77

Query: 82  PVMDGIEATKAMRAMKVESKIVGVTS-RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLE 140
           P  DG+  TK +R MKV S IVGVTS  + E ER+ FM+AGL+ C  KPLT AKI PL+ 
Sbjct: 78  PERDGVSTTKKLREMKVTSMIVGVTSVADQEEERKAFMEAGLNHCLEKPLTKAKIFPLIS 137

Query: 141 EL 142
            L
Sbjct: 138 HL 139

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224105501|ref|XP_002313833.1| extra response regulator [Populus trichocarpa] gi|222850241|gb|EEE87788.1| extra response regulator [Populus trichocarpa]

 Score =  120 bits (301), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 57/117 (48%), Positives = 85/117 (72%)

Query: 29  ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           ALVVDDD +I+ IHS +L  +G + +VA NG+EAVDL  +G KF ++ +D +MP+M+GIE
Sbjct: 12  ALVVDDDRIIKTIHSKLLSKLGIENQVAANGEEAVDLHCSGKKFDLIVMDRDMPIMNGIE 71

Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN 145
           AT+ +RA+ + S IVGV++R+ E E + FM AGLD    KPLT +K++ +L ++  N
Sbjct: 72  ATRELRALGIRSIIVGVSTRSLEQEIQEFMDAGLDDYQEKPLTSSKVISILHKINHN 128

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255560269|ref|XP_002521152.1| sensory transduction histidine kinase bacterial, putative [Ricinus communis] gi|223539721|gb|EEF41303.1| sensory transduction histidine kinase bacterial, putative [Ricinus communis]

 Score =  119 bits (298), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 59/138 (42%), Positives = 89/138 (64%), Gaps = 4/138 (2%)

Query: 12  KKARISENPVSKNRP----YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFR 67
           K+ ++     SKN+       ALVVDDD   R IH  +L+++G + +   NGKEA+D+  
Sbjct: 7   KRNKMVTTTASKNQKSRTKMTALVVDDDTTNRIIHRRLLQNLGIENQEVRNGKEAIDIHC 66

Query: 68  TGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYT 127
           +G  F ++ +DM+MP+M+GIEATK +RAM + S I GV++R  E E + FM+AGLD    
Sbjct: 67  SGTNFDLILMDMDMPIMNGIEATKQLRAMGIRSTIAGVSTRTMEEEVQEFMEAGLDDYQE 126

Query: 128 KPLTMAKIVPLLEELQKN 145
           KPLT AK++ +L ++  N
Sbjct: 127 KPLTSAKLISILHKINHN 144

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356503660|ref|XP_003520624.1| PREDICTED: two-component response regulator ARR22-like [Glycine max]

 Score =  118 bits (295), Expect = 8e-25,   Method: Compositional matrix adjust.
 Identities = 56/115 (48%), Positives = 84/115 (73%)

Query: 29  ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           ALVVDD+ + R+IH  +L+SVG K +  ENG+EAVD+   G +F ++ +DM+MP+M+GIE
Sbjct: 12  ALVVDDNKINRKIHQKLLESVGMKNQGVENGQEAVDIHCHGQRFDLILMDMDMPIMNGIE 71

Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ 143
           ATK +R+M + S IVGV+SR +E E   FM+AGL+  + KPL  +K+  LL+++ 
Sbjct: 72  ATKELRSMGIGSMIVGVSSRCTEAEIRKFMEAGLNDYHEKPLNNSKLSSLLDKIN 126

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356570702|ref|XP_003553524.1| PREDICTED: two-component response regulator ARR22-like [Glycine max]

 Score =  117 bits (294), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 59/135 (43%), Positives = 89/135 (65%), Gaps = 2/135 (1%)

Query: 12  KKARISENP--VSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTG 69
           +K +I E    V + R   AL+V+DD +IR +H  IL SVG K++VAENGKEA+++  +G
Sbjct: 11  QKEKIGEEQLKVMEPRQLTALIVEDDMVIRMVHQKILNSVGLKIQVAENGKEAIEIHGSG 70

Query: 70  AKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKP 129
             F ++ +D +MPVM+GIEATK +R+M + S I GV++R+       FM+AGLD    KP
Sbjct: 71  QSFDLILMDRDMPVMNGIEATKTLRSMGINSMITGVSTRSVAAHIREFMEAGLDDYVEKP 130

Query: 130 LTMAKIVPLLEELQK 144
           LT+ K+  +  ++ K
Sbjct: 131 LTLDKLTSITHKINK 145

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30690228|ref|NP_850864.1| response regulator 24 [Arabidopsis thaliana] gi|332006174|gb|AED93557.1| response regulator 24 [Arabidopsis thaliana]

 Score =  117 bits (293), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 54/115 (46%), Positives = 84/115 (73%)

Query: 29  ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           ALVVDD  + + IH  +L  +G K +V  NGKEAVD++ +G  + ++ +DM+MP+M+GI+
Sbjct: 20  ALVVDDSFVNQTIHQKLLNRLGIKNDVVTNGKEAVDVYCSGGNYDLILMDMDMPIMNGIQ 79

Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ 143
           ATK +R M +ESKI GVT+R +E E++ FM+AGL+    KPLT++K++ +L +L 
Sbjct: 80  ATKRLREMGIESKIAGVTTRANEGEKKEFMEAGLNDFQEKPLTISKLLSILHKLN 134

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	145
TAIR|locus:2102960	142	RR22 "response regulator 22" [	0.779	0.795	0.539	9.4e-27
TAIR|locus:1005716875	139	RR24 "response regulator 24" [	0.786	0.820	0.473	7.6e-25
DICTYBASE|DDB_G0268012	382	DDB_G0268012 "response regulat	0.737	0.280	0.370	1.2e-13
UNIPROTKB|Q9KS16	572	VC_1445 "Sensor histidine kina	0.889	0.225	0.286	2.3e-13
TIGR_CMR|VC_1445	572	VC_1445 "sensor histidine kina	0.889	0.225	0.286	2.3e-13
TIGR_CMR|GSU_1671	322	GSU_1671 "response regulator/G	0.813	0.366	0.347	5.3e-13
DICTYBASE|DDB_G0291424	902	DDB_G0291424 "Transcription fa	0.737	0.118	0.345	7.5e-13
TIGR_CMR|CBU_0760	124	CBU_0760 "response regulator p	0.813	0.951	0.314	1.9e-12
TIGR_CMR|GSU_1285	772	GSU_1285 "sensory box sensor h	0.813	0.152	0.346	3.4e-12
UNIPROTKB|P14376	949	rcsC "RcsC sensory histidine k	0.793	0.121	0.318	5.7e-12

TAIR|locus:2102960 RR22 "response regulator 22" [Arabidopsis thaliana (taxid:3702)]

 Score = 301 (111.0 bits), Expect = 9.4e-27, P = 9.4e-27
 Identities = 62/115 (53%), Positives = 81/115 (70%)

Query:    30 LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTG-AKFHIVFIDMEMPVMDGIE 88
             L+VDDDP+ RR+H MI+K++G   + A+NG+EAV L R G A F ++ +D EMP  DG+ 
Sbjct:    25 LIVDDDPLNRRLHEMIIKTIGGISQTAKNGEEAVILHRDGEASFDLILMDKEMPERDGVS 84

Query:    89 ATKAMRAMKVESKIVGVTS-RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
              TK +R MKV S IVGVTS  + E ER+ FM+AGL+ C  KPLT AKI PL+  L
Sbjct:    85 TTKKLREMKVTSMIVGVTSVADQEEERKAFMEAGLNHCLEKPLTKAKIFPLISHL 139

GO:0000156 "phosphorelay response regulator activity" evidence=IEA;ISS

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

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;TAS

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

GO:0005737 "cytoplasm" evidence=IDA

GO:0008969 "phosphohistidine phosphatase activity" evidence=IDA

GO:0007623 "circadian rhythm" evidence=RCA

GO:0010048 "vernalization response" evidence=RCA

TAIR|locus:1005716875 RR24 "response regulator 24" [Arabidopsis thaliana (taxid:3702)]

 Score = 283 (104.7 bits), Expect = 7.6e-25, P = 7.6e-25
 Identities = 54/114 (47%), Positives = 84/114 (73%)

Query:    29 ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
             ALVVDD  + + IH  +L  +G K +V  NGKEAVD++ +G  + ++ +DM+MP+M+GI+
Sbjct:    20 ALVVDDSFVNQTIHQKLLNRLGIKNDVVTNGKEAVDVYCSGGNYDLILMDMDMPIMNGIQ 79

Query:    89 ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
             ATK +R M +ESKI GVT+R +E E++ FM+AGL+    KPLT++K++ +L +L
Sbjct:    80 ATKRLREMGIESKIAGVTTRANEGEKKEFMEAGLNDFQEKPLTISKLLSILHKL 133

GO:0000156 "phosphorelay response regulator activity" evidence=IEA;ISS

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

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

GO:0009507 "chloroplast" evidence=ISM

DICTYBASE|DDB_G0268012 DDB_G0268012 "response regulator receiver domain-containing protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 183 (69.5 bits), Expect = 1.2e-13, P = 1.2e-13
 Identities = 43/116 (37%), Positives = 71/116 (61%)

Query:    30 LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
             LVV+DDP+ R I S  LK +G K+ +AENG +AV+      K+ I+ +D+ MP+M G EA
Sbjct:    11 LVVEDDPLNRIIASKFLKKLGHKITLAENGLQAVNAVENN-KYDIILMDVNMPIMGGKEA 69

Query:    90 TKAMRAM----KVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEE 141
             TK +R M    ++++ I+G+T+     ER+  ++AG+D    KP    ++   +E+
Sbjct:    70 TKIIREMQQSLRIKTPIIGLTT----VERQECIEAGMDDHLFKPCKFQQLDSKIEQ 121

GO:0035556 "intracellular signal transduction" evidence=IEA

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

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

GO:0000156 "phosphorelay response regulator activity" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

UNIPROTKB|Q9KS16 VC_1445 "Sensor histidine kinase/response regulator" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 184 (69.8 bits), Expect = 2.3e-13, P = 2.3e-13
 Identities = 37/129 (28%), Positives = 73/129 (56%)

Query:    12 KKARISENPVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAK 71
             K +  S   +   + +  LVV+D    + +  ++L  +G+ V +AENG +AV+L      
Sbjct:   439 KPSTSSSQQIVNVKNHHILVVEDTKTNQMVIQLLLNKLGYDVTIAENGLQAVELLEKNHV 498

Query:    72 FHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLT 131
             F +V +D+ MP+MDGI ATK +R   +E  I+ +T+  + ++++  + AG++    KP+ 
Sbjct:   499 FDLVLMDISMPIMDGIAATKILRDKHIEIPIIALTAHTAGSDKQNCIDAGMNDIVLKPIR 558

Query:   132 MAKIVPLLE 140
                I+ +++
Sbjct:   559 SKDIMEVVK 567

GO:0000155 "phosphorelay sensor kinase activity" evidence=ISS

GO:0000156 "phosphorelay response regulator activity" evidence=ISS

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

GO:0023014 "signal transduction by phosphorylation" evidence=ISS

GO:0035556 "intracellular signal transduction" evidence=ISS

TIGR_CMR|VC_1445 VC_1445 "sensor histidine kinase/response regulator" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 184 (69.8 bits), Expect = 2.3e-13, P = 2.3e-13
 Identities = 37/129 (28%), Positives = 73/129 (56%)

Query:    12 KKARISENPVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAK 71
             K +  S   +   + +  LVV+D    + +  ++L  +G+ V +AENG +AV+L      
Sbjct:   439 KPSTSSSQQIVNVKNHHILVVEDTKTNQMVIQLLLNKLGYDVTIAENGLQAVELLEKNHV 498

Query:    72 FHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLT 131
             F +V +D+ MP+MDGI ATK +R   +E  I+ +T+  + ++++  + AG++    KP+ 
Sbjct:   499 FDLVLMDISMPIMDGIAATKILRDKHIEIPIIALTAHTAGSDKQNCIDAGMNDIVLKPIR 558

Query:   132 MAKIVPLLE 140
                I+ +++
Sbjct:   559 SKDIMEVVK 567

GO:0000155 "phosphorelay sensor kinase activity" evidence=ISS

GO:0000156 "phosphorelay response regulator activity" evidence=ISS

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

TIGR_CMR|GSU_1671 GSU_1671 "response regulator/GGDEF domain protein" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 175 (66.7 bits), Expect = 5.3e-13, P = 5.3e-13
 Identities = 42/121 (34%), Positives = 72/121 (59%)

Query:    26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMD 85
             P+  L+VDD+ ++R +    LKS G+ V +AENGKEA+++F  G  + IV  D  MP MD
Sbjct:    15 PFPILIVDDNRLLRTMLETSLKSAGYDVVMAENGKEALEIFNKGY-YPIVMTDWVMPEMD 73

Query:    86 GIEATKAMRA--MKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ 143
             G+E  +A+RA      + I+ +TS++S+ +    ++AG D    KP    +++  L+  +
Sbjct:    74 GLELCRAIRADCSGRYTYIILLTSQDSKNDVIAGLEAGADEYLVKPAHQVELLTRLKTAK 133

Query:   144 K 144
             +
Sbjct:   134 R 134

GO:0000156 "phosphorelay response regulator activity" evidence=ISS

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

DICTYBASE|DDB_G0291424 DDB_G0291424 "Transcription factor SKN7" [Dictyostelium discoideum (taxid:44689)]

 Score = 182 (69.1 bits), Expect = 7.5e-13, P = 7.5e-13
 Identities = 39/113 (34%), Positives = 70/113 (61%)

Query:    23 KNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMP 82
             K+RP   L+V+D+P+  ++ S +++   F VEVA NG+ A+D+F+   ++ +V +DM MP
Sbjct:   706 KHRP-LVLLVEDNPLQIKVISKVMERYNFDVEVASNGQMALDMFKANPRYELVLMDMIMP 764

Query:    83 VMDGIEATKAMRAMKVE-----SKIVGVTSRNSETEREVFMQAGLDLCYTKPL 130
             +MDG+ AT  +R  + E     + ++  T+ + E+ + + + AG D   TKPL
Sbjct:   765 IMDGLTATMLIREYERERGLKRTPVIIQTADSRESHKLICLAAGCDDFMTKPL 817

GO:0035556 "intracellular signal transduction" evidence=IEA

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

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

GO:0000156 "phosphorelay response regulator activity" evidence=IEA

TIGR_CMR|CBU_0760 CBU_0760 "response regulator protein, putative" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 166 (63.5 bits), Expect = 1.9e-12, P = 1.9e-12
 Identities = 39/124 (31%), Positives = 73/124 (58%)

Query:    16 ISENPVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIV 75
             I++ P+ K  P   L+V+D+P I++IH  +LK +  +V +A +G+ A+ L+    KF ++
Sbjct:     2 ITKKPIKK--PLI-LLVEDNPFIQKIHVQLLKKLNCEVTLAIDGQSALALYSD--KFDLI 56

Query:    76 FIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             F+D+ +  M+G+E  KA+R     + I+ +TS +S+ +   F   G++    KP T A +
Sbjct:    57 FLDINLSDMNGMEVCKAIRQRTSSTPIIALTSESSKNKPRYF-STGINDFIKKPTTQAAL 115

Query:   136 VPLL 139
               +L
Sbjct:   116 KRVL 119

GO:0000156 "phosphorelay response regulator activity" evidence=ISS

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

TIGR_CMR|GSU_1285 GSU_1285 "sensory box sensor histidine kinase/response regulator" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 175 (66.7 bits), Expect = 3.4e-12, P = 3.4e-12
 Identities = 43/124 (34%), Positives = 74/124 (59%)

Query:    16 ISENPVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIV 75
             ++E  V+  RP   L+VDD  + R++ S++L+S G +V  A +G EA+      A F +V
Sbjct:   536 VAEKSVAV-RPLSVLLVDDSAVSRKVVSLLLESDGHRVTFAGDGVEALAAIGREA-FDLV 593

Query:    76 FIDMEMPVMDGIEATKAMRAMKVES----KIVGVTSRNSETEREVFMQAGLDLCYTKPLT 131
              +D++MPVMDG EA +A+RA +        I+ +T+R    +RE+ ++AG D    KP+ 
Sbjct:   594 LMDVQMPVMDGFEAMRAIRAGEAAGGARLPIIALTARALAGDRELCLEAGADDYLAKPVN 653

Query:   132 MAKI 135
              +++
Sbjct:   654 FSEL 657

GO:0000155 "phosphorelay sensor kinase activity" evidence=ISS

GO:0000156 "phosphorelay response regulator activity" evidence=ISS

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

UNIPROTKB|P14376 rcsC "RcsC sensory histidine kinase" [Escherichia coli K-12 (taxid:83333)]

 Score = 174 (66.3 bits), Expect = 5.7e-12, P = 5.7e-12
 Identities = 37/116 (31%), Positives = 68/116 (58%)

Query:    17 SENPVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVF 76
             ++  VS N     LVVDD P+ RR+ +  L S+G++ + A +G +A+++        IV 
Sbjct:   815 TDKAVSDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKN-HIDIVL 873

Query:    77 IDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTM 132
              D+ MP MDG   T+ +R + +   ++GVT+     E++  +++G+D C +KP+T+
Sbjct:   874 SDVNMPNMDGYRLTQRIRQLGLTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTL 929

GO:0018106 "peptidyl-histidine phosphorylation" evidence=IEA

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

GO:0000156 "phosphorelay response regulator activity" evidence=IEA

GO:0023014 "signal transduction by phosphorylation" evidence=IEA;IDA

GO:0035556 "intracellular signal transduction" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0046777 "protein autophosphorylation" evidence=IMP

GO:0044010 "single-species biofilm formation" evidence=IMP

GO:0071470 "cellular response to osmotic stress" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA;RCA

GO:0016020 "membrane" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

GO:0000155 "phosphorelay sensor kinase activity" evidence=IEA;IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9M8Y4	ARR22_ARATH	No assigned EC number	0.5163	0.8275	0.8450	yes	no

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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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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	145
cd00156	113	cd00156, REC, Signal receiver domain; originally t	2e-26
pfam00072	111	pfam00072, Response_reg, Response regulator receiv	1e-25
COG0784	130	COG0784, CheY, FOG: CheY-like receiver [Signal tra	2e-22
COG0745	229	COG0745, OmpR, Response regulators consisting of a	7e-18
PRK10841	924	PRK10841, PRK10841, hybrid sensory kinase in two-c	1e-17
PRK15347	921	PRK15347, PRK15347, two component system sensor ki	9e-15
PRK11107	919	PRK11107, PRK11107, hybrid sensory histidine kinas	2e-14
COG2197	211	COG2197, CitB, Response regulator containing a Che	4e-13
COG2204	464	COG2204, AtoC, Response regulator containing CheY-	9e-13
PRK11361	457	PRK11361, PRK11361, acetoacetate metabolism regula	2e-12
smart00448	55	smart00448, REC, cheY-homologous receiver domain	3e-12
PRK09959	1197	PRK09959, PRK09959, hybrid sensory histidine kinas	4e-12
COG3706	435	COG3706, PleD, Response regulator containing a Che	6e-11
PRK13557	540	PRK13557, PRK13557, histidine kinase; Provisional	1e-10
COG4753	475	COG4753, COG4753, Response regulator containing Ch	1e-10
PRK09468	239	PRK09468, ompR, osmolarity response regulator; Pro	2e-10
PRK10610	129	PRK10610, PRK10610, chemotaxis regulatory protein	3e-10
PRK10816	223	PRK10816, PRK10816, DNA-binding transcriptional re	1e-09
PRK00742	354	PRK00742, PRK00742, chemotaxis-specific methyleste	3e-09
PRK12555	337	PRK12555, PRK12555, chemotaxis-specific methyleste	1e-08
COG2201	350	COG2201, CheB, Chemotaxis response regulator conta	3e-08
TIGR02956	968	TIGR02956, TMAO_torS, TMAO reductase sytem sensor	5e-08
CHL00148	240	CHL00148, orf27, Ycf27; Reviewed	6e-08
PRK10955	232	PRK10955, PRK10955, DNA-binding transcriptional re	6e-08
PRK11091	779	PRK11091, PRK11091, aerobic respiration control se	7e-08
PRK15115	444	PRK15115, PRK15115, response regulator GlrR; Provi	9e-08
TIGR02154	226	TIGR02154, PhoB, phosphate regulon transcriptional	1e-07
COG3437	360	COG3437, COG3437, Response regulator containing a	1e-07
PRK10365	441	PRK10365, PRK10365, transcriptional regulatory pro	2e-07
COG4565	224	COG4565, CitB, Response regulator of citrate/malat	2e-07
PRK11466	914	PRK11466, PRK11466, hybrid sensory histidine kinas	3e-07
PRK10766	221	PRK10766, PRK10766, DNA-binding transcriptional re	4e-07
PRK11083	228	PRK11083, PRK11083, DNA-binding response regulator	4e-07
PRK10403	215	PRK10403, PRK10403, transcriptional regulator NarP	1e-06
COG3279	244	COG3279, LytT, Response regulator of the LytR/AlgR	2e-06
PRK10651	216	PRK10651, PRK10651, transcriptional regulator NarL	3e-06
PRK09581	457	PRK09581, pleD, response regulator PleD; Reviewed	3e-06
TIGR01387	218	TIGR01387, cztR_silR_copR, heavy metal response re	4e-06
COG3947	361	COG3947, COG3947, Response regulator containing Ch	4e-06
PRK09390	202	PRK09390, fixJ, response regulator FixJ; Provision	1e-05
PRK10643	222	PRK10643, PRK10643, DNA-binding transcriptional re	1e-05
PRK09483	217	PRK09483, PRK09483, response regulator; Provisiona	2e-05
PRK15479	221	PRK15479, PRK15479, transcriptional regulatory pro	2e-05
COG4567	182	COG4567, COG4567, Response regulator consisting of	2e-05
PRK10336	219	PRK10336, PRK10336, DNA-binding transcriptional re	8e-05
PRK10161	229	PRK10161, PRK10161, transcriptional regulator PhoB	1e-04
COG4566	202	COG4566, TtrR, Response regulator [Signal transduc	1e-04
PRK11517	223	PRK11517, PRK11517, transcriptional regulatory pro	4e-04
PRK10529	225	PRK10529, PRK10529, DNA-binding transcriptional ac	0.001
TIGR01818	463	TIGR01818, ntrC, nitrogen regulation protein NR(I)	0.002
PRK09958	204	PRK09958, PRK09958, DNA-binding transcriptional ac	0.003
TIGR03787	227	TIGR03787, marine_sort_RR, proteobacterial dedicat	0.003

>gnl|CDD|238088 cd00156, REC, Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; contains a phosphoacceptor site that is phosphorylated by histidine kinase homologs; usually found N-terminal to a DNA binding effector domain; forms homodimers

 Score = 95.7 bits (239), Expect = 2e-26
 Identities = 35/113 (30%), Positives = 65/113 (57%), Gaps = 1/113 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDDDP+IR +   +L+  G++V  AE+G+EA+ L     K  ++ +D+ MP MDG+E 
Sbjct: 1   LIVDDDPLIRELLRRLLEKEGYEVVEAEDGEEALALLAEE-KPDLILLDIMMPGMDGLEL 59

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
            + +R    +  I+ +T+   + +    ++AG D   TKP +  +++  +  L
Sbjct: 60  LRRIRKRGPDIPIIFLTAHGDDEDAVEALKAGADDYLTKPFSPEELLARIRAL 112

Length = 113

>gnl|CDD|200976 pfam00072, Response_reg, Response regulator receiver domain

 Score = 93.0 bits (232), Expect = 1e-25
 Identities = 31/107 (28%), Positives = 63/107 (58%), Gaps = 1/107 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDDDP+IR +   +L+  G+ V  A++G+EA++L +   +  ++ +D+ MP MDG+E 
Sbjct: 2   LIVDDDPLIRELLRQLLEKEGYVVAEADDGEEALELLKEK-RPDLILLDIRMPGMDGLEL 60

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
            + +R     + ++ +T+   E +    ++AG +   +KP    ++V
Sbjct: 61  LRRIRRRPPTTPVIVLTAHGDEEDAVEALKAGANDFLSKPFDPEELV 107

This domain receives the signal from the sensor partner in bacterial two-component systems. It is usually found N-terminal to a DNA binding effector domain. Length = 111

>gnl|CDD|223855 COG0784, CheY, FOG: CheY-like receiver [Signal transduction mechanisms]

 Score = 85.3 bits (211), Expect = 2e-22
 Identities = 40/116 (34%), Positives = 70/116 (60%), Gaps = 3/116 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGK-EAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD+P+ RR+   +L+ +G++V  A +G+ EA++L R   +  ++ +D+ MP MDGIE
Sbjct: 9   LVVDDEPVNRRLLKRLLEDLGYEVVEAADGEEEALELLRELPQPDLILLDINMPGMDGIE 68

Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK 144
             + +RA      ++ +T+   E +RE  + AG D   TKP+ + +   LL  L++
Sbjct: 69  LLRRLRARGPNIPVILLTAYADEADRERALAAGADDYLTKPIFLEEE--LLAALRR 122

Length = 130

>gnl|CDD|223816 COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]

 Score = 76.2 bits (188), Expect = 7e-18
 Identities = 36/114 (31%), Positives = 69/114 (60%), Gaps = 3/114 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+V+DDP +  +    L+  G++V+VA +G+EA++  R   +  +V +D+ +P +DG+E 
Sbjct: 4   LLVEDDPELAELLKEYLEEEGYEVDVAADGEEALEAARE--QPDLVLLDLMLPDLDGLEL 61

Query: 90  TKAMRAMKVES-KIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
            + +RA K     I+ +T+R+ E +R + ++AG D   TKP +  +++  L  L
Sbjct: 62  CRRLRAKKGSGPPIIVLTARDDEEDRVLGLEAGADDYLTKPFSPRELLARLRAL 115

Length = 229

>gnl|CDD|182772 PRK10841, PRK10841, hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional

 Score = 77.7 bits (192), Expect = 1e-17
 Identities = 35/104 (33%), Positives = 63/104 (60%), Gaps = 1/104 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDD P+ RR+ +  L S+G++ + A +G +A+++        IV  D+ MP MDG   
Sbjct: 805 LVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNH-IDIVLTDVNMPNMDGYRL 863

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMA 133
           T+ +R + +   ++GVT+     E++  ++AG+D C +KP+T+ 
Sbjct: 864 TQRLRQLGLTLPVIGVTANALAEEKQRCLEAGMDSCLSKPVTLD 907

Length = 924

>gnl|CDD|237951 PRK15347, PRK15347, two component system sensor kinase SsrA; Provisional

 Score = 69.7 bits (171), Expect = 9e-15
 Identities = 41/121 (33%), Positives = 67/121 (55%), Gaps = 8/121 (6%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDD    R I  M+L  +G +V  A +G EA++L R   +F +V +D+ MP +DG+E 
Sbjct: 694 LLVDDVETNRDIIGMMLVELGQQVTTAASGTEALELGR-QHRFDLVLMDIRMPGLDGLET 752

Query: 90  TKAMR----AMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLE---EL 142
           T+  R     +  +  IV +T+  +  E     +AG++   TKP+T+A++   LE   E 
Sbjct: 753 TQLWRDDPNNLDPDCMIVALTANAAPEEIHRCKKAGMNHYLTKPVTLAQLARALELAAEY 812

Query: 143 Q 143
           Q
Sbjct: 813 Q 813

Length = 921

>gnl|CDD|236848 PRK11107, PRK11107, hybrid sensory histidine kinase BarA; Provisional

 Score = 68.7 bits (169), Expect = 2e-14
 Identities = 30/102 (29%), Positives = 55/102 (53%), Gaps = 3/102 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           + VDD+P   ++   +L+     V + ++G +AV+  +    F ++ +D++MP MDGI A
Sbjct: 671 MAVDDNPANLKLIGALLEEQVEHVVLCDSGHQAVEQAKQ-RPFDLILMDIQMPGMDGIRA 729

Query: 90  TKAMRAMKV--ESKIVGVTSRNSETEREVFMQAGLDLCYTKP 129
            + +R +     + I+ VT+     ERE  + AG+D    KP
Sbjct: 730 CELIRQLPHNQNTPIIAVTAHAMAGERERLLSAGMDDYLAKP 771

Length = 919

>gnl|CDD|225107 COG2197, CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]

 Score = 63.1 bits (154), Expect = 4e-13
 Identities = 36/112 (32%), Positives = 60/112 (53%), Gaps = 3/112 (2%)

Query: 27  YFALVVDDDPMIRR-IHSMILKSVGFKV-EVAENGKEAVDLFRTGAKFHIVFIDMEMPVM 84
              L+VDD P++R  +  ++      +V   A NG+EA+DL R   K  +V +D+ MP M
Sbjct: 1   IKVLIVDDHPLVREGLRQLLELEPDLEVVGEASNGEEALDLARE-LKPDVVLLDLSMPGM 59

Query: 85  DGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
           DG+EA K +RA   + K+V +T+ +        ++AG D    K  +  ++V
Sbjct: 60  DGLEALKQLRARGPDIKVVVLTAHDDPAYVIRALRAGADGYLLKDASPEELV 111

Length = 211

>gnl|CDD|225114 COG2204, AtoC, Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

 Score = 63.9 bits (156), Expect = 9e-13
 Identities = 27/77 (35%), Positives = 46/77 (59%), Gaps = 1/77 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDDDP IR +    L+  G++V  AE+ +EA++       F +V +D+ MP MDG+E 
Sbjct: 8   LVVDDDPDIRELLEQALELAGYEVVTAESAEEALEALSES-PFDLVLLDIRMPGMDGLEL 66

Query: 90  TKAMRAMKVESKIVGVT 106
            K +++   +  ++ +T
Sbjct: 67  LKEIKSRDPDLPVIVMT 83

Length = 464

>gnl|CDD|183099 PRK11361, PRK11361, acetoacetate metabolism regulatory protein AtoC; Provisional

 Score = 62.9 bits (153), Expect = 2e-12
 Identities = 28/81 (34%), Positives = 46/81 (56%), Gaps = 1/81 (1%)

Query: 27  YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDG 86
              L+VDD+  +RR+ S      GF+   A NG+ A+ LF       +V +D+ MP MDG
Sbjct: 5   NRILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFAD-IHPDVVLMDIRMPEMDG 63

Query: 87  IEATKAMRAMKVESKIVGVTS 107
           I+A K MR+ +  + ++ +T+
Sbjct: 64  IKALKEMRSHETRTPVILMTA 84

Length = 457

>gnl|CDD|214668 smart00448, REC, cheY-homologous receiver domain

 Score = 57.6 bits (140), Expect = 3e-12
 Identities = 20/53 (37%), Positives = 37/53 (69%), Gaps = 1/53 (1%)

Query: 30 LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMP 82
          LVVDDDP++R +   +L+  G++V+ A +G+EA++L +   K  ++ +D+ MP
Sbjct: 4  LVVDDDPLLRELLKALLEKEGYEVDEATDGEEALELLKEE-KPDLILLDIMMP 55

CheY regulates the clockwise rotation of E. coli flagellar motors. This domain contains a phosphoacceptor site that is phosphorylated by histidine kinase homologues. Length = 55

>gnl|CDD|182169 PRK09959, PRK09959, hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional

 Score = 62.4 bits (151), Expect = 4e-12
 Identities = 37/128 (28%), Positives = 64/128 (50%), Gaps = 1/128 (0%)

Query: 17   SENPVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVF 76
            +E P++       L+ DD P  R +    L  +G+ V+ A +G +A+    +   + ++ 
Sbjct: 949  AEQPITLPEKLSILIADDHPTNRLLLKRQLNLLGYDVDEATDGVQALHKV-SMQHYDLLI 1007

Query: 77   IDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
             D+ MP MDG E T+ +R       I G+T+     ERE  +  G++LC  KPLT+  + 
Sbjct: 1008 TDVNMPNMDGFELTRKLREQNSSLPIWGLTANAQANEREKGLSCGMNLCLFKPLTLDVLK 1067

Query: 137  PLLEELQK 144
              L +L +
Sbjct: 1068 THLSQLHQ 1075

Length = 1197

>gnl|CDD|226229 COG3706, PleD, Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]

 Score = 58.5 bits (142), Expect = 6e-11
 Identities = 32/120 (26%), Positives = 56/120 (46%), Gaps = 5/120 (4%)

Query: 15  RISENPVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHI 74
                 + ++ P   LVVDDD   R     IL+  GF+V  A +G+EA+          +
Sbjct: 121 LGVSPLLPEDAPKKILVVDDDATQRERLRRILQVEGFRVVEATDGEEALLQL-AELPPDL 179

Query: 75  VFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREV---FMQAGLDLCYTKPLT 131
           V +D  MP MDG+E    +R     ++ + +   +S+ + E+     + G++   TKP+ 
Sbjct: 180 VLLDANMPDMDGLELCTRLRQ-LERTRDIPIILLSSKDDDELVVRAFELGVNDYITKPIE 238

Length = 435

>gnl|CDD|237425 PRK13557, PRK13557, histidine kinase; Provisional

 Score = 57.8 bits (140), Expect = 1e-10
 Identities = 23/74 (31%), Positives = 44/74 (59%), Gaps = 1/74 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMP-VMDGIE 88
           L+VDD P +  +  MIL+  G++  VA NG+EA+++  +  +  ++F D+ MP  M+G+ 
Sbjct: 419 LIVDDRPDVAELARMILEDFGYRTLVASNGREALEILDSHPEVDLLFTDLIMPGGMNGVM 478

Query: 89  ATKAMRAMKVESKI 102
             +  R  + + K+
Sbjct: 479 LAREARRRQPKIKV 492

Length = 540

>gnl|CDD|227095 COG4753, COG4753, Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]

 Score = 57.4 bits (139), Expect = 1e-10
 Identities = 35/118 (29%), Positives = 65/118 (55%), Gaps = 8/118 (6%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEV---AENGKEAVDLFRTGAKFHIVFIDMEMPVMDG 86
           L+VDD+P+IR     ++      +EV   A NGKEA++L +   +  IV  D+ MP MDG
Sbjct: 5   LIVDDEPLIREGLKSLIDWEALGIEVVGTAANGKEALELIQE-TQPDIVITDINMPGMDG 63

Query: 87  IEATKAMRAMKVESKIVGVTSRNSETE--REVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
           ++  KA++    +++ + + S   E E  ++  M+ G+     KP+  A++   L+++
Sbjct: 64  LDLIKAIKEQSPDTEFI-ILSGYDEFEYAKKA-MKLGVKDYLLKPVDKAELEEALKKI 119

Length = 475

>gnl|CDD|181883 PRK09468, ompR, osmolarity response regulator; Provisional

 Score = 56.5 bits (137), Expect = 2e-10
 Identities = 32/100 (32%), Positives = 53/100 (53%), Gaps = 1/100 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDDD  +R +    L   GF+V  A N  E +D   T   FH++ +D+ +P  DG+  
Sbjct: 9   LVVDDDMRLRALLERYLTEQGFQVRSAANA-EQMDRLLTRESFHLMVLDLMLPGEDGLSI 67

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKP 129
            + +R+    + I+ +T++  E +R V ++ G D    KP
Sbjct: 68  CRRLRSQNNPTPIIMLTAKGEEVDRIVGLEIGADDYLPKP 107

Length = 239

>gnl|CDD|170568 PRK10610, PRK10610, chemotaxis regulatory protein CheY; Provisional

 Score = 54.2 bits (130), Expect = 3e-10
 Identities = 45/118 (38%), Positives = 60/118 (50%), Gaps = 7/118 (5%)

Query: 30  LVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  F  V  D  MP MDG+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-FGFVISDWNMPNMDGLE 67

Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK 144
             K +RA    S   ++ VT+   +       QAG      KP T A    L E+L K
Sbjct: 68  LLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAAT---LEEKLNK 122

Length = 129

>gnl|CDD|182755 PRK10816, PRK10816, DNA-binding transcriptional regulator PhoP; Provisional

 Score = 54.0 bits (130), Expect = 1e-09
 Identities = 32/115 (27%), Positives = 61/115 (53%), Gaps = 1/115 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVV+D+ ++R    + L+  G +V+ AE+ KEA D +       I  +D+ +P  DG+  
Sbjct: 4   LVVEDNALLRHHLKVQLQDAGHQVDAAEDAKEA-DYYLNEHLPDIAIVDLGLPDEDGLSL 62

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK 144
            +  R+  V   I+ +T+R S  ++   + AG D   TKP  + +++  ++ L +
Sbjct: 63  IRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMR 117

Length = 223

>gnl|CDD|234828 PRK00742, PRK00742, chemotaxis-specific methylesterase; Provisional

 Score = 53.2 bits (129), Expect = 3e-09
 Identities = 28/72 (38%), Positives = 40/72 (55%), Gaps = 12/72 (16%)

Query: 30 LVVDDDPMIRRIHSMILKS------VGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPV 83
          LVVDD   +RR+ S IL S      VG     A +G EA +  +      ++ +D+EMPV
Sbjct: 7  LVVDDSAFMRRLISEILNSDPDIEVVG----TAPDGLEAREKIKK-LNPDVITLDVEMPV 61

Query: 84 MDGIEATKA-MR 94
          MDG++A +  MR
Sbjct: 62 MDGLDALEKIMR 73

Length = 354

>gnl|CDD|237135 PRK12555, PRK12555, chemotaxis-specific methylesterase; Provisional

 Score = 51.8 bits (125), Expect = 1e-08
 Identities = 34/103 (33%), Positives = 49/103 (47%), Gaps = 15/103 (14%)

Query: 30  LVVDDDPMIRRIHSMILKSV-GFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGI 87
            +V+D P+        L      +V  VA +G +AV+         ++ +D+EMP MDG+
Sbjct: 4   GIVNDSPLAVEALRRALARDPDHEVVWVATDGAQAVERCAAQPP-DVILMDLEMPRMDGV 62

Query: 88  EATKA-MRAMKVESKIVGVTS---RNSETEREVF--MQAG-LD 123
           EAT+  M        I+ VTS   RN+     VF  M AG LD
Sbjct: 63  EATRRIMAERP--CPILIVTSLTERNASR---VFEAMGAGALD 100

Length = 337

>gnl|CDD|225111 COG2201, CheB, Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]

 Score = 50.8 bits (122), Expect = 3e-08
 Identities = 29/67 (43%), Positives = 42/67 (62%), Gaps = 9/67 (13%)

Query: 30 LVVDDDPMIRRIHSMILKSVGFKVEV---AENGKEAVDLFRTGAKFH--IVFIDMEMPVM 84
          LVVDD  ++R++ S IL S    +EV   A NG+EA+D      K    ++ +D+EMPVM
Sbjct: 5  LVVDDSALMRKVISDILNSDP-DIEVVGTARNGREAIDKV---KKLKPDVITLDVEMPVM 60

Query: 85 DGIEATK 91
          DG+EA +
Sbjct: 61 DGLEALR 67

Length = 350

>gnl|CDD|234070 TIGR02956, TMAO_torS, TMAO reductase sytem sensor TorS

 Score = 50.2 bits (120), Expect = 5e-08
 Identities = 32/133 (24%), Positives = 64/133 (48%), Gaps = 5/133 (3%)

Query: 11  SKKARISENPVSKN-RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTG 69
            K A  S      +  P   L+V+D+ + + +    L  +G KV +AE+G+ A++ F   
Sbjct: 686 GKPAEDSATLTVIDLPPQRVLLVEDNEVNQMVAQGFLTRLGHKVTLAESGQSALECFHQH 745

Query: 70  AKFHIVFIDMEMPVMDGIEATKAMRAM---KVESKIVGVTSRNSETEREVFMQAGLDLCY 126
           A F +  +D+ +P  DG+   + +RA+   K E K +  ++     +   ++ AG D   
Sbjct: 746 A-FDLALLDINLPDGDGVTLLQQLRAIYGAKNEVKFIAFSAHVFNEDVAQYLAAGFDGFL 804

Query: 127 TKPLTMAKIVPLL 139
            KP+   ++  ++
Sbjct: 805 AKPVVEEQLTAMI 817

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) [Signal transduction, Two-component systems]. Length = 968

>gnl|CDD|214376 CHL00148, orf27, Ycf27; Reviewed

 Score = 49.7 bits (119), Expect = 6e-08
 Identities = 26/72 (36%), Positives = 41/72 (56%), Gaps = 1/72 (1%)

Query: 23 KNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMP 82
          +N     LVVDD+  IR+I    L  +G++V  A +G+EA+ LFR      +V +D+ MP
Sbjct: 3  ENSKEKILVVDDEAYIRKILETRLSIIGYEVITASDGEEALKLFRKEQP-DLVILDVMMP 61

Query: 83 VMDGIEATKAMR 94
           +DG    + +R
Sbjct: 62 KLDGYGVCQEIR 73

Length = 240

>gnl|CDD|182864 PRK10955, PRK10955, DNA-binding transcriptional regulator CpxR; Provisional

 Score = 49.4 bits (118), Expect = 6e-08
 Identities = 32/107 (29%), Positives = 60/107 (56%), Gaps = 3/107 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDDD  +  +   +L+  GF V VA +G++A+DL        ++ +D+ MP  +GI+ 
Sbjct: 5   LLVDDDRELTSLLKELLEMEGFNVIVAHDGEQALDLL--DDSIDLLLLDVMMPKKNGIDT 62

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
            K +R    ++ ++ +T+R SE +R + ++ G D    KP    ++V
Sbjct: 63  LKELRQTH-QTPVIMLTARGSELDRVLGLELGADDYLPKPFNDRELV 108

Length = 232

>gnl|CDD|236842 PRK11091, PRK11091, aerobic respiration control sensor protein ArcB; Provisional

 Score = 49.9 bits (120), Expect = 7e-08
 Identities = 25/101 (24%), Positives = 59/101 (58%), Gaps = 5/101 (4%)

Query: 45  ILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESK--- 101
           +L+ +G  V+VA  GKEA+++F     + +V +D+++P M G++  + +R          
Sbjct: 544 VLEKLGNSVDVAMTGKEALEMFDPDE-YDLVLLDIQLPDMTGLDIARELRERYPREDLPP 602

Query: 102 IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
           +V +T+ N   +++ ++ AG+D   +KPL++  +  ++++ 
Sbjct: 603 LVALTA-NVLKDKKEYLDAGMDDVLSKPLSVPALTAMIKKF 642

Length = 779

>gnl|CDD|185070 PRK15115, PRK15115, response regulator GlrR; Provisional

 Score = 49.5 bits (118), Expect = 9e-08
 Identities = 23/59 (38%), Positives = 36/59 (61%), Gaps = 1/59 (1%)

Query: 30 LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
          L+VDDDP + ++  M L S G+ V  AE+G+EA+ +     K  +V  D+ M  MDG++
Sbjct: 9  LLVDDDPGLLKLLGMRLTSEGYSVVTAESGQEALRVL-NREKVDLVISDLRMDEMDGMQ 66

Length = 444

>gnl|CDD|131209 TIGR02154, PhoB, phosphate regulon transcriptional regulatory protein PhoB

 Score = 48.5 bits (116), Expect = 1e-07
 Identities = 31/109 (28%), Positives = 55/109 (50%), Gaps = 3/109 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVV+D+P IR + +  L+  G+ V  A +G EA+ L        ++ +D  +P   GIE 
Sbjct: 6   LVVEDEPAIRELIAYNLEKAGYDVVEAGDGDEALTLINE-RGPDLILLDWMLPGTSGIEL 64

Query: 90  TKAMR--AMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
            + +R         I+ +T+R  E +R   ++ G D   TKP +  +++
Sbjct: 65  CRRLRRRPETRAIPIIMLTARGEEEDRVRGLETGADDYITKPFSPRELL 113

PhoB is a DNA-binding response regulator protein acting with PhoR in a 2-component system responding to phosphate ion. PhoB acts as a positive regulator of gene expression for phosphate-related genes such as phoA, phoS, phoE and ugpAB as well as itself. It is often found proximal to genes for the high-affinity phosphate ABC transporter (pstSCAB; GenProp0190) and presumably regulates these as well [Regulatory functions, DNA interactions, Signal transduction, Two-component systems]. Length = 226

>gnl|CDD|225971 COG3437, COG3437, Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]

 Score = 48.5 bits (116), Expect = 1e-07
 Identities = 34/110 (30%), Positives = 60/110 (54%), Gaps = 4/110 (3%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE- 88
           L+VDD+P        +L+ +G++V  AENG+EA+ L +      +V +D+ MP MDG E 
Sbjct: 18  LLVDDEPDNLEALRQLLRMIGYRVIEAENGEEALKLLQE-EPPDLVLLDVRMPEMDGAEV 76

Query: 89  --ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
               KAM        ++ +T+     +R+  ++AG D   +KP++  ++V
Sbjct: 77  LNKLKAMSPSTRRIPVILLTAYADSEDRQRALEAGADDYLSKPISPKELV 126

Length = 360

>gnl|CDD|182412 PRK10365, PRK10365, transcriptional regulatory protein ZraR; Provisional

 Score = 48.5 bits (115), Expect = 2e-07
 Identities = 36/113 (31%), Positives = 57/113 (50%), Gaps = 3/113 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDDD     I   +L+  G+ V +A +G++A++  R    F +V  D+ M  MDGI  
Sbjct: 9   LVVDDDISHCTILQALLRGWGYNVALANSGRQALEQVR-EQVFDLVLCDVRMAEMDGIAT 67

Query: 90  TKAMRAMKVESKIVGVTSRNS-ETEREVFMQAGLDLCYTKPLTMAKIVPLLEE 141
            K ++A+     ++ +T+ +S ET  E      LD    KPL    +   LE+
Sbjct: 68  LKEIKALNPAIPVLIMTAYSSVETAVEALKTGALDY-LIKPLDFDNLQATLEK 119

Length = 441

>gnl|CDD|226931 COG4565, CitB, Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]

 Score = 47.6 bits (114), Expect = 2e-07
 Identities = 22/82 (26%), Positives = 42/82 (51%), Gaps = 3/82 (3%)

Query: 30  LVVDDDPMIRRIHSMILKSV-GFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGI 87
           L+++DDPM+  IH   +K + GF  V  A   +EA  +        ++ +D+ MP  +GI
Sbjct: 4   LIIEDDPMVAEIHRRYVKQIPGFSVVGTAGTLEEAKMIIEEFKP-DLILLDIYMPDGNGI 62

Query: 88  EATKAMRAMKVESKIVGVTSRN 109
           E    +R+      ++ +T+ +
Sbjct: 63  ELLPELRSQHYPVDVIVITAAS 84

Length = 224

>gnl|CDD|236914 PRK11466, PRK11466, hybrid sensory histidine kinase TorS; Provisional

 Score = 48.0 bits (114), Expect = 3e-07
 Identities = 17/78 (21%), Positives = 40/78 (51%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+++D+P+ +RI + +L + G +V    N  +A++  +    F    +D ++P  DGI  
Sbjct: 685 LLIEDNPLTQRITAEMLNTSGAQVVAVGNAAQALETLQNSEPFAAALVDFDLPDYDGITL 744

Query: 90  TKAMRAMKVESKIVGVTS 107
            + +        ++G ++
Sbjct: 745 ARQLAQQYPSLVLIGFSA 762

Length = 914

>gnl|CDD|182711 PRK10766, PRK10766, DNA-binding transcriptional regulator TorR; Provisional

 Score = 47.0 bits (112), Expect = 4e-07
 Identities = 30/106 (28%), Positives = 53/106 (50%), Gaps = 4/106 (3%)

Query: 26  PYFALVVDDDPMIR-RIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVM 84
            Y  LVV+D+P+ R R+     +  G+ V  A +G    ++        ++ +D+ +P  
Sbjct: 2   SYHILVVEDEPVTRARLQGYFEQE-GYTVSEAASGAGMREIM-QNQHVDLILLDINLPGE 59

Query: 85  DGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPL 130
           DG+  T+ +R+ +    I+ VT R    +R V ++ G D   TKPL
Sbjct: 60  DGLMLTRELRS-RSTVGIILVTGRTDSIDRIVGLEMGADDYVTKPL 104

Length = 221

>gnl|CDD|236838 PRK11083, PRK11083, DNA-binding response regulator CreB; Provisional

 Score = 46.9 bits (112), Expect = 4e-07
 Identities = 30/100 (30%), Positives = 50/100 (50%), Gaps = 1/100 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+V+D+  I       L+S GF VE  E G  A+D  R      +V +D+ +P + G E 
Sbjct: 7   LLVEDEQAIADTLVYALQSEGFTVEWFERGLPALDKLRQQP-PDLVILDVGLPDISGFEL 65

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKP 129
            + + A      ++ +T+R+ E +R V ++ G D    KP
Sbjct: 66  CRQLLAFHPALPVIFLTARSDEVDRLVGLEIGADDYVAKP 105

Length = 228

>gnl|CDD|182431 PRK10403, PRK10403, transcriptional regulator NarP; Provisional

 Score = 45.2 bits (107), Expect = 1e-06
 Identities = 30/101 (29%), Positives = 56/101 (55%), Gaps = 5/101 (4%)

Query: 26  PYFALVVDDDPMIRR-IHSMILKSVGFKVEVAE--NGKEAVDLFRTGAKFHIVFIDMEMP 82
           P+  L+VDD P++RR +  ++    GF+V VAE  +G  A+DL        ++ +D+ M 
Sbjct: 6   PFQVLIVDDHPLMRRGVRQLLELDPGFEV-VAEAGDGASAIDLANRLD-PDVILLDLNMK 63

Query: 83  VMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLD 123
            M G++   A+R   V ++I+ +T  ++ ++    + AG D
Sbjct: 64  GMSGLDTLNALRRDGVTAQIIILTVSDASSDVFALIDAGAD 104

Length = 215

>gnl|CDD|225818 COG3279, LytT, Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]

 Score = 45.4 bits (108), Expect = 2e-06
 Identities = 36/118 (30%), Positives = 62/118 (52%), Gaps = 5/118 (4%)

Query: 29  ALVVDDDPMIR-RIHSMILKSVGFKVEV-AENGKEAVDLFRTGAKFHIVFIDMEMPVMDG 86
            L+VDD+P+ R  +  ++ +    ++   AENG+EA+ L + G +  +VF+D+ MP ++G
Sbjct: 4   VLIVDDEPLAREELRRILNEIPDIEIVGEAENGEEALQLLQ-GLRPDLVFLDIAMPDING 62

Query: 87  IEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK 144
           IE    +R       IV VT+   E     F    LD    KP++  ++   LE L++
Sbjct: 63  IELAARIRKGDPRPAIVFVTAH-DEYAVAAFEVEALDY-LLKPISEERLAKTLERLRR 118

Length = 244

>gnl|CDD|182619 PRK10651, PRK10651, transcriptional regulator NarL; Provisional

 Score = 44.2 bits (105), Expect = 3e-06
 Identities = 27/100 (27%), Positives = 51/100 (51%), Gaps = 11/100 (11%)

Query: 30  LVVDDDPMIRR-IHSMILKSVGFKVEVAE--NGKEAVDLFRTGAKFH---IVFIDMEMPV 83
           L++DD PM+R  +  +I  +    V V E  NG++ ++L    A+     ++ +D+ MP 
Sbjct: 10  LLIDDHPMLRTGVKQLISMAPDITV-VGEASNGEQGIEL----AESLDPDLILLDLNMPG 64

Query: 84  MDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLD 123
           M+G+E    +R   +  +IV  +  N E +    ++ G D
Sbjct: 65  MNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGAD 104

Length = 216

>gnl|CDD|236577 PRK09581, pleD, response regulator PleD; Reviewed

 Score = 44.9 bits (107), Expect = 3e-06
 Identities = 31/102 (30%), Positives = 52/102 (50%), Gaps = 3/102 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDD P   ++    L +  + V  A +G EA+ +     +  I+ +D+ MP MDG E 
Sbjct: 6   LVVDDIPANVKLLEAKLLAEYYTVLTASSGAEAIAICE-REQPDIILLDVMMPGMDGFEV 64

Query: 90  TKAMRAMKVESKI--VGVTSRNSETEREVFMQAGLDLCYTKP 129
            + +++    + I  V VT+ +   +R   ++AG D   TKP
Sbjct: 65  CRRLKSDPATTHIPVVMVTALDDPEDRVRGLEAGADDFLTKP 106

Length = 457

>gnl|CDD|130454 TIGR01387, cztR_silR_copR, heavy metal response regulator

 Score = 44.0 bits (104), Expect = 4e-06
 Identities = 24/107 (22%), Positives = 55/107 (51%), Gaps = 1/107 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVV+D+          L   G+ V+ A NG++ + L      + ++ +D+ +P MDG + 
Sbjct: 2   LVVEDEQKTAEYLQQGLSESGYVVDAASNGRDGLHLALKDD-YDLIILDVMLPGMDGWQI 60

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
            + +R    ++ ++ +T+R+S  ++   +  G D    KP + ++++
Sbjct: 61  LQTLRRSGKQTPVLFLTARDSVADKVKGLDLGADDYLVKPFSFSELL 107

Members of this family contain a response regulator receiver domain (pfam00072) and an associated transcriptional regulatory region (pfam00486). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc. Most members encoded by genes adjacent to genes for encoding a member of the heavy metal sensor histidine kinase family (TIGRFAMs:TIGR01386), its partner in the two-component response regulator system. Length = 218

>gnl|CDD|226456 COG3947, COG3947, Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

 Score = 44.5 bits (105), Expect = 4e-06
 Identities = 26/79 (32%), Positives = 46/79 (58%), Gaps = 1/79 (1%)

Query: 29  ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
            ++VDDD  I ++ S+IL   G +V    +  EA+DL     K  ++F+D+ MP M+GIE
Sbjct: 3   IIIVDDDAAIVKLLSVILSRAGHEVRSCSHPVEALDLLEV-FKPDLIFLDIVMPYMNGIE 61

Query: 89  ATKAMRAMKVESKIVGVTS 107
             + +R ++    I+ ++S
Sbjct: 62  FAEQVRDIESAVPIIFISS 80

Length = 361

>gnl|CDD|181815 PRK09390, fixJ, response regulator FixJ; Provisional

 Score = 43.1 bits (102), Expect = 1e-05
 Identities = 25/76 (32%), Positives = 42/76 (55%), Gaps = 1/76 (1%)

Query: 31  VVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEAT 90
           VVDDD  +R   + +L S GF+V + E+ +  +D    G +F  V  D+ MP +DGIE  
Sbjct: 8   VVDDDEAMRDSLAFLLDSAGFEVRLFESAQAFLD-ALPGLRFGCVVTDVRMPGIDGIELL 66

Query: 91  KAMRAMKVESKIVGVT 106
           + ++A      ++ +T
Sbjct: 67  RRLKARGSPLPVIVMT 82

Length = 202

>gnl|CDD|182612 PRK10643, PRK10643, DNA-binding transcriptional regulator BasR; Provisional

 Score = 43.1 bits (102), Expect = 1e-05
 Identities = 29/114 (25%), Positives = 56/114 (49%), Gaps = 8/114 (7%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+V+DD ++ +   + L++ G+  + A   +EA  L  +G  + +V +D+ +P  DG+  
Sbjct: 4   LIVEDDTLLLQGLILALQTEGYACDCASTAREAEALLESG-HYSLVVLDLGLPDEDGLHL 62

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ 143
            +  R  K    ++ +T+R++  +R   +  G D    KP         LEEL 
Sbjct: 63  LRRWRQKKYTLPVLILTARDTLEDRVAGLDVGADDYLVKPFA-------LEELH 109

Length = 222

>gnl|CDD|236538 PRK09483, PRK09483, response regulator; Provisional

 Score = 42.4 bits (100), Expect = 2e-05
 Identities = 32/94 (34%), Positives = 48/94 (51%), Gaps = 3/94 (3%)

Query: 30  LVVDDDPMIRRIHSMILKSV-GFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGI 87
           L+VDD  ++R     IL+ + G KV   A  G++AV   RT     +V +DM MP + G+
Sbjct: 5   LLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWCRTN-AVDVVLMDMNMPGIGGL 63

Query: 88  EATKAMRAMKVESKIVGVTSRNSETEREVFMQAG 121
           EAT+ +     + KI+ +T           MQAG
Sbjct: 64  EATRKILRYTPDVKIIMLTVHTENPLPAKVMQAG 97

Length = 217

>gnl|CDD|185376 PRK15479, PRK15479, transcriptional regulatory protein TctD; Provisional

 Score = 42.4 bits (100), Expect = 2e-05
 Identities = 24/106 (22%), Positives = 50/106 (47%), Gaps = 1/106 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+ +D+  +       L   GF V+   +G  A  L ++   + +  +D+ MP MDG+E 
Sbjct: 4   LLAEDNRELAHWLEKALVQNGFAVDCVFDGLAADHLLQS-EMYALAVLDINMPGMDGLEV 62

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
            + +R       ++ +T+R++  +R   +  G D    KP  + ++
Sbjct: 63  LQRLRKRGQTLPVLLLTARSAVADRVKGLNVGADDYLPKPFELEEL 108

Length = 221

>gnl|CDD|226933 COG4567, COG4567, Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]

 Score = 41.6 bits (98), Expect = 2e-05
 Identities = 23/77 (29%), Positives = 42/77 (54%), Gaps = 1/77 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDDD    R  +  ++  GF V  AE+ +EA+   RT    + V +D+++    G+  
Sbjct: 13  LLVDDDTPFLRTLARAMERRGFAVVTAESVEEALAAARTAPPAYAV-VDLKLGDGSGLAV 71

Query: 90  TKAMRAMKVESKIVGVT 106
            +A+R  + + +IV +T
Sbjct: 72  IEALRERRADMRIVVLT 88

Length = 182

>gnl|CDD|182387 PRK10336, PRK10336, DNA-binding transcriptional regulator QseB; Provisional

 Score = 40.6 bits (95), Expect = 8e-05
 Identities = 28/113 (24%), Positives = 55/113 (48%), Gaps = 1/113 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+++DD +I       L  +GF V+    G++  +   + A +  V +D+ +P MDG + 
Sbjct: 4   LLIEDDMLIGDGIKTGLSKMGFSVDWFTQGRQGKEALYS-APYDAVILDLTLPGMDGRDI 62

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
            +  R       ++ +T+R++  ER   ++ G D    KP  + ++   LE L
Sbjct: 63  LREWREKGQREPVLILTARDALAERVEGLRLGADDYLCKPFALIEVAARLEAL 115

Length = 219

>gnl|CDD|182277 PRK10161, PRK10161, transcriptional regulator PhoB; Provisional

 Score = 40.1 bits (93), Expect = 1e-04
 Identities = 30/117 (25%), Positives = 60/117 (51%), Gaps = 3/117 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVV+D+  IR +   +L+  GF+   AE+   AV+         ++ +D  +P   GI+ 
Sbjct: 6   LVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWP-DLILLDWMLPGGSGIQF 64

Query: 90  TKAMR--AMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK 144
            K ++  +M  +  +V +T+R  E +R   ++ G D   TKP +  ++V  ++ + +
Sbjct: 65  IKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMR 121

Length = 229

>gnl|CDD|226932 COG4566, TtrR, Response regulator [Signal transduction mechanisms]

 Score = 39.6 bits (93), Expect = 1e-04
 Identities = 22/81 (27%), Positives = 40/81 (49%), Gaps = 7/81 (8%)

Query: 31  VVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVD---LFRTGAKFHIVFIDMEMPVMDGI 87
           VVDDD  +R   + +L+S GF+V+   + +E +    L R G     + +D+ MP M G+
Sbjct: 9   VVDDDESVRDALAFLLESAGFQVKCFASAEEFLAAAPLDRPG----CLLLDVRMPGMSGL 64

Query: 88  EATKAMRAMKVESKIVGVTSR 108
           E    +    +   ++ +T  
Sbjct: 65  ELQDRLAERGIRLPVIFLTGH 85

Length = 202

>gnl|CDD|183172 PRK11517, PRK11517, transcriptional regulatory protein YedW; Provisional

 Score = 38.3 bits (89), Expect = 4e-04
 Identities = 20/107 (18%), Positives = 58/107 (54%), Gaps = 2/107 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+++D+   +   +  L   G+ ++   +G++ + L      + ++ +D+ +P MDG + 
Sbjct: 4   LLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYL-ALKDDYALIILDIMLPGMDGWQI 62

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
            + +R  K ++ ++ +T+R+S  +R   + +G +    KP + ++++
Sbjct: 63  LQTLRTAK-QTPVICLTARDSVDDRVRGLDSGANDYLVKPFSFSELL 108

Length = 223

>gnl|CDD|182522 PRK10529, PRK10529, DNA-binding transcriptional activator KdpE; Provisional

 Score = 37.5 bits (87), Expect = 0.001
 Identities = 29/101 (28%), Positives = 51/101 (50%), Gaps = 4/101 (3%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGA-KFHIVFIDMEMPVMDGIE 88
           L+V+D+  IRR     L+  G +V  AE  +    L      K  ++ +D+ +P  DGIE
Sbjct: 5   LIVEDEQAIRRFLRTALEGDGMRVFEAETLQRG--LLEAATRKPDLIILDLGLPDGDGIE 62

Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKP 129
             + +R       IV +++R+ E+++   + AG D   +KP
Sbjct: 63  FIRDLRQWSAIPVIV-LSARSEESDKIAALDAGADDYLSKP 102

Length = 225

>gnl|CDD|233585 TIGR01818, ntrC, nitrogen regulation protein NR(I)

 Score = 36.6 bits (85), Expect = 0.002
 Identities = 18/80 (22%), Positives = 35/80 (43%), Gaps = 1/80 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
            VVDDD  IR +    L   G++V    N    +     G    ++  D+ MP  DG++ 
Sbjct: 2   WVVDDDRSIRWVLEKALSRAGYEVRTFGNAASVLRALARGQP-DLLITDVRMPGEDGLDL 60

Query: 90  TKAMRAMKVESKIVGVTSRN 109
              ++    +  ++ +T+ +
Sbjct: 61  LPQIKKRHPQLPVIVMTAHS 80

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc [Central intermediary metabolism, Nitrogen metabolism, Regulatory functions, DNA interactions, Signal transduction, Two-component systems]. Length = 463

>gnl|CDD|182168 PRK09958, PRK09958, DNA-binding transcriptional activator EvgA; Provisional

 Score = 36.0 bits (83), Expect = 0.003
 Identities = 27/116 (23%), Positives = 53/116 (45%), Gaps = 2/116 (1%)

Query: 29  ALVVDDDPMIRRIHSMILKSVGFKVEVA-ENGKEAVDLFRTGAKFHIVFIDMEMPVMDGI 87
           A+++DD P+       +L     ++      G  AV    T  K  IV ID+++P ++GI
Sbjct: 3   AIIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVET-LKPDIVIIDVDIPGVNGI 61

Query: 88  EATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ 143
           +  + +R  +    I+ V+++N     +    AG +   +K   M  I+  +E  +
Sbjct: 62  QVLETLRKRQYSGIIIIVSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAK 117

Length = 204

>gnl|CDD|163499 TIGR03787, marine_sort_RR, proteobacterial dedicated sortase system response regulator

 Score = 35.9 bits (83), Expect = 0.003
 Identities = 31/122 (25%), Positives = 57/122 (46%), Gaps = 8/122 (6%)

Query: 31  VVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTG-AKFHIVFIDMEMPVMDGIEA 89
           +V+D+  IR  ++  LK  G++V    +   A+  FR       I+ I +   +  G   
Sbjct: 5   IVEDEAAIRENYADALKRQGYQVTTYADRPSAMQAFRQRLPDLAIIDIGLGEEIDGGFML 64

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTK----PLTMAKIVPLL---EEL 142
            + +R++     I+ +T+R+S+ +    ++ G D   TK    P  +A+I  L    E L
Sbjct: 65  CQDLRSLSATLPIIFLTARDSDFDTVSGLRLGADDYLTKDISLPHLLARITALFRRAEAL 124

Query: 143 QK 144
           QK
Sbjct: 125 QK 126

This model describes a family of DNA-binding response regulator proteins, associated with an adjacent histidine kinase (TIGR03785) to form a two-component system. This system co-occurs with, and often is adjacent to, a proteobacterial variant form of the protein sorting transpeptidase called sortase (TIGR03784), and a single target protein for the sortase. We give this protein the gene symbol pdsR, for Proteobacterial Dedicated Sortase system Response regulator. Length = 227

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	145
COG0745	229	OmpR Response regulators consisting of a CheY-like	99.93
PF00072	112	Response_reg: Response regulator receiver domain;	99.9
COG4753	475	Response regulator containing CheY-like receiver d	99.89
COG2204	464	AtoC Response regulator containing CheY-like recei	99.88
COG4565	224	CitB Response regulator of citrate/malate metaboli	99.88
COG2197	211	CitB Response regulator containing a CheY-like rec	99.87
COG4566	202	TtrR Response regulator [Signal transduction mecha	99.85
COG3437	360	Response regulator containing a CheY-like receiver	99.83
PRK10046	225	dpiA two-component response regulator DpiA; Provis	99.83
PRK10816	223	DNA-binding transcriptional regulator PhoP; Provis	99.82
PRK09836	227	DNA-binding transcriptional activator CusR; Provis	99.81
PRK10840	216	transcriptional regulator RcsB; Provisional	99.8
PRK09468	239	ompR osmolarity response regulator; Provisional	99.8
COG0784	130	CheY FOG: CheY-like receiver [Signal transduction	99.8
PRK10643	222	DNA-binding transcriptional regulator BasR; Provis	99.8
PRK10336	219	DNA-binding transcriptional regulator QseB; Provis	99.8
PRK10529	225	DNA-binding transcriptional activator KdpE; Provis	99.8
PRK11173	237	two-component response regulator; Provisional	99.79
COG4567	182	Response regulator consisting of a CheY-like recei	99.79
PRK10161	229	transcriptional regulator PhoB; Provisional	99.79
PRK11083	228	DNA-binding response regulator CreB; Provisional	99.79
TIGR03787	227	marine_sort_RR proteobacterial dedicated sortase s	99.79
COG3706	435	PleD Response regulator containing a CheY-like rec	99.79
PRK10766	221	DNA-binding transcriptional regulator TorR; Provis	99.79
PRK09958	204	DNA-binding transcriptional activator EvgA; Provis	99.78
TIGR02154	226	PhoB phosphate regulon transcriptional regulatory	99.78
PRK10841	924	hybrid sensory kinase in two-component regulatory	99.78
PLN03029	222	type-a response regulator protein; Provisional	99.78
PRK11466	914	hybrid sensory histidine kinase TorS; Provisional	99.78
CHL00148	240	orf27 Ycf27; Reviewed	99.77
PRK10955	232	DNA-binding transcriptional regulator CpxR; Provis	99.77
PRK09483	217	response regulator; Provisional	99.77
KOG0519	786	consensus Sensory transduction histidine kinase [S	99.77
TIGR01387	218	cztR_silR_copR heavy metal response regulator. Mem	99.77
PRK10430	239	DNA-binding transcriptional activator DcuR; Provis	99.77
PRK11517	223	transcriptional regulatory protein YedW; Provision	99.77
PRK11107	919	hybrid sensory histidine kinase BarA; Provisional	99.76
PRK10701	240	DNA-binding transcriptional regulator RstA; Provis	99.76
PRK13856	241	two-component response regulator VirG; Provisional	99.76
PRK15347	921	two component system sensor kinase SsrA; Provision	99.76
TIGR02956	968	TMAO_torS TMAO reductase sytem sensor TorS. This p	99.75
PRK09935	210	transcriptional regulator FimZ; Provisional	99.75
PRK15115	444	response regulator GlrR; Provisional	99.74
COG3947	361	Response regulator containing CheY-like receiver a	99.74
TIGR02875	262	spore_0_A sporulation transcription factor Spo0A.	99.74
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	99.73
PRK10365	441	transcriptional regulatory protein ZraR; Provision	99.73
PRK11091	779	aerobic respiration control sensor protein ArcB; P	99.73
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	99.73
PRK09959	1197	hybrid sensory histidine kinase in two-component r	99.72
PRK15479	221	transcriptional regulatory protein TctD; Provision	99.72
PRK14084	246	two-component response regulator; Provisional	99.72
PRK10710	240	DNA-binding transcriptional regulator BaeR; Provis	99.71
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	99.71
PRK10360	196	DNA-binding transcriptional activator UhpA; Provis	99.71
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	99.71
PRK10100	216	DNA-binding transcriptional regulator CsgD; Provis	99.7
PRK09390	202	fixJ response regulator FixJ; Provisional	99.7
PRK11475	207	DNA-binding transcriptional activator BglJ; Provis	99.69
PRK09581	457	pleD response regulator PleD; Reviewed	99.68
PRK15411	207	rcsA colanic acid capsular biosynthesis activation	99.68
PRK10403	215	transcriptional regulator NarP; Provisional	99.67
PRK10651	216	transcriptional regulator NarL; Provisional	99.67
PRK10610	129	chemotaxis regulatory protein CheY; Provisional	99.67
PRK13435	145	response regulator; Provisional	99.66
PRK09581	457	pleD response regulator PleD; Reviewed	99.66
PRK15369	211	two component system sensor kinase SsrB; Provision	99.66
PRK11697	238	putative two-component response-regulatory protein	99.65
PRK13558	665	bacterio-opsin activator; Provisional	99.65
PRK12555	337	chemotaxis-specific methylesterase; Provisional	99.65
PRK00742	354	chemotaxis-specific methylesterase; Provisional	99.61
PRK13837	828	two-component VirA-like sensor kinase; Provisional	99.6
PRK13557	540	histidine kinase; Provisional	99.59
PRK09191	261	two-component response regulator; Provisional	99.56
COG3707	194	AmiR Response regulator with putative antiterminat	99.55
cd00156	113	REC Signal receiver domain; originally thought to	99.55
COG2201	350	CheB Chemotaxis response regulator containing a Ch	99.49
PRK10693	303	response regulator of RpoS; Provisional	99.47
PRK15029	755	arginine decarboxylase; Provisional	99.39
COG3279	244	LytT Response regulator of the LytR/AlgR family [T	99.18
PRK11107	919	hybrid sensory histidine kinase BarA; Provisional	98.82
PF06490	109	FleQ: Flagellar regulatory protein FleQ; InterPro:	98.69
cd02071	122	MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 bin	98.38
PRK02261	137	methylaspartate mutase subunit S; Provisional	98.27
PF03709	115	OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal	98.27
COG3706	435	PleD Response regulator containing a CheY-like rec	98.27
TIGR00640	132	acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal	98.17
smart00448	55	REC cheY-homologous receiver domain. CheY regulate	98.15
TIGR01501	134	MthylAspMutase methylaspartate mutase, S subunit.	97.98
cd02067	119	B12-binding B12 binding domain (B12-BD). This doma	97.83
cd02072	128	Glm_B12_BD B12 binding domain of glutamate mutase	97.65
PRK15399	713	lysine decarboxylase LdcC; Provisional	97.35
COG2185	143	Sbm Methylmalonyl-CoA mutase, C-terminal domain/su	97.34
PF02310	121	B12-binding: B12 binding domain; InterPro: IPR0061	97.28
PRK15400	714	lysine decarboxylase CadA; Provisional	97.23
COG4999	140	Uncharacterized domain of BarA-like signal transdu	97.19
cd02070	201	corrinoid_protein_B12-BD B12 binding domain of cor	97.12
cd02069	213	methionine_synthase_B12_BD B12 binding domain of m	97.06
TIGR03815	322	CpaE_hom_Actino helicase/secretion neighborhood Cp	97.06
PRK09426	714	methylmalonyl-CoA mutase; Reviewed	96.85
PRK10618	894	phosphotransfer intermediate protein in two-compon	96.8
cd02068	127	radical_SAM_B12_BD B12 binding domain_like associa	96.55
TIGR02370	197	pyl_corrinoid methyltransferase cognate corrinoid	96.31
PRK05718	212	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	96.05
TIGR02026	497	BchE magnesium-protoporphyrin IX monomethyl ester	95.76
TIGR02311	249	HpaI 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldola	95.74
PRK10558	256	alpha-dehydro-beta-deoxy-D-glucarate aldolase; Pro	95.41
PRK00043	212	thiE thiamine-phosphate pyrophosphorylase; Reviewe	95.27
PF01081	196	Aldolase: KDPG and KHG aldolase; InterPro: IPR0008	95.22
cd04728	248	ThiG Thiazole synthase (ThiG) is the tetrameric en	95.2
COG0512	191	PabA Anthranilate/para-aminobenzoate synthases com	95.05
PRK08385	278	nicotinate-nucleotide pyrophosphorylase; Provision	94.92
PRK09140	206	2-dehydro-3-deoxy-6-phosphogalactonate aldolase; R	94.71
TIGR01182	204	eda Entner-Doudoroff aldolase. 2-deydro-3-deoxypho	94.65
PRK10128	267	2-keto-3-deoxy-L-rhamnonate aldolase; Provisional	94.63
PRK07896	289	nicotinate-nucleotide pyrophosphorylase; Provision	94.6
cd02065	125	B12-binding_like B12 binding domain (B12-BD). Most	94.41
TIGR01334	277	modD putative molybdenum utilization protein ModD.	94.39
cd00452	190	KDPG_aldolase KDPG and KHG aldolase. This family b	94.39
PF01729	169	QRPTase_C: Quinolinate phosphoribosyl transferase,	94.38
PRK06552	213	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	94.37
PRK07428	288	nicotinate-nucleotide pyrophosphorylase; Provision	94.28
COG0157	280	NadC Nicotinate-nucleotide pyrophosphorylase [Coen	94.04
PRK05458	326	guanosine 5'-monophosphate oxidoreductase; Provisi	93.91
PRK10669	558	putative cation:proton antiport protein; Provision	93.9
PRK05749	425	3-deoxy-D-manno-octulosonic-acid transferase; Revi	93.87
PRK00208	250	thiG thiazole synthase; Reviewed	93.78
PRK05848	273	nicotinate-nucleotide pyrophosphorylase; Provision	93.73
TIGR01305	343	GMP_reduct_1 guanosine monophosphate reductase, eu	93.73
PF10087	97	DUF2325: Uncharacterized protein conserved in bact	93.57
PRK03659	601	glutathione-regulated potassium-efflux system prot	93.54
PF05690	247	ThiG: Thiazole biosynthesis protein ThiG; InterPro	93.51
PF07688	283	KaiA: KaiA domain; InterPro: IPR011648 KaiA is a c	93.47
TIGR03239	249	GarL 2-dehydro-3-deoxyglucarate aldolase. In E. co	93.4
PRK01130	221	N-acetylmannosamine-6-phosphate 2-epimerase; Provi	93.22
PRK15320	251	transcriptional activator SprB; Provisional	93.16
COG0800	211	Eda 2-keto-3-deoxy-6-phosphogluconate aldolase [Ca	93.11
TIGR02082	1178	metH 5-methyltetrahydrofolate--homocysteine methyl	92.66
TIGR01302	450	IMP_dehydrog inosine-5'-monophosphate dehydrogenas	92.64
PRK07114	222	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	92.64
PRK06843	404	inosine 5-monophosphate dehydrogenase; Validated	92.59
PF13941	457	MutL: MutL protein	92.58
PF02254	116	TrkA_N: TrkA-N domain; InterPro: IPR003148 The reg	92.51
TIGR01303	475	IMP_DH_rel_1 IMP dehydrogenase family protein. Thi	92.5
PRK13111	258	trpA tryptophan synthase subunit alpha; Provisiona	92.38
PRK05096	346	guanosine 5'-monophosphate oxidoreductase; Provisi	92.23
PRK06015	201	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	92.19
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	92.13
cd06533	171	Glyco_transf_WecG_TagA The glycosyltransferase Wec	92.09
PRK06559	290	nicotinate-nucleotide pyrophosphorylase; Provision	91.93
TIGR00262	256	trpA tryptophan synthase, alpha subunit. Tryptopha	91.85
PF04131	192	NanE: Putative N-acetylmannosamine-6-phosphate epi	91.85
PF03328	221	HpcH_HpaI: HpcH/HpaI aldolase/citrate lyase family	91.84
PRK09490	1229	metH B12-dependent methionine synthase; Provisiona	91.64
cd04727	283	pdxS PdxS is a subunit of the pyridoxal 5'-phospha	91.49
PF00478	352	IMPDH: IMP dehydrogenase / GMP reductase domain; I	91.44
PRK06774	191	para-aminobenzoate synthase component II; Provisio	91.4
TIGR00566	188	trpG_papA glutamine amidotransferase of anthranila	91.22
TIGR00693	196	thiE thiamine-phosphate pyrophosphorylase. This mo	91.2
PRK11359	799	cyclic-di-GMP phosphodiesterase; Provisional	91.1
PRK06543	281	nicotinate-nucleotide pyrophosphorylase; Provision	91.07
PRK06096	284	molybdenum transport protein ModD; Provisional	91.06
PRK03562	621	glutathione-regulated potassium-efflux system prot	90.82
PRK14329	467	(dimethylallyl)adenosine tRNA methylthiotransferas	90.79
PRK13566	720	anthranilate synthase; Provisional	90.78
PRK00278	260	trpC indole-3-glycerol-phosphate synthase; Reviewe	90.74
TIGR01579	414	MiaB-like-C MiaB-like tRNA modifying enzyme. This	90.56
cd04729	219	NanE N-acetylmannosamine-6-phosphate epimerase (Na	90.52
TIGR00642	619	mmCoA_mut_beta methylmalonyl-CoA mutase, heterodim	90.49
smart00052	241	EAL Putative diguanylate phosphodiesterase. Putati	90.45
PRK06978	294	nicotinate-nucleotide pyrophosphorylase; Provision	90.42
cd01573	272	modD_like ModD; Quinolinate phosphoribosyl transfe	90.22
PF01408	120	GFO_IDH_MocA: Oxidoreductase family, NAD-binding R	90.11
TIGR00343	287	pyridoxal 5'-phosphate synthase, synthase subunit	90.05
PF03602	183	Cons_hypoth95: Conserved hypothetical protein 95;	90.02
TIGR03151	307	enACPred_II putative enoyl-(acyl-carrier-protein)	90.01
PRK08007	187	para-aminobenzoate synthase component II; Provisio	90.0
CHL00162	267	thiG thiamin biosynthesis protein G; Validated	89.86
PRK07807	479	inosine 5-monophosphate dehydrogenase; Validated	89.78
cd04724	242	Tryptophan_synthase_alpha Ttryptophan synthase (TR	89.76
PRK05637	208	anthranilate synthase component II; Provisional	89.69
PLN02274	505	inosine-5'-monophosphate dehydrogenase	89.61
PRK07649	195	para-aminobenzoate/anthranilate synthase glutamine	89.48
COG3967	245	DltE Short-chain dehydrogenase involved in D-alani	89.37
PRK05670	189	anthranilate synthase component II; Provisional	89.21
PLN02335	222	anthranilate synthase	89.16
cd00381	325	IMPDH IMPDH: The catalytic domain of the inosine m	89.15
PRK10060	663	RNase II stability modulator; Provisional	89.09
TIGR00736	231	nifR3_rel_arch TIM-barrel protein, putative. Membe	89.02
PRK03958	176	tRNA 2'-O-methylase; Reviewed	88.98
PF04131	192	NanE: Putative N-acetylmannosamine-6-phosphate epi	88.88
TIGR01306	321	GMP_reduct_2 guanosine monophosphate reductase, ba	88.76
PRK09016	296	quinolinate phosphoribosyltransferase; Validated	88.35
PF01729	169	QRPTase_C: Quinolinate phosphoribosyl transferase,	88.34
PF03808	172	Glyco_tran_WecB: Glycosyl transferase WecB/TagA/Cp	88.27
COG1908	132	FrhD Coenzyme F420-reducing hydrogenase, delta sub	88.15
PRK05567	486	inosine 5'-monophosphate dehydrogenase; Reviewed	88.09
cd01948	240	EAL EAL domain. This domain is found in diverse ba	87.92
PRK06552	213	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	87.86
PRK06895	190	putative anthranilate synthase component II; Provi	87.66
cd01568	269	QPRTase_NadC Quinolinate phosphoribosyl transferas	87.59
TIGR01319	463	glmL_fam conserved hypothetical protein. This smal	87.49
PRK14974	336	cell division protein FtsY; Provisional	87.41
PF01596	205	Methyltransf_3: O-methyltransferase; InterPro: IPR	87.2
TIGR00064	272	ftsY signal recognition particle-docking protein F	87.13
TIGR00696	177	wecB_tagA_cpsF bacterial polymer biosynthesis prot	87.06
PLN02591	250	tryptophan synthase	86.98
PLN02871	465	UDP-sulfoquinovose:DAG sulfoquinovosyltransferase	86.91
PF14606	178	Lipase_GDSL_3: GDSL-like Lipase/Acylhydrolase fami	86.91
PF04321	286	RmlD_sub_bind: RmlD substrate binding domain; Inte	86.9
PRK14331	437	(dimethylallyl)adenosine tRNA methylthiotransferas	86.69
KOG2550	503	consensus IMP dehydrogenase/GMP reductase [Nucleot	86.31
PTZ00314	495	inosine-5'-monophosphate dehydrogenase; Provisiona	86.16
COG0742	187	N6-adenine-specific methylase [DNA replication, re	85.79
TIGR00089	429	RNA modification enzyme, MiaB family. This subfami	85.73
COG3010	229	NanE Putative N-acetylmannosamine-6-phosphate epim	85.68
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	85.44
PRK07455	187	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	85.32
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	84.97
PRK08072	277	nicotinate-nucleotide pyrophosphorylase; Provision	84.97
COG0157	280	NadC Nicotinate-nucleotide pyrophosphorylase [Coen	84.95
COG3836	255	HpcH 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldola	84.82
cd00564	196	TMP_TenI Thiamine monophosphate synthase (TMP synt	84.82
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	84.71
COG2200	256	Rtn c-di-GMP phosphodiesterase class I (EAL domain	84.14
TIGR03128	206	RuMP_HxlA 3-hexulose-6-phosphate synthase. at the	84.02
cd04723	233	HisA_HisF Phosphoribosylformimino-5-aminoimidazole	83.82
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	83.55
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	83.55
PRK08857	193	para-aminobenzoate synthase component II; Provisio	83.5
COG0621	437	MiaB 2-methylthioadenine synthetase [Translation,	83.44
PF02581	180	TMP-TENI: Thiamine monophosphate synthase/TENI; In	83.38
PF07652	148	Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR	83.21
CHL00101	190	trpG anthranilate synthase component 2	83.1
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	83.0
COG2109	198	BtuR ATP:corrinoid adenosyltransferase [Coenzyme m	82.92
PF00977	229	His_biosynth: Histidine biosynthesis protein; Inte	82.72
COG2022	262	ThiG Uncharacterized enzyme of thiazole biosynthes	82.53
PRK04148	134	hypothetical protein; Provisional	82.43
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	82.35
CHL00200	263	trpA tryptophan synthase alpha subunit; Provisiona	82.31
PRK07414	178	cob(I)yrinic acid a,c-diamide adenosyltransferase;	82.26
COG5012	227	Predicted cobalamin binding protein [General funct	81.89
PRK14333	448	(dimethylallyl)adenosine tRNA methylthiotransferas	81.89
PRK00536	262	speE spermidine synthase; Provisional	81.88
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	81.81
PRK14098	489	glycogen synthase; Provisional	81.67
PF03060	330	NMO: Nitronate monooxygenase; InterPro: IPR004136	81.2
PRK13125	244	trpA tryptophan synthase subunit alpha; Provisiona	81.17
COG0159	265	TrpA Tryptophan synthase alpha chain [Amino acid t	81.1
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	81.03
KOG4175	268	consensus Tryptophan synthase alpha chain [Amino a	80.87
PF02572	172	CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase	80.68
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	80.62
TIGR01815	717	TrpE-clade3 anthranilate synthase, alpha proteobac	80.58
PF00218	254	IGPS: Indole-3-glycerol phosphate synthase; InterP	80.37
PRK00811	283	spermidine synthase; Provisional	80.17
PRK13587	234	1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)met	80.11
PF09456	92	RcsC: RcsC Alpha-Beta-Loop (ABL); InterPro: IPR019	80.03

>COG0745 OmpR Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]

Probab=99.93  E-value=8.1e-25  Score=153.37  Aligned_cols=117  Identities=30%  Similarity=0.520  Sum_probs=110.4

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh-CCCCcEEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM-KVESKIVGV  105 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~-~~~~~ii~l  105 (145)
                      ++||++||++.....+...|+..||.+..+.++++++..+.. . ||+||+|+++|+++|+++++.+|+. ....|||++
T Consensus         1 ~~ILiveDd~~i~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~-~-~dlviLD~~lP~~dG~~~~~~iR~~~~~~~PIi~L   78 (229)
T COG0745           1 MRILLVEDDPELAELLKEYLEEEGYEVDVAADGEEALEAARE-Q-PDLVLLDLMLPDLDGLELCRRLRAKKGSGPPIIVL   78 (229)
T ss_pred             CeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhc-C-CCEEEEECCCCCCCHHHHHHHHHhhcCCCCcEEEE
Confidence            479999999999999999999999999999999999999987 6 9999999999999999999999964 567889999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      |+..+......+++.|||+|++|||++.+|.++++.++++
T Consensus        79 ta~~~~~d~v~gl~~GADDYl~KPf~~~EL~ARi~a~lRR  118 (229)
T COG0745          79 TARDDEEDRVLGLEAGADDYLTKPFSPRELLARLRALLRR  118 (229)
T ss_pred             ECCCcHHHHHHHHhCcCCeeeeCCCCHHHHHHHHHHHHCc
Confidence            9999999999999999999999999999999999998863

>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []

Probab=99.90  E-value=4.2e-22  Score=124.85  Aligned_cols=111  Identities=30%  Similarity=0.540  Sum_probs=106.3

Q ss_pred             EEEEeCCHHHHHHHHHHHHhcCC-eEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEec
Q 045936           29 ALVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        29 vlii~~~~~~~~~l~~~l~~~g~-~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      |+|+|+++..+..++.+|+..|+ .+..+++..+++..+.. ..||++++|+.+++.+|.++++.|++..+.+|++++++
T Consensus         1 Ilivd~~~~~~~~l~~~l~~~~~~~v~~~~~~~~~~~~~~~-~~~d~iiid~~~~~~~~~~~~~~i~~~~~~~~ii~~t~   79 (112)
T PF00072_consen    1 ILIVDDDPEIRELLEKLLERAGYEEVTTASSGEEALELLKK-HPPDLIIIDLELPDGDGLELLEQIRQINPSIPIIVVTD   79 (112)
T ss_dssp             EEEEESSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHH-STESEEEEESSSSSSBHHHHHHHHHHHTTTSEEEEEES
T ss_pred             cEEEECCHHHHHHHHHHHHhCCCCEEEEECCHHHHHHHhcc-cCceEEEEEeeeccccccccccccccccccccEEEecC
Confidence            78999999999999999999999 88899999999999988 67999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHhcccEEeeCCCCHHHHHHHHH
Q 045936          108 RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLE  140 (145)
Q Consensus       108 ~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~  140 (145)
                      ..+......+++.|+++|+.||++.++|..+|+
T Consensus        80 ~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~  112 (112)
T PF00072_consen   80 EDDSDEVQEALRAGADDYLSKPFSPEELRAAIN  112 (112)
T ss_dssp             STSHHHHHHHHHTTESEEEESSSSHHHHHHHHH
T ss_pred             CCCHHHHHHHHHCCCCEEEECCCCHHHHHHhhC
Confidence            999999999999999999999999999999875

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 [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....

>COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]

Probab=99.89  E-value=2.6e-22  Score=151.14  Aligned_cols=116  Identities=28%  Similarity=0.489  Sum_probs=109.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHH--hcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           27 YFALVVDDDPMIRRIHSMILK--SVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~--~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      ++|||+||.+..++.|+.++.  ..|+.++ +++++++|++.+.. .+||++|.|++||.++|+++++.+++..|.+.+|
T Consensus         2 ykVlIVDDE~lIr~GLk~lI~w~~~g~eiVgtA~NG~eAleli~e-~~pDiviTDI~MP~mdGLdLI~~ike~~p~~~~I   80 (475)
T COG4753           2 YKVLIVDDEPLIREGLKSLIDWEALGIEVVGTAANGKEALELIQE-TQPDIVITDINMPGMDGLDLIKAIKEQSPDTEFI   80 (475)
T ss_pred             eeEEEecChHHHHHHHHHhCChhhcCCeEEEecccHHHHHHHHHh-cCCCEEEEecCCCCCcHHHHHHHHHHhCCCceEE
Confidence            689999999999999999995  4588866 99999999999998 7899999999999999999999999999999999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      ++|+..+-+.+..|+..|+.+||.||++.++|..++.++.
T Consensus        81 ILSGy~eFeYak~Am~lGV~dYLLKP~~k~eL~~~L~ki~  120 (475)
T COG4753          81 ILSGYDEFEYAKKAMKLGVKDYLLKPVDKAELEEALKKII  120 (475)
T ss_pred             EEeccchhHHHHHHHhcCchhheeCcCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999998875

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=99.88  E-value=2.1e-21  Score=146.34  Aligned_cols=118  Identities=26%  Similarity=0.440  Sum_probs=113.0

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      ..+||++||++..+..+...|...||.+..+.++++++..+... .+|+|++|..||+++|+++++.+++..|.+|||++
T Consensus         4 ~~~iLvVDDd~~ir~~l~~~L~~~G~~v~~a~~~~~al~~i~~~-~~~lvl~Di~mp~~~Gl~ll~~i~~~~~~~pVI~~   82 (464)
T COG2204           4 MARILVVDDDPDIRELLEQALELAGYEVVTAESAEEALEALSES-PFDLVLLDIRMPGMDGLELLKEIKSRDPDLPVIVM   82 (464)
T ss_pred             cCCEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHhcC-CCCEEEEecCCCCCchHHHHHHHHhhCCCCCEEEE
Confidence            45799999999999999999999999999999999999999984 79999999999999999999999999999999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |++.+-.....|++.||.+|+.||+++++|...+++.++
T Consensus        83 Tg~g~i~~AV~A~k~GA~Dfl~KP~~~~~L~~~v~ral~  121 (464)
T COG2204          83 TGHGDIDTAVEALRLGAFDFLEKPFDLDRLLAIVERALE  121 (464)
T ss_pred             eCCCCHHHHHHHHhcCcceeeeCCCCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999988764

>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]

Probab=99.88  E-value=1.8e-21  Score=131.78  Aligned_cols=116  Identities=24%  Similarity=0.394  Sum_probs=108.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhc-CCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSV-GFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~-g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ++|||+||++...+.-+.++++. ||.++ .+.+.++|...+.. ..||+||+|.-||+.+|++++..+++.+..+-||+
T Consensus         1 i~VLIiEDD~mVaeih~~yv~~~~gF~~vg~A~~~~ea~~~i~~-~~pDLILLDiYmPd~~Gi~lL~~ir~~~~~~DVI~   79 (224)
T COG4565           1 INVLIIEDDPMVAEIHRRYVKQIPGFSVVGTAGTLEEAKMIIEE-FKPDLILLDIYMPDGNGIELLPELRSQHYPVDVIV   79 (224)
T ss_pred             CcEEEEcCchHHHHHHHHHHHhCCCceEEEeeccHHHHHHHHHh-hCCCEEEEeeccCCCccHHHHHHHHhcCCCCCEEE
Confidence            47999999999999999999876 68855 89999999999987 57899999999999999999999999999999999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +|+..+.+.+..+++.|+.|||.||+..++|..+|.+..
T Consensus        80 iTAA~d~~tI~~alr~Gv~DYLiKPf~~eRl~~aL~~y~  118 (224)
T COG4565          80 ITAASDMETIKEALRYGVVDYLIKPFTFERLQQALTRYR  118 (224)
T ss_pred             EeccchHHHHHHHHhcCchhheecceeHHHHHHHHHHHH
Confidence            999999999999999999999999999999999997764

>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]

Probab=99.87  E-value=1.3e-20  Score=130.94  Aligned_cols=118  Identities=31%  Similarity=0.422  Sum_probs=109.8

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcC-CeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVG-FKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g-~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ++|+++||++..+..++..|...+ +.++ .+.++++++..+.. ..||++++|+.||+++|+++++.|++..|.++|++
T Consensus         1 ~~vlivDDh~l~r~gl~~~L~~~~~~~vv~~a~~~~~~l~~~~~-~~pdvvl~Dl~mP~~~G~e~~~~l~~~~p~~~vvv   79 (211)
T COG2197           1 IKVLIVDDHPLVREGLRQLLELEPDLEVVGEASNGEEALDLARE-LKPDVVLLDLSMPGMDGLEALKQLRARGPDIKVVV   79 (211)
T ss_pred             CeEEEECCcHHHHHHHHHHHhhCCCCEEEEEeCCHHHHHHHhhh-cCCCEEEEcCCCCCCChHHHHHHHHHHCCCCcEEE
Confidence            369999999999999999998776 7765 78889999999776 68999999999999999999999999999999999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      +|...++.....+++.|+++|+.|..+++++..+++.+..|
T Consensus        80 lt~~~~~~~v~~al~~Ga~Gyl~K~~~~~~l~~ai~~v~~G  120 (211)
T COG2197          80 LTAHDDPAYVIRALRAGADGYLLKDASPEELVEAIRAVAAG  120 (211)
T ss_pred             EeccCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHCC
Confidence            99999999999999999999999999999999999998754

>COG4566 TtrR Response regulator [Signal transduction mechanisms]

Probab=99.85  E-value=2.6e-20  Score=124.03  Aligned_cols=118  Identities=21%  Similarity=0.299  Sum_probs=110.6

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      ..-|.|+||+...+..+.-+|...||.+.+++++++.+..... ..|.++|+|..||+++|.++...|.+..+..|||++
T Consensus         4 ~~~V~vVDDD~~vr~al~~Ll~s~G~~v~~~~s~~~fL~~~~~-~~pGclllDvrMPg~sGlelq~~L~~~~~~~PVIfi   82 (202)
T COG4566           4 EPLVHVVDDDESVRDALAFLLESAGFQVKCFASAEEFLAAAPL-DRPGCLLLDVRMPGMSGLELQDRLAERGIRLPVIFL   82 (202)
T ss_pred             CCeEEEEcCcHHHHHHHHHHHHhCCceeeeecCHHHHHhhccC-CCCCeEEEecCCCCCchHHHHHHHHhcCCCCCEEEE
Confidence            3468999999999999999999999999999999999998654 579999999999999999999999999999999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |+..+-.....++..||-|||.||++...|..++++.++
T Consensus        83 TGhgDIpmaV~AmK~GAvDFLeKP~~~q~Lldav~~Al~  121 (202)
T COG4566          83 TGHGDIPMAVQAMKAGAVDFLEKPFSEQDLLDAVERALA  121 (202)
T ss_pred             eCCCChHHHHHHHHcchhhHHhCCCchHHHHHHHHHHHH
Confidence            999999999999999999999999999999999987753

>COG3437 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]

Probab=99.83  E-value=1.4e-19  Score=130.99  Aligned_cols=118  Identities=28%  Similarity=0.474  Sum_probs=108.8

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCC---CC
Q 045936           24 NRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKV---ES  100 (145)
Q Consensus        24 ~~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~---~~  100 (145)
                      ...++|+++||.+..+..+..+|+..||.+..+.+++++++.... .++|++++|.+||+++|.+++.+|+...|   .+
T Consensus        12 ~~~~~vl~vDD~~~~~~~~~~lL~~~~y~v~~ae~g~~a~kl~~~-~~~dlvllD~~mp~mdg~ev~~~lk~~~p~t~~i   90 (360)
T COG3437          12 DEKLTVLLVDDEPDNLEALRQLLRMIGYRVIEAENGEEALKLLQE-EPPDLVLLDVRMPEMDGAEVLNKLKAMSPSTRRI   90 (360)
T ss_pred             cccceEEEecCchhHHHHHHHHHHhcccceeeecCchHHHHHhcc-cCCceEEeeccCCCccHHHHHHHHHhcCCccccc
Confidence            346789999999999999999999999999999999999999887 57999999999999999999999999544   57


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      |++++|+..+.+....++..|+++|+.||+++.+|..++...
T Consensus        91 p~i~lT~~~d~~~~~~~~~~g~~dyl~KP~~~~~l~~rv~~~  132 (360)
T COG3437          91 PVILLTAYADSEDRQRALEAGADDYLSKPISPKELVARVSSH  132 (360)
T ss_pred             ceEEEeecCChHHHHHHHHhhHHHHhcCCCCHHHHHHHHHHH
Confidence            899999999999999999999999999999999999988544

>PRK10046 dpiA two-component response regulator DpiA; Provisional

Probab=99.83  E-value=8e-19  Score=122.99  Aligned_cols=117  Identities=18%  Similarity=0.291  Sum_probs=107.0

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhc-CCe-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSV-GFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~-g~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      +.+|+++||++..+..+...|... |+. +..+.++.+++..+.. ..||++++|+.+|+.+|+++++.+++..+.++|+
T Consensus         4 ~~~ilivdd~~~~~~~l~~~L~~~~~~~~v~~a~~~~~al~~~~~-~~pdlvllD~~mp~~~gle~~~~l~~~~~~~~ii   82 (225)
T PRK10046          4 PLTLLIVEDETPLAEMHAEYIRHIPGFSQILLAGNLAQARMMIER-FKPGLILLDNYLPDGRGINLLHELVQAHYPGDVV   82 (225)
T ss_pred             cceEEEECCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHh-cCCCEEEEeCCCCCCcHHHHHHHHHhcCCCCCEE
Confidence            468999999999999999999864 775 6689999999999987 5799999999999999999999999877778999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      ++|+..+......+++.|+++|+.||++.++|..+++++.
T Consensus        83 vls~~~~~~~~~~al~~Ga~~yl~Kp~~~~~L~~~i~~~~  122 (225)
T PRK10046         83 FTTAASDMETVSEAVRCGVFDYLIKPIAYERLGQTLTRFR  122 (225)
T ss_pred             EEEcCCCHHHHHHHHHcCccEEEECCcCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999998764

>PRK10816 DNA-binding transcriptional regulator PhoP; Provisional

Probab=99.82  E-value=2e-18  Score=120.07  Aligned_cols=117  Identities=26%  Similarity=0.417  Sum_probs=109.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      ++|++++|++.....+...|...|+.+..+.+.++++..+.. ..||++++|..+++.+|+++++.+++..+.+|+++++
T Consensus         1 m~iLlv~d~~~~~~~l~~~L~~~g~~v~~~~~~~~~l~~~~~-~~~dlvild~~l~~~~g~~l~~~lr~~~~~~pii~ls   79 (223)
T PRK10816          1 MRVLVVEDNALLRHHLKVQLQDAGHQVDAAEDAKEADYYLNE-HLPDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVLT   79 (223)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhh-CCCCEEEEECCCCCCCHHHHHHHHHhcCCCCCEEEEE
Confidence            479999999999999999999999999999999999998876 5799999999999999999999999887889999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|...++.+++
T Consensus        80 ~~~~~~~~~~~l~~Ga~d~l~kp~~~~eL~~~i~~~~~  117 (223)
T PRK10816         80 ARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMR  117 (223)
T ss_pred             cCCCHHHHHHHHHcCCCeeEeCCCCHHHHHHHHHHHHh
Confidence            99999989999999999999999999999999988764

>PRK09836 DNA-binding transcriptional activator CusR; Provisional

Probab=99.81  E-value=3.5e-18  Score=119.11  Aligned_cols=117  Identities=21%  Similarity=0.370  Sum_probs=108.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      ++|+++++++..+..+...|...|+.+..+.++.+++..+.. ..||++++|+.+++.+|+++++.+++..+.+|+++++
T Consensus         1 m~iliv~d~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~~~-~~~dlvild~~~~~~~g~~~~~~lr~~~~~~pii~ls   79 (227)
T PRK09836          1 MKLLIVEDEKKTGEYLTKGLTEAGFVVDLADNGLNGYHLAMT-GDYDLIILDIMLPDVNGWDIVRMLRSANKGMPILLLT   79 (227)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhh-CCCCEEEEECCCCCCCHHHHHHHHHhcCCCCCEEEEE
Confidence            479999999999999999999999998899999999988876 5799999999999999999999999887889999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ...+......+++.|+++|+.||++.++|..+++.+++
T Consensus        80 ~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~  117 (227)
T PRK09836         80 ALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLR  117 (227)
T ss_pred             cCCCHHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999987764

>PRK10840 transcriptional regulator RcsB; Provisional

Probab=99.80  E-value=6e-18  Score=117.72  Aligned_cols=119  Identities=18%  Similarity=0.224  Sum_probs=107.3

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCC-e-EEEecCHHHHHHHHhcCCCccEEEEeCCCCC---CCHHHHHHHHHhhCCCC
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGF-K-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPV---MDGIEATKAMRAMKVES  100 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~-~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~---~~g~~~~~~l~~~~~~~  100 (145)
                      +++|+++||++..+..+...|...++ . +..+.++++++..+.. ..||++++|+.+++   .+|.++++.+++..|.+
T Consensus         3 ~~~Ilivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~~~~~~~~-~~~DlvllD~~l~~~~~~~g~~~~~~l~~~~~~~   81 (216)
T PRK10840          3 NMNVIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNLPK-LDAHVLITDLSMPGDKYGDGITLIKYIKRHFPSL   81 (216)
T ss_pred             ceEEEEECCcHHHHHHHHHHHhcCCCCEEEEEECCHHHHHHHHHh-CCCCEEEEeCcCCCCCCCCHHHHHHHHHHHCCCC
Confidence            46899999999999999999987664 4 5578999999998876 57999999999998   48999999999888899


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      |||+++...+......+++.|+++|+.||.++++|..+++.+..|
T Consensus        82 ~iIvls~~~~~~~~~~a~~~Ga~~yl~K~~~~~~l~~ai~~v~~g  126 (216)
T PRK10840         82 SIIVLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQKG  126 (216)
T ss_pred             cEEEEEecCCHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHHHCC
Confidence            999999999999999999999999999999999999999887653

>PRK09468 ompR osmolarity response regulator; Provisional

Probab=99.80  E-value=9.7e-18  Score=117.81  Aligned_cols=118  Identities=26%  Similarity=0.460  Sum_probs=109.5

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      ..+|+++++++.....+...|...||.+..+.++++++..+.. ..||++++|..+++.+|+++++.+++..+.+|++++
T Consensus         5 ~~~iLiv~d~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~~~-~~~dlvild~~l~~~~g~~~~~~lr~~~~~~pii~l   83 (239)
T PRK09468          5 NYKILVVDDDMRLRALLERYLTEQGFQVRSAANAEQMDRLLTR-ESFHLMVLDLMLPGEDGLSICRRLRSQNNPTPIIML   83 (239)
T ss_pred             CCeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEEEE
Confidence            4589999999999999999999999999999999999998876 579999999999999999999999988788999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++..+......++..|+++|+.||++.++|...++.+++
T Consensus        84 s~~~~~~~~~~~l~~Ga~~~l~kP~~~~~L~~~i~~~~~  122 (239)
T PRK09468         84 TAKGEEVDRIVGLEIGADDYLPKPFNPRELLARIRAVLR  122 (239)
T ss_pred             ECCCcHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHhc
Confidence            999998888899999999999999999999999988764

>COG0784 CheY FOG: CheY-like receiver [Signal transduction mechanisms]

Probab=99.80  E-value=1.4e-17  Score=106.74  Aligned_cols=118  Identities=33%  Similarity=0.555  Sum_probs=103.2

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHH-HHHHHHhcCC-CccEEEEeCCCCCCCHHHHHHHHHhhCCCCcE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGK-EAVDLFRTGA-KFHIVFIDMEMPVMDGIEATKAMRAMKVESKI  102 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~-~~l~~l~~~~-~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~i  102 (145)
                      ...+||++||++..+..+...|...|+.+..+.++. +++..++. . .||++++|.+||+++|+++++.+++..+..|+
T Consensus         4 ~~~~vLivdD~~~~~~~~~~~l~~~g~~v~~a~~g~~~al~~~~~-~~~~dlii~D~~mp~~~G~~~~~~l~~~~~~~pv   82 (130)
T COG0784           4 SGLRVLVVDDEPVNRRLLKRLLEDLGYEVVEAADGEEEALELLRE-LPQPDLILLDINMPGMDGIELLRRLRARGPNIPV   82 (130)
T ss_pred             CCcEEEEEcCCHHHHHHHHHHHHHcCCeEEEeCChHHHHHHHHHh-CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCCCCE
Confidence            356899999999999999999999999999999995 99999987 5 49999999999999999999999998667777


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHH-HHHHHHHHh
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAK-IVPLLEELQ  143 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~-l~~~l~~~~  143 (145)
                      +++|+.........++..|+++|+.||+...+ +...+++.+
T Consensus        83 v~~t~~~~~~~~~~~~~~g~~~~l~kP~~~~~~l~~~i~~~~  124 (130)
T COG0784          83 ILLTAYADEADRERALAAGADDYLTKPIFLEEELLAALRRLL  124 (130)
T ss_pred             EEEEcCcCHHHHHHHHHcCCCeEEcCCCCcHHHHHHHHHHHH
Confidence            77888887776677789999999999977777 777776554

>PRK10643 DNA-binding transcriptional regulator BasR; Provisional

Probab=99.80  E-value=1e-17  Score=116.00  Aligned_cols=117  Identities=21%  Similarity=0.407  Sum_probs=108.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      ++|++++|++..+..+...|...|+.+..+.+..+++..+.. ..||++++|..+++.+|+++++.++...+..|+++++
T Consensus         1 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~-~~~d~illd~~~~~~~g~~~~~~l~~~~~~~pii~ls   79 (222)
T PRK10643          1 MKILIVEDDTLLLQGLILALQTEGYACDCASTAREAEALLES-GHYSLVVLDLGLPDEDGLHLLRRWRQKKYTLPVLILT   79 (222)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHh-CCCCEEEEECCCCCCCHHHHHHHHHhcCCCCcEEEEE
Confidence            479999999999999999999999998899999999998876 5799999999999999999999999887889999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ...+......++..|+++|+.||++.+++...++.+.+
T Consensus        80 ~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~  117 (222)
T PRK10643         80 ARDTLEDRVAGLDVGADDYLVKPFALEELHARIRALIR  117 (222)
T ss_pred             CCCCHHHHHHHHhcCCCeEEeCCCCHHHHHHHHHHHHh
Confidence            99998889999999999999999999999999887653

>PRK10336 DNA-binding transcriptional regulator QseB; Provisional

Probab=99.80  E-value=1.1e-17  Score=115.76  Aligned_cols=117  Identities=24%  Similarity=0.392  Sum_probs=107.8

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      ++|++++|++.....+...|...|+.+..+.+..+++..+.. ..||++++|..+++.+|.++++.+++..+.+|+++++
T Consensus         1 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~-~~~dlvild~~l~~~~g~~~~~~i~~~~~~~~ii~lt   79 (219)
T PRK10336          1 MRILLIEDDMLIGDGIKTGLSKMGFSVDWFTQGRQGKEALYS-APYDAVILDLTLPGMDGRDILREWREKGQREPVLILT   79 (219)
T ss_pred             CeEEEEcCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhh-CCCCEEEEECCCCCCCHHHHHHHHHhcCCCCcEEEEE
Confidence            479999999999999999999889998889999999998876 5799999999999999999999999888889999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ...+......++..|+++|+.||++.++|..+++.+++
T Consensus        80 ~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~  117 (219)
T PRK10336         80 ARDALAERVEGLRLGADDYLCKPFALIEVAARLEALMR  117 (219)
T ss_pred             CCCCHHHHHHHHhCCCCeEEECCCCHHHHHHHHHHHHh
Confidence            99998888999999999999999999999999887653

>PRK10529 DNA-binding transcriptional activator KdpE; Provisional

Probab=99.80  E-value=1.4e-17  Score=115.84  Aligned_cols=116  Identities=24%  Similarity=0.365  Sum_probs=106.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .+|+++||++..+..+...|...|+.+..+.+..+++..+.. ..||++++|+.+++.+|.++++.+++. +..|+++++
T Consensus         2 ~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~~~-~~~dlvild~~l~~~~g~~~~~~lr~~-~~~pvi~lt   79 (225)
T PRK10529          2 TNVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAAT-RKPDLIILDLGLPDGDGIEFIRDLRQW-SAIPVIVLS   79 (225)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHcC-CCCCEEEEE
Confidence            479999999999999999999999999899999999988876 579999999999999999999999874 578999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+......++..|+++|+.||++.++|...++.+++
T Consensus        80 ~~~~~~~~~~~~~~ga~~~l~kP~~~~~l~~~i~~~~~  117 (225)
T PRK10529         80 ARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALR  117 (225)
T ss_pred             CCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHh
Confidence            99888889999999999999999999999999987654

>PRK11173 two-component response regulator; Provisional

Probab=99.79  E-value=1.3e-17  Score=117.09  Aligned_cols=116  Identities=21%  Similarity=0.376  Sum_probs=106.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .+|++++|++.....+...|+..|+.+..+.++.+++..+.. ..||++++|+.+++.+|+++++.+++. +..|+++++
T Consensus         4 ~~iLiv~dd~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~~~-~~~dlvild~~l~~~~g~~~~~~lr~~-~~~pii~lt   81 (237)
T PRK11173          4 PHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSE-NDINLVIMDINLPGKNGLLLARELREQ-ANVALMFLT   81 (237)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhh-CCCCEEEEcCCCCCCCHHHHHHHHhcC-CCCCEEEEE
Confidence            479999999999999999999999999999999999999887 579999999999999999999999875 578999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+......++..|+++|+.||++.++|...++.+++
T Consensus        82 ~~~~~~~~~~~~~~ga~d~l~kP~~~~eL~~~i~~~l~  119 (237)
T PRK11173         82 GRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLS  119 (237)
T ss_pred             CCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHh
Confidence            98888888889999999999999999999998887664

>COG4567 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]

Probab=99.79  E-value=3.6e-18  Score=109.95  Aligned_cols=114  Identities=25%  Similarity=0.269  Sum_probs=108.8

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEec
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      +.||+||+..+...|...+++.||.+..+++.++++..++. ..|.-.++|+.+.+.+|+.+++.|++..+++.++++|+
T Consensus        11 ~lllvdDD~~f~~~LaRa~e~RGf~v~~a~~~~eal~~art-~~PayAvvDlkL~~gsGL~~i~~lr~~~~d~rivvLTG   89 (182)
T COG4567          11 SLLLVDDDTPFLRTLARAMERRGFAVVTAESVEEALAAART-APPAYAVVDLKLGDGSGLAVIEALRERRADMRIVVLTG   89 (182)
T ss_pred             eeEEecCChHHHHHHHHHHhccCceeEeeccHHHHHHHHhc-CCCceEEEEeeecCCCchHHHHHHHhcCCcceEEEEec
Confidence            68999999999999999999999999999999999999998 68999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936          108 RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       108 ~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      +.+-.....+...|+.+||.||-+.+.+..++.+-
T Consensus        90 y~sIATAV~AvKlGA~~YLaKPAdaDdi~aAl~~~  124 (182)
T COG4567          90 YASIATAVEAVKLGACDYLAKPADADDILAALLRR  124 (182)
T ss_pred             chHHHHHHHHHHhhhhhhcCCCCChHHHHHHHhhc
Confidence            99999999999999999999999999999887543

>PRK10161 transcriptional regulator PhoB; Provisional

Probab=99.79  E-value=1.8e-17  Score=115.62  Aligned_cols=117  Identities=25%  Similarity=0.369  Sum_probs=107.4

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC--CCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK--VESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~--~~~~ii~  104 (145)
                      .+|+++||++.....+...|...|+.+..+.+.++++..+.. ..||++++|..+++.+|.++++.+++..  +.+|+++
T Consensus         3 ~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~~~-~~~dlvild~~l~~~~g~~~~~~l~~~~~~~~~pvi~   81 (229)
T PRK10161          3 RRILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNE-PWPDLILLDWMLPGGSGIQFIKHLKRESMTRDIPVVM   81 (229)
T ss_pred             CeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhc-cCCCEEEEeCCCCCCCHHHHHHHHHhccccCCCCEEE
Confidence            579999999999999999999889999899999999998876 5799999999999999999999998753  6789999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++..+......++..|+++|+.||++.++|...++.+++
T Consensus        82 ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~L~~~i~~~~~  121 (229)
T PRK10161         82 LTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMR  121 (229)
T ss_pred             EECCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHh
Confidence            9999988889999999999999999999999999987764

>PRK11083 DNA-binding response regulator CreB; Provisional

Probab=99.79  E-value=2.2e-17  Score=114.73  Aligned_cols=117  Identities=26%  Similarity=0.388  Sum_probs=107.8

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .+|++++|++.....+...|...|+.+..+.+..+++..+.. ..||++++|+.+++.+|+++++.+++..+.+|+++++
T Consensus         4 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~-~~~dlvl~d~~~~~~~g~~~~~~l~~~~~~~~ii~ls   82 (228)
T PRK11083          4 PTILLVEDEQAIADTLVYALQSEGFTVEWFERGLPALDKLRQ-QPPDLVILDVGLPDISGFELCRQLLAFHPALPVIFLT   82 (228)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEEcCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhhCCCCCEEEEE
Confidence            579999999999999999999889998889999999998876 5799999999999999999999999987889999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+......++..|+++|+.||++.++|..+++.+++
T Consensus        83 ~~~~~~~~~~a~~~Ga~~~l~kp~~~~~l~~~i~~~~~  120 (228)
T PRK11083         83 ARSDEVDRLVGLEIGADDYVAKPFSPREVAARVRTILR  120 (228)
T ss_pred             cCCcHHHHHHHhhcCCCeEEECCCCHHHHHHHHHHHHC
Confidence            98888888889999999999999999999999987654

>TIGR03787 marine_sort_RR proteobacterial dedicated sortase system response regulator

Probab=99.79  E-value=2.2e-17  Score=115.05  Aligned_cols=116  Identities=21%  Similarity=0.316  Sum_probs=106.4

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCC--CCHHHHHHHHHhhCCCCcEEEE
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPV--MDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~--~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      +|++++|++..+..+...|...||.+..+.+.++++..+.. ..||++++|+.+++  .+|.++++.++...+..|++++
T Consensus         2 ~iLivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~-~~~dlvild~~l~~~~~~g~~~~~~i~~~~~~~pii~l   80 (227)
T TIGR03787         2 RIAIVEDEAAIRENYADALKRQGYQVTTYADRPSAMQAFRQ-RLPDLAIIDIGLGEEIDGGFMLCQDLRSLSATLPIIFL   80 (227)
T ss_pred             eEEEEeCCHHHHHHHHHHHHHCCcEEEEecCHHHHHHHHHh-CCCCEEEEECCCCCCCCCHHHHHHHHHhcCCCCCEEEE
Confidence            58999999999999999999889998888999999998876 57999999999997  4899999999988788999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++..+......++..|+++|+.||++.+++..+++.+++
T Consensus        81 s~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~  119 (227)
T TIGR03787        81 TARDSDFDTVSGLRLGADDYLTKDISLPHLLARITALFR  119 (227)
T ss_pred             ECCCCHHHHHHHHhcCCCEEEECCCCHHHHHHHHHHHHH
Confidence            999998889999999999999999999999999987764

This model describes a family of DNA-binding response regulator proteins, associated with an adjacent histidine kinase (TIGR03785) to form a two-component system. This system co-occurs with, and often is adjacent to, a proteobacterial variant form of the protein sorting transpeptidase called sortase (TIGR03784), and a single target protein for the sortase. We give this protein the gene symbol pdsR, for Proteobacterial Dedicated Sortase system Response regulator.

>COG3706 PleD Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]

Probab=99.79  E-value=1.2e-17  Score=125.35  Aligned_cols=119  Identities=28%  Similarity=0.397  Sum_probs=111.5

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC--CCCcE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK--VESKI  102 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~--~~~~i  102 (145)
                      ...+||++||+...+..++..|...||.+..++++.+|+..+.+ .+||+||+|+.||.++|+++++.+|+..  ..+|+
T Consensus       131 ~~~kILvvdD~~~~~~~l~~~L~~~g~~v~~a~~~~~Al~~~~e-~~~dlil~d~~mp~~dg~el~~~lr~~~~t~~ipi  209 (435)
T COG3706         131 APKKILVVDDDATQRERLRRILQVEGFRVVEATDGEEALLQLAE-LPPDLVLLDANMPDMDGLELCTRLRQLERTRDIPI  209 (435)
T ss_pred             cCceEEEEcCcHHHHHHHHHHHHhccceeeeecCHHHHHHHHhc-CCCcEEEEecCCCccCHHHHHHHHhcccccccccE
Confidence            45799999999999999999999999999999999999999987 5899999999999999999999999864  46899


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |++++..+......+++.|++||+.||++..++..++++.++
T Consensus       210 i~~~~~~d~~~~~~Af~~G~~Dyi~kPi~~~~l~~Rl~~~l~  251 (435)
T COG3706         210 ILLSSKDDDELVVRAFELGVNDYITKPIEEGELRARLRRQLR  251 (435)
T ss_pred             EEEecccchHHHHHHHHcCCcceEecCCCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999888764

>PRK10766 DNA-binding transcriptional regulator TorR; Provisional

Probab=99.79  E-value=2.5e-17  Score=114.27  Aligned_cols=116  Identities=26%  Similarity=0.450  Sum_probs=106.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .+|+++++++.....+...|...||.+..+.++++++..+.. ..||++++|..+++.+|.++++.+++. +..|+++++
T Consensus         3 ~~iLlv~d~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~-~~~dlvild~~l~~~~g~~~~~~lr~~-~~~~ii~l~   80 (221)
T PRK10766          3 YHILVVEDEPVTRARLQGYFEQEGYTVSEAASGAGMREIMQN-QHVDLILLDINLPGEDGLMLTRELRSR-STVGIILVT   80 (221)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhC-CCCCEEEEE
Confidence            579999999999999999999999999999999999998876 579999999999999999999999875 578999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+......++..|+++|+.||++.++|...++.+++
T Consensus        81 ~~~~~~~~~~~l~~Ga~d~l~kP~~~~~L~~~i~~~~~  118 (221)
T PRK10766         81 GRTDSIDRIVGLEMGADDYVTKPLELRELLVRVKNLLW  118 (221)
T ss_pred             CCCcHHHHHHHHHcCCCcEEeCCCCHHHHHHHHHHHHh
Confidence            99888888899999999999999999999998877653

>PRK09958 DNA-binding transcriptional activator EvgA; Provisional

Probab=99.78  E-value=2.6e-17  Score=112.81  Aligned_cols=117  Identities=23%  Similarity=0.327  Sum_probs=107.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      ++|+++++++.....+...|+..|+.+. .+.+.++++..+.. ..||++++|..+++.+|.++++.++...+..|++++
T Consensus         1 m~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~~-~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~ii~l   79 (204)
T PRK09958          1 MNAIIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVET-LKPDIVIIDVDIPGVNGIQVLETLRKRQYSGIIIIV   79 (204)
T ss_pred             CcEEEECCcHHHHHHHHHHHhcCCCEEEEEeCCHHHHHHHHHc-cCCCEEEEeCCCCCCCHHHHHHHHHhhCCCCeEEEE
Confidence            4799999999999999999988899876 78999999998886 579999999999999999999999998888899999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++..+......++..|+++|+.||++.++|..+++.+++
T Consensus        80 s~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~  118 (204)
T PRK09958         80 SAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKN  118 (204)
T ss_pred             eCCCCHHHHHHHHHCCCCEEEecCCCHHHHHHHHHHHHc
Confidence            998888889999999999999999999999999988764

>TIGR02154 PhoB phosphate regulon transcriptional regulatory protein PhoB

Probab=99.78  E-value=3.1e-17  Score=113.69  Aligned_cols=117  Identities=26%  Similarity=0.432  Sum_probs=107.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh--CCCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM--KVESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~--~~~~~ii~  104 (145)
                      .+|++++|++..+..+...|...|+.+..+.+.++++..+.. ..||++++|..+++.+|+++++.++..  .+..|+++
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~-~~~d~vi~d~~~~~~~g~~~~~~l~~~~~~~~~~ii~   81 (226)
T TIGR02154         3 RRILVVEDEPAIRELIAYNLEKAGYDVVEAGDGDEALTLINE-RGPDLILLDWMLPGTSGIELCRRLRRRPETRAIPIIM   81 (226)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEEcCHHHHHHHHHh-cCCCEEEEECCCCCCcHHHHHHHHHccccCCCCCEEE
Confidence            579999999999999999999889998889999999998876 579999999999999999999999875  35789999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++..+......++..|+++|+.||++.++|...++.+++
T Consensus        82 ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~  121 (226)
T TIGR02154        82 LTARGEEEDRVRGLETGADDYITKPFSPRELLARIKAVLR  121 (226)
T ss_pred             EecCCCHHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHhc
Confidence            9999988888999999999999999999999999988764

PhoB is a DNA-binding response regulator protein acting with PhoR in a 2-component system responding to phosphate ion. PhoB acts as a positive regulator of gene expression for phosphate-related genes such as phoA, phoS, phoE and ugpAB as well as itself. It is often found proximal to genes for the high-affinity phosphate ABC transporter (pstSCAB; GenProp0190) and presumably regulates these as well.

>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional

Probab=99.78  E-value=2.1e-17  Score=135.57  Aligned_cols=118  Identities=31%  Similarity=0.575  Sum_probs=111.3

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ...+||++||++..+..+...|+..||.+..+.++++++..+.. ..||+||+|.+||+++|+++++.+++..+.+|||+
T Consensus       800 ~~~~ILvVdD~~~~~~~l~~~L~~~G~~v~~a~~g~eal~~l~~-~~~DlVl~D~~mP~mdG~el~~~ir~~~~~~pII~  878 (924)
T PRK10841        800 DDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSK-NHIDIVLTDVNMPNMDGYRLTQRLRQLGLTLPVIG  878 (924)
T ss_pred             CCCEEEEECCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHh-CCCCEEEEcCCCCCCCHHHHHHHHHhcCCCCCEEE
Confidence            45789999999999999999999999999999999999999987 67999999999999999999999999888899999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +|+....+....+++.|+++|+.||++.++|...+.+..
T Consensus       879 lTa~~~~~~~~~~~~aG~d~~L~KPv~~~~L~~~L~~~~  917 (924)
T PRK10841        879 VTANALAEEKQRCLEAGMDSCLSKPVTLDVLKQTLTVYA  917 (924)
T ss_pred             EECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999998764

>PLN03029 type-a response regulator protein; Provisional

Probab=99.78  E-value=3.9e-17  Score=114.36  Aligned_cols=118  Identities=19%  Similarity=0.385  Sum_probs=104.6

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcC-------------------CCccEEEEeCCCCCCC
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTG-------------------AKFHIVFIDMEMPVMD   85 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~-------------------~~~dlil~d~~~~~~~   85 (145)
                      ..++||+++|++..+..+...|+..||.+..+.++.+++..+...                   ..+|+||+|+.|++++
T Consensus         7 ~~~~VLiVdd~~~~~~~l~~~L~~~g~~v~~a~sg~~al~~l~~~~~d~~~p~~~~~~~~~~~~~~~dlVllD~~mp~~~   86 (222)
T PLN03029          7 SQFHVLAVDDSLIDRKLIEKLLKTSSYQVTTVDSGSKALKFLGLHEDDRSNPDTPSVSPNSHQEVEVNLIITDYCMPGMT   86 (222)
T ss_pred             CCccEEEEeCCHHHHHHHHHHHHHcCceEEEECCHHHHHHHHHhccccccccccccccccccccccCCEEEEcCCCCCCC
Confidence            567999999999999999999999999999999999999987531                   1367999999999999


Q ss_pred             HHHHHHHHHhhC--CCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936           86 GIEATKAMRAMK--VESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus        86 g~~~~~~l~~~~--~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      |+++++.+++..  +.+|+|++++.........+++.|+++|+.||++..+|...+..+
T Consensus        87 G~e~l~~ir~~~~~~~ipvIils~~~~~~~~~~al~~Ga~dyl~KP~~~~~L~~l~~~~  145 (222)
T PLN03029         87 GYDLLKKIKESSSLRNIPVVIMSSENVPSRITRCLEEGAEEFFLKPVQLSDLNRLKPHM  145 (222)
T ss_pred             HHHHHHHHHhccccCCCcEEEEeCCCCHHHHHHHHHhCchheEECCCCHHHHHHHHHHH
Confidence            999999999863  578999999999999999999999999999999999997765443

>PRK11466 hybrid sensory histidine kinase TorS; Provisional

Probab=99.78  E-value=1.7e-17  Score=135.97  Aligned_cols=120  Identities=18%  Similarity=0.320  Sum_probs=110.9

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      .+.+|+++||++..+..+...|...||.+..+.++.+++..+....+||+||+|+.||+++|+++++.+++..+.+|+++
T Consensus       680 ~~~~vLivdD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~~~~~Dlvl~D~~mp~~~G~~~~~~lr~~~~~~~ii~  759 (914)
T PRK11466        680 DGLRLLLIEDNPLTQRITAEMLNTSGAQVVAVGNAAQALETLQNSEPFAAALVDFDLPDYDGITLARQLAQQYPSLVLIG  759 (914)
T ss_pred             CCcceEEEeCCHHHHHHHHHHHHhcCCceEEeCCHHHHHHHHHcCCCCCEEEEeCCCCCCCHHHHHHHHHhhCCCCCEEE
Confidence            45689999999999999999999999999999999999998865356899999999999999999999999888999999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++.........++..|+++|+.||++.++|...++++++
T Consensus       760 ~t~~~~~~~~~~~~~~g~~~~l~KP~~~~~L~~~i~~~~~  799 (914)
T PRK11466        760 FSAHVIDETLRQRTSSLFRGIIPKPVPREVLGQLLAHYLQ  799 (914)
T ss_pred             EeCCCchhhHHHHHhcCcCCEEeCCCCHHHHHHHHHHHhh
Confidence            9999999999999999999999999999999999988753

>CHL00148 orf27 Ycf27; Reviewed

Probab=99.77  E-value=6.9e-17  Score=113.19  Aligned_cols=118  Identities=27%  Similarity=0.441  Sum_probs=107.2

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ..++|++++|++.....+...|...|+.+..+.+..+++..+.. ..||++++|+.+++.+|+++++.++.. +.+|+++
T Consensus         5 ~~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~l~~~~~-~~~d~illd~~~~~~~g~~~~~~l~~~-~~~~ii~   82 (240)
T CHL00148          5 SKEKILVVDDEAYIRKILETRLSIIGYEVITASDGEEALKLFRK-EQPDLVILDVMMPKLDGYGVCQEIRKE-SDVPIIM   82 (240)
T ss_pred             CCceEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHhc-CCCcEEE
Confidence            35689999999999999999999889998888999999998876 579999999999999999999999875 6899999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++..+......++..|+++|+.||++.++|..+++.+++
T Consensus        83 ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~L~~~i~~~~~  122 (240)
T CHL00148         83 LTALGDVSDRITGLELGADDYVVKPFSPKELEARIRSVLR  122 (240)
T ss_pred             EECCCCHHhHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHh
Confidence            9999888888899999999999999999999999987653

>PRK10955 DNA-binding transcriptional regulator CpxR; Provisional

Probab=99.77  E-value=4.7e-17  Score=113.51  Aligned_cols=114  Identities=28%  Similarity=0.497  Sum_probs=104.8

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEec
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      +|++++|++..+..+...|...|+.+..+.+.++++..+..  .||++++|+.+++.+|.++++.++...+ .|+++++.
T Consensus         3 ~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~--~~d~vl~d~~~~~~~g~~~~~~l~~~~~-~~ii~lt~   79 (232)
T PRK10955          3 KILLVDDDRELTSLLKELLEMEGFNVIVAHDGEQALDLLDD--SIDLLLLDVMMPKKNGIDTLKELRQTHQ-TPVIMLTA   79 (232)
T ss_pred             eEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHhhc--CCCEEEEeCCCCCCcHHHHHHHHHhcCC-CcEEEEEC
Confidence            79999999999999999999889998899999999998753  5999999999999999999999998776 89999999


Q ss_pred             CCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          108 RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       108 ~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ..+......+++.|+++|+.||++.++|..+++.+++
T Consensus        80 ~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~  116 (232)
T PRK10955         80 RGSELDRVLGLELGADDYLPKPFNDRELVARIRAILR  116 (232)
T ss_pred             CCCHHHHHHHHHcCCCEEEcCCCCHHHHHHHHHHHHh
Confidence            8888888899999999999999999999999988764

>PRK09483 response regulator; Provisional

Probab=99.77  E-value=5.6e-17  Score=112.17  Aligned_cols=118  Identities=29%  Similarity=0.401  Sum_probs=107.8

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhc-CCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSV-GFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~-g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ++|+++|+++..+..+...|... |+.+. .+++.++++..+.. ..||++++|+.+++.+|.++++.+++..+.+|+++
T Consensus         2 ~~ilivd~~~~~~~~l~~~L~~~~~~~~v~~~~~~~~~~~~~~~-~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~ii~   80 (217)
T PRK09483          2 INVLLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWCRT-NAVDVVLMDMNMPGIGGLEATRKILRYTPDVKIIM   80 (217)
T ss_pred             eEEEEECCcHHHHHHHHHHHccCCCCEEEEEeCCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHHHCCCCeEEE
Confidence            47999999999999999999874 78865 78999999998887 57999999999999999999999998888999999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      ++...+......++..|+++|+.||++.+++..+++.+.++
T Consensus        81 ls~~~~~~~~~~~~~~g~~~~l~k~~~~~~l~~~i~~~~~g  121 (217)
T PRK09483         81 LTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSG  121 (217)
T ss_pred             EeCCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHCC
Confidence            99999998889999999999999999999999999887653

>KOG0519 consensus Sensory transduction histidine kinase [Signal transduction mechanisms]

Probab=99.77  E-value=1.7e-17  Score=133.67  Aligned_cols=120  Identities=32%  Similarity=0.566  Sum_probs=111.9

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh-CCCCcEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM-KVESKIV  103 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~-~~~~~ii  103 (145)
                      ++.+||++||++..+......|+.+|..+..+.++.+|+..+.....||+||+|++||.+||++..+.||+. ..+.|||
T Consensus       665 ~g~~iLlvddn~vn~~Va~~~l~~~g~~~~~~~sg~e~l~~~~~~~~y~~ifmD~qMP~mDG~e~~~~irk~~~~~~pIv  744 (786)
T KOG0519|consen  665 TGPKILLVDDNPVNRKVATGMLKKLGAEVTEVNSGQEALDKLKPPHSYDVIFMDLQMPEMDGYEATREIRKKERWHLPIV  744 (786)
T ss_pred             cCCceEEEecccchHHHHHHHHHHhCCeeEeecCcHHHHHhcCCCCcccEEEEEcCCcccchHHHHHHHHHhhcCCCCEE
Confidence            467899999999999999999999999999888999999999854689999999999999999999999985 4689999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++|+..+++...++++.|.|+|+.||++.+.+...+++.+.
T Consensus       745 AlTa~~~~~~~~~c~~~Gmd~yl~KP~~~~~l~~~l~~~~~  785 (786)
T KOG0519|consen  745 ALTADADPSTEEECLEVGMDGYLSKPFTLEKLVKILREFLL  785 (786)
T ss_pred             EEecCCcHHHHHHHHHhCCceEEcccccHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999988764

>TIGR01387 cztR_silR_copR heavy metal response regulator

Probab=99.77  E-value=6.1e-17  Score=111.74  Aligned_cols=115  Identities=22%  Similarity=0.416  Sum_probs=106.6

Q ss_pred             EEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecC
Q 045936           29 ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSR  108 (145)
Q Consensus        29 vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~  108 (145)
                      |+++++++..+..+...|...|+.+..+.+..+++..+.. ..||++++|+.+++.+|.++++.+++..+.+|+++++..
T Consensus         1 iliidd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~-~~~dlvl~d~~~~~~~g~~~~~~l~~~~~~~~iivls~~   79 (218)
T TIGR01387         1 ILVVEDEQKTAEYLQQGLSESGYVVDAASNGRDGLHLALK-DDYDLIILDVMLPGMDGWQILQTLRRSGKQTPVLFLTAR   79 (218)
T ss_pred             CEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHccCCCCcEEEEEcC
Confidence            5899999999999999999889988899999999998876 579999999999999999999999988888999999999


Q ss_pred             CChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          109 NSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       109 ~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      .+......++..|+++|+.||++.+++...++.+++
T Consensus        80 ~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~  115 (218)
T TIGR01387        80 DSVADKVKGLDLGADDYLVKPFSFSELLARVRTLLR  115 (218)
T ss_pred             CCHHHHHHHHHcCCCeEEECCCCHHHHHHHHHHHhc
Confidence            999999999999999999999999999999987654

Members of this family contain a response regulator receiver domain (Pfam:PF00072) and an associated transcriptional regulatory region (Pfam:PF00486). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc. Most members encoded by genes adjacent to genes for encoding a member of the heavy metal sensor histidine kinase family (TIGRFAMs:TIGR01386), its partner in the two-component response regulator system.

>PRK10430 DNA-binding transcriptional activator DcuR; Provisional

Probab=99.77  E-value=6.7e-17  Score=114.16  Aligned_cols=116  Identities=16%  Similarity=0.311  Sum_probs=103.4

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhc-CCeEE-EecCHHHHHHHHhc-CCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSV-GFKVE-VAENGKEAVDLFRT-GAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~-g~~v~-~~~~~~~~l~~l~~-~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      ++|+++||++..+..+...|... |+.+. .++++.+++..+.. ...||++|+|+.+|+.+|+++++.+++..+.+|++
T Consensus         2 ~~VLivdd~~~~~~~l~~~L~~~~~~~~~~~~~~~~~a~~~~~~~~~~~DlvilD~~~p~~~G~eli~~l~~~~~~~~vI   81 (239)
T PRK10430          2 INVLIVDDDAMVAELNRRYVAQIPGFQCCGTASTLEQAKEIIFNSDTPIDLILLDIYMQQENGLDLLPVLHEAGCKSDVI   81 (239)
T ss_pred             eeEEEEcCCHHHHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhcCCCCCEEEEecCCCCCCcHHHHHHHHhhCCCCCEE
Confidence            57999999999999999999764 67644 78899999888752 24699999999999999999999999988899999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      ++++..+......++..|+++|+.||++.++|..++++.
T Consensus        82 ~ls~~~~~~~~~~al~~Ga~~yl~Kp~~~~~l~~~i~~~  120 (239)
T PRK10430         82 VISSAADAATIKDSLHYGVVDYLIKPFQASRFEEALTGW  120 (239)
T ss_pred             EEECCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHH
Confidence            999999999999999999999999999999999998753

>PRK11517 transcriptional regulatory protein YedW; Provisional

Probab=99.77  E-value=9.4e-17  Score=111.35  Aligned_cols=116  Identities=16%  Similarity=0.391  Sum_probs=106.2

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      ++|+++++++.....+...|...|+.+..+.+.++++..+.. ..||++++|..+++.+|.++++.+++. +..|+++++
T Consensus         1 m~iliv~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~l~~~~~-~~~dlvi~d~~~~~~~g~~~~~~l~~~-~~~~ii~ls   78 (223)
T PRK11517          1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALK-DDYALIILDIMLPGMDGWQILQTLRTA-KQTPVICLT   78 (223)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhc-CCCCEEEEECCCCCCCHHHHHHHHHcC-CCCCEEEEE
Confidence            479999999999999999999899988899999999998876 579999999999999999999999875 468999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+......++..|+++|+.||++.+++...++..++
T Consensus        79 ~~~~~~~~~~a~~~Ga~~~l~kp~~~~~l~~~i~~~~~  116 (223)
T PRK11517         79 ARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLR  116 (223)
T ss_pred             CCCCHHHHHHHHhcCCCEEEECCCCHHHHHHHHHHHHc
Confidence            99898899999999999999999999999999987654

>PRK11107 hybrid sensory histidine kinase BarA; Provisional

Probab=99.76  E-value=4.7e-17  Score=133.22  Aligned_cols=118  Identities=28%  Similarity=0.495  Sum_probs=110.0

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh--CCCCcE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM--KVESKI  102 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~--~~~~~i  102 (145)
                      ..++||++||++..+..+...|+..|+.+..+.++.+++..+.. ..||+||+|+.||+++|+++++.|++.  .+.+|+
T Consensus       666 ~~~~vLivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~al~~~~~-~~~dlil~D~~mp~~~g~~~~~~lr~~~~~~~~pi  744 (919)
T PRK11107        666 LPLTVMAVDDNPANLKLIGALLEEQVEHVVLCDSGHQAVEQAKQ-RPFDLILMDIQMPGMDGIRACELIRQLPHNQNTPI  744 (919)
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHh-CCCCEEEEeCCCCCCcHHHHHHHHHhcccCCCCCE
Confidence            45789999999999999999999999999999999999999987 679999999999999999999999974  457999


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +++|+..+......+++.|+++|+.||++.++|...+++..
T Consensus       745 i~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~  785 (919)
T PRK11107        745 IAVTAHAMAGERERLLSAGMDDYLAKPIDEAMLKQVLLRYK  785 (919)
T ss_pred             EEEeCCCCHHHHHHHHHcCCCeEeeCCCCHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999998765

>PRK10701 DNA-binding transcriptional regulator RstA; Provisional

Probab=99.76  E-value=1e-16  Score=112.73  Aligned_cols=115  Identities=20%  Similarity=0.246  Sum_probs=104.7

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEec
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      +|++++|++.....+...|...|+.+..+.++.+++..+.. ..||++++|+.+++.+|+++++.+++. ...|++++++
T Consensus         3 ~iLivedd~~~~~~l~~~L~~~g~~v~~~~~~~~~l~~~~~-~~~dlvild~~l~~~~g~~~~~~ir~~-~~~pii~l~~   80 (240)
T PRK10701          3 KIVFVEDDAEVGSLIAAYLAKHDIDVTVEPRGDRAEATILR-EQPDLVLLDIMLPGKDGMTICRDLRPK-WQGPIVLLTS   80 (240)
T ss_pred             eEEEEeCCHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHhh-CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCCCEEEEEC
Confidence            79999999999999999999999999889999999999886 579999999999999999999999984 3578999998


Q ss_pred             CCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          108 RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       108 ~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ..+......++..|+++|+.||++..+|..+++..++
T Consensus        81 ~~~~~~~~~~~~~Ga~d~l~kP~~~~~l~~~i~~~l~  117 (240)
T PRK10701         81 LDSDMNHILALEMGACDYILKTTPPAVLLARLRLHLR  117 (240)
T ss_pred             CCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHh
Confidence            8888888889999999999999999999999987654

>PRK13856 two-component response regulator VirG; Provisional

Probab=99.76  E-value=9.5e-17  Score=113.17  Aligned_cols=115  Identities=18%  Similarity=0.347  Sum_probs=103.0

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEec
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      +|++++|++.....+...|...||.+..+.++++++..+.. ..||++++|+.+++.+|+++++.+++. +.+|++++++
T Consensus         3 ~ILived~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~-~~~dlvi~d~~l~~~~g~~l~~~i~~~-~~~pii~lt~   80 (241)
T PRK13856          3 HVLVIDDDVAMRHLIVEYLTIHAFKVTAVADSQQFNRVLAS-ETVDVVVVDLNLGREDGLEIVRSLATK-SDVPIIIISG   80 (241)
T ss_pred             eEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhh-CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCCcEEEEEC
Confidence            79999999999999999999999999999999999998876 579999999999999999999999875 4689999988


Q ss_pred             CC-ChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          108 RN-SETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       108 ~~-~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      .. +......+++.|+++|+.||++.++|..+++.+++
T Consensus        81 ~~~~~~~~~~~l~~Ga~~yl~kP~~~~eL~~~i~~~l~  118 (241)
T PRK13856         81 DRLEEADKVVALELGATDFIAKPFGTREFLARIRVALR  118 (241)
T ss_pred             CCCcHHHHHHHHhcCcCeEEeCCCCHHHHHHHHHHHHh
Confidence            54 55667789999999999999999999999987664

>PRK15347 two component system sensor kinase SsrA; Provisional

Probab=99.76  E-value=9e-17  Score=131.68  Aligned_cols=117  Identities=33%  Similarity=0.491  Sum_probs=108.3

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh----CCCCc
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM----KVESK  101 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~----~~~~~  101 (145)
                      +++||++||++..+..+...|...|+.+..+.++++++..+.. ..||+|++|+.||+++|+++++.+++.    .+.+|
T Consensus       690 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~-~~~dlil~D~~mp~~~G~~~~~~ir~~~~~~~~~~p  768 (921)
T PRK15347        690 QLQILLVDDVETNRDIIGMMLVELGQQVTTAASGTEALELGRQ-HRFDLVLMDIRMPGLDGLETTQLWRDDPNNLDPDCM  768 (921)
T ss_pred             cCCEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhchhhcCCCCc
Confidence            4689999999999999999999999999999999999999987 679999999999999999999999874    36789


Q ss_pred             EEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          102 IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      |+++|+..+......++..|+++|+.||++.++|...+++..
T Consensus       769 ii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~  810 (921)
T PRK15347        769 IVALTANAAPEEIHRCKKAGMNHYLTKPVTLAQLARALELAA  810 (921)
T ss_pred             EEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999987654

>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS

Probab=99.75  E-value=1.1e-16  Score=131.87  Aligned_cols=118  Identities=22%  Similarity=0.446  Sum_probs=110.0

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCC---Cc
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVE---SK  101 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~---~~  101 (145)
                      ...+||++||++..+..+...|+..||.+..+.++.+++..+.. ..||+||+|+.||+++|+++++.+++..+.   +|
T Consensus       701 ~~~~iLvvdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-~~~dlvl~D~~mp~~~g~~~~~~ir~~~~~~~~~p  779 (968)
T TIGR02956       701 PPQRVLLVEDNEVNQMVAQGFLTRLGHKVTLAESGQSALECFHQ-HAFDLALLDINLPDGDGVTLLQQLRAIYGAKNEVK  779 (968)
T ss_pred             cccceEEEcCcHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHC-CCCCEEEECCCCCCCCHHHHHHHHHhCccccCCCe
Confidence            34589999999999999999999999999999999999999987 679999999999999999999999987654   89


Q ss_pred             EEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          102 IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      |+++|+....+....++..|+++|+.||++.++|...+++++
T Consensus       780 ii~lta~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~  821 (968)
T TIGR02956       780 FIAFSAHVFNEDVAQYLAAGFDGFLAKPVVEEQLTAMIAVIL  821 (968)
T ss_pred             EEEEECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999998875

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).

>PRK09935 transcriptional regulator FimZ; Provisional

Probab=99.75  E-value=3e-16  Score=107.69  Aligned_cols=118  Identities=18%  Similarity=0.314  Sum_probs=106.3

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhc-CCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSV-GFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~-g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      ..+|+++++++.....+...+... ++.+. .+.+..+++..+.. ..||++++|..+++.+|.++++.++...+.+|++
T Consensus         3 ~~~iliv~d~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~dlvild~~l~~~~g~~~~~~l~~~~~~~~ii   81 (210)
T PRK09935          3 PASVIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYLRT-RPVDLIIMDIDLPGTDGFTFLKRIKQIQSTVKVL   81 (210)
T ss_pred             cceEEEECCcHHHHHHHHHHHhhCCCceEEEEeCCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHHhCCCCcEE
Confidence            457999999999999999999876 57765 67899999988876 5799999999999999999999999888889999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++++..+......++..|+++|+.||++.++|..+++.+++
T Consensus        82 ~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~l~  122 (210)
T PRK09935         82 FLSSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILS  122 (210)
T ss_pred             EEECCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHc
Confidence            99999888888899999999999999999999999988764

>PRK15115 response regulator GlrR; Provisional

Probab=99.74  E-value=1.3e-16  Score=121.73  Aligned_cols=117  Identities=26%  Similarity=0.416  Sum_probs=109.4

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      ..+|+++||++..+..+...|+..||.+..+.++.+++..+.. ..||+||+|..+++.+|+++++.++...+.+|+|++
T Consensus         5 ~~~vLiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~eal~~l~~-~~~dlvilD~~lp~~~g~~ll~~l~~~~~~~pvIvl   83 (444)
T PRK15115          5 PAHLLLVDDDPGLLKLLGMRLTSEGYSVVTAESGQEALRVLNR-EKVDLVISDLRMDEMDGMQLFAEIQKVQPGMPVIIL   83 (444)
T ss_pred             CCeEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhc-CCCCEEEEcCCCCCCCHHHHHHHHHhcCCCCcEEEE
Confidence            4689999999999999999999999999999999999999886 679999999999999999999999998889999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      ++..+......++..|+.+|+.||++.++|...++..+
T Consensus        84 t~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~l~~~~  121 (444)
T PRK15115         84 TAHGSIPDAVAATQQGVFSFLTKPVDRDALYKAIDDAL  121 (444)
T ss_pred             ECCCCHHHHHHHHhcChhhhccCCCCHHHHHHHHHHHH
Confidence            99988888899999999999999999999999988765

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=99.74  E-value=2.5e-17  Score=116.53  Aligned_cols=115  Identities=29%  Similarity=0.421  Sum_probs=103.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      ++|+|+||+..+...+..+|++.|+.+..|+...+++..+.. ..||++++|+.||+++|+++.++++...+.+|||++|
T Consensus         1 ~~~iiVDdd~a~~~~l~~iLs~~~~~~~~~~~~~eal~~Le~-~kpDLifldI~mp~~ngiefaeQvr~i~~~v~iifIs   79 (361)
T COG3947           1 PRIIIVDDDAAIVKLLSVILSRAGHEVRSCSHPVEALDLLEV-FKPDLIFLDIVMPYMNGIEFAEQVRDIESAVPIIFIS   79 (361)
T ss_pred             CcEEEEcchHHHHHHHHHHHHhccchhhccCCHHHHHHHHHh-cCCCEEEEEeecCCccHHHHHHHHHHhhccCcEEEEe
Confidence            379999999999999999999999888899999999999998 6899999999999999999999999999999999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++...  ....+...+++|+.||++++.|-++|.+..+
T Consensus        80 sh~ey--a~dsf~~n~~dYl~KPvt~ekLnraIdr~~k  115 (361)
T COG3947          80 SHAEY--ADDSFGMNLDDYLPKPVTPEKLNRAIDRRLK  115 (361)
T ss_pred             cchhh--hhhhcccchHhhccCCCCHHHHHHHHHHHhc
Confidence            98654  4455666679999999999999999988764

>TIGR02875 spore_0_A sporulation transcription factor Spo0A

Probab=99.74  E-value=4e-16  Score=111.46  Aligned_cols=117  Identities=20%  Similarity=0.370  Sum_probs=104.4

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhc-CCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCC--Cc
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSV-GFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVE--SK  101 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~-g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~--~~  101 (145)
                      +.+|+++||++.....+...|... ++.+. .+.++.+++..+.. ..||++++|+.||+.+|+++++.+++..+.  .|
T Consensus         2 ~~~vLivdd~~~~~~~l~~~L~~~~~~~~~~~a~~~~eal~~l~~-~~~DlvllD~~mp~~dG~~~l~~i~~~~~~~~~~   80 (262)
T TIGR02875         2 KIRIVIADDNKEFCNLLKEYLAAQPDMEVVGVAHNGVDALELIKE-QQPDVVVLDIIMPHLDGIGVLEKLNEIELSARPR   80 (262)
T ss_pred             CcEEEEEcCCHHHHHHHHHHHhcCCCeEEEEEeCCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHhhccccCCe
Confidence            468999999999999999999764 45544 78999999999887 579999999999999999999999987654  78


Q ss_pred             EEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          102 IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      ++++++..+......++..|+++|+.||++.++|...++++.
T Consensus        81 iI~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~~  122 (262)
T TIGR02875        81 VIMLSAFGQEKITQRAVALGADYYVLKPFDLEILAARIRQLA  122 (262)
T ss_pred             EEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHH
Confidence            999999989888899999999999999999999999998765

Spo0A, the stage 0 sporulation protein A, is a transcription factor critical for the initiation of sporulation. It contains a response regulator receiver domain (pfam00072). In Bacillus subtilis, it works together with response regulator Spo0F and the phosphotransferase Spo0B, both of which are missing from at least some sporulating species and thus not part of the endospore forming bacteria minimal gene set. Spo0A, however, is universal among endospore-forming species.

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=99.73  E-value=3.5e-16  Score=120.25  Aligned_cols=116  Identities=24%  Similarity=0.335  Sum_probs=108.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .+|++++|++..+..+...|...||.+..+.++++++..+.. ..||++|+|..+++.+|+++++.++...+.+|+++++
T Consensus         4 ~~ILiVdd~~~~~~~L~~~L~~~g~~v~~~~s~~~al~~l~~-~~~DlvllD~~lp~~dgl~~l~~ir~~~~~~pvIvlt   82 (469)
T PRK10923          4 GIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLEALAS-KTPDVLLSDIRMPGMDGLALLKQIKQRHPMLPVIIMT   82 (469)
T ss_pred             CeEEEEECCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhc-CCCCEEEECCCCCCCCHHHHHHHHHhhCCCCeEEEEE
Confidence            589999999999999999999999999999999999999987 5799999999999999999999999888889999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +..+......++..|+++|+.||++.+++...+++.+
T Consensus        83 ~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~l  119 (469)
T PRK10923         83 AHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAI  119 (469)
T ss_pred             CCCCHHHHHHHHhcCcceEEecCCcHHHHHHHHHHHH
Confidence            9999888999999999999999999999999887664

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=99.73  E-value=2.5e-16  Score=120.09  Aligned_cols=118  Identities=27%  Similarity=0.381  Sum_probs=109.3

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      .+++|+++||++..+..+...|...|+.+..+.++.+++..+.. ..||+|++|..+++.+|+++++.++...+..|+++
T Consensus         4 ~~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~-~~~DlvilD~~m~~~~G~~~~~~ir~~~~~~~vi~   82 (441)
T PRK10365          4 DNIDILVVDDDISHCTILQALLRGWGYNVALANSGRQALEQVRE-QVFDLVLCDVRMAEMDGIATLKEIKALNPAIPVLI   82 (441)
T ss_pred             CcceEEEEECCHHHHHHHHHHHHHCCCeEEEeCCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhhCCCCeEEE
Confidence            35789999999999999999999999999999999999998886 57999999999999999999999999888999999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +|+..+......++..|+.+|+.||++.++|...+++.+
T Consensus        83 lt~~~~~~~~~~a~~~ga~~~l~Kp~~~~~L~~~l~~~l  121 (441)
T PRK10365         83 MTAYSSVETAVEALKTGALDYLIKPLDFDNLQATLEKAL  121 (441)
T ss_pred             EECCCCHHHHHHHHHhhhHHHhcCCCCHHHHHHHHHHHH
Confidence            999988888999999999999999999999999887654

>PRK11091 aerobic respiration control sensor protein ArcB; Provisional

Probab=99.73  E-value=3.8e-16  Score=126.36  Aligned_cols=117  Identities=23%  Similarity=0.514  Sum_probs=104.6

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC--CC-Cc
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK--VE-SK  101 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~--~~-~~  101 (145)
                      .+.+||++||++..+..+...|+..||.+..++++++++..+.. ..||+|++|+.||+++|+++++.|++..  +. +|
T Consensus       524 ~~~~ILivdD~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~~~-~~~Dlvl~D~~mp~~~G~e~~~~ir~~~~~~~~~~  602 (779)
T PRK11091        524 PALNILLVEDIELNVIVARSVLEKLGNSVDVAMTGKEALEMFDP-DEYDLVLLDIQLPDMTGLDIARELRERYPREDLPP  602 (779)
T ss_pred             cccceEEEcCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHhhc-CCCCEEEEcCCCCCCCHHHHHHHHHhccccCCCCc
Confidence            45789999999999999999999999999999999999999986 6799999999999999999999999875  44 47


Q ss_pred             EEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          102 IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      ++++++.... ....++..|+++|+.||++.++|...+++++
T Consensus       603 ii~~ta~~~~-~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~  643 (779)
T PRK11091        603 LVALTANVLK-DKKEYLDAGMDDVLSKPLSVPALTAMIKKFW  643 (779)
T ss_pred             EEEEECCchH-hHHHHHHCCCCEEEECCCCHHHHHHHHHHHh
Confidence            8888876654 4567899999999999999999999998875

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=99.73  E-value=4.7e-16  Score=119.09  Aligned_cols=117  Identities=26%  Similarity=0.417  Sum_probs=108.4

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      ..+|++++|++..+..+...|...||.+..+.+.++++..+.. ..||++++|..+++.+|+++++.++...+.+|++++
T Consensus         4 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~-~~~dlillD~~~p~~~g~~ll~~i~~~~~~~pvI~l   82 (457)
T PRK11361          4 INRILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFAD-IHPDVVLMDIRMPEMDGIKALKEMRSHETRTPVILM   82 (457)
T ss_pred             CCeEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEEEE
Confidence            4479999999999999999999999999999999999999887 579999999999999999999999988888999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      ++..+......++..|+++|+.||++.+++...++..+
T Consensus        83 t~~~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~l  120 (457)
T PRK11361         83 TAYAEVETAVEALRCGAFDYVIKPFDLDELNLIVQRAL  120 (457)
T ss_pred             eCCCCHHHHHHHHHCCccEEEecccCHHHHHHHHhhhc
Confidence            99999889999999999999999999999999887654

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

Probab=99.72  E-value=3.7e-16  Score=131.19  Aligned_cols=118  Identities=30%  Similarity=0.516  Sum_probs=110.1

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ...+||++||++..+..+...|+..|+.+..+.++.+++..+.. ..||+||+|+.||+++|+++++.++...+.+|+++
T Consensus       957 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~dlil~D~~mp~~~g~~~~~~i~~~~~~~pii~ 1035 (1197)
T PRK09959        957 EKLSILIADDHPTNRLLLKRQLNLLGYDVDEATDGVQALHKVSM-QHYDLLITDVNMPNMDGFELTRKLREQNSSLPIWG 1035 (1197)
T ss_pred             cCceEEEcCCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHhhc-CCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEEE
Confidence            45689999999999999999999999999999999999999987 67999999999999999999999999888899999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +|+..+......+++.|+++|+.||++.++|...++++.
T Consensus      1036 lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~ 1074 (1197)
T PRK09959       1036 LTANAQANEREKGLSCGMNLCLFKPLTLDVLKTHLSQLH 1074 (1197)
T ss_pred             EECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHh
Confidence            999999999999999999999999999999999887653

>PRK15479 transcriptional regulatory protein TctD; Provisional

Probab=99.72  E-value=1e-15  Score=105.81  Aligned_cols=117  Identities=22%  Similarity=0.363  Sum_probs=106.8

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      ++|+++++++.....+...+...|+.+..+.+..+++..+.. ..||++++|..+++.+|.++++.++...+.+|+++++
T Consensus         1 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~-~~~d~vild~~~~~~~~~~~~~~i~~~~~~~~ii~lt   79 (221)
T PRK15479          1 MRLLLAEDNRELAHWLEKALVQNGFAVDCVFDGLAADHLLQS-EMYALAVLDINMPGMDGLEVLQRLRKRGQTLPVLLLT   79 (221)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhh-CCCCEEEEeCCCCCCcHHHHHHHHHhcCCCCCEEEEE
Confidence            369999999999999999999889988889999999888776 5799999999999999999999999888889999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ...+......++..|+++|+.||++.+++...++.+++
T Consensus        80 ~~~~~~~~~~~~~~g~~~~i~kp~~~~~l~~~i~~~~~  117 (221)
T PRK15479         80 ARSAVADRVKGLNVGADDYLPKPFELEELDARLRALLR  117 (221)
T ss_pred             CCCCHHHHHHHHHcCCCeeEeCCCCHHHHHHHHHHHHh
Confidence            99888888899999999999999999999999887653

>PRK14084 two-component response regulator; Provisional

Probab=99.72  E-value=6.5e-16  Score=109.27  Aligned_cols=114  Identities=25%  Similarity=0.414  Sum_probs=99.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcC-C-eEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVG-F-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g-~-~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ++|+++||++..+..+...|...+ + .+..+.++++++..+.. ..||++++|+.|++.+|+++++.+++..+..++++
T Consensus         1 ~~ilivdd~~~~~~~l~~~l~~~~~~~~v~~~~~~~~~l~~~~~-~~~dlv~lDi~m~~~~G~~~~~~i~~~~~~~~iI~   79 (246)
T PRK14084          1 MKALIVDDEPLARNELTYLLNEIGGFEEINEAENVKETLEALLI-NQYDIIFLDINLMDESGIELAAKIQKMKEPPAIIF   79 (246)
T ss_pred             CEEEEECCCHHHHHHHHHHHHhCCCceEEEEECCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCEEEE
Confidence            479999999999999999998765 4 36689999999998886 57999999999999999999999998777778888


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +|+...  ....+++.|+.+|+.||++.++|..+++++.
T Consensus        80 ~t~~~~--~~~~~~~~~~~~yl~KP~~~~~l~~~l~~~~  116 (246)
T PRK14084         80 ATAHDQ--FAVKAFELNATDYILKPFEQKRIEQAVNKVR  116 (246)
T ss_pred             EecChH--HHHHHHhcCCcEEEECCCCHHHHHHHHHHHH
Confidence            887643  4567899999999999999999999998765

>PRK10710 DNA-binding transcriptional regulator BaeR; Provisional

Probab=99.71  E-value=2.4e-15  Score=105.35  Aligned_cols=116  Identities=21%  Similarity=0.377  Sum_probs=105.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .+|+++++++.....+...|...|+.+..+.+..+++..+.. ..||++++|..+++.+|.++++.++. .+..|+++++
T Consensus        11 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~-~~~dlvl~d~~~~~~~g~~~~~~l~~-~~~~pii~l~   88 (240)
T PRK10710         11 PRILIVEDEPKLGQLLIDYLQAASYATTLLSHGDEVLPYVRQ-TPPDLILLDLMLPGTDGLTLCREIRR-FSDIPIVMVT   88 (240)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhh-CCCCEEEEeCCCCCCCHHHHHHHHHh-cCCCCEEEEE
Confidence            389999999999999999999899998889999999998876 57999999999999999999999986 4578999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ...+......++..|+++|+.||++.++|...++.+++
T Consensus        89 ~~~~~~~~~~~~~~ga~~~l~kp~~~~~L~~~i~~~~~  126 (240)
T PRK10710         89 AKIEEIDRLLGLEIGADDYICKPYSPREVVARVKTILR  126 (240)
T ss_pred             cCCCHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHHh
Confidence            98888888889999999999999999999998877653

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=99.71  E-value=5.8e-16  Score=118.27  Aligned_cols=112  Identities=19%  Similarity=0.343  Sum_probs=103.1

Q ss_pred             EEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCC-----CCHHHHHHHHHhhCCCCcEE
Q 045936           29 ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPV-----MDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        29 vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~-----~~g~~~~~~l~~~~~~~~ii  103 (145)
                      |+++||++..+..+...+  .||.+..+.+..+++..+.. ..||+|++|..+|+     .+|+++++.+++..+.+|||
T Consensus         1 ILivddd~~~~~~l~~~l--~~~~v~~a~~~~~al~~l~~-~~~dlvllD~~mp~~~~~~~~g~~~l~~i~~~~~~~piI   77 (445)
T TIGR02915         1 LLIVEDDLGLQKQLKWSF--ADYELAVAADRESAIALVRR-HEPAVVTLDLGLPPDADGASEGLAALQQILAIAPDTKVI   77 (445)
T ss_pred             CEEEECCHHHHHHHHHHh--CCCeEEEeCCHHHHHHHHhh-CCCCEEEEeCCCCCCcCCCCCHHHHHHHHHhhCCCCCEE
Confidence            589999999999999888  78999999999999999987 57999999999995     78999999999988999999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      ++|+..+.+....+++.|+++|+.||++.++|..+++..+
T Consensus        78 ~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~~  117 (445)
T TIGR02915        78 VITGNDDRENAVKAIGLGAYDFYQKPIDPDVLKLIVDRAF  117 (445)
T ss_pred             EEecCCCHHHHHHHHHCCccEEEeCCCCHHHHHHHHhhhh
Confidence            9999999999999999999999999999999998887654

Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).

>PRK10360 DNA-binding transcriptional activator UhpA; Provisional

Probab=99.71  E-value=1.5e-15  Score=103.50  Aligned_cols=114  Identities=16%  Similarity=0.234  Sum_probs=101.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhc-CCe-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSV-GFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~-g~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ++|+++++++..+..+...|... ++. +..+++..+++..+.. ..||++++|..+++.+|.++++.++   +..|+++
T Consensus         2 ~~ilivd~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~l~~~~~-~~~dlvi~d~~~~~~~g~~~~~~l~---~~~~vi~   77 (196)
T PRK10360          2 ITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPG-RGVQVCICDISMPDISGLELLSQLP---KGMATIM   77 (196)
T ss_pred             eEEEEECCcHHHHHHHHHHHccCCCcEEEEEECCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHc---cCCCEEE
Confidence            47999999999999999999754 565 4588999999999876 5799999999999999999988885   3578999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++...+......++..|+++|+.||++.+++..+++.+++
T Consensus        78 ~s~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~  117 (196)
T PRK10360         78 LSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVAT  117 (196)
T ss_pred             EECCCCHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHc
Confidence            9999998889999999999999999999999999998765

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=99.71  E-value=8e-16  Score=118.03  Aligned_cols=114  Identities=21%  Similarity=0.315  Sum_probs=106.2

Q ss_pred             EEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecC
Q 045936           29 ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSR  108 (145)
Q Consensus        29 vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~  108 (145)
                      ||++||++..+..+...|...||.+..++++.+++..+.. ..||+|++|+.+|+.+|+++++.++...+.+|+|++++.
T Consensus         1 ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~DlVllD~~~p~~~g~~ll~~l~~~~~~~~vIvlt~~   79 (463)
T TIGR01818         1 VWVVDDDRSIRWVLEKALSRAGYEVRTFGNAASVLRALAR-GQPDLLITDVRMPGEDGLDLLPQIKKRHPQLPVIVMTAH   79 (463)
T ss_pred             CEEEECCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhc-CCCCEEEEcCCCCCCCHHHHHHHHHHhCCCCeEEEEeCC
Confidence            5899999999999999999999999999999999998886 579999999999999999999999998888999999999


Q ss_pred             CChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          109 NSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       109 ~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      .+......++..|+++|+.||++.++|...+++++
T Consensus        80 ~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~l  114 (463)
T TIGR01818        80 SDLDTAVAAYQRGAFEYLPKPFDLDEAVTLVERAL  114 (463)
T ss_pred             CCHHHHHHHHHcCcceeecCCCCHHHHHHHHHHHH
Confidence            88888889999999999999999999999987764

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.

>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional

Probab=99.70  E-value=9.6e-16  Score=106.83  Aligned_cols=116  Identities=13%  Similarity=0.060  Sum_probs=95.5

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCe-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHH-HHHHhhCCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEAT-KAMRAMKVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~-~~l~~~~~~~~ii  103 (145)
                      ..++++++|+|.....++.+|. .++. +..+.++.+++..+.   +||+||+|+.+|+.+|++++ +.++...|.++|+
T Consensus        10 ~~~~~~v~~~~l~~~~l~~~L~-~~~~v~~~~~~~~~~~~~~~---~~DvvllDi~~p~~~G~~~~~~~i~~~~p~~~vv   85 (216)
T PRK10100         10 GHTLLLITKPSLQATALLQHLK-QSLAITGKLHNIQRSLDDIS---SGSIILLDMMEADKKLIHYWQDTLSRKNNNIKIL   85 (216)
T ss_pred             CceEEEEeChHhhhHHHHHHHH-HhCCCeEEEcCHHHhhccCC---CCCEEEEECCCCCccHHHHHHHHHHHhCCCCcEE
Confidence            3469999999999999999997 4555 447788888888642   49999999999999999986 5688888999999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      ++|...+..........|+.+|+.|+.+.++|..+|+.+++|
T Consensus        86 vlt~~~~~~~~~~~~~~Ga~G~l~K~~~~~~L~~aI~~v~~G  127 (216)
T PRK10100         86 LLNTPEDYPYREIENWPHINGVFYAMEDQERVVNGLQGVLRG  127 (216)
T ss_pred             EEECCchhHHHHHHHhcCCeEEEECCCCHHHHHHHHHHHHcC
Confidence            999987743322223359999999999999999999988764

>PRK09390 fixJ response regulator FixJ; Provisional

Probab=99.70  E-value=1.6e-15  Score=102.96  Aligned_cols=117  Identities=25%  Similarity=0.347  Sum_probs=106.9

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      +.+|+++++++.....+...|...|+.+..+.+..+++..+.. ..||++++|..+++.+|+++++.++...+..|++++
T Consensus         3 ~~~iliv~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~-~~~d~ii~d~~~~~~~~~~~~~~l~~~~~~~~ii~l   81 (202)
T PRK09390          3 KGVVHVVDDDEAMRDSLAFLLDSAGFEVRLFESAQAFLDALPG-LRFGCVVTDVRMPGIDGIELLRRLKARGSPLPVIVM   81 (202)
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCeEEEeCCHHHHHHHhcc-CCCCEEEEeCCCCCCcHHHHHHHHHhcCCCCCEEEE
Confidence            4579999999999999999999889998889999999988876 579999999999999999999999988888999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +...+......++..|+.+|+.||++.+++...++..+
T Consensus        82 ~~~~~~~~~~~~~~~g~~~~l~~p~~~~~l~~~l~~~~  119 (202)
T PRK09390         82 TGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERAL  119 (202)
T ss_pred             ECCCCHHHHHHHHHcChHHHhhCCCCHHHHHHHHHHHH
Confidence            99888888889999999999999999999988887654

>PRK11475 DNA-binding transcriptional activator BglJ; Provisional

Probab=99.69  E-value=1.3e-15  Score=105.45  Aligned_cols=106  Identities=11%  Similarity=0.057  Sum_probs=89.8

Q ss_pred             HHHHHHHHHh---cCCeEEEecCHHHHHHHHhcCCCccEEE---EeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChH
Q 045936           39 RRIHSMILKS---VGFKVEVAENGKEAVDLFRTGAKFHIVF---IDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSET  112 (145)
Q Consensus        39 ~~~l~~~l~~---~g~~v~~~~~~~~~l~~l~~~~~~dlil---~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~  112 (145)
                      +..+..+|..   .||.+..+.++++++..+.. ..||++|   +|..||+.+|+++++.|++.+|.+|||++|...++.
T Consensus         3 r~gi~~lL~~~~~~~~~v~~~~~~~~~l~~~~~-~~pd~vl~dl~d~~mp~~~Gl~~~~~l~~~~p~~~iIvlt~~~~~~   81 (207)
T PRK11475          3 SIGIESLFRKFPGNPYKLHTFSSQSSFQDAMSR-ISFSAVIFSLSAMRSERREGLSCLTELAIKFPRMRRLVIADDDIEA   81 (207)
T ss_pred             hHHHHHHHhcCCCCeeEEEEeCCHHHHHHHhcc-CCCCEEEeeccccCCCCCCHHHHHHHHHHHCCCCCEEEEeCCCCHH
Confidence            5677888864   35666789999999999876 5789998   677889999999999999999999999999987776


Q ss_pred             HHHHHH-HhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936          113 EREVFM-QAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       113 ~~~~~~-~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      ....++ +.|+.+|+.||.+.++|..+|+.+++|
T Consensus        82 ~~~~~~~~~Ga~gyl~K~~~~~eL~~aI~~v~~G  115 (207)
T PRK11475         82 RLIGSLSPSPLDGVLSKASTLEILQQELFLSLNG  115 (207)
T ss_pred             HHHHHHHHcCCeEEEecCCCHHHHHHHHHHHHCC
Confidence            555544 799999999999999999999988754

>PRK09581 pleD response regulator PleD; Reviewed

Probab=99.68  E-value=1.1e-15  Score=116.10  Aligned_cols=116  Identities=16%  Similarity=0.220  Sum_probs=104.5

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh--CCCCcE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM--KVESKI  102 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~--~~~~~i  102 (145)
                      ...+||++||++..+..+...+.. ++.+..+.++.+++..+.. ..||+|++|+.||+++|+++++.+++.  .+.+|+
T Consensus       154 ~~~~vlivdd~~~~~~~l~~~l~~-~~~~~~~~~~~~a~~~~~~-~~~d~vi~d~~~p~~~g~~l~~~i~~~~~~~~~~i  231 (457)
T PRK09581        154 EDGRILLVDDDVSQAERIANILKE-EFRVVVVSDPSEALFNAAE-TNYDLVIVSANFENYDPLRLCSQLRSKERTRYVPI  231 (457)
T ss_pred             cCceEEEEecccchHHHHHHHHhh-cceeeeecChHHHHHhccc-CCCCEEEecCCCCCchHhHHHHHHHhccccCCCcE
Confidence            456899999999999999999965 4666788999999998876 679999999999999999999999974  378999


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      +++++..+......++..|+.+|+.||+++++|...+...
T Consensus       232 i~ls~~~~~~~~~~a~~~Ga~d~l~kp~~~~~l~~~i~~~  271 (457)
T PRK09581        232 LLLVDEDDDPRLVKALELGVNDYLMRPIDKNELLARVRTQ  271 (457)
T ss_pred             EEEeCCCChHHHHHHHHccchhhhhCCCcHHHHHHHHHHH
Confidence            9999999999999999999999999999999999888654

>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional

Probab=99.68  E-value=4.9e-15  Score=102.76  Aligned_cols=117  Identities=14%  Similarity=0.119  Sum_probs=97.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcC--Ce-EEEecCHHHHHHHHhcCCCccEEEEeCC--CCCCCHHHHHHHHHhhCCCCc
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVG--FK-VEVAENGKEAVDLFRTGAKFHIVFIDME--MPVMDGIEATKAMRAMKVESK  101 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g--~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~--~~~~~g~~~~~~l~~~~~~~~  101 (145)
                      +.|+|+||++..+..++.+|...+  +. +..++++++++..+.. ..||++++|+.  ++..+|.++++.|++.+|.++
T Consensus         1 ~~~lIvDD~~~~~~gl~~~L~~~~~~~~vv~~~~~~~~~~~~~~~-~~pDlvLlDl~~~l~~~~g~~~i~~i~~~~p~~~   79 (207)
T PRK15411          1 MSTIIMDLCSYTRLGLTGYLLSRGVKKREINDIETVDDLAIACDS-LRPSVVFINEDCFIHDASNSQRIKQIINQHPNTL   79 (207)
T ss_pred             CCEEEEcCCHHHHHHHHHHHHhCCCcceEEEecCCHHHHHHHHhc-cCCCEEEEeCcccCCCCChHHHHHHHHHHCCCCe
Confidence            468999999999999999998655  34 4478999999998876 57999999965  777789999999999999999


Q ss_pred             EEEEecCCChHHHHHHHHhcccE-EeeCCCCHHHHHHHHHHHhhC
Q 045936          102 IVGVTSRNSETEREVFMQAGLDL-CYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~-~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      ++++|...+..... ++..|+.. |+.|+.++++|..+++.+.+|
T Consensus        80 iivlt~~~~~~~~~-~~~~~~~~~~~~K~~~~~~L~~aI~~v~~g  123 (207)
T PRK15411         80 FIVFMAIANIHFDE-YLLVRKNLLISSKSIKPESLDDLLGDILKK  123 (207)
T ss_pred             EEEEECCCchhHHH-HHHHHhhceeeeccCCHHHHHHHHHHHHcC
Confidence            99999987766543 55555554 789999999999999988753

>PRK10403 transcriptional regulator NarP; Provisional

Probab=99.67  E-value=1.3e-14  Score=99.67  Aligned_cols=118  Identities=26%  Similarity=0.425  Sum_probs=104.7

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHh-cCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKS-VGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~-~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      ..+++++++++.....+...|.. .++.+. .+.+..+++..+.. ..||++++|..+++.+|.++++.+++..+..|++
T Consensus         6 ~~~ilii~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~dlvi~d~~~~~~~~~~~~~~l~~~~~~~~ii   84 (215)
T PRK10403          6 PFQVLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLANR-LDPDVILLDLNMKGMSGLDTLNALRRDGVTAQII   84 (215)
T ss_pred             eEEEEEEcCCHHHHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHh-cCCCEEEEecCCCCCcHHHHHHHHHHhCCCCeEE
Confidence            46899999999999999999975 467765 68899999988876 5799999999999999999999999888888999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++...+......++..|+++|+.||++.+++...++.+..
T Consensus        85 ~l~~~~~~~~~~~~~~~g~~~~i~kp~~~~~l~~~i~~~~~  125 (215)
T PRK10403         85 ILTVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAK  125 (215)
T ss_pred             EEeCCCChHHHHHHHHcCCCeEEecCCCHHHHHHHHHHHhC
Confidence            99988888888889999999999999999999999987543

>PRK10651 transcriptional regulator NarL; Provisional

Probab=99.67  E-value=1.3e-14  Score=99.69  Aligned_cols=119  Identities=23%  Similarity=0.412  Sum_probs=106.1

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhc-CCeE-EEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSV-GFKV-EVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKI  102 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~-g~~v-~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~i  102 (145)
                      ...+|+++++++.....+...|... ++.+ ..+.+.++++..+.. ..||++++|..+++.+|+++++.++...+..|+
T Consensus         5 ~~~~iliv~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~dlvl~d~~l~~~~~~~~~~~l~~~~~~~~v   83 (216)
T PRK10651          5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAES-LDPDLILLDLNMPGMNGLETLDKLREKSLSGRI   83 (216)
T ss_pred             cceEEEEECCCHHHHHHHHHHHccCCCcEEEEEeCCHHHHHHHHHh-CCCCEEEEeCCCCCCcHHHHHHHHHHhCCCCcE
Confidence            3468999999999999999999765 5654 468899999998876 579999999999999999999999988888999


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++++...+......++..|+++|+.||++.++|...++.+++
T Consensus        84 i~l~~~~~~~~~~~~~~~g~~~~i~k~~~~~~l~~~i~~~~~  125 (216)
T PRK10651         84 VVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAA  125 (216)
T ss_pred             EEEeCCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHC
Confidence            999999888888899999999999999999999999988764

>PRK10610 chemotaxis regulatory protein CheY; Provisional

Probab=99.67  E-value=3.2e-14  Score=89.25  Aligned_cols=119  Identities=34%  Similarity=0.443  Sum_probs=104.7

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCe-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC--CCCc
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK--VESK  101 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~--~~~~  101 (145)
                      +.++++++++++.....+...+...|+. +..+.+.++++..+.. ..+|++++|..+++.+|+++++.++...  +..|
T Consensus         4 ~~~~il~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~di~l~d~~~~~~~~~~~~~~l~~~~~~~~~~   82 (129)
T PRK10610          4 KELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQA-GGFGFVISDWNMPNMDGLELLKTIRADGAMSALP   82 (129)
T ss_pred             ccceEEEEcCCHHHHHHHHHHHHHcCCCeEEEeCCHHHHHHHhhc-cCCCEEEEcCCCCCCCHHHHHHHHHhCCCcCCCc
Confidence            4568999999999999999999988885 6688899999888876 5799999999999999999999998753  5678


Q ss_pred             EEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          102 IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++++...+......+++.|+++|+.||++.+++...++++.+
T Consensus        83 ~i~~~~~~~~~~~~~~~~~g~~~~i~~p~~~~~l~~~l~~~~~  125 (129)
T PRK10610         83 VLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIFE  125 (129)
T ss_pred             EEEEECCCCHHHHHHHHHhCCCeEEECCCCHHHHHHHHHHHHH
Confidence            8889888888888889999999999999999999999988654

>PRK13435 response regulator; Provisional

Probab=99.66  E-value=1.2e-14  Score=94.94  Aligned_cols=115  Identities=21%  Similarity=0.264  Sum_probs=98.1

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCC-CCCHHHHHHHHHhhCCCCcE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMP-VMDGIEATKAMRAMKVESKI  102 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~-~~~g~~~~~~l~~~~~~~~i  102 (145)
                      ..++|+++++++.....+...|+..|+.+. .+++.++++..+.. ..||++++|..++ +.+|.++++.++.. +.+|+
T Consensus         4 ~~~~iliid~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~dliivd~~~~~~~~~~~~~~~l~~~-~~~pi   81 (145)
T PRK13435          4 RQLKVLIVEDEALIALELEKLVEEAGHEVVGIAMSSEQAIALGRR-RQPDVALVDVHLADGPTGVEVARRLSAD-GGVEV   81 (145)
T ss_pred             ccceEEEEcCcHHHHHHHHHHHHhcCCeEEEeeCCHHHHHHHhhh-cCCCEEEEeeecCCCCcHHHHHHHHHhC-CCCCE
Confidence            356899999999999999999998899876 78999999998876 5799999999987 47899999998764 57899


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++++..+   ...++..|+++|+.||++.++|...++++..
T Consensus        82 i~ls~~~~---~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~  120 (145)
T PRK13435         82 VFMTGNPE---RVPHDFAGALGVIAKPYSPRGVARALSYLSA  120 (145)
T ss_pred             EEEeCCHH---HHHHHhcCcceeEeCCCCHHHHHHHHHHHHh
Confidence            98887543   2456788999999999999999999988754

>PRK09581 pleD response regulator PleD; Reviewed

Probab=99.66  E-value=1e-14  Score=110.83  Aligned_cols=115  Identities=27%  Similarity=0.369  Sum_probs=105.9

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC--CCCcEEEE
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK--VESKIVGV  105 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~--~~~~ii~l  105 (145)
                      +|+++++++..+..+...|...|+.+..+.+..+++..+.. ..||+|++|..+++.+|.++++.+++..  +.+|++++
T Consensus         4 ~ilii~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~-~~~dlvi~d~~~~~~~g~~l~~~i~~~~~~~~~~ii~~   82 (457)
T PRK09581          4 RILVVDDIPANVKLLEAKLLAEYYTVLTASSGAEAIAICER-EQPDIILLDVMMPGMDGFEVCRRLKSDPATTHIPVVMV   82 (457)
T ss_pred             eEEEEeCCHHHHHHHHHHHHhCCCEEEEeCCHHHHHHHHhh-cCCCEEEEeCCCCCCCHHHHHHHHHcCcccCCCCEEEE
Confidence            79999999999999999998889999999999999999886 5799999999999999999999998753  47899999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      ++..+......++..|+++|+.||++.++|..+++++.
T Consensus        83 s~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~  120 (457)
T PRK09581         83 TALDDPEDRVRGLEAGADDFLTKPINDVALFARVKSLT  120 (457)
T ss_pred             ECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHH
Confidence            99999889999999999999999999999999887764

>PRK15369 two component system sensor kinase SsrB; Provisional

Probab=99.66  E-value=2.4e-14  Score=97.72  Aligned_cols=118  Identities=21%  Similarity=0.276  Sum_probs=105.1

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhc-CCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSV-GFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~-g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      ..+|+++++++..+..+...|... ++.+. .+.+..+++..+.. ..||++++|..+++.+|.++++.+++..+..|++
T Consensus         3 ~~~iliv~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~ii   81 (211)
T PRK15369          3 NYKILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQ-LEPDIVILDLGLPGMNGLDVIPQLHQRWPAMNIL   81 (211)
T ss_pred             ccEEEEECCcHHHHHHHHHHHccCCCcEEEEEECCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHHHCCCCcEE
Confidence            468999999999999999999875 46644 78899999888776 5799999999999999999999999888889999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++...+......++..|+++|+.||++..+|...++...+
T Consensus        82 ~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~  122 (211)
T PRK15369         82 VLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAV  122 (211)
T ss_pred             EEeCCCCHHHHHHHHHhCCCEEEeCCCCHHHHHHHHHHHHC
Confidence            99999888888899999999999999999999999987653

>PRK11697 putative two-component response-regulatory protein YehT; Provisional

Probab=99.65  E-value=1.4e-14  Score=101.91  Aligned_cols=113  Identities=26%  Similarity=0.333  Sum_probs=95.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcC-Ce-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVG-FK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g-~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ++|+|+||++..+..+...|+..| +. +..+.++.+++..+.. ..||++++|+.+++.+|+++++.++.. ...++++
T Consensus         2 ~~IlIvdd~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~-~~~dlv~lDi~~~~~~G~~~~~~l~~~-~~~~ii~   79 (238)
T PRK11697          2 IKVLIVDDEPLAREELRELLQEEGDIEIVGECSNAIEAIGAIHR-LKPDVVFLDIQMPRISGLELVGMLDPE-HMPYIVF   79 (238)
T ss_pred             cEEEEECCCHHHHHHHHHHHhhCCCcEEEEEeCCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHhccc-CCCEEEE
Confidence            589999999999999999998887 34 3478899999998876 579999999999999999999988643 2345777


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +|+..  +....+++.|+.+|+.||++.++|...+.++.
T Consensus        80 vt~~~--~~~~~a~~~~~~~yl~KP~~~~~l~~~l~~~~  116 (238)
T PRK11697         80 VTAFD--EYAIKAFEEHAFDYLLKPIDPARLAKTLARLR  116 (238)
T ss_pred             EeccH--HHHHHHHhcCCcEEEECCCCHHHHHHHHHHHH
Confidence            77654  35667899999999999999999999988764

>PRK13558 bacterio-opsin activator; Provisional

Probab=99.65  E-value=6.1e-15  Score=117.58  Aligned_cols=116  Identities=19%  Similarity=0.138  Sum_probs=103.0

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      +++||++||++..+..+...|...||.+..+.++.+++..+.. ..||+||+|+.+|+++|+++++.++...+..|+|++
T Consensus         7 ~~~ILivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~al~~~~~-~~~Dlvl~d~~lp~~~g~~~l~~l~~~~~~~piI~l   85 (665)
T PRK13558          7 TRGVLFVGDDPEAGPVDCDLDEDGRLDVTQIRDFVAARDRVEA-GEIDCVVADHEPDGFDGLALLEAVRQTTAVPPVVVV   85 (665)
T ss_pred             ceeEEEEccCcchHHHHHHHhhccCcceEeeCCHHHHHHHhhc-cCCCEEEEeccCCCCcHHHHHHHHHhcCCCCCEEEE
Confidence            5689999999999999999998889999999999999998876 579999999999999999999999998889999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHH--HHHHHHHHH
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMA--KIVPLLEEL  142 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~--~l~~~l~~~  142 (145)
                      ++..+......++..|+.+|+.||....  .+..+++..
T Consensus        86 t~~~~~~~~~~al~~Ga~dyl~k~~~~~~~~l~~~i~~~  124 (665)
T PRK13558         86 PTAGDEAVARRAVDADAAAYVPAVSDDATAAIAERIESA  124 (665)
T ss_pred             ECCCCHHHHHHHHhcCcceEEeccchhHHHHHHHHHHHh
Confidence            9999999999999999999999997543  455555433

>PRK12555 chemotaxis-specific methylesterase; Provisional

Probab=99.65  E-value=1.5e-14  Score=107.11  Aligned_cols=115  Identities=26%  Similarity=0.341  Sum_probs=96.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHH-HhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMIL-KSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l-~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ++||++||++..+..+...| ...|+.+. .++++++++..+.. ..||+|++|+.+++++|+++++.+++..+ +|+++
T Consensus         1 ~~VLvVdd~~~~~~~l~~~L~~~~~~~vv~~a~~~~eal~~l~~-~~pDlVllD~~mp~~~G~e~l~~l~~~~~-~pviv   78 (337)
T PRK12555          1 MRIGIVNDSPLAVEALRRALARDPDHEVVWVATDGAQAVERCAA-QPPDVILMDLEMPRMDGVEATRRIMAERP-CPILI   78 (337)
T ss_pred             CEEEEEeCCHHHHHHHHHHHhhCCCCEEEEEECCHHHHHHHHhc-cCCCEEEEcCCCCCCCHHHHHHHHHHHCC-CcEEE
Confidence            47999999999999999999 45678876 78999999999987 67999999999999999999999988654 78888


Q ss_pred             EecCCC--hHHHHHHHHhcccEEeeCCC---------CHHHHHHHHHHHh
Q 045936          105 VTSRNS--ETEREVFMQAGLDLCYTKPL---------TMAKIVPLLEELQ  143 (145)
Q Consensus       105 lt~~~~--~~~~~~~~~~g~~~~l~kP~---------~~~~l~~~l~~~~  143 (145)
                      +++...  ......+++.|+++|+.||+         ..+++...++.+.
T Consensus        79 vs~~~~~~~~~~~~al~~Ga~d~l~KP~~~~~~~~~~~~~~l~~~i~~~~  128 (337)
T PRK12555         79 VTSLTERNASRVFEAMGAGALDAVDTPTLGIGAGLEEYAAELLAKIDQIG  128 (337)
T ss_pred             EeCCCCcCHHHHHHHHhcCceEEEECCCCCcchhHHHHHHHHHHHHHHHh
Confidence            887643  44566789999999999999         5566666666543

>PRK00742 chemotaxis-specific methylesterase; Provisional

Probab=99.61  E-value=6.5e-14  Score=104.27  Aligned_cols=105  Identities=30%  Similarity=0.398  Sum_probs=91.6

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhc-CCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSV-GFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~-g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      +++||+++|++..+..+...|... |+.+. .+.+.++++..+.. ..||+|++|+.+++.+|+++++.+++..+ +|++
T Consensus         3 ~~~ILiVdd~~~~~~~L~~~L~~~~~~~vv~~a~~~~~al~~~~~-~~~DlVllD~~mp~~dgle~l~~i~~~~~-~piI   80 (354)
T PRK00742          3 KIRVLVVDDSAFMRRLISEILNSDPDIEVVGTAPDGLEAREKIKK-LNPDVITLDVEMPVMDGLDALEKIMRLRP-TPVV   80 (354)
T ss_pred             ccEEEEECCCHHHHHHHHHHHhhCCCCEEEEEECCHHHHHHHHhh-hCCCEEEEeCCCCCCChHHHHHHHHHhCC-CCEE
Confidence            468999999999999999999876 78876 88999999998876 57999999999999999999999998877 8999


Q ss_pred             EEecCC--ChHHHHHHHHhcccEEeeCCCCH
Q 045936          104 GVTSRN--SETEREVFMQAGLDLCYTKPLTM  132 (145)
Q Consensus       104 ~lt~~~--~~~~~~~~~~~g~~~~l~kP~~~  132 (145)
                      +++...  .......+++.|+++|+.||+..
T Consensus        81 vls~~~~~~~~~~~~al~~Ga~d~l~kP~~~  111 (354)
T PRK00742         81 MVSSLTERGAEITLRALELGAVDFVTKPFLG  111 (354)
T ss_pred             EEecCCCCCHHHHHHHHhCCCcEEEeCCccc
Confidence            998753  33556788999999999999953

>PRK13837 two-component VirA-like sensor kinase; Provisional

Probab=99.60  E-value=9.7e-14  Score=113.23  Aligned_cols=117  Identities=15%  Similarity=0.167  Sum_probs=106.4

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcC-CCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTG-AKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~-~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      .+.+|+++||++..+..+...|...||.+..+.+.++++..+... .+||+|++  .+++.+|.++++.++...+.+|||
T Consensus       696 ~~~~ILvVddd~~~~~~l~~~L~~~G~~v~~~~s~~~al~~l~~~~~~~DlVll--~~~~~~g~~l~~~l~~~~~~ipII  773 (828)
T PRK13837        696 RGETVLLVEPDDATLERYEEKLAALGYEPVGFSTLAAAIAWISKGPERFDLVLV--DDRLLDEEQAAAALHAAAPTLPII  773 (828)
T ss_pred             CCCEEEEEcCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHhCCCCceEEEE--CCCCCCHHHHHHHHHhhCCCCCEE
Confidence            456899999999999999999999999999999999999998653 24799999  689999999999999988999999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++..........++..| ++|+.||++.++|..++++.++
T Consensus       774 vls~~~~~~~~~~~~~~G-~d~L~KP~~~~~L~~~l~~~l~  813 (828)
T PRK13837        774 LGGNSKTMALSPDLLASV-AEILAKPISSRTLAYALRTALA  813 (828)
T ss_pred             EEeCCCchhhhhhHhhcc-CcEEeCCCCHHHHHHHHHHHHc
Confidence            999998888888899999 9999999999999999988764

>PRK13557 histidine kinase; Provisional

Probab=99.59  E-value=1.7e-13  Score=106.12  Aligned_cols=120  Identities=23%  Similarity=0.351  Sum_probs=108.4

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPV-MDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~-~~g~~~~~~l~~~~~~~~ii  103 (145)
                      .+.+|+++++++.....+...|+..||.+..+.+..+++..+.....||++++|..+++ .+|+++++.++...+..|++
T Consensus       414 ~~~~iliv~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~~~~d~vi~d~~~~~~~~~~~~~~~l~~~~~~~~ii  493 (540)
T PRK13557        414 GTETILIVDDRPDVAELARMILEDFGYRTLVASNGREALEILDSHPEVDLLFTDLIMPGGMNGVMLAREARRRQPKIKVL  493 (540)
T ss_pred             CCceEEEEcCcHHHHHHHHHHHHhcCCeEEEeCCHHHHHHHHhcCCCceEEEEeccCCCCCCHHHHHHHHHHhCCCCcEE
Confidence            34589999999999999999999999999899999999998865336999999999997 89999999999988889999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++..........++..|+.+|+.||++.++|...++.++.
T Consensus       494 ~~~~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~~  534 (540)
T PRK13557        494 LTTGYAEASIERTDAGGSEFDILNKPYRRAELARRVRMVLD  534 (540)
T ss_pred             EEcCCCchhhhhhhccccCCceeeCCCCHHHHHHHHHHHhc
Confidence            99998888888888899999999999999999999988764

>PRK09191 two-component response regulator; Provisional

Probab=99.56  E-value=4.6e-13  Score=95.38  Aligned_cols=114  Identities=18%  Similarity=0.278  Sum_probs=97.4

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPV-MDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~-~~g~~~~~~l~~~~~~~~ii  103 (145)
                      ..+++++++++..+..+...|+..|+.+. .+.+..+++..+.. ..||++++|..+++ .+|+++++.++... .+|++
T Consensus       137 ~~~~liidd~~~~~~~l~~~L~~~~~~~~~~~~~~~~~l~~l~~-~~~dlvi~d~~~~~~~~g~e~l~~l~~~~-~~pii  214 (261)
T PRK09191        137 ATRVLIIEDEPIIAMDLEQLVESLGHRVTGIARTRAEAVALAKK-TRPGLILADIQLADGSSGIDAVNDILKTF-DVPVI  214 (261)
T ss_pred             CCeEEEEcCcHHHHHHHHHHHhcCCCEEEEEECCHHHHHHHHhc-cCCCEEEEecCCCCCCCHHHHHHHHHHhC-CCCEE
Confidence            45799999999999999999998898877 68899999998876 57999999999985 78999999998876 88999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      ++++..+...  .....|+.+|+.||++.++|...++++.
T Consensus       215 ~ls~~~~~~~--~~~~~~~~~~l~kP~~~~~l~~~i~~~~  252 (261)
T PRK09191        215 FITAFPERLL--TGERPEPAFLITKPFQPDTVKAAISQAL  252 (261)
T ss_pred             EEeCCCcHHH--HHHhcccCceEECCCCHHHHHHHHHHHH
Confidence            9988765443  3344678889999999999999998765

>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]

Probab=99.55  E-value=1.1e-13  Score=92.97  Aligned_cols=113  Identities=29%  Similarity=0.396  Sum_probs=96.2

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ..++|+++|.+..+..+...|...||.++ ++.+.-++...+.. ..||+||+|+.+|..+-.+- ..+.+..+..|+++
T Consensus         5 ~lrvlv~~d~~i~~~~i~~~l~eag~~~Vg~~~~~~~~~~~~~~-~~pDvVildie~p~rd~~e~-~~~~~~~~~~piv~   82 (194)
T COG3707           5 LLRVLVADDEALTRMDIREGLLEAGYQRVGEAADGLEAVEVCER-LQPDVVILDIEMPRRDIIEA-LLLASENVARPIVA   82 (194)
T ss_pred             ccceeeccccccchhhHHHHHHHcCCeEeeeecccccchhHHHh-cCCCEEEEecCCCCccHHHH-HHHhhcCCCCCEEE
Confidence            45899999999999999999999999865 77788888888776 68999999999999883332 23334456778999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHH
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLE  140 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~  140 (145)
                      ++++.++.....+.+.|+.+|+.||+++..+...|.
T Consensus        83 lt~~s~p~~i~~a~~~Gv~ayivkpi~~~rl~p~L~  118 (194)
T COG3707          83 LTAYSDPALIEAAIEAGVMAYIVKPLDESRLLPILD  118 (194)
T ss_pred             EEccCChHHHHHHHHcCCeEEEecCcchhhhhHHHH
Confidence            999999999999999999999999999999988774

>cd00156 REC Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; contains a phosphoacceptor site that is phosphorylated by histidine kinase homologs; usually found N-terminal to a DNA binding effector domain; forms homodimers

Probab=99.55  E-value=5.2e-13  Score=80.65  Aligned_cols=112  Identities=31%  Similarity=0.549  Sum_probs=99.4

Q ss_pred             EEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCC
Q 045936           30 LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRN  109 (145)
Q Consensus        30 lii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~  109 (145)
                      +++++++.....+...+...|+.+..+.+..+++..+.. ..+|++++|..+++.++.++++.++...+..++++++...
T Consensus         1 l~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~~~ii~~~~~~~~~~~~~~~~l~~~~~~~~~i~~~~~~   79 (113)
T cd00156           1 LIVDDDPLIRELLRRLLEKEGYEVVEAEDGEEALALLAE-EKPDLILLDIMMPGMDGLELLRRIRKRGPDIPIIFLTAHG   79 (113)
T ss_pred             CeecCcHHHHHHHHHHHhhcCceEEEecCHHHHHHHHHh-CCCCEEEEecCCCCCchHHHHHHHHHhCCCCCEEEEEecc
Confidence            478899999999999998889988888899999988876 5799999999999999999999998877788999888877


Q ss_pred             ChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936          110 SETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       110 ~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      .......++..|+.+|+.||++.+++...++..
T Consensus        80 ~~~~~~~~~~~~~~~~i~~p~~~~~l~~~l~~~  112 (113)
T cd00156          80 DDEDAVEALKAGADDYLTKPFSPEELLARIRAL  112 (113)
T ss_pred             cHHHHHHHHHcChhhHccCCCCHHHHHHHHHhh
Confidence            777778889999999999999999999888754

>COG2201 CheB Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]

Probab=99.49  E-value=8.2e-13  Score=96.84  Aligned_cols=104  Identities=32%  Similarity=0.432  Sum_probs=91.7

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcC-Ce-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVG-FK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g-~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      +++|+++||.+..+..+...|...| .. +..+.|+.++++.+.. ..||+|.+|..||.++|+++++.+.+. +.+||+
T Consensus         1 ~irVlvVddsal~R~~i~~~l~~~~~i~vv~~a~ng~~a~~~~~~-~~PDVi~ld~emp~mdgl~~l~~im~~-~p~pVi   78 (350)
T COG2201           1 KIRVLVVDDSALMRKVISDILNSDPDIEVVGTARNGREAIDKVKK-LKPDVITLDVEMPVMDGLEALRKIMRL-RPLPVI   78 (350)
T ss_pred             CcEEEEEcCcHHHHHHHHHHHhcCCCeEEEEecCCHHHHHHHHHh-cCCCEEEEecccccccHHHHHHHHhcC-CCCcEE
Confidence            3689999999999999999999888 54 5699999999999998 679999999999999999999999887 568998


Q ss_pred             EEecCCC--hHHHHHHHHhcccEEeeCCCC
Q 045936          104 GVTSRNS--ETEREVFMQAGLDLCYTKPLT  131 (145)
Q Consensus       104 ~lt~~~~--~~~~~~~~~~g~~~~l~kP~~  131 (145)
                      ++++...  .+....+++.|+.+|+.||..
T Consensus        79 mvsslt~~g~~~t~~al~~gAvD~i~kp~~  108 (350)
T COG2201          79 MVSSLTEEGAEATLEALELGAVDFIAKPSG  108 (350)
T ss_pred             EEeccccccHHHHHHHHhcCcceeecCCCc
Confidence            8877443  456777899999999999984

>PRK10693 response regulator of RpoS; Provisional

Probab=99.47  E-value=1.2e-12  Score=95.77  Aligned_cols=88  Identities=18%  Similarity=0.356  Sum_probs=79.3

Q ss_pred             EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEeeCCC-CHH
Q 045936           55 VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPL-TMA  133 (145)
Q Consensus        55 ~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~-~~~  133 (145)
                      .+.++++++..+.. ..||+|++|+.+|+++|+++++.+++..+.+|+|++++..+.+....+++.|+++|+.||+ +.+
T Consensus         2 ~a~~g~~al~~l~~-~~pDlVL~D~~mp~~~Gle~~~~ir~~~~~ipiI~lt~~~~~~~~~~al~~Ga~dyl~KP~~~~~   80 (303)
T PRK10693          2 LAANGVDALELLGG-FTPDLIICDLAMPRMNGIEFVEHLRNRGDQTPVLVISATENMADIAKALRLGVQDVLLKPVKDLN   80 (303)
T ss_pred             EeCCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCcEEEEECCCCHHHHHHHHHCCCcEEEECCCCcHH
Confidence            46788999999887 5799999999999999999999999888889999999999999999999999999999999 488


Q ss_pred             HHHHHHHHHh
Q 045936          134 KIVPLLEELQ  143 (145)
Q Consensus       134 ~l~~~l~~~~  143 (145)
                      ++..++++.+
T Consensus        81 ~L~~~i~~~l   90 (303)
T PRK10693         81 RLREMVFACL   90 (303)
T ss_pred             HHHHHHHHHh
Confidence            8888876654

>PRK15029 arginine decarboxylase; Provisional

Probab=99.39  E-value=9.9e-12  Score=99.60  Aligned_cols=108  Identities=8%  Similarity=0.034  Sum_probs=89.2

Q ss_pred             cEEEEEeCCHH--------HHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHH----HHHHHHH
Q 045936           27 YFALVVDDDPM--------IRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGI----EATKAMR   94 (145)
Q Consensus        27 ~~vlii~~~~~--------~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~----~~~~~l~   94 (145)
                      |+||++||+..        ....+...|+..||.+..+.++++++..+.....||+||+|+++|+++|+    ++++.+|
T Consensus         1 MkILIVDDD~~~~~~~~~~i~~~L~~~Le~~G~eV~~a~s~~dAl~~l~~~~~~DlVLLD~~LPd~dG~~~~~ell~~IR   80 (755)
T PRK15029          1 MKVLIVESEFLHQDTWVGNAVERLADALSQQNVTVIKSTSFDDGFAILSSNEAIDCLMFSYQMEHPDEHQNVRQLIGKLH   80 (755)
T ss_pred             CeEEEEeCCcccccchhHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhcCCCcEEEEECCCCCCccchhHHHHHHHHH
Confidence            47999999995        68999999999999999999999999999752369999999999999997    8999999


Q ss_pred             hhCCCCcEEEEecCCC--hHHHHHHHHhcccEEeeCCCCHHHH
Q 045936           95 AMKVESKIVGVTSRNS--ETEREVFMQAGLDLCYTKPLTMAKI  135 (145)
Q Consensus        95 ~~~~~~~ii~lt~~~~--~~~~~~~~~~g~~~~l~kP~~~~~l  135 (145)
                      +..+.+|||++|+..+  ...... .-.-+++|+.+..+..++
T Consensus        81 ~~~~~iPIIlLTar~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  122 (755)
T PRK15029         81 ERQQNVPVFLLGDREKALAAMDRD-LLELVDEFAWILEDTADF  122 (755)
T ss_pred             hhCCCCCEEEEEcCCcccccCCHH-HHHhhheEEEecCCCHHH
Confidence            8888999999999886  333222 334477888886665554

>COG3279 LytT Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]

Probab=99.18  E-value=4.2e-10  Score=79.92  Aligned_cols=113  Identities=29%  Similarity=0.436  Sum_probs=96.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcC-CeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVG-FKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g-~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ++++++||++..+..+...+.... +.+. .+.++.++++.+.. ..+|++++|+.|++++|+++.+.++...+..+|++
T Consensus         2 ~~i~i~dd~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~fldI~~~~~~G~ela~~i~~~~~~~~Ivf   80 (244)
T COG3279           2 LKVLIVDDEPLAREELRRILNEIPDIEIVGEAENGEEALQLLQG-LRPDLVFLDIAMPDINGIELAARIRKGDPRPAIVF   80 (244)
T ss_pred             CcEEEecCCHHHHHHHHHHHHhhhhcCeeeeeccchhhHHHHhc-cCCCeEEEeeccCccchHHHHHHhcccCCCCeEEE
Confidence            579999999999999999998432 3322 78899999999987 58999999999999999999999999877777888


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      +|+...  ....+++..+.+|+.||+..+.+...+.+.
T Consensus        81 vt~~~~--~a~~afev~a~d~i~kp~~~~~l~~~l~~~  116 (244)
T COG3279          81 VTAHDE--YAVAAFEVEALDYLLKPISEERLAKTLERL  116 (244)
T ss_pred             EEehHH--HHHHHHhHHHHhhhcCcchHHHHHHHHHHH
Confidence            888765  445566888999999999999999999764

>PRK11107 hybrid sensory histidine kinase BarA; Provisional

Probab=98.82  E-value=2.4e-07  Score=76.50  Aligned_cols=113  Identities=17%  Similarity=0.271  Sum_probs=91.8

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHH-HHHHHHhhC-CCCcE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE-ATKAMRAMK-VESKI  102 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~-~~~~l~~~~-~~~~i  102 (145)
                      .+.+|+++++++..+..+..+|...|+.+..+.+..+    +.. ..||++++|..+++..+.. +...++... ...++
T Consensus       535 ~g~~ili~d~~~~~~~~l~~~L~~~g~~v~~~~~~~~----l~~-~~~d~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~  609 (919)
T PRK11107        535 AGKRLLYVEPNSAAAQATLDILSETPLEVTYSPTLSQ----LPE-AHYDILLLGLPVTFREPLTMLHERLAKAKSMTDFL  609 (919)
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHHCCCEEEEcCCHHH----hcc-CCCCEEEecccCCCCCCHHHHHHHHHhhhhcCCcE
Confidence            4568999999999999999999999999998888777    333 5699999999999876655 444444432 24557


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      ++++..........+...|+++|+.||++..++...+...
T Consensus       610 i~~~~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~  649 (919)
T PRK11107        610 ILALPCHEQVLAEQLKQDGADACLSKPLSHTRLLPALLEP  649 (919)
T ss_pred             EEEeCCcchhhHHHHhhCCCceEECCCCCHHHHHHHHHHh
Confidence            7778888888888899999999999999999999888653

>PF06490 FleQ: Flagellar regulatory protein FleQ; InterPro: IPR010518 This domain is found at the N terminus of a subset of sigma54-dependent transcriptional activators that are involved in regulation of flagellar motility e

Probab=98.69  E-value=5.7e-07  Score=56.23  Aligned_cols=107  Identities=17%  Similarity=0.110  Sum_probs=78.7

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEec
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      ||||+||+...+..+..+|+=.|+.+..+++.+. ...... ..++.+++-..-.. ...+.++.+.+..|..|++++..
T Consensus         1 kILvIddd~~R~~~L~~ILeFlGe~~~~~~~~~~-~~~~~~-~~~~~~~v~~g~~~-~~~~~l~~l~~~~~~~Pvlllg~   77 (109)
T PF06490_consen    1 KILVIDDDAERRQRLSTILEFLGEQCEAVSSSDW-SQADWS-SPWEACAVILGSCS-KLAELLKELLKWAPHIPVLLLGE   77 (109)
T ss_pred             CEEEECCcHHHHHhhhhhhhhcCCCeEEecHHHH-HHhhhh-cCCcEEEEEecCch-hHHHHHHHHHhhCCCCCEEEECC
Confidence            6899999999999999999988999887776444 333333 34565544433222 55678888888999999999988


Q ss_pred             CCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936          108 RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       108 ~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      .........     +-+.+..|++..+|...|++.
T Consensus        78 ~~~~~~~~n-----vvg~Le~Pl~Y~qLt~~L~~c  107 (109)
T PF06490_consen   78 HDSPEELPN-----VVGELEEPLNYPQLTDALHRC  107 (109)
T ss_pred             CCccccccC-----eeEecCCCCCHHHHHHHHHHh
Confidence            776621211     555688999999999999875

g. FleQ in Pseudomonas aeruginosa. It is clearly related to IPR001789 from INTERPRO, but lacks the conserved aspartate residue that undergoes phosphorylation in the classic two-component system response regulator (IPR001789 from INTERPRO).

>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain

Probab=98.38  E-value=4.3e-05  Score=48.68  Aligned_cols=107  Identities=12%  Similarity=0.118  Sum_probs=78.5

Q ss_pred             eCCHHHHHHHHHHHHhcCCeEEE---ecCHHHHHHHHhcCCCccEEEEeCCCCCCC--HHHHHHHHHhhCCCCcEEEEec
Q 045936           33 DDDPMIRRIHSMILKSVGFKVEV---AENGKEAVDLFRTGAKFHIVFIDMEMPVMD--GIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        33 ~~~~~~~~~l~~~l~~~g~~v~~---~~~~~~~l~~l~~~~~~dlil~d~~~~~~~--g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      |.+..-...+..+|+..||++..   ....++.++.+.. ..+|+|.+...+....  ..++++.+++..+....+++.+
T Consensus        10 d~H~lG~~~~~~~l~~~G~~vi~lG~~vp~e~~~~~a~~-~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~~~~i~i~~GG   88 (122)
T cd02071          10 DGHDRGAKVIARALRDAGFEVIYTGLRQTPEEIVEAAIQ-EDVDVIGLSSLSGGHMTLFPEVIELLRELGAGDILVVGGG   88 (122)
T ss_pred             ChhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHH-cCCCEEEEcccchhhHHHHHHHHHHHHhcCCCCCEEEEEC
Confidence            45555556677788999999873   4467888888877 5799999887765432  3467778888755444455665


Q ss_pred             CCChHHHHHHHHhcccEEeeCCCCHHHHHHHHH
Q 045936          108 RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLE  140 (145)
Q Consensus       108 ~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~  140 (145)
                      ...++....+.+.|++.|+..--+.++....|+
T Consensus        89 ~~~~~~~~~~~~~G~d~~~~~~~~~~~~~~~~~  121 (122)
T cd02071          89 IIPPEDYELLKEMGVAEIFGPGTSIEEIIDKIR  121 (122)
T ss_pred             CCCHHHHHHHHHCCCCEEECCCCCHHHHHHHHh
Confidence            556666788899999999998888888877664

This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.

>PRK02261 methylaspartate mutase subunit S; Provisional

Probab=98.27  E-value=0.00024  Score=46.19  Aligned_cols=118  Identities=11%  Similarity=0.053  Sum_probs=86.1

Q ss_pred             CcEEEEE----eCCHHHHHHHHHHHHhcCCeEEE---ecCHHHHHHHHhcCCCccEEEEeCCCCCCC--HHHHHHHHHhh
Q 045936           26 PYFALVV----DDDPMIRRIHSMILKSVGFKVEV---AENGKEAVDLFRTGAKFHIVFIDMEMPVMD--GIEATKAMRAM   96 (145)
Q Consensus        26 ~~~vlii----~~~~~~~~~l~~~l~~~g~~v~~---~~~~~~~l~~l~~~~~~dlil~d~~~~~~~--g~~~~~~l~~~   96 (145)
                      +.+|++.    |.+..-...+..+|+..||++..   ....++.++.+.+ ..+|+|.+...+....  ..++++.+++.
T Consensus         3 ~~~vl~~~~~gD~H~lG~~iv~~~lr~~G~eVi~LG~~vp~e~i~~~a~~-~~~d~V~lS~~~~~~~~~~~~~~~~L~~~   81 (137)
T PRK02261          3 KKTVVLGVIGADCHAVGNKILDRALTEAGFEVINLGVMTSQEEFIDAAIE-TDADAILVSSLYGHGEIDCRGLREKCIEA   81 (137)
T ss_pred             CCEEEEEeCCCChhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHH-cCCCEEEEcCccccCHHHHHHHHHHHHhc
Confidence            3456666    66777777788889999999874   3467888888877 5799999988776442  45688888887


Q ss_pred             CC-CCcEEEEecC-----CChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936           97 KV-ESKIVGVTSR-----NSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus        97 ~~-~~~ii~lt~~-----~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      .+ +++|++-...     ...+....+.+.|++.++...-+.+++...+++.+.
T Consensus        82 ~~~~~~i~vGG~~~~~~~~~~~~~~~l~~~G~~~vf~~~~~~~~i~~~l~~~~~  135 (137)
T PRK02261         82 GLGDILLYVGGNLVVGKHDFEEVEKKFKEMGFDRVFPPGTDPEEAIDDLKKDLN  135 (137)
T ss_pred             CCCCCeEEEECCCCCCccChHHHHHHHHHcCCCEEECcCCCHHHHHHHHHHHhc
Confidence            44 5554433222     134455678899999999988899999999887653

>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure

Probab=98.27  E-value=2.1e-05  Score=49.60  Aligned_cols=104  Identities=13%  Similarity=0.086  Sum_probs=77.9

Q ss_pred             HHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCC--CCHHHHHHHHHhhCCCCcEEEEecCCChHHHH
Q 045936           38 IRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPV--MDGIEATKAMRAMKVESKIVGVTSRNSETERE  115 (145)
Q Consensus        38 ~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~--~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~  115 (145)
                      ....+...|...|+.++.+.+.++++..+++...+..|+++|. +.  ....++++.++......||.+++.....+...
T Consensus         5 ~~~~l~~~L~~~~~~vv~~~~~dd~~~~i~~~~~i~avvi~~d-~~~~~~~~~ll~~i~~~~~~iPVFl~~~~~~~~~l~   83 (115)
T PF03709_consen    5 ASRELAEALEQRGREVVDADSTDDALAIIESFTDIAAVVISWD-GEEEDEAQELLDKIRERNFGIPVFLLAERDTTEDLP   83 (115)
T ss_dssp             HHHHHHHHHHHTTTEEEEESSHHHHHHHHHCTTTEEEEEEECH-HHHHHHHHHHHHHHHHHSTT-EEEEEESCCHHHCCC
T ss_pred             HHHHHHHHHHHCCCEEEEeCChHHHHHHHHhCCCeeEEEEEcc-cccchhHHHHHHHHHHhCCCCCEEEEecCCCcccCC
Confidence            3456778888889999999999999999998667889999997 21  23567999999999999999999877555555


Q ss_pred             HHHHhcccEEeeCCCCHHHH-HHHHHHH
Q 045936          116 VFMQAGLDLCYTKPLTMAKI-VPLLEEL  142 (145)
Q Consensus       116 ~~~~~g~~~~l~kP~~~~~l-~~~l~~~  142 (145)
                      .-.-..+++|+....+..++ ...|.+.
T Consensus        84 ~~~l~~v~~~i~l~~~t~~fia~rI~~A  111 (115)
T PF03709_consen   84 AEVLGEVDGFIWLFEDTAEFIARRIEAA  111 (115)
T ss_dssp             HHHHCCESEEEETTTTTHHHHHHHHHHH
T ss_pred             HHHHhhccEEEEecCCCHHHHHHHHHHH
Confidence            55556688888776655444 3455443

Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.

>COG3706 PleD Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]

Probab=98.27  E-value=2.2e-06  Score=65.17  Aligned_cols=90  Identities=27%  Similarity=0.331  Sum_probs=77.5

Q ss_pred             CeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEeeCCC
Q 045936           51 FKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPL  130 (145)
Q Consensus        51 ~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~  130 (145)
                      +.+..+.++.+++..+.. ..+|.+++|..||+++|+++++.+++....  +++++...++......+.+|++.+++||.
T Consensus        13 ~~v~~a~~g~~~l~~~~~-~~~~~~lld~~m~~~~~~~~~~~lk~~~~~--~v~~t~~~~~~~~~~~~~~~~~~~l~~~~   89 (435)
T COG3706          13 KEVATAKKGLIALAILLD-HKPDYKLLDVMMPGMDGFELCRRLKAEPAT--VVMVTALDDSAPRVRGLKAGADDFLTKPV   89 (435)
T ss_pred             hhhhhccchHHHHHHHhc-CCCCeEEeecccCCcCchhHHHHHhcCCcc--eEEEEecCCCCcchhHHhhhhhhhccCCC
Confidence            345568889999999887 689999999999999999999999986433  77888888888888999999999999999


Q ss_pred             CHHHHHHHHHHHh
Q 045936          131 TMAKIVPLLEELQ  143 (145)
Q Consensus       131 ~~~~l~~~l~~~~  143 (145)
                      ....+..+.+.+.
T Consensus        90 ~~~~~~~r~~~l~  102 (435)
T COG3706          90 NDSQLFLRAKSLV  102 (435)
T ss_pred             ChHHHHHhhhhhc
Confidence            9999888776553

>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain

Probab=98.17  E-value=0.00021  Score=46.18  Aligned_cols=110  Identities=12%  Similarity=0.085  Sum_probs=79.6

Q ss_pred             eCCHHHHHHHHHHHHhcCCeEE---EecCHHHHHHHHhcCCCccEEEEeCCCCCC-C-HHHHHHHHHhhCCCCcEEEEec
Q 045936           33 DDDPMIRRIHSMILKSVGFKVE---VAENGKEAVDLFRTGAKFHIVFIDMEMPVM-D-GIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        33 ~~~~~~~~~l~~~l~~~g~~v~---~~~~~~~~l~~l~~~~~~dlil~d~~~~~~-~-g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      |-+..-...+..+|+..||+|.   ...+.++.++.+.+ ..+|+|.+...+... . ...+++.|++..+....+++.+
T Consensus        13 D~Hd~g~~iv~~~l~~~GfeVi~lg~~~s~e~~v~aa~e-~~adii~iSsl~~~~~~~~~~~~~~L~~~g~~~i~vivGG   91 (132)
T TIGR00640        13 DGHDRGAKVIATAYADLGFDVDVGPLFQTPEEIARQAVE-ADVHVVGVSSLAGGHLTLVPALRKELDKLGRPDILVVVGG   91 (132)
T ss_pred             CccHHHHHHHHHHHHhCCcEEEECCCCCCHHHHHHHHHH-cCCCEEEEcCchhhhHHHHHHHHHHHHhcCCCCCEEEEeC
Confidence            4555556778889999999987   35678888888877 579988887665432 2 3457777877655433444554


Q ss_pred             CCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          108 RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       108 ~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      ....+....+.+.|++.|+..--+..+....+.+..
T Consensus        92 ~~~~~~~~~l~~~Gvd~~~~~gt~~~~i~~~l~~~~  127 (132)
T TIGR00640        92 VIPPQDFDELKEMGVAEIFGPGTPIPESAIFLLKKL  127 (132)
T ss_pred             CCChHhHHHHHHCCCCEEECCCCCHHHHHHHHHHHH
Confidence            455566778999999999988888888888877643

Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.

>smart00448 REC cheY-homologous receiver domain

Probab=98.15  E-value=4.2e-05  Score=39.24  Aligned_cols=54  Identities=35%  Similarity=0.702  Sum_probs=47.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCC
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEM   81 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~   81 (145)
                      ++++++++++.....+...+...|+.+..+.+..++...+.. ..++++++|+.+
T Consensus         1 ~~i~i~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~~~vi~~~~~   54 (55)
T smart00448        1 MRILVVDDDPLLRELLKALLEREGYEVDEATDGEEALELLKE-EKPDLILLDIMM   54 (55)
T ss_pred             CeEEEEcCCHHHHHHHHHHHhhcCcEEEEeCCHHHHHHHHHh-cCCCEEEEeccC
Confidence            368999999999999999999889998889999999888876 569999998754

CheY regulates the clockwise rotation of E. coli flagellar motors. This domain contains a phosphoacceptor site that is phosphorylated by histidine kinase homologues.

>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit

Probab=97.98  E-value=0.0008  Score=43.52  Aligned_cols=109  Identities=12%  Similarity=0.117  Sum_probs=79.0

Q ss_pred             CHHHHHHHHHHHHhcCCeEE---EecCHHHHHHHHhcCCCccEEEEeCCCCCCC--HHHHHHHHHhhCCCCcEEEEecCC
Q 045936           35 DPMIRRIHSMILKSVGFKVE---VAENGKEAVDLFRTGAKFHIVFIDMEMPVMD--GIEATKAMRAMKVESKIVGVTSRN  109 (145)
Q Consensus        35 ~~~~~~~l~~~l~~~g~~v~---~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~--g~~~~~~l~~~~~~~~ii~lt~~~  109 (145)
                      +..-...+...|+..||+|.   ...+.++.++.+.+ ..+|+|-+...+....  ..++.+.|++....-+.+++....
T Consensus        14 HdiGk~iv~~~l~~~GfeVi~LG~~v~~e~~v~aa~~-~~adiVglS~l~~~~~~~~~~~~~~l~~~gl~~~~vivGG~~   92 (134)
T TIGR01501        14 HAVGNKILDHAFTNAGFNVVNLGVLSPQEEFIKAAIE-TKADAILVSSLYGHGEIDCKGLRQKCDEAGLEGILLYVGGNL   92 (134)
T ss_pred             hhHhHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHH-cCCCEEEEecccccCHHHHHHHHHHHHHCCCCCCEEEecCCc
Confidence            33444667888999999987   45688899998887 5799999987765433  346778888876644455555521


Q ss_pred             ---ChH---HHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          110 ---SET---EREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       110 ---~~~---~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                         .++   ....+.+.|++..+...-+++++...+++.++
T Consensus        93 vi~~~d~~~~~~~l~~~Gv~~vF~pgt~~~~iv~~l~~~~~  133 (134)
T TIGR01501        93 VVGKQDFPDVEKRFKEMGFDRVFAPGTPPEVVIADLKKDLN  133 (134)
T ss_pred             CcChhhhHHHHHHHHHcCCCEEECcCCCHHHHHHHHHHHhc
Confidence               111   24468899999999988889999999988764

This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.

>cd02067 B12-binding B12 binding domain (B12-BD)

Probab=97.83  E-value=0.0011  Score=41.89  Aligned_cols=94  Identities=13%  Similarity=0.163  Sum_probs=65.9

Q ss_pred             eCCHHHHHHHHHHHHhcCCeEEE---ecCHHHHHHHHhcCCCccEEEEeCCCCCC--CHHHHHHHHHhhCC-CCcEEEEe
Q 045936           33 DDDPMIRRIHSMILKSVGFKVEV---AENGKEAVDLFRTGAKFHIVFIDMEMPVM--DGIEATKAMRAMKV-ESKIVGVT  106 (145)
Q Consensus        33 ~~~~~~~~~l~~~l~~~g~~v~~---~~~~~~~l~~l~~~~~~dlil~d~~~~~~--~g~~~~~~l~~~~~-~~~ii~lt  106 (145)
                      |.+..-...+..+|+..||++..   ..+.++.++.+.+ ..||+|.+...+...  ...++++.+++..+ +++|+ +.
T Consensus        10 e~H~lG~~~~~~~l~~~G~~V~~lg~~~~~~~l~~~~~~-~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~~~~~~i~-vG   87 (119)
T cd02067          10 DGHDIGKNIVARALRDAGFEVIDLGVDVPPEEIVEAAKE-EDADAIGLSGLLTTHMTLMKEVIEELKEAGLDDIPVL-VG   87 (119)
T ss_pred             chhhHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHH-cCCCEEEEeccccccHHHHHHHHHHHHHcCCCCCeEE-EE
Confidence            44555556778889999999863   3467788888877 579999988765443  35678888888876 55554 44


Q ss_pred             cCCChHHHHHHHHhcccEEeeC
Q 045936          107 SRNSETEREVFMQAGLDLCYTK  128 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~k  128 (145)
                      +.........+...|+|.++..
T Consensus        88 G~~~~~~~~~~~~~G~D~~~~~  109 (119)
T cd02067          88 GAIVTRDFKFLKEIGVDAYFGP  109 (119)
T ss_pred             CCCCChhHHHHHHcCCeEEECC
Confidence            4444334457888999888753

This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.

>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm)

Probab=97.65  E-value=0.0056  Score=39.30  Aligned_cols=103  Identities=13%  Similarity=0.133  Sum_probs=73.4

Q ss_pred             HHHHHHHHHHHHhcCCeEE---EecCHHHHHHHHhcCCCccEEEEeCCCCCCC--HHHHHHHHHhhCC-CCcEEEEecCC
Q 045936           36 PMIRRIHSMILKSVGFKVE---VAENGKEAVDLFRTGAKFHIVFIDMEMPVMD--GIEATKAMRAMKV-ESKIVGVTSRN  109 (145)
Q Consensus        36 ~~~~~~l~~~l~~~g~~v~---~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~--g~~~~~~l~~~~~-~~~ii~lt~~~  109 (145)
                      ..-...+...|+..||+|.   ...+.++.++.+.+ ..+|+|.+...+....  ..++++.+++... +++|+ +....
T Consensus        13 diGkniv~~~L~~~GfeVidLG~~v~~e~~v~aa~~-~~adiVglS~L~t~~~~~~~~~~~~l~~~gl~~v~vi-vGG~~   90 (128)
T cd02072          13 AVGNKILDHAFTEAGFNVVNLGVLSPQEEFIDAAIE-TDADAILVSSLYGHGEIDCKGLREKCDEAGLKDILLY-VGGNL   90 (128)
T ss_pred             HHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHH-cCCCEEEEeccccCCHHHHHHHHHHHHHCCCCCCeEE-EECCC
Confidence            3444677888999999987   45578888888877 5799999887665442  3468888888765 54444 43331


Q ss_pred             --C----hHHHHHHHHhcccEEeeCCCCHHHHHHHHH
Q 045936          110 --S----ETEREVFMQAGLDLCYTKPLTMAKIVPLLE  140 (145)
Q Consensus       110 --~----~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~  140 (145)
                        .    .+....+.+.|++.++...-+++++...|+
T Consensus        91 ~i~~~d~~~~~~~L~~~Gv~~vf~pgt~~~~i~~~l~  127 (128)
T cd02072          91 VVGKQDFEDVEKRFKEMGFDRVFAPGTPPEEAIADLK  127 (128)
T ss_pred             CCChhhhHHHHHHHHHcCCCEEECcCCCHHHHHHHHh
Confidence              1    334566889999999988878888877665

Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.

>PRK15399 lysine decarboxylase LdcC; Provisional

Probab=97.35  E-value=0.0054  Score=49.93  Aligned_cols=98  Identities=8%  Similarity=0.069  Sum_probs=68.6

Q ss_pred             EEEEEeCCH-H-----HHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCc
Q 045936           28 FALVVDDDP-M-----IRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESK  101 (145)
Q Consensus        28 ~vlii~~~~-~-----~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~  101 (145)
                      ++++++++. .     ....|...|+..||.+..+.+..++...++.......++++++-.   ...++..+++....+|
T Consensus         2 ~~~~i~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~P   78 (713)
T PRK15399          2 NIIAIMGPHGVFYKDEPIKELESALQAQGFQTIWPQNSVDLLKFIEHNPRICGVIFDWDEY---SLDLCSDINQLNEYLP   78 (713)
T ss_pred             cEEEEecccccccccHHHHHHHHHHHHCCcEEEEecCHHHHHHHHhcccceeEEEEecccc---hHHHHHHHHHhCCCCC
Confidence            566676553 1     145677778888999999999999999888655688999996433   3558899999999999


Q ss_pred             EEEEecCCChHHHHHHHHhcccEEeeC
Q 045936          102 IVGVTSRNSETEREVFMQAGLDLCYTK  128 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~~l~k  128 (145)
                      |+++........+....-..+++|+..
T Consensus        79 v~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (713)
T PRK15399         79 LYAFINTHSTMDVSVQDMRMALWFFEY  105 (713)
T ss_pred             EEEEcCccccccCChhHhhhcceeeee
Confidence            999877543333222333335555543

>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]

Probab=97.34  E-value=0.017  Score=37.68  Aligned_cols=116  Identities=16%  Similarity=0.099  Sum_probs=83.0

Q ss_pred             CcEEEE----EeCCHHHHHHHHHHHHhcCCeEE---EecCHHHHHHHHhcCCCccEEEEeCCCCCC--CHHHHHHHHHhh
Q 045936           26 PYFALV----VDDDPMIRRIHSMILKSVGFKVE---VAENGKEAVDLFRTGAKFHIVFIDMEMPVM--DGIEATKAMRAM   96 (145)
Q Consensus        26 ~~~vli----i~~~~~~~~~l~~~l~~~g~~v~---~~~~~~~~l~~l~~~~~~dlil~d~~~~~~--~g~~~~~~l~~~   96 (145)
                      ..+|++    .|.+..-...+.+.|...||+|.   .+.+.+|+++..-+ ...|+|.+.....+.  ...++++.+++.
T Consensus        12 rprvlvak~GlDgHd~gakvia~~l~d~GfeVi~~g~~~tp~e~v~aA~~-~dv~vIgvSsl~g~h~~l~~~lve~lre~   90 (143)
T COG2185          12 RPRVLVAKLGLDGHDRGAKVIARALADAGFEVINLGLFQTPEEAVRAAVE-EDVDVIGVSSLDGGHLTLVPGLVEALREA   90 (143)
T ss_pred             CceEEEeccCccccccchHHHHHHHHhCCceEEecCCcCCHHHHHHHHHh-cCCCEEEEEeccchHHHHHHHHHHHHHHh
Confidence            345544    46677777889999999999977   57789999888755 458887776543332  245677888887


Q ss_pred             CCCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936           97 KVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus        97 ~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      +..-..+++...-.++......+.|++.++..-....+....+...
T Consensus        91 G~~~i~v~~GGvip~~d~~~l~~~G~~~if~pgt~~~~~~~~v~~~  136 (143)
T COG2185          91 GVEDILVVVGGVIPPGDYQELKEMGVDRIFGPGTPIEEALSDLLTR  136 (143)
T ss_pred             CCcceEEeecCccCchhHHHHHHhCcceeeCCCCCHHHHHHHHHHH
Confidence            7654445667777777778888999999998766667666655443

>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin)

Probab=97.28  E-value=0.011  Score=37.04  Aligned_cols=92  Identities=18%  Similarity=0.303  Sum_probs=62.0

Q ss_pred             CHHHHHHHHHHHHhcCCeEEEe---cCHHHHHHHHhcCCCccEEEEeCCC-CCC-CHHHHHHHHHhhCCCCcEEEEecCC
Q 045936           35 DPMIRRIHSMILKSVGFKVEVA---ENGKEAVDLFRTGAKFHIVFIDMEM-PVM-DGIEATKAMRAMKVESKIVGVTSRN  109 (145)
Q Consensus        35 ~~~~~~~l~~~l~~~g~~v~~~---~~~~~~l~~l~~~~~~dlil~d~~~-~~~-~g~~~~~~l~~~~~~~~ii~lt~~~  109 (145)
                      ++.-...+..+|++.||++...   .+.++..+.+.. ..||+|.+...+ +.. ...++++.+|+..|++++++- +..
T Consensus        13 ~~lGl~~la~~l~~~G~~v~~~d~~~~~~~l~~~~~~-~~pd~V~iS~~~~~~~~~~~~l~~~~k~~~p~~~iv~G-G~~   90 (121)
T PF02310_consen   13 HPLGLLYLAAYLRKAGHEVDILDANVPPEELVEALRA-ERPDVVGISVSMTPNLPEAKRLARAIKERNPNIPIVVG-GPH   90 (121)
T ss_dssp             TSHHHHHHHHHHHHTTBEEEEEESSB-HHHHHHHHHH-TTCSEEEEEESSSTHHHHHHHHHHHHHTTCTTSEEEEE-ESS
T ss_pred             hhHHHHHHHHHHHHCCCeEEEECCCCCHHHHHHHHhc-CCCcEEEEEccCcCcHHHHHHHHHHHHhcCCCCEEEEE-CCc
Confidence            4566778899999999998755   345777787877 579999998743 333 356788888888887777644 444


Q ss_pred             ChHHHHHHHH--hcccEEeeC
Q 045936          110 SETEREVFMQ--AGLDLCYTK  128 (145)
Q Consensus       110 ~~~~~~~~~~--~g~~~~l~k  128 (145)
                      ........++  .|+|..+..
T Consensus        91 ~t~~~~~~l~~~~~~D~vv~G  111 (121)
T PF02310_consen   91 ATADPEEILREYPGIDYVVRG  111 (121)
T ss_dssp             SGHHHHHHHHHHHTSEEEEEE
T ss_pred             hhcChHHHhccCcCcceecCC
Confidence            3344444554  677766543

Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....

>PRK15400 lysine decarboxylase CadA; Provisional

Probab=97.23  E-value=0.0069  Score=49.33  Aligned_cols=97  Identities=10%  Similarity=0.106  Sum_probs=66.9

Q ss_pred             EEEEEeCCH------HHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCc
Q 045936           28 FALVVDDDP------MIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESK  101 (145)
Q Consensus        28 ~vlii~~~~------~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~  101 (145)
                      ++++++++.      .....|...|++.||.|..+.+..+++..+........++++++-  . ...++..+++....+|
T Consensus         2 ~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~-~~~~~~~~~~~~~~~P   78 (714)
T PRK15400          2 NVIAILNHMGVYFKEEPIRELHRALERLNFQIVYPNDRDDLLKLIENNARLCGVIFDWDK--Y-NLELCEEISKMNENLP   78 (714)
T ss_pred             cEEEEccccccccccHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHhcccceeEEEEecch--h-hHHHHHHHHHhCCCCC
Confidence            456665542      124567778888999999999999999988865568899999643  2 2558999999999999


Q ss_pred             EEEEecCCChHHHHHHHHhcccEEee
Q 045936          102 IVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      |+++........+....-.-+++|+.
T Consensus        79 v~~~~~~~~~~~~~~~~l~~~~~~~~  104 (714)
T PRK15400         79 LYAFANTYSTLDVSLNDLRLQVSFFE  104 (714)
T ss_pred             EEEEccccccccCChHHhhhccceee
Confidence            99987754333222222233445544

>COG4999 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]

Probab=97.19  E-value=0.0061  Score=38.33  Aligned_cols=110  Identities=13%  Similarity=0.234  Sum_probs=72.6

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHH-HHHhhCCCCcEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATK-AMRAMKVESKIV  103 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~-~l~~~~~~~~ii  103 (145)
                      .+.+.+.++.+........+.|.+.|.+|+.-.+..+    +-. ..||.++++.-.+-..-..+.. ++.+.-...-.+
T Consensus        10 ~gk~LayiEpNstAA~~t~~iL~~tpleVtyr~t~~~----lp~-~hYD~~Ll~vavtfr~n~tm~~~~l~~Al~mtd~v   84 (140)
T COG4999          10 AGKRLAYIEPNSTAAQCTLDILSETPLEVTYRPTFSA----LPP-AHYDMMLLGVAVTFRENLTMQHERLAKALSMTDFV   84 (140)
T ss_pred             ccceeEEecCccHHHHHHHHHHhcCCceEEecccccc----cCh-hhhceeeecccccccCCchHHHHHHHHHHhhhcce
Confidence            3568999999999999999999999988875443222    212 3599999988665433222211 222222222223


Q ss_pred             EEec-CCChHHHHHHHHhcccEEeeCCCCHHHHHHHH
Q 045936          104 GVTS-RNSETEREVFMQAGLDLCYTKPLTMAKIVPLL  139 (145)
Q Consensus       104 ~lt~-~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l  139 (145)
                      +++- .......+...+.|+.+|+.||++..+|...+
T Consensus        85 ilalPs~~qv~AeqLkQ~g~~~CllKPls~~rLlptl  121 (140)
T COG4999          85 ILALPSHAQVNAEQLKQDGAGACLLKPLSSTRLLPTL  121 (140)
T ss_pred             EEecCcHHHHhHHHHhhcchHhHhhCcchhhhhHHHH
Confidence            3333 33444567788999999999999999998744

>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins

Probab=97.12  E-value=0.023  Score=39.27  Aligned_cols=97  Identities=15%  Similarity=0.107  Sum_probs=69.2

Q ss_pred             cEEEEE----eCCHHHHHHHHHHHHhcCCeEEEe---cCHHHHHHHHhcCCCccEEEEeCCCCCC--CHHHHHHHHHhhC
Q 045936           27 YFALVV----DDDPMIRRIHSMILKSVGFKVEVA---ENGKEAVDLFRTGAKFHIVFIDMEMPVM--DGIEATKAMRAMK   97 (145)
Q Consensus        27 ~~vlii----~~~~~~~~~l~~~l~~~g~~v~~~---~~~~~~l~~l~~~~~~dlil~d~~~~~~--~g~~~~~~l~~~~   97 (145)
                      .+|++.    |.+..-...+..+|+..||++...   -+.++.++.+.. ..||+|-+...+...  ...++++.+++.+
T Consensus        83 ~~vl~~~~~gd~H~lG~~~v~~~l~~~G~~vi~lG~~~p~~~l~~~~~~-~~~d~v~lS~~~~~~~~~~~~~i~~lr~~~  161 (201)
T cd02070          83 GKVVIGTVEGDIHDIGKNLVATMLEANGFEVIDLGRDVPPEEFVEAVKE-HKPDILGLSALMTTTMGGMKEVIEALKEAG  161 (201)
T ss_pred             CeEEEEecCCccchHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHH-cCCCEEEEeccccccHHHHHHHHHHHHHCC
Confidence            366666    666666677888999999998732   367888888887 579999999876543  3456888888887


Q ss_pred             C--CCcEEEEecCCChHHHHHHHHhcccEEee
Q 045936           98 V--ESKIVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus        98 ~--~~~ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      +  +++|++-...-...   -+...|+|.|-.
T Consensus       162 ~~~~~~i~vGG~~~~~~---~~~~~GaD~~~~  190 (201)
T cd02070         162 LRDKVKVMVGGAPVNQE---FADEIGADGYAE  190 (201)
T ss_pred             CCcCCeEEEECCcCCHH---HHHHcCCcEEEC
Confidence            6  56666554444433   455679998874

A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.

>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase

Probab=97.06  E-value=0.021  Score=39.97  Aligned_cols=100  Identities=12%  Similarity=0.069  Sum_probs=71.3

Q ss_pred             cEEEEE----eCCHHHHHHHHHHHHhcCCeEEEe---cCHHHHHHHHhcCCCccEEEEeCCCCCC--CHHHHHHHHHhhC
Q 045936           27 YFALVV----DDDPMIRRIHSMILKSVGFKVEVA---ENGKEAVDLFRTGAKFHIVFIDMEMPVM--DGIEATKAMRAMK   97 (145)
Q Consensus        27 ~~vlii----~~~~~~~~~l~~~l~~~g~~v~~~---~~~~~~l~~l~~~~~~dlil~d~~~~~~--~g~~~~~~l~~~~   97 (145)
                      -+|++.    |.+..-...+..+|+..||+|...   -..++.++.+.+ ..||+|.+...+...  ...++++.|++.+
T Consensus        89 ~~vvl~t~~gd~HdiG~~iv~~~l~~~G~~Vi~LG~~vp~e~~v~~~~~-~~~~~V~lS~~~~~~~~~~~~~i~~L~~~~  167 (213)
T cd02069          89 GKIVLATVKGDVHDIGKNLVGVILSNNGYEVIDLGVMVPIEKILEAAKE-HKADIIGLSGLLVPSLDEMVEVAEEMNRRG  167 (213)
T ss_pred             CeEEEEeCCCchhHHHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHHHH-cCCCEEEEccchhccHHHHHHHHHHHHhcC
Confidence            356666    666666677788889999998743   357888888887 679999999877643  2456888888887


Q ss_pred             CCCcEEEEecCCChHHHHH---HHHhcccEEee
Q 045936           98 VESKIVGVTSRNSETEREV---FMQAGLDLCYT  127 (145)
Q Consensus        98 ~~~~ii~lt~~~~~~~~~~---~~~~g~~~~l~  127 (145)
                      ++++|++-....+.+....   +...|+|.|-.
T Consensus       168 ~~~~i~vGG~~~~~~~~~~~~~~~~~gad~y~~  200 (213)
T cd02069         168 IKIPLLIGGAATSRKHTAVKIAPEYDGPVVYVK  200 (213)
T ss_pred             CCCeEEEEChhcCHHHHhhhhccccCCCceEec
Confidence            7777776665656555433   23469988864

This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).

>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein

Probab=97.06  E-value=0.0032  Score=46.57  Aligned_cols=84  Identities=20%  Similarity=0.249  Sum_probs=54.8

Q ss_pred             CCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE-ecCCChHHHHHHHHhcccEEeeC
Q 045936           50 GFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV-TSRNSETEREVFMQAGLDLCYTK  128 (145)
Q Consensus        50 g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l-t~~~~~~~~~~~~~~g~~~~l~k  128 (145)
                      |.++..+.+..++-+..   ....+|++|..+-.    .++....  .+...++++ ....+.+....+++.|+.+|+.+
T Consensus         1 ~~~~~~~~~~~~~~~~~---~~~~~v~~~~~~~~----~~~~~~~--p~~~~vv~v~~~~~~~~~~~~a~~~Ga~~~l~~   71 (322)
T TIGR03815         1 GVELDVAPDPEAARRAW---ARAPLVLVDADMAE----ACAAAGL--PRRRRVVLVGGGEPGGALWRAAAAVGAEHVAVL   71 (322)
T ss_pred             CCceEEccCchhhhhcc---ccCCeEEECchhhh----HHHhccC--CCCCCEEEEeCCCCCHHHHHHHHHhChhheeeC
Confidence            34555666666553332   34678888865421    1222211  122335544 55667888999999999999999


Q ss_pred             CCCHHHHHHHHHHH
Q 045936          129 PLTMAKIVPLLEEL  142 (145)
Q Consensus       129 P~~~~~l~~~l~~~  142 (145)
                      |.+..+|...+.++
T Consensus        72 P~~~~~l~~~l~~~   85 (322)
T TIGR03815        72 PEAEGWLVELLADL   85 (322)
T ss_pred             CCCHHHHHHHHHhh
Confidence            99999999998775

Members of this protein family belong to the MinD/ParA family of P-loop NTPases, and in particular show homology to the CpaE family of pilus assembly proteins (see PubMed:12370432). Nearly all members are found, not only in a gene context consistent with pilus biogenesis or a pilus-like secretion apparatus, but also near a DEAD/DEAH-box helicase, suggesting an involvement in DNA transfer activity. The model describes a clade restricted to the Actinobacteria.

>PRK09426 methylmalonyl-CoA mutase; Reviewed

Probab=96.85  E-value=0.044  Score=44.93  Aligned_cols=108  Identities=16%  Similarity=0.141  Sum_probs=75.1

Q ss_pred             CHHHHHHHHHHHHhcCCeEEE---ecCHHHHHHHHhcCCCccEEEEeCCCCCC--CHHHHHHHHHhhCCCCcEEEEecCC
Q 045936           35 DPMIRRIHSMILKSVGFKVEV---AENGKEAVDLFRTGAKFHIVFIDMEMPVM--DGIEATKAMRAMKVESKIVGVTSRN  109 (145)
Q Consensus        35 ~~~~~~~l~~~l~~~g~~v~~---~~~~~~~l~~l~~~~~~dlil~d~~~~~~--~g~~~~~~l~~~~~~~~ii~lt~~~  109 (145)
                      +..-...+..+|...||.|..   +.+.+++.+.... ..+++|.+...+...  ....+++.|++....-..+++.+..
T Consensus       595 H~~ra~fv~~~l~~~GfeV~~~~~~~s~e~~v~aa~~-~~a~ivvlcs~d~~~~e~~~~l~~~Lk~~G~~~v~vl~GG~~  673 (714)
T PRK09426        595 HDRGAKVIATAFADLGFDVDIGPLFQTPEEAARQAVE-NDVHVVGVSSLAAGHKTLVPALIEALKKLGREDIMVVVGGVI  673 (714)
T ss_pred             hhHhHHHHHHHHHhCCeeEecCCCCCCHHHHHHHHHH-cCCCEEEEeccchhhHHHHHHHHHHHHhcCCCCcEEEEeCCC
Confidence            344446677888889999862   4578888888776 568887776554433  2456888888876432223455443


Q ss_pred             ChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          110 SETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       110 ~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      .+.....+.+.|+++|+..-.+..+++..+++.+
T Consensus       674 ~~~~~~~l~~aGvD~~i~~g~d~~~~L~~l~~~l  707 (714)
T PRK09426        674 PPQDYDFLYEAGVAAIFGPGTVIADAAIDLLELL  707 (714)
T ss_pred             ChhhHHHHHhCCCCEEECCCCCHHHHHHHHHHHH
Confidence            4444567889999999998888888888887765

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

Probab=96.80  E-value=0.027  Score=47.41  Aligned_cols=49  Identities=14%  Similarity=0.176  Sum_probs=41.8

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCC
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDME   80 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~   80 (145)
                      .+.+||++||++..+..+..+|+.+|+.|..+.+.      ... ..||+||+|..
T Consensus       688 ~g~~vLlvdD~~~~r~~l~~~L~~~G~~v~~a~~~------~~~-~~~Dlvl~D~~  736 (894)
T PRK10618        688 DGVTVLLDITSEEVRKIVTRQLENWGATCITPDER------LIS-QEYDIFLTDNP  736 (894)
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHCCCEEEEcCcc------ccC-CCCCEEEECCC
Confidence            46799999999999999999999999999877652      223 56999999987

>cd02068 radical_SAM_B12_BD B12 binding domain_like associated with radical SAM domain

Probab=96.55  E-value=0.079  Score=33.66  Aligned_cols=105  Identities=17%  Similarity=0.151  Sum_probs=63.5

Q ss_pred             HHHHHHHHHHHhcCCeEE--EecCHHHHHHHHhcCCCccEEEEeCCCCCC-CHHHHHHHHHhhCCCCcEEEEecCCChHH
Q 045936           37 MIRRIHSMILKSVGFKVE--VAENGKEAVDLFRTGAKFHIVFIDMEMPVM-DGIEATKAMRAMKVESKIVGVTSRNSETE  113 (145)
Q Consensus        37 ~~~~~l~~~l~~~g~~v~--~~~~~~~~l~~l~~~~~~dlil~d~~~~~~-~g~~~~~~l~~~~~~~~ii~lt~~~~~~~  113 (145)
                      .-...+..++.+.|+.+.  .....++.++.+.....||+|.+....... ....+++.+|+..|+++|++-..... ..
T Consensus         3 lgl~~~aa~l~~~g~~v~~~~~~~~~~~~~~~~~~~~pdiv~~S~~~~~~~~~~~~~~~ik~~~p~~~iv~GG~~~t-~~   81 (127)
T cd02068           3 LGLAYLAAVLEDAGFIVAEHDVLSADDIVEDIKELLKPDVVGISLMTSAIYEALELAKIAKEVLPNVIVVVGGPHAT-FF   81 (127)
T ss_pred             chHHHHHHHHHHCCCeeeecCCCCHHHHHHHHHHhcCCCEEEEeeccccHHHHHHHHHHHHHHCCCCEEEECCcchh-hC
Confidence            344567788888887755  234556667766541469999998755443 35678999999888777664433322 22


Q ss_pred             HHH-HHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          114 REV-FMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       114 ~~~-~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      ... ....++ ||+..--....+...++.+.
T Consensus        82 p~~~~~~~~~-D~vv~GEgE~~~~~l~~~l~  111 (127)
T cd02068          82 PEEILEEPGV-DFVVIGEGEETFLKLLEELE  111 (127)
T ss_pred             HHHHhcCCCC-CEEEECCcHHHHHHHHHHHH
Confidence            223 233445 55655555555555555543

This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the signature motif Asp-X-His-X-X-Gly, which contains the histidine that acts as a cobalt ligand. The function of this domain remains unclear.

>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family

Probab=96.31  E-value=0.1  Score=36.05  Aligned_cols=90  Identities=12%  Similarity=0.034  Sum_probs=60.7

Q ss_pred             CCHHHHHHHHHHHHhcCCeEEE---ecCHHHHHHHHhcCCCccEEEEeCCCCCCC--HHHHHHHHHhhC--CCCcEEEEe
Q 045936           34 DDPMIRRIHSMILKSVGFKVEV---AENGKEAVDLFRTGAKFHIVFIDMEMPVMD--GIEATKAMRAMK--VESKIVGVT  106 (145)
Q Consensus        34 ~~~~~~~~l~~~l~~~g~~v~~---~~~~~~~l~~l~~~~~~dlil~d~~~~~~~--g~~~~~~l~~~~--~~~~ii~lt  106 (145)
                      .+..-...+..+|+..||+|..   -...++.++.+.. ..||+|.+...+....  ..++++.+++..  +.++|++-.
T Consensus        96 ~H~lG~~~v~~~l~~~G~~vi~LG~~vp~e~~v~~~~~-~~pd~v~lS~~~~~~~~~~~~~i~~l~~~~~~~~v~i~vGG  174 (197)
T TIGR02370        96 VHDIGKNIVVTMLRANGFDVIDLGRDVPIDTVVEKVKK-EKPLMLTGSALMTTTMYGQKDINDKLKEEGYRDSVKFMVGG  174 (197)
T ss_pred             hhHHHHHHHHHHHHhCCcEEEECCCCCCHHHHHHHHHH-cCCCEEEEccccccCHHHHHHHHHHHHHcCCCCCCEEEEEC
Confidence            3344445667788899999873   3367888888887 6799999998776542  346788888873  245555444


Q ss_pred             cCCChHHHHHHHHhcccEEee
Q 045936          107 SRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      ..-.+.   -+...|+|.|-.
T Consensus       175 ~~~~~~---~~~~~gad~~~~  192 (197)
T TIGR02370       175 APVTQD---WADKIGADVYGE  192 (197)
T ss_pred             hhcCHH---HHHHhCCcEEeC
Confidence            444432   355779998864

This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.

>PRK05718 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=96.05  E-value=0.27  Score=34.43  Aligned_cols=94  Identities=16%  Similarity=0.185  Sum_probs=61.9

Q ss_pred             HHHHHHhcC-CeEEEecCHHHHHHHHhcC--CCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHH
Q 045936           42 HSMILKSVG-FKVEVAENGKEAVDLFRTG--AKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFM  118 (145)
Q Consensus        42 l~~~l~~~g-~~v~~~~~~~~~l~~l~~~--~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~  118 (145)
                      +...+.+.+ ..|....+.++++...+.-  ..++++  +..+....+++.++.+++.+|+ .+|...+-.+.+....+.
T Consensus         8 ~~~~l~~~~~iaV~r~~~~~~a~~i~~al~~~Gi~~i--Eitl~~~~~~~~I~~l~~~~p~-~~IGAGTVl~~~~a~~a~   84 (212)
T PRK05718          8 IEEILRAGPVVPVIVINKLEDAVPLAKALVAGGLPVL--EVTLRTPAALEAIRLIAKEVPE-ALIGAGTVLNPEQLAQAI   84 (212)
T ss_pred             HHHHHHHCCEEEEEEcCCHHHHHHHHHHHHHcCCCEE--EEecCCccHHHHHHHHHHHCCC-CEEEEeeccCHHHHHHHH
Confidence            445566666 3466788888887765431  235544  4445555799999999988875 344555666778899999


Q ss_pred             HhcccEEeeCCCCHHHHHHHH
Q 045936          119 QAGLDLCYTKPLTMAKIVPLL  139 (145)
Q Consensus       119 ~~g~~~~l~kP~~~~~l~~~l  139 (145)
                      ++|++-.+..-+++ ++.+..
T Consensus        85 ~aGA~FivsP~~~~-~vi~~a  104 (212)
T PRK05718         85 EAGAQFIVSPGLTP-PLLKAA  104 (212)
T ss_pred             HcCCCEEECCCCCH-HHHHHH
Confidence            99997665544444 555443

>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase

Probab=95.76  E-value=0.34  Score=38.24  Aligned_cols=107  Identities=17%  Similarity=0.108  Sum_probs=68.9

Q ss_pred             CHHHHHHHHHHHHhcC-CeEEEec------CHHHHHHHHhcCCCccEEEEeCCCCCCC-HHHHHHHHHhhCCCCcEEEEe
Q 045936           35 DPMIRRIHSMILKSVG-FKVEVAE------NGKEAVDLFRTGAKFHIVFIDMEMPVMD-GIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        35 ~~~~~~~l~~~l~~~g-~~v~~~~------~~~~~l~~l~~~~~~dlil~d~~~~~~~-g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .|.-...+...|+..| +.|...+      +.++..+.+.. ..||+|.+....+... ..++++.+|+..|+++||+- 
T Consensus        21 pPlgl~~lAa~L~~~G~~~V~iiD~~~~~~~~~~~~~~l~~-~~pdvVgis~~t~~~~~a~~~~~~~k~~~P~~~iV~G-   98 (497)
T TIGR02026        21 PPLWVAYIGGALLDAGYHDVTFLDAMTGPLTDEKLVERLRA-HCPDLVLITAITPAIYIACETLKFARERLPNAIIVLG-   98 (497)
T ss_pred             CCHHHHHHHHHHHhcCCcceEEecccccCCCHHHHHHHHHh-cCcCEEEEecCcccHHHHHHHHHHHHHHCCCCEEEEc-
Confidence            5777788999998889 5666432      34455566665 5799999876555433 45788888888888777644 


Q ss_pred             cCCChHHHHHHHH-hcccEEeeCCCCHHHHHHHHHHHh
Q 045936          107 SRNSETEREVFMQ-AGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       107 ~~~~~~~~~~~~~-~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +.........++. ...-||+..--....+...++.+.
T Consensus        99 G~h~t~~~~~~l~~~p~vD~Vv~GEGE~~~~~Ll~~l~  136 (497)
T TIGR02026        99 GIHPTFMFHQVLTEAPWIDFIVRGEGEETVVKLIAALE  136 (497)
T ss_pred             CCCcCcCHHHHHhcCCCccEEEeCCcHHHHHHHHHHHH
Confidence            3332223334443 344466766767777777666543

This model respresents the cobalamin-dependent oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.

>TIGR02311 HpaI 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase

Probab=95.74  E-value=0.41  Score=34.31  Aligned_cols=89  Identities=13%  Similarity=0.039  Sum_probs=62.0

Q ss_pred             EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh-CCCCcEEEEecCCChHHHHHHHHhcccEE-eeCCC
Q 045936           53 VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM-KVESKIVGVTSRNSETEREVFMQAGLDLC-YTKPL  130 (145)
Q Consensus        53 v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~-~~~~~ii~lt~~~~~~~~~~~~~~g~~~~-l~kP~  130 (145)
                      ++.........+.+.. ..+|.|++|+.....+..++...++.. ...+.+++=....+...+..+++.|++++ ++|--
T Consensus        16 ~~~~~~~p~~~e~~~~-~g~D~v~iDlEH~~~~~~~~~~~~~a~~~~g~~~~VRv~~~~~~~i~~~Ld~Ga~gIivP~v~   94 (249)
T TIGR02311        16 LWLGLADPYAAEICAG-AGFDWLLIDGEHAPNDVRTILSQLQALAPYPSSPVVRPAIGDPVLIKQLLDIGAQTLLVPMIE   94 (249)
T ss_pred             EEEeCCCcHHHHHHHh-cCCCEEEEeccCCCCCHHHHHHHHHHHHhcCCCcEEECCCCCHHHHHHHhCCCCCEEEecCcC
Confidence            3333333455555554 459999999988888877777777664 32344444456667778899999999997 57788


Q ss_pred             CHHHHHHHHHHH
Q 045936          131 TMAKIVPLLEEL  142 (145)
Q Consensus       131 ~~~~l~~~l~~~  142 (145)
                      +.++....++.+
T Consensus        95 s~e~a~~~v~~~  106 (249)
T TIGR02311        95 TAEQAEAAVAAT  106 (249)
T ss_pred             CHHHHHHHHHHc
Confidence            888888777653

This model represents the aldolase which performs the final step unique to the 4-hydroxyphenylacetic acid catabolism pathway in which 2,4-dihydroxyhept-2-ene-1,7-dioic acid is split into pyruvate and succinate-semialdehyde. The gene for enzyme is generally found adjacent to other genes for this pathway organized into an operon.

>PRK10558 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional

Probab=95.41  E-value=0.52  Score=33.95  Aligned_cols=101  Identities=14%  Similarity=0.030  Sum_probs=65.7

Q ss_pred             HHHHHHHHhcCCe--EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC-CCCcEEEEecCCChHHHHH
Q 045936           40 RIHSMILKSVGFK--VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK-VESKIVGVTSRNSETEREV  116 (145)
Q Consensus        40 ~~l~~~l~~~g~~--v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~-~~~~ii~lt~~~~~~~~~~  116 (145)
                      ..++..|......  .+.........+.+.. ..+|.|++|+.....+--++...++... ..+..++=....++..+..
T Consensus         8 n~lk~~l~~g~~~~g~~~~~~sp~~~e~~a~-~G~D~v~iD~EHg~~~~~~~~~~i~a~~~~g~~~lVRvp~~~~~~i~r   86 (256)
T PRK10558          8 NKFKAALAAKQVQIGCWSALANPITTEVLGL-AGFDWLVLDGEHAPNDVSTFIPQLMALKGSASAPVVRVPTNEPVIIKR   86 (256)
T ss_pred             HHHHHHHHcCCceEEEEEcCCCcHHHHHHHh-cCCCEEEEccccCCCCHHHHHHHHHHHhhcCCCcEEECCCCCHHHHHH
Confidence            4466666553322  3332333455555554 3599999999998888777777776643 3444454556668888999


Q ss_pred             HHHhcccEEeeC-CCCHHHHHHHHHH
Q 045936          117 FMQAGLDLCYTK-PLTMAKIVPLLEE  141 (145)
Q Consensus       117 ~~~~g~~~~l~k-P~~~~~l~~~l~~  141 (145)
                      +++.|+++++.. --+.++....++.
T Consensus        87 ~LD~Ga~giivP~v~tae~a~~~v~a  112 (256)
T PRK10558         87 LLDIGFYNFLIPFVETAEEARRAVAS  112 (256)
T ss_pred             HhCCCCCeeeecCcCCHHHHHHHHHH
Confidence            999999998654 4556666666543

>PRK00043 thiE thiamine-phosphate pyrophosphorylase; Reviewed

Probab=95.27  E-value=0.6  Score=32.16  Aligned_cols=86  Identities=17%  Similarity=0.123  Sum_probs=58.0

Q ss_pred             EecCHHHHHHHHhcCCCccEEEEeCCCCCC--------CHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           55 VAENGKEAVDLFRTGAKFHIVFIDMEMPVM--------DGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        55 ~~~~~~~~l~~l~~~~~~dlil~d~~~~~~--------~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      .+++.+++.+....  .+|.|.++.-.+..        .|++.++.+++..+.+||++..+- +.+....++..|++.+.
T Consensus       110 ~~~t~~e~~~a~~~--gaD~v~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~v~a~GGI-~~~~i~~~~~~Ga~gv~  186 (212)
T PRK00043        110 STHTLEEAAAALAA--GADYVGVGPIFPTPTKKDAKAPQGLEGLREIRAAVGDIPIVAIGGI-TPENAPEVLEAGADGVA  186 (212)
T ss_pred             eCCCHHHHHHHhHc--CCCEEEECCccCCCCCCCCCCCCCHHHHHHHHHhcCCCCEEEECCc-CHHHHHHHHHcCCCEEE
Confidence            55677777776654  48999876444332        257888998887655888766555 67788889999999985


Q ss_pred             -----eCCCCHHHHHHHHHHHh
Q 045936          127 -----TKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       127 -----~kP~~~~~l~~~l~~~~  143 (145)
                           .+.-++.+....+.+.+
T Consensus       187 ~gs~i~~~~d~~~~~~~l~~~~  208 (212)
T PRK00043        187 VVSAITGAEDPEAAARALLAAF  208 (212)
T ss_pred             EeHHhhcCCCHHHHHHHHHHHH
Confidence                 34445555555554443

>PF01081 Aldolase: KDPG and KHG aldolase; InterPro: IPR000887 4-Hydroxy-2-oxoglutarate aldolase (4

Probab=95.22  E-value=0.16  Score=35.04  Aligned_cols=92  Identities=18%  Similarity=0.260  Sum_probs=53.5

Q ss_pred             HHHHHhcCC-eEEEecCHHHHHHH---HhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHH
Q 045936           43 SMILKSVGF-KVEVAENGKEAVDL---FRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFM  118 (145)
Q Consensus        43 ~~~l~~~g~-~v~~~~~~~~~l~~---l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~  118 (145)
                      .+.|++.+. .+....+.+++...   +.++ .+.  +++..+...+.++.++.+++.+|++ ++-..+-.+.+....+.
T Consensus         2 ~~~l~~~~iiaVir~~~~~~a~~~~~al~~g-Gi~--~iEiT~~t~~a~~~I~~l~~~~p~~-~vGAGTV~~~e~a~~a~   77 (196)
T PF01081_consen    2 EERLKENKIIAVIRGDDPEDAVPIAEALIEG-GIR--AIEITLRTPNALEAIEALRKEFPDL-LVGAGTVLTAEQAEAAI   77 (196)
T ss_dssp             HHHHHHHSEEEEETTSSGGGHHHHHHHHHHT-T----EEEEETTSTTHHHHHHHHHHHHTTS-EEEEES--SHHHHHHHH
T ss_pred             hHHHhhCCEEEEEEcCCHHHHHHHHHHHHHC-CCC--EEEEecCCccHHHHHHHHHHHCCCC-eeEEEeccCHHHHHHHH
Confidence            345555563 34455555555443   3332 234  4455555667899999999888763 45566677888999999


Q ss_pred             HhcccEEeeCCCCHHHHHHHH
Q 045936          119 QAGLDLCYTKPLTMAKIVPLL  139 (145)
Q Consensus       119 ~~g~~~~l~kP~~~~~l~~~l  139 (145)
                      ++|++-.+. |...+++.+..
T Consensus        78 ~aGA~FivS-P~~~~~v~~~~   97 (196)
T PF01081_consen   78 AAGAQFIVS-PGFDPEVIEYA   97 (196)
T ss_dssp             HHT-SEEEE-SS--HHHHHHH
T ss_pred             HcCCCEEEC-CCCCHHHHHHH
Confidence            999976665 44444444433

1.3.16 from EC) (KHG-aldolase) catalyzes the interconversion of 4-hydroxy-2-oxoglutarate into pyruvate and glyoxylate. Phospho-2-dehydro-3-deoxygluconate aldolase (4.1.2.14 from EC) (KDPG-aldolase) catalyzes the interconversion of 6-phospho-2-dehydro-3-deoxy-D-gluconate into pyruvate and glyceraldehyde 3-phosphate. These two enzymes are structurally and functionally related []. They are both homotrimeric proteins of approximately 220 amino-acid residues. They are class I aldolases whose catalytic mechanism involves the formation of a Schiff-base intermediate between the substrate and the epsilon-amino group of a lysine residue. In both enzymes, an arginine is required for catalytic activity.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3VCR_A 1FQ0_A 1EUN_A 1EUA_B 1FWR_A 2C0A_B 1WBH_A 1WAU_A 2YW3_B 2YW4_A ....

>cd04728 ThiG Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism

Probab=95.20  E-value=0.51  Score=33.70  Aligned_cols=108  Identities=13%  Similarity=0.047  Sum_probs=65.9

Q ss_pred             EEEEEeCCHHHHHHHHHHH------HhcCCeEE--EecCHHHHHHHHhcCCCccEEEE-----eCCCCCCCHHHHHHHHH
Q 045936           28 FALVVDDDPMIRRIHSMIL------KSVGFKVE--VAENGKEAVDLFRTGAKFHIVFI-----DMEMPVMDGIEATKAMR   94 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l------~~~g~~v~--~~~~~~~~l~~l~~~~~~dlil~-----d~~~~~~~g~~~~~~l~   94 (145)
                      ++=|+.|+.....-+...+      -..||.+.  +..|...+-+....  .+++|.-     .... +..-.++++.++
T Consensus        95 KlEVi~d~~~Llpd~~~tv~aa~~L~~~Gf~vlpyc~dd~~~ar~l~~~--G~~~vmPlg~pIGsg~-Gi~~~~~I~~I~  171 (248)
T cd04728          95 KLEVIGDDKTLLPDPIETLKAAEILVKEGFTVLPYCTDDPVLAKRLEDA--GCAAVMPLGSPIGSGQ-GLLNPYNLRIII  171 (248)
T ss_pred             EEEEecCccccccCHHHHHHHHHHHHHCCCEEEEEeCCCHHHHHHHHHc--CCCEeCCCCcCCCCCC-CCCCHHHHHHHH
Confidence            5555655544333322222      23488866  55566666555443  4677621     1111 122267888888


Q ss_pred             hhCCCCcEEEEecCCChHHHHHHHHhcccEEe-----eCCCCHHHHHHHH
Q 045936           95 AMKVESKIVGVTSRNSETEREVFMQAGLDLCY-----TKPLTMAKIVPLL  139 (145)
Q Consensus        95 ~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l-----~kP~~~~~l~~~l  139 (145)
                      +. .++|||+=..-..++....+++.|+++++     .|.-++..+....
T Consensus       172 e~-~~vpVI~egGI~tpeda~~AmelGAdgVlV~SAIt~a~dP~~ma~af  220 (248)
T cd04728         172 ER-ADVPVIVDAGIGTPSDAAQAMELGADAVLLNTAIAKAKDPVAMARAF  220 (248)
T ss_pred             Hh-CCCcEEEeCCCCCHHHHHHHHHcCCCEEEEChHhcCCCCHHHHHHHH
Confidence            76 57888888888899999999999999985     4544454444444

ThiG catalyzes the formation of thiazole from 1-deoxy-D-xylulose 5-phosphate (DXP) and dehydroglycine, with the help of the sulfur carrier protein ThiS that carries the sulfur needed for thiazole assembly on its carboxy terminus (ThiS-COSH).

>COG0512 PabA Anthranilate/para-aminobenzoate synthases component II [Amino acid transport and metabolism / Coenzyme metabolism]

Probab=95.05  E-value=0.22  Score=34.17  Aligned_cols=80  Identities=20%  Similarity=0.235  Sum_probs=52.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCC--CCCCHHHHHHHHHhhCCCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEM--PVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~--~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ++||++|+...+--.|.+++++.|..+....+.+-....++. ..||.|++.---  |. +.-...+.+++.....||+-
T Consensus         2 ~~IL~IDNyDSFtyNLv~yl~~lg~~v~V~rnd~~~~~~~~~-~~pd~iviSPGPG~P~-d~G~~~~~i~~~~~~~PiLG   79 (191)
T COG0512           2 MMILLIDNYDSFTYNLVQYLRELGAEVTVVRNDDISLELIEA-LKPDAIVISPGPGTPK-DAGISLELIRRFAGRIPILG   79 (191)
T ss_pred             ceEEEEECccchHHHHHHHHHHcCCceEEEECCccCHHHHhh-cCCCEEEEcCCCCChH-HcchHHHHHHHhcCCCCEEE
Confidence            579999999999999999999999777655554333334554 468999987432  11 11123444444444578876


Q ss_pred             EecC
Q 045936          105 VTSR  108 (145)
Q Consensus       105 lt~~  108 (145)
                      ++-.
T Consensus        80 VCLG   83 (191)
T COG0512          80 VCLG   83 (191)
T ss_pred             ECcc
Confidence            6543

>PRK08385 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=94.92  E-value=0.8  Score=33.45  Aligned_cols=95  Identities=14%  Similarity=0.130  Sum_probs=64.5

Q ss_pred             EEEEEeCCHHHHHHHHHHHHh---cC--Ce-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCC-CC
Q 045936           28 FALVVDDDPMIRRIHSMILKS---VG--FK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKV-ES  100 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~---~g--~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~-~~  100 (145)
                      .||+-|++-... .+...++.   ..  .. .+.+.+.+++.+.+..  .+|+|++|- +....--+..+.++.... ..
T Consensus       156 ~vLikdnHi~~~-~i~~av~~~r~~~~~~kIeVEv~~leea~~a~~a--gaDiI~LDn-~~~e~l~~~v~~l~~~~~~~~  231 (278)
T PRK08385        156 AILIKDNHLALV-PLEEAIRRAKEFSVYKVVEVEVESLEDALKAAKA--GADIIMLDN-MTPEEIREVIEALKREGLRER  231 (278)
T ss_pred             cEEEccCHHHHH-HHHHHHHHHHHhCCCCcEEEEeCCHHHHHHHHHc--CcCEEEECC-CCHHHHHHHHHHHHhcCcCCC
Confidence            378888886655 55555533   22  22 3489999999999986  389999994 333334455666665442 22


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEEe
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      ..+..++.-+.+........|+|.+-
T Consensus       232 ~~leaSGGI~~~ni~~yA~tGvD~Is  257 (278)
T PRK08385        232 VKIEVSGGITPENIEEYAKLDVDVIS  257 (278)
T ss_pred             EEEEEECCCCHHHHHHHHHcCCCEEE
Confidence            34666778888889999999998864

>PRK09140 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed

Probab=94.71  E-value=0.95  Score=31.51  Aligned_cols=95  Identities=16%  Similarity=0.147  Sum_probs=57.3

Q ss_pred             HHHHHHhcCC-eEEEecCHHHHHHHHhcC--CCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHH
Q 045936           42 HSMILKSVGF-KVEVAENGKEAVDLFRTG--AKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFM  118 (145)
Q Consensus        42 l~~~l~~~g~-~v~~~~~~~~~l~~l~~~--~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~  118 (145)
                      +.+.|...+. .+....+.++++..++.-  ....  ++.+.+...++.+.++.+++.++..-+|-..+-.+.+....+.
T Consensus         3 ~~~~l~~~~~~~v~r~~~~~~~~~~~~a~~~gGi~--~iEvt~~~~~~~~~i~~l~~~~~~~~~iGaGTV~~~~~~~~a~   80 (206)
T PRK09140          3 LMQPFTKLPLIAILRGITPDEALAHVGALIEAGFR--AIEIPLNSPDPFDSIAALVKALGDRALIGAGTVLSPEQVDRLA   80 (206)
T ss_pred             hhhHHHhCCEEEEEeCCCHHHHHHHHHHHHHCCCC--EEEEeCCCccHHHHHHHHHHHcCCCcEEeEEecCCHHHHHHHH
Confidence            3455555553 355666666666554321  1233  4455555667888888888877643345555666777888889


Q ss_pred             HhcccEEeeCCCCHHHHHHHH
Q 045936          119 QAGLDLCYTKPLTMAKIVPLL  139 (145)
Q Consensus       119 ~~g~~~~l~kP~~~~~l~~~l  139 (145)
                      ++|++..+. |....++....
T Consensus        81 ~aGA~fivs-p~~~~~v~~~~  100 (206)
T PRK09140         81 DAGGRLIVT-PNTDPEVIRRA  100 (206)
T ss_pred             HcCCCEEEC-CCCCHHHHHHH
Confidence            999966554 55555555443

>TIGR01182 eda Entner-Doudoroff aldolase

Probab=94.65  E-value=0.72  Score=32.10  Aligned_cols=91  Identities=11%  Similarity=0.196  Sum_probs=53.8

Q ss_pred             HHHhcCC-eEEEecCHHHHHHHHhc--CCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhc
Q 045936           45 ILKSVGF-KVEVAENGKEAVDLFRT--GAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAG  121 (145)
Q Consensus        45 ~l~~~g~-~v~~~~~~~~~l~~l~~--~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g  121 (145)
                      .|.+.+. .+....+.++++...+.  .....++=+.+  ..-..++.++.+++.++. -++-..+-.+.+....+.++|
T Consensus         4 ~l~~~~liaVlr~~~~e~a~~~~~al~~~Gi~~iEit~--~t~~a~~~i~~l~~~~~~-~~vGAGTVl~~~~a~~a~~aG   80 (204)
T TIGR01182         4 LLREAKIVPVIRIDDVDDALPLAKALIEGGLRVLEVTL--RTPVALDAIRLLRKEVPD-ALIGAGTVLNPEQLRQAVDAG   80 (204)
T ss_pred             HHhhCCEEEEEecCCHHHHHHHHHHHHHcCCCEEEEeC--CCccHHHHHHHHHHHCCC-CEEEEEeCCCHHHHHHHHHcC
Confidence            3444452 35566666666554332  02345444443  445678888888887764 234455666778888888888


Q ss_pred             ccEEeeCCCCHHHHHHHH
Q 045936          122 LDLCYTKPLTMAKIVPLL  139 (145)
Q Consensus       122 ~~~~l~kP~~~~~l~~~l  139 (145)
                      ++-.+ .|....++.+..
T Consensus        81 A~Fiv-sP~~~~~v~~~~   97 (204)
T TIGR01182        81 AQFIV-SPGLTPELAKHA   97 (204)
T ss_pred             CCEEE-CCCCCHHHHHHH
Confidence            86554 455555555443

2-deydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) is an enzyme of the Entner-Doudoroff pathway. This aldolase has another function, 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) shown experimentally in Escherichia coli and Pseudomonas putida

>PRK10128 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional

Probab=94.63  E-value=1.2  Score=32.34  Aligned_cols=100  Identities=11%  Similarity=0.042  Sum_probs=63.3

Q ss_pred             HHHHHHHhcCC--eEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC-CCCcEEEEecCCChHHHHHH
Q 045936           41 IHSMILKSVGF--KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK-VESKIVGVTSRNSETEREVF  117 (145)
Q Consensus        41 ~l~~~l~~~g~--~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~-~~~~ii~lt~~~~~~~~~~~  117 (145)
                      .++..|+....  -.+.....-...+.+.. ..+|.|++|......+--++...++... ..+..++=....++..+..+
T Consensus         8 ~lk~~L~~G~~~~G~~~~~~sp~~~E~~a~-~GfD~v~iD~EHg~~~~~~l~~~i~a~~~~g~~~lVRvp~~~~~~i~r~   86 (267)
T PRK10128          8 PFKEGLRKGEVQIGLWLSSTTSYMAEIAAT-SGYDWLLIDGEHAPNTIQDLYHQLQAIAPYASQPVIRPVEGSKPLIKQV   86 (267)
T ss_pred             HHHHHHHcCCceEEEEecCCCcHHHHHHHH-cCCCEEEEccccCCCCHHHHHHHHHHHHhcCCCeEEECCCCCHHHHHHH
Confidence            35555654322  23322333445555544 3599999999998888777776776643 34444555566778889999


Q ss_pred             HHhcccEEeeCCC-CHHHHHHHHHH
Q 045936          118 MQAGLDLCYTKPL-TMAKIVPLLEE  141 (145)
Q Consensus       118 ~~~g~~~~l~kP~-~~~~l~~~l~~  141 (145)
                      ++.|+++.+..-+ +.++....++.
T Consensus        87 LD~GA~GIivP~V~saeeA~~~V~a  111 (267)
T PRK10128         87 LDIGAQTLLIPMVDTAEQARQVVSA  111 (267)
T ss_pred             hCCCCCeeEecCcCCHHHHHHHHHh
Confidence            9999999876544 45665555543

>PRK07896 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=94.60  E-value=0.37  Score=35.34  Aligned_cols=95  Identities=14%  Similarity=0.162  Sum_probs=63.5

Q ss_pred             EEEEEeCCHHHHHHHHHHHHh----cC-C-eEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCc
Q 045936           28 FALVVDDDPMIRRIHSMILKS----VG-F-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESK  101 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~----~g-~-~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~  101 (145)
                      .|+|-|++-.....+...++.    .+ . ..+.+.+.+++.+.+..  .+|+|.+| +|....--+.++.++..++++ 
T Consensus       172 ~ilIkdNHi~~~G~i~~ai~~~r~~~~~~kIeVEv~tl~ea~eal~~--gaDiI~LD-nm~~e~vk~av~~~~~~~~~v-  247 (289)
T PRK07896        172 AALIKDNHVAAAGSVVAALRAVRAAAPDLPCEVEVDSLEQLDEVLAE--GAELVLLD-NFPVWQTQEAVQRRDARAPTV-  247 (289)
T ss_pred             eeeecHHHHHHhCcHHHHHHHHHHhCCCCCEEEEcCCHHHHHHHHHc--CCCEEEeC-CCCHHHHHHHHHHHhccCCCE-
Confidence            477777775554334443332    22 2 24488999999999875  48999999 555444445555555555443 


Q ss_pred             EEEEecCCChHHHHHHHHhcccEEe
Q 045936          102 IVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      .+..++.-+.+........|+|.+-
T Consensus       248 ~ieaSGGI~~~ni~~yA~tGvD~Is  272 (289)
T PRK07896        248 LLESSGGLTLDTAAAYAETGVDYLA  272 (289)
T ss_pred             EEEEECCCCHHHHHHHHhcCCCEEE
Confidence            4667778888999999999998864

>cd02065 B12-binding_like B12 binding domain (B12-BD)

Probab=94.41  E-value=0.71  Score=28.82  Aligned_cols=72  Identities=14%  Similarity=0.089  Sum_probs=50.9

Q ss_pred             eCCHHHHHHHHHHHHhcCCeEEEe---cCHHHHHHHHhcCCCccEEEEeCCCCCC-CHHHHHHHHHhhCC-CCcEEEE
Q 045936           33 DDDPMIRRIHSMILKSVGFKVEVA---ENGKEAVDLFRTGAKFHIVFIDMEMPVM-DGIEATKAMRAMKV-ESKIVGV  105 (145)
Q Consensus        33 ~~~~~~~~~l~~~l~~~g~~v~~~---~~~~~~l~~l~~~~~~dlil~d~~~~~~-~g~~~~~~l~~~~~-~~~ii~l  105 (145)
                      +.++.-...+...++..|+.+...   ...++..+.+.. ..||+|.+....... .....+..+++..+ ++++++-
T Consensus        10 ~~h~lg~~~~~~~l~~~G~~v~~l~~~~~~~~~~~~i~~-~~pdiV~iS~~~~~~~~~~~~~~~~~~~~p~~~~ivvG   86 (125)
T cd02065          10 DVHDIGKNIVAIALRDNGFEVIDLGVDVPPEEIVEAAKE-EDADVVGLSALSTTHMEAMKLVIEALKELGIDIPVVVG   86 (125)
T ss_pred             chhhHHHHHHHHHHHHCCCEEEEcCCCCCHHHHHHHHHH-cCCCEEEEecchHhHHHHHHHHHHHHHhcCCCCeEEEe
Confidence            556666677888899999997743   366777777776 579999998766543 35566777777766 6666544

Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins. Not all members of this family contain the conserved binding motif.

>TIGR01334 modD putative molybdenum utilization protein ModD

Probab=94.39  E-value=0.31  Score=35.55  Aligned_cols=95  Identities=12%  Similarity=0.113  Sum_probs=64.0

Q ss_pred             EEEEEeCCHHHHH---HHHHHHH---hc-C-Ce-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCC
Q 045936           28 FALVVDDDPMIRR---IHSMILK---SV-G-FK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKV   98 (145)
Q Consensus        28 ~vlii~~~~~~~~---~l~~~l~---~~-g-~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~   98 (145)
                      .|||-|++-....   .+...++   +. + .. .+.+.+.+++.+.+..  .+|+|++| +++..+-.+.++.+++..+
T Consensus       158 ~ilikdnHi~~~g~~~~i~~av~~~r~~~~~~kIeVEv~tleea~ea~~~--GaDiI~lD-n~~~e~l~~~v~~l~~~~~  234 (277)
T TIGR01334       158 TLLVFANHRTFLNDNFDWGGAIGRLKQTAPERKITVEADTIEQALTVLQA--SPDILQLD-KFTPQQLHHLHERLKFFDH  234 (277)
T ss_pred             hheehHHHHHHhCCcccHHHHHHHHHHhCCCCCEEEECCCHHHHHHHHHc--CcCEEEEC-CCCHHHHHHHHHHHhccCC
Confidence            3677777655543   3444332   22 2 22 3478899999999876  38999999 4555555566666654444


Q ss_pred             CCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           99 ESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        99 ~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      .. .+..++.-+.+........|+|-+.
T Consensus       235 ~~-~leasGGI~~~ni~~ya~~GvD~is  261 (277)
T TIGR01334       235 IP-TLAAAGGINPENIADYIEAGIDLFI  261 (277)
T ss_pred             CE-EEEEECCCCHHHHHHHHhcCCCEEE
Confidence            33 5677888899999999999998864

The gene modD for a member of this family is found with molybdenum transport genes modABC in Rhodobacter capsulatus. However, disruption of modD causes only a 4-fold (rather than 500-fold for modA, modB, modC) change in the external molybdenum concentration required to suppress an alternative nitrogenase. ModD proteins are highly similar to nicotinate-nucleotide pyrophosphorylase (also called quinolinate phosphoribosyltransferase). The function unknown.

>cd00452 KDPG_aldolase KDPG and KHG aldolase

Probab=94.39  E-value=0.85  Score=31.16  Aligned_cols=79  Identities=13%  Similarity=0.054  Sum_probs=56.8

Q ss_pred             HHHHHhcCCeE-EEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhc
Q 045936           43 SMILKSVGFKV-EVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAG  121 (145)
Q Consensus        43 ~~~l~~~g~~v-~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g  121 (145)
                      ....+..|..+ ..+++.+|+.+..+.  .+|.+-++- .+. .|.+.++.++...+..|++.+.+- +.+.....+..|
T Consensus        90 ~~~~~~~~~~~i~gv~t~~e~~~A~~~--Gad~i~~~p-~~~-~g~~~~~~l~~~~~~~p~~a~GGI-~~~n~~~~~~~G  164 (190)
T cd00452          90 VKAANRAGIPLLPGVATPTEIMQALEL--GADIVKLFP-AEA-VGPAYIKALKGPFPQVRFMPTGGV-SLDNAAEWLAAG  164 (190)
T ss_pred             HHHHHHcCCcEECCcCCHHHHHHHHHC--CCCEEEEcC-Ccc-cCHHHHHHHHhhCCCCeEEEeCCC-CHHHHHHHHHCC
Confidence            33344445443 367799999888765  479887743 233 388999999887777887766555 788899999999


Q ss_pred             ccEEe
Q 045936          122 LDLCY  126 (145)
Q Consensus       122 ~~~~l  126 (145)
                      ++.+-
T Consensus       165 ~~~v~  169 (190)
T cd00452         165 VVAVG  169 (190)
T ss_pred             CEEEE
Confidence            98864

This family belongs to the class I adolases whose reaction mechanism involves Schiff base formation between a substrate carbonyl and lysine residue in the active site. 2-keto-3-deoxy-6-phosphogluconate (KDPG) aldolase, is best known for its role in the Entner-Doudoroff pathway of bacteria, where it catalyzes the reversible cleavage of KDPG to pyruvate and glyceraldehyde-3-phosphate. 2-keto-4-hydroxyglutarate (KHG) aldolase, which has enzymatic specificity toward glyoxylate, forming KHG in the presence of pyruvate, and is capable of regulating glyoxylate levels in the glyoxylate bypass, an alternate pathway when bacteria are grown on acetate carbon sources.

>PF01729 QRPTase_C: Quinolinate phosphoribosyl transferase, C-terminal domain; InterPro: IPR002638 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2

Probab=94.38  E-value=0.43  Score=32.17  Aligned_cols=95  Identities=18%  Similarity=0.170  Sum_probs=63.2

Q ss_pred             EEEEEeCCHHHHHHHHHHHHh----cC--Ce-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCC
Q 045936           28 FALVVDDDPMIRRIHSMILKS----VG--FK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVES  100 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~----~g--~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~  100 (145)
                      .+++-+++-.....+...++.    .+  .. .+.+.+.+++.+.+..  .+|+|.+|-..| .+--++++.++...+. 
T Consensus        52 ~ili~~nHi~~~g~i~~av~~~~~~~~~~~~I~VEv~~~ee~~ea~~~--g~d~I~lD~~~~-~~~~~~v~~l~~~~~~-  127 (169)
T PF01729_consen   52 MILIKDNHIAFFGGIEEAVKAARQAAPEKKKIEVEVENLEEAEEALEA--GADIIMLDNMSP-EDLKEAVEELRELNPR-  127 (169)
T ss_dssp             SEEE-HHHHHHHSSHHHHHHHHHHHSTTTSEEEEEESSHHHHHHHHHT--T-SEEEEES-CH-HHHHHHHHHHHHHTTT-
T ss_pred             cEEehHHHHHHhCCHHHHHHHHHHhCCCCceEEEEcCCHHHHHHHHHh--CCCEEEecCcCH-HHHHHHHHHHhhcCCc-
Confidence            477777776665545554432    23  22 3488999999999886  399999995433 3344566666666665 


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEEe
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      ..+.+++.-+.+.+......|+|.+-
T Consensus       128 v~ie~SGGI~~~ni~~ya~~gvD~is  153 (169)
T PF01729_consen  128 VKIEASGGITLENIAEYAKTGVDVIS  153 (169)
T ss_dssp             SEEEEESSSSTTTHHHHHHTT-SEEE
T ss_pred             EEEEEECCCCHHHHHHHHhcCCCEEE
Confidence            55677888888899999999998764

4.2.19 from EC is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to give rise to nicotinic acid mononucleotide (NaMN), pyrophosphate and carbon dioxide [, ]. Unlike IPR004393 from INTERPRO, this domain also includes the molybdenum transport system protein ModD.; GO: 0004514 nicotinate-nucleotide diphosphorylase (carboxylating) activity, 0009435 NAD biosynthetic process; PDB: 3C2O_A 3C2F_A 3C2E_A 3C2R_A 3C2V_A 1QPN_E 1QPO_A 1QPQ_F 1QPR_E 2I14_D ....

>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=94.37  E-value=1.2  Score=31.22  Aligned_cols=95  Identities=17%  Similarity=0.135  Sum_probs=60.0

Q ss_pred             HHHHhcC-CeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCC--cEEEEecCCChHHHHHHHHh
Q 045936           44 MILKSVG-FKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVES--KIVGVTSRNSETEREVFMQA  120 (145)
Q Consensus        44 ~~l~~~g-~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~--~ii~lt~~~~~~~~~~~~~~  120 (145)
                      ..|.+.+ ..|....+.++++...+.-..-.+=+++..+..-.+++.++.+++.++..  -++-..+-.+.+....+.++
T Consensus         8 ~~l~~~~vi~vir~~~~~~a~~~~~al~~~Gi~~iEit~~~~~a~~~i~~l~~~~~~~p~~~vGaGTV~~~~~~~~a~~a   87 (213)
T PRK06552          8 TKLKANGVVAVVRGESKEEALKISLAVIKGGIKAIEVTYTNPFASEVIKELVELYKDDPEVLIGAGTVLDAVTARLAILA   87 (213)
T ss_pred             HHHHHCCEEEEEECCCHHHHHHHHHHHHHCCCCEEEEECCCccHHHHHHHHHHHcCCCCCeEEeeeeCCCHHHHHHHHHc
Confidence            4555666 34667777787766554311112334555555667889999998876543  24455666788888899999


Q ss_pred             cccEEeeCCCCHHHHHHHH
Q 045936          121 GLDLCYTKPLTMAKIVPLL  139 (145)
Q Consensus       121 g~~~~l~kP~~~~~l~~~l  139 (145)
                      |++-.+ .|...+++....
T Consensus        88 GA~Fiv-sP~~~~~v~~~~  105 (213)
T PRK06552         88 GAQFIV-SPSFNRETAKIC  105 (213)
T ss_pred             CCCEEE-CCCCCHHHHHHH
Confidence            997655 566555555543

>PRK07428 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=94.28  E-value=0.53  Score=34.51  Aligned_cols=95  Identities=14%  Similarity=0.171  Sum_probs=62.8

Q ss_pred             EEEEEeCCHHHHHHHHHHHH----hcC--CeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCC
Q 045936           28 FALVVDDDPMIRRIHSMILK----SVG--FKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVES  100 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~----~~g--~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~  100 (145)
                      .|||-|++-.....+...+.    ..+  ..+. .+++.+++.+.+..  .+|+|.+| ++....--+.++.+++..+++
T Consensus       168 ~ilikdNHi~~~g~i~~av~~~r~~~~~~~~I~VEv~tleea~eA~~~--GaD~I~LD-n~~~e~l~~av~~~~~~~~~i  244 (288)
T PRK07428        168 AVMIKDNHIQAAGGIGEAITRIRQRIPYPLTIEVETETLEQVQEALEY--GADIIMLD-NMPVDLMQQAVQLIRQQNPRV  244 (288)
T ss_pred             eeeecHHHHHHhCCHHHHHHHHHHhCCCCCEEEEECCCHHHHHHHHHc--CCCEEEEC-CCCHHHHHHHHHHHHhcCCCe
Confidence            47888877655544444442    234  2333 78999999999875  48999999 333333334555555555555


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEEe
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      + +..++.-+.+........|+|.+-
T Consensus       245 ~-leAsGGIt~~ni~~ya~tGvD~Is  269 (288)
T PRK07428        245 K-IEASGNITLETIRAVAETGVDYIS  269 (288)
T ss_pred             E-EEEECCCCHHHHHHHHHcCCCEEE
Confidence            4 445666788888888999998864

>COG0157 NadC Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]

Probab=94.04  E-value=0.78  Score=33.37  Aligned_cols=94  Identities=15%  Similarity=0.188  Sum_probs=63.8

Q ss_pred             EEEEEeCCHHHHHHHHHHHHh----cCCe--E-EEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCC
Q 045936           28 FALVVDDDPMIRRIHSMILKS----VGFK--V-EVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVES  100 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~----~g~~--v-~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~  100 (145)
                      -|||=|++-.....+...+++    .+|.  + +.+.+.+++.+.+..  .+|+|++| +|....--+.++.+.  ....
T Consensus       160 avliKDNHia~~g~i~~Av~~aR~~~~~~~kIEVEvesle~~~eAl~a--gaDiImLD-Nm~~e~~~~av~~l~--~~~~  234 (280)
T COG0157         160 AVLIKDNHIAAAGSITEAVRRARAAAPFTKKIEVEVESLEEAEEALEA--GADIIMLD-NMSPEELKEAVKLLG--LAGR  234 (280)
T ss_pred             eEEehhhHHHHhccHHHHHHHHHHhCCCCceEEEEcCCHHHHHHHHHc--CCCEEEec-CCCHHHHHHHHHHhc--cCCc
Confidence            377777777766656666643    3553  2 389999999999986  38999999 343333334444441  2233


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEEe
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      .++-.++.-..+........|+|.+-
T Consensus       235 ~~lEaSGgIt~~ni~~yA~tGVD~IS  260 (280)
T COG0157         235 ALLEASGGITLENIREYAETGVDVIS  260 (280)
T ss_pred             eEEEEeCCCCHHHHHHHhhcCCCEEE
Confidence            45667888888889888999998763

>PRK05458 guanosine 5'-monophosphate oxidoreductase; Provisional

Probab=93.91  E-value=0.54  Score=35.12  Aligned_cols=66  Identities=15%  Similarity=0.112  Sum_probs=47.3

Q ss_pred             HHHHHHHhcCCCccEEEEeCCCCCCC-HHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           60 KEAVDLFRTGAKFHIVFIDMEMPVMD-GIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        60 ~~~l~~l~~~~~~dlil~d~~~~~~~-g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      +++.+.+..+-.+|+|.+|...+... ..+++++|++..|+.++++ .+..+.+....+.++|++...
T Consensus       100 ~~~~~Lv~ag~~~d~i~iD~a~gh~~~~~e~I~~ir~~~p~~~vi~-g~V~t~e~a~~l~~aGad~i~  166 (326)
T PRK05458        100 DFVDQLAAEGLTPEYITIDIAHGHSDSVINMIQHIKKHLPETFVIA-GNVGTPEAVRELENAGADATK  166 (326)
T ss_pred             HHHHHHHhcCCCCCEEEEECCCCchHHHHHHHHHHHhhCCCCeEEE-EecCCHHHHHHHHHcCcCEEE
Confidence            34444554421359999999887654 5578999999888777654 234477788889999999965

>PRK10669 putative cation:proton antiport protein; Provisional

Probab=93.90  E-value=2  Score=34.41  Aligned_cols=109  Identities=17%  Similarity=0.171  Sum_probs=57.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcC--------------------CCccEEEEeCCCCCCCH
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTG--------------------AKFHIVFIDMEMPVMDG   86 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~--------------------~~~dlil~d~~~~~~~g   86 (145)
                      -+++|++-.+.-+ .+.+.|++.|++++..+..++..+.+++.                    +..|.+++-..-+. +.
T Consensus       418 ~hiiI~G~G~~G~-~la~~L~~~g~~vvvId~d~~~~~~~~~~g~~~i~GD~~~~~~L~~a~i~~a~~viv~~~~~~-~~  495 (558)
T PRK10669        418 NHALLVGYGRVGS-LLGEKLLAAGIPLVVIETSRTRVDELRERGIRAVLGNAANEEIMQLAHLDCARWLLLTIPNGY-EA  495 (558)
T ss_pred             CCEEEECCChHHH-HHHHHHHHCCCCEEEEECCHHHHHHHHHCCCeEEEcCCCCHHHHHhcCccccCEEEEEcCChH-HH
Confidence            3566666655333 34444555555555444333333333220                    23565555433222 22


Q ss_pred             HHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936           87 IEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus        87 ~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      ..++..+++..++.++++-+.  +++......+.|+|..+. |  ..++...+.+.
T Consensus       496 ~~iv~~~~~~~~~~~iiar~~--~~~~~~~l~~~Gad~vv~-p--~~~~a~~i~~~  546 (558)
T PRK10669        496 GEIVASAREKRPDIEIIARAH--YDDEVAYITERGANQVVM-G--EREIARTMLEL  546 (558)
T ss_pred             HHHHHHHHHHCCCCeEEEEEC--CHHHHHHHHHcCCCEEEC-h--HHHHHHHHHHH
Confidence            245566677778888876654  445566667899997663 3  34444444443

>PRK05749 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed

Probab=93.87  E-value=2.3  Score=32.59  Aligned_cols=110  Identities=13%  Similarity=0.064  Sum_probs=59.1

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEE---------------EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHH
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVE---------------VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEAT   90 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~---------------~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~   90 (145)
                      ..+++|+.+.+.....+...++..|....               ......+....+.   ..|++++--.....-|..++
T Consensus       262 ~~~liivG~g~~r~~~l~~~~~~~gl~~~~~~~~~~~~~~~~v~l~~~~~el~~~y~---~aDi~~v~~S~~e~~g~~~l  338 (425)
T PRK05749        262 NLLLILVPRHPERFKEVEELLKKAGLSYVRRSQGEPPSADTDVLLGDTMGELGLLYA---IADIAFVGGSLVKRGGHNPL  338 (425)
T ss_pred             CcEEEEcCCChhhHHHHHHHHHhCCCcEEEccCCCCCCCCCcEEEEecHHHHHHHHH---hCCEEEECCCcCCCCCCCHH
Confidence            45677888877655677777777665322               2222334444433   36887764333222333344


Q ss_pred             HHHHhhCCCCcEEEEecCCChHHHHHHH-HhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936           91 KAMRAMKVESKIVGVTSRNSETEREVFM-QAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus        91 ~~l~~~~~~~~ii~lt~~~~~~~~~~~~-~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +.+.   ..+|||.-....+........ ..   +++..|-+.++|...+.++++
T Consensus       339 EAma---~G~PVI~g~~~~~~~e~~~~~~~~---g~~~~~~d~~~La~~l~~ll~  387 (425)
T PRK05749        339 EPAA---FGVPVISGPHTFNFKEIFERLLQA---GAAIQVEDAEDLAKAVTYLLT  387 (425)
T ss_pred             HHHH---hCCCEEECCCccCHHHHHHHHHHC---CCeEEECCHHHHHHHHHHHhc
Confidence            4332   356776432223333332222 33   345568889999998887753

>PRK00208 thiG thiazole synthase; Reviewed

Probab=93.78  E-value=1.8  Score=31.06  Aligned_cols=88  Identities=10%  Similarity=0.042  Sum_probs=57.9

Q ss_pred             hcCCeEE--EecCHHHHHHHHhcCCCccEEEE-----eCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHh
Q 045936           48 SVGFKVE--VAENGKEAVDLFRTGAKFHIVFI-----DMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQA  120 (145)
Q Consensus        48 ~~g~~v~--~~~~~~~~l~~l~~~~~~dlil~-----d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~  120 (145)
                      ..||.+.  +..|...+-+...-  .+++|.-     .... +..-.++++.+++. .+.|||+=..-..++....+++.
T Consensus       121 ~~Gf~vlpyc~~d~~~ak~l~~~--G~~~vmPlg~pIGsg~-gi~~~~~i~~i~e~-~~vpVIveaGI~tpeda~~Amel  196 (250)
T PRK00208        121 KEGFVVLPYCTDDPVLAKRLEEA--GCAAVMPLGAPIGSGL-GLLNPYNLRIIIEQ-ADVPVIVDAGIGTPSDAAQAMEL  196 (250)
T ss_pred             HCCCEEEEEeCCCHHHHHHHHHc--CCCEeCCCCcCCCCCC-CCCCHHHHHHHHHh-cCCeEEEeCCCCCHHHHHHHHHc
Confidence            3488866  55566666555544  4677621     1111 11125778888876 57888888888999999999999


Q ss_pred             cccEEe-----eCCCCHHHHHHHH
Q 045936          121 GLDLCY-----TKPLTMAKIVPLL  139 (145)
Q Consensus       121 g~~~~l-----~kP~~~~~l~~~l  139 (145)
                      |+++++     .|.-++..+....
T Consensus       197 GAdgVlV~SAItka~dP~~ma~af  220 (250)
T PRK00208        197 GADAVLLNTAIAVAGDPVAMARAF  220 (250)
T ss_pred             CCCEEEEChHhhCCCCHHHHHHHH
Confidence            999985     4544455544444

>PRK05848 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=93.73  E-value=0.76  Score=33.45  Aligned_cols=96  Identities=16%  Similarity=0.129  Sum_probs=61.5

Q ss_pred             EEEEEeCCHHHHHHHHHHHHh----cCC--e-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCC
Q 045936           28 FALVVDDDPMIRRIHSMILKS----VGF--K-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVES  100 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~----~g~--~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~  100 (145)
                      .||+-|++-.....+...+++    .++  . .+.+++.+++...+..  .+|+|.+|- ++-..--+.+++++...++.
T Consensus       154 ~vlikdnHi~~~g~i~~~v~~~k~~~p~~~~I~VEv~tleea~~A~~~--GaDiI~LDn-~~~e~l~~~v~~~~~~~~~~  230 (273)
T PRK05848        154 CLMLKDTHLKHIKDLKEFIQHARKNIPFTAKIEIECESLEEAKNAMNA--GADIVMCDN-MSVEEIKEVVAYRNANYPHV  230 (273)
T ss_pred             hhCcCHHHHHHHCcHHHHHHHHHHhCCCCceEEEEeCCHHHHHHHHHc--CCCEEEECC-CCHHHHHHHHHHhhccCCCe
Confidence            467777776555555554432    343  2 3489999999999976  389999873 22222233444443333443


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEEee
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                       .+..++.-+++........|+|.+..
T Consensus       231 -~ieAsGgIt~~ni~~ya~~GvD~Isv  256 (273)
T PRK05848        231 -LLEASGNITLENINAYAKSGVDAISS  256 (273)
T ss_pred             -EEEEECCCCHHHHHHHHHcCCCEEEe
Confidence             45566677889999999999988743

>TIGR01305 GMP_reduct_1 guanosine monophosphate reductase, eukaryotic

Probab=93.73  E-value=0.75  Score=34.44  Aligned_cols=56  Identities=14%  Similarity=0.156  Sum_probs=43.4

Q ss_pred             CccEEEEeCCCCCCC-HHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEee
Q 045936           71 KFHIVFIDMEMPVMD-GIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus        71 ~~dlil~d~~~~~~~-g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      .+|+|++|....... -++.+++||+..|.. .|+-.+-..++....+.++|||....
T Consensus       121 ~~d~iviD~AhGhs~~~i~~ik~ir~~~p~~-~viaGNV~T~e~a~~Li~aGAD~ikV  177 (343)
T TIGR01305       121 QLKFICLDVANGYSEHFVEFVKLVREAFPEH-TIMAGNVVTGEMVEELILSGADIVKV  177 (343)
T ss_pred             CCCEEEEECCCCcHHHHHHHHHHHHhhCCCC-eEEEecccCHHHHHHHHHcCCCEEEE
Confidence            489999998776544 567899999988764 34455577888889999999999754

A deep split separates two families of GMP reductase. This family includes both eukaryotic and some proteobacterial sequences, while the other family contains other bacterial sequences.

>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=93.57  E-value=0.96  Score=27.33  Aligned_cols=76  Identities=16%  Similarity=0.037  Sum_probs=49.1

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEe------cCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCc
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVA------ENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESK  101 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~------~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~  101 (145)
                      +|+|++........++..+++.|+.....      ......+...-  ...|+||+=.+.-.-+....++..-+. .+.|
T Consensus         1 ~vliVGG~~~~~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i--~~aD~VIv~t~~vsH~~~~~vk~~akk-~~ip   77 (97)
T PF10087_consen    1 SVLIVGGREDRERRYKRILEKYGGKLIHHGRDGGDEKKASRLPSKI--KKADLVIVFTDYVSHNAMWKVKKAAKK-YGIP   77 (97)
T ss_pred             CEEEEcCCcccHHHHHHHHHHcCCEEEEEecCCCCccchhHHHHhc--CCCCEEEEEeCCcChHHHHHHHHHHHH-cCCc
Confidence            48899998888899999999999887766      22222233222  247988877766665555555544332 2567


Q ss_pred             EEEEe
Q 045936          102 IVGVT  106 (145)
Q Consensus       102 ii~lt  106 (145)
                      ++..-
T Consensus        78 ~~~~~   82 (97)
T PF10087_consen   78 IIYSR   82 (97)
T ss_pred             EEEEC
Confidence            76553

>PRK03659 glutathione-regulated potassium-efflux system protein KefB; Provisional

Probab=93.54  E-value=1.5  Score=35.57  Aligned_cols=97  Identities=18%  Similarity=0.201  Sum_probs=55.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcC--------------------CCccEEEEeCCCCCCCH
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTG--------------------AKFHIVFIDMEMPVMDG   86 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~--------------------~~~dlil~d~~~~~~~g   86 (145)
                      .+|+|++-.+.- ..+.+.|...|+.++..+...+.++.+++.                    ...+++++-.+-+ ...
T Consensus       401 ~~vII~G~Gr~G-~~va~~L~~~g~~vvvID~d~~~v~~~~~~g~~v~~GDat~~~~L~~agi~~A~~vv~~~~d~-~~n  478 (601)
T PRK03659        401 PQVIIVGFGRFG-QVIGRLLMANKMRITVLERDISAVNLMRKYGYKVYYGDATQLELLRAAGAEKAEAIVITCNEP-EDT  478 (601)
T ss_pred             CCEEEecCchHH-HHHHHHHHhCCCCEEEEECCHHHHHHHHhCCCeEEEeeCCCHHHHHhcCCccCCEEEEEeCCH-HHH
Confidence            356666655433 334444555555555444434444433321                    2345555544322 334


Q ss_pred             HHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEee
Q 045936           87 IEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus        87 ~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      ..++...|+.+|+.+|++-+  .+++......+.|++..++
T Consensus       479 ~~i~~~~r~~~p~~~IiaRa--~~~~~~~~L~~~Ga~~vv~  517 (601)
T PRK03659        479 MKIVELCQQHFPHLHILARA--RGRVEAHELLQAGVTQFSR  517 (601)
T ss_pred             HHHHHHHHHHCCCCeEEEEe--CCHHHHHHHHhCCCCEEEc
Confidence            56777788888888886544  4566777888999998764

>PF05690 ThiG: Thiazole biosynthesis protein ThiG; InterPro: IPR008867 This family consists of several bacterial thiazole biosynthesis protein G sequences

Probab=93.51  E-value=1.7  Score=30.88  Aligned_cols=94  Identities=13%  Similarity=0.078  Sum_probs=51.5

Q ss_pred             HHHHhcCCeEEE--ecCHHHHHHHHhcCCCccEEEEeCCCCCCCH---HHHHHHHHhhCCCCcEEEEecCCChHHHHHHH
Q 045936           44 MILKSVGFKVEV--AENGKEAVDLFRTGAKFHIVFIDMEMPVMDG---IEATKAMRAMKVESKIVGVTSRNSETEREVFM  118 (145)
Q Consensus        44 ~~l~~~g~~v~~--~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g---~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~  118 (145)
                      ..|-..||.|..  ..|.--+-+.... .+.-+.-+..-+....|   ...++.|++.. ++|+|+=++-..++....++
T Consensus       117 e~Lv~eGF~VlPY~~~D~v~akrL~d~-GcaavMPlgsPIGSg~Gi~n~~~l~~i~~~~-~vPvIvDAGiG~pSdaa~AM  194 (247)
T PF05690_consen  117 EILVKEGFVVLPYCTDDPVLAKRLEDA-GCAAVMPLGSPIGSGRGIQNPYNLRIIIERA-DVPVIVDAGIGTPSDAAQAM  194 (247)
T ss_dssp             HHHHHTT-EEEEEE-S-HHHHHHHHHT-T-SEBEEBSSSTTT---SSTHHHHHHHHHHG-SSSBEEES---SHHHHHHHH
T ss_pred             HHHHHCCCEEeecCCCCHHHHHHHHHC-CCCEEEecccccccCcCCCCHHHHHHHHHhc-CCcEEEeCCCCCHHHHHHHH
Confidence            455567999873  3344444444443 33333333332222233   35677777665 78999989999999999999


Q ss_pred             HhcccEEee-----CCCCHHHHHHHH
Q 045936          119 QAGLDLCYT-----KPLTMAKIVPLL  139 (145)
Q Consensus       119 ~~g~~~~l~-----kP~~~~~l~~~l  139 (145)
                      +.|+++.|.     +--++-.+.++.
T Consensus       195 ElG~daVLvNTAiA~A~dPv~MA~Af  220 (247)
T PF05690_consen  195 ELGADAVLVNTAIAKAKDPVAMARAF  220 (247)
T ss_dssp             HTT-SEEEESHHHHTSSSHHHHHHHH
T ss_pred             HcCCceeehhhHHhccCCHHHHHHHH
Confidence            999999873     344444444443

ThiG, together with ThiF and ThiH, is proposed to be involved in the synthesis of 4-methyl-5-(b-hydroxyethyl)thiazole (THZ) which is an intermediate in the thiazole production pathway [].; GO: 0009228 thiamine biosynthetic process; PDB: 1WV2_B 1TYG_C 1XM3_B 2HTM_C 2YZR_C.

>PF07688 KaiA: KaiA domain; InterPro: IPR011648 KaiA is a component of the kaiABC clock protein complex, which constitutes the main circadian regulator in cyanobacteria

Probab=93.47  E-value=1.1  Score=32.19  Aligned_cols=77  Identities=6%  Similarity=0.037  Sum_probs=54.6

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcC-CCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTG-AKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~-~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .|-+.-.++.....+..+|....|.+..+.+.++.+..+... ..+|++++.....   -..++..|.+.+--.|+|++.
T Consensus         2 sI~~~v~s~~Laqsl~~~L~~dRY~l~~~~s~~ef~~~le~~~e~iDCLvle~~~~---~~~~~~~L~e~g~LLPaVil~   78 (283)
T PF07688_consen    2 SICLLVSSPALAQSLRQWLPGDRYELVQVDSPEEFLEFLEQHREQIDCLVLEQSPL---LPPLFNQLYEQGILLPAVILG   78 (283)
T ss_dssp             EEEEE-S-HHHHHHHHHHT-STTEEEEEESSCHHHHHHHCCTTTT-SEEEEETTST---THHHHHHHHHCT----EEEES
T ss_pred             eEEEEeCCHHHHHHHHHHcccCceEEEEcCcHHHHHHHHHhchhccCEEEEecCCC---cHHHHHHHHHcCccccEEEEe
Confidence            355666778889999999988789999999999999998753 4699999886543   456788898888888998886


Q ss_pred             c
Q 045936          107 S  107 (145)
Q Consensus       107 ~  107 (145)
                      .
T Consensus        79 ~   79 (283)
T PF07688_consen   79 S   79 (283)
T ss_dssp             -
T ss_pred             c
Confidence            6

The kaiABC complex may act as a promoter-nonspecific transcription regulator that represses transcription, possibly by acting on the state of chromosome compaction. In the complex, KaiA enhances the phosphorylation status of kaiC. In contrast, the presence of kaiB in the complex decreases the phosphorylation status of kaiC, suggesting that kaiB acts by antagonising the interaction between kaiA and kaiC. The activity of KaiA activates kaiBC expression, while KaiC represses it. The overall fold of the KaiA monomer is that of a four-helix bundle, which forms a dimer in the known structure []. KaiA functions as a homodimer. Each monomer is composed of three functional domains: the N-terminal amplitude-amplifier domain, the central period-adjuster domain and the C-termianl clock-oscillator domain. The N-terminal domain of KaiA, from cyanobacteria, acts as a psuedo-receiver domain, but lacks the conserved aspartyl residue required for phosphotransfer in response regulators []. The C-terminal domain is responsible for dimer formation, binding to KaiC, enhancing KaiC phosphorylation and generating the circadian oscillations []. The KaiA protein from Anabaena sp. (strain PCC 7120) lacks the N-terminal CheY-like domain.; GO: 0006468 protein phosphorylation, 0007623 circadian rhythm; PDB: 1V2Z_A 1Q6B_B 1Q6A_A 1SV1_B 1SUY_B 1R5Q_A 1M2E_A 1R8J_B 1M2F_A.

>TIGR03239 GarL 2-dehydro-3-deoxyglucarate aldolase

Probab=93.40  E-value=2.1  Score=30.72  Aligned_cols=83  Identities=13%  Similarity=0.076  Sum_probs=57.5

Q ss_pred             CHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC-CCCcEEEEecCCChHHHHHHHHhcccEEeeC-CCCHHHH
Q 045936           58 NGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK-VESKIVGVTSRNSETEREVFMQAGLDLCYTK-PLTMAKI  135 (145)
Q Consensus        58 ~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~-~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~k-P~~~~~l  135 (145)
                      ......+.+.. ..+|.|++|......+--++...++... ..+..++=....++..+..+++.|+++++.. --+.++.
T Consensus        21 ~sp~~~e~~a~-~G~D~v~iD~EHg~~~~~~~~~~~~a~~~~g~~~~VRvp~~~~~~i~r~LD~Ga~gIivP~v~taeea   99 (249)
T TIGR03239        21 GNPITTEVLGL-AGFDWLLLDGEHAPNDVLTFIPQLMALKGSASAPVVRPPWNEPVIIKRLLDIGFYNFLIPFVESAEEA   99 (249)
T ss_pred             CCcHHHHHHHh-cCCCEEEEecccCCCCHHHHHHHHHHHhhcCCCcEEECCCCCHHHHHHHhcCCCCEEEecCcCCHHHH
Confidence            33455555554 3599999999998888777777776643 2344444456678888999999999998654 4455666


Q ss_pred             HHHHHH
Q 045936          136 VPLLEE  141 (145)
Q Consensus       136 ~~~l~~  141 (145)
                      ...++.
T Consensus       100 ~~~v~a  105 (249)
T TIGR03239       100 ERAVAA  105 (249)
T ss_pred             HHHHHH
Confidence            666543

In E. coli this enzyme (GarL, ) 2-dehydro-3-deoxyglucarate aldolase acts in the catabolism of several sugars including D-galactarate, D-glucarate and L-idarate. In fact, 5-dehydro-4-deoxy-D-glucarate aldolase is a synonym for this enzyme as it is unclear in the literature whether the enzyme acts on only one of these or, as seems likely, has no preference. (Despite the apparent large difference in substrate stucture indicated by their names, 2-DH-3DO- and 5-DH-4DO-glucarate differ only by the chirality of most central hydroxyl-bearing carbon and is alternately named 2-DH-3DO-galactarate.) The reported product of D-galactarate dehydratase (4.2.1.42) is the 5DH-4DO-glucarate isomer and this enzyme is found proximal to the aldolase in many genomes (GenProp0714) where no epimerase is known. Similarly, the product of D-glucarate dehydratase (4.2.1.40) is again the 5-DH-4DO isomer, so the provenance of the 2-DH-3DO-glucarate isomer for which

>PRK01130 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional

Probab=93.22  E-value=2  Score=29.97  Aligned_cols=86  Identities=9%  Similarity=0.049  Sum_probs=58.1

Q ss_pred             HHHHHHHHHHh-cCCeE-EEecCHHHHHHHHhcCCCccEEEEeCC-------CCCCCHHHHHHHHHhhCCCCcEEEEecC
Q 045936           38 IRRIHSMILKS-VGFKV-EVAENGKEAVDLFRTGAKFHIVFIDME-------MPVMDGIEATKAMRAMKVESKIVGVTSR  108 (145)
Q Consensus        38 ~~~~l~~~l~~-~g~~v-~~~~~~~~~l~~l~~~~~~dlil~d~~-------~~~~~g~~~~~~l~~~~~~~~ii~lt~~  108 (145)
                      ....+....++ .+..+ ..+.+.+++......  .+|++.+...       .......+.++.+++.. +.|++...+-
T Consensus       106 ~~~~~i~~~~~~~~i~vi~~v~t~ee~~~a~~~--G~d~i~~~~~g~t~~~~~~~~~~~~~i~~i~~~~-~iPvia~GGI  182 (221)
T PRK01130        106 TLAELVKRIKEYPGQLLMADCSTLEEGLAAQKL--GFDFIGTTLSGYTEETKKPEEPDFALLKELLKAV-GCPVIAEGRI  182 (221)
T ss_pred             CHHHHHHHHHhCCCCeEEEeCCCHHHHHHHHHc--CCCEEEcCCceeecCCCCCCCcCHHHHHHHHHhC-CCCEEEECCC
Confidence            33445555555 56554 467788888666554  4888765321       11223467888887754 6888887777


Q ss_pred             CChHHHHHHHHhcccEEe
Q 045936          109 NSETEREVFMQAGLDLCY  126 (145)
Q Consensus       109 ~~~~~~~~~~~~g~~~~l  126 (145)
                      .+.+....++..|++.++
T Consensus       183 ~t~~~~~~~l~~GadgV~  200 (221)
T PRK01130        183 NTPEQAKKALELGAHAVV  200 (221)
T ss_pred             CCHHHHHHHHHCCCCEEE
Confidence            788999999999999975

>PRK15320 transcriptional activator SprB; Provisional

Probab=93.16  E-value=0.52  Score=32.70  Aligned_cols=98  Identities=13%  Similarity=-0.027  Sum_probs=68.2

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhc--CCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           28 FALVVDDDPMIRRIHSMILKSV--GFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~--g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      .|++.+++=...-.+.+++++.  |..|.++.+....+..++.  .||.+++=.--|. .-+=+...+++.-++-|++++
T Consensus         3 ~viiyg~~w~~~~a~~~~~~~~~p~~~~~t~~~l~~ll~~l~~--~p~a~lil~l~p~-eh~~lf~~l~~~l~~~~v~vv   79 (251)
T PRK15320          3 NVIIYGINWTNCYALQSIFKQKYPEKCVKTCNSLTALLHSLSD--MPDAGLILALNPH-EHVYLFHALLTRLQNRKVLVV   79 (251)
T ss_pred             cEEEEeccchHHHHHHHHHHHHCCccchhhhhhHHHHHHHHhh--CCCceEEEeeCch-hHHHHHHHHHHHcCCCceEEE
Confidence            5788888888888899998765  5667788888889988875  4775554332333 334455667788888999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeC
Q 045936          106 TSRNSETEREVFMQAGLDLCYTK  128 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~k  128 (145)
                      ++.---...--..-.|+.+|+.|
T Consensus        80 ~d~l~~~dr~vl~~~g~~~~~l~  102 (251)
T PRK15320         80 ADRLYYIDRCVLQYFGVMDYVLK  102 (251)
T ss_pred             ecceeehhhhhhhhhcchhHHHH
Confidence            88665444444455676666543

>COG0800 Eda 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]

Probab=93.11  E-value=2.1  Score=29.92  Aligned_cols=96  Identities=14%  Similarity=0.119  Sum_probs=58.8

Q ss_pred             HHHHHHHHhcC-CeEEEecCHHHHHHHHhc--CCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHH
Q 045936           40 RIHSMILKSVG-FKVEVAENGKEAVDLFRT--GAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREV  116 (145)
Q Consensus        40 ~~l~~~l~~~g-~~v~~~~~~~~~l~~l~~--~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~  116 (145)
                      ..+...++..+ ..|....+.++++...+.  ...++.|  ++.+..-...+.++.+++.++ --+|--.+--+++....
T Consensus         4 ~~~~~~l~~~~vI~Vlr~~~~e~a~~~a~Ali~gGi~~I--EITl~sp~a~e~I~~l~~~~p-~~lIGAGTVL~~~q~~~   80 (211)
T COG0800           4 MKILSKLKAQPVVPVIRGDDVEEALPLAKALIEGGIPAI--EITLRTPAALEAIRALAKEFP-EALIGAGTVLNPEQARQ   80 (211)
T ss_pred             hHHHHHHHHCCeeEEEEeCCHHHHHHHHHHHHHcCCCeE--EEecCCCCHHHHHHHHHHhCc-ccEEccccccCHHHHHH
Confidence            34455666666 346678888887765432  0224444  334445567888888888877 22333344557778888


Q ss_pred             HHHhcccEEeeCCCCHHHHHHH
Q 045936          117 FMQAGLDLCYTKPLTMAKIVPL  138 (145)
Q Consensus       117 ~~~~g~~~~l~kP~~~~~l~~~  138 (145)
                      +..+|++-.+...++++-+..+
T Consensus        81 a~~aGa~fiVsP~~~~ev~~~a  102 (211)
T COG0800          81 AIAAGAQFIVSPGLNPEVAKAA  102 (211)
T ss_pred             HHHcCCCEEECCCCCHHHHHHH
Confidence            8888887666555555544433

>TIGR02082 metH 5-methyltetrahydrofolate--homocysteine methyltransferase

Probab=92.66  E-value=3.2  Score=36.41  Aligned_cols=99  Identities=12%  Similarity=0.090  Sum_probs=69.0

Q ss_pred             EEEEE----eCCHHHHHHHHHHHHhcCCeEEEec---CHHHHHHHHhcCCCccEEEEeCCCCCC-C-HHHHHHHHHhhCC
Q 045936           28 FALVV----DDDPMIRRIHSMILKSVGFKVEVAE---NGKEAVDLFRTGAKFHIVFIDMEMPVM-D-GIEATKAMRAMKV   98 (145)
Q Consensus        28 ~vlii----~~~~~~~~~l~~~l~~~g~~v~~~~---~~~~~l~~l~~~~~~dlil~d~~~~~~-~-g~~~~~~l~~~~~   98 (145)
                      +|++.    |-|..-...+..+|+.+||+|....   ..++.++.+.+ ..+|+|-+...+... . ..++++.|++.++
T Consensus       734 kVvlaTV~GDvHDIGKnIV~~~L~~~GfeVIdLG~dVp~e~iv~aa~e-~~~diVgLS~Lmt~t~~~m~~vi~~L~~~g~  812 (1178)
T TIGR02082       734 KIVLATVKGDVHDIGKNIVGVVLSCNGYEVVDLGVMVPIEKILEAAKD-HNADVIGLSGLITPSLDEMKEVAEEMNRRGI  812 (1178)
T ss_pred             eEEEEecCCCccHHHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHHHH-hCCCEEEEcCcccccHHHHHHHHHHHHhcCC
Confidence            56665    5555555666778899999987432   56778888877 579999998776543 3 4568899999888


Q ss_pred             CCcEEEEecCCChHHHHHH---HHhcccEEee
Q 045936           99 ESKIVGVTSRNSETEREVF---MQAGLDLCYT  127 (145)
Q Consensus        99 ~~~ii~lt~~~~~~~~~~~---~~~g~~~~l~  127 (145)
                      .++|++-....+......-   ...|++.|-.
T Consensus       813 ~v~v~vGGa~~s~~~~~~~i~~~~~gad~y~~  844 (1178)
T TIGR02082       813 TIPLLIGGAATSKTHTAVKIAPIYKGPVVYVL  844 (1178)
T ss_pred             CceEEEeccccchhHHHhhhhhhccCCeEEec
Confidence            8888877766666555431   1237777753

S-methyltransferase (MetE, EC 2.1.1.14, the cobalamin-independent methionine synthase) and betaine-homocysteine methyltransferase.

>TIGR01302 IMP_dehydrog inosine-5'-monophosphate dehydrogenase

Probab=92.64  E-value=0.99  Score=35.24  Aligned_cols=64  Identities=16%  Similarity=0.239  Sum_probs=48.1

Q ss_pred             HHHHHHHHhcCCCccEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEE
Q 045936           59 GKEAVDLFRTGAKFHIVFIDMEMPV-MDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLC  125 (145)
Q Consensus        59 ~~~~l~~l~~~~~~dlil~d~~~~~-~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~  125 (145)
                      .+.+...+..  .+|+|.+|..... ....+.++++++.+|+.+|++ .+....+....+.++|++.+
T Consensus       226 ~~r~~~L~~a--G~d~I~vd~a~g~~~~~~~~i~~i~~~~~~~~vi~-G~v~t~~~a~~l~~aGad~i  290 (450)
T TIGR01302       226 KERAEALVKA--GVDVIVIDSSHGHSIYVIDSIKEIKKTYPDLDIIA-GNVATAEQAKALIDAGADGL  290 (450)
T ss_pred             HHHHHHHHHh--CCCEEEEECCCCcHhHHHHHHHHHHHhCCCCCEEE-EeCCCHHHHHHHHHhCCCEE
Confidence            3445545543  4899999986654 345678999998888888765 66778888889999999887

This model describes a rather tightly conserved cluster of IMP dehydrogenase sequences, many of which are characterized. The model excludes two related families of proteins proposed also to be IMP dehydrogenases, but without characterized members. These are related families are the subject of separate models.

>PRK07114 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=92.64  E-value=2.6  Score=29.76  Aligned_cols=94  Identities=16%  Similarity=0.132  Sum_probs=56.0

Q ss_pred             HHHHHHhcC-CeEEEecCHHHHHHHHhcC--CCccEEEEeCCCCCCCHHHHHHHHHhh----CCCCcEEEEecCCChHHH
Q 045936           42 HSMILKSVG-FKVEVAENGKEAVDLFRTG--AKFHIVFIDMEMPVMDGIEATKAMRAM----KVESKIVGVTSRNSETER  114 (145)
Q Consensus        42 l~~~l~~~g-~~v~~~~~~~~~l~~l~~~--~~~dlil~d~~~~~~~g~~~~~~l~~~----~~~~~ii~lt~~~~~~~~  114 (145)
                      +...|.+.+ ..|....+.+++...++.-  ..+.  .++..+..-++.+.++.|++.    +|+ -++-..+-.+.+..
T Consensus         8 ~~~~l~~~~vi~Vvr~~~~~~a~~~~~al~~gGi~--~iEiT~~tp~a~~~i~~l~~~~~~~~p~-~~vGaGTVl~~e~a   84 (222)
T PRK07114          8 VLTAMKATGMVPVFYHADVEVAKKVIKACYDGGAR--VFEFTNRGDFAHEVFAELVKYAAKELPG-MILGVGSIVDAATA   84 (222)
T ss_pred             HHHHHHhCCEEEEEEcCCHHHHHHHHHHHHHCCCC--EEEEeCCCCcHHHHHHHHHHHHHhhCCC-eEEeeEeCcCHHHH
Confidence            344555566 3466777788777654421  1233  445555556678888887643    232 23445666788888


Q ss_pred             HHHHHhcccEEeeCCCCHHHHHHHH
Q 045936          115 EVFMQAGLDLCYTKPLTMAKIVPLL  139 (145)
Q Consensus       115 ~~~~~~g~~~~l~kP~~~~~l~~~l  139 (145)
                      ..+.++|++-++. |....++.+..
T Consensus        85 ~~a~~aGA~FiVs-P~~~~~v~~~~  108 (222)
T PRK07114         85 ALYIQLGANFIVT-PLFNPDIAKVC  108 (222)
T ss_pred             HHHHHcCCCEEEC-CCCCHHHHHHH
Confidence            8889999865554 55555555443

>PRK06843 inosine 5-monophosphate dehydrogenase; Validated

Probab=92.59  E-value=1.1  Score=34.52  Aligned_cols=63  Identities=14%  Similarity=0.115  Sum_probs=46.7

Q ss_pred             HHHHHHhcCCCccEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           61 EAVDLFRTGAKFHIVFIDMEMPV-MDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        61 ~~l~~l~~~~~~dlil~d~~~~~-~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      .+-..+..  ..|+|.+|...+. ....++++++++..|+.++ ++......+....+.++|++...
T Consensus       157 ~v~~lv~a--GvDvI~iD~a~g~~~~~~~~v~~ik~~~p~~~v-i~g~V~T~e~a~~l~~aGaD~I~  220 (404)
T PRK06843        157 RVEELVKA--HVDILVIDSAHGHSTRIIELVKKIKTKYPNLDL-IAGNIVTKEAALDLISVGADCLK  220 (404)
T ss_pred             HHHHHHhc--CCCEEEEECCCCCChhHHHHHHHHHhhCCCCcE-EEEecCCHHHHHHHHHcCCCEEE
Confidence            34334443  4999999998764 4556889999998887764 45566777888889999999864

>PF13941 MutL: MutL protein

Probab=92.58  E-value=4.2  Score=31.95  Aligned_cols=109  Identities=13%  Similarity=0.131  Sum_probs=73.1

Q ss_pred             CCCCCCcEEEEEeCCHHHHHH-HHHHHHhcCCe---EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCC---HHHHHHHH
Q 045936           21 VSKNRPYFALVVDDDPMIRRI-HSMILKSVGFK---VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMD---GIEATKAM   93 (145)
Q Consensus        21 ~~~~~~~~vlii~~~~~~~~~-l~~~l~~~g~~---v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~---g~~~~~~l   93 (145)
                      .+..++++++++.=.+..... -+..-..-|-.   +....-.++.++.++. ..||+||+-=--.+.+   .+...+.|
T Consensus        71 SSAaGGLrmvv~Glv~~~Ta~AAk~AAlgAGA~V~~v~s~~l~~~~l~~i~~-~~PDiILLaGGtDgG~~~~il~nA~~L  149 (457)
T PF13941_consen   71 SSAAGGLRMVVIGLVPDLTAEAAKRAALGAGARVLQVYSYELTEEDLEEIRE-IRPDIILLAGGTDGGNKEVILHNAEML  149 (457)
T ss_pred             CCCCCcceEEEEecCHHHHHHHHHHHHhcCCcEEEEEeccCCCHHHHHHHhc-cCCCEEEEeCCccCCchHHHHHHHHHH
Confidence            666778898888877665533 33333334533   3345556667777876 6899999864444433   35666777


Q ss_pred             HhhCCCCcEEEEecCCChHHHHHHHH-hcccEEeeCCC
Q 045936           94 RAMKVESKIVGVTSRNSETEREVFMQ-AGLDLCYTKPL  130 (145)
Q Consensus        94 ~~~~~~~~ii~lt~~~~~~~~~~~~~-~g~~~~l~kP~  130 (145)
                      .+....+|||+-.+....+.+...+. .|..-+++.++
T Consensus       150 a~~~~~~pVIyAGN~~a~~~v~~il~~~~~~~~~~~NV  187 (457)
T PF13941_consen  150 AEANLRIPVIYAGNKAAQDEVEEILEKAGKEVVITENV  187 (457)
T ss_pred             HhCCCCCcEEEECCHHHHHHHHHHHHhCCCCEEEeCCC
Confidence            77777889888877777777777777 67777776655

>PF02254 TrkA_N: TrkA-N domain; InterPro: IPR003148 The regulator of K+ conductance (RCK) domain is found in many ligand-gated K+ channels, most often attached to the intracellular carboxy terminus

Probab=92.51  E-value=1.6  Score=26.90  Aligned_cols=93  Identities=19%  Similarity=0.219  Sum_probs=56.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCH-HHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENG-KEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~-~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      ..+.++|.++.....    +...|+.+...+-. .+.++.+.- ...+.+++...- +.....++..+++.++..++++.
T Consensus        22 ~~vvvid~d~~~~~~----~~~~~~~~i~gd~~~~~~l~~a~i-~~a~~vv~~~~~-d~~n~~~~~~~r~~~~~~~ii~~   95 (116)
T PF02254_consen   22 IDVVVIDRDPERVEE----LREEGVEVIYGDATDPEVLERAGI-EKADAVVILTDD-DEENLLIALLARELNPDIRIIAR   95 (116)
T ss_dssp             SEEEEEESSHHHHHH----HHHTTSEEEES-TTSHHHHHHTTG-GCESEEEEESSS-HHHHHHHHHHHHHHTTTSEEEEE
T ss_pred             CEEEEEECCcHHHHH----HHhcccccccccchhhhHHhhcCc-cccCEEEEccCC-HHHHHHHHHHHHHHCCCCeEEEE
Confidence            468888888876444    33456665543322 334444443 357878776542 23345677778887887777655


Q ss_pred             ecCCChHHHHHHHHhcccEEee
Q 045936          106 TSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      ..  ++.....+...|++..+.
T Consensus        96 ~~--~~~~~~~l~~~g~d~vi~  115 (116)
T PF02254_consen   96 VN--DPENAELLRQAGADHVIS  115 (116)
T ss_dssp             ES--SHHHHHHHHHTT-SEEEE
T ss_pred             EC--CHHHHHHHHHCCcCEEEC
Confidence            44  455666777889987653

The domain is prevalent among prokaryotic K+ channels, and also found in eukaryotic, high-conductance Ca2+-activated K+ channels (BK channels) [, , ]. Largely involved in redox-linked regulation of potassium channels, the N-terminal part of the RCK domain is predicted to be an active dehydrogenase at least in some cases []. Some have a conserved sequence motif (G-x-G-x-x-G-x(n)-[DE]) for NAD+ binding [], but others do not, reflecting the diversity of ligands for RCK domains. The C-terminal part is less conserved, being absent in some channels, such as the kefC antiporter from Escherichia coli. It is predicted to bind unidentified ligands and to regulate sulphate, sodium and other transporters. The X-ray structure of several RCK domains has been solved [, , ]. It reveals an alpha-beta fold similar to dehydrogenase enzymes. The domain forms a homodimer, producing a cleft between two lobes. It has a composite structure, with an N-terminal (RCK-N), and a C-terminal (RCK-C) subdomain. The RCK-N subdomain forms a Rossmann fold with two alpha helices on one side of a six stranded parallel beta sheet and three alpha helices on the other side. The RCK-C subdomain is an all-beta-strand fold. It forms an extention of the dimer interface and further stabilises the RCK homodimer [, , ]. Ca2+ is a ligand that opens the channel in a concentration-dependent manner. Two Ca2+ ions are located at the base of a cleft between two RCK domains, coordinated by the carboxylate groups of two glutamate residues, and by an aspartate residue [, , ]. RCK domains occur in at least five different contexts: As a single domain on the C terminus of some K+ channels (for example, many prokaryotic K+ channels). As two tandem RCK domains on the C terminus of some transporters that form gating rings (for example, eukaryotic BK channels). The gating ring has an arrangement of eight identical RCK domains, one from each of the four pore-forming subunits and four from the intracellular solution. As two domains, one at the N terminus and another at the C terminus of transporter (for example, the prokaryotic trk system potassium uptake protein A). As a soluble protein (not part of a K+ channel) consisting of two tandem RCK domains. As a soluble protein consisting of a single RCK domain. This entry represents the N-terminal subdomain of RCK.; GO: 0006813 potassium ion transport; PDB: 3L4B_E 1LSS_C 3LLV_A 2FY8_D 2AEF_A 1LNQ_E 3RBX_C 3KXD_A 2AEJ_A 3RBZ_A ....

>TIGR01303 IMP_DH_rel_1 IMP dehydrogenase family protein

Probab=92.50  E-value=1.4  Score=34.72  Aligned_cols=68  Identities=21%  Similarity=0.183  Sum_probs=50.3

Q ss_pred             cCHHHHHHHHhcCCCccEEEEeCCCCCCC-HHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           57 ENGKEAVDLFRTGAKFHIVFIDMEMPVMD-GIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        57 ~~~~~~l~~l~~~~~~dlil~d~~~~~~~-g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      .+..+-+..+.. ...|.|.+|....... -.+.+++|+..+|++++|+ ......+....+.++|++.+-
T Consensus       224 ~~~~~ra~~Lv~-aGVd~i~~D~a~g~~~~~~~~i~~i~~~~~~~~vi~-g~~~t~~~~~~l~~~G~d~i~  292 (475)
T TIGR01303       224 GDVGGKAKALLD-AGVDVLVIDTAHGHQVKMISAIKAVRALDLGVPIVA-GNVVSAEGVRDLLEAGANIIK  292 (475)
T ss_pred             ccHHHHHHHHHH-hCCCEEEEeCCCCCcHHHHHHHHHHHHHCCCCeEEE-eccCCHHHHHHHHHhCCCEEE
Confidence            344555555554 3589999998875433 4678999999888888775 557788888889999998763

This model represents a family of proteins, often annotated as a putative IMP dehydrogenase, related to IMP dehydrogenase and GMP reductase and restricted to the high GC Gram-positive bacteria. All species in which a member is found so far (Corynebacterium glutamicum, Mycobacterium tuberculosis, Streptomyces coelicolor, etc.) also have IMP dehydrogenase as described by TIGRFAMs entry TIGR01302.

>PRK13111 trpA tryptophan synthase subunit alpha; Provisional

Probab=92.38  E-value=1.2  Score=32.20  Aligned_cols=58  Identities=21%  Similarity=0.084  Sum_probs=41.6

Q ss_pred             CHHHHHHHHHhhCCCCcEEEEecC------CChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936           85 DGIEATKAMRAMKVESKIVGVTSR------NSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus        85 ~g~~~~~~l~~~~~~~~ii~lt~~------~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      ..++.++.+|+..+++|+++++=.      .-......+.++|+++.+...+.+++....+...
T Consensus        75 ~~~~~~~~~r~~~~~~p~vlm~Y~N~i~~~G~e~f~~~~~~aGvdGviipDLp~ee~~~~~~~~  138 (258)
T PRK13111         75 DVFELVREIREKDPTIPIVLMTYYNPIFQYGVERFAADAAEAGVDGLIIPDLPPEEAEELRAAA  138 (258)
T ss_pred             HHHHHHHHHHhcCCCCCEEEEecccHHhhcCHHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHH
Confidence            356777777766677888766522      3345678889999999998888888777666543

>PRK05096 guanosine 5'-monophosphate oxidoreductase; Provisional

Probab=92.23  E-value=1.3  Score=33.31  Aligned_cols=54  Identities=13%  Similarity=0.145  Sum_probs=43.1

Q ss_pred             CccEEEEeCCCCCCC-HHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEE
Q 045936           71 KFHIVFIDMEMPVMD-GIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLC  125 (145)
Q Consensus        71 ~~dlil~d~~~~~~~-g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~  125 (145)
                      .+|+|++|....... -.+.++++|+.+|+.+| +..+....+....+..+|||..
T Consensus       122 g~D~iviD~AhGhs~~~i~~ik~ik~~~P~~~v-IaGNV~T~e~a~~Li~aGAD~v  176 (346)
T PRK05096        122 ALNFICIDVANGYSEHFVQFVAKAREAWPDKTI-CAGNVVTGEMVEELILSGADIV  176 (346)
T ss_pred             CCCEEEEECCCCcHHHHHHHHHHHHHhCCCCcE-EEecccCHHHHHHHHHcCCCEE
Confidence            589999998776544 56799999999888765 4666777778888999999985

>PRK06015 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=92.19  E-value=2.6  Score=29.26  Aligned_cols=59  Identities=20%  Similarity=0.241  Sum_probs=34.4

Q ss_pred             eCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHH
Q 045936           78 DMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPL  138 (145)
Q Consensus        78 d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~  138 (145)
                      +..+..-..++.++.+++.++. -+|-..+-.+.+....+.++|++-.+ .|...+++.+.
T Consensus        34 Eit~~tp~a~~~I~~l~~~~~~-~~vGAGTVl~~e~a~~ai~aGA~Fiv-SP~~~~~vi~~   92 (201)
T PRK06015         34 EITLRTPAALDAIRAVAAEVEE-AIVGAGTILNAKQFEDAAKAGSRFIV-SPGTTQELLAA   92 (201)
T ss_pred             EEeCCCccHHHHHHHHHHHCCC-CEEeeEeCcCHHHHHHHHHcCCCEEE-CCCCCHHHHHH
Confidence            3344445567777777766653 23444555677777777777775444 45555554443

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=92.13  E-value=3.9  Score=31.77  Aligned_cols=103  Identities=17%  Similarity=0.100  Sum_probs=56.4

Q ss_pred             CcEEEEEeCCHHHH---HHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCC-CCCC--HHH-HHHHHHhh-C
Q 045936           26 PYFALVVDDDPMIR---RIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEM-PVMD--GIE-ATKAMRAM-K   97 (145)
Q Consensus        26 ~~~vlii~~~~~~~---~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~-~~~~--g~~-~~~~l~~~-~   97 (145)
                      +.+|.+++-++...   ..+..+-...|+.+..+.+..+....+.....+|+||+|.-= ...+  ..+ +.+.++.. .
T Consensus       251 g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~~~~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~  330 (424)
T PRK05703        251 KKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQLRDCDVILIDTAGRSQRDKRLIEELKALIEFSGE  330 (424)
T ss_pred             CCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHhCCCCEEEEeCCCCCCCCHHHHHHHHHHHhccCC
Confidence            46788888887532   334444555676666666666666655543468999999631 1111  222 33333422 2


Q ss_pred             CCCcEEEEecCCChHHHHHHH----HhcccEE-eeC
Q 045936           98 VESKIVGVTSRNSETEREVFM----QAGLDLC-YTK  128 (145)
Q Consensus        98 ~~~~ii~lt~~~~~~~~~~~~----~~g~~~~-l~k  128 (145)
                      +....+++++.........+.    ..+.+.+ ++|
T Consensus       331 ~~~~~LVl~a~~~~~~l~~~~~~f~~~~~~~vI~TK  366 (424)
T PRK05703        331 PIDVYLVLSATTKYEDLKDIYKHFSRLPLDGLIFTK  366 (424)
T ss_pred             CCeEEEEEECCCCHHHHHHHHHHhCCCCCCEEEEec
Confidence            333466777766655544432    3355454 455

>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins

Probab=92.09  E-value=2.5  Score=28.38  Aligned_cols=69  Identities=13%  Similarity=0.198  Sum_probs=48.5

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhc--CCeEEEe-------cCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSV--GFKVEVA-------ENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM   96 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~--g~~v~~~-------~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~   96 (145)
                      +.+|.++...+...+.+...+++.  |..++.+       .+.++.++.+.. ..||+|++.+..|.+.  .++...++.
T Consensus        46 ~~~v~llG~~~~~~~~~~~~l~~~yp~l~i~g~~~g~~~~~~~~~i~~~I~~-~~pdiv~vglG~PkQE--~~~~~~~~~  122 (171)
T cd06533          46 GLRVFLLGAKPEVLEKAAERLRARYPGLKIVGYHHGYFGPEEEEEIIERINA-SGADILFVGLGAPKQE--LWIARHKDR  122 (171)
T ss_pred             CCeEEEECCCHHHHHHHHHHHHHHCCCcEEEEecCCCCChhhHHHHHHHHHH-cCCCEEEEECCCCHHH--HHHHHHHHH
Confidence            578999999999999988888654  4555432       123335777776 5799999999888765  344555554


Q ss_pred             C
Q 045936           97 K   97 (145)
Q Consensus        97 ~   97 (145)
                      .
T Consensus       123 l  123 (171)
T cd06533         123 L  123 (171)
T ss_pred             C
Confidence            4

E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.

>PRK06559 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=91.93  E-value=2.3  Score=31.28  Aligned_cols=92  Identities=13%  Similarity=0.072  Sum_probs=62.8

Q ss_pred             EEEEEeCCHHHHHHHHHHHHh----cCC--eE-EEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCC
Q 045936           28 FALVVDDDPMIRRIHSMILKS----VGF--KV-EVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVES  100 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~----~g~--~v-~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~  100 (145)
                      .|||-|++-.....+...++.    .++  .+ +.+++.+++.+.+..  .+|+|++|- |...+--+.++.++.    .
T Consensus       169 ~iLIkdNHi~~~g~i~~av~~~r~~~~~~~kIeVEv~tleea~~a~~a--gaDiImLDn-mspe~l~~av~~~~~----~  241 (290)
T PRK06559        169 AIMLKDNHIAAVGSVQKAIAQARAYAPFVKMVEVEVESLAAAEEAAAA--GADIIMLDN-MSLEQIEQAITLIAG----R  241 (290)
T ss_pred             eEEEcHHHHHhhccHHHHHHHHHHhCCCCCeEEEECCCHHHHHHHHHc--CCCEEEECC-CCHHHHHHHHHHhcC----c
Confidence            588888887776555555432    232  23 388999999999976  389999993 333333344444432    2


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEEe
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      .++-.++.-+.+........|+|..-
T Consensus       242 ~~leaSGGI~~~ni~~yA~tGVD~Is  267 (290)
T PRK06559        242 SRIECSGNIDMTTISRFRGLAIDYVS  267 (290)
T ss_pred             eEEEEECCCCHHHHHHHHhcCCCEEE
Confidence            35667788888899999999998753

>TIGR00262 trpA tryptophan synthase, alpha subunit

Probab=91.85  E-value=1.7  Score=31.33  Aligned_cols=58  Identities=21%  Similarity=0.104  Sum_probs=36.8

Q ss_pred             CHHHHHHHHHhhCCCCcEEEEecCCC------hHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936           85 DGIEATKAMRAMKVESKIVGVTSRNS------ETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus        85 ~g~~~~~~l~~~~~~~~ii~lt~~~~------~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      +.++.++.+++.....|+++++-...      ......+.++|+++++......++....++.+
T Consensus        73 ~~~~~v~~ir~~~~~~plv~m~Y~Npi~~~G~e~f~~~~~~aGvdgviipDlp~ee~~~~~~~~  136 (256)
T TIGR00262        73 KCFELLKKVRQKHPNIPIGLLTYYNLIFRKGVEEFYAKCKEVGVDGVLVADLPLEESGDLVEAA  136 (256)
T ss_pred             HHHHHHHHHHhcCCCCCEEEEEeccHHhhhhHHHHHHHHHHcCCCEEEECCCChHHHHHHHHHH
Confidence            34566777766545677664444332      45677778888888877777766666555443

Tryptophan synthase catalyzes the last step in the biosynthesis of tryptophan. The alpha chain is responsible for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate. In bacteria and plants each domain is found on a separate subunit (alpha and beta chains), while in fungi the two domains are fused together on a single multifunctional protein. The signature pattern for trpA contains three conserved acidic residues. [LIVM]-E-[LIVM]-G-x(2)-[FYC]-[ST]-[DE]-[PA]-[LIVMY]-[AGLI]-[DE]-G and this is located between residues 43-58 of the model. The Sulfolobus solfataricus trpA is known to be quite divergent from other known trpA sequences.

>PF04131 NanE: Putative N-acetylmannosamine-6-phosphate epimerase; InterPro: IPR007260 This family represents a putative ManNAc-6-P-to-GlcNAc-6P epimerase in the N-acetylmannosamine (ManNAc) utilization pathway found mainly in pathogenic bacteria for the reaction: N-acyl-D-glucosamine 6-phosphate = N-acyl-D-mannosamine 6-phosphate It is probably encoded by the yhcJ gene []

Probab=91.85  E-value=3  Score=28.70  Aligned_cols=85  Identities=9%  Similarity=0.010  Sum_probs=56.3

Q ss_pred             HHHHHHHHHhcCCeE-EEecCHHHHHHHHhcCCCccEEEEeC------CCCCCCHHHHHHHHHhhCCCCcEEEEecCCCh
Q 045936           39 RRIHSMILKSVGFKV-EVAENGKEAVDLFRTGAKFHIVFIDM------EMPVMDGIEATKAMRAMKVESKIVGVTSRNSE  111 (145)
Q Consensus        39 ~~~l~~~l~~~g~~v-~~~~~~~~~l~~l~~~~~~dlil~d~------~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~  111 (145)
                      ...+-..++..+..+ .-+++.+|+....+.  .+|+|=.-+      .....+.+++++.|.+.  ..|+|.=.....+
T Consensus        81 l~~li~~i~~~~~l~MADist~ee~~~A~~~--G~D~I~TTLsGYT~~t~~~~pD~~lv~~l~~~--~~pvIaEGri~tp  156 (192)
T PF04131_consen   81 LEELIREIKEKYQLVMADISTLEEAINAAEL--GFDIIGTTLSGYTPYTKGDGPDFELVRELVQA--DVPVIAEGRIHTP  156 (192)
T ss_dssp             HHHHHHHHHHCTSEEEEE-SSHHHHHHHHHT--T-SEEE-TTTTSSTTSTTSSHHHHHHHHHHHT--TSEEEEESS--SH
T ss_pred             HHHHHHHHHHhCcEEeeecCCHHHHHHHHHc--CCCEEEcccccCCCCCCCCCCCHHHHHHHHhC--CCcEeecCCCCCH
Confidence            445555555555333 278999999998876  388875332      11133578899999875  6787777888899


Q ss_pred             HHHHHHHHhcccEEee
Q 045936          112 TEREVFMQAGLDLCYT  127 (145)
Q Consensus       112 ~~~~~~~~~g~~~~l~  127 (145)
                      +....+++.|++..+.
T Consensus       157 e~a~~al~~GA~aVVV  172 (192)
T PF04131_consen  157 EQAAKALELGAHAVVV  172 (192)
T ss_dssp             HHHHHHHHTT-SEEEE
T ss_pred             HHHHHHHhcCCeEEEE
Confidence            9999999999999753

; GO: 0047465 N-acylglucosamine-6-phosphate 2-epimerase activity, 0006051 N-acetylmannosamine metabolic process; PDB: 1Y0E_B 3IGS_A 1YXY_A 3Q58_B.

>PF03328 HpcH_HpaI: HpcH/HpaI aldolase/citrate lyase family; InterPro: IPR005000 This family includes 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase (4

Probab=91.84  E-value=3.2  Score=28.98  Aligned_cols=84  Identities=21%  Similarity=0.203  Sum_probs=50.3

Q ss_pred             CHHHHHHHHhcCCCccEEEEeCCCCC---------CCHHHHHHHHHhhC-CCCcEEEEecCCChHHHHH---HHHhcccE
Q 045936           58 NGKEAVDLFRTGAKFHIVFIDMEMPV---------MDGIEATKAMRAMK-VESKIVGVTSRNSETEREV---FMQAGLDL  124 (145)
Q Consensus        58 ~~~~~l~~l~~~~~~dlil~d~~~~~---------~~g~~~~~~l~~~~-~~~~ii~lt~~~~~~~~~~---~~~~g~~~  124 (145)
                      +..+.++.... ..+|.|++|+.-..         .+-.+++..++... ..+.+++=.+..+......   ++..|+++
T Consensus         9 ~~~~~~~~a~~-~g~D~vilDlEd~~~~~~K~~ar~~~~~~~~~~~~~~~~~~~~~VRvn~~~~~~~~~Dl~~l~~g~~g   87 (221)
T PF03328_consen    9 NSPKMLEKAAA-SGADFVILDLEDGVPPDEKDEAREDLAEALRSIRAARAAGSEIIVRVNSLDSPHIERDLEALDAGADG   87 (221)
T ss_dssp             TSHHHHHHHHT-TCSSEEEEESSTTSSGGGHHHHHHHHHHHHHHHHHHTTSSSEEEEE-SSTTCHHHHHHHHHHHTTSSE
T ss_pred             CCHHHHHHHHh-cCCCEEEEeCcccCCcccchhhHHHHHHHHHhhcccccccccceecCCCCCcchhhhhhhhcccCCCe
Confidence            34444555554 46999999997755         33445555555422 2344554455555555566   89999999


Q ss_pred             E-eeCCCCHHHHHHHHHHH
Q 045936          125 C-YTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       125 ~-l~kP~~~~~l~~~l~~~  142 (145)
                      + ++|--+.+++....+.+
T Consensus        88 I~lP~ves~~~~~~~~~~~  106 (221)
T PF03328_consen   88 IVLPKVESAEDARQAVAAL  106 (221)
T ss_dssp             EEETT--SHHHHHHHHHHH
T ss_pred             eeccccCcHHHHHHHHHHH
Confidence            7 45566677777666543

1.2 from EC) and 4-hydroxy-2-oxovalerate aldolase (4.1.2 from EC). ; GO: 0016830 carbon-carbon lyase activity, 0006725 cellular aromatic compound metabolic process; PDB: 1DXF_B 1DXE_A 3QZ6_A 3QLL_C 3QQW_F 3OYZ_A 3PUG_A 3OYX_A 1IZC_A 2V5K_B ....

>PRK09490 metH B12-dependent methionine synthase; Provisional

Probab=91.64  E-value=3.4  Score=36.44  Aligned_cols=98  Identities=11%  Similarity=0.096  Sum_probs=66.9

Q ss_pred             EEEEE----eCCHHHHHHHHHHHHhcCCeEEEec---CHHHHHHHHhcCCCccEEEEeCCCCCC--CHHHHHHHHHhhCC
Q 045936           28 FALVV----DDDPMIRRIHSMILKSVGFKVEVAE---NGKEAVDLFRTGAKFHIVFIDMEMPVM--DGIEATKAMRAMKV   98 (145)
Q Consensus        28 ~vlii----~~~~~~~~~l~~~l~~~g~~v~~~~---~~~~~l~~l~~~~~~dlil~d~~~~~~--~g~~~~~~l~~~~~   98 (145)
                      +|++.    |-+..-...+..+|+.+||+|+...   ..++.++.+.+ ..+|+|.+...+...  ...++++.|++.++
T Consensus       753 kvvlaTv~GDvHDIGkniV~~~L~~~GfeVIdLG~~vp~e~iv~aa~e-~~~diVgLS~L~t~s~~~m~~~i~~L~~~g~  831 (1229)
T PRK09490        753 KILMATVKGDVHDIGKNIVGVVLQCNNYEVIDLGVMVPAEKILETAKE-ENADIIGLSGLITPSLDEMVHVAKEMERQGF  831 (1229)
T ss_pred             eEEEEeCCCCcchHHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHHHH-hCCCEEEEcCcchhhHHHHHHHHHHHHhcCC
Confidence            56666    5666666677778899999987432   56778888877 579999998776543  24568899998888


Q ss_pred             CCcEEEEecCCChHHHHHH--HH-hcccEEe
Q 045936           99 ESKIVGVTSRNSETEREVF--MQ-AGLDLCY  126 (145)
Q Consensus        99 ~~~ii~lt~~~~~~~~~~~--~~-~g~~~~l  126 (145)
                      .++|++-.+..+......-  -. .|++.|.
T Consensus       832 ~v~v~vGGa~~s~~~ta~~i~~~y~gad~y~  862 (1229)
T PRK09490        832 TIPLLIGGATTSKAHTAVKIAPNYSGPVVYV  862 (1229)
T ss_pred             CCeEEEEeeccchhhhhhhhhhcccCCcEEe
Confidence            8888877666554331111  11 2777665

>cd04727 pdxS PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some metazoa

Probab=91.49  E-value=4.2  Score=29.73  Aligned_cols=86  Identities=20%  Similarity=0.153  Sum_probs=57.5

Q ss_pred             EEEecCHHHHHHHHhcCCCccEEEEeCC-----------------------------------CCCCCHHHHHHHHHhhC
Q 045936           53 VEVAENGKEAVDLFRTGAKFHIVFIDME-----------------------------------MPVMDGIEATKAMRAMK   97 (145)
Q Consensus        53 v~~~~~~~~~l~~l~~~~~~dlil~d~~-----------------------------------~~~~~g~~~~~~l~~~~   97 (145)
                      ..-+++.+|++...+.+  +|+|=.-+.                                   -....++++++.+++..
T Consensus       116 MAD~stleEal~a~~~G--ad~I~TTl~gyT~~~~~~~~~~~~i~~~i~~~~gyt~~t~~~~~~~~~~d~elLk~l~~~~  193 (283)
T cd04727         116 VCGARNLGEALRRISEG--AAMIRTKGEAGTGNVVEAVRHMRAVNGEIRKLQSMSEEELYAVAKEIQAPYELVKETAKLG  193 (283)
T ss_pred             EccCCCHHHHHHHHHCC--CCEEEecCCCCCCcHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhcccCCCHHHHHHHHHhc
Confidence            33688999999988763  777654330                                   01224678888887754


Q ss_pred             CCCcEE--EEecCCChHHHHHHHHhcccEEe-----eCCCCHHHHHHHHHH
Q 045936           98 VESKIV--GVTSRNSETEREVFMQAGLDLCY-----TKPLTMAKIVPLLEE  141 (145)
Q Consensus        98 ~~~~ii--~lt~~~~~~~~~~~~~~g~~~~l-----~kP~~~~~l~~~l~~  141 (145)
                       ..|++  ...+-..++....+++.|++.++     .+.-++.+....+.+
T Consensus       194 -~iPVV~iAeGGI~Tpena~~v~e~GAdgVaVGSAI~~a~dP~~~tk~f~~  243 (283)
T cd04727         194 -RLPVVNFAAGGVATPADAALMMQLGADGVFVGSGIFKSENPEKRARAIVE  243 (283)
T ss_pred             -CCCeEEEEeCCCCCHHHHHHHHHcCCCEEEEcHHhhcCCCHHHHHHHHHH
Confidence             47887  56666689999999999999985     333345554444433

Together with PdxT, PdxS forms the PLP synthase, a heteromeric glutamine amidotransferase (GATase), whereby PdxT produces ammonia from glutamine and PdxS combines ammonia with five- and three-carbon phosphosugars to form PLP. PLP is the biologically active form of vitamin B6, an essential cofactor in many biochemical processes. PdxS subunits form two hexameric rings.

>PF00478 IMPDH: IMP dehydrogenase / GMP reductase domain; InterPro: IPR001093 Synonym(s): Inosine-5'-monophosphate dehydrogenase, Inosinic acid dehydrogenase; Synonym(s): Guanosine 5'-monophosphate oxidoreductase This entry contains two related enzymes IMP dehydrogenase and GMP reducatase

Probab=91.44  E-value=2  Score=32.46  Aligned_cols=67  Identities=13%  Similarity=0.137  Sum_probs=46.1

Q ss_pred             HHHHHHHHhcCCCccEEEEeCCCCCC-CHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEee
Q 045936           59 GKEAVDLFRTGAKFHIVFIDMEMPVM-DGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus        59 ~~~~l~~l~~~~~~dlil~d~~~~~~-~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      ..+-...+-+ ...|++++|...... .-.+.++.+|+.+|+++|| ..+....+....+.++||+....
T Consensus       109 ~~er~~~L~~-agvD~ivID~a~g~s~~~~~~ik~ik~~~~~~~vi-aGNV~T~e~a~~L~~aGad~vkV  176 (352)
T PF00478_consen  109 DFERAEALVE-AGVDVIVIDSAHGHSEHVIDMIKKIKKKFPDVPVI-AGNVVTYEGAKDLIDAGADAVKV  176 (352)
T ss_dssp             HHHHHHHHHH-TT-SEEEEE-SSTTSHHHHHHHHHHHHHSTTSEEE-EEEE-SHHHHHHHHHTT-SEEEE
T ss_pred             HHHHHHHHHH-cCCCEEEccccCccHHHHHHHHHHHHHhCCCceEE-ecccCCHHHHHHHHHcCCCEEEE
Confidence            3444444444 358999999766543 3567999999999988776 56677778888899999998753

These enzymes adopt a TIM barrel structure. IMP dehydrogenase (1.1.1.205 from EC) (IMPDH) catalyzes the rate-limiting reaction of de novo GTP biosynthesis, the NAD-dependent reduction of IMP into XMP []. Inosine 5-phosphate + NAD+ + H2O = xanthosine 5-phosphate + NADH IMP dehydrogenase is associated with cell proliferation and is a possible target for cancer chemotherapy. Mammalian and bacterial IMPDHs are tetramers of identical chains. There are two IMP dehydrogenase isozymes in humans []. IMP dehydrogenase nearly always contains a long insertion that has two CBS domains within it. GMP reductase (1.7.1.7 from EC) catalyzes the irreversible and NADPH-dependent reductive deamination of GMP into IMP []. NADPH + guanosine 5-phosphate = NADP+ + inosine 5-phosphate + NH3 It converts nucleobase, nucleoside and nucleotide derivatives of G to A nucleotides, and maintains intracellular balance of A and G nucleotides.; GO: 0003824 catalytic activity, 0055114 oxidation-reduction process; PDB: 3FFS_D 1VRD_A 1JCN_B 1EEP_B 3TSB_B 3USB_B 3TSD_A 4FF0_A 4FEZ_A 3KHJ_D ....

>PRK06774 para-aminobenzoate synthase component II; Provisional

Probab=91.40  E-value=0.61  Score=31.85  Aligned_cols=77  Identities=18%  Similarity=0.157  Sum_probs=45.3

Q ss_pred             EEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCC--CCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           29 ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEM--PVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        29 vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~--~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      ||++|+.......+.++|+..|+.+....+.+--++.+.. ..||.|++.---  +...+. ....++......|++-++
T Consensus         2 il~id~~dsf~~nl~~~l~~~~~~~~v~~~~~~~~~~~~~-~~~~~iilsgGP~~~~~~~~-~~~~i~~~~~~~PiLGIC   79 (191)
T PRK06774          2 LLLIDNYDSFTYNLYQYFCELGTEVMVKRNDELQLTDIEQ-LAPSHLVISPGPCTPNEAGI-SLAVIRHFADKLPILGVC   79 (191)
T ss_pred             EEEEECCCchHHHHHHHHHHCCCcEEEEeCCCCCHHHHHh-cCCCeEEEcCCCCChHhCCC-chHHHHHhcCCCCEEEEC
Confidence            7999999999999999999999887755543212233343 357877664321  111111 123333333357777654


Q ss_pred             c
Q 045936          107 S  107 (145)
Q Consensus       107 ~  107 (145)
                      -
T Consensus        80 ~   80 (191)
T PRK06774         80 L   80 (191)
T ss_pred             H
Confidence            3

>TIGR00566 trpG_papA glutamine amidotransferase of anthranilate synthase or aminodeoxychorismate synthase

Probab=91.22  E-value=1.3  Score=30.27  Aligned_cols=77  Identities=19%  Similarity=0.204  Sum_probs=44.7

Q ss_pred             EEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCC--CCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           29 ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEM--PVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        29 vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~--~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      ||++|........+..+|+..|+.+....+....++.+.. ..||.|++.---  +...+. ..+.++......|++-++
T Consensus         2 il~id~~dsft~~~~~~l~~~g~~v~v~~~~~~~~~~~~~-~~~d~iilsgGpg~p~~~~~-~~~~i~~~~~~~PvLGIC   79 (188)
T TIGR00566         2 VLMIDNYDSFTYNLVQYFCELGAEVVVKRNDSLTLQEIEA-LLPLLIVISPGPCTPNEAGI-SLEAIRHFAGKLPILGVC   79 (188)
T ss_pred             EEEEECCcCHHHHHHHHHHHcCCceEEEECCCCCHHHHHh-cCCCEEEEcCCCCChhhcch-hHHHHHHhccCCCEEEEC
Confidence            8999999999999999999989886654432211233333 348866653211  111122 234444433457777654


Q ss_pred             c
Q 045936          107 S  107 (145)
Q Consensus       107 ~  107 (145)
                      -
T Consensus        80 ~   80 (188)
T TIGR00566        80 L   80 (188)
T ss_pred             H
Confidence            3

This model describes the glutamine amidotransferase domain or peptide of the tryptophan-biosynthetic pathway enzyme anthranilate synthase or of the folate biosynthetic pathway enzyme para-aminobenzoate synthase. In at least one case, a single polypeptide from Bacillus subtilis was shown to have both functions. This model covers a subset of the sequences described by the pfam model GATase.

>TIGR00693 thiE thiamine-phosphate pyrophosphorylase

Probab=91.20  E-value=3.4  Score=28.09  Aligned_cols=69  Identities=16%  Similarity=0.151  Sum_probs=48.7

Q ss_pred             EecCHHHHHHHHhcCCCccEEEEeCCCCC--------CCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           55 VAENGKEAVDLFRTGAKFHIVFIDMEMPV--------MDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        55 ~~~~~~~~l~~l~~~~~~dlil~d~~~~~--------~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      .+++.+++.+....  .+|.+.++.-.+.        ..|++.++++.+..+.+|++++.+- +.+....++..|++++.
T Consensus       102 s~h~~~e~~~a~~~--g~dyi~~~~v~~t~~k~~~~~~~g~~~l~~~~~~~~~~pv~a~GGI-~~~~~~~~~~~G~~gva  178 (196)
T TIGR00693       102 STHNLEELAEAEAE--GADYIGFGPIFPTPTKKDPAPPAGVELLREIAATSIDIPIVAIGGI-TLENAAEVLAAGADGVA  178 (196)
T ss_pred             eCCCHHHHHHHhHc--CCCEEEECCccCCCCCCCCCCCCCHHHHHHHHHhcCCCCEEEECCc-CHHHHHHHHHcCCCEEE
Confidence            67788888765543  4899887654331        2378888888776566887766554 57778888899998863

This model includes ThiE from Bacillus subtilis but excludes its paralog, the regulatory protein TenI, and neighbors of TenI.

>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional

Probab=91.10  E-value=3.6  Score=34.03  Aligned_cols=101  Identities=12%  Similarity=0.159  Sum_probs=70.7

Q ss_pred             HHHHHHHHhcCCeEE--EecCHHHHHHHHhcCCCccEEEEeCCCC-----CCCHHHHHHHHHhhC--CCCcEEEEecCCC
Q 045936           40 RIHSMILKSVGFKVE--VAENGKEAVDLFRTGAKFHIVFIDMEMP-----VMDGIEATKAMRAMK--VESKIVGVTSRNS  110 (145)
Q Consensus        40 ~~l~~~l~~~g~~v~--~~~~~~~~l~~l~~~~~~dlil~d~~~~-----~~~g~~~~~~l~~~~--~~~~ii~lt~~~~  110 (145)
                      ......|+..||.+.  .+.++...+..+.. -++|.|=+|-.+-     +.....+++.+....  .++. ++..+-.+
T Consensus       681 ~~~l~~l~~~G~~i~ld~fg~~~~~~~~l~~-l~~d~iKid~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~-via~gVe~  758 (799)
T PRK11359        681 FKRIQILRDMGVGLSVDDFGTGFSGLSRLVS-LPVTEIKIDKSFVDRCLTEKRILALLEAITSIGQSLNLT-VVAEGVET  758 (799)
T ss_pred             HHHHHHHHHCCCEEEEECCCCchhhHHHHhh-CCCCEEEECHHHHhhcccChhHHHHHHHHHHHHHHCCCe-EEEEcCCC
Confidence            445556788898875  46677777777776 6799999886442     122344566665432  2333 45677788


Q ss_pred             hHHHHHHHHhcccE----EeeCCCCHHHHHHHHHHH
Q 045936          111 ETEREVFMQAGLDL----CYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       111 ~~~~~~~~~~g~~~----~l~kP~~~~~l~~~l~~~  142 (145)
                      .+....+.+.|++.    |+.||.+.++|...|++.
T Consensus       759 ~~~~~~l~~~g~~~~QG~~~~~p~~~~~~~~~~~~~  794 (799)
T PRK11359        759 KEQFEMLRKIHCRVIQGYFFSRPLPAEEIPGWMSSV  794 (799)
T ss_pred             HHHHHHHHhcCCCEEeeCeecCCCCHHHHHHHHHhc
Confidence            88888899999864    588999999999988764

>PRK06543 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=91.07  E-value=4.8  Score=29.52  Aligned_cols=92  Identities=12%  Similarity=0.157  Sum_probs=61.6

Q ss_pred             EEEEEeCCHHHH--H--HHHHHHH----hcCC--eE-EEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh
Q 045936           28 FALVVDDDPMIR--R--IHSMILK----SVGF--KV-EVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM   96 (145)
Q Consensus        28 ~vlii~~~~~~~--~--~l~~~l~----~~g~--~v-~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~   96 (145)
                      .|||-|++-...  .  .+...++    ..++  .+ +.+++.+++.+.+..  .+|+|++| +++..+--+.+..++. 
T Consensus       161 ~vLikdNHi~~~~~g~~~i~~av~~~r~~~~~~~kIeVEv~slee~~ea~~~--gaDiImLD-n~s~e~l~~av~~~~~-  236 (281)
T PRK06543        161 AVMAKDNHLAALAAQGLDLTEALRHVRAQLGHTTHVEVEVDRLDQIEPVLAA--GVDTIMLD-NFSLDDLREGVELVDG-  236 (281)
T ss_pred             eEEEeHHHHHHHhCCchHHHHHHHHHHHhCCCCCcEEEEeCCHHHHHHHHhc--CCCEEEEC-CCCHHHHHHHHHHhCC-
Confidence            588888887653  1  2444443    3343  33 489999999999876  48999998 3333333344444432 


Q ss_pred             CCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           97 KVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        97 ~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                         ...+-.++.-+.+........|+|..-
T Consensus       237 ---~~~leaSGgI~~~ni~~yA~tGVD~Is  263 (281)
T PRK06543        237 ---RAIVEASGNVNLNTVGAIASTGVDVIS  263 (281)
T ss_pred             ---CeEEEEECCCCHHHHHHHHhcCCCEEE
Confidence               236777888899999998899998764

>PRK06096 molybdenum transport protein ModD; Provisional

Probab=91.06  E-value=2.3  Score=31.18  Aligned_cols=95  Identities=15%  Similarity=0.177  Sum_probs=62.6

Q ss_pred             EEEEeCCHHHHH---HHHHHH----HhcC-Ce-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCC
Q 045936           29 ALVVDDDPMIRR---IHSMIL----KSVG-FK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVE   99 (145)
Q Consensus        29 vlii~~~~~~~~---~l~~~l----~~~g-~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~   99 (145)
                      |||-|++-....   .+...+    +..+ .. .+.+.+.+++.+.+..  .+|+|++| +|....--+..+.+++..+.
T Consensus       160 vLikdNHi~~~g~~~~i~~av~~~r~~~~~~kIeVEv~tleqa~ea~~a--gaDiI~LD-n~~~e~l~~av~~~~~~~~~  236 (284)
T PRK06096        160 ILLFANHRHFLHDPQDWSGAINQLRRHAPEKKIVVEADTPKEAIAALRA--QPDVLQLD-KFSPQQATEIAQIAPSLAPH  236 (284)
T ss_pred             hhhHHHHHHHhCCcccHHHHHHHHHHhCCCCCEEEECCCHHHHHHHHHc--CCCEEEEC-CCCHHHHHHHHHHhhccCCC
Confidence            666666654443   233333    2223 22 3488999999999986  38999998 45544445556655544443


Q ss_pred             CcEEEEecCCChHHHHHHHHhcccEEee
Q 045936          100 SKIVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus       100 ~~ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                       ..+-.++.-+.+........|+|.+..
T Consensus       237 -~~leaSGGI~~~ni~~yA~tGvD~Is~  263 (284)
T PRK06096        237 -CTLSLAGGINLNTLKNYADCGIRLFIT  263 (284)
T ss_pred             -eEEEEECCCCHHHHHHHHhcCCCEEEE
Confidence             356778888999999999999988643

>PRK03562 glutathione-regulated potassium-efflux system protein KefC; Provisional

Probab=90.82  E-value=4.8  Score=32.84  Aligned_cols=53  Identities=11%  Similarity=0.140  Sum_probs=35.1

Q ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           71 KFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        71 ~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      ..+++++-.+-+ ......+...|+.+|+.++++-+  .+........+.|++...
T Consensus       464 ~A~~vvv~~~d~-~~n~~i~~~ar~~~p~~~iiaRa--~d~~~~~~L~~~Gad~v~  516 (621)
T PRK03562        464 KAEVLINAIDDP-QTSLQLVELVKEHFPHLQIIARA--RDVDHYIRLRQAGVEKPE  516 (621)
T ss_pred             cCCEEEEEeCCH-HHHHHHHHHHHHhCCCCeEEEEE--CCHHHHHHHHHCCCCEEe
Confidence            456666654322 23456777888888888876544  455667777889999764

>PRK14329 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=90.79  E-value=4.8  Score=31.65  Aligned_cols=96  Identities=13%  Similarity=0.116  Sum_probs=59.2

Q ss_pred             CCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCC----HHHHH---HHHHhhCCCCcEEEEe
Q 045936           34 DDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMD----GIEAT---KAMRAMKVESKIVGVT  106 (145)
Q Consensus        34 ~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~----g~~~~---~~l~~~~~~~~ii~lt  106 (145)
                      -|....+.+...|...||.++.           . ....|+++++.-.-..+    ....+   +.+++..|..+| +++
T Consensus        35 ~N~~dse~~~~~l~~~G~~~~~-----------~-~~~ADiviiNTC~v~~~a~~k~~~~i~~~~~~k~~~p~~~i-vvg  101 (467)
T PRK14329         35 MNFADSEIVASILQMAGYNTTE-----------N-LEEADLVLVNTCSIRDNAEQKVRKRLEKFNALKKKNPKLIV-GVL  101 (467)
T ss_pred             CcHHHHHHHHHHHHHCcCEECC-----------C-cccCCEEEEeCcceechHHHHHHHHHHHHHHHHhhCCCcEE-EEE
Confidence            4556668888999889988753           1 23589999987443322    33344   444555566544 455


Q ss_pred             cCCChHHHHHHHHh-cccEEeeCCCCHHHHHHHHHHH
Q 045936          107 SRNSETEREVFMQA-GLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       107 ~~~~~~~~~~~~~~-g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      +..........+.. +.-+++..+-....+...++..
T Consensus       102 Gc~a~~~~~~~l~~~~~vD~vv~~e~~~~i~~ll~~~  138 (467)
T PRK14329        102 GCMAERLKDKLLEEEKIVDLVVGPDAYLDLPNLIAEV  138 (467)
T ss_pred             CChhcCcHHHHHhcCCCceEEECCCCHHHHHHHHHHH
Confidence            55444444444444 4357777888888887777654

>PRK13566 anthranilate synthase; Provisional

Probab=90.78  E-value=1.9  Score=35.77  Aligned_cols=82  Identities=16%  Similarity=0.174  Sum_probs=49.6

Q ss_pred             CCCCCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCC--C-CCCHHHHHHHHHhhCC
Q 045936           22 SKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEM--P-VMDGIEATKAMRAMKV   98 (145)
Q Consensus        22 ~~~~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~--~-~~~g~~~~~~l~~~~~   98 (145)
                      .+..+.+|+++|........+.++|++.|+.+..+...... ..+.. ..||.||+.-.-  + +....++++...  ..
T Consensus       522 ~~~~g~~IlvID~~dsf~~~l~~~Lr~~G~~v~vv~~~~~~-~~~~~-~~~DgVVLsgGpgsp~d~~~~~lI~~a~--~~  597 (720)
T PRK13566        522 AVGEGKRVLLVDHEDSFVHTLANYFRQTGAEVTTVRYGFAE-EMLDR-VNPDLVVLSPGPGRPSDFDCKATIDAAL--AR  597 (720)
T ss_pred             CCCCCCEEEEEECCCchHHHHHHHHHHCCCEEEEEECCCCh-hHhhh-cCCCEEEECCCCCChhhCCcHHHHHHHH--HC
Confidence            44456799999999888999999999999887755543221 22222 358987763111  1 112233444332  23


Q ss_pred             CCcEEEEec
Q 045936           99 ESKIVGVTS  107 (145)
Q Consensus        99 ~~~ii~lt~  107 (145)
                      +.||+-++-
T Consensus       598 ~iPILGICl  606 (720)
T PRK13566        598 NLPIFGVCL  606 (720)
T ss_pred             CCcEEEEeh
Confidence            577776644

>PRK00278 trpC indole-3-glycerol-phosphate synthase; Reviewed

Probab=90.74  E-value=4.8  Score=29.03  Aligned_cols=99  Identities=10%  Similarity=0.078  Sum_probs=65.5

Q ss_pred             HHHHHHHHHHHHhcCCe-EEEecCHHHHHHHHhcCCCccEEEEeC-CCCC-CCHHHHHHHHHhhCCC-CcEEEEecCCCh
Q 045936           36 PMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDM-EMPV-MDGIEATKAMRAMKVE-SKIVGVTSRNSE  111 (145)
Q Consensus        36 ~~~~~~l~~~l~~~g~~-v~~~~~~~~~l~~l~~~~~~dlil~d~-~~~~-~~g~~~~~~l~~~~~~-~~ii~lt~~~~~  111 (145)
                      +.....+....+..|.. ++.+++.+++.+....  .+|+|-+.- ++.. ...++....+....|. .++|..++-.++
T Consensus       146 ~~~l~~li~~a~~lGl~~lvevh~~~E~~~A~~~--gadiIgin~rdl~~~~~d~~~~~~l~~~~p~~~~vIaegGI~t~  223 (260)
T PRK00278        146 DEQLKELLDYAHSLGLDVLVEVHDEEELERALKL--GAPLIGINNRNLKTFEVDLETTERLAPLIPSDRLVVSESGIFTP  223 (260)
T ss_pred             HHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHc--CCCEEEECCCCcccccCCHHHHHHHHHhCCCCCEEEEEeCCCCH
Confidence            44555566666677877 4588999998776654  478776542 1111 1125556666655453 578888888899


Q ss_pred             HHHHHHHHhcccEEe-----eCCCCHHHHH
Q 045936          112 TEREVFMQAGLDLCY-----TKPLTMAKIV  136 (145)
Q Consensus       112 ~~~~~~~~~g~~~~l-----~kP~~~~~l~  136 (145)
                      +....+...|++.++     .++-++.+..
T Consensus       224 ed~~~~~~~Gad~vlVGsaI~~~~dp~~~~  253 (260)
T PRK00278        224 EDLKRLAKAGADAVLVGESLMRADDPGAAL  253 (260)
T ss_pred             HHHHHHHHcCCCEEEECHHHcCCCCHHHHH
Confidence            999999999999975     5555554443

>TIGR01579 MiaB-like-C MiaB-like tRNA modifying enzyme

Probab=90.56  E-value=6  Score=30.46  Aligned_cols=94  Identities=16%  Similarity=0.066  Sum_probs=59.2

Q ss_pred             CHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCC----CHHHHHHHHHhhCCCCcEEEEecCCC
Q 045936           35 DPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVM----DGIEATKAMRAMKVESKIVGVTSRNS  110 (145)
Q Consensus        35 ~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~----~g~~~~~~l~~~~~~~~ii~lt~~~~  110 (145)
                      |....+.+...|...||..+..            ...+|+|+++.-....    .+++.++.+++..|..+|+ +++...
T Consensus         9 N~~ds~~~~~~l~~~g~~~~~~------------~~~aD~v~intctv~~~a~~~~~~~i~~~k~~~p~~~vv-vgGc~a   75 (414)
T TIGR01579         9 NQYESESLKNQLIQKGYEVVPD------------EDKADVYIINTCTVTAKADSKARRAIRRARRQNPTAKII-VTGCYA   75 (414)
T ss_pred             CHHHHHHHHHHHHHCcCEECCC------------cccCCEEEEeccccchHHHHHHHHHHHHHHhhCCCcEEE-EECCcc
Confidence            4455677888888888875421            1358999998644332    3677888888877766544 555544


Q ss_pred             hHHHHHHHHhcccEEeeCCCCHHHHHHHHHH
Q 045936          111 ETEREVFMQAGLDLCYTKPLTMAKIVPLLEE  141 (145)
Q Consensus       111 ~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~  141 (145)
                      ......++.....+++..+-....+...++.
T Consensus        76 ~~~~ee~~~~~~vD~vv~~e~~~~~~~ll~~  106 (414)
T TIGR01579        76 QSNPKELADLKDVDLVLGNKEKDKINKLLSL  106 (414)
T ss_pred             ccCHHHHhcCCCCcEEECCCCHHHHHHHHHH
Confidence            4444444455445566677776666666544

This clade is a member of a subfamily (TIGR00089) and spans low GC Gram positive bacteria, alpha and epsilon proteobacteria, Campylobacter, Porphyromonas, Aquifex, Thermotoga, Chlamydia, Treponema and Fusobacterium.

>cd04729 NanE N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate

Probab=90.52  E-value=4.4  Score=28.22  Aligned_cols=85  Identities=13%  Similarity=0.055  Sum_probs=57.0

Q ss_pred             HHHHHHHHhcC-Ce-EEEecCHHHHHHHHhcCCCccEEEEeCC-C------CCCCHHHHHHHHHhhCCCCcEEEEecCCC
Q 045936           40 RIHSMILKSVG-FK-VEVAENGKEAVDLFRTGAKFHIVFIDME-M------PVMDGIEATKAMRAMKVESKIVGVTSRNS  110 (145)
Q Consensus        40 ~~l~~~l~~~g-~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~-~------~~~~g~~~~~~l~~~~~~~~ii~lt~~~~  110 (145)
                      ..+...++..| .. +..+.+.+++......  .+|.+.+... .      .....++.++.+++.. +.|+++..+-.+
T Consensus       112 ~~~i~~~~~~g~~~iiv~v~t~~ea~~a~~~--G~d~i~~~~~g~t~~~~~~~~~~~~~l~~i~~~~-~ipvia~GGI~~  188 (219)
T cd04729         112 AELIKRIHEEYNCLLMADISTLEEALNAAKL--GFDIIGTTLSGYTEETAKTEDPDFELLKELRKAL-GIPVIAEGRINS  188 (219)
T ss_pred             HHHHHHHHHHhCCeEEEECCCHHHHHHHHHc--CCCEEEccCccccccccCCCCCCHHHHHHHHHhc-CCCEEEeCCCCC
Confidence            33444444444 44 3467788888776654  3887754321 1      1223567888887755 688888887778


Q ss_pred             hHHHHHHHHhcccEEee
Q 045936          111 ETEREVFMQAGLDLCYT  127 (145)
Q Consensus       111 ~~~~~~~~~~g~~~~l~  127 (145)
                      .+....++..|++.++.
T Consensus       189 ~~~~~~~l~~GadgV~v  205 (219)
T cd04729         189 PEQAAKALELGADAVVV  205 (219)
T ss_pred             HHHHHHHHHCCCCEEEE
Confidence            89999999999999764

This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of related sugars that are found as a component of glycoproteins, gangliosides, and other sialoglycoconjugates.

>TIGR00642 mmCoA_mut_beta methylmalonyl-CoA mutase, heterodimeric type, beta chain

Probab=90.49  E-value=6.1  Score=32.30  Aligned_cols=110  Identities=12%  Similarity=0.102  Sum_probs=69.1

Q ss_pred             EEEEEeCCHHHHH-----HHHHHHHhcCCeEE---EecCHHHHHHHHhcCCCcc-EEEEeCCCC-CCCHHHHHHHHHhhC
Q 045936           28 FALVVDDDPMIRR-----IHSMILKSVGFKVE---VAENGKEAVDLFRTGAKFH-IVFIDMEMP-VMDGIEATKAMRAMK   97 (145)
Q Consensus        28 ~vlii~~~~~~~~-----~l~~~l~~~g~~v~---~~~~~~~~l~~l~~~~~~d-lil~d~~~~-~~~g~~~~~~l~~~~   97 (145)
                      +|.++---+....     .-.++|..-||.+.   .+.+.+++...... ...+ +|||..+-. ...+.++++.||...
T Consensus       496 ~vfL~~lG~~a~~~aRa~Fa~nff~~gG~~~~~~~~~~~~~~~~~a~~~-sga~i~viCssD~~Y~~~a~~~~~al~~ag  574 (619)
T TIGR00642       496 KVFLLCLGTLADFGGREGFSSNVWHIAGIDTIQVEGGTTAEIVVEAFKK-AGAQVAVLCSSDKVYAQQGLEVAKALKAAG  574 (619)
T ss_pred             eEEEeCCCChHhhccHHHHHHhHHhcCceeeccCCCCCCHHHHHHHHHh-cCCCEEEEeCCCcchHHHHHHHHHHHHhCC
Confidence            5666554333333     33455566678766   45678888777765 3456 445544322 224667888998876


Q ss_pred             CCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936           98 VESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus        98 ~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      ..  .+++++....  ......+|+|+|+.--.+.-+.+..+++.
T Consensus       575 ~~--~v~lAG~p~~--~~~~~~aGvd~fi~~g~d~~~~L~~~~~~  615 (619)
T TIGR00642       575 AK--ALYLAGAFKE--FGDDAAEAIDGRLFMKMNVVDTLSSTLDI  615 (619)
T ss_pred             CC--EEEEeCCCcc--hhhHHhcCCcceeEcCCcHHHHHHHHHHH
Confidence            63  5666665543  33478899999998887777666666543

The adenosylcobalamin-binding, catalytic chain of methylmalonyl-CoA mutase may form homodimers, as in mitochondrion and E. coli, or heterodimers with a shorter, homologous chain that does not bind adenosylcobalamin. This model describes this non-catalytic beta chain, as found in the enzyme from Propionibacterium freudenreichii, for which the 3-dimensional structure has been solved.

>smart00052 EAL Putative diguanylate phosphodiesterase

Probab=90.45  E-value=3.6  Score=28.54  Aligned_cols=92  Identities=11%  Similarity=0.206  Sum_probs=58.6

Q ss_pred             HHHHHHHhcCCeEE--EecCHHHHHHHHhcCCCccEEEEeCCCCC-----CCHHHHHHHHHhhC-CCCcEEEEecCCChH
Q 045936           41 IHSMILKSVGFKVE--VAENGKEAVDLFRTGAKFHIVFIDMEMPV-----MDGIEATKAMRAMK-VESKIVGVTSRNSET  112 (145)
Q Consensus        41 ~l~~~l~~~g~~v~--~~~~~~~~l~~l~~~~~~dlil~d~~~~~-----~~g~~~~~~l~~~~-~~~~ii~lt~~~~~~  112 (145)
                      .....|+..|+.+.  -+..+...+..+.. -+||.|=+|..+-.     .....+++.+.... ....-++..+-.+.+
T Consensus       137 ~~i~~l~~~G~~ialddfg~~~~~~~~l~~-l~~d~iKld~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~via~gVe~~~  215 (241)
T smart00052      137 ATLQRLRELGVRIALDDFGTGYSSLSYLKR-LPVDLLKIDKSFVRDLQTDPEDEAIVQSIIELAQKLGLQVVAEGVETPE  215 (241)
T ss_pred             HHHHHHHHCCCEEEEeCCCCcHHHHHHHHh-CCCCeEEECHHHHhhhccChhHHHHHHHHHHHHHHCCCeEEEecCCCHH
Confidence            44566678898865  35555666667765 57999999965421     11334555554432 222345677788888


Q ss_pred             HHHHHHHhcccE----EeeCCCCHH
Q 045936          113 EREVFMQAGLDL----CYTKPLTMA  133 (145)
Q Consensus       113 ~~~~~~~~g~~~----~l~kP~~~~  133 (145)
                      ....+...|++.    |+.||.+.+
T Consensus       216 ~~~~l~~~Gi~~~QG~~~~~p~~~~  240 (241)
T smart00052      216 QLDLLRSLGCDYGQGYLFSRPLPLD  240 (241)
T ss_pred             HHHHHHHcCCCEEeeceeccCCCCC
Confidence            888899999864    467776543

Putative diguanylate phosphodiesterase, present in a variety of bacteria.

>PRK06978 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=90.42  E-value=2.9  Score=30.78  Aligned_cols=92  Identities=13%  Similarity=0.068  Sum_probs=61.4

Q ss_pred             EEEEEeCCHHHHHHHHHHHHh---cC--CeE-EEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCc
Q 045936           28 FALVVDDDPMIRRIHSMILKS---VG--FKV-EVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESK  101 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~---~g--~~v-~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~  101 (145)
                      .|||-|++-.....+...++.   ..  ..+ +.+++.+++.+.+..  .+|+|++|- |+...--+.++.++    ...
T Consensus       178 ~vLIkdNHi~~~G~i~~av~~~r~~~~~~kIeVEvetleea~eA~~a--GaDiImLDn-mspe~l~~av~~~~----~~~  250 (294)
T PRK06978        178 GILIKENHIAAAGGVGAALDAAFALNAGVPVQIEVETLAQLETALAH--GAQSVLLDN-FTLDMMREAVRVTA----GRA  250 (294)
T ss_pred             eEEEeHHHHHHhCCHHHHHHHHHHhCCCCcEEEEcCCHHHHHHHHHc--CCCEEEECC-CCHHHHHHHHHhhc----CCe
Confidence            588888887666544444432   21  233 488999999999976  389999993 43333333444432    224


Q ss_pred             EEEEecCCChHHHHHHHHhcccEEe
Q 045936          102 IVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      ++-.++.-+.+........|+|..-
T Consensus       251 ~lEaSGGIt~~ni~~yA~tGVD~IS  275 (294)
T PRK06978        251 VLEVSGGVNFDTVRAFAETGVDRIS  275 (294)
T ss_pred             EEEEECCCCHHHHHHHHhcCCCEEE
Confidence            5667888888889999999998764

>cd01573 modD_like ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport

Probab=90.22  E-value=3.1  Score=30.32  Aligned_cols=71  Identities=17%  Similarity=0.163  Sum_probs=49.5

Q ss_pred             EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEee
Q 045936           53 VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus        53 v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      -+.+.+.+++.+....  .+|.|.+|-..| .+--++.+.++...+++|+++. +.-+.+........|++.+..
T Consensus       187 gVev~t~eea~~A~~~--gaD~I~ld~~~p-~~l~~~~~~~~~~~~~i~i~As-GGI~~~ni~~~~~~Gvd~I~v  257 (272)
T cd01573         187 VVEVDSLEEALAAAEA--GADILQLDKFSP-EELAELVPKLRSLAPPVLLAAA-GGINIENAAAYAAAGADILVT  257 (272)
T ss_pred             EEEcCCHHHHHHHHHc--CCCEEEECCCCH-HHHHHHHHHHhccCCCceEEEE-CCCCHHHHHHHHHcCCcEEEE
Confidence            3478899999888764  489999994433 2223455556655556776544 456778888999999998753

In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and eukaryotes. They catalyse the reaction of quinolinic acid (QA) with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to produce nicotinic acid mononucleotide (NAMN), pyrophosphate and carbon dioxide.

>PF01408 GFO_IDH_MocA: Oxidoreductase family, NAD-binding Rossmann fold; InterPro: IPR000683 This group of enzymes utilise NADP or NAD, and is known as the GFO/IDH/MOCA family in UniProtKB/Swiss-Prot

Probab=90.11  E-value=3  Score=25.68  Aligned_cols=103  Identities=20%  Similarity=0.273  Sum_probs=52.7

Q ss_pred             EEEEEeCCHHHHHHHHHHHHh-cCCeEE-EecCHHH-HHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           28 FALVVDDDPMIRRIHSMILKS-VGFKVE-VAENGKE-AVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~-~g~~v~-~~~~~~~-~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      +|.+++-...-...+..+... .++.++ .++...+ +-...+. .... ..-|          +-+.+....++.-+|.
T Consensus         2 ~v~iiG~G~~g~~~~~~~~~~~~~~~v~~v~d~~~~~~~~~~~~-~~~~-~~~~----------~~~ll~~~~~D~V~I~   69 (120)
T PF01408_consen    2 RVGIIGAGSIGRRHLRALLRSSPDFEVVAVCDPDPERAEAFAEK-YGIP-VYTD----------LEELLADEDVDAVIIA   69 (120)
T ss_dssp             EEEEESTSHHHHHHHHHHHHTTTTEEEEEEECSSHHHHHHHHHH-TTSE-EESS----------HHHHHHHTTESEEEEE
T ss_pred             EEEEECCcHHHHHHHHHHHhcCCCcEEEEEEeCCHHHHHHHHHH-hccc-chhH----------HHHHHHhhcCCEEEEe
Confidence            566676655555555555554 345544 3333333 3322222 1222 2222          1122222222332222


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCC--CHHHHHHHHHHH
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPL--TMAKIVPLLEEL  142 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~--~~~~l~~~l~~~  142 (145)
                      .....-.+....+++.|..-++-||+  +.+++.+.++..
T Consensus        70 tp~~~h~~~~~~~l~~g~~v~~EKP~~~~~~~~~~l~~~a  109 (120)
T PF01408_consen   70 TPPSSHAEIAKKALEAGKHVLVEKPLALTLEEAEELVEAA  109 (120)
T ss_dssp             SSGGGHHHHHHHHHHTTSEEEEESSSSSSHHHHHHHHHHH
T ss_pred             cCCcchHHHHHHHHHcCCEEEEEcCCcCCHHHHHHHHHHH
Confidence            22333445677789999999999999  677777766544

GFO is a glucose--fructose oxidoreductase, which converts D-glucose and D-fructose into D-gluconolactone and D-glucitol in the sorbitol-gluconate pathway. MOCA is a rhizopine catabolism protein which may catalyse the NADH-dependent dehydrogenase reaction involved in rhizopine catabolism. Other proteins belonging to this family include Gal80, a negative regulator for the expression of lactose and galactose metabolic genes; and several hypothetical proteins from yeast, Escherichia coli and Bacillus subtilis. The oxidoreductase, N-terminal domain is almost always associated with the oxidoreductase, C-terminal domain (see IPR004104 from INTERPRO).; GO: 0016491 oxidoreductase activity; PDB: 1LC0_A 1LC3_A 1GCU_A 3IP3_E 3CEA_C 3EVN_A 3NTQ_A 3NTR_B 3NT5_A 3MZ0_A ....

>TIGR00343 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1

Probab=90.05  E-value=6  Score=29.02  Aligned_cols=56  Identities=16%  Similarity=0.185  Sum_probs=40.2

Q ss_pred             CHHHHHHHHHhhCCCCcEE--EEecCCChHHHHHHHHhcccEEe-----eCCCCHHHHHHHHHH
Q 045936           85 DGIEATKAMRAMKVESKIV--GVTSRNSETEREVFMQAGLDLCY-----TKPLTMAKIVPLLEE  141 (145)
Q Consensus        85 ~g~~~~~~l~~~~~~~~ii--~lt~~~~~~~~~~~~~~g~~~~l-----~kP~~~~~l~~~l~~  141 (145)
                      .++++++.+++.. ..||+  ...+-..++....+++.|+++++     .|.-++.+....+.+
T Consensus       184 ~~~elLkei~~~~-~iPVV~fAiGGI~TPedAa~~melGAdGVaVGSaI~ks~dP~~~akafv~  246 (287)
T TIGR00343       184 VPVELLLEVLKLG-KLPVVNFAAGGVATPADAALMMQLGADGVFVGSGIFKSSNPEKLAKAIVE  246 (287)
T ss_pred             CCHHHHHHHHHhC-CCCEEEeccCCCCCHHHHHHHHHcCCCEEEEhHHhhcCCCHHHHHHHHHH
Confidence            5788888888754 57887  55666689999999999999974     444456655554443

This protein had been believed to be a singlet oxygen resistance protein. Subsequent work showed that it is a protein of pyridoxine (vitamin B6) biosynthesis, and that pyridoxine quenches the highly toxic singlet form of oxygen produced by light in the presence of certain chemicals.

>PF03602 Cons_hypoth95: Conserved hypothetical protein 95; InterPro: IPR004398 This entry contains Ribosomal RNA small subunit methyltransferase D as well as the putative rRNA methyltransferase YlbH

Probab=90.02  E-value=4.1  Score=27.78  Aligned_cols=70  Identities=16%  Similarity=0.196  Sum_probs=45.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCe--E-EEecCHHHHHHHH-hcCCCccEEEEeCCCCCCCH-HHHHHHHHhh
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFK--V-EVAENGKEAVDLF-RTGAKFHIVFIDMEMPVMDG-IEATKAMRAM   96 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~--v-~~~~~~~~~l~~l-~~~~~~dlil~d~~~~~~~g-~~~~~~l~~~   96 (145)
                      .+|..+|.++.....++.-++..+..  + +...+...++... .....+|+|++|-=...... .+++..|.+.
T Consensus        66 ~~v~fVE~~~~a~~~i~~N~~~l~~~~~~~v~~~d~~~~l~~~~~~~~~fDiIflDPPY~~~~~~~~~l~~l~~~  140 (183)
T PF03602_consen   66 KSVVFVEKNRKAIKIIKKNLEKLGLEDKIRVIKGDAFKFLLKLAKKGEKFDIIFLDPPYAKGLYYEELLELLAEN  140 (183)
T ss_dssp             SEEEEEES-HHHHHHHHHHHHHHT-GGGEEEEESSHHHHHHHHHHCTS-EEEEEE--STTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEECCHHHHHHHHHHHHHhCCCcceeeeccCHHHHHHhhcccCCCceEEEECCCcccchHHHHHHHHHHHC
Confidence            37999999999999999999887733  2 3456766666555 23367999999943333333 5577777654

They methylate the guanosine in position 966 of 16S rRNA in the assembled 30S particle [].; GO: 0008168 methyltransferase activity, 0031167 rRNA methylation; PDB: 3P9N_A 2ESR_B 2IFT_A 1WS6_A 2FPO_B 2FHP_A.

>TIGR03151 enACPred_II putative enoyl-(acyl-carrier-protein) reductase II

Probab=90.01  E-value=6.3  Score=29.20  Aligned_cols=82  Identities=11%  Similarity=0.001  Sum_probs=58.4

Q ss_pred             HHHHHHhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCC-C----CCCHHHHHHHHHhhCCCCcEEEEecCCChHHHH
Q 045936           42 HSMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEM-P----VMDGIEATKAMRAMKVESKIVGVTSRNSETERE  115 (145)
Q Consensus        42 l~~~l~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~-~----~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~  115 (145)
                      +...++..|..+. .+.+.+++......  .+|.|++.-.- .    ..+.+.+++.+++.. ++||+.-.+-.+.....
T Consensus       101 ~i~~lk~~g~~v~~~v~s~~~a~~a~~~--GaD~Ivv~g~eagGh~g~~~~~~ll~~v~~~~-~iPviaaGGI~~~~~~~  177 (307)
T TIGR03151       101 YIPRLKENGVKVIPVVASVALAKRMEKA--GADAVIAEGMESGGHIGELTTMALVPQVVDAV-SIPVIAAGGIADGRGMA  177 (307)
T ss_pred             HHHHHHHcCCEEEEEcCCHHHHHHHHHc--CCCEEEEECcccCCCCCCCcHHHHHHHHHHHh-CCCEEEECCCCCHHHHH
Confidence            5556666786654 67888888777665  48988874322 1    223577888887654 58888877888888888


Q ss_pred             HHHHhcccEEe
Q 045936          116 VFMQAGLDLCY  126 (145)
Q Consensus       116 ~~~~~g~~~~l  126 (145)
                      .++..|+++..
T Consensus       178 ~al~~GA~gV~  188 (307)
T TIGR03151       178 AAFALGAEAVQ  188 (307)
T ss_pred             HHHHcCCCEee
Confidence            99999999875

This oxidoreductase of the 2-nitropropane dioxygenase family (pfam03060) is commonly found in apparent operons with genes involved in fatty acid biosynthesis. Furthermore, this genomic context generally includes the fabG 3-oxoacyl-[ACP] reductase and lacks the fabI enoyl-[ACP] reductase.

>PRK08007 para-aminobenzoate synthase component II; Provisional

Probab=90.00  E-value=0.98  Score=30.81  Aligned_cols=77  Identities=19%  Similarity=0.163  Sum_probs=46.0

Q ss_pred             EEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCC--CCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           29 ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEM--PVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        29 vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~--~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      ||++|+.......+.++|+..|+.+..+.+.+..+..+.. ..||.||+.---  |...+. ..+.++......|++-++
T Consensus         2 il~idn~Dsft~nl~~~l~~~g~~v~v~~~~~~~~~~~~~-~~~d~iils~GPg~p~~~~~-~~~~~~~~~~~~PiLGIC   79 (187)
T PRK08007          2 ILLIDNYDSFTWNLYQYFCELGADVLVKRNDALTLADIDA-LKPQKIVISPGPCTPDEAGI-SLDVIRHYAGRLPILGVC   79 (187)
T ss_pred             EEEEECCCccHHHHHHHHHHCCCcEEEEeCCCCCHHHHHh-cCCCEEEEcCCCCChHHCCc-cHHHHHHhcCCCCEEEEC
Confidence            8999999999999999999999876655543222333333 358877765321  111111 223333333467777654


Q ss_pred             c
Q 045936          107 S  107 (145)
Q Consensus       107 ~  107 (145)
                      -
T Consensus        80 l   80 (187)
T PRK08007         80 L   80 (187)
T ss_pred             H
Confidence            3

>CHL00162 thiG thiamin biosynthesis protein G; Validated

Probab=89.86  E-value=5.9  Score=28.64  Aligned_cols=95  Identities=12%  Similarity=0.054  Sum_probs=61.4

Q ss_pred             HHHHhcCCeEEEec--CHHHHHHHHhcCCCccEEEEeCCCC--CCCHH---HHHHHHHhhCCCCcEEEEecCCChHHHHH
Q 045936           44 MILKSVGFKVEVAE--NGKEAVDLFRTGAKFHIVFIDMEMP--VMDGI---EATKAMRAMKVESKIVGVTSRNSETEREV  116 (145)
Q Consensus        44 ~~l~~~g~~v~~~~--~~~~~l~~l~~~~~~dlil~d~~~~--~~~g~---~~~~~l~~~~~~~~ii~lt~~~~~~~~~~  116 (145)
                      ..|-..||.|..+.  |.--|-+.... .+.-  ++-+-.|  ...|+   ..++.|+++ +.+||++=++-..++....
T Consensus       131 e~Lv~eGF~VlPY~~~D~v~a~rLed~-Gc~a--VMPlgsPIGSg~Gl~n~~~l~~i~e~-~~vpVivdAGIgt~sDa~~  206 (267)
T CHL00162        131 EFLVKKGFTVLPYINADPMLAKHLEDI-GCAT--VMPLGSPIGSGQGLQNLLNLQIIIEN-AKIPVIIDAGIGTPSEASQ  206 (267)
T ss_pred             HHHHHCCCEEeecCCCCHHHHHHHHHc-CCeE--EeeccCcccCCCCCCCHHHHHHHHHc-CCCcEEEeCCcCCHHHHHH
Confidence            34556799987433  44444444333 3333  3344443  33343   466667665 4589998899999999999


Q ss_pred             HHHhcccEEe-----eCCCCHHHHHHHHHHH
Q 045936          117 FMQAGLDLCY-----TKPLTMAKIVPLLEEL  142 (145)
Q Consensus       117 ~~~~g~~~~l-----~kP~~~~~l~~~l~~~  142 (145)
                      +++.|+++.+     .|--++.++...++..
T Consensus       207 AmElGaDgVL~nSaIakA~dP~~mA~a~~~A  237 (267)
T CHL00162        207 AMELGASGVLLNTAVAQAKNPEQMAKAMKLA  237 (267)
T ss_pred             HHHcCCCEEeecceeecCCCHHHHHHHHHHH
Confidence            9999999974     5666777777766543

>PRK07807 inosine 5-monophosphate dehydrogenase; Validated

Probab=89.78  E-value=2.3  Score=33.61  Aligned_cols=67  Identities=18%  Similarity=0.205  Sum_probs=47.1

Q ss_pred             CHHHHHHHHhcCCCccEEEEeCCCC-CCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           58 NGKEAVDLFRTGAKFHIVFIDMEMP-VMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        58 ~~~~~l~~l~~~~~~dlil~d~~~~-~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      +..+.+..+.. ...|+|.+|.... +..-.+++++||+.+|+.+|+ ..+....+....+.++|+|.+-
T Consensus       227 ~~~~~a~~Lv~-aGvd~i~~D~a~~~~~~~~~~i~~ik~~~p~~~v~-agnv~t~~~a~~l~~aGad~v~  294 (479)
T PRK07807        227 DVAAKARALLE-AGVDVLVVDTAHGHQEKMLEALRAVRALDPGVPIV-AGNVVTAEGTRDLVEAGADIVK  294 (479)
T ss_pred             hHHHHHHHHHH-hCCCEEEEeccCCccHHHHHHHHHHHHHCCCCeEE-eeccCCHHHHHHHHHcCCCEEE
Confidence            33444444444 3589999997664 345678999999988876654 3466677778888999998863

>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA)

Probab=89.76  E-value=3.2  Score=29.59  Aligned_cols=56  Identities=21%  Similarity=0.088  Sum_probs=35.0

Q ss_pred             HHHHHHHHHhhCCCCcEEEEecCCC------hHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936           86 GIEATKAMRAMKVESKIVGVTSRNS------ETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus        86 g~~~~~~l~~~~~~~~ii~lt~~~~------~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      ++++++.+|+.. .+|+++++-...      ......+.++|+++++...+.++++...++.+
T Consensus        64 ~~~~~~~vr~~~-~~pv~lm~y~n~~~~~G~~~fi~~~~~aG~~giiipDl~~ee~~~~~~~~  125 (242)
T cd04724          64 VLELVKEIRKKN-TIPIVLMGYYNPILQYGLERFLRDAKEAGVDGLIIPDLPPEEAEEFREAA  125 (242)
T ss_pred             HHHHHHHHhhcC-CCCEEEEEecCHHHHhCHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHH
Confidence            455666666544 567666554332      55677788888888887655666655555443

TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.

>PRK05637 anthranilate synthase component II; Provisional

Probab=89.69  E-value=3.3  Score=28.81  Aligned_cols=78  Identities=12%  Similarity=0.099  Sum_probs=45.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPV-MDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~-~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      ++|+++|....+...+..+|+..|+.+..+..... .+.+.. ..||.||+.---.. .+.....+.++......||+-+
T Consensus         2 ~~il~iD~~dsf~~nl~~~l~~~g~~~~v~~~~~~-~~~l~~-~~~~~iIlsgGPg~~~d~~~~~~li~~~~~~~PiLGI   79 (208)
T PRK05637          2 THVVLIDNHDSFVYNLVDAFAVAGYKCTVFRNTVP-VEEILA-ANPDLICLSPGPGHPRDAGNMMALIDRTLGQIPLLGI   79 (208)
T ss_pred             CEEEEEECCcCHHHHHHHHHHHCCCcEEEEeCCCC-HHHHHh-cCCCEEEEeCCCCCHHHhhHHHHHHHHHhCCCCEEEE
Confidence            47999999988999999999999987665544221 222333 35887777321111 1111223444432335677655


Q ss_pred             e
Q 045936          106 T  106 (145)
Q Consensus       106 t  106 (145)
                      .
T Consensus        80 C   80 (208)
T PRK05637         80 C   80 (208)
T ss_pred             c
Confidence            3

>PLN02274 inosine-5'-monophosphate dehydrogenase

Probab=89.61  E-value=3.7  Score=32.64  Aligned_cols=65  Identities=18%  Similarity=0.191  Sum_probs=45.0

Q ss_pred             HHHHHHHhcCCCccEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           60 KEAVDLFRTGAKFHIVFIDMEMPV-MDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        60 ~~~l~~l~~~~~~dlil~d~~~~~-~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      .+-.+.+-+ ...|+|.+|..... ...++.+++||+.+|+.+++ ..+....+....+.++|+|...
T Consensus       250 ~~r~~~l~~-ag~d~i~iD~~~g~~~~~~~~i~~ik~~~p~~~vi-~g~v~t~e~a~~a~~aGaD~i~  315 (505)
T PLN02274        250 KERLEHLVK-AGVDVVVLDSSQGDSIYQLEMIKYIKKTYPELDVI-GGNVVTMYQAQNLIQAGVDGLR  315 (505)
T ss_pred             HHHHHHHHH-cCCCEEEEeCCCCCcHHHHHHHHHHHHhCCCCcEE-EecCCCHHHHHHHHHcCcCEEE
Confidence            343344433 34899999985422 22458999999988776654 4456677788889999999874

>PRK07649 para-aminobenzoate/anthranilate synthase glutamine amidotransferase component II; Validated

Probab=89.48  E-value=0.7  Score=31.80  Aligned_cols=49  Identities=16%  Similarity=0.196  Sum_probs=36.2

Q ss_pred             EEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEe
Q 045936           29 ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFID   78 (145)
Q Consensus        29 vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d   78 (145)
                      ||++|+....-..+..+|++.|+.+......+.....+.. ..||.||+.
T Consensus         2 il~idn~dsft~nl~~~l~~~g~~v~v~~~~~~~~~~~~~-~~~d~iIls   50 (195)
T PRK07649          2 ILMIDNYDSFTFNLVQFLGELGQELVVKRNDEVTISDIEN-MKPDFLMIS   50 (195)
T ss_pred             EEEEeCCCccHHHHHHHHHHCCCcEEEEeCCCCCHHHHhh-CCCCEEEEC
Confidence            8999999999999999999999887755544333333443 358877765

>COG3967 DltE Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]

Probab=89.37  E-value=5.9  Score=27.95  Aligned_cols=77  Identities=12%  Similarity=0.033  Sum_probs=57.8

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccE--EEEeCCCCCCCH-HHHHHHHHhhCCCCcE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHI--VFIDMEMPVMDG-IEATKAMRAMKVESKI  102 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dl--il~d~~~~~~~g-~~~~~~l~~~~~~~~i  102 (145)
                      +..|||-+...-+.-.+..-+.+.|-.|..+.-.++.+..... ..|++  ..||.  .+.++ -++..++++.+|...+
T Consensus         5 gnTiLITGG~sGIGl~lak~f~elgN~VIi~gR~e~~L~e~~~-~~p~~~t~v~Dv--~d~~~~~~lvewLkk~~P~lNv   81 (245)
T COG3967           5 GNTILITGGASGIGLALAKRFLELGNTVIICGRNEERLAEAKA-ENPEIHTEVCDV--ADRDSRRELVEWLKKEYPNLNV   81 (245)
T ss_pred             CcEEEEeCCcchhhHHHHHHHHHhCCEEEEecCcHHHHHHHHh-cCcchheeeecc--cchhhHHHHHHHHHhhCCchhe
Confidence            4468888888888888888888899888877777777777766 34664  45554  45554 4699999999998887


Q ss_pred             EEE
Q 045936          103 VGV  105 (145)
Q Consensus       103 i~l  105 (145)
                      ++=
T Consensus        82 liN   84 (245)
T COG3967          82 LIN   84 (245)
T ss_pred             eee
Confidence            654

>PRK05670 anthranilate synthase component II; Provisional

Probab=89.21  E-value=2.2  Score=29.08  Aligned_cols=78  Identities=14%  Similarity=0.120  Sum_probs=44.0

Q ss_pred             EEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEe-CCCCCCCHHHHHHHHHhhCCCCcEEEEec
Q 045936           29 ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFID-MEMPVMDGIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        29 vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d-~~~~~~~g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      |||+|........+..+|.+.|+.+............+.. ..||.+|+. -.....+.-...+.++......|++-++-
T Consensus         2 iliid~~d~f~~~i~~~l~~~g~~~~v~~~~~~~~~~~~~-~~~dglIlsgGpg~~~d~~~~~~~l~~~~~~~PvLGICl   80 (189)
T PRK05670          2 ILLIDNYDSFTYNLVQYLGELGAEVVVYRNDEITLEEIEA-LNPDAIVLSPGPGTPAEAGISLELIREFAGKVPILGVCL   80 (189)
T ss_pred             EEEEECCCchHHHHHHHHHHCCCcEEEEECCCCCHHHHHh-CCCCEEEEcCCCCChHHcchHHHHHHHhcCCCCEEEECH
Confidence            8999999999999999999999886654432111112233 248877763 11111111123334444334577776644

>PLN02335 anthranilate synthase

Probab=89.16  E-value=2.1  Score=30.07  Aligned_cols=80  Identities=16%  Similarity=0.139  Sum_probs=46.0

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCC--CCCCHHHHHHHHHhhCCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEM--PVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~--~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      ..+|+++|........+.++|++.|+.+..+......+..+.. ..||.|++.---  +...+ ...+.++......|++
T Consensus        18 ~~~ilviD~~dsft~~i~~~L~~~g~~~~v~~~~~~~~~~~~~-~~~d~iVisgGPg~p~d~~-~~~~~~~~~~~~~PiL   95 (222)
T PLN02335         18 NGPIIVIDNYDSFTYNLCQYMGELGCHFEVYRNDELTVEELKR-KNPRGVLISPGPGTPQDSG-ISLQTVLELGPLVPLF   95 (222)
T ss_pred             cCcEEEEECCCCHHHHHHHHHHHCCCcEEEEECCCCCHHHHHh-cCCCEEEEcCCCCChhhcc-chHHHHHHhCCCCCEE
Confidence            3479999987788899999999999876644432111222232 347876664321  11111 1344454444567877


Q ss_pred             EEec
Q 045936          104 GVTS  107 (145)
Q Consensus       104 ~lt~  107 (145)
                      -++-
T Consensus        96 GICl   99 (222)
T PLN02335         96 GVCM   99 (222)
T ss_pred             EecH
Confidence            6544

>cd00381 IMPDH IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase

Probab=89.15  E-value=4.7  Score=30.11  Aligned_cols=63  Identities=14%  Similarity=0.127  Sum_probs=44.0

Q ss_pred             HHHHhcCCCccEEEEeCCCCCC-CHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEee
Q 045936           63 VDLFRTGAKFHIVFIDMEMPVM-DGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus        63 l~~l~~~~~~dlil~d~~~~~~-~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      +..+.+ ..+++|.+|...... ...+.++.+++..|++++++ ......+....+.++|++....
T Consensus        99 ~~~l~e-agv~~I~vd~~~G~~~~~~~~i~~ik~~~p~v~Vi~-G~v~t~~~A~~l~~aGaD~I~v  162 (325)
T cd00381          99 AEALVE-AGVDVIVIDSAHGHSVYVIEMIKFIKKKYPNVDVIA-GNVVTAEAARDLIDAGADGVKV  162 (325)
T ss_pred             HHHHHh-cCCCEEEEECCCCCcHHHHHHHHHHHHHCCCceEEE-CCCCCHHHHHHHHhcCCCEEEE
Confidence            333333 358999998755432 34678889988777666654 5666777888899999998753

IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine nucleotides. There is often a CBS domain inserted in the middle of this domain, which is proposed to play a regulatory role. IMPDH is a key enzyme in the regulation of cell proliferation and differentiation. It has been identified as an attractive target for developing chemotherapeutic agents.

>PRK10060 RNase II stability modulator; Provisional

Probab=89.09  E-value=9.2  Score=31.39  Aligned_cols=105  Identities=10%  Similarity=0.128  Sum_probs=71.1

Q ss_pred             HHHHHHHHHHHhcCCeEE--EecCHHHHHHHHhcCCCccEEEEeCCC----C-CCCHHHHHHHHHhhC--CCCcEEEEec
Q 045936           37 MIRRIHSMILKSVGFKVE--VAENGKEAVDLFRTGAKFHIVFIDMEM----P-VMDGIEATKAMRAMK--VESKIVGVTS  107 (145)
Q Consensus        37 ~~~~~l~~~l~~~g~~v~--~~~~~~~~l~~l~~~~~~dlil~d~~~----~-~~~g~~~~~~l~~~~--~~~~ii~lt~  107 (145)
                      .....+...|+..|+.+.  -+.++-..+..+.. -++|.|=+|-..    . +.....+++.+-...  .++.+ +..+
T Consensus       541 ~~~~~~l~~L~~~G~~ialDdfGtg~ssl~~L~~-l~~d~iKiD~sfv~~i~~~~~~~~~v~~ii~~a~~lg~~v-iAeG  618 (663)
T PRK10060        541 ELALSVIQQFSQLGAQVHLDDFGTGYSSLSQLAR-FPIDAIKLDQSFVRDIHKQPVSQSLVRAIVAVAQALNLQV-IAEG  618 (663)
T ss_pred             HHHHHHHHHHHHCCCEEEEECCCCchhhHHHHHh-CCCCEEEECHHHHhccccCcchHHHHHHHHHHHHHCCCcE-EEec
Confidence            334455667788898866  46777778888887 689999888533    2 223445555554421  23333 4566


Q ss_pred             CCChHHHHHHHHhcccE----EeeCCCCHHHHHHHHHHHh
Q 045936          108 RNSETEREVFMQAGLDL----CYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       108 ~~~~~~~~~~~~~g~~~----~l~kP~~~~~l~~~l~~~~  143 (145)
                      -.+.+....+...|++.    |+.||.+.+++...+++..
T Consensus       619 VEt~~q~~~l~~~G~d~~QGy~~~~P~~~~~~~~~l~~~~  658 (663)
T PRK10060        619 VETAKEDAFLTKNGVNERQGFLFAKPMPAVAFERWYKRYL  658 (663)
T ss_pred             CCCHHHHHHHHHcCCCEEecCccCCCCCHHHHHHHHHhhh
Confidence            77777788888999865    4789999999988886643

>TIGR00736 nifR3_rel_arch TIM-barrel protein, putative

Probab=89.02  E-value=6.4  Score=28.00  Aligned_cols=65  Identities=15%  Similarity=0.167  Sum_probs=49.4

Q ss_pred             HHHHHHhcCCCccEEEEeCCCCCC--CHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           61 EAVDLFRTGAKFHIVFIDMEMPVM--DGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        61 ~~l~~l~~~~~~dlil~d~~~~~~--~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      +..+.+.+ ...|.+-+|...++.  ..++.++.+++..+.+|||.-.+-.+.+...+.++.||+...
T Consensus       152 ~~a~~l~~-aGad~i~Vd~~~~g~~~a~~~~I~~i~~~~~~ipIIgNGgI~s~eda~e~l~~GAd~Vm  218 (231)
T TIGR00736       152 IDALNLVD-DGFDGIHVDAMYPGKPYADMDLLKILSEEFNDKIIIGNNSIDDIESAKEMLKAGADFVS  218 (231)
T ss_pred             HHHHHHHH-cCCCEEEEeeCCCCCchhhHHHHHHHHHhcCCCcEEEECCcCCHHHHHHHHHhCCCeEE
Confidence            44455555 458988888766654  358888999887656889888888888888888899999874

Members of this family show a distant relationship by PSI-BLAST to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase. At least two closely related but well-separable families among the bacteria, the nifR3/yhdG family and the yjbN family, share a more distant relationship to this family of shorter, exclusively archaeal proteins.

>PRK03958 tRNA 2'-O-methylase; Reviewed

Probab=88.98  E-value=5.5  Score=27.08  Aligned_cols=56  Identities=18%  Similarity=0.340  Sum_probs=46.3

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcC--CeEEEecCHHHHHHHHhc-CCCccEEEEeCCCCC
Q 045936           28 FALVVDDDPMIRRIHSMILKSVG--FKVEVAENGKEAVDLFRT-GAKFHIVFIDMEMPV   83 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g--~~v~~~~~~~~~l~~l~~-~~~~dlil~d~~~~~   83 (145)
                      +++++..++...+.++.++..+|  |.+....+.+++++.+.. +..+-+...+.+..+
T Consensus        33 ~~yiv~~~~~q~~~v~~I~~~WGg~fnv~~~~s~~~~i~~~k~~G~vvhLtmyga~~~~   91 (176)
T PRK03958         33 KIILASNDEHVKESVEDIVERWGGPFEVEVTKSWKKEIREWKDGGIVVHLTMYGENIQD   91 (176)
T ss_pred             eEEEecCcHHHHHHHHHHHHhcCCceEEEEcCCHHHHHHHHHhCCcEEEEEEecCCccc
Confidence            68999999999999999999987  778899999999998863 345677777776654

>PF04131 NanE: Putative N-acetylmannosamine-6-phosphate epimerase; InterPro: IPR007260 This family represents a putative ManNAc-6-P-to-GlcNAc-6P epimerase in the N-acetylmannosamine (ManNAc) utilization pathway found mainly in pathogenic bacteria for the reaction: N-acyl-D-glucosamine 6-phosphate = N-acyl-D-mannosamine 6-phosphate It is probably encoded by the yhcJ gene []

Probab=88.88  E-value=3.9  Score=28.15  Aligned_cols=70  Identities=14%  Similarity=0.055  Sum_probs=49.1

Q ss_pred             CCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCC--CCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEE
Q 045936           50 GFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPV--MDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLC  125 (145)
Q Consensus        50 g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~--~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~  125 (145)
                      ++.+....+.+++-..+..  ..|+|-+|...-.  .+-.++++.+|+.+    .++++....-+....+.+.|+|-.
T Consensus        45 ~~~V~ITPT~~ev~~l~~a--GadIIAlDaT~R~Rp~~l~~li~~i~~~~----~l~MADist~ee~~~A~~~G~D~I  116 (192)
T PF04131_consen   45 DSDVYITPTLKEVDALAEA--GADIIALDATDRPRPETLEELIREIKEKY----QLVMADISTLEEAINAAELGFDII  116 (192)
T ss_dssp             TSS--BS-SHHHHHHHHHC--T-SEEEEE-SSSS-SS-HHHHHHHHHHCT----SEEEEE-SSHHHHHHHHHTT-SEE
T ss_pred             CCCeEECCCHHHHHHHHHc--CCCEEEEecCCCCCCcCHHHHHHHHHHhC----cEEeeecCCHHHHHHHHHcCCCEE
Confidence            3567777788888888876  3899999986632  55667888888876    677888889999999999998764

; GO: 0047465 N-acylglucosamine-6-phosphate 2-epimerase activity, 0006051 N-acetylmannosamine metabolic process; PDB: 1Y0E_B 3IGS_A 1YXY_A 3Q58_B.

>TIGR01306 GMP_reduct_2 guanosine monophosphate reductase, bacterial

Probab=88.76  E-value=4.7  Score=30.14  Aligned_cols=56  Identities=14%  Similarity=0.075  Sum_probs=42.2

Q ss_pred             ccEEEEeCCCCCC-CHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEeeC
Q 045936           72 FHIVFIDMEMPVM-DGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTK  128 (145)
Q Consensus        72 ~dlil~d~~~~~~-~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~k  128 (145)
                      .|+|++|...... ..++.++++++..|. |.++..+....+....+.++|++.+...
T Consensus       109 ~d~i~~D~ahg~s~~~~~~i~~i~~~~p~-~~vi~GnV~t~e~a~~l~~aGad~I~V~  165 (321)
T TIGR01306       109 PEYITIDIAHGHSNSVINMIKHIKTHLPD-SFVIAGNVGTPEAVRELENAGADATKVG  165 (321)
T ss_pred             CCEEEEeCccCchHHHHHHHHHHHHhCCC-CEEEEecCCCHHHHHHHHHcCcCEEEEC
Confidence            6999999866544 356788999887754 4455665678888999999999997543

A deep split separates two families of GMP reductase. The other (TIGR01305) is found in eukaryotic and some proteobacterial lineages, including E. coli, while this family is found in a variety of bacterial lineages.

>PRK09016 quinolinate phosphoribosyltransferase; Validated

Probab=88.35  E-value=3.3  Score=30.57  Aligned_cols=92  Identities=14%  Similarity=0.097  Sum_probs=59.5

Q ss_pred             EEEEEeCCHHHHHHHHHHHHh----cC-Ce-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCc
Q 045936           28 FALVVDDDPMIRRIHSMILKS----VG-FK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESK  101 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~----~g-~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~  101 (145)
                      .|||-|++-.....+...++.    .+ .. .+.+.+.+++.+.+..  .+|+|++|-.-+ .+--++++.++   . -.
T Consensus       181 ~iLikdNHi~~~G~i~~av~~~r~~~~~~kIeVEv~sleea~ea~~~--gaDiI~LDn~s~-e~~~~av~~~~---~-~~  253 (296)
T PRK09016        181 AFLIKENHIIASGSIRQAVEKAFWLHPDVPVEVEVENLDELDQALKA--GADIIMLDNFTT-EQMREAVKRTN---G-RA  253 (296)
T ss_pred             hhccCHHHHHHhCcHHHHHHHHHHhCCCCCEEEEeCCHHHHHHHHHc--CCCEEEeCCCCh-HHHHHHHHhhc---C-Ce
Confidence            367777775555445444422    22 22 4489999999999986  389999994333 23333444332   2 23


Q ss_pred             EEEEecCCChHHHHHHHHhcccEEe
Q 045936          102 IVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      .+..++.-+.+.+......|+|.+-
T Consensus       254 ~ieaSGGI~~~ni~~yA~tGVD~Is  278 (296)
T PRK09016        254 LLEVSGNVTLETLREFAETGVDFIS  278 (296)
T ss_pred             EEEEECCCCHHHHHHHHhcCCCEEE
Confidence            4666777888889999999998764

>PF01729 QRPTase_C: Quinolinate phosphoribosyl transferase, C-terminal domain; InterPro: IPR002638 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2

Probab=88.34  E-value=4.1  Score=27.49  Aligned_cols=71  Identities=24%  Similarity=0.214  Sum_probs=48.1

Q ss_pred             CccEEEEeCCCC--CCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936           71 KFHIVFIDMEMP--VMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus        71 ~~dlil~d~~~~--~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      ..|.+++.-+.-  -.+-.+.++.+++..|..+.|.+ ...+.+....+++.|++....-.++++++...++.+
T Consensus        49 l~d~ili~~nHi~~~g~i~~av~~~~~~~~~~~~I~V-Ev~~~ee~~ea~~~g~d~I~lD~~~~~~~~~~v~~l  121 (169)
T PF01729_consen   49 LSDMILIKDNHIAFFGGIEEAVKAARQAAPEKKKIEV-EVENLEEAEEALEAGADIIMLDNMSPEDLKEAVEEL  121 (169)
T ss_dssp             TTSSEEE-HHHHHHHSSHHHHHHHHHHHSTTTSEEEE-EESSHHHHHHHHHTT-SEEEEES-CHHHHHHHHHHH
T ss_pred             CCCcEEehHHHHHHhCCHHHHHHHHHHhCCCCceEEE-EcCCHHHHHHHHHhCCCEEEecCcCHHHHHHHHHHH
Confidence            356555543332  12346788889888776653333 445677888999999999999999999999988854

4.2.19 from EC is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to give rise to nicotinic acid mononucleotide (NaMN), pyrophosphate and carbon dioxide [, ]. Unlike IPR004393 from INTERPRO, this domain also includes the molybdenum transport system protein ModD.; GO: 0004514 nicotinate-nucleotide diphosphorylase (carboxylating) activity, 0009435 NAD biosynthetic process; PDB: 3C2O_A 3C2F_A 3C2E_A 3C2R_A 3C2V_A 1QPN_E 1QPO_A 1QPQ_F 1QPR_E 2I14_D ....

>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli

Probab=88.27  E-value=5.9  Score=26.60  Aligned_cols=72  Identities=11%  Similarity=0.141  Sum_probs=50.4

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhc--CCeEEEec-------CHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHh
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSV--GFKVEVAE-------NGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRA   95 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~--g~~v~~~~-------~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~   95 (145)
                      ++.+|.++...+...+.+...|++.  |..++.+.       ..++.++.+.. ..||+|++.+..|.+.  .++...+.
T Consensus        47 ~~~~ifllG~~~~~~~~~~~~l~~~yP~l~ivg~~~g~f~~~~~~~i~~~I~~-~~pdiv~vglG~PkQE--~~~~~~~~  123 (172)
T PF03808_consen   47 RGKRIFLLGGSEEVLEKAAANLRRRYPGLRIVGYHHGYFDEEEEEAIINRINA-SGPDIVFVGLGAPKQE--RWIARHRQ  123 (172)
T ss_pred             cCCeEEEEeCCHHHHHHHHHHHHHHCCCeEEEEecCCCCChhhHHHHHHHHHH-cCCCEEEEECCCCHHH--HHHHHHHH
Confidence            3568999999999999888888665  56665333       34556677776 5799999998877654  34555555


Q ss_pred             hCCC
Q 045936           96 MKVE   99 (145)
Q Consensus        96 ~~~~   99 (145)
                      ..+.
T Consensus       124 ~l~~  127 (172)
T PF03808_consen  124 RLPA  127 (172)
T ss_pred             HCCC
Confidence            5443

Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process

>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]

Probab=88.15  E-value=1.7  Score=27.55  Aligned_cols=56  Identities=9%  Similarity=0.000  Sum_probs=39.4

Q ss_pred             EEEeCCCCCCCHHHHHHHHHhhCC-CCcEE--EEecCCChHHHHHHHHhcccEEeeCCC
Q 045936           75 VFIDMEMPVMDGIEATKAMRAMKV-ESKIV--GVTSRNSETEREVFMQAGLDLCYTKPL  130 (145)
Q Consensus        75 il~d~~~~~~~g~~~~~~l~~~~~-~~~ii--~lt~~~~~~~~~~~~~~g~~~~l~kP~  130 (145)
                      |.+-.++....+.++....+-++| +++||  ..++.-+++.+..|+..|+|+.+.--.
T Consensus         4 i~F~C~wcsygaaDlag~~rmqyp~~vRiIrv~CsGrvn~~fvl~Al~~GaDGV~v~GC   62 (132)
T COG1908           4 IAFACNWCSYGAADLAGTSRMQYPPNVRIIRVMCSGRVNPEFVLKALRKGADGVLVAGC   62 (132)
T ss_pred             EEEEcccccccchhhhccccccCCCceEEEEeeccCccCHHHHHHHHHcCCCeEEEecc
Confidence            333445566666676666666544 66665  447888999999999999999875543

>PRK05567 inosine 5'-monophosphate dehydrogenase; Reviewed

Probab=88.09  E-value=4.7  Score=31.88  Aligned_cols=64  Identities=13%  Similarity=0.227  Sum_probs=46.8

Q ss_pred             HHHHHHhcCCCccEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           61 EAVDLFRTGAKFHIVFIDMEMPV-MDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        61 ~~l~~l~~~~~~dlil~d~~~~~-~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      +..+.+.. ...|++.+|..... ..-++.++.++...|+.|+++ .+....+....+.++|++.+-
T Consensus       231 e~a~~L~~-agvdvivvD~a~g~~~~vl~~i~~i~~~~p~~~vi~-g~v~t~e~a~~l~~aGad~i~  295 (486)
T PRK05567        231 ERAEALVE-AGVDVLVVDTAHGHSEGVLDRVREIKAKYPDVQIIA-GNVATAEAARALIEAGADAVK  295 (486)
T ss_pred             HHHHHHHH-hCCCEEEEECCCCcchhHHHHHHHHHhhCCCCCEEE-eccCCHHHHHHHHHcCCCEEE
Confidence            44444444 35899999975433 345678899988887887765 777888889999999998873

>cd01948 EAL EAL domain

Probab=87.92  E-value=4.7  Score=27.88  Aligned_cols=92  Identities=15%  Similarity=0.242  Sum_probs=58.5

Q ss_pred             HHHHHHHhcCCeEEE--ecCHHHHHHHHhcCCCccEEEEeCCCCC-----CCHHHHHHHHHhhC-CCCcEEEEecCCChH
Q 045936           41 IHSMILKSVGFKVEV--AENGKEAVDLFRTGAKFHIVFIDMEMPV-----MDGIEATKAMRAMK-VESKIVGVTSRNSET  112 (145)
Q Consensus        41 ~l~~~l~~~g~~v~~--~~~~~~~l~~l~~~~~~dlil~d~~~~~-----~~g~~~~~~l~~~~-~~~~ii~lt~~~~~~  112 (145)
                      .....++..|+.+..  +......+..+.. -.||.|=+|..+..     .....+++.+.... ....-++.++-.+.+
T Consensus       136 ~~~~~l~~~G~~l~ld~~g~~~~~~~~l~~-~~~d~iKld~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~via~gVe~~~  214 (240)
T cd01948         136 ATLRRLRALGVRIALDDFGTGYSSLSYLKR-LPVDYLKIDRSFVRDIETDPEDRAIVRAIIALAHSLGLKVVAEGVETEE  214 (240)
T ss_pred             HHHHHHHHCCCeEEEeCCCCcHhhHHHHHh-CCCCEEEECHHHHHhHhcChhhHHHHHHHHHHHHHCCCeEEEEecCCHH
Confidence            345556778988763  4555666667766 56999998865421     23345555554432 222345677888888


Q ss_pred             HHHHHHHhcccE----EeeCCCCHH
Q 045936          113 EREVFMQAGLDL----CYTKPLTMA  133 (145)
Q Consensus       113 ~~~~~~~~g~~~----~l~kP~~~~  133 (145)
                      ....+...|++.    |+.+|...+
T Consensus       215 ~~~~~~~~gi~~~QG~~~~~p~~~~  239 (240)
T cd01948         215 QLELLRELGCDYVQGYLFSRPLPAE  239 (240)
T ss_pred             HHHHHHHcCCCeeeeceeccCCCCC
Confidence            888999999854    466776543

This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second messenger, cyclic di-GMP, and is a good candidate for a diguanylate phosphodiesterase function. Together with the GGDEF domain, EAL might be involved in regulating cell surface adhesiveness in bacteria.

>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=87.86  E-value=7.4  Score=27.26  Aligned_cols=84  Identities=19%  Similarity=0.158  Sum_probs=60.9

Q ss_pred             HHHHHHHHHHHHhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCC-CCCHHHHHHHHHhhCCCCcEEEEecCCChHH
Q 045936           36 PMIRRIHSMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMP-VMDGIEATKAMRAMKVESKIVGVTSRNSETE  113 (145)
Q Consensus        36 ~~~~~~l~~~l~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~-~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~  113 (145)
                      |.....+.....+.|..+. -+.+..|+...++.  .+|++=+   .| +.-|.+.++.++...|..|++ -++.-+.+.
T Consensus        95 P~~~~~v~~~~~~~~i~~iPG~~T~~E~~~A~~~--Gad~vkl---FPa~~~G~~~ik~l~~~~p~ip~~-atGGI~~~N  168 (213)
T PRK06552         95 PSFNRETAKICNLYQIPYLPGCMTVTEIVTALEA--GSEIVKL---FPGSTLGPSFIKAIKGPLPQVNVM-VTGGVNLDN  168 (213)
T ss_pred             CCCCHHHHHHHHHcCCCEECCcCCHHHHHHHHHc--CCCEEEE---CCcccCCHHHHHHHhhhCCCCEEE-EECCCCHHH
Confidence            3444555555666777666 67888999888765  3787765   22 334688899999888888877 455567788


Q ss_pred             HHHHHHhcccEE
Q 045936          114 REVFMQAGLDLC  125 (145)
Q Consensus       114 ~~~~~~~g~~~~  125 (145)
                      ....+..|++.+
T Consensus       169 ~~~~l~aGa~~v  180 (213)
T PRK06552        169 VKDWFAAGADAV  180 (213)
T ss_pred             HHHHHHCCCcEE
Confidence            999999998875

>PRK06895 putative anthranilate synthase component II; Provisional

Probab=87.66  E-value=4  Score=27.79  Aligned_cols=77  Identities=13%  Similarity=0.163  Sum_probs=44.4

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEe-CCC-CCCCHHHHHHHHHhhCCCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFID-MEM-PVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d-~~~-~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ++||++|.....-..+..+|++.|+.+..+...+.....+.   .+|.+++- --. +. .--.+.+.|+......|++-
T Consensus         2 ~~iliid~~dsf~~~i~~~l~~~g~~~~v~~~~~~~~~~l~---~~d~iIi~gGp~~~~-~~~~~~~~i~~~~~~~PiLG   77 (190)
T PRK06895          2 TKLLIINNHDSFTFNLVDLIRKLGVPMQVVNVEDLDLDEVE---NFSHILISPGPDVPR-AYPQLFAMLERYHQHKSILG   77 (190)
T ss_pred             cEEEEEeCCCchHHHHHHHHHHcCCcEEEEECCccChhHhc---cCCEEEECCCCCChH-HhhHHHHHHHHhcCCCCEEE
Confidence            68999999999999999999999977665442111122222   36766542 111 11 11123455554334567765


Q ss_pred             Eec
Q 045936          105 VTS  107 (145)
Q Consensus       105 lt~  107 (145)
                      ++-
T Consensus        78 ICl   80 (190)
T PRK06895         78 VCL   80 (190)
T ss_pred             EcH
Confidence            543

>cd01568 QPRTase_NadC Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes

Probab=87.59  E-value=2.8  Score=30.42  Aligned_cols=94  Identities=15%  Similarity=0.140  Sum_probs=58.7

Q ss_pred             EEEEEeCCHHHHHHHHHH---HH-hcC--Ce-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCC
Q 045936           28 FALVVDDDPMIRRIHSMI---LK-SVG--FK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVES  100 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~---l~-~~g--~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~  100 (145)
                      .||+-+++......+...   ++ ..+  .. .+.+++.+++.+.+..  .+|.|.+|-.-+ ..--+.++.++.. +++
T Consensus       153 ~ilikdnHi~~~g~~~~~v~~~r~~~~~~~~I~vev~t~eea~~A~~~--gaD~I~ld~~~~-e~l~~~v~~i~~~-~~i  228 (269)
T cd01568         153 AVLIKDNHIAAAGGITEAVKRARAAAPFEKKIEVEVETLEEAEEALEA--GADIIMLDNMSP-EELKEAVKLLKGL-PRV  228 (269)
T ss_pred             eeeecHhHHHHhCCHHHHHHHHHHhCCCCCeEEEecCCHHHHHHHHHc--CCCEEEECCCCH-HHHHHHHHHhccC-CCe
Confidence            577777775555433222   22 233  22 3488999999998875  489999985433 1122233444433 445


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEEe
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      | +..++.-+.+........|++.+-
T Consensus       229 ~-i~asGGIt~~ni~~~a~~Gad~Is  253 (269)
T cd01568         229 L-LEASGGITLENIRAYAETGVDVIS  253 (269)
T ss_pred             E-EEEECCCCHHHHHHHHHcCCCEEE
Confidence            5 445666788889899999999874

It catalyses the reaction of quinolinic acid (QA) with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to produce nicotinic acid mononucleotide (NAMN), pyrophosphate and carbon dioxide. QPRTase functions as a homodimer with two active sites, each formed by the C-terminal region of one subunit and the N-terminal region of the other.

>TIGR01319 glmL_fam conserved hypothetical protein

Probab=87.49  E-value=12  Score=29.40  Aligned_cols=109  Identities=12%  Similarity=0.127  Sum_probs=70.6

Q ss_pred             CCCCCCcEEEEEeCCHHHHHH-HHHHHHhcCCe---EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCC---HHHHHHHH
Q 045936           21 VSKNRPYFALVVDDDPMIRRI-HSMILKSVGFK---VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMD---GIEATKAM   93 (145)
Q Consensus        21 ~~~~~~~~vlii~~~~~~~~~-l~~~l~~~g~~---v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~---g~~~~~~l   93 (145)
                      .+..+++++.++.=-+.+... -+..-..-|-.   +......+.-++.+.. .+||+||+-=--.+.+   ++...+.|
T Consensus        67 SSAaGGLkmvv~Glv~~~TaeAAk~AAlgAGA~V~~~~a~~l~~~~l~~I~~-~~PDIILLaGGtDGG~~e~~l~NA~~L  145 (463)
T TIGR01319        67 SSAAGGLAMAAIGLVPEITAEAAKRAAHGAGAKIANVYAYDLNNKDIEAIEE-SNLDIILFAGGTDGGEEECGIHNAKML  145 (463)
T ss_pred             cccCCChheEEEeccchhhHHHHHHHHhcCCcEEEEEEeecCCHHHHHHHhh-cCCCEEEEeCCcCCCchHHHHHHHHHH
Confidence            566678888888766655433 23333333533   4456677777888876 6899999875554443   35667778


Q ss_pred             HhhCCCCcEEEEecCCChHHHHHHHHh-cccEEeeCCC
Q 045936           94 RAMKVESKIVGVTSRNSETEREVFMQA-GLDLCYTKPL  130 (145)
Q Consensus        94 ~~~~~~~~ii~lt~~~~~~~~~~~~~~-g~~~~l~kP~  130 (145)
                      .+....+|||+-.+....+.+...+.. +...|++-++
T Consensus       146 a~~~~~~pIIyAGN~~a~~~V~~il~~~~~~~~i~eNV  183 (463)
T TIGR01319       146 AEHGLDCAIIVAGNKDIQDEVQEIFDHADIFYRITDNV  183 (463)
T ss_pred             HhcCCCCcEEEeCCHHHHHHHHHHHhcCCceEEecCCc
Confidence            777778998887777777777777663 3444454443

This small family includes, so far, an uncharacterized protein from E. coli O157:H7 and GlmL from Clostridium tetanomorphum and Clostridium cochlearium. GlmL is located between the genes for the two subunits, epsilon (GlmE) and sigma (GlmS), of the coenzyme-B12-dependent glutamate mutase (methylaspartate mutase), the first enzyme in a pathway of glutamate fermentation. Members shows significant sequence similarity to the hydantoinase branch of the hydantoinase/oxoprolinase family (pfam01968).

>PRK14974 cell division protein FtsY; Provisional

Probab=87.41  E-value=11  Score=28.50  Aligned_cols=101  Identities=15%  Similarity=0.152  Sum_probs=52.7

Q ss_pred             cEEEEEeCCH---HHHHHHHHHHHhcCCeEEEec---CH----HHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHh-
Q 045936           27 YFALVVDDDP---MIRRIHSMILKSVGFKVEVAE---NG----KEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRA-   95 (145)
Q Consensus        27 ~~vlii~~~~---~~~~~l~~~l~~~g~~v~~~~---~~----~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~-   95 (145)
                      .+|+++..+.   .....++.+....|..+....   +.    .++++.... ..+|+||+|..=-...-.+++..|+. 
T Consensus       169 ~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai~~~~~-~~~DvVLIDTaGr~~~~~~lm~eL~~i  247 (336)
T PRK14974        169 FSVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAIEHAKA-RGIDVVLIDTAGRMHTDANLMDELKKI  247 (336)
T ss_pred             CeEEEecCCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHHHHHHh-CCCCEEEEECCCccCCcHHHHHHHHHH
Confidence            4677777663   333445555666676554322   22    244445444 45899999974222122334444433 


Q ss_pred             ---hCCCCcEEEEecCCChHHHHHH--H--HhcccEE-eeC
Q 045936           96 ---MKVESKIVGVTSRNSETEREVF--M--QAGLDLC-YTK  128 (145)
Q Consensus        96 ---~~~~~~ii~lt~~~~~~~~~~~--~--~~g~~~~-l~k  128 (145)
                         ..|+..++++.+....+....+  +  ..+++.+ ++|
T Consensus       248 ~~~~~pd~~iLVl~a~~g~d~~~~a~~f~~~~~~~giIlTK  288 (336)
T PRK14974        248 VRVTKPDLVIFVGDALAGNDAVEQAREFNEAVGIDGVILTK  288 (336)
T ss_pred             HHhhCCceEEEeeccccchhHHHHHHHHHhcCCCCEEEEee
Confidence               3566667777665544444333  2  2466665 444

>PF01596 Methyltransf_3: O-methyltransferase; InterPro: IPR002935 Members of this family are O-methyltransferases

Probab=87.20  E-value=7.5  Score=27.05  Aligned_cols=77  Identities=16%  Similarity=0.236  Sum_probs=51.2

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCC--eEE-EecCHHHHHHHHhcC---CCccEEEEeCCCCCCCHHHHHHHHHhhCCCC
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGF--KVE-VAENGKEAVDLFRTG---AKFHIVFIDMEMPVMDGIEATKAMRAMKVES  100 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~--~v~-~~~~~~~~l~~l~~~---~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~  100 (145)
                      -+|.-+|-++.....-+..++..|+  ++. ...+..+.+..+...   ..||+|++|..  ...-...++.+...-...
T Consensus        71 g~i~tiE~~~~~~~~A~~~~~~ag~~~~I~~~~gda~~~l~~l~~~~~~~~fD~VFiDa~--K~~y~~y~~~~~~ll~~g  148 (205)
T PF01596_consen   71 GKITTIEIDPERAEIARENFRKAGLDDRIEVIEGDALEVLPELANDGEEGQFDFVFIDAD--KRNYLEYFEKALPLLRPG  148 (205)
T ss_dssp             SEEEEEESSHHHHHHHHHHHHHTTGGGGEEEEES-HHHHHHHHHHTTTTTSEEEEEEEST--GGGHHHHHHHHHHHEEEE
T ss_pred             ceEEEecCcHHHHHHHHHHHHhcCCCCcEEEEEeccHhhHHHHHhccCCCceeEEEEccc--ccchhhHHHHHhhhccCC
Confidence            4899999999999999999998885  344 567788877766542   26999999984  333444444444332223


Q ss_pred             cEEEE
Q 045936          101 KIVGV  105 (145)
Q Consensus       101 ~ii~l  105 (145)
                      .+|++
T Consensus       149 gvii~  153 (205)
T PF01596_consen  149 GVIIA  153 (205)
T ss_dssp             EEEEE
T ss_pred             eEEEE
Confidence            34444

The family includes also bacterial O-methyltransferases that may be involved in antibiotic production [].; GO: 0008171 O-methyltransferase activity; PDB: 1SUI_C 1SUS_D 3CBG_A 2GPY_B 3TR6_A 2AVD_A 3DUL_B 3DUW_B 2ZTH_A 1VID_A ....

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=87.13  E-value=9.5  Score=27.72  Aligned_cols=102  Identities=15%  Similarity=0.183  Sum_probs=51.9

Q ss_pred             CcEEEEEeCCHHH---HHHHHHHHHhcCCeEEEec---CHH----HHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHh
Q 045936           26 PYFALVVDDDPMI---RRIHSMILKSVGFKVEVAE---NGK----EAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRA   95 (145)
Q Consensus        26 ~~~vlii~~~~~~---~~~l~~~l~~~g~~v~~~~---~~~----~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~   95 (145)
                      +.+|++++-|...   .+.+..+....|..+....   +..    +++..... ..+|+||+|.-=-.......+..|+.
T Consensus       100 g~~V~li~~D~~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~l~~~~~-~~~D~ViIDT~G~~~~d~~~~~el~~  178 (272)
T TIGR00064       100 GKSVLLAAGDTFRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDAIQKAKA-RNIDVVLIDTAGRLQNKVNLMDELKK  178 (272)
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHHHHHHH-CCCCEEEEeCCCCCcchHHHHHHHHH
Confidence            3579999877532   3455666666675554322   222    23333333 45999999974222122233332222


Q ss_pred             ----hC------CCCcEEEEecCCChHHHHHHH----HhcccEE-eeC
Q 045936           96 ----MK------VESKIVGVTSRNSETEREVFM----QAGLDLC-YTK  128 (145)
Q Consensus        96 ----~~------~~~~ii~lt~~~~~~~~~~~~----~~g~~~~-l~k  128 (145)
                          ..      ++..++++......+....+.    ..+.+++ ++|
T Consensus       179 ~~~~~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~f~~~~~~~g~IlTK  226 (272)
T TIGR00064       179 IKRVIKKVDKDAPDEVLLVLDATTGQNALEQAKVFNEAVGLTGIILTK  226 (272)
T ss_pred             HHHHHhcccCCCCceEEEEEECCCCHHHHHHHHHHHhhCCCCEEEEEc
Confidence                12      555667776655544433332    2455554 444

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family

Probab=87.06  E-value=7.4  Score=26.41  Aligned_cols=71  Identities=18%  Similarity=0.179  Sum_probs=48.4

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhc--CCeEEEe----c--CHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSV--GFKVEVA----E--NGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM   96 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~--g~~v~~~----~--~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~   96 (145)
                      .+.+|.+++..+...+.+...|++.  |..+...    +  ..++.++.+.. ..+|++++.+..|.+.-  ++...+..
T Consensus        47 ~~~~vfllG~~~~v~~~~~~~l~~~yP~l~i~g~~g~f~~~~~~~i~~~I~~-s~~dil~VglG~PkQE~--~~~~~~~~  123 (177)
T TIGR00696        47 EKLPIFLYGGKPDVLQQLKVKLIKEYPKLKIVGAFGPLEPEERKAALAKIAR-SGAGIVFVGLGCPKQEI--WMRNHRHL  123 (177)
T ss_pred             cCCeEEEECCCHHHHHHHHHHHHHHCCCCEEEEECCCCChHHHHHHHHHHHH-cCCCEEEEEcCCcHhHH--HHHHhHHh
Confidence            3468999999999998888888654  4555432    1  22345667776 67999999998887763  34444444


Q ss_pred             CC
Q 045936           97 KV   98 (145)
Q Consensus        97 ~~   98 (145)
                      .+
T Consensus       124 ~~  125 (177)
T TIGR00696       124 KP  125 (177)
T ss_pred             CC
Confidence            33

The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.

>PLN02591 tryptophan synthase

Probab=86.98  E-value=3.7  Score=29.51  Aligned_cols=57  Identities=19%  Similarity=0.118  Sum_probs=37.8

Q ss_pred             CHHHHHHHHHhhCCCCcEEEEecCC------ChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936           85 DGIEATKAMRAMKVESKIVGVTSRN------SETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus        85 ~g~~~~~~l~~~~~~~~ii~lt~~~------~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      +.+++++.+|+. ...|+++++=..      -......+.++|+++++...+.+++........
T Consensus        65 ~~~~~~~~~r~~-~~~p~ilm~Y~N~i~~~G~~~F~~~~~~aGv~GviipDLP~ee~~~~~~~~  127 (250)
T PLN02591         65 SVISMLKEVAPQ-LSCPIVLFTYYNPILKRGIDKFMATIKEAGVHGLVVPDLPLEETEALRAEA  127 (250)
T ss_pred             HHHHHHHHHhcC-CCCCEEEEecccHHHHhHHHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHH
Confidence            356667777743 567876554322      234567788899999988888887776665544

>PLN02871 UDP-sulfoquinovose:DAG sulfoquinovosyltransferase

Probab=86.91  E-value=13  Score=28.97  Aligned_cols=106  Identities=16%  Similarity=0.112  Sum_probs=58.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .+++++++.+. ...++...+.........-+.++....+..   .|++++-... ..-|..+++.+.   ..+|+|...
T Consensus       291 ~~l~ivG~G~~-~~~l~~~~~~~~V~f~G~v~~~ev~~~~~~---aDv~V~pS~~-E~~g~~vlEAmA---~G~PVI~s~  362 (465)
T PLN02871        291 ARLAFVGDGPY-REELEKMFAGTPTVFTGMLQGDELSQAYAS---GDVFVMPSES-ETLGFVVLEAMA---SGVPVVAAR  362 (465)
T ss_pred             cEEEEEeCChH-HHHHHHHhccCCeEEeccCCHHHHHHHHHH---CCEEEECCcc-cccCcHHHHHHH---cCCCEEEcC
Confidence            45667776553 344444444322222223334555555543   5777754322 222444444433   356776443


Q ss_pred             cCCChHHHHHHHHh---cccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQA---GLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~---g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ....    .+....   |-.+++..|-+++++...+.++++
T Consensus       363 ~gg~----~eiv~~~~~~~~G~lv~~~d~~~la~~i~~ll~  399 (465)
T PLN02871        363 AGGI----PDIIPPDQEGKTGFLYTPGDVDDCVEKLETLLA  399 (465)
T ss_pred             CCCc----HhhhhcCCCCCceEEeCCCCHHHHHHHHHHHHh
Confidence            3222    233344   788999999999999999987763

>PF14606 Lipase_GDSL_3: GDSL-like Lipase/Acylhydrolase family; PDB: 3SKV_B

Probab=86.91  E-value=1.9  Score=29.38  Aligned_cols=59  Identities=17%  Similarity=0.169  Sum_probs=34.4

Q ss_pred             hcCCeEEE------ecCHHHHHHHHhcCCCccEEEEeCCCC--CC----CHHHHHHHHHhhCCCCcEEEEec
Q 045936           48 SVGFKVEV------AENGKEAVDLFRTGAKFHIVFIDMEMP--VM----DGIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        48 ~~g~~v~~------~~~~~~~l~~l~~~~~~dlil~d~~~~--~~----~g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      ..|+.++.      +.-..+..+.+.. .++|++++|....  ..    ....+++.||+.+|.+||++++.
T Consensus        31 ~l~~~~iNLGfsG~~~le~~~a~~ia~-~~a~~~~ld~~~N~~~~~~~~~~~~fv~~iR~~hP~tPIllv~~  101 (178)
T PF14606_consen   31 RLGLDVINLGFSGNGKLEPEVADLIAE-IDADLIVLDCGPNMSPEEFRERLDGFVKTIREAHPDTPILLVSP  101 (178)
T ss_dssp             HHT-EEEEEE-TCCCS--HHHHHHHHH-S--SEEEEEESHHCCTTTHHHHHHHHHHHHHTT-SSS-EEEEE-
T ss_pred             HcCCCeEeeeecCccccCHHHHHHHhc-CCCCEEEEEeecCCCHHHHHHHHHHHHHHHHHhCCCCCEEEEec
Confidence            44666552      2233445566666 4679999997443  11    14568899999999999999974

>PF04321 RmlD_sub_bind: RmlD substrate binding domain; InterPro: IPR005913 dTDP-4-dehydrorhamnose reductase (1

Probab=86.90  E-value=2  Score=31.28  Aligned_cols=52  Identities=15%  Similarity=0.182  Sum_probs=38.4

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEe-------cCHHHHHHHHhcCCCccEEEEeC
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVA-------ENGKEAVDLFRTGAKFHIVFIDM   79 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~-------~~~~~~l~~l~~~~~~dlil~d~   79 (145)
                      |+|||++.+..+...+...|...|+.+...       .+.++..+.+.. ..||+||--.
T Consensus         1 MriLI~GasG~lG~~l~~~l~~~~~~v~~~~r~~~dl~d~~~~~~~~~~-~~pd~Vin~a   59 (286)
T PF04321_consen    1 MRILITGASGFLGSALARALKERGYEVIATSRSDLDLTDPEAVAKLLEA-FKPDVVINCA   59 (286)
T ss_dssp             EEEEEETTTSHHHHHHHHHHTTTSEEEEEESTTCS-TTSHHHHHHHHHH-H--SEEEE--
T ss_pred             CEEEEECCCCHHHHHHHHHHhhCCCEEEEeCchhcCCCCHHHHHHHHHH-hCCCeEeccc
Confidence            689999999999999999999888887754       255666666665 4699887554

1.1.133 from EC) catalyzes the last of 4 steps in making dTDP-rhamnose, a precursor of LPS molecules such as core antigen and O-antigen. dTDP-6-deoxy-L-mannose + NADP+ = dTDP-4-dehydro-6-deoxy-L-mannose + NADPH ; GO: 0008831 dTDP-4-dehydrorhamnose reductase activity, 0045226 extracellular polysaccharide biosynthetic process; PDB: 2YDX_D 2YDY_A 3SC6_C 1VL0_B 2GGS_A 1KBZ_A 1KC3_A 1KC1_A 1N2S_A.

>PRK14331 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=86.69  E-value=8.4  Score=29.97  Aligned_cols=95  Identities=9%  Similarity=0.027  Sum_probs=51.7

Q ss_pred             CHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCC----HHHHH---HHHHhhCCCCcEEEEec
Q 045936           35 DPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMD----GIEAT---KAMRAMKVESKIVGVTS  107 (145)
Q Consensus        35 ~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~----g~~~~---~~l~~~~~~~~ii~lt~  107 (145)
                      |....+.+...|...||..+..            ....|+++++.---...    ..+.+   +.+++..|..+|++ ++
T Consensus        13 N~~ds~~~~~~l~~~G~~~~~~------------~~~aDviiiNTC~v~~~a~~k~~~~i~~~~~~k~~~p~~~ivv-~G   79 (437)
T PRK14331         13 NFNDSEKIKGILQTLGYEPADD------------WEEADLILVNTCTIREKPDQKVLSHLGEYKKIKEKNPNALIGV-CG   79 (437)
T ss_pred             cHHHHHHHHHHHHHCcCEECCC------------cccCCEEEEeCcceecHHHHHHHHHHHHHHHHHHhCCCCEEEE-Ec
Confidence            4455677788888888876421            13479999986443222    33444   44555566665554 44


Q ss_pred             CCChHHHHHHH-HhcccEEeeCCCCHHHHHHHHHHH
Q 045936          108 RNSETEREVFM-QAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       108 ~~~~~~~~~~~-~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      ..........+ ....-+++..+-....+...++..
T Consensus        80 c~a~~~~e~~~~~~p~vD~vv~~~~~~~i~~l~~~~  115 (437)
T PRK14331         80 CLAQRAGYEIVQKAPFIDIVFGTFNIHHLPELLEQA  115 (437)
T ss_pred             chhcCChHHHHhcCCCCcEEECCCCHHHHHHHHHHH
Confidence            32222222222 232335566677777766665543

>KOG2550 consensus IMP dehydrogenase/GMP reductase [Nucleotide transport and metabolism]

Probab=86.31  E-value=4.6  Score=31.24  Aligned_cols=66  Identities=20%  Similarity=0.250  Sum_probs=44.7

Q ss_pred             CHHHHHHHHhcCCCccEEEEeCCCCCC-CHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEE
Q 045936           58 NGKEAVDLFRTGAKFHIVFIDMEMPVM-DGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLC  125 (145)
Q Consensus        58 ~~~~~l~~l~~~~~~dlil~d~~~~~~-~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~  125 (145)
                      +.++-+..+.. ...|+|++|...... --++.++++++.+|+..||. .+.-..+....+..+|||+.
T Consensus       251 ~dK~rl~ll~~-aGvdvviLDSSqGnS~~qiemik~iK~~yP~l~Via-GNVVT~~qa~nLI~aGaDgL  317 (503)
T KOG2550|consen  251 DDKERLDLLVQ-AGVDVVILDSSQGNSIYQLEMIKYIKETYPDLQIIA-GNVVTKEQAANLIAAGADGL  317 (503)
T ss_pred             chhHHHHHhhh-cCCcEEEEecCCCcchhHHHHHHHHHhhCCCceeec-cceeeHHHHHHHHHccCcee
Confidence            34445666655 458999999765432 35679999999999988872 22223345667788899874

>PTZ00314 inosine-5'-monophosphate dehydrogenase; Provisional

Probab=86.16  E-value=6.3  Score=31.31  Aligned_cols=55  Identities=13%  Similarity=0.145  Sum_probs=41.4

Q ss_pred             CccEEEEeCCCCCCC-HHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           71 KFHIVFIDMEMPVMD-GIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        71 ~~dlil~d~~~~~~~-g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      ..|+|.+|....... .++.+++|++.+|..+|++ .+..+.+....+.++|++.+.
T Consensus       253 g~d~i~id~a~G~s~~~~~~i~~ik~~~~~~~v~a-G~V~t~~~a~~~~~aGad~I~  308 (495)
T PTZ00314        253 GVDVLVVDSSQGNSIYQIDMIKKLKSNYPHVDIIA-GNVVTADQAKNLIDAGADGLR  308 (495)
T ss_pred             CCCEEEEecCCCCchHHHHHHHHHHhhCCCceEEE-CCcCCHHHHHHHHHcCCCEEE
Confidence            489999998544332 4689999999877766554 466677788889999999874

>COG0742 N6-adenine-specific methylase [DNA replication, recombination, and repair]

Probab=85.79  E-value=5.5  Score=27.38  Aligned_cols=56  Identities=21%  Similarity=0.339  Sum_probs=40.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCC--eEE-EecCHHHHHHHHhcCCCccEEEEeCCCC
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGF--KVE-VAENGKEAVDLFRTGAKFHIVFIDMEMP   82 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~--~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~   82 (145)
                      .+++++|.+......++.-++..+.  .+. ...+...++..+....++|+|++|-=..
T Consensus        67 ~~~~~vE~~~~a~~~l~~N~~~l~~~~~~~~~~~da~~~L~~~~~~~~FDlVflDPPy~  125 (187)
T COG0742          67 ARVVFVEKDRKAVKILKENLKALGLEGEARVLRNDALRALKQLGTREPFDLVFLDPPYA  125 (187)
T ss_pred             ceEEEEecCHHHHHHHHHHHHHhCCccceEEEeecHHHHHHhcCCCCcccEEEeCCCCc
Confidence            3799999999999999998887772  222 3445556666665533599999995433

>TIGR00089 RNA modification enzyme, MiaB family

Probab=85.73  E-value=10  Score=29.30  Aligned_cols=94  Identities=15%  Similarity=0.202  Sum_probs=56.0

Q ss_pred             CHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeC---CCC-CCCHHHHHHHHHhhCCCCcEEEEecCCC
Q 045936           35 DPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDM---EMP-VMDGIEATKAMRAMKVESKIVGVTSRNS  110 (145)
Q Consensus        35 ~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~---~~~-~~~g~~~~~~l~~~~~~~~ii~lt~~~~  110 (145)
                      |....+.+...|...||.++..            ...+|+|+++.   ... ....++.++.+++..+..+.+++++...
T Consensus        12 N~~ds~~~~~~l~~~g~~~~~~------------~~~aD~v~intC~v~~~a~~~~~~~i~~~~~~~~~~~~vvvgGc~a   79 (429)
T TIGR00089        12 NEADSEIMAGLLKEAGYEVTDD------------PEEADVIIINTCAVREKAEQKVRSRLGELAKLKKKNAKIVVAGCLA   79 (429)
T ss_pred             cHHHHHHHHHHHHHCcCEECCC------------cccCCEEEEecceeechHHHHHHHHHHHHHHhCcCCCEEEEECccc
Confidence            4455677888888889876531            13589999873   222 2245677777776665543466666654


Q ss_pred             hHHHHHHH-H-hcccEEeeCCCCHHHHHHHHHH
Q 045936          111 ETEREVFM-Q-AGLDLCYTKPLTMAKIVPLLEE  141 (145)
Q Consensus       111 ~~~~~~~~-~-~g~~~~l~kP~~~~~l~~~l~~  141 (145)
                      ......++ . .+++. +..+-....+...+..
T Consensus        80 ~~~~ee~~~~~~~vd~-vvg~~~~~~~~~~l~~  111 (429)
T TIGR00089        80 QREGEELLKRIPEVDI-VLGPQNKERIPEAIES  111 (429)
T ss_pred             ccCHHHHHhhCCCCCE-EECCCCHHHHHHHHHH
Confidence            44444433 2 35665 4566666666665554

This subfamily is aparrently a part of a larger superfamily of enzymes utilizing both a 4Fe4S cluster and S-adenosyl methionine (SAM) to initiate radical reactions. MiaB acts on a particular isoprenylated Adenine base of certain tRNAs causing thiolation at an aromatic carbon, and probably also transferring a methyl grouyp from SAM to the thiol. The particular substrate of the three other clades is unknown but may be very closely related.

>COG3010 NanE Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]

Probab=85.68  E-value=10  Score=26.62  Aligned_cols=68  Identities=12%  Similarity=0.237  Sum_probs=53.4

Q ss_pred             EEecCHHHHHHHHhcCCCccEEEEeCCC---------CCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccE
Q 045936           54 EVAENGKEAVDLFRTGAKFHIVFIDMEM---------PVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDL  124 (145)
Q Consensus        54 ~~~~~~~~~l~~l~~~~~~dlil~d~~~---------~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~  124 (145)
                      .-+++.+|++...+.  .+|+|  ...|         +..+-+++++.+.+  ..+++|.=.....++....+++.|++.
T Consensus       132 AD~St~ee~l~a~~~--G~D~I--GTTLsGYT~~~~~~~~pDf~lvk~l~~--~~~~vIAEGr~~tP~~Ak~a~~~Ga~a  205 (229)
T COG3010         132 ADCSTFEEGLNAHKL--GFDII--GTTLSGYTGYTEKPTEPDFQLVKQLSD--AGCRVIAEGRYNTPEQAKKAIEIGADA  205 (229)
T ss_pred             eccCCHHHHHHHHHc--CCcEE--ecccccccCCCCCCCCCcHHHHHHHHh--CCCeEEeeCCCCCHHHHHHHHHhCCeE
Confidence            378899999988775  37766  3333         33456888888877  678898888899999999999999999


Q ss_pred             Eee
Q 045936          125 CYT  127 (145)
Q Consensus       125 ~l~  127 (145)
                      ...
T Consensus       206 VvV  208 (229)
T COG3010         206 VVV  208 (229)
T ss_pred             EEE
Confidence            753

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=85.44  E-value=16  Score=28.61  Aligned_cols=99  Identities=11%  Similarity=0.089  Sum_probs=53.7

Q ss_pred             cEEEEEeCCHHHHH---HHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCC--HHHHHHHHHh----h-
Q 045936           27 YFALVVDDDPMIRR---IHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMD--GIEATKAMRA----M-   96 (145)
Q Consensus        27 ~~vlii~~~~~~~~---~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~--g~~~~~~l~~----~-   96 (145)
                      .+|.+++-|..-..   .+..+....|..+..+.+..++...+.. ..+|+||+|.  ++..  ..+.++.+.+    . 
T Consensus       253 ~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~~~~~l~~~l~~-~~~D~VLIDT--aGr~~rd~~~l~eL~~~~~~~~  329 (432)
T PRK12724        253 KSVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVKDIKKFKETLAR-DGSELILIDT--AGYSHRNLEQLERMQSFYSCFG  329 (432)
T ss_pred             CeEEEecccchhhhHHHHHHHHHHhcCCCeeehHHHHHHHHHHHh-CCCCEEEEeC--CCCCccCHHHHHHHHHHHHhhc
Confidence            36888887763322   2333334456666555566677776665 5699999996  2221  1122233322    2 


Q ss_pred             --CCCCcEEEEecCCChHHHHHHHH----hcccEE-eeC
Q 045936           97 --KVESKIVGVTSRNSETEREVFMQ----AGLDLC-YTK  128 (145)
Q Consensus        97 --~~~~~ii~lt~~~~~~~~~~~~~----~g~~~~-l~k  128 (145)
                        .+.-.++++++.........+..    .|.+.+ ++|
T Consensus       330 ~~~~~e~~LVLsAt~~~~~~~~~~~~f~~~~~~glIlTK  368 (432)
T PRK12724        330 EKDSVENLLVLSSTSSYHHTLTVLKAYESLNYRRILLTK  368 (432)
T ss_pred             CCCCCeEEEEEeCCCCHHHHHHHHHHhcCCCCCEEEEEc
Confidence              13345677777766655444432    455554 454

>PRK07455 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=85.32  E-value=9.6  Score=26.04  Aligned_cols=92  Identities=16%  Similarity=0.103  Sum_probs=53.1

Q ss_pred             HHHHHhcC-CeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhc
Q 045936           43 SMILKSVG-FKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAG  121 (145)
Q Consensus        43 ~~~l~~~g-~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g  121 (145)
                      ...|...+ +.+....+.++++..++.--.-.+=++.+.+.+.+..++++.+++..+.+.+= .......+....+++.|
T Consensus         6 ~~~l~~~~~~~v~r~~~~~~~~~~~~~~~~~Gv~~vqlr~k~~~~~e~~~~~~~~~~~~~~g-~gtvl~~d~~~~A~~~g   84 (187)
T PRK07455          6 LAQLQQHRAIAVIRAPDLELGLQMAEAVAAGGMRLIEITWNSDQPAELISQLREKLPECIIG-TGTILTLEDLEEAIAAG   84 (187)
T ss_pred             HHHHHhCCEEEEEEcCCHHHHHHHHHHHHHCCCCEEEEeCCCCCHHHHHHHHHHhCCCcEEe-EEEEEcHHHHHHHHHcC
Confidence            34455555 34667778888776554311111234445556667888888888776644221 11222335677788899


Q ss_pred             ccEEeeCCCCHHHH
Q 045936          122 LDLCYTKPLTMAKI  135 (145)
Q Consensus       122 ~~~~l~kP~~~~~l  135 (145)
                      ++.++..-++.+.+
T Consensus        85 Adgv~~p~~~~~~~   98 (187)
T PRK07455         85 AQFCFTPHVDPELI   98 (187)
T ss_pred             CCEEECCCCCHHHH
Confidence            98876655554443

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=84.97  E-value=10  Score=26.09  Aligned_cols=91  Identities=18%  Similarity=0.211  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHhcCCeEEEec---CHH----HHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHh----hCCCCcEEEEe
Q 045936           38 IRRIHSMILKSVGFKVEVAE---NGK----EAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRA----MKVESKIVGVT  106 (145)
Q Consensus        38 ~~~~l~~~l~~~g~~v~~~~---~~~----~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~----~~~~~~ii~lt  106 (145)
                      ..+.++.+-+..|..+..+.   +..    ++++.... ..+|+||+|..=-...-.+.+..+++    ..+.-.+++++
T Consensus        44 a~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~~-~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVls  122 (196)
T PF00448_consen   44 AVEQLKTYAEILGVPFYVARTESDPAEIAREALEKFRK-KGYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLS  122 (196)
T ss_dssp             HHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHHH-TTSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEE
T ss_pred             HHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHhh-cCCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEe
Confidence            44667777788887776554   222    34444444 45999999973212222333333333    34555667777


Q ss_pred             cCCChHHHHHHH---H-hcccEE-eeCC
Q 045936          107 SRNSETEREVFM---Q-AGLDLC-YTKP  129 (145)
Q Consensus       107 ~~~~~~~~~~~~---~-~g~~~~-l~kP  129 (145)
                      +....+....+.   + .+.+.+ ++|=
T Consensus       123 a~~~~~~~~~~~~~~~~~~~~~lIlTKl  150 (196)
T PF00448_consen  123 ATMGQEDLEQALAFYEAFGIDGLILTKL  150 (196)
T ss_dssp             GGGGGHHHHHHHHHHHHSSTCEEEEEST
T ss_pred             cccChHHHHHHHHHhhcccCceEEEEee
Confidence            766666544432   3 246654 5663

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>PRK08072 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=84.97  E-value=13  Score=27.23  Aligned_cols=92  Identities=9%  Similarity=0.118  Sum_probs=60.2

Q ss_pred             EEEEEeCCHHHHHHHHHHHH----hcC--CeE-EEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCC
Q 045936           28 FALVVDDDPMIRRIHSMILK----SVG--FKV-EVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVES  100 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~----~~g--~~v-~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~  100 (145)
                      .|||-|++-.....+...+.    ..|  ..+ +++++.+++.+....  .+|.|.+|-     -+.+.++++.+.....
T Consensus       160 ~vlikdnHi~~~g~~~~~v~~aR~~~~~~~~Igvsv~tleea~~A~~~--gaDyI~lD~-----~~~e~l~~~~~~~~~~  232 (277)
T PRK08072        160 GVMIKDNHIAFCGSITKAVTSVREKLGHMVKIEVETETEEQVREAVAA--GADIIMFDN-----RTPDEIREFVKLVPSA  232 (277)
T ss_pred             eEEEchhHHHhhCCHHHHHHHHHHhCCCCCEEEEEeCCHHHHHHHHHc--CCCEEEECC-----CCHHHHHHHHHhcCCC
Confidence            58888888666654444442    234  223 488999999888764  489999872     3456566665543211


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEEe
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      .++..++.-+.+........|++.+-
T Consensus       233 i~i~AiGGIt~~ni~~~a~~Gvd~IA  258 (277)
T PRK08072        233 IVTEASGGITLENLPAYGGTGVDYIS  258 (277)
T ss_pred             ceEEEECCCCHHHHHHHHHcCCCEEE
Confidence            22345566788888899999999864

>COG0157 NadC Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]

Probab=84.95  E-value=8.2  Score=28.24  Aligned_cols=69  Identities=20%  Similarity=0.156  Sum_probs=52.0

Q ss_pred             ccEEEEeCCCCCC--CHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHH
Q 045936           72 FHIVFIDMEMPVM--DGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEE  141 (145)
Q Consensus        72 ~dlil~d~~~~~~--~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~  141 (145)
                      .|.+++--|.-..  +--+.++..|+..|..+.|-+ ...+.+...+++++|+|-.+.-+++++++..+++.
T Consensus       158 sDavliKDNHia~~g~i~~Av~~aR~~~~~~~kIEV-Evesle~~~eAl~agaDiImLDNm~~e~~~~av~~  228 (280)
T COG0157         158 SDAVLIKDNHIAAAGSITEAVRRARAAAPFTKKIEV-EVESLEEAEEALEAGADIIMLDNMSPEELKEAVKL  228 (280)
T ss_pred             cceEEehhhHHHHhccHHHHHHHHHHhCCCCceEEE-EcCCHHHHHHHHHcCCCEEEecCCCHHHHHHHHHH
Confidence            5777666554332  334578888887776664433 55677889999999999999999999999999876

>COG3836 HpcH 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]

Probab=84.82  E-value=12  Score=26.79  Aligned_cols=98  Identities=11%  Similarity=0.075  Sum_probs=63.6

Q ss_pred             HHHHHHHHhcCCeEEEecCHHH--HHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh--CCCCcEEEEecCCChHHHH
Q 045936           40 RIHSMILKSVGFKVEVAENGKE--AVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM--KVESKIVGVTSRNSETERE  115 (145)
Q Consensus        40 ~~l~~~l~~~g~~v~~~~~~~~--~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~--~~~~~ii~lt~~~~~~~~~  115 (145)
                      ..+++-|+.....+-.+....+  ..+.+.. ..||-+++|......+.-.++..|+.-  ++..|++ =....++..+.
T Consensus         6 n~fK~~L~~g~~qiGlw~~l~~p~~~Ei~A~-aGfDwl~iD~EHapnd~~sl~~qL~a~~~~~~~pvV-R~p~g~~~~Ik   83 (255)
T COG3836           6 NSFKAALAAGRPQIGLWLSLPDPYMAEILAT-AGFDWLLIDGEHAPNDLQSLLHQLQAVAAYASPPVV-RPPVGDPVMIK   83 (255)
T ss_pred             chHHHHHhCCCceEEeeecCCcHHHHHHHHh-cCCCEEEecccccCccHHHHHHHHHHhhccCCCCee-eCCCCCHHHHH
Confidence            3456666543344443333322  3444444 569999999999999988899999884  3344554 33456777899


Q ss_pred             HHHHhcccEEeeCCCCH-HHHHHHH
Q 045936          116 VFMQAGLDLCYTKPLTM-AKIVPLL  139 (145)
Q Consensus       116 ~~~~~g~~~~l~kP~~~-~~l~~~l  139 (145)
                      ++++.|+..+|..-++. ++-+..+
T Consensus        84 q~LD~GAqtlliPmV~s~eqAr~~V  108 (255)
T COG3836          84 QLLDIGAQTLLIPMVDTAEQARQAV  108 (255)
T ss_pred             HHHccccceeeeeccCCHHHHHHHH
Confidence            99999999987654443 4443333

>cd00564 TMP_TenI Thiamine monophosphate synthase (TMP synthase)/TenI

Probab=84.82  E-value=9.4  Score=25.53  Aligned_cols=68  Identities=18%  Similarity=0.152  Sum_probs=46.6

Q ss_pred             EecCHHHHHHHHhcCCCccEEEEeCCCCC--------CCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           55 VAENGKEAVDLFRTGAKFHIVFIDMEMPV--------MDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        55 ~~~~~~~~l~~l~~~~~~dlil~d~~~~~--------~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      .+++.+++.+....  .+|.++++.-.+.        ..+.+.++.+++. ..+|+++..+- +.+....+...|++.+.
T Consensus       101 ~~~t~~~~~~~~~~--g~d~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~pv~a~GGi-~~~~i~~~~~~Ga~~i~  176 (196)
T cd00564         101 STHSLEEALRAEEL--GADYVGFGPVFPTPTKPGAGPPLGLELLREIAEL-VEIPVVAIGGI-TPENAAEVLAAGADGVA  176 (196)
T ss_pred             eCCCHHHHHHHhhc--CCCEEEECCccCCCCCCCCCCCCCHHHHHHHHHh-CCCCEEEECCC-CHHHHHHHHHcCCCEEE
Confidence            45667777666554  4899987644332        2456777877765 46788777655 56778888999999874

TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-hydroxyethyl) thiazole phosphate to yield thiamine phosphate. TenI is a enzymatically inactive regulatory protein involved in the regulation of several extracellular enzymes. This superfamily also contains other enzymatically inactive proteins with unknown functions.

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=84.71  E-value=8.3  Score=25.74  Aligned_cols=44  Identities=23%  Similarity=0.346  Sum_probs=28.5

Q ss_pred             CCccEEEEeCCCC-----CCCHHHHHHHHHhhCCCCcEEEEecCCChHHH
Q 045936           70 AKFHIVFIDMEMP-----VMDGIEATKAMRAMKVESKIVGVTSRNSETER  114 (145)
Q Consensus        70 ~~~dlil~d~~~~-----~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~  114 (145)
                      ..+|++++|--..     -.+.-++++.|+++++.+-+| +|++..+...
T Consensus        94 ~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evI-lTGr~~p~~l  142 (159)
T cd00561          94 GEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELV-LTGRNAPKEL  142 (159)
T ss_pred             CCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEE-EECCCCCHHH
Confidence            4799999995332     234557888888777666665 5555554433

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>COG2200 Rtn c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms]

Probab=84.14  E-value=13  Score=26.64  Aligned_cols=103  Identities=16%  Similarity=0.207  Sum_probs=68.5

Q ss_pred             HHHHHHHHHHhcCCeEE--EecCHHHHHHHHhcCCCccEEEEeCCCC-----CCCHHHHHHHHHhhCC-CCcEEEEecCC
Q 045936           38 IRRIHSMILKSVGFKVE--VAENGKEAVDLFRTGAKFHIVFIDMEMP-----VMDGIEATKAMRAMKV-ESKIVGVTSRN  109 (145)
Q Consensus        38 ~~~~l~~~l~~~g~~v~--~~~~~~~~l~~l~~~~~~dlil~d~~~~-----~~~g~~~~~~l~~~~~-~~~ii~lt~~~  109 (145)
                      ....+...|+..|+.+.  -+.++-..+..+.. -+||.|=+|-..-     +.....+++.|-.... ...-++.-+-.
T Consensus       137 ~~~~~l~~L~~~G~~ialDDFGtG~ssl~~L~~-l~~d~iKID~~fi~~i~~~~~~~~iv~~iv~la~~l~~~vvaEGVE  215 (256)
T COG2200         137 TALALLRQLRELGVRIALDDFGTGYSSLSYLKR-LPPDILKIDRSFVRDLETDARDQAIVRAIVALAHKLGLTVVAEGVE  215 (256)
T ss_pred             HHHHHHHHHHHCCCeEEEECCCCCHHHHHHHhh-CCCCeEEECHHHHhhcccCcchHHHHHHHHHHHHHCCCEEEEeecC
Confidence            34455666778898765  67788888888887 6899998886442     2233445665544322 22233455566


Q ss_pred             ChHHHHHHHHhcccE----EeeCCCCHHHHHHHHHH
Q 045936          110 SETEREVFMQAGLDL----CYTKPLTMAKIVPLLEE  141 (145)
Q Consensus       110 ~~~~~~~~~~~g~~~----~l~kP~~~~~l~~~l~~  141 (145)
                      ..+....+.+.|++.    |+.||.+.+.+...+..
T Consensus       216 t~~ql~~L~~~G~~~~QGylf~~P~~~~~~~~~~~~  251 (256)
T COG2200         216 TEEQLDLLRELGCDYLQGYLFSRPLPADALDALLSS  251 (256)
T ss_pred             CHHHHHHHHHcCCCeEeeccccCCCCHHHHHHHHhh
Confidence            777788888999874    47889998888776643

>TIGR03128 RuMP_HxlA 3-hexulose-6-phosphate synthase

Probab=84.02  E-value=9.9  Score=26.04  Aligned_cols=6  Identities=33%  Similarity=0.739  Sum_probs=2.6

Q ss_pred             EEEeCC
Q 045936           75 VFIDME   80 (145)
Q Consensus        75 il~d~~   80 (145)
                      +++|++
T Consensus        55 i~~d~k   60 (206)
T TIGR03128        55 VLADLK   60 (206)
T ss_pred             EEEEEe
Confidence            444443

at the cost of also yielding formaldehyde. These latter species tend usually have a formaldehyde-activating enzyme to attach formaldehyde to the C1 carrier tetrahydromethanopterin. In these species, the enzyme is viewed as a lyase rather than a synthase and is called D-arabino 3-hexulose 6-phosphate formaldehyde lyase. Note that there is some overlap in specificity with the Escherichia coli enzyme 3-keto-L-gulonate 6-phosphate decarboxylase.

>cd04723 HisA_HisF Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF)

Probab=83.82  E-value=13  Score=26.30  Aligned_cols=67  Identities=10%  Similarity=0.134  Sum_probs=49.6

Q ss_pred             CHHHHHHHHhcCCCccEEEEeCCCCCC---CHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           58 NGKEAVDLFRTGAKFHIVFIDMEMPVM---DGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        58 ~~~~~l~~l~~~~~~dlil~d~~~~~~---~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      +..+.++.+.. ..-.+++.|+...+.   ..+++++.+.+. ...|+++-.+-.+.+....++..|++..+
T Consensus       147 ~~~~~~~~~~~-~~~~li~~di~~~G~~~g~~~~~~~~i~~~-~~ipvi~~GGi~s~edi~~l~~~G~~~vi  216 (233)
T cd04723         147 GPEELLRRLAK-WPEELIVLDIDRVGSGQGPDLELLERLAAR-ADIPVIAAGGVRSVEDLELLKKLGASGAL  216 (233)
T ss_pred             CHHHHHHHHHH-hCCeEEEEEcCccccCCCcCHHHHHHHHHh-cCCCEEEeCCCCCHHHHHHHHHcCCCEEE
Confidence            36667777776 333588999876543   235677777665 46888888888899999999999999876

The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-phospho-ribosyl)-4-imidazolecarboxamide). In bacteria and archaea, ProFAR isomerase is encoded by the HisA gene. The Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to imidazole glycerol phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR). This conversion involves two tightly coupled reactions in distinct active sites of IGPS. The two catalytic domains can be fused, like in fungi and pl

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=83.55  E-value=22  Score=28.79  Aligned_cols=87  Identities=15%  Similarity=0.149  Sum_probs=45.0

Q ss_pred             cEEEEEeCCHHHH---HHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCC-CCC--HHHHHHHHHhhCCCC
Q 045936           27 YFALVVDDDPMIR---RIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMP-VMD--GIEATKAMRAMKVES  100 (145)
Q Consensus        27 ~~vlii~~~~~~~---~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~-~~~--g~~~~~~l~~~~~~~  100 (145)
                      .+|.+++-|....   ..+..+-...|+.+....+..+....+..-..+|+||+|.-=- ..+  ..+.+..|+......
T Consensus       381 kkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l~~~DLVLIDTaG~s~~D~~l~eeL~~L~aa~~~a  460 (559)
T PRK12727        381 RDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERLRDYKLVLIDTAGMGQRDRALAAQLNWLRAARQVT  460 (559)
T ss_pred             CceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHhccCCEEEecCCCcchhhHHHHHHHHHHHHhhcCC
Confidence            4677777654322   2233333445665666666666655554434589999997321 111  112233444433444


Q ss_pred             cEEEEecCCChHH
Q 045936          101 KIVGVTSRNSETE  113 (145)
Q Consensus       101 ~ii~lt~~~~~~~  113 (145)
                      .++++........
T Consensus       461 ~lLVLpAtss~~D  473 (559)
T PRK12727        461 SLLVLPANAHFSD  473 (559)
T ss_pred             cEEEEECCCChhH
Confidence            5666655554433

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=83.55  E-value=7.5  Score=26.81  Aligned_cols=49  Identities=20%  Similarity=0.269  Sum_probs=30.9

Q ss_pred             HHHhcCCCccEEEEeCCCC-----CCCHHHHHHHHHhhCCCCcEEEEecCCChHHH
Q 045936           64 DLFRTGAKFHIVFIDMEMP-----VMDGIEATKAMRAMKVESKIVGVTSRNSETER  114 (145)
Q Consensus        64 ~~l~~~~~~dlil~d~~~~-----~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~  114 (145)
                      +.+.+ ..+|++++|=-..     =.+.-++++.|++..+.+-+| +|++..+...
T Consensus       109 ~~l~~-~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evV-lTGR~~p~~L  162 (191)
T PRK05986        109 RMLAD-ESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVV-ITGRGAPREL  162 (191)
T ss_pred             HHHhC-CCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEE-EECCCCCHHH
Confidence            33444 4799999995332     235667888887766666665 5565554443

>PRK08857 para-aminobenzoate synthase component II; Provisional

Probab=83.50  E-value=4.5  Score=27.66  Aligned_cols=48  Identities=17%  Similarity=0.151  Sum_probs=32.7

Q ss_pred             EEEEeCCHHHHHHHHHHHHhcCCeEEEecCH-HHHHHHHhcCCCccEEEEe
Q 045936           29 ALVVDDDPMIRRIHSMILKSVGFKVEVAENG-KEAVDLFRTGAKFHIVFID   78 (145)
Q Consensus        29 vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~-~~~l~~l~~~~~~dlil~d   78 (145)
                      ||++|+.......+..+|++.|+.+...... .+. ..+.. ..||.+++.
T Consensus         2 il~id~~dsft~~~~~~l~~~g~~~~~~~~~~~~~-~~~~~-~~~~~iils   50 (193)
T PRK08857          2 LLMIDNYDSFTYNLYQYFCELGAQVKVVRNDEIDI-DGIEA-LNPTHLVIS   50 (193)
T ss_pred             EEEEECCCCcHHHHHHHHHHCCCcEEEEECCCCCH-HHHhh-CCCCEEEEe
Confidence            8999999999999999999999876654422 122 22233 347766554

>COG0621 MiaB 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]

Probab=83.44  E-value=16  Score=28.62  Aligned_cols=97  Identities=15%  Similarity=0.160  Sum_probs=59.5

Q ss_pred             CCHHHHHHHHHHHHhcCCe-EEEecCHHHHHHHHhcCCCccEEEEeCCCC----CCCHHHHHHHHHhhCCCCcEEEEecC
Q 045936           34 DDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMP----VMDGIEATKAMRAMKVESKIVGVTSR  108 (145)
Q Consensus        34 ~~~~~~~~l~~~l~~~g~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~----~~~g~~~~~~l~~~~~~~~ii~lt~~  108 (145)
                      -|....+.+...|...||. .+            ......|++|+++=.-    ....+..+..+++..|+..|+ +++.
T Consensus        14 ~N~~DSe~m~~~L~~~G~~~~~------------~~~~eADvviiNTC~V~~~a~~k~~~~i~~~~~~~p~~~ii-VtGC   80 (437)
T COG0621          14 MNLYDSERMAGLLEAAGYEELV------------EDPEEADVVIINTCAVREKAEQKVRSAIGELKKLKPDAKII-VTGC   80 (437)
T ss_pred             ccHHHHHHHHHHHHHcCCcccc------------CCcccCCEEEEecCeeeehHHHHHHHHHHHHHHhCCCCEEE-EeCC
Confidence            3455667788888888874 21            1123579999986322    223455666666666555444 5555


Q ss_pred             CChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          109 NSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       109 ~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      .............-.+.+.-|-+...+...|++..
T Consensus        81 ~aq~~~~i~~~~p~vd~v~G~~~~~~~~~~i~~~~  115 (437)
T COG0621          81 LAQAEEEILERAPEVDIVLGPQNKERLPEAIEKAL  115 (437)
T ss_pred             ccccCHHHHhhCCCceEEECCccHHHHHHHHHHHh
Confidence            44444333444554566778999999988887764

>PF02581 TMP-TENI: Thiamine monophosphate synthase/TENI; InterPro: IPR003733 Thiamine monophosphate synthase (TMP) (2

Probab=83.38  E-value=11  Score=25.33  Aligned_cols=69  Identities=13%  Similarity=0.118  Sum_probs=47.7

Q ss_pred             EEecCHHHHHHHHhcCCCccEEEEeCCCCCC-------CHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           54 EVAENGKEAVDLFRTGAKFHIVFIDMEMPVM-------DGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        54 ~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~-------~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      ..+++.+++.+..+.  .+|.+++.--.+..       -|++.++++.+..+ .|++++.+- +++....+.+.|++++-
T Consensus       100 ~S~h~~~e~~~a~~~--g~dYv~~gpvf~T~sk~~~~~~g~~~l~~~~~~~~-~pv~AlGGI-~~~~i~~l~~~Ga~gvA  175 (180)
T PF02581_consen  100 ASCHSLEEAREAEEL--GADYVFLGPVFPTSSKPGAPPLGLDGLREIARASP-IPVYALGGI-TPENIPELREAGADGVA  175 (180)
T ss_dssp             EEESSHHHHHHHHHC--TTSEEEEETSS--SSSSS-TTCHHHHHHHHHHHTS-SCEEEESS---TTTHHHHHHTT-SEEE
T ss_pred             eecCcHHHHHHhhhc--CCCEEEECCccCCCCCccccccCHHHHHHHHHhCC-CCEEEEcCC-CHHHHHHHHHcCCCEEE
Confidence            478999997666554  48999988654432       28888888877654 888888665 55567788899998863

5.1.3 from EC) catalyzes the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-hydroxyethyl)thiazole phosphate to yield thiamine phosphate in the thiamine biosynthesis pathway []. TENI, a protein from Bacillus subtilis that regulates the production of several extracellular enzymes by reducing alkaline protease production belongs to this group [].; GO: 0004789 thiamine-phosphate diphosphorylase activity, 0009228 thiamine biosynthetic process; PDB: 3NL5_A 3NL2_A 3NM1_A 3NM3_C 3NL6_B 3NL3_A 3CEU_A 3O63_B 3QH2_C 1YAD_D ....

>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain

Probab=83.21  E-value=9.4  Score=25.19  Aligned_cols=84  Identities=14%  Similarity=0.170  Sum_probs=47.4

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEE--------------EecCHHHHHHHHhcC---CCccEEEEeC-CCCCCCH
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVE--------------VAENGKEAVDLFRTG---AKFHIVFIDM-EMPVMDG   86 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~--------------~~~~~~~~l~~l~~~---~~~dlil~d~-~~~~~~g   86 (145)
                      ++.++||+.-.....+.+..+|+..++.+.              .+-+.......+..+   ..||+||+|- +..+-..
T Consensus        32 ~~~rvLvL~PTRvva~em~~aL~~~~~~~~t~~~~~~~~g~~~i~vMc~at~~~~~~~p~~~~~yd~II~DEcH~~Dp~s  111 (148)
T PF07652_consen   32 RRLRVLVLAPTRVVAEEMYEALKGLPVRFHTNARMRTHFGSSIIDVMCHATYGHFLLNPCRLKNYDVIIMDECHFTDPTS  111 (148)
T ss_dssp             TT--EEEEESSHHHHHHHHHHTTTSSEEEESTTSS----SSSSEEEEEHHHHHHHHHTSSCTTS-SEEEECTTT--SHHH
T ss_pred             ccCeEEEecccHHHHHHHHHHHhcCCcccCceeeeccccCCCcccccccHHHHHHhcCcccccCccEEEEeccccCCHHH
Confidence            346899999999999999999986653322              011222233333322   3699999994 4344445


Q ss_pred             HHHHHHHHhhCC--CCcEEEEecC
Q 045936           87 IEATKAMRAMKV--ESKIVGVTSR  108 (145)
Q Consensus        87 ~~~~~~l~~~~~--~~~ii~lt~~  108 (145)
                      +-+...++....  ...+|.+|+.
T Consensus       112 IA~rg~l~~~~~~g~~~~i~mTAT  135 (148)
T PF07652_consen  112 IAARGYLRELAESGEAKVIFMTAT  135 (148)
T ss_dssp             HHHHHHHHHHHHTTS-EEEEEESS
T ss_pred             HhhheeHHHhhhccCeeEEEEeCC
Confidence            555556655432  3567777654

The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....

>CHL00101 trpG anthranilate synthase component 2

Probab=83.10  E-value=6.8  Score=26.72  Aligned_cols=49  Identities=14%  Similarity=0.165  Sum_probs=34.0

Q ss_pred             EEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEe
Q 045936           29 ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFID   78 (145)
Q Consensus        29 vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d   78 (145)
                      ||++|........+...|+..|+.+.........+..+.. ..||.+++.
T Consensus         2 iliid~~dsft~~l~~~l~~~g~~~~v~~~~~~~~~~~~~-~~~dgiiis   50 (190)
T CHL00101          2 ILIIDNYDSFTYNLVQSLGELNSDVLVCRNDEIDLSKIKN-LNIRHIIIS   50 (190)
T ss_pred             EEEEECCCchHHHHHHHHHhcCCCEEEEECCCCCHHHHhh-CCCCEEEEC
Confidence            8999999999999999999999877655533211222232 348877754

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=83.00  E-value=7.8  Score=26.28  Aligned_cols=44  Identities=16%  Similarity=0.286  Sum_probs=28.6

Q ss_pred             CCccEEEEeCCC-----CCCCHHHHHHHHHhhCCCCcEEEEecCCChHHH
Q 045936           70 AKFHIVFIDMEM-----PVMDGIEATKAMRAMKVESKIVGVTSRNSETER  114 (145)
Q Consensus        70 ~~~dlil~d~~~-----~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~  114 (145)
                      ..+|++++|--.     .=.+.-++++.|+..++++-+| +|++..+...
T Consensus        96 ~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evV-lTGR~~p~~l  144 (173)
T TIGR00708        96 PELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVI-ITGRGCPQDL  144 (173)
T ss_pred             CCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEE-EECCCCCHHH
Confidence            479999999533     2235567888887776666665 5555544433

Alternate name: corrinoid adenosyltransferase.

>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]

Probab=82.92  E-value=10  Score=26.19  Aligned_cols=53  Identities=11%  Similarity=0.132  Sum_probs=31.9

Q ss_pred             HHHHhcCCCccEEEEeCCC-----CCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHH
Q 045936           63 VDLFRTGAKFHIVFIDMEM-----PVMDGIEATKAMRAMKVESKIVGVTSRNSETEREV  116 (145)
Q Consensus        63 l~~l~~~~~~dlil~d~~~-----~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~  116 (145)
                      .+.+.+ ..+|+||+|--.     .=.+--++++.|+..+++.-||+......++..+.
T Consensus       115 ~~~l~~-~~ydlviLDEl~~al~~g~l~~eeV~~~l~~kP~~~~vIiTGr~ap~~lie~  172 (198)
T COG2109         115 KEALAD-GKYDLVILDELNYALRYGLLPLEEVVALLKARPEHTHVIITGRGAPPELIEL  172 (198)
T ss_pred             HHHHhC-CCCCEEEEehhhHHHHcCCCCHHHHHHHHhcCCCCcEEEEECCCCCHHHHHH
Confidence            334444 469999999422     23455678888887666666665544444444443

>PF00977 His_biosynth: Histidine biosynthesis protein; InterPro: IPR006062 Histidine is formed by several complex and distinct biochemical reactions catalysed by eight enzymes

Probab=82.72  E-value=14  Score=26.00  Aligned_cols=69  Identities=13%  Similarity=0.117  Sum_probs=49.2

Q ss_pred             CHHHHHHHHhcCCCccEEEEeCCCCCC---CHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEee
Q 045936           58 NGKEAVDLFRTGAKFHIVFIDMEMPVM---DGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus        58 ~~~~~l~~l~~~~~~dlil~d~~~~~~---~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      +..+.++.+.+...-.+++.|+.-.+.   ..+++++.+++.. ..|+++-..-.+.+....+...|+++.+.
T Consensus       148 ~~~~~~~~~~~~g~~~ii~tdi~~dGt~~G~d~~~~~~l~~~~-~~~viasGGv~~~~Dl~~l~~~G~~gviv  219 (229)
T PF00977_consen  148 DLEEFAKRLEELGAGEIILTDIDRDGTMQGPDLELLKQLAEAV-NIPVIASGGVRSLEDLRELKKAGIDGVIV  219 (229)
T ss_dssp             EHHHHHHHHHHTT-SEEEEEETTTTTTSSS--HHHHHHHHHHH-SSEEEEESS--SHHHHHHHHHTTECEEEE
T ss_pred             CHHHHHHHHHhcCCcEEEEeeccccCCcCCCCHHHHHHHHHHc-CCCEEEecCCCCHHHHHHHHHCCCcEEEE
Confidence            567777766664445699999877643   3456777887766 78898888888889999999999988764

Proteins involved in steps 4 and 6 of the histidine biosynthesis pathway are contained in one family. These enzymes are called His6 and His7 in eukaryotes and HisA and HisF in prokaryotes. HisA is a phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase (5.3.1.16 from EC), involved in the fourth step of histidine biosynthesis. The bacterial HisF protein is a cyclase which catalyzes the cyclization reaction that produces D-erythro-imidazole glycerol phosphate during the sixth step of histidine biosynthesis. The yeast His7 protein is a bifunctional protein which catalyzes an amido-transferase reaction that generates imidazole-glycerol phosphate and 5-aminoimidazol-4-carboxamide. The latter is the ribonucleotide used for purine biosynthesis. The enzyme also catalyzes the cyclization reaction that produces D-erythro-imidazole glycerol phosphate, and is involved in the fifth and sixth steps in histidine biosynthesis.; GO: 0000105 histidine biosynthetic process; PDB: 2VEP_A 2X30_A 1VZW_A 2WJZ_A 2LLE_A 2A0N_A 1THF_D 1GPW_E 1VH7_A 1KA9_F ....

>COG2022 ThiG Uncharacterized enzyme of thiazole biosynthesis [Nucleotide transport and metabolism]

Probab=82.53  E-value=15  Score=26.24  Aligned_cols=81  Identities=11%  Similarity=0.112  Sum_probs=52.5

Q ss_pred             HHHHhcCCeEEEecCHHHH-HHHHhcCCCccEEEEeCCCCCCC--H---HHHHHHHHhhCCCCcEEEEecCCChHHHHHH
Q 045936           44 MILKSVGFKVEVAENGKEA-VDLFRTGAKFHIVFIDMEMPVMD--G---IEATKAMRAMKVESKIVGVTSRNSETEREVF  117 (145)
Q Consensus        44 ~~l~~~g~~v~~~~~~~~~-l~~l~~~~~~dlil~d~~~~~~~--g---~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~  117 (145)
                      .+|-..||.|..+.+.+=. -+.+++-.  -..++-+-.|=.+  |   ...++.|.++. +.|+|+=++-..++....+
T Consensus       124 e~Lv~eGF~VlPY~~dD~v~arrLee~G--caavMPl~aPIGSg~G~~n~~~l~iiie~a-~VPviVDAGiG~pSdAa~a  200 (262)
T COG2022         124 EQLVKEGFVVLPYTTDDPVLARRLEEAG--CAAVMPLGAPIGSGLGLQNPYNLEIIIEEA-DVPVIVDAGIGTPSDAAQA  200 (262)
T ss_pred             HHHHhCCCEEeeccCCCHHHHHHHHhcC--ceEeccccccccCCcCcCCHHHHHHHHHhC-CCCEEEeCCCCChhHHHHH
Confidence            3455679998744433322 22333312  2345555554333  2   34667777766 8999988999999999999


Q ss_pred             HHhcccEEee
Q 045936          118 MQAGLDLCYT  127 (145)
Q Consensus       118 ~~~g~~~~l~  127 (145)
                      ++.|+|..|.
T Consensus       201 MElG~DaVL~  210 (262)
T COG2022         201 MELGADAVLL  210 (262)
T ss_pred             Hhcccceeeh
Confidence            9999999873

>PRK04148 hypothetical protein; Provisional

Probab=82.43  E-value=4.6  Score=26.17  Aligned_cols=95  Identities=18%  Similarity=0.150  Sum_probs=60.6

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ++.+++.++--  ....+...|.+.|+.|......+++++.++. ...+++..|+.-|..+-++          +.. ++
T Consensus        16 ~~~kileIG~G--fG~~vA~~L~~~G~~ViaIDi~~~aV~~a~~-~~~~~v~dDlf~p~~~~y~----------~a~-li   81 (134)
T PRK04148         16 KNKKIVELGIG--FYFKVAKKLKESGFDVIVIDINEKAVEKAKK-LGLNAFVDDLFNPNLEIYK----------NAK-LI   81 (134)
T ss_pred             cCCEEEEEEec--CCHHHHHHHHHCCCEEEEEECCHHHHHHHHH-hCCeEEECcCCCCCHHHHh----------cCC-EE
Confidence            34678888876  3344566777889999999888888888876 4578888888777654221          111 23


Q ss_pred             EecCCChHH----HHHHHHhcccEEeeCCCCHHH
Q 045936          105 VTSRNSETE----REVFMQAGLDLCYTKPLTMAK  134 (145)
Q Consensus       105 lt~~~~~~~----~~~~~~~g~~~~l~kP~~~~~  134 (145)
                      ++-+..++.    ..-+.+.|++-++ +|++-+.
T Consensus        82 ysirpp~el~~~~~~la~~~~~~~~i-~~l~~e~  114 (134)
T PRK04148         82 YSIRPPRDLQPFILELAKKINVPLII-KPLSGEE  114 (134)
T ss_pred             EEeCCCHHHHHHHHHHHHHcCCCEEE-EcCCCCC
Confidence            444444443    3335566776644 5766543

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=82.35  E-value=22  Score=27.82  Aligned_cols=103  Identities=14%  Similarity=0.158  Sum_probs=54.1

Q ss_pred             CcEEEEEeCCHHH---HHHHHHHHHhcCCeEEEecCHHHHHHHH---hcCCCccEEEEeCCCCCCCHHH----HHHHHHh
Q 045936           26 PYFALVVDDDPMI---RRIHSMILKSVGFKVEVAENGKEAVDLF---RTGAKFHIVFIDMEMPVMDGIE----ATKAMRA   95 (145)
Q Consensus        26 ~~~vlii~~~~~~---~~~l~~~l~~~g~~v~~~~~~~~~l~~l---~~~~~~dlil~d~~~~~~~g~~----~~~~l~~   95 (145)
                      +.+|.+++-|+..   .+.+..+-...|+.+..+.+..+..+.+   .....+|+||+|.-=-.....+    +.+.++.
T Consensus       269 GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~~DvVLIDTaGRs~kd~~lm~EL~~~lk~  348 (436)
T PRK11889        269 KKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILIDTAGKNYRASETVEEMIETMGQ  348 (436)
T ss_pred             CCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccCCCEEEEeCccccCcCHHHHHHHHHHHhh
Confidence            3478888877653   3344555556677777666666655444   3212489999996321111122    3334443


Q ss_pred             hCCCCcEEEEecCCChHH-H---HHHHHhcccEE-eeC
Q 045936           96 MKVESKIVGVTSRNSETE-R---EVFMQAGLDLC-YTK  128 (145)
Q Consensus        96 ~~~~~~ii~lt~~~~~~~-~---~~~~~~g~~~~-l~k  128 (145)
                      ..|+-.++++++...... .   ......|.+.+ ++|
T Consensus       349 ~~PdevlLVLsATtk~~d~~~i~~~F~~~~idglI~TK  386 (436)
T PRK11889        349 VEPDYICLTLSASMKSKDMIEIITNFKDIHIDGIVFTK  386 (436)
T ss_pred             cCCCeEEEEECCccChHHHHHHHHHhcCCCCCEEEEEc
Confidence            445545566655433322 2   22234466665 455

>CHL00200 trpA tryptophan synthase alpha subunit; Provisional

Probab=82.31  E-value=11  Score=27.25  Aligned_cols=57  Identities=14%  Similarity=0.019  Sum_probs=36.4

Q ss_pred             CHHHHHHHHHhhCCCCcEEEEecC------CChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936           85 DGIEATKAMRAMKVESKIVGVTSR------NSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus        85 ~g~~~~~~l~~~~~~~~ii~lt~~------~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      +.+++++.+|+. +.+|+++++=.      .-......+.++|+++++..-+.+++....++.+
T Consensus        78 ~~~~~~~~~r~~-~~~p~vlm~Y~N~i~~~G~e~F~~~~~~aGvdgviipDLP~ee~~~~~~~~  140 (263)
T CHL00200         78 KILSILSEVNGE-IKAPIVIFTYYNPVLHYGINKFIKKISQAGVKGLIIPDLPYEESDYLISVC  140 (263)
T ss_pred             HHHHHHHHHhcC-CCCCEEEEecccHHHHhCHHHHHHHHHHcCCeEEEecCCCHHHHHHHHHHH
Confidence            356677777643 56777655433      2234577788888888888777777665554443

>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated

Probab=82.26  E-value=9.4  Score=26.03  Aligned_cols=44  Identities=9%  Similarity=0.178  Sum_probs=28.7

Q ss_pred             CCccEEEEeCCCC-----CCCHHHHHHHHHhhCCCCcEEEEecCCChHHH
Q 045936           70 AKFHIVFIDMEMP-----VMDGIEATKAMRAMKVESKIVGVTSRNSETER  114 (145)
Q Consensus        70 ~~~dlil~d~~~~-----~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~  114 (145)
                      ..+|++++|=-+.     =.+--++++.|+...+++-+| +|++..+...
T Consensus       114 ~~~dlvVLDEi~~Al~~gli~~eeVl~~L~~rp~~~evI-LTGR~~p~~L  162 (178)
T PRK07414        114 GRYSLVVLDELSLAIQFGLIPETEVLEFLEKRPSHVDVI-LTGPEMPESL  162 (178)
T ss_pred             CCCCEEEEehhHHHHHCCCccHHHHHHHHHhCCCCCEEE-EECCCCCHHH
Confidence            4799999995332     235667888888776666665 5565554433

>COG5012 Predicted cobalamin binding protein [General function prediction only]

Probab=81.89  E-value=13  Score=26.40  Aligned_cols=87  Identities=17%  Similarity=0.213  Sum_probs=59.2

Q ss_pred             HHHHHHHHHhcCCeEEE---ecCHHHHHHHHhcCCCccEEEEeCCCCC-CCH-HHHHHHHHhhCCCCcEEEEecCCChHH
Q 045936           39 RRIHSMILKSVGFKVEV---AENGKEAVDLFRTGAKFHIVFIDMEMPV-MDG-IEATKAMRAMKVESKIVGVTSRNSETE  113 (145)
Q Consensus        39 ~~~l~~~l~~~g~~v~~---~~~~~~~l~~l~~~~~~dlil~d~~~~~-~~g-~~~~~~l~~~~~~~~ii~lt~~~~~~~  113 (145)
                      ...+...|+..||++.-   =-..++.+....+ ..||+|-....|.. +.+ .++++.|++....-++++......- .
T Consensus       121 k~iV~~ml~~aGfevidLG~dvP~e~fve~a~e-~k~d~v~~SalMTttm~~~~~viE~L~eeGiRd~v~v~vGGApv-t  198 (227)
T COG5012         121 KNIVATMLEAAGFEVIDLGRDVPVEEFVEKAKE-LKPDLVSMSALMTTTMIGMKDVIELLKEEGIRDKVIVMVGGAPV-T  198 (227)
T ss_pred             HHHHHHHHHhCCcEEEecCCCCCHHHHHHHHHH-cCCcEEechHHHHHHHHHHHHHHHHHHHcCCccCeEEeecCccc-c
Confidence            35667788889999872   2256778888777 67999988876643 333 4688999998877777766444322 2


Q ss_pred             HHHHHHhcccEEee
Q 045936          114 REVFMQAGLDLCYT  127 (145)
Q Consensus       114 ~~~~~~~g~~~~l~  127 (145)
                      ..-+-..|+|.|-.
T Consensus       199 q~~a~~iGAD~~~~  212 (227)
T COG5012         199 QDWADKIGADAYAE  212 (227)
T ss_pred             HHHHHHhCCCccCc
Confidence            22345678888754

>PRK14333 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=81.89  E-value=19  Score=28.18  Aligned_cols=95  Identities=14%  Similarity=0.126  Sum_probs=54.6

Q ss_pred             CCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCC----CCCHHHHHHHH---HhhCCCCcEEEEe
Q 045936           34 DDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMP----VMDGIEATKAM---RAMKVESKIVGVT  106 (145)
Q Consensus        34 ~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~----~~~g~~~~~~l---~~~~~~~~ii~lt  106 (145)
                      -|....+.+...|...||.++..            ....|++|++.=-=    ....++.+..+   ++..|..+ |+++
T Consensus        18 ~N~~ds~~~~~~l~~~G~~~~~~------------~~~ADiiiiNTC~v~~~a~~~~~~~i~~~~~~k~~~p~~~-vvv~   84 (448)
T PRK14333         18 MNKADSERMAGILEDMGYQWAED------------ELQADLVLYNTCTIRDNAEQKVYSYLGRQAKRKHKNPDLT-LVVA   84 (448)
T ss_pred             CcHHHHHHHHHHHHHCcCEECCC------------cccCCEEEEEeeeeeehHHHHHHHHHHHHHHHHhcCCCCE-EEEE
Confidence            45566678888999899877531            13479999885221    12233444333   33445554 4455


Q ss_pred             cCCChHHHHHHHH-h-cccEEeeCCCCHHHHHHHHHHH
Q 045936          107 SRNSETEREVFMQ-A-GLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       107 ~~~~~~~~~~~~~-~-g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      +..........++ . ++| ++..+-....+...+..+
T Consensus        85 Gc~a~~~~~~~~~~~p~vD-~v~g~~~~~~~~~ll~~~  121 (448)
T PRK14333         85 GCVAQQEGESLLRRVPELD-LVMGPQHANRLEDLLEQV  121 (448)
T ss_pred             CccCccCHHHHHhcCCCCC-EEECCCCHHHHHHHHHHH
Confidence            5554444555553 3 454 455777777776666544

>PRK00536 speE spermidine synthase; Provisional

Probab=81.88  E-value=17  Score=26.38  Aligned_cols=23  Identities=22%  Similarity=0.450  Sum_probs=14.4

Q ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHhh
Q 045936           70 AKFHIVFIDMEMPVMDGIEATKAMRAM   96 (145)
Q Consensus        70 ~~~dlil~d~~~~~~~g~~~~~~l~~~   96 (145)
                      ..||+||+|.. ++   .++.+.+++.
T Consensus       138 ~~fDVIIvDs~-~~---~~fy~~~~~~  160 (262)
T PRK00536        138 KKYDLIICLQE-PD---IHKIDGLKRM  160 (262)
T ss_pred             CcCCEEEEcCC-CC---hHHHHHHHHh
Confidence            46999999964 22   3455555554

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=81.81  E-value=22  Score=27.44  Aligned_cols=103  Identities=15%  Similarity=0.145  Sum_probs=57.7

Q ss_pred             CcEEEEEeCCHHHH---HHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCC-CCCCHH---HHHHHHHhhCC
Q 045936           26 PYFALVVDDDPMIR---RIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEM-PVMDGI---EATKAMRAMKV   98 (145)
Q Consensus        26 ~~~vlii~~~~~~~---~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~-~~~~g~---~~~~~l~~~~~   98 (145)
                      +.+|.++.-|....   ..++.+....|+.+....+..+....+.....+|+||+|.-= ...+..   ++.+.+....+
T Consensus       206 g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~  285 (388)
T PRK12723        206 SLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQSKDFDLVLVDTIGKSPKDFMKLAEMKELLNACGR  285 (388)
T ss_pred             CCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHhCCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCC
Confidence            45787777765432   234444555677777777776665554443568999999732 122332   23333343333


Q ss_pred             C-CcEEEEecCCChHHHHHHHH----hcccEE-eeC
Q 045936           99 E-SKIVGVTSRNSETEREVFMQ----AGLDLC-YTK  128 (145)
Q Consensus        99 ~-~~ii~lt~~~~~~~~~~~~~----~g~~~~-l~k  128 (145)
                      . -.++++++..........+.    .|.+.+ ++|
T Consensus       286 ~~e~~LVlsat~~~~~~~~~~~~~~~~~~~~~I~TK  321 (388)
T PRK12723        286 DAEFHLAVSSTTKTSDVKEIFHQFSPFSYKTVIFTK  321 (388)
T ss_pred             CCeEEEEEcCCCCHHHHHHHHHHhcCCCCCEEEEEe
Confidence            3 45677777766665554432    345565 455

>PRK14098 glycogen synthase; Provisional

Probab=81.67  E-value=24  Score=27.91  Aligned_cols=110  Identities=9%  Similarity=-0.061  Sum_probs=58.5

Q ss_pred             cEEEEEeCCH-HHHHHHHHHHHhcCCeEE--EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           27 YFALVVDDDP-MIRRIHSMILKSVGFKVE--VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        27 ~~vlii~~~~-~~~~~l~~~l~~~g~~v~--~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      .+++++++.+ .....++.+.++.+-.+.  ..-+.+++...+ .  ..|++++-... ..-|+..+..++   ..+|+|
T Consensus       337 ~~lvivG~G~~~~~~~l~~l~~~~~~~V~~~g~~~~~~~~~~~-a--~aDi~l~PS~~-E~~Gl~~lEAma---~G~ppV  409 (489)
T PRK14098        337 IQLVICGSGDKEYEKRFQDFAEEHPEQVSVQTEFTDAFFHLAI-A--GLDMLLMPGKI-ESCGMLQMFAMS---YGTIPV  409 (489)
T ss_pred             cEEEEEeCCCHHHHHHHHHHHHHCCCCEEEEEecCHHHHHHHH-H--hCCEEEeCCCC-CCchHHHHHHHh---CCCCeE
Confidence            4667777643 345566666655543333  222333333333 3  36888865432 223554444433   345555


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +.......+........+..+++..|.+++.|..+|.+++
T Consensus       410 v~~~GGl~d~v~~~~~~~~~G~l~~~~d~~~la~ai~~~l  449 (489)
T PRK14098        410 AYAGGGIVETIEEVSEDKGSGFIFHDYTPEALVAKLGEAL  449 (489)
T ss_pred             EecCCCCceeeecCCCCCCceeEeCCCCHHHHHHHHHHHH
Confidence            4433222222222222366789999999999999887653

>PF03060 NMO: Nitronate monooxygenase; InterPro: IPR004136 2-Nitropropane dioxygenase (1

Probab=81.20  E-value=20  Score=26.75  Aligned_cols=82  Identities=12%  Similarity=0.055  Sum_probs=53.4

Q ss_pred             HHHHHHhcCCeEE-EecCHHHHHHHHhcCCCccEEEEe-CCCCC-----C-CHHHHHHHHHhhCCCCcEEEEecCCChHH
Q 045936           42 HSMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFID-MEMPV-----M-DGIEATKAMRAMKVESKIVGVTSRNSETE  113 (145)
Q Consensus        42 l~~~l~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d-~~~~~-----~-~g~~~~~~l~~~~~~~~ii~lt~~~~~~~  113 (145)
                      +...++..|..+. .+++.+++...++.  .+|.|++- ....+     . +.+.++..++... .+|||.-..-.+...
T Consensus       128 ~i~~l~~~gi~v~~~v~s~~~A~~a~~~--G~D~iv~qG~eAGGH~g~~~~~~~~L~~~v~~~~-~iPViaAGGI~dg~~  204 (330)
T PF03060_consen  128 VIERLHAAGIKVIPQVTSVREARKAAKA--GADAIVAQGPEAGGHRGFEVGSTFSLLPQVRDAV-DIPVIAAGGIADGRG  204 (330)
T ss_dssp             HHHHHHHTT-EEEEEESSHHHHHHHHHT--T-SEEEEE-TTSSEE---SSG-HHHHHHHHHHH--SS-EEEESS--SHHH
T ss_pred             HHHHHHHcCCccccccCCHHHHHHhhhc--CCCEEEEeccccCCCCCccccceeeHHHHHhhhc-CCcEEEecCcCCHHH
Confidence            4455777787655 89999999988776  38977765 33322     1 2456677776654 488887777778888


Q ss_pred             HHHHHHhcccEEe
Q 045936          114 REVFMQAGLDLCY  126 (145)
Q Consensus       114 ~~~~~~~g~~~~l  126 (145)
                      +..++..||++..
T Consensus       205 iaaal~lGA~gV~  217 (330)
T PF03060_consen  205 IAAALALGADGVQ  217 (330)
T ss_dssp             HHHHHHCT-SEEE
T ss_pred             HHHHHHcCCCEee
Confidence            9999999999975

13.11.32 from EC) catalyses the oxidation of nitroalkanes into their corresponding carbonyl compounds and nitrite using eithr FAD or FMN as a cofactor []. This entry also includes fatty acid synthase subunit beta (2.3.1.86 from EC), which catalyses the formation of long- chain fatty acids from acetyl-CoA, malonyl-CoA and NADPH. The beta subunit contains domains for: [acyl-carrier protein] acetyltransferase and malonyltransferase, S-acyl fatty acid synthase thioesterase, enoyl-[acyl-carrier protein] reductase, and 3-hydroxypalmitoyl-[acyl-carrier protein] dehydratase. ; GO: 0018580 nitronate monooxygenase activity, 0055114 oxidation-reduction process; PDB: 2Z6I_B 2Z6J_B 3BW2_A 3BW3_A 3BW4_A 2GJL_A 2GJN_A 3BO9_A.

>PRK13125 trpA tryptophan synthase subunit alpha; Provisional

Probab=81.17  E-value=17  Score=25.86  Aligned_cols=90  Identities=13%  Similarity=0.027  Sum_probs=52.7

Q ss_pred             HHHHHHHHHHHhcCCeEE-Eec--CHHHHHHHHhcCCCccEEEEeCCCCCC------CHHHHHHHHHhhCCCCcEEEEec
Q 045936           37 MIRRIHSMILKSVGFKVE-VAE--NGKEAVDLFRTGAKFHIVFIDMEMPVM------DGIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        37 ~~~~~l~~~l~~~g~~v~-~~~--~~~~~l~~l~~~~~~dlil~d~~~~~~------~g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      .....+...+++.|..+. .++  +..+.++.+.. ....++++. ..|+.      +..+.++.+|+..+..|+++=.+
T Consensus       116 ~~~~~~~~~~~~~Gl~~~~~v~p~T~~e~l~~~~~-~~~~~l~ms-v~~~~g~~~~~~~~~~i~~lr~~~~~~~i~v~gG  193 (244)
T PRK13125        116 DDLEKYVEIIKNKGLKPVFFTSPKFPDLLIHRLSK-LSPLFIYYG-LRPATGVPLPVSVERNIKRVRNLVGNKYLVVGFG  193 (244)
T ss_pred             HHHHHHHHHHHHcCCCEEEEECCCCCHHHHHHHHH-hCCCEEEEE-eCCCCCCCchHHHHHHHHHHHHhcCCCCEEEeCC
Confidence            344566777788887643 333  22344444443 345666663 33331      22456777777655556543333


Q ss_pred             CCChHHHHHHHHhcccEEeeC
Q 045936          108 RNSETEREVFMQAGLDLCYTK  128 (145)
Q Consensus       108 ~~~~~~~~~~~~~g~~~~l~k  128 (145)
                      -.+.+....+...|+|.++.-
T Consensus       194 I~~~e~i~~~~~~gaD~vvvG  214 (244)
T PRK13125        194 LDSPEDARDALSAGADGVVVG  214 (244)
T ss_pred             cCCHHHHHHHHHcCCCEEEEC
Confidence            337788888889999998754

>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]

Probab=81.10  E-value=14  Score=26.89  Aligned_cols=50  Identities=28%  Similarity=0.206  Sum_probs=29.3

Q ss_pred             CHHHHHHHHHhhCCCCcEEEEecCC------ChHHHHHHHHhcccEEeeCCCCHHH
Q 045936           85 DGIEATKAMRAMKVESKIVGVTSRN------SETEREVFMQAGLDLCYTKPLTMAK  134 (145)
Q Consensus        85 ~g~~~~~~l~~~~~~~~ii~lt~~~------~~~~~~~~~~~g~~~~l~kP~~~~~  134 (145)
                      +.+++++.+|+.++.+|+++++=..      -......+.+.|+++++..-+.+++
T Consensus        80 ~~lel~~~~r~~~~~~Pivlm~Y~Npi~~~Gie~F~~~~~~~GvdGlivpDLP~ee  135 (265)
T COG0159          80 DTLELVEEIRAKGVKVPIVLMTYYNPIFNYGIEKFLRRAKEAGVDGLLVPDLPPEE  135 (265)
T ss_pred             HHHHHHHHHHhcCCCCCEEEEEeccHHHHhhHHHHHHHHHHcCCCEEEeCCCChHH
Confidence            3456666666666677776664322      2233556677777777765444443

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=81.03  E-value=33  Score=29.01  Aligned_cols=102  Identities=13%  Similarity=0.094  Sum_probs=57.6

Q ss_pred             cEEEEEeCCHHH---HHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCC-CCCC--HHHHHHHHHh-hCCC
Q 045936           27 YFALVVDDDPMI---RRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEM-PVMD--GIEATKAMRA-MKVE   99 (145)
Q Consensus        27 ~~vlii~~~~~~---~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~-~~~~--g~~~~~~l~~-~~~~   99 (145)
                      .+|.++.-|...   .+.++.+-+..|..+..+.+.++..+.+..-..+|+||+|.-= ...+  -.+.+..+.. ..|.
T Consensus       216 kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~~~~D~VLIDTAGRs~~d~~l~eel~~l~~~~~p~  295 (767)
T PRK14723        216 DQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAALGDKHLVLIDTVGMSQRDRNVSEQIAMLCGVGRPV  295 (767)
T ss_pred             CeEEEecCcccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHHhcCCCEEEEeCCCCCccCHHHHHHHHHHhccCCCC
Confidence            467777766543   2445555566676666666777776666654567999999732 1122  2334444433 3455


Q ss_pred             CcEEEEecCCChHHHH---HHHHh----cccEE-eeC
Q 045936          100 SKIVGVTSRNSETERE---VFMQA----GLDLC-YTK  128 (145)
Q Consensus       100 ~~ii~lt~~~~~~~~~---~~~~~----g~~~~-l~k  128 (145)
                      -.+++++.........   ..+..    +.+++ ++|
T Consensus       296 e~~LVLsAt~~~~~l~~i~~~f~~~~~~~i~glIlTK  332 (767)
T PRK14723        296 RRLLLLNAASHGDTLNEVVHAYRHGAGEDVDGCIITK  332 (767)
T ss_pred             eEEEEECCCCcHHHHHHHHHHHhhcccCCCCEEEEec
Confidence            5567776655544433   33332    45665 455

>KOG4175 consensus Tryptophan synthase alpha chain [Amino acid transport and metabolism]

Probab=80.87  E-value=7.3  Score=27.25  Aligned_cols=42  Identities=17%  Similarity=0.019  Sum_probs=30.4

Q ss_pred             hCCCCcEEEEecC------CChHHHHHHHHhcccEEeeCCCCHHHHHH
Q 045936           96 MKVESKIVGVTSR------NSETEREVFMQAGLDLCYTKPLTMAKIVP  137 (145)
Q Consensus        96 ~~~~~~ii~lt~~------~~~~~~~~~~~~g~~~~l~kP~~~~~l~~  137 (145)
                      ..-.|||++++=+      .....+..+..+|+++|+.--+.++|-..
T Consensus        92 ~gvt~PIiLmgYYNPIl~yG~e~~iq~ak~aGanGfiivDlPpEEa~~  139 (268)
T KOG4175|consen   92 QGVTCPIILMGYYNPILRYGVENYIQVAKNAGANGFIIVDLPPEEAET  139 (268)
T ss_pred             cCcccceeeeecccHHHhhhHHHHHHHHHhcCCCceEeccCChHHHHH
Confidence            3446899877533      35556778899999999988777776543

>PF02572 CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; InterPro: IPR003724 ATP:cob(I)alamin (or ATP:corrinoid) adenosyltransferases (2

Probab=80.68  E-value=8.2  Score=26.15  Aligned_cols=45  Identities=18%  Similarity=0.251  Sum_probs=24.7

Q ss_pred             CCccEEEEeCCC-----CCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHH
Q 045936           70 AKFHIVFIDMEM-----PVMDGIEATKAMRAMKVESKIVGVTSRNSETERE  115 (145)
Q Consensus        70 ~~~dlil~d~~~-----~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~  115 (145)
                      ..+|++|+|=-+     .=.+--++++.|+..++.+-+| +|+...+....
T Consensus        95 ~~~dlvILDEi~~a~~~gll~~~~v~~~l~~rp~~~evV-lTGR~~~~~l~  144 (172)
T PF02572_consen   95 GEYDLVILDEINYAVDYGLLSEEEVLDLLENRPESLEVV-LTGRNAPEELI  144 (172)
T ss_dssp             TT-SEEEEETHHHHHHTTSS-HHHHHHHHHTS-TT-EEE-EE-SS--HHHH
T ss_pred             CCCCEEEEcchHHHhHCCCccHHHHHHHHHcCCCCeEEE-EECCCCCHHHH
Confidence            479999999422     3345667888888765556555 66665554443

5.1.17 from EC), catalyse the conversion of cobalamin (vitamin B12) into its coenzyme form, adenosylcobalamin (coenzyme B12) []. Adenosylcobalamin (AdoCbl) is required for the ativity of certain enzymes. AdoCbl contains an adenosyl moiety liganded to the cobalt ion of cobalamin via a covalent Co-C bond, and its synthesis is unique to certain prokaryotes. ATP:cob(I)alamin adenosyltransferases are classed into three groups: CobA-type [], EutT-type [] and PduO-type []. Each of the three enzyme types appears to be specialised for particular AdoCbl-dependent enzymes or for the de novo synthesis AdoCbl. PduO and EutT are distantly related, sharing short conserved motifs, while CobA is evolutionarily unrelated and is an example of convergent evolution. This entry represents the ATP:cob(I)alamin adenosyltransferases CobA (Salmonella typhimurium), CobO (Pseudomonas denitrificans), and ButR (Escherichia coli). There is a high degree of sequence identity between these proteins []. CobA is responsible for attaching the adenosyl moiety from ATP to the cobalt ion of the corrin ring, necessary for the convertion of cobalamin to adenosylcobalamin [, ]. ; GO: 0005524 ATP binding, 0008817 cob(I)yrinic acid a,c-diamide adenosyltransferase activity, 0009236 cobalamin biosynthetic process; PDB: 1G64_A 1G5T_A 1G5R_A.

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=80.62  E-value=6.9  Score=32.94  Aligned_cols=71  Identities=18%  Similarity=0.204  Sum_probs=46.4

Q ss_pred             CccEEEEe-CCCCCCCHHH-HHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936           71 KFHIVFID-MEMPVMDGIE-ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus        71 ~~dlil~d-~~~~~~~g~~-~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      .+-++|+| .++-...+.+ +++.|.+-..++.+|+.|+..  ..+...+..-+.-|-.++++.+++...|++++
T Consensus       119 r~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~--~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il  191 (830)
T PRK07003        119 RFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDP--QKIPVTVLSRCLQFNLKQMPAGHIVSHLERIL  191 (830)
T ss_pred             CceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECCh--hhccchhhhheEEEecCCcCHHHHHHHHHHHH
Confidence            46788888 3444434444 455554444466666666543  33445566777788889999999999988875

>TIGR01815 TrpE-clade3 anthranilate synthase, alpha proteobacterial clade

Probab=80.58  E-value=16  Score=30.56  Aligned_cols=54  Identities=15%  Similarity=0.183  Sum_probs=36.6

Q ss_pred             CCCCCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEE
Q 045936           22 SKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFI   77 (145)
Q Consensus        22 ~~~~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~   77 (145)
                      .+..+.+|+|+|........+..+|++.|+.+........ ...... ..+|.||+
T Consensus       512 ~~~~~~~IlVID~gds~~~~l~~~L~~~G~~v~vv~~~~~-~~~~~~-~~~DgLIL  565 (717)
T TIGR01815       512 RGGEGRRILLVDHEDSFVHTLANYLRQTGASVTTLRHSHA-EAAFDE-RRPDLVVL  565 (717)
T ss_pred             CCCCCCEEEEEECCChhHHHHHHHHHHCCCeEEEEECCCC-hhhhhh-cCCCEEEE
Confidence            3345679999998887888999999999988765543211 112222 35887776

This model represents a small clade of anthranilate synthases from alpha proteobacteria and Nostoc (a cyanobacterium). This enzyme is the first step in the pathway for the biosynthesis of tryprophan from chorismate.

>PF00218 IGPS: Indole-3-glycerol phosphate synthase; InterPro: IPR013798 Indole-3-glycerol phosphate synthase (4

Probab=80.37  E-value=19  Score=25.98  Aligned_cols=87  Identities=11%  Similarity=0.196  Sum_probs=55.9

Q ss_pred             HHHHHHHHHhcCCe-EEEecCHHHHHHHHhcCCCccEEEEeC-CCCCCC-HHHHHHHHHhhCC-CCcEEEEecCCChHHH
Q 045936           39 RRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDM-EMPVMD-GIEATKAMRAMKV-ESKIVGVTSRNSETER  114 (145)
Q Consensus        39 ~~~l~~~l~~~g~~-v~~~~~~~~~l~~l~~~~~~dlil~d~-~~~~~~-g~~~~~~l~~~~~-~~~ii~lt~~~~~~~~  114 (145)
                      ...+...-...|.. ++.+++.+|+...+..  .+++|=++- ++.... .++....|...-| +..+|.-++-.+++..
T Consensus       147 l~~l~~~a~~lGle~lVEVh~~~El~~al~~--~a~iiGINnRdL~tf~vd~~~~~~l~~~ip~~~~~iseSGI~~~~d~  224 (254)
T PF00218_consen  147 LEELLELAHSLGLEALVEVHNEEELERALEA--GADIIGINNRDLKTFEVDLNRTEELAPLIPKDVIVISESGIKTPEDA  224 (254)
T ss_dssp             HHHHHHHHHHTT-EEEEEESSHHHHHHHHHT--T-SEEEEESBCTTTCCBHTHHHHHHHCHSHTTSEEEEESS-SSHHHH
T ss_pred             HHHHHHHHHHcCCCeEEEECCHHHHHHHHHc--CCCEEEEeCccccCcccChHHHHHHHhhCccceeEEeecCCCCHHHH
Confidence            35566666778987 5599999999888865  367776653 444332 3344455555433 4445555777788889


Q ss_pred             HHHHHhcccEEee
Q 045936          115 EVFMQAGLDLCYT  127 (145)
Q Consensus       115 ~~~~~~g~~~~l~  127 (145)
                      ..+...|++++|.
T Consensus       225 ~~l~~~G~davLV  237 (254)
T PF00218_consen  225 RRLARAGADAVLV  237 (254)
T ss_dssp             HHHCTTT-SEEEE
T ss_pred             HHHHHCCCCEEEE
Confidence            9999999999975

1.1.48 from EC) (IGPS) catalyses the fourth step in the biosynthesis of tryptophan, the ring closure of 1-(2-carboxy-phenylamino)-1-deoxyribulose into indol-3-glycerol-phosphate. In some bacteria, IGPS is a single chain enzyme. In others, such as Escherichia coli, it is the N-terminal domain of a bifunctional enzyme that also catalyses N-(5'-phosphoribosyl)anthranilate isomerase (5.3.1.24 from EC) (PRAI) activity (see IPR001240 from INTERPRO), the third step of tryptophan biosynthesis. In fungi, IGPS is the central domain of a trifunctional enzyme that contains a PRAI C-terminal domain and a glutamine amidotransferase (2.4.2 from EC) (GATase) N-terminal domain (see IPR000991 from INTERPRO). A structure of the IGPS domain of the bifunctional enzyme from the mesophilic bacterium E. coli (eIGPS) has been compared with the monomeric indole-3-glycerol phosphate synthase from the hyperthermophilic archaeon Sulfolobus solfataricus (sIGPS). Both are single-domain (beta/alpha)8 barrel proteins, with one (eIGPS) or two (sIGPS) additional helices inserted before the first beta strand []. ; GO: 0004425 indole-3-glycerol-phosphate synthase activity; PDB: 1VC4_A 1PII_A 1JCM_P 1I4N_B 1J5T_A 3TSM_B 4FB7_A 3QJA_A 1JUL_A 2C3Z_A ....

>PRK00811 spermidine synthase; Provisional

Probab=80.17  E-value=20  Score=26.12  Aligned_cols=77  Identities=19%  Similarity=0.185  Sum_probs=47.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcC------CeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCC-----HHHHHHHHH
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVG------FKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMD-----GIEATKAMR   94 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g------~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~-----g~~~~~~l~   94 (145)
                      .+|.++|-++...+..+..+...+      -++. ...|+.+.+.. .. ..+|+|++|..-|...     ..++.+.++
T Consensus       101 ~~V~~VEid~~vv~~a~~~~~~~~~~~~~d~rv~v~~~Da~~~l~~-~~-~~yDvIi~D~~dp~~~~~~l~t~ef~~~~~  178 (283)
T PRK00811        101 EKITLVEIDERVVEVCRKYLPEIAGGAYDDPRVELVIGDGIKFVAE-TE-NSFDVIIVDSTDPVGPAEGLFTKEFYENCK  178 (283)
T ss_pred             CEEEEEeCCHHHHHHHHHHhHHhccccccCCceEEEECchHHHHhh-CC-CcccEEEECCCCCCCchhhhhHHHHHHHHH
Confidence            379999999999998888885431      1232 45666665544 22 4799999997655332     245566666


Q ss_pred             hhCCCCcEEEE
Q 045936           95 AMKVESKIVGV  105 (145)
Q Consensus        95 ~~~~~~~ii~l  105 (145)
                      +.-....++++
T Consensus       179 ~~L~~gGvlv~  189 (283)
T PRK00811        179 RALKEDGIFVA  189 (283)
T ss_pred             HhcCCCcEEEE
Confidence            54323334443

>PRK13587 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional

Probab=80.11  E-value=19  Score=25.60  Aligned_cols=67  Identities=7%  Similarity=0.027  Sum_probs=48.2

Q ss_pred             HHHHHHHhcCCCccEEEEeCCCCCC-C--HHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEee
Q 045936           60 KEAVDLFRTGAKFHIVFIDMEMPVM-D--GIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus        60 ~~~l~~l~~~~~~dlil~d~~~~~~-~--g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      .+.++.+.....-.+++.|....++ .  .+++++.+.+. ...|+++-..-.+.+....++..|++..+.
T Consensus       151 ~~~~~~~~~~g~~~ii~tdi~~dGt~~G~~~~li~~l~~~-~~ipvi~~GGi~s~edi~~l~~~G~~~viv  220 (234)
T PRK13587        151 FSFVRQLSDIPLGGIIYTDIAKDGKMSGPNFELTGQLVKA-TTIPVIASGGIRHQQDIQRLASLNVHAAII  220 (234)
T ss_pred             HHHHHHHHHcCCCEEEEecccCcCCCCccCHHHHHHHHHh-CCCCEEEeCCCCCHHHHHHHHHcCCCEEEE
Confidence            5555555542234688888876543 2  35677888765 468888888888988999999999998764

>PF09456 RcsC: RcsC Alpha-Beta-Loop (ABL); InterPro: IPR019017 This domain is found in the C terminus of the signal transduction response regulator (phospho-relay) kinase RcsC, between the ATP-binding region (IPR003594 from INTERPRO) and the receiver region (IPR001789 from INTERPRO)

Probab=80.03  E-value=11  Score=22.81  Aligned_cols=90  Identities=13%  Similarity=0.157  Sum_probs=53.6

Q ss_pred             EEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecC
Q 045936           29 ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSR  108 (145)
Q Consensus        29 vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~  108 (145)
                      +++.-.|......+..+|+..|+.|..+.. ++.       ..-|++|.|......            .+....|.++..
T Consensus         2 cwL~irNa~Le~yL~~lL~~~G~~v~~y~~-q~~-------~~~DvlItD~~~~~~------------~~~~a~I~~s~~   61 (92)
T PF09456_consen    2 CWLAIRNAYLESYLQRLLSYHGFQVQRYEG-QQP-------DADDVLITDYEPQVA------------WPGRAVIRFSRR   61 (92)
T ss_dssp             EEEE---HHHHHHHHHHHCTTTEEEEE-SS------------TT-EEEEESS-S----------------SSEEEEEESS
T ss_pred             EEEEehhHHHHHHHHHHHHHCCcEEEEecC-CCC-------CCCcEEEECCCcccC------------CcceEEEEEchH
Confidence            566777888899999999999999987762 211       346999999754321            123335666655


Q ss_pred             CChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936          109 NSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       109 ~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      ...    ...+.....++....++.+|...|.++
T Consensus        62 hiG----~p~E~~pg~Wl~sTat~~eL~~LL~rI   91 (92)
T PF09456_consen   62 HIG----PPQERRPGYWLHSTATPHELPALLDRI   91 (92)
T ss_dssp             -SS----S--TTSTTEEEEESS-TTHHHHHHHHH
T ss_pred             hCC----CccccCCCcEEeccCCHHHHHHHHHHh
Confidence            432    234556677888888888888888775

This domain forms a discrete alpha/beta/loop structure []. The Rcs signalling pathway controls a variety of physiological functions like capsule synthesis, cell division or motility in prokaryotes. The Rcs regulation cascade, involving a multi-step phosphorelay between the two membrane-bound hybrid sensor kinases RcsC and RcsD and the global regulator RcsB, is, up to now, one of the most complicated regulatory systems in bacteria []. ; GO: 0004673 protein histidine kinase activity, 0004871 signal transducer activity, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent, 0018106 peptidyl-histidine phosphorylation, 0005886 plasma membrane, 0016021 integral to membrane; PDB: 2AYY_A 2AYX_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	145
2ayx_A	254	Solution Structure Of The E.Coli Rcsc C-Terminus (R		1e-14
2ayz_A	133	Solution Structure Of The E.Coli Rcsc C-Terminus (R		2e-14
3a0u_A	116	Crystal Structure Of Response Regulator Protein Trr		1e-09
3fft_A	128	Crystal Structure Of Chey Double Mutant F14e, E89r		1e-09
3fgz_A	128	Crystal Structure Of Chey Triple Mutant F14e, N59m,		3e-09
1ab5_A	125	Structure Of Chey Mutant F14n, V21t Length = 125		3e-09
3rvl_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		3e-09
1ab6_A	125	Structure Of Chey Mutant F14n, V86t Length = 125		4e-09
3a0r_B	116	Crystal Structure Of Histidine Kinase Thka (Tm1359)		6e-09
1udr_A	129	Chey Mutant With Lys 91 Replaced By Asp, Lys 92 Rep		6e-09
3ffx_A	128	Crystal Structure Of Chey Triple Mutant F14e, N59r,		7e-09
2chy_A	128	Three-Dimensional Structure Of Chey, The Response R		9e-09
3rvp_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		9e-09
3mm4_A	206	Crystal Structure Of The Receiver Domain Of The His		1e-08
3ffw_A	128	Crystal Structure Of Chey Triple Mutant F14q, N59k,		1e-08
1jbe_A	128	1.08 A Structure Of Apo-Chey Reveals Meta-Active Co		1e-08
3rvj_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		1e-08
3olx_A	129	Structural And Functional Effects Of Substitution A		1e-08
2che_A	128	Structure Of The Mg2+-Bound Form Of Chey And Mechan		1e-08
2fka_A	129	Crystal Structure Of Mg(2+) And Bef(3)(-)-Bound Che		1e-08
3r0j_A	250	Structure Of Phop From Mycobacterium Tuberculosis L		1e-08
5chy_A	128	Structure Of Chemotaxis Protein Chey Length = 128		2e-08
3rvn_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		2e-08
1d4z_A	128	Crystal Structure Of Chey-95iv, A Hyperactive Chey		2e-08
3f7n_A	128	Crystal Structure Of Chey Triple Mutant F14e, N59m,		3e-08
1cye_A	129	Three Dimensional Structure Of Chemotactic Che Y Pr		3e-08
1eay_A	128	Chey-Binding (P2) Domain Of Chea In Complex With Ch		3e-08
3olw_A	129	Structural And Functional Effects Of Substitution A		3e-08
1cey_A	128	Assignments, Secondary Structure, Global Fold, And		3e-08
1djm_A	129	Solution Structure Of Bef3-Activated Chey From Esch		3e-08
1mih_A	129	A Role For Chey Glu 89 In Chez-Mediated Dephosphory		3e-08
1ymv_A	129	Signal Transduction Protein Chey Mutant With Phe 14		4e-08
3myy_A	128	Structure Of E. Coli Chey Mutant A113p Bound To Ber		5e-08
6chy_A	128	Structure Of Chemotaxis Protein Chey Length = 128		5e-08
3oo0_A	129	Structure Of Apo Chey A113p Length = 129		5e-08
3f6p_A	120	Crystal Structure Of Unphosphorelated Receiver Doma		6e-08
2zwm_A	130	Crystal Structure Of Yycf Receiver Domain From Baci		6e-08
1ys6_A	233	Crystal Structure Of The Response Regulatory Protei		8e-08
1vlz_A	128	Uncoupled Phosphorylation And Activation In Bacteri		8e-08
1ymu_A	130	Signal Transduction Protein Chey Mutant With Met 17		8e-08
3olv_A	129	Structural And Functional Effects Of Substitution A		8e-08
3oly_A	129	Structural And Functional Effects Of Substitution A		9e-08
1mvo_A	136	Crystal Structure Of The Phop Receiver Domain From		1e-07
1ehc_A	128	Structure Of Signal Transduction Protein Chey Lengt		2e-07
1zdm_A	129	Crystal Structure Of Activated Chey Bound To Xe Len		2e-07
1c4w_A	128	1.9 A Structure Of A-Thiophosphonate Modified Chey		2e-07
1e6k_A	130	Two-Component Signal Transduction System D12a Mutan		2e-07
1e6m_A	128	Two-Component Signal Transduction System D57a Mutan		3e-07
1e6l_A	127	Two-Component Signal Transduction System D13a Mutan		3e-07
1oxb_B	134	Complex Between Ypd1 And Sln1 Response Regulator Do		3e-07
2r25_B	133	Complex Of Ypd1 And Sln1-R1 With Bound Mg2+ And Bef		3e-07
3to5_A	134	High Resolution Structure Of Chey3 From Vibrio Chol		3e-07
2oqr_A	230	The Structure Of The Response Regulator Regx3 From		4e-07
3kyj_B	145	Crystal Structure Of The P1 Domain Of Chea3 In Comp		4e-07
2id9_A	128	1.85 A Structure Of T87iY106W PHOSPHONO-Chey Length		4e-07
2pkx_A	121	E.Coli Response Regulator Phop Receiver Domain Leng		4e-07
1nxo_A	120	Micarec Ph7.0 Length = 120		5e-07
2id7_A	128	1.75 A Structure Of T87i Phosphono-Chey Length = 12		7e-07
1u8t_A	128	Crystal Structure Of Chey D13k Y106w Alone And In C		1e-06
3kyi_B	145	Crystal Structure Of The Phosphorylated P1 Domain O		2e-06
3cg4_A	142	Crystal Structure Of Response Regulator Receiver Do		2e-06
3gwg_A	129	Crystal Structure Of Chey Of Helicobacter Pylori Le		2e-06
3h1g_A	129	Crystal Structure Of Chey Mutant T84a Of Helicobact		2e-06
3c97_A	140	Crystal Structure Of The Response Regulator Receive		3e-06
4euk_A	153	Crystal Structure Length = 153		3e-06
1nxt_A	120	Micarec Ph 4.0 Length = 120		4e-06
4e7o_A	150	Crystal Structure Of Receiver Domain Of Putative Na		4e-06
3dge_C	122	Structure Of A Histidine Kinase-response Regulator		8e-06
3tmy_A	120	Chey From Thermotoga Maritima (Mn-Iii) Length = 120		9e-06
1zgz_A	122	Crystal Structure Of The Receiver Domain Of Tmao Re		9e-06
1srr_A	124	Crystal Structure Of A Phosphatase Resistant Mutant		2e-05
1f51_E	119	A Transient Interaction Between Two Phosphorelay Pr		2e-05
2jvi_A	132	Nmr Solution Structure Of The Hyper-Sporulation Res		2e-05
3nhz_A	125	Structure Of N-Terminal Domain Of Mtra Length = 125		2e-05
2jvk_A	132	Nmr Solution Structure Of The Hyper-Sporulation Res		2e-05
3h1f_A	129	Crystal Structure Of Chey Mutant D53a Of Helicobact		2e-05
2jba_A	127	Phob Response Regulator Receiver Domain Constitutiv		2e-05
2jvj_A	132	Nmr Solution Structure Of The Hyper-Sporulation Res		2e-05
3q15_C	126	Crystal Structure Of Raph Complexed With Spo0f Leng		2e-05
1u0s_Y	118	Chemotaxis Kinase Chea P2 Domain In Complex With Re		3e-05
1pux_A	124	Nmr Solution Structure Of Bef3-Activated Spo0f, 20		3e-05
1zy2_A	150	Crystal Structure Of The Phosphorylated Receiver Do		3e-05
3i42_A	127	Structure Of Response Regulator Receiver Domain (Ch		3e-05
3gl9_A	122	The Structure Of A Histidine Kinase-Response Regula		3e-05
1s8n_A	205	Crystal Structure Of Rv1626 From Mycobacterium Tube		3e-05
1hey_A	128	Investigating The Structural Determinants Of The P2		4e-05
2jba_B	127	Phob Response Regulator Receiver Domain Constitutiv		6e-05
3f7a_A	394	Structure Of Orthorhombic Crystal Form Of Pseudomon		6e-05
3eq2_A	394	Structure Of Hexagonal Crystal Form Of Pseudomonas		6e-05
3nnn_A	122	Bef3 Activated Drrd Receiver Domain Length = 122		1e-04
3lte_A	132	Crystal Structure Of Response Regulator (Signal Rec		1e-04
1zh2_A	121	Crystal Structure Of The Calcium-Bound Receiver Dom		1e-04
2ftk_E	124	Berylloflouride Spo0f Complex With Spo0b Length = 1		1e-04
1b00_A	127	Phob Receiver Domain From Escherichia Coli Length =		2e-04
1zes_A	125	Bef3- Activated Phob Receiver Domain Length = 125		2e-04
1kgs_A	225	Crystal Structure At 1.50 A Of An OmprPHOB HOMOLOG		3e-04
3m6m_D	143	Crystal Structure Of Rpff Complexed With Rec Domain		3e-04
3hzh_A	157	Crystal Structure Of The Chex-Chey-Bef3-Mg+2 Comple		4e-04
1p6u_A	129	Nmr Structure Of The Bef3-Activated Structure Of Th		9e-04

>pdb|2AYX|A Chain A, Solution Structure Of The E.Coli Rcsc C-Terminus (Residues 700-949) Containing Linker Region And Phosphoreceiver Domain Length = 254

Iteration: 1
 Score = 75.1 bits (183), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 39/118 (33%), Positives = 71/118 (60%), Gaps = 5/118 (4%)
Query: 17  SENPVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHI-- 74
           ++  VS N     LVVDD P+ RR+ +  L S+G++ + A +G +A+++    +K HI  
Sbjct: 120 TDKAVSDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVL---SKNHIDI 176
Query: 75  VFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTM 132
           V  D+ MP MDG   T+ +R + +   ++GVT+     E++  +++G+D C +KP+T+
Sbjct: 177 VLSDVNMPNMDGYRLTQRIRQLGLTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTL 234

>pdb|2AYZ|A Chain A, Solution Structure Of The E.Coli Rcsc C-Terminus (Residues 817-949) Containing Phosphoreceiver Domain Length = 133

Iteration: 1
 Score = 74.7 bits (182), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 40/117 (34%), Positives = 70/117 (59%), Gaps = 5/117 (4%)
Query: 21  VSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHI--VFID 78
           VS N     LVVDD P+ RR+ +  L S+G++ + A +G +A+++    +K HI  V  D
Sbjct: 3   VSDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVL---SKNHIDIVLSD 59
Query: 79  MEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
           + MP MDG   T+ +R + +   ++GVT+     E++  +++G+D C +KP+T+  I
Sbjct: 60  VNMPNMDGYRLTQRIRQLGLTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVI 116

>pdb|3A0U|A Chain A, Crystal Structure Of Response Regulator Protein Trra (Tm1360) From Thermotoga Maritima In Complex With Mg(2+)- Bef (Wild Type) Length = 116

Iteration: 1
 Score = 58.5 bits (140), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 30/78 (38%), Positives = 52/78 (66%), Gaps = 1/78 (1%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDD+P IR +    L+  G++++ AENG+EA+  F +G  + +V +D+EMP + G+E 
Sbjct: 5   LVVDDEPNIRELLKEELQEEGYEIDTAENGEEALKKFFSG-NYDLVILDIEMPGISGLEV 63
Query: 90  TKAMRAMKVESKIVGVTS 107
              +R  K ++KI+ +T+
Sbjct: 64  AGEIRKKKKDAKIILLTA 81

>pdb|3FFT|A Chain A, Crystal Structure Of Chey Double Mutant F14e, E89r Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 58.5 bits (140), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 41/109 (37%), Positives = 58/109 (53%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD+  +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 8   LVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+R  +       QAG      KP T A +
Sbjct: 67  LLKTIRADGAMSALPVLMVTARAKKENIIAAAQAGASGYVVKPFTAATL 115

>pdb|3FGZ|A Chain A, Crystal Structure Of Chey Triple Mutant F14e, N59m, E89r Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 57.4 bits (137), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 41/109 (37%), Positives = 58/109 (53%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD+  +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 8   LVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWMMPNMDGLE 66
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+R  +       QAG      KP T A +
Sbjct: 67  LLKTIRADGAMSALPVLMVTARAKKENIIAAAQAGASGYVVKPFTAATL 115

>pdb|1AB5|A Chain A, Structure Of Chey Mutant F14n, V21t Length = 125

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 57/109 (52%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD+  +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 5   LVVDDNSTMRRITRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 63
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 64  LLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 112

>pdb|3RVL|A Chain A, Structure Of The Chey-Bef3 Complex With Substitutions At 59 And 89: N59d And E89r Length = 132

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 41/109 (37%), Positives = 58/109 (53%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D +MP MDG+E
Sbjct: 12  LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWDMPNMDGLE 70
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+R  +       QAG      KP T A +
Sbjct: 71  LLKTIRADGAMSALPVLMVTARAKKENIIAAAQAGASGYVVKPFTAATL 119

>pdb|1AB6|A Chain A, Structure Of Chey Mutant F14n, V86t Length = 125

Iteration: 1
 Score = 57.0 bits (136), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 41/110 (37%), Positives = 59/110 (53%), Gaps = 6/110 (5%)
Query: 30  LVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD+  +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 5   LVVDDNSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 63
Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFM---QAGLDLCYTKPLTMAKI 135
             K +RA    S +  V    +E ++E  +   QAG      KP T A +
Sbjct: 64  LLKTIRADGAMSALP-VLMTTAEAKKENIIAAAQAGASGYVVKPFTAATL 112

>pdb|3A0R|B Chain B, Crystal Structure Of Histidine Kinase Thka (Tm1359) In Complex With Response Regulator Protein Trra (Tm1360) Length = 116

Iteration: 1
 Score = 56.2 bits (134), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 29/78 (37%), Positives = 51/78 (65%), Gaps = 1/78 (1%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDD+P IR +    L+  G++++ AENG+EA+  F +G  + +V +D+E P + G+E 
Sbjct: 5   LVVDDEPNIRELLKEELQEEGYEIDTAENGEEALKKFFSG-NYDLVILDIEXPGISGLEV 63
Query: 90  TKAMRAMKVESKIVGVTS 107
              +R  K ++KI+ +T+
Sbjct: 64  AGEIRKKKKDAKIILLTA 81

>pdb|1UDR|A Chain A, Chey Mutant With Lys 91 Replaced By Asp, Lys 92 Replaced By Ala, Ile 96 Replaced By Lys And Ala 98 Replaced By Leu (Stabilizing Mutations In Helix 4) Length = 129

Iteration: 1
 Score = 56.2 bits (134), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 56/109 (51%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 67
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+       +   QAG      KP T A +
Sbjct: 68  LLKTIRADGAMSALPVLMVTAEADAENIKALAQAGASGYVVKPFTAATL 116

>pdb|3FFX|A Chain A, Crystal Structure Of Chey Triple Mutant F14e, N59r, E89h Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 55.8 bits (133), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 57/109 (52%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD+  +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 8   LVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWRMPNMDGLE 66
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 67  LLKTIRADGAMSALPVLMVTAHAKKENIIAAAQAGASGYVVKPFTAATL 115

>pdb|2CHY|A Chain A, Three-Dimensional Structure Of Chey, The Response Regulator Of Bacterial Chemotaxis Length = 128

Iteration: 1
 Score = 55.8 bits (133), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 56/109 (51%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  F  +  D  MP MDG+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-FGFIICDWNMPNMDGLE 66
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 67  LLKTIRADSAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 115

>pdb|3RVP|A Chain A, Structure Of The Chey-Bef3 Complex With Substitutions At 59 And 89: N59d And E89k Length = 132

Iteration: 1
 Score = 55.8 bits (133), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 58/109 (53%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D +MP MDG+E
Sbjct: 12  LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWDMPNMDGLE 70
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT++  +       QAG      KP T A +
Sbjct: 71  LLKTIRADGAMSALPVLMVTAKAKKENIIAAAQAGASGYVVKPFTAATL 119

>pdb|3MM4|A Chain A, Crystal Structure Of The Receiver Domain Of The Histidine Kinase Cki1 From Arabidopsis Thaliana Length = 206

Iteration: 1
 Score = 55.5 bits (132), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 44/131 (33%), Positives = 71/131 (54%), Gaps = 21/131 (16%)
Query: 30  LVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGAK------------FHIVF 76
           LVVDD+ + R++ +  LK +G  +VE  ++GKEA+ L   G              F  +F
Sbjct: 65  LVVDDNFISRKVATGKLKKMGVSEVEQCDSGKEALRLVTEGLTQREEQGSVDKLPFDYIF 124
Query: 77  IDMEMPVMDGIEATKAMRAMK----VESKIVGVTSRN--SETEREVFMQAGLDLCYTKPL 130
           +D +MP MDG EAT+ +R ++    V + I+ V+  +  SE  RE  +QAG+D    K L
Sbjct: 125 MDCQMPEMDGYEATREIRKVEKSYGVRTPIIAVSGHDPGSEEARET-IQAGMDAFLDKSL 183
Query: 131 T-MAKIVPLLE 140
             +A ++  +E
Sbjct: 184 NQLANVIREIE 194

>pdb|3FFW|A Chain A, Crystal Structure Of Chey Triple Mutant F14q, N59k, E89y Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 55.5 bits (132), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 57/109 (52%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D +MP MDG+E
Sbjct: 8   LVVDDQSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWKMPNMDGLE 66
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 67  LLKTIRADGAMSALPVLMVTAYAKKENIIAAAQAGASGYVVKPFTAATL 115

>pdb|1JBE|A Chain A, 1.08 A Structure Of Apo-Chey Reveals Meta-Active Conformation Length = 128

Iteration: 1
 Score = 55.5 bits (132), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 56/109 (51%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 67  LLKTIRAXXAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 115

>pdb|3RVJ|A Chain A, Structure Of The Chey-Bef3 Complex With Substitutions At 59 And 89: N59d And E89q Length = 132

Iteration: 1
 Score = 55.5 bits (132), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 58/109 (53%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D +MP MDG+E
Sbjct: 12  LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWDMPNMDGLE 70
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT++  +       QAG      KP T A +
Sbjct: 71  LLKTIRADGAMSALPVLMVTAQAKKENIIAAAQAGASGYVVKPFTAATL 119

>pdb|3OLX|A Chain A, Structural And Functional Effects Of Substitution At Position T+1 In Chey: Cheya88s-Bef3-Mn Complex Length = 129

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 41/109 (37%), Positives = 56/109 (51%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 67
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VTS   +       QAG      KP T A +
Sbjct: 68  LLKTIRADGAMSALPVLMVTSEAKKENIIAAAQAGASGYVVKPFTAATL 116

>pdb|2CHE|A Chain A, Structure Of The Mg2+-Bound Form Of Chey And Mechanism Of Phosphoryl Transfer In Bacterial Chemotaxis Length = 128

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 56/109 (51%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  F  +  D  MP MDG+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-FGFIISDWNMPNMDGLE 66
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 67  LLKTIRADSAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 115

>pdb|2FKA|A Chain A, Crystal Structure Of Mg(2+) And Bef(3)(-)-Bound Chey In Complex With Chez(200-214) Solved From A F432 Crystal Grown In Caps (Ph 10.5) Length = 129

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 56/109 (51%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  F  +  D  MP MDG+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-FGFIISDWNMPNMDGLE 67
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 68  LLKTIRADSAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 116

>pdb|3R0J|A Chain A, Structure Of Phop From Mycobacterium Tuberculosis Length = 250

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 39/136 (28%), Positives = 69/136 (50%), Gaps = 14/136 (10%)
Query: 4   GAEGASSSKKARISENPVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAV 63
           G  G +++ +AR+             LVVDD+  I  + S+ LK  GF+V  A NG +A+
Sbjct: 14  GTPGENTTPEARV-------------LVVDDEANIVELLSVSLKFQGFEVYTATNGAQAL 60
Query: 64  DLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLD 123
           D  R   +   V +D+  P  DG    + +RA  +++  + +T+R+S  ++   +  G D
Sbjct: 61  DRARE-TRPDAVILDVXXPGXDGFGVLRRLRADGIDAPALFLTARDSLQDKIAGLTLGGD 119
Query: 124 LCYTKPLTMAKIVPLL 139
              TKP ++ ++V  L
Sbjct: 120 DYVTKPFSLEEVVARL 135

>pdb|5CHY|A Chain A, Structure Of Chemotaxis Protein Chey Length = 128

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 56/109 (51%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 67  LLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGWVVKPFTAATL 115

>pdb|3RVN|A Chain A, Structure Of The Chey-Bef3 Complex With Substitutions At 59 And 89: N59d And E89y Length = 132

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 57/109 (52%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D +MP MDG+E
Sbjct: 12  LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWDMPNMDGLE 70
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 71  LLKTIRADGAMSALPVLMVTAYAKKENIIAAAQAGASGYVVKPFTAATL 119

>pdb|1D4Z|A Chain A, Crystal Structure Of Chey-95iv, A Hyperactive Chey Mutant Length = 128

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 56/109 (51%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 67  LLKTIRADGAMSALPVLMVTAEAKKENVIAAAQAGASGYVVKPFTAATL 115

>pdb|3F7N|A Chain A, Crystal Structure Of Chey Triple Mutant F14e, N59m, E89l Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 54.3 bits (129), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 57/109 (52%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD+  +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 8   LVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWMMPNMDGLE 66
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 67  LLKTIRADGAMSALPVLMVTALAKKENIIAAAQAGASGYVVKPFTAATL 115

>pdb|1CYE|A Chain A, Three Dimensional Structure Of Chemotactic Che Y Protein In Aqueous Solution By Nuclear Magnetic Resonance Methods Length = 129

Iteration: 1
 Score = 54.3 bits (129), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 56/109 (51%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 67
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 68  LLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 116

>pdb|1EAY|A Chain A, Chey-Binding (P2) Domain Of Chea In Complex With Chey From Escherichia Coli Length = 128

Iteration: 1
 Score = 54.3 bits (129), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 56/109 (51%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 67  LLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 115

>pdb|3OLW|A Chain A, Structural And Functional Effects Of Substitution At Position T+1 In Chey: Cheya88t-Bef3-Mn Complex Length = 129

Iteration: 1
 Score = 53.9 bits (128), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 56/109 (51%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 67
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 68  LLKTIRADGAMSALPVLMVTTEAKKENIIAAAQAGASGYVVKPFTAATL 116

>pdb|1CEY|A Chain A, Assignments, Secondary Structure, Global Fold, And Dynamics Of Chemotaxis Y Protein Using Three-And Four-Dimensional Heteronuclear (13c,15n) Nmr Spectroscopy Length = 128

Iteration: 1
 Score = 53.9 bits (128), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 56/109 (51%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 67  LLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 115

>pdb|1DJM|A Chain A, Solution Structure Of Bef3-Activated Chey From Escherichia Coli Length = 129

Iteration: 1
 Score = 53.9 bits (128), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 56/109 (51%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 67
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 68  LLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 116

>pdb|1MIH|A Chain A, A Role For Chey Glu 89 In Chez-Mediated Dephosphorylation Of The E. Coli Chemotaxis Response Regulator Chey Length = 129

Iteration: 1
 Score = 53.9 bits (128), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 56/109 (51%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWRMPNMDGLE 67
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 68  LLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 116

>pdb|1YMV|A Chain A, Signal Transduction Protein Chey Mutant With Phe 14 Replaced By Gly, Ser 15 Replaced By Gly, And Met 17 Replaced By Gly Length = 129

Iteration: 1
 Score = 53.5 bits (127), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 41/110 (37%), Positives = 57/110 (51%), Gaps = 6/110 (5%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD    RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 9   LVVDDGGTGRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 67
Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFM---QAGLDLCYTKPLTMAKI 135
             K +RA    S +  V    +E ++E  +   QAG      KP T A +
Sbjct: 68  LLKTIRADGAMSALP-VLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 116

>pdb|3MYY|A Chain A, Structure Of E. Coli Chey Mutant A113p Bound To Beryllium Fluoride Length = 128

Iteration: 1
 Score = 53.5 bits (127), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 56/109 (51%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 67  LLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTPATL 115

>pdb|6CHY|A Chain A, Structure Of Chemotaxis Protein Chey Length = 128

Iteration: 1
 Score = 53.1 bits (126), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 41/110 (37%), Positives = 58/110 (52%), Gaps = 6/110 (5%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFM---QAGLDLCYTKPLTMAKI 135
             K +RA    S +  V    +E ++E  +   QAG      KP T A +
Sbjct: 67  LLKTIRADGAMSALP-VLMVIAEAKKENIIAAAQAGASGWVVKPFTAATL 115

>pdb|3OO0|A Chain A, Structure Of Apo Chey A113p Length = 129

Iteration: 1
 Score = 53.1 bits (126), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 56/109 (51%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 67
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 68  LLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTPATL 116

>pdb|3F6P|A Chain A, Crystal Structure Of Unphosphorelated Receiver Domain Of Yycf Length = 120

Iteration: 1
 Score = 53.1 bits (126), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 31/107 (28%), Positives = 62/107 (57%), Gaps = 2/107 (1%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDD+  I  I    L+  G++V  A +G EAV++     +  ++ +D+ +P  DG+E 
Sbjct: 6   LVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMVEE-LQPDLILLDIMLPNKDGVEV 64
Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
            + +R  K +  I+ +T+++SE ++ + ++ G D   TKP +  +++
Sbjct: 65  CREVRK-KYDMPIIMLTAKDSEIDKVIGLEIGADDYVTKPFSTRELL 110

>pdb|2ZWM|A Chain A, Crystal Structure Of Yycf Receiver Domain From Bacillus Subtilis Length = 130

Iteration: 1
 Score = 53.1 bits (126), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 31/107 (28%), Positives = 62/107 (57%), Gaps = 2/107 (1%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDD+  I  I    L+  G++V  A +G EAV++     +  ++ +D+ +P  DG+E 
Sbjct: 6   LVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMVEE-LQPDLILLDIMLPNKDGVEV 64
Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
            + +R  K +  I+ +T+++SE ++ + ++ G D   TKP +  +++
Sbjct: 65  CREVRK-KYDMPIIMLTAKDSEIDKVIGLEIGADDYVTKPFSTRELL 110

>pdb|1YS6|A Chain A, Crystal Structure Of The Response Regulatory Protein Prra From Mycobacterium Tuberculosis Length = 233

Iteration: 1
 Score = 52.8 bits (125), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 30/99 (30%), Positives = 56/99 (56%), Gaps = 1/99 (1%)
Query: 46  LKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV 105
           L+  GF+V  A +G EA+    T  +   + +D+ MPV+DG+    A+RAM  +  +  +
Sbjct: 27  LRLSGFEVATAVDGAEALR-SATENRPDAIVLDINMPVLDGVSVVTALRAMDNDVPVCVL 85
Query: 106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK 144
           ++R+S  +R   ++AG D    KP  +A++V  ++ L +
Sbjct: 86  SARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLR 124

>pdb|1VLZ|A Chain A, Uncoupled Phosphorylation And Activation In Bacterial Chemotaxis: The 2.1 Angstrom Structure Of A Threonine To Isoleucine Mutant At Position 87 Of Chey Length = 128

Iteration: 1
 Score = 52.8 bits (125), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 41/110 (37%), Positives = 58/110 (52%), Gaps = 6/110 (5%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFM---QAGLDLCYTKPLTMAKI 135
             K +RA    S +  V    +E ++E  +   QAG      KP T A +
Sbjct: 67  LLKTIRADGAMSALP-VLMVIAEAKKENIIAAAQAGASGYVVKPFTAATL 115

>pdb|1YMU|A Chain A, Signal Transduction Protein Chey Mutant With Met 17 Replaced By Gly (M17g) Length = 130

Iteration: 1
 Score = 52.4 bits (124), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 55/109 (50%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD    RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 10  LVVDDFSTGRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 68
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 69  LLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 117

>pdb|3OLV|A Chain A, Structural And Functional Effects Of Substitution At Position T+1 In Chey: Cheya88v-Bef3-Mg Complex Length = 129

Iteration: 1
 Score = 52.4 bits (124), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 55/109 (50%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 67
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT    +       QAG      KP T A +
Sbjct: 68  LLKTIRADGAMSALPVLMVTVEAKKENIIAAAQAGASGYVVKPFTAATL 116

>pdb|3OLY|A Chain A, Structural And Functional Effects Of Substitution At Position T+1 In Chey: Cheya88m-Bef3-Mn Complex Length = 129

Iteration: 1
 Score = 52.4 bits (124), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 55/109 (50%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 67
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT    +       QAG      KP T A +
Sbjct: 68  LLKTIRADGAMSALPVLMVTMEAKKENIIAAAQAGASGYVVKPFTAATL 116

>pdb|1MVO|A Chain A, Crystal Structure Of The Phop Receiver Domain From Bacillus Subtilis Length = 136

Iteration: 1
 Score = 52.0 bits (123), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 32/102 (31%), Positives = 58/102 (56%), Gaps = 1/102 (0%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDD+  I  +    L+  G+ V  A +G+EA+    T  K  ++ +D+ +P +DGIE 
Sbjct: 7   LVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAET-EKPDLIVLDVMLPKLDGIEV 65
Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLT 131
            K +R  K+   I+ +T+++ E ++ + ++ G D   TKP +
Sbjct: 66  CKQLRQQKLMFPILMLTAKDEEFDKVLGLELGADDYMTKPFS 107

>pdb|1EHC|A Chain A, Structure Of Signal Transduction Protein Chey Length = 128

Iteration: 1
 Score = 51.2 bits (121), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 39/109 (35%), Positives = 55/109 (50%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVD    +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 8   LVVDKFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 67  LLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 115

>pdb|1ZDM|A Chain A, Crystal Structure Of Activated Chey Bound To Xe Length = 129

Iteration: 1
 Score = 51.2 bits (121), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 39/109 (35%), Positives = 55/109 (50%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V     MP MDG+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISXWNMPNMDGLE 67
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 68  LLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 116

>pdb|1C4W|A Chain A, 1.9 A Structure Of A-Thiophosphonate Modified Chey D57c Length = 128

Iteration: 1
 Score = 51.2 bits (121), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 39/109 (35%), Positives = 55/109 (50%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V     MP MDG+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISXWNMPNMDGLE 66
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 67  LLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 115

>pdb|1E6K|A Chain A, Two-Component Signal Transduction System D12a Mutant Of Chey Length = 130

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 39/109 (35%), Positives = 55/109 (50%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVV D   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 10  LVVADFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 68
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 69  LLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 117

>pdb|1E6M|A Chain A, Two-Component Signal Transduction System D57a Mutant Of Chey Length = 128

Iteration: 1
 Score = 50.8 bits (120), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 39/109 (35%), Positives = 55/109 (50%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V     MP MDG+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISAWNMPNMDGLE 66
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 67  LLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 115

>pdb|1E6L|A Chain A, Two-Component Signal Transduction System D13a Mutant Of Chey Length = 127

Iteration: 1
 Score = 50.8 bits (120), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 39/109 (35%), Positives = 55/109 (50%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVD    +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 7   LVVDAFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 65
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 66  LLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 114

>pdb|1OXB|B Chain B, Complex Between Ypd1 And Sln1 Response Regulator Domain In Space Group P2(1)2(1)2(1) Length = 134

Iteration: 1
 Score = 50.8 bits (120), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/119 (27%), Positives = 70/119 (58%), Gaps = 6/119 (5%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVD----LFRTGAKFHIVFIDMEMPVM 84
           LVV+D+ + + +   +L   G + +E+A +G+EA D    L   G  ++++F+D++MP +
Sbjct: 5   LVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGENYNMIFMDVQMPKV 64
Query: 85  DGIEATKAM-RAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
           DG+ +TK + R +   S IV +T+   ++  +  +++G++   +KP+   K+  +L E 
Sbjct: 65  DGLLSTKMIRRDLGYTSPIVALTAFADDSNIKECLESGMNGFLSKPIKRPKLKTILTEF 123

>pdb|2R25|B Chain B, Complex Of Ypd1 And Sln1-R1 With Bound Mg2+ And Bef3- Length = 133

Iteration: 1
 Score = 50.8 bits (120), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/119 (27%), Positives = 70/119 (58%), Gaps = 6/119 (5%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVD----LFRTGAKFHIVFIDMEMPVM 84
           LVV+D+ + + +   +L   G + +E+A +G+EA D    L   G  ++++F+D++MP +
Sbjct: 6   LVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGENYNMIFMDVQMPKV 65
Query: 85  DGIEATKAM-RAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
           DG+ +TK + R +   S IV +T+   ++  +  +++G++   +KP+   K+  +L E 
Sbjct: 66  DGLLSTKMIRRDLGYTSPIVALTAFADDSNIKECLESGMNGFLSKPIKRPKLKTILTEF 124

>pdb|3TO5|A Chain A, High Resolution Structure Of Chey3 From Vibrio Cholerae Length = 134

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 40/123 (32%), Positives = 65/123 (52%), Gaps = 6/123 (4%)
Query: 24  NRPYFALVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMP 82
           N+    L+VDD   +RRI   +L+ +GF   + A++G  A+ + + G  F  V  D  MP
Sbjct: 10  NKNMKILIVDDFSTMRRIVKNLLRDLGFNNTQEADDGLTALPMLKKG-DFDFVVTDWNMP 68
Query: 83  VMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFM---QAGLDLCYTKPLTMAKIVPLL 139
            M GI+  K +RA + E K + V    +E +RE  +   QAG++    KP T A +   L
Sbjct: 69  GMQGIDLLKNIRADE-ELKHLPVLMITAEAKREQIIEAAQAGVNGYIVKPFTAATLKEKL 127
Query: 140 EEL 142
           +++
Sbjct: 128 DKI 130

>pdb|2OQR|A Chain A, The Structure Of The Response Regulator Regx3 From Mycobacterium Tuberculosis Length = 230

Iteration: 1
 Score = 50.4 bits (119), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 33/108 (30%), Positives = 61/108 (56%), Gaps = 4/108 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLF-RTGAKFHIVFIDMEMPVMDGIE 88
           L+V+D+  +    + +L+  GF+  V  +G  A+  F R GA   IV +D+ +P M G +
Sbjct: 8   LIVEDEESLADPLAFLLRKEGFEATVVTDGPAALAEFDRAGAD--IVLLDLMLPGMSGTD 65
Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
             K +RA +    ++ VT+R+SE ++ V ++ G D   TKP +  +++
Sbjct: 66  VCKQLRA-RSSVPVIMVTARDSEIDKVVGLELGADDYVTKPYSARELI 112

>pdb|3KYJ|B Chain B, Crystal Structure Of The P1 Domain Of Chea3 In Complex With Chey6 From R. Sphaeroides Length = 145

Iteration: 1
 Score = 50.4 bits (119), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 30/84 (35%), Positives = 50/84 (59%), Gaps = 3/84 (3%)
Query: 26  PYFALVVDDDPMIRRIHSMILKSV-GFKVEV-AENGKEAVDLFRTGAKFHIVFIDMEMPV 83
           PY  ++VDD  M+R   +  +K++  FKV   A NG+EA+D         ++ +D+EMPV
Sbjct: 13  PYNVMIVDDAAMMRLYIASFIKTLPDFKVVAQAANGQEALDKLAAQPNVDLILLDIEMPV 72
Query: 84  MDGIEATKAMRAMKVESKIVGVTS 107
           MDG+E  +  + +K  +KI  ++S
Sbjct: 73  MDGMEFLRHAK-LKTRAKICMLSS 95

>pdb|2ID9|A Chain A, 1.85 A Structure Of T87iY106W PHOSPHONO-Chey Length = 128

Iteration: 1
 Score = 50.4 bits (119), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 40/110 (36%), Positives = 57/110 (51%), Gaps = 6/110 (5%)
Query: 30  LVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V     MP MDG+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISXWNMPNMDGLE 66
Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFM---QAGLDLCYTKPLTMAKI 135
             K +RA    S +  V    +E ++E  +   QAG      KP T A +
Sbjct: 67  LLKTIRADGAMSALP-VLMVIAEAKKENIIAAAQAGASGWVVKPFTAATL 115

>pdb|2PKX|A Chain A, E.Coli Response Regulator Phop Receiver Domain Length = 121

Iteration: 1
 Score = 50.1 bits (118), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 30/106 (28%), Positives = 56/106 (52%), Gaps = 1/106 (0%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVV+D+ ++R    + ++  G +V+ AE+ KEA D +       I  +D+ +P  DG+  
Sbjct: 4   LVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEA-DYYLNEHIPDIAIVDLGLPDEDGLSL 62
Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
            +  R+  V   I+ +T+R S  ++   + AG D   TKP  + ++
Sbjct: 63  IRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEV 108

>pdb|1NXO|A Chain A, Micarec Ph7.0 Length = 120

Iteration: 1
 Score = 50.1 bits (118), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 30/102 (29%), Positives = 58/102 (56%), Gaps = 2/102 (1%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDD+  I  I    +   G++V  A NG+EA++ F    +  I+ +D+ +P +DG+E 
Sbjct: 5   LIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFE-AEQPDIIILDLMLPEIDGLEV 63
Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLT 131
            K +R       I+ +++++SE ++ + ++ G D   TKP +
Sbjct: 64  AKTIRKTS-SVPILMLSAKDSEFDKVIGLELGADDYVTKPFS 104

>pdb|2ID7|A Chain A, 1.75 A Structure Of T87i Phosphono-Chey Length = 128

Iteration: 1
 Score = 49.3 bits (116), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 40/110 (36%), Positives = 57/110 (51%), Gaps = 6/110 (5%)
Query: 30  LVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V     MP MDG+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISXWNMPNMDGLE 66
Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFM---QAGLDLCYTKPLTMAKI 135
             K +RA    S +  V    +E ++E  +   QAG      KP T A +
Sbjct: 67  LLKTIRADGAMSALP-VLMVIAEAKKENIIAAAQAGASGYVVKPFTAATL 115

>pdb|1U8T|A Chain A, Crystal Structure Of Chey D13k Y106w Alone And In Complex With A Flim Peptide Length = 128

Iteration: 1
 Score = 48.9 bits (115), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 37/109 (33%), Positives = 52/109 (47%), Gaps = 4/109 (3%)
Query: 30  LVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVD     RRI   +LK +GF  VE AE+G +A++  + G  +  V  D   P  DG+E
Sbjct: 8   LVVDKFSTXRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNXPNXDGLE 66
Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
             K +RA    S   ++ VT+   +       QAG      KP T A +
Sbjct: 67  LLKTIRADGAXSALPVLXVTAEAKKENIIAAAQAGASGWVVKPFTAATL 115

>pdb|3KYI|B Chain B, Crystal Structure Of The Phosphorylated P1 Domain Of Chea3 In Complex With Chey6 From R. Sphaeroides Length = 145

Iteration: 1
 Score = 48.1 bits (113), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 29/84 (34%), Positives = 49/84 (58%), Gaps = 3/84 (3%)
Query: 26  PYFALVVDDDPMIRRIHSMILKSV-GFKVEV-AENGKEAVDLFRTGAKFHIVFIDMEMPV 83
           PY  ++VDD  M+R   +  +K++  FKV   A NG+EA+D         ++ +++EMPV
Sbjct: 13  PYNVMIVDDAAMMRLYIASFIKTLPDFKVVAQAANGQEALDKLAAQPNVDLILLNIEMPV 72
Query: 84  MDGIEATKAMRAMKVESKIVGVTS 107
           MDG+E  +  + +K  +KI  + S
Sbjct: 73  MDGMEFLRHAK-LKTRAKICMLAS 95

>pdb|3CG4|A Chain A, Crystal Structure Of Response Regulator Receiver Domain Protein (Chey- Like) From Methanospirillum Hungatei Jf-1 Length = 142

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 29/102 (28%), Positives = 52/102 (50%), Gaps = 3/102 (2%)
Query: 31  VVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEAT 90
           +VDDD  +R     IL   GF +  A++G + +DL + G    +V +D+  P  DG +  
Sbjct: 12  IVDDDAHVRIAVKTILSDAGFHIISADSGGQCIDLLKKGFS-GVVLLDIXXPGXDGWDTI 70
Query: 91  KAMRAMKVES--KIVGVTSRNSETEREVFMQAGLDLCYTKPL 130
           +A+    +E    IV +T++N+   + + +Q  +    TKP 
Sbjct: 71  RAILDNSLEQGIAIVXLTAKNAPDAKXIGLQEYVVDYITKPF 112

>pdb|3GWG|A Chain A, Crystal Structure Of Chey Of Helicobacter Pylori Length = 129

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 33/105 (31%), Positives = 54/105 (51%), Gaps = 3/105 (2%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI    L  +G++ V  AE+G EA +     A   ++  D  MP M+G++
Sbjct: 9   LVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANADTKVLITDWNMPEMNGLD 68
Query: 89  ATKAMRAMK--VESKIVGVTSRNSETEREVFMQAGLDLCYTKPLT 131
             K +R+     E  I+ +T+   + E    ++AG++    KP T
Sbjct: 69  LVKKVRSDSRFKEIPIIMITTEGGKAEVITALKAGVNNYIVKPFT 113

>pdb|3H1G|A Chain A, Crystal Structure Of Chey Mutant T84a Of Helicobacter Pylori Length = 129

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 33/105 (31%), Positives = 54/105 (51%), Gaps = 3/105 (2%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI    L  +G++ V  AE+G EA +     A   ++  D  MP M+G++
Sbjct: 9   LVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANADTKVLITDWNMPEMNGLD 68
Query: 89  ATKAMRAMK--VESKIVGVTSRNSETEREVFMQAGLDLCYTKPLT 131
             K +R+     E  I+ +T+   + E    ++AG++    KP T
Sbjct: 69  LVKKVRSDSRFKEIPIIMITAEGGKAEVITALKAGVNNYIVKPFT 113

>pdb|3C97|A Chain A, Crystal Structure Of The Response Regulator Receiver Domain Of A Signal Transduction Histidine Kinase From Aspergillus Oryzae Length = 140

Iteration: 1
 Score = 47.4 bits (111), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 29/111 (26%), Positives = 57/111 (51%), Gaps = 9/111 (8%)
Query: 26  PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMD 85
           P   L+ +D+ + R + +  L+     + V  NG +A+  ++   +F ++ +D++MPVMD
Sbjct: 10  PLSVLIAEDNDICRLVAAKALEKCTNDITVVTNGLQALQAYQ-NRQFDVIIMDIQMPVMD 68
Query: 86  GIEATKAMRAMK-----VESKIVGVTSRNSETEREVFMQAGLDLCYTKPLT 131
           G+EA   +R  +       + I+ +T+   + +R     A LD   +KPL 
Sbjct: 69  GLEAVSEIRNYERTHNTKRASIIAITADTIDDDRP---GAELDEYVSKPLN 116

>pdb|4EUK|A Chain A, Crystal Structure Length = 153

Iteration: 1
 Score = 47.4 bits (111), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 33/141 (23%), Positives = 71/141 (50%), Gaps = 31/141 (21%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+V+D+ +   +   ++K +G  +++A NG EA+    + + + +V +D+ MPV+DG++A
Sbjct: 12  LLVEDNKINIMVAKSMMKQLGHTMDIANNGVEAITAINSSS-YDLVLMDVCMPVLDGLKA 70
Query: 90  TKAMRAMK--------VESKIVGVTSRN---------------------SETEREVFMQA 120
           T+ +R+ +        +E+ +   TS N                     +E+  E +   
Sbjct: 71  TRLIRSYEETGNWNAAIEAGVDISTSENEQVCMRPTNRLPIIAMTANTLAESSEECYAN- 129
Query: 121 GLDLCYTKPLTMAKIVPLLEE 141
           G+D   +KP+T+ K+   L++
Sbjct: 130 GMDSFISKPVTLQKLRECLQQ 150

>pdb|1NXT|A Chain A, Micarec Ph 4.0 Length = 120

Iteration: 1
 Score = 47.0 bits (110), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 29/102 (28%), Positives = 57/102 (55%), Gaps = 2/102 (1%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDD+  I  I    +   G++V  A NG+EA++ F    +  I+ + + +P +DG+E 
Sbjct: 5   LIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFE-AEQPDIIILXLMLPEIDGLEV 63
Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLT 131
            K +R       I+ +++++SE ++ + ++ G D   TKP +
Sbjct: 64  AKTIRKTS-SVPILMLSAKDSEFDKVIGLELGADDYVTKPFS 104

>pdb|4E7O|A Chain A, Crystal Structure Of Receiver Domain Of Putative Narl Family Response Regulator Spr1814 From Streptococcus Pneumoniae Length = 150

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 36/113 (31%), Positives = 62/113 (54%), Gaps = 5/113 (4%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEV---AENGKEAVDLFRTGAKFHIVFIDMEMPVMDG 86
           LV +D  M+R     +L ++   VE    A+NG+EA+ L    +   I  +D+EMPV  G
Sbjct: 24  LVAEDQSMLRDAMCQLL-TLQPDVESVLQAKNGQEAIQLLEKES-VDIAILDVEMPVKTG 81
Query: 87  IEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLL 139
           +E  + +R+ K+E+K+V VT+       E  ++AG+D    K  ++A ++  L
Sbjct: 82  LEVLEWIRSEKLETKVVVVTTFKRAGYFERAVKAGVDAYVLKERSIADLMQTL 134

>pdb|3DGE|C Chain C, Structure Of A Histidine Kinase-response Regulator Complex Reveals Insights Into Two-component Signaling And A Novel Cis- Autophosphorylation Mechanism Length = 122

Iteration: 1
 Score = 45.8 bits (107), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 30/109 (27%), Positives = 58/109 (53%), Gaps = 3/109 (2%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDD  ++R+I S  LK  G++V  AENG+ A++         ++ +D+ MPVMDG   
Sbjct: 6   LLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKLSEFTP-DLIVLDIMMPVMDGFTV 64
Query: 90  TKAMRAMKVESKI--VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
            K ++  +   +I  + +T++  E +  + +  G      KP + ++ +
Sbjct: 65  LKKLQEKEEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKPFSPSQFI 113

>pdb|3TMY|A Chain A, Chey From Thermotoga Maritima (Mn-Iii) Length = 120

Iteration: 1
 Score = 45.8 bits (107), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 34/116 (29%), Positives = 62/116 (53%), Gaps = 2/116 (1%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           L+VDD   +R +   I+   G++V   A NG+EAV+ ++   K  IV +D+ MP M+GI+
Sbjct: 6   LIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKE-LKPDIVTMDITMPEMNGID 64
Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK 144
           A K +  +   +KI+  ++   +      ++AG      KP   +++V  L ++ K
Sbjct: 65  AIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKVSK 120

>pdb|1ZGZ|A Chain A, Crystal Structure Of The Receiver Domain Of Tmao Respiratory System Response Regulator Torr Length = 122

Iteration: 1
 Score = 45.8 bits (107), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 29/112 (25%), Positives = 62/112 (55%), Gaps = 4/112 (3%)
Query: 26  PYFALVVDDDPMIR-RIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVM 84
           P+  ++V+D+P+ + R+ S   +  G+ V V  +G    ++ +  +   ++ +D+ +P  
Sbjct: 2   PHHIVIVEDEPVTQARLQSYFTQE-GYTVSVTASGAGLREIXQNQS-VDLILLDINLPDE 59
Query: 85  DGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
           +G+  T+A+R  +    I+ VT R+   +R V ++ G D   TKPL + ++V
Sbjct: 60  NGLXLTRALRE-RSTVGIILVTGRSDRIDRIVGLEXGADDYVTKPLELRELV 110

>pdb|1SRR|A Chain A, Crystal Structure Of A Phosphatase Resistant Mutant Of Sporulation Response Regulator Spo0f From Bacillus Subtilis Length = 124

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/78 (32%), Positives = 46/78 (58%), Gaps = 1/78 (1%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDD   IR + + +    G++   A NG +A+D+  T  +  +V +DM++P MDGIE 
Sbjct: 7   LIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIV-TKERPDLVLLDMKIPGMDGIEI 65
Query: 90  TKAMRAMKVESKIVGVTS 107
            K M+ +    +++ +T+
Sbjct: 66  LKRMKVIDENIRVIIMTA 83

>pdb|1F51|E Chain E, A Transient Interaction Between Two Phosphorelay Proteins Trapped In A Crystal Lattice Reveals The Mechanism Of Molecular Recognition And Phosphotransfer In Singal Transduction Length = 119

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/78 (32%), Positives = 46/78 (58%), Gaps = 1/78 (1%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDD   IR + + +    G++   A NG +A+D+  T  +  +V +DM++P MDGIE 
Sbjct: 5   LIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIV-TKERPDLVLLDMKIPGMDGIEI 63
Query: 90  TKAMRAMKVESKIVGVTS 107
            K M+ +    +++ +T+
Sbjct: 64  LKRMKVIDENIRVIIMTA 81

>pdb|2JVI|A Chain A, Nmr Solution Structure Of The Hyper-Sporulation Response Regulator Spo0f Mutant H101a From Bacillus Subtilis Length = 132

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 29/106 (27%), Positives = 55/106 (51%), Gaps = 1/106 (0%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDD   IR + + +    G++   A NG +A+D+  T  +  +V +DM++P MDGIE 
Sbjct: 7   LIVDDQYGIRILLNEVFNKEGYQTFQAANGLQALDIV-TKERPDLVLLDMKIPGMDGIEI 65
Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
            K M+ +    +++ +T+       +   + G    + KP  + +I
Sbjct: 66  LKRMKVIDENIRVIIMTAYGELDMIQESKELGALTAFAKPFDIDEI 111

>pdb|3NHZ|A Chain A, Structure Of N-Terminal Domain Of Mtra Length = 125

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 28/100 (28%), Positives = 54/100 (54%), Gaps = 2/100 (2%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDDD  +  + +++L+  GF   V  +G +A+   R   +  +V +D+ +P M+GI+ 
Sbjct: 9   LVVDDDASLAEMLTIVLRGEGFDTAVIGDGTQALTAVRE-LRPDLVLLDLMLPGMNGIDV 67
Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKP 129
            + +RA      IV +T++    +  + +++G D    KP
Sbjct: 68  CRVLRA-DSGVPIVMLTAKTDTVDVVLGLESGADDYIMKP 106

>pdb|2JVK|A Chain A, Nmr Solution Structure Of The Hyper-Sporulation Response Regulator Spo0f Mutant L66a From Bacillus Subtilis Length = 132

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/78 (32%), Positives = 46/78 (58%), Gaps = 1/78 (1%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDD   IR + + +    G++   A NG +A+D+  T  +  +V +DM++P MDGIE 
Sbjct: 7   LIVDDQYGIRILLNEVFNKEGYQTFQAANGLQALDIV-TKERPDLVLLDMKIPGMDGIEI 65
Query: 90  TKAMRAMKVESKIVGVTS 107
            K M+ +    +++ +T+
Sbjct: 66  AKRMKVIDENIRVIIMTA 83

>pdb|3H1F|A Chain A, Crystal Structure Of Chey Mutant D53a Of Helicobacter Pylori Length = 129

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 32/105 (30%), Positives = 53/105 (50%), Gaps = 3/105 (2%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI    L  +G++ V  AE+G EA +     A   ++     MP M+G++
Sbjct: 9   LVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANADTKVLITAWNMPEMNGLD 68
Query: 89  ATKAMRAMK--VESKIVGVTSRNSETEREVFMQAGLDLCYTKPLT 131
             K +R+     E  I+ +T+   + E    ++AG++    KP T
Sbjct: 69  LVKKVRSDSRFKEIPIIMITTEGGKAEVITALKAGVNNYIVKPFT 113

>pdb|2JBA|A Chain A, Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D53a And Y102c Length = 127

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 31/109 (28%), Positives = 56/109 (51%), Gaps = 3/109 (2%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVV+D+  IR +   +L+  GF+   AE+   AV+         ++ +   +P   GI+ 
Sbjct: 6   LVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWP-DLILLAWMLPGGSGIQF 64
Query: 90  TKAMR--AMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
            K +R  +M  +  +V +T+R  E +R   ++ G D C TKP +  ++V
Sbjct: 65  IKHLRRESMTRDIPVVMLTARGEEEDRVRGLETGADDCITKPFSPKELV 113

>pdb|2JVJ|A Chain A, Nmr Solution Structure Of The Hyper-Sporulation Response Regulator Spo0f Mutant I90a From Bacillus Subtilis Length = 132

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 29/106 (27%), Positives = 55/106 (51%), Gaps = 1/106 (0%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDD   IR + + +    G++   A NG +A+D+  T  +  +V +DM++P MDGIE 
Sbjct: 7   LIVDDQYGIRILLNEVFNKEGYQTFQAANGLQALDIV-TKERPDLVLLDMKIPGMDGIEI 65
Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
            K M+ +    +++ +T+       +   + G    + KP  + +I
Sbjct: 66  LKRMKVIDENIRVIIMTAYGELDMAQESKELGALTHFAKPFDIDEI 111

>pdb|3Q15|C Chain C, Crystal Structure Of Raph Complexed With Spo0f Length = 126

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/78 (32%), Positives = 46/78 (58%), Gaps = 1/78 (1%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDD   IR + + +    G++   A NG +A+D+  T  +  +V +DM++P MDGIE 
Sbjct: 9   LIVDDQYGIRILLNEVFNKEGYQTFQAANGLQALDIV-TKERPDLVLLDMKIPGMDGIEI 67
Query: 90  TKAMRAMKVESKIVGVTS 107
            K M+ +    +++ +T+
Sbjct: 68  LKRMKVIDENIRVIIMTA 85

>pdb|1U0S|Y Chain Y, Chemotaxis Kinase Chea P2 Domain In Complex With Response Regulator Chey From The Thermophile Thermotoga Maritima Length = 118

Iteration: 1
 Score = 44.3 bits (103), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 61/114 (53%), Gaps = 2/114 (1%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           L+VDD   +R +   I+   G++V   A NG+EAV+ ++   K  IV +D+ MP M+GI+
Sbjct: 5   LIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKE-LKPDIVTMDITMPEMNGID 63
Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
           A K +  +   +KI+  ++   +      ++AG      KP   +++V  L ++
Sbjct: 64  AIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKV 117

>pdb|1PUX|A Chain A, Nmr Solution Structure Of Bef3-Activated Spo0f, 20 Conformers Length = 124

Iteration: 1
 Score = 44.3 bits (103), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 25/78 (32%), Positives = 46/78 (58%), Gaps = 1/78 (1%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDD   IR + + +    G++   A NG +A+D+  T  +  +V +DM++P MDGIE 
Sbjct: 7   LIVDDQYGIRILLNEVFNKEGYQTFQAANGLQALDIV-TKERPDLVLLDMKIPGMDGIEI 65
Query: 90  TKAMRAMKVESKIVGVTS 107
            K M+ +    +++ +T+
Sbjct: 66  LKRMKVIDENIRVIIMTA 83

>pdb|1ZY2|A Chain A, Crystal Structure Of The Phosphorylated Receiver Domain Of The Transcription Regulator Ntrc1 From Aquifex Aeolicus Length = 150

Iteration: 1
 Score = 44.3 bits (103), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 32/107 (29%), Positives = 56/107 (52%), Gaps = 3/107 (2%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LV++DD + R +    L   G KVE AE GKEA  L  +   F++V + + +P ++G+E 
Sbjct: 4   LVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLL-SEKHFNVVLLXLLLPDVNGLEI 62
Query: 90  TKAMRAMKVESKIVGVTSRNS-ETEREVFMQAGLDLCYTKPLTMAKI 135
            K ++    E++++ +T   + +T  E       D   TKP  + +I
Sbjct: 63  LKWIKERSPETEVIVITGHGTIKTAVEAMKMGAYDFL-TKPCMLEEI 108

>pdb|3I42|A Chain A, Structure Of Response Regulator Receiver Domain (Chey-Like) From Methylobacillus Flagellatus Length = 127

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 33/121 (27%), Positives = 62/121 (51%), Gaps = 12/121 (9%)
Query: 29  ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           AL+V+D          +L+ +GF+ +   +G +A+    T   +  VFID+ +P   G+ 
Sbjct: 6   ALIVEDYQAAAETFKELLEMLGFQADYVMSGTDALHAMSTRG-YDAVFIDLNLPDTSGLA 64
Query: 89  ATKAMRAMKVE--SKIVGVT--SRNSETER--EVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
             K +RA+ +E  SK V V+  ++N   +   E+F     D    KP+ +A + P+L+ +
Sbjct: 65  LVKQLRALPMEKTSKFVAVSGFAKNDLGKEACELF-----DFYLEKPIDIASLEPILQSI 119
Query: 143 Q 143
           +
Sbjct: 120 E 120

>pdb|3GL9|A Chain A, The Structure Of A Histidine Kinase-Response Regulator Complex Sheds Light Into Two-Component Signaling And Reveals A Novel Cis Autophosphorylation Mechanism Length = 122

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 32/109 (29%), Positives = 56/109 (51%), Gaps = 3/109 (2%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDD  ++R+I S  LK  G++V  AENG+ A++         IV   M MPVMDG   
Sbjct: 6   LLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKLSEFTPDLIVLXIM-MPVMDGFTV 64
Query: 90  TKAMRAMKVESKI--VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
            K ++  +   +I  + +T++  E +  + +  G      KP + ++ +
Sbjct: 65  LKKLQEKEEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKPFSPSQFI 113

>pdb|1S8N|A Chain A, Crystal Structure Of Rv1626 From Mycobacterium Tuberculosis Length = 205

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 34/119 (28%), Positives = 66/119 (55%), Gaps = 9/119 (7%)
Query: 26  PYFALVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFH---IVFIDMEM 81
           P   L+ +D+ +IR   + +L+  G++ V  A +G+EAV+L    A+ H   +V +D++M
Sbjct: 13  PRRVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVEL----AELHKPDLVIMDVKM 68
Query: 82  PVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLE 140
           P  DGI+A   + + ++ + IV +T+ +     E    AG      KP +++ ++P +E
Sbjct: 69  PRRDGIDAASEIASKRI-APIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIE 126

>pdb|1HEY|A Chain A, Investigating The Structural Determinants Of The P21-Like Triphosphate And Mg2+ Binding Site Length = 128

Iteration: 1
 Score = 43.5 bits (101), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 36/110 (32%), Positives = 54/110 (49%), Gaps = 6/110 (5%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVV +    +     +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 8   LVVGNGGTGKSTVRNLLKELGFNNVEDAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFM---QAGLDLCYTKPLTMAKI 135
             K +RA    S +  V    +E ++E  +   QAG      KP T A +
Sbjct: 67  LLKTIRADGAMSALP-VLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 115

>pdb|2JBA|B Chain B, Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D53a And Y102c Length = 127

Iteration: 1
 Score = 43.1 bits (100), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 30/109 (27%), Positives = 56/109 (51%), Gaps = 3/109 (2%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVV+D+  IR +   +L+  GF+   AE+   AV+         ++ +   +P   GI+ 
Sbjct: 6   LVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWP-DLILLAWMLPGGSGIQF 64
Query: 90  TKAMR--AMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
            K ++  +M  +  +V +T+R  E +R   ++ G D C TKP +  ++V
Sbjct: 65  IKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDCITKPFSPKELV 113

>pdb|3F7A|A Chain A, Structure Of Orthorhombic Crystal Form Of Pseudomonas Aeruginosa Rssb Length = 394

Iteration: 1
 Score = 42.7 bits (99), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 22/74 (29%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L++DDD ++R   +  L+   FKV  A NG + + +F +  +  +V  D+  P +DG+E 
Sbjct: 9   LIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIFES-EQPDLVICDLRXPQIDGLEL 67
Query: 90  TKAMRAMKVESKIV 103
            + +R    E+ I+
Sbjct: 68  IRRIRQTASETPII 81

>pdb|3EQ2|A Chain A, Structure Of Hexagonal Crystal Form Of Pseudomonas Aeruginosa Rssb Length = 394

Iteration: 1
 Score = 42.7 bits (99), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 22/74 (29%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L++DDD ++R   +  L+   FKV  A NG + + +F +  +  +V  D+  P +DG+E 
Sbjct: 9   LIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIFES-EQPDLVICDLRXPQIDGLEL 67
Query: 90  TKAMRAMKVESKIV 103
            + +R    E+ I+
Sbjct: 68  IRRIRQTASETPII 81

>pdb|3NNN|A Chain A, Bef3 Activated Drrd Receiver Domain Length = 122

Iteration: 1
 Score = 42.0 bits (97), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 29/108 (26%), Positives = 54/108 (50%), Gaps = 1/108 (0%)
Query: 29  ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
            LVV+D+  +  + +  LK   F V+V  +G+E +        F +V +D+ +PV DG E
Sbjct: 5   VLVVEDERDLADLITEALKKEMFTVDVCYDGEEGM-YMALNEPFDVVILDIMLPVHDGWE 63
Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
             K+MR   V + ++ +T+ +    R   +  G D    KP  + +++
Sbjct: 64  ILKSMRESGVNTPVLMLTALSDVEYRVKGLNMGADDYLPKPFDLRELI 111

>pdb|3LTE|A Chain A, Crystal Structure Of Response Regulator (Signal Receiver Domain) From Bermanella Marisrubri Length = 132

Iteration: 1
 Score = 42.0 bits (97), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 33/120 (27%), Positives = 58/120 (48%), Gaps = 14/120 (11%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFH-----IVFIDMEMPVM 84
           LVVDDD  +      +LK   ++VE+A NG      F  G K       I+ +D+ MP +
Sbjct: 10  LVVDDDQAMAAAIERVLKRDHWQVEIAHNG------FDAGIKLSTFEPAIMTLDLSMPKL 63
Query: 85  DGIEATKAMRAMKV--ESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
           DG++  +++R  KV  + KI+ V+  +    ++   + G D    KP     ++  + +L
Sbjct: 64  DGLDVIRSLRQNKVANQPKILVVSGLDKAKLQQAVTE-GADDYLEKPFDNDALLDRIHDL 122

>pdb|1ZH2|A Chain A, Crystal Structure Of The Calcium-Bound Receiver Domain Of Kdp Potassium Transport System Response Regulator Kdpe Length = 121

Iteration: 1
 Score = 42.0 bits (97), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 29/106 (27%), Positives = 55/106 (51%), Gaps = 2/106 (1%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+V+D+  IRR     L+  G +V  AE  +  + L     K  ++ +D+ +P  DGIE 
Sbjct: 5   LIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGL-LEAATRKPDLIILDLGLPDGDGIEF 63
Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKI 135
            + +R       IV +++R+ E+++   + AG D   +KP  + ++
Sbjct: 64  IRDLRQWSAVPVIV-LSARSEESDKIAALDAGADDYLSKPFGIGEL 108

>pdb|2FTK|E Chain E, Berylloflouride Spo0f Complex With Spo0b Length = 124

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 24/78 (30%), Positives = 45/78 (57%), Gaps = 1/78 (1%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDD   IR + + +    G++   A NG +A+D+  T  +  +V + M++P MDGIE 
Sbjct: 7   LIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIV-TKERPDLVLLXMKIPGMDGIEI 65
Query: 90  TKAMRAMKVESKIVGVTS 107
            K M+ +    +++ +T+
Sbjct: 66  LKRMKVIDENIRVIIMTA 83

>pdb|1B00|A Chain A, Phob Receiver Domain From Escherichia Coli Length = 127

Iteration: 1
 Score = 41.6 bits (96), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 30/109 (27%), Positives = 56/109 (51%), Gaps = 3/109 (2%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVV+D+  IR +   +L+  GF+   AE+   AV+         ++ +D  +P   GI+ 
Sbjct: 6   LVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWP-DLILLDWMLPGGSGIQF 64
Query: 90  TKAMR--AMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
            K ++  +M  +  +V +T+R  E +R   ++ G D   TKP +  ++V
Sbjct: 65  IKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELV 113

>pdb|1ZES|A Chain A, Bef3- Activated Phob Receiver Domain Length = 125

Iteration: 1
 Score = 41.6 bits (96), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 30/109 (27%), Positives = 56/109 (51%), Gaps = 3/109 (2%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVV+D+  IR +   +L+  GF+   AE+   AV+         ++ +D  +P   GI+ 
Sbjct: 6   LVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWP-DLILLDWMLPGGSGIQF 64
Query: 90  TKAMR--AMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
            K ++  +M  +  +V +T+R  E +R   ++ G D   TKP +  ++V
Sbjct: 65  IKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELV 113

>pdb|1KGS|A Chain A, Crystal Structure At 1.50 A Of An OmprPHOB HOMOLOG FROM THERMOTOGA Maritima Length = 225

Iteration: 1
 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 28/107 (26%), Positives = 52/107 (48%), Gaps = 1/107 (0%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVV+D+  +  + +  LK   F V+V  +G+E          F +V +D+ +PV DG E 
Sbjct: 6   LVVEDERDLADLITEALKKEXFTVDVCYDGEEGX-YXALNEPFDVVILDIXLPVHDGWEI 64
Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
            K+ R   V + ++ +T+ +    R   +  G D    KP  + +++
Sbjct: 65  LKSXRESGVNTPVLXLTALSDVEYRVKGLNXGADDYLPKPFDLRELI 111

>pdb|3M6M|D Chain D, Crystal Structure Of Rpff Complexed With Rec Domain Of Rpfc Length = 143

Iteration: 1
 Score = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 59/132 (44%), Gaps = 9/132 (6%)
Query: 19  NPVSKNRPYF----ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHI 74
           NP  ++R        LV DD    R +   +L+  G KV +  NG E V        +  
Sbjct: 3   NPFLRHRARVRSMRMLVADDHEANRMVLQRLLEKAGHKV-LCVNGAEQVLDAMAEEDYDA 61
Query: 75  VFIDMEMPVMDGIEATKAMRAMKVE----SKIVGVTSRNSETEREVFMQAGLDLCYTKPL 130
           V +D+ MP M+G++  K +R M+      + +V +++  +        QAG      KP+
Sbjct: 62  VIVDLHMPGMNGLDMLKQLRVMQASGMRYTPVVVLSADVTPEAIRACEQAGARAFLAKPV 121
Query: 131 TMAKIVPLLEEL 142
             AK++  L +L
Sbjct: 122 VAAKLLDTLADL 133

>pdb|3HZH|A Chain A, Crystal Structure Of The Chex-Chey-Bef3-Mg+2 Complex From Borrelia Burgdorferi Length = 157

Iteration: 1
 Score = 40.4 bits (93), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 35/137 (25%), Positives = 62/137 (45%), Gaps = 10/137 (7%)
Query: 10  SSKKARISENPVSKNR--------PYFALVVDDDPMIRRIHSMILKSVGFKV-EVAENGK 60
           S +K  I+ +  SK R        P+  L+VDD     +  + I  S GF + + A +G+
Sbjct: 12  SIQKTTIAADSSSKPRGINYDTGIPFNVLIVDDSVFTVKQLTQIFTSEGFNIIDTAADGE 71
Query: 61  EAVDLFRTG-AKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQ 119
           EAV  ++       IV + + MP MDGI     +      ++++ +++   E   +  + 
Sbjct: 72  EAVIKYKNHYPNIDIVTLXITMPKMDGITCLSNIMEFDKNARVIMISALGKEQLVKDCLI 131
Query: 120 AGLDLCYTKPLTMAKIV 136
            G      KPL  AK++
Sbjct: 132 KGAKTFIVKPLDRAKVL 148

>pdb|1P6U|A Chain A, Nmr Structure Of The Bef3-Activated Structure Of The Response Regulator Chey2-Mg2+ From Sinorhizobium Meliloti Length = 129

Iteration: 1
 Score = 39.3 bits (90), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 31/115 (26%), Positives = 55/115 (47%), Gaps = 6/115 (5%)
Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           L+VDD    R +    L+ +GFK +  A +G++ + +       H+V  D  MP MDG+ 
Sbjct: 10  LIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIMAQN-PHHLVISDFNMPKMDGLG 68
Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQA---GLDLCYTKPLTMAKIVPLLE 140
             +A+RA     K   +    ++ +R +  +A   G +    KP T+ K+   +E
Sbjct: 69  LLQAVRANPATKKAAFII-LTAQGDRALVQKAAALGANNVLAKPFTIEKMKAAIE 122

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	145
2ayx_A	254	Sensor kinase protein RCSC; two independent struct	2e-29
3luf_A	259	Two-component system response regulator/ggdef doma	2e-28
3luf_A	259	Two-component system response regulator/ggdef doma	2e-19
3m6m_D	143	Sensory/regulatory protein RPFC; RPFF, REC, enoyl-	2e-27
3i42_A	127	Response regulator receiver domain protein (CHEY-	6e-27
1mb3_A	124	Cell division response regulator DIVK; signal tran	8e-26
1dcf_A	136	ETR1 protein; beta-alpha five sandwich, transferas	4e-24
3c97_A	140	Signal transduction histidine kinase; structural g	6e-23
3kht_A	144	Response regulator; PSI-II, 11023K, structural gen	9e-23
1jbe_A	128	Chemotaxis protein CHEY; signaling protein; 1.08A	1e-22
3mm4_A	206	Histidine kinase homolog; receiver domain, CKI1, c	3e-22
2r25_B	133	Osmosensing histidine protein kinase SLN1; alpha5-	3e-22
3eq2_A	394	Probable two-component response regulator; adaptor	9e-22
3ilh_A	146	Two component response regulator; NYSGXRC, PSI-II,	4e-21
3h1g_A	129	Chemotaxis protein CHEY homolog; sulfate-bound CHE	1e-20
1p6q_A	129	CHEY2; chemotaxis, signal transduction, response r	1e-20
3hdg_A	137	Uncharacterized protein; two-component sensor acti	2e-20
3grc_A	140	Sensor protein, kinase; protein structure initiati	3e-20
1w25_A	459	Stalked-cell differentiation controlling protein;	4e-20
1w25_A	459	Stalked-cell differentiation controlling protein;	1e-11
3snk_A	135	Response regulator CHEY-like protein; P-loop conta	1e-19
3crn_A	132	Response regulator receiver domain protein, CHEY-;	3e-19
3r0j_A	250	Possible two component system response transcript	7e-19
3eod_A	130	Protein HNR; response regulator, phosphoprotein, t	3e-18
2qvg_A	143	Two component response regulator; NYSGXRC, PSI-2,	4e-18
3a10_A	116	Response regulator; phosphoacceptor, signaling pro	4e-18
1srr_A	124	SPO0F, sporulation response regulatory protein; as	5e-18
3lte_A	132	Response regulator; structural genomics, PSI, prot	2e-17
3hzh_A	157	Chemotaxis response regulator (CHEY-3); phosphatas	3e-17
2qxy_A	142	Response regulator; regulation of transcription, N	4e-17
2zay_A	147	Response regulator receiver protein; structural ge	4e-17
3hdv_A	136	Response regulator; PSI-II, structural genomics, P	4e-17
2b4a_A	138	BH3024; flavodoxin-like fold, structural genomics,	4e-17
3eqz_A	135	Response regulator; structural genomics, unknown f	5e-17
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	5e-17
3rqi_A	184	Response regulator protein; structural genomics, s	5e-17
3bre_A	358	Probable two-component response regulator; protein	6e-17
3lua_A	140	Response regulator receiver protein; two-component	7e-17
2rdm_A	132	Response regulator receiver protein; structural ge	8e-17
3cg4_A	142	Response regulator receiver domain protein (CHEY-;	8e-17
3nhm_A	133	Response regulator; protein structure initiative I	1e-16
3h5i_A	140	Response regulator/sensory box protein/ggdef domai	1e-16
3gt7_A	154	Sensor protein; structural genomics, signal receiv	1e-16
3gl9_A	122	Response regulator; beta-sheet, surrounded by alph	2e-16
3jte_A	143	Response regulator receiver protein; structural ge	2e-16
3cfy_A	137	Putative LUXO repressor protein; structural genomi	2e-16
1tmy_A	120	CHEY protein, TMY; chemotaxis, phosphoryl transfer	2e-16
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	2e-16
1zh2_A	121	KDP operon transcriptional regulatory protein KDPE	3e-16
1k66_A	149	Phytochrome response regulator RCPB; CHEY homologu	3e-16
1mvo_A	136	PHOP response regulator; phosphate regulon, transc	4e-16
2oqr_A	230	Sensory transduction protein REGX3; response regul	7e-16
3c3m_A	138	Response regulator receiver protein; structural ge	9e-16
2gwr_A	238	DNA-binding response regulator MTRA; two-component	1e-15
1xhf_A	123	DYE resistance, aerobic respiration control protei	1e-15
2a9o_A	120	Response regulator; essential protein, YYCF/YYCG h	2e-15
3f6p_A	120	Transcriptional regulatory protein YYCF; unphospho	2e-15
2qzj_A	136	Two-component response regulator; 11017X, PSI-II,	2e-15
2j48_A	119	Two-component sensor kinase; pseudo-receiver, circ	2e-15
3n53_A	140	Response regulator receiver modulated diguanylate;	3e-15
2rjn_A	154	Response regulator receiver:metal-dependent phosph	4e-15
3cnb_A	143	DNA-binding response regulator, MERR family; signa	7e-15
3f6c_A	134	Positive transcription regulator EVGA; structural	8e-15
1ys7_A	233	Transcriptional regulatory protein PRRA; response	9e-15
3cu5_A	141	Two component transcriptional regulator, ARAC FAM;	1e-14
3hv2_A	153	Response regulator/HD domain protein; PSI-2, NYSGX	1e-14
3t6k_A	136	Response regulator receiver; flavodoxin-like, stru	1e-14
1p2f_A	220	Response regulator; DRRB, OMPR/PHOB, transcription	1e-14
1zgz_A	122	Torcad operon transcriptional regulatory protein;	1e-14
1dc7_A	124	NTRC, nitrogen regulation protein; receiver domain	1e-14
3kcn_A	151	Adenylate cyclase homolog; SGX, PSI 2, structural	1e-14
3heb_A	152	Response regulator receiver domain protein (CHEY);	2e-14
2jba_A	127	Phosphate regulon transcriptional regulatory PROT;	2e-14
1i3c_A	149	Response regulator RCP1; phytochrome, signaling pr	2e-14
3cg0_A	140	Response regulator receiver modulated diguanylate	3e-14
4dad_A	146	Putative pilus assembly-related protein; response	6e-14
2pl1_A	121	Transcriptional regulatory protein PHOP; CHEY-like	1e-13
1yio_A	208	Response regulatory protein; transcription regulat	1e-13
1qkk_A	155	DCTD, C4-dicarboxylate transport transcriptional r	2e-13
3q9s_A	249	DNA-binding response regulator; DNA binding protei	2e-13
1k68_A	140	Phytochrome response regulator RCPA; phosphorylate	3e-13
2qsj_A	154	DNA-binding response regulator, LUXR family; struc	3e-13
1a04_A	215	Nitrate/nitrite response regulator protein NARL; s	5e-13
3b2n_A	133	Uncharacterized protein Q99UF4; structural genomic	5e-13
4e7p_A	150	Response regulator; DNA binding, cytosol, transcri	5e-13
2gkg_A	127	Response regulator homolog; social motility, recei	6e-13
2jk1_A	139	HUPR, hydrogenase transcriptional regulatory prote	6e-13
3kyj_B	145	CHEY6 protein, putative histidine protein kinase;	7e-13
3cz5_A	153	Two-component response regulator, LUXR family; str	7e-13
1kgs_A	225	DRRD, DNA binding response regulator D; DNA-bindin	1e-12
2qr3_A	140	Two-component system response regulator; structura	3e-12
1s8n_A	205	Putative antiterminator; RV1626, structural genomi	3e-12
2qv0_A	143	Protein MRKE; structural genomics, transcription,	3e-12
3eul_A	152	Possible nitrate/nitrite response transcriptional	4e-12
3c3w_A	225	Two component transcriptional regulatory protein;	6e-12
3sy8_A	400	ROCR; TIM barrel phosphodiesterase-A, transcriptio	7e-12
1dbw_A	126	Transcriptional regulatory protein FIXJ; doubly wo	1e-11
3klo_A	225	Transcriptional regulator VPST; REC domain, HTH do	1e-11
1dz3_A	130	Stage 0 sporulation protein A; response regulator,	2e-11
3n0r_A	286	Response regulator; sigma factor, receiver, two-co	2e-11
1a2o_A	349	CHEB methylesterase; bacterial chemotaxis, adaptat	1e-10
3t8y_A	164	CHEB, chemotaxis response regulator protein-glutam	9e-10
2pln_A	137	HP1043, response regulator; signaling protein; 1.8	2e-09
2hqr_A	223	Putative transcriptional regulator; phosporylation	3e-09
3kto_A	136	Response regulator receiver protein; PSI-II,struct	1e-08
1qo0_D	196	AMIR; binding protein, gene regulator, receptor; 2	7e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-05

>2ayx_A Sensor kinase protein RCSC; two independent structural domains, transferase; NMR {Escherichia coli} SCOP: c.23.1.1 c.23.1.6 PDB: 2ayz_A 2ayy_A Length = 254

 Score =  106 bits (266), Expect = 2e-29
 Identities = 40/136 (29%), Positives = 72/136 (52%), Gaps = 1/136 (0%)

Query: 5   AEGASSSKKARISENPVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVD 64
            E    +     ++  VS N     LVVDD P+ RR+ +  L S+G++ + A +G +A++
Sbjct: 108 MESDDPANALPSTDKAVSDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALN 167

Query: 65  LFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDL 124
           +        IV  D+ MP MDG   T+ +R + +   ++GVT+     E++  +++G+D 
Sbjct: 168 VLSKNH-IDIVLSDVNMPNMDGYRLTQRIRQLGLTLPVIGVTANALAEEKQRCLESGMDS 226

Query: 125 CYTKPLTMAKIVPLLE 140
           C +KP+T+  I   L 
Sbjct: 227 CLSKPVTLDVIKQTLT 242

>3luf_A Two-component system response regulator/ggdef domain protein; structural genomics, ASA_2441, PSI-2, protein structure initiative; HET: MSE; 1.76A {Aeromonas salmonicida} PDB: 3mf4_A* Length = 259

 Score =  104 bits (261), Expect = 2e-28
 Identities = 27/131 (20%), Positives = 54/131 (41%), Gaps = 6/131 (4%)

Query: 20  PVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDM 79
            +  N+    LVVDD    R      L+    +V  A + +EA+          +V +D 
Sbjct: 118 RLYLNQQIEVLVVDDSRTSRHRTMAQLRKQLLQVHEASHAREALATLEQHPAIRLVLVDY 177

Query: 80  EMPVMDGIEATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLT----MA 133
            MP +DGI   + +R    + +  I+G++  +       +++ G +    +P        
Sbjct: 178 YMPEIDGISLVRMLRERYSKQQLAIIGISVSDKRGLSARYLKQGANDFLNQPFEPEELQC 237

Query: 134 KIVPLLEELQK 144
           ++   LE L++
Sbjct: 238 RVSHNLEALEQ 248

>3luf_A Two-component system response regulator/ggdef domain protein; structural genomics, ASA_2441, PSI-2, protein structure initiative; HET: MSE; 1.76A {Aeromonas salmonicida} PDB: 3mf4_A* Length = 259

 Score = 80.8 bits (200), Expect = 2e-19
 Identities = 27/118 (22%), Positives = 51/118 (43%), Gaps = 5/118 (4%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+V+D   IRR+    +         A +  E     + G ++ +  +D+ +P     EA
Sbjct: 8   LIVEDSMTIRRMLIQAIAQQTGLEIDAFDTLEGARHCQ-GDEYVVALVDLTLPDAPSGEA 66

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMA--KIVPLLEELQKN 145
            K +    +   +V +T+  SE +RE +++AG+     K    +    V L+  L  N
Sbjct: 67  VKVLLERGL--PVVILTADISEDKREAWLEAGVLDYVMKDSRHSLQYAVGLVHRLYLN 122

>3m6m_D Sensory/regulatory protein RPFC; RPFF, REC, enoyl-COA hydratase, lyase-transferase COMP; 2.50A {Xanthomonas campestris PV} Length = 143

 Score = 98.4 bits (246), Expect = 2e-27
 Identities = 33/134 (24%), Positives = 56/134 (41%), Gaps = 12/134 (8%)

Query: 19  NPVSKNRPYFA----LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHI 74
           NP  ++R        LV DD    R +   +L+  G KV      ++ +D       +  
Sbjct: 3   NPFLRHRARVRSMRMLVADDHEANRMVLQRLLEKAGHKVLCVNGAEQVLDAMAEED-YDA 61

Query: 75  VFIDMEMPVMDGIEATKAMRAMKVESK----IVGVTSRNSETEREVFMQAGLDLCYTKPL 130
           V +D+ MP M+G++  K +R M+        +V +++  +        QAG      KP+
Sbjct: 62  VIVDLHMPGMNGLDMLKQLRVMQASGMRYTPVVVLSADVTPEAIRACEQAGARAFLAKPV 121

Query: 131 TMAKIVPLLEELQK 144
             AK   LL+ L  
Sbjct: 122 VAAK---LLDTLAD 132

>3i42_A Response regulator receiver domain protein (CHEY- like); structural genomics, PSI-2, protein structure initiative; 2.15A {Methylobacillus flagellatus KT} Length = 127

 Score = 96.5 bits (241), Expect = 6e-27
 Identities = 27/115 (23%), Positives = 54/115 (46%), Gaps = 4/115 (3%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+V+D          +L+ +GF+ +   +G +A+    T   +  VFID+ +P   G+  
Sbjct: 7   LIVEDYQAAAETFKELLEMLGFQADYVMSGTDALHAMSTR-GYDAVFIDLNLPDTSGLAL 65

Query: 90  TKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
            K +RA+ +E     V V+   ++ +         D    KP+ +A + P+L+ +
Sbjct: 66  VKQLRALPMEKTSKFVAVS-GFAKNDLGKEACELFDFYLEKPIDIASLEPILQSI 119

>1mb3_A Cell division response regulator DIVK; signal transduction protein, structural proteomics in europe, spine, structural genomics; 1.41A {Caulobacter vibrioides} SCOP: c.23.1.1 PDB: 1m5u_A 1mav_A 1mb0_A 1m5t_A Length = 124

 Score = 93.3 bits (233), Expect = 8e-26
 Identities = 23/115 (20%), Positives = 60/115 (52%), Gaps = 3/115 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+V+D+ +  ++   +L++ G++      G  A+ + R   K  ++ +D+++P + G+E 
Sbjct: 5   LIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIAREN-KPDLILMDIQLPEISGLEV 63

Query: 90  TKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
           TK ++     +   +V VT+   + + E   + G +   +KP+++   +  ++ L
Sbjct: 64  TKWLKEDDDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKPISVVHFLETIKRL 118

>1dcf_A ETR1 protein; beta-alpha five sandwich, transferase; 2.50A {Arabidopsis thaliana} SCOP: c.23.1.2 Length = 136

 Score = 89.9 bits (224), Expect = 4e-24
 Identities = 24/118 (20%), Positives = 57/118 (48%), Gaps = 7/118 (5%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LV+D++ + R +   +L  +G +V    + +E + +     +  +VF+D+ MP ++  + 
Sbjct: 11  LVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVS--HEHKVVFMDVCMPGVENYQI 68

Query: 90  TKAMRAMKVESK-----IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
              +     + +     +V ++    ++ +E  M  GLD    KP+++  I  +L +L
Sbjct: 69  ALRIHEKFTKQRHQRPLLVALSGNTDKSTKEKCMSFGLDGVLLKPVSLDNIRDVLSDL 126

>3c97_A Signal transduction histidine kinase; structural genomics, signaling, PSI-2, protein structure initiative; 1.70A {Aspergillus oryzae RIB40} Length = 140

 Score = 86.9 bits (216), Expect = 6e-23
 Identities = 29/120 (24%), Positives = 59/120 (49%), Gaps = 12/120 (10%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+ +D+ + R + +  L+     + V  NG +A+  ++   +F ++ +D++MPVMDG+EA
Sbjct: 14  LIAEDNDICRLVAAKALEKCTNDITVVTNGLQALQAYQNR-QFDVIIMDIQMPVMDGLEA 72

Query: 90  TKAMRAMKVESK-----IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK 144
              +R  +         I+ +T+   + +R     A LD   +KPL   +   L + +  
Sbjct: 73  VSEIRNYERTHNTKRASIIAITADTIDDDRP---GAELDEYVSKPLNPNQ---LRDVVLT 126

>3kht_A Response regulator; PSI-II, 11023K, structural genomics, Pro structure initiative, NEW YORK SGX research center for STRU genomics, nysgxrc; 2.10A {Hahella chejuensis} Length = 144

 Score = 86.5 bits (215), Expect = 9e-23
 Identities = 25/119 (21%), Positives = 49/119 (41%), Gaps = 7/119 (5%)

Query: 30  LVVDDDPMIRRIHSMILKSVGF--KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGI 87
           LVV+D+P    +   +L       ++E  +NG +A+   +   K+ ++ +D+ +P+ +G 
Sbjct: 9   LVVEDNPDDIALIRRVLDRKDIHCQLEFVDNGAKALYQVQQA-KYDLIILDIGLPIANGF 67

Query: 88  EATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK 144
           E   A+R         IV +T   S+   +  M AG      K      +      +  
Sbjct: 68  EVMSAVRKPGANQHTPIVILTDNVSDDRAKQCMAAGASSVVDKSSN--NVTDFYGRIYA 124

>1jbe_A Chemotaxis protein CHEY; signaling protein; 1.08A {Escherichia coli} SCOP: c.23.1.1 PDB: 3chy_A 1a0o_A 1cey_A 1bdj_A 1eay_A 1f4v_A 1ffg_A 1ffs_A 1ffw_A 1fqw_A 2b1j_A 1chn_A 1djm_A 1kmi_Y* 1d4z_A 3olx_A 3olw_A 1cye_A 2che_A 2chf_A ... Length = 128

 Score = 85.4 bits (212), Expect = 1e-22
 Identities = 42/120 (35%), Positives = 60/120 (50%), Gaps = 8/120 (6%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI   +LK +GF  VE AE+G +A++  + G  +  V  D  MP MDG+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG-GYGFVISDWNMPNMDGLE 66

Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLT----MAKIVPLLEEL 142
             K +RA    S   ++ VT+   +       QAG      KP T      K+  + E+L
Sbjct: 67  LLKTIRAXXAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIFEKL 126

>3mm4_A Histidine kinase homolog; receiver domain, CKI1, cytokinin signaling, ROS fold, CHEY-like, transferase; 2.00A {Arabidopsis thaliana} PDB: 3mmn_A Length = 206

 Score = 86.7 bits (215), Expect = 3e-22
 Identities = 38/119 (31%), Positives = 61/119 (51%), Gaps = 18/119 (15%)

Query: 30  LVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGA------------KFHIVF 76
           LVVDD+ + R++ +  LK +G  +VE  ++GKEA+ L   G              F  +F
Sbjct: 65  LVVDDNFISRKVATGKLKKMGVSEVEQCDSGKEALRLVTEGLTQREEQGSVDKLPFDYIF 124

Query: 77  IDMEMPVMDGIEATKAMRAMKVESK----IVGVTSRNSETER-EVFMQAGLDLCYTKPL 130
           +D +MP MDG EAT+ +R ++        I+ V+  +  +E     +QAG+D    K L
Sbjct: 125 MDCQMPEMDGYEATREIRKVEKSYGVRTPIIAVSGHDPGSEEARETIQAGMDAFLDKSL 183

>2r25_B Osmosensing histidine protein kinase SLN1; alpha5-BETA5, response regulator, four helix bundle, histidine phosphotransfer (HPT) protein; 1.70A {Saccharomyces cerevisiae} SCOP: c.23.1.1 PDB: 1oxk_B 1oxb_B Length = 133

 Score = 84.5 bits (210), Expect = 3e-22
 Identities = 32/121 (26%), Positives = 69/121 (57%), Gaps = 9/121 (7%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFR----TGAKFHIVFIDMEMPVM 84
           LVV+D+ + + +   +L   G + +E+A +G+EA D  +     G  ++++F+D++MP +
Sbjct: 6   LVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGENYNMIFMDVQMPKV 65

Query: 85  DGIEATKAMRA-MKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ 143
           DG+ +TK +R  +   S IV +T+   ++  +  +++G++   +KP+   K   L   L 
Sbjct: 66  DGLLSTKMIRRDLGYTSPIVALTAFADDSNIKECLESGMNGFLSKPIKRPK---LKTILT 122

Query: 144 K 144
           +
Sbjct: 123 E 123

>3eq2_A Probable two-component response regulator; adaptor sigmas, signaling protein; 3.40A {Pseudomonas aeruginosa} PDB: 3f7a_A Length = 394

 Score = 88.4 bits (219), Expect = 9e-22
 Identities = 27/107 (25%), Positives = 54/107 (50%), Gaps = 1/107 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L++DDD ++R   +  L+   FKV  A NG + + +F +  +  +V  D+ MP +DG+E 
Sbjct: 9   LIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIFES-EQPDLVICDLRMPQIDGLEL 67

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
            + +R    E+ I+ ++     ++    ++ G      KPL    ++
Sbjct: 68  IRRIRQTASETPIIVLSGAGVMSDAVEALRLGAADYLIKPLEDLAVL 114

>3ilh_A Two component response regulator; NYSGXRC, PSI-II, protein S initiative, structural genomics; 2.59A {Cytophaga hutchinsonii} Length = 146

 Score = 82.4 bits (204), Expect = 4e-21
 Identities = 23/124 (18%), Positives = 53/124 (42%), Gaps = 11/124 (8%)

Query: 30  LVVDDDPMIRRIHSMILKSVGF--KVEVAENGKEAVDLFRT----GAKFHIVFIDMEMPV 83
           L++DDD ++  +++ I++      +++   +G  A++        G    I+ ID+ MP 
Sbjct: 13  LLIDDDDIVNFLNTTIIRMTHRVEEIQSVTSGNAAINKLNELYAAGRWPSIICIDINMPG 72

Query: 84  MDGIEATKAMRAMKVESK----IVGVTSRNSETEREV-FMQAGLDLCYTKPLTMAKIVPL 138
           ++G E     +      K    +  ++S     ++        +D   +KPLT   +  L
Sbjct: 73  INGWELIDLFKQHFQPMKNKSIVCLLSSSLDPRDQAKAEASDWVDYYVSKPLTANALNNL 132

Query: 139 LEEL 142
             ++
Sbjct: 133 YNKV 136

>3h1g_A Chemotaxis protein CHEY homolog; sulfate-bound CHEY, cytoplasm, flagellar rotatio magnesium, metal-binding, phosphoprotein; 1.70A {Helicobacter pylori} PDB: 3gwg_A 3h1e_A 3h1f_A Length = 129

 Score = 80.6 bits (200), Expect = 1e-20
 Identities = 34/117 (29%), Positives = 58/117 (49%), Gaps = 7/117 (5%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LVVDD   +RRI    L  +G++ V  AE+G EA +     A   ++  D  MP M+G++
Sbjct: 9   LVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANADTKVLITDWNMPEMNGLD 68

Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLT----MAKIVPLL 139
             K +R+     +  I+ +T+   + E    ++AG++    KP T      K+  +L
Sbjct: 69  LVKKVRSDSRFKEIPIIMITAEGGKAEVITALKAGVNNYIVKPFTPQVLKEKLEVVL 125

>1p6q_A CHEY2; chemotaxis, signal transduction, response regulator, structural proteomics in europe, spine, structural genomics; NMR {Sinorhizobium meliloti} SCOP: c.23.1.1 PDB: 1p6u_A Length = 129

 Score = 80.2 bits (199), Expect = 1e-20
 Identities = 31/121 (25%), Positives = 53/121 (43%), Gaps = 8/121 (6%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           L+VDD    R +    L+ +GFK +  A +G++ + +       H+V  D  MP MDG+ 
Sbjct: 10  LIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIMAQN-PHHLVISDFNMPKMDGLG 68

Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLT----MAKIVPLLEEL 142
             +A+RA     K   + +T++      +     G +    KP T     A I  +   L
Sbjct: 69  LLQAVRANPATKKAAFIILTAQGDRALVQKAAALGANNVLAKPFTIEKMKAAIEAVFGAL 128

Query: 143 Q 143
           +
Sbjct: 129 K 129

>3hdg_A Uncharacterized protein; two-component sensor activity, response regulator, PSI-II, 11227F, NYSGXRC, structural genomics; 2.27A {Wolinella succinogenes} Length = 137

 Score = 79.9 bits (198), Expect = 2e-20
 Identities = 25/116 (21%), Positives = 57/116 (49%), Gaps = 3/116 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+V+DD   R   S I+ +   +V  A +G+E   LF       ++  D+ MP + G+E 
Sbjct: 11  LIVEDDTDAREWLSTIISNHFPEVWSAGDGEEGERLFGLH-APDVIITDIRMPKLGGLEM 69

Query: 90  TKAMRAMKVESKIVGVTSRNS-ETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK 144
              ++A   +  ++ +++ +  +   +  ++ G+ L   KP+   +++  LE+ + 
Sbjct: 70  LDRIKAGGAKPYVIVISAFSEMKYFIKA-IELGVHLFLPKPIEPGRLMETLEDFRH 124

>3grc_A Sensor protein, kinase; protein structure initiative II(PSI II), NYSGXRC, 11025B, structural genomics; 2.21A {Polaromonas SP} Length = 140

 Score = 79.6 bits (197), Expect = 3e-20
 Identities = 26/118 (22%), Positives = 51/118 (43%), Gaps = 19/118 (16%)

Query: 9   SSSKKARISENPVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRT 68
           S + + RI             L+ +DDP I R+ +++L+  GF  ++  +  +A++    
Sbjct: 2   SLAPRPRI-------------LICEDDPDIARLLNLMLEKGGFDSDMVHSAAQALEQVAR 48

Query: 69  GAKFHIVFIDMEMPVMDGIEATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDL 124
              +  + +D+ +P  DG+   +A+R         IV V++   E E E        L
Sbjct: 49  -RPYAAMTVDLNLPDQDGVSLIRALRRDSRTRDLAIVVVSANAREGELEF---NSQPL 102

>1w25_A Stalked-cell differentiation controlling protein; two-component system, ggdef domain, cyclic dinucleotide, cyclic-digmp; HET: C2E; 2.70A {Caulobacter vibrioides} SCOP: c.23.1.1 c.23.1.1 d.58.29.2 PDB: 2v0n_A* 2wb4_A* Length = 459

 Score = 84.5 bits (209), Expect = 4e-20
 Identities = 26/109 (23%), Positives = 48/109 (44%), Gaps = 3/109 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDD     R+    L +  ++V  A +G  A+ +        I+ +D+ MP MDG   
Sbjct: 5   LVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARD-LPDIILLDVMMPGMDGFTV 63

Query: 90  TKAMRAMKVESKI--VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
            + ++       I  V +T+ +   +R   +++G     TKP+    + 
Sbjct: 64  CRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPIDDVMLF 112

>1w25_A Stalked-cell differentiation controlling protein; two-component system, ggdef domain, cyclic dinucleotide, cyclic-digmp; HET: C2E; 2.70A {Caulobacter vibrioides} SCOP: c.23.1.1 c.23.1.1 d.58.29.2 PDB: 2v0n_A* 2wb4_A* Length = 459

 Score = 59.8 bits (145), Expect = 1e-11
 Identities = 17/110 (15%), Positives = 42/110 (38%), Gaps = 5/110 (4%)

Query: 23  KNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMP 82
                  L+VDD+    +  +  L        V E+  E   +   G    +V ++    
Sbjct: 149 DGLGGRVLIVDDNERQAQRVAAELGVEHR--PVIESDPEKAKISAGGP-VDLVIVNAAAK 205

Query: 83  VMDGIEATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPL 130
             DG+  T A+R+ +   +  ++ +   +        ++ G++   ++P+
Sbjct: 206 NFDGLRFTAALRSEERTRQLPVLAMVDPDDRGRMVKALEIGVNDILSRPI 255

>3snk_A Response regulator CHEY-like protein; P-loop containing nucleoside triphosphate hydrolases, struct genomics; 2.02A {Mesorhizobium loti} Length = 135

 Score = 78.1 bits (193), Expect = 1e-19
 Identities = 18/105 (17%), Positives = 37/105 (35%), Gaps = 2/105 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSV-GFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
            +   DP  +R  +  L ++  + V V+E             +  IV +D+    + G  
Sbjct: 18  ALFSSDPNFKRDVATRLDALAIYDVRVSETDDFLKGPPAD-TRPGIVILDLGGGDLLGKP 76

Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMA 133
                RA+     ++ V+   +  +  V ++        KPL   
Sbjct: 77  GIVEARALWATVPLIAVSDELTSEQTRVLVRMNASDWLHKPLDGK 121

>3crn_A Response regulator receiver domain protein, CHEY-; structural genomics, signal regulator receiver domain; HET: PHD; 1.58A {Methanospirillum hungatei jf-1} Length = 132

 Score = 77.1 bits (190), Expect = 3e-19
 Identities = 27/107 (25%), Positives = 47/107 (43%), Gaps = 1/107 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDDD  I      IL+  G++VE+A    E +        F++    +++P M+G E 
Sbjct: 7   LIVDDDTAILDSTKQILEFEGYEVEIAATAGEGLAKIENE-FFNLALFXIKLPDMEGTEL 65

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
            +    ++   K + VT   S       + AG D    KP+    ++
Sbjct: 66  LEKAHKLRPGMKKIMVTGYASLENSVFSLNAGADAYIMKPVNPRDLL 112

>3r0j_A Possible two component system response transcript positive regulator PHOP; beta-alpha fold, winged helix-turn-helix; 2.50A {Mycobacterium tuberculosis} Length = 250

 Score = 78.6 bits (193), Expect = 7e-19
 Identities = 41/141 (29%), Positives = 73/141 (51%), Gaps = 14/141 (9%)

Query: 4   GAEGASSSKKARISENPVSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAV 63
           G  G +++ +AR+             LVVDD+  I  + S+ LK  GF+V  A NG +A+
Sbjct: 14  GTPGENTTPEARV-------------LVVDDEANIVELLSVSLKFQGFEVYTATNGAQAL 60

Query: 64  DLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLD 123
           D  R   +   V +D+ MP MDG    + +RA  +++  + +T+R+S  ++   +  G D
Sbjct: 61  DRARET-RPDAVILDVXMPGMDGFGVLRRLRADGIDAPALFLTARDSLQDKIAGLTLGGD 119

Query: 124 LCYTKPLTMAKIVPLLEELQK 144
              TKP ++ ++V  L  + +
Sbjct: 120 DYVTKPFSLEEVVARLRVILR 140

>3eod_A Protein HNR; response regulator, phosphoprotein, two-component regulatory system, signaling protein; 1.75A {Escherichia coli K12} Length = 130

 Score = 74.5 bits (184), Expect = 3e-18
 Identities = 18/95 (18%), Positives = 46/95 (48%), Gaps = 5/95 (5%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+V+D+ + R +      S+G    +A +G +A++L        ++  D+ MP M+G++ 
Sbjct: 11  LIVEDEQVFRSLLDSWFSSLGATTVLAADGVDALELLGGF-TPDLMICDIAMPRMNGLKL 69

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDL 124
            + +R    ++ ++ +++  +  +        L L
Sbjct: 70  LEHIRNRGDQTPVLVISATENMADIA----KALRL 100

>2qvg_A Two component response regulator; NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.50A {Legionella pneumophila subsp} Length = 143

 Score = 74.6 bits (184), Expect = 4e-18
 Identities = 27/125 (21%), Positives = 57/125 (45%), Gaps = 11/125 (8%)

Query: 30  LVVDDDPMIRRIHSMILKSVG--FKVEVAENGKEAVD-LFRTGA----KFHIVFIDMEMP 82
           L ++DD +  +    +   +    K+E+A++G +A+D L+           ++ +D+ +P
Sbjct: 11  LYLEDDEVDIQSVERVFHKISSLIKIEIAKSGNQALDMLYGRNKENKIHPKLILLDINIP 70

Query: 83  VMDGIEATKAMRAMKVESKI--VGVTSRNSETEREVFMQAGLDLCY-TKPLTMAKIVPLL 139
            M+GIE  K +R     + I    +T+  +  ++  F    +   +  KPL   + + L 
Sbjct: 71  KMNGIEFLKELRDDSSFTDIEVFVLTAAYTSKDKLAFESLNIR-GHLIKPLDYGEAIKLF 129

Query: 140 EELQK 144
             LQ 
Sbjct: 130 WILQS 134

>3a10_A Response regulator; phosphoacceptor, signaling protein; HET: MSE PG4; 1.63A {Thermotoga maritima} PDB: 3a0r_B* 3a0u_A* Length = 116

 Score = 73.6 bits (182), Expect = 4e-18
 Identities = 30/85 (35%), Positives = 53/85 (62%), Gaps = 1/85 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDD+P IR +    L+  G++++ AENG+EA+  F +G  + +V +D+EMP + G+E 
Sbjct: 5   LVVDDEPNIRELLKEELQEEGYEIDTAENGEEALKKFFSG-NYDLVILDIEMPGISGLEV 63

Query: 90  TKAMRAMKVESKIVGVTSRNSETER 114
              +R  K ++KI+ +T+ +     
Sbjct: 64  AGEIRKKKKDAKIILLTAYSHYRSD 88

>1srr_A SPO0F, sporulation response regulatory protein; aspartate pocket, two component system; 1.90A {Bacillus subtilis} SCOP: c.23.1.1 PDB: 1pey_A 3q15_C 2ftk_E* 1fsp_A 1nat_A 1pux_A 2fsp_A 2jvj_A 2jvk_A 2jvi_A 1f51_E Length = 124

 Score = 73.7 bits (182), Expect = 5e-18
 Identities = 23/74 (31%), Positives = 42/74 (56%), Gaps = 1/74 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDD   IR + + +    G++   A NG +A+D+     +  +V +DM++P MDGIE 
Sbjct: 7   LIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTKE-RPDLVLLDMKIPGMDGIEI 65

Query: 90  TKAMRAMKVESKIV 103
            K M+ +    +++
Sbjct: 66  LKRMKVIDENIRVI 79

>3lte_A Response regulator; structural genomics, PSI, protein structure initiative, NYSG YORK structural genomix research consortium, nysgxrc; 2.00A {Bermanella marisrubri} Length = 132

 Score = 72.2 bits (178), Expect = 2e-17
 Identities = 27/96 (28%), Positives = 49/96 (51%), Gaps = 6/96 (6%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDDD  +      +LK   ++VE+A NG +A     T  +  I+ +D+ MP +DG++ 
Sbjct: 10  LVVDDDQAMAAAIERVLKRDHWQVEIAHNGFDAGIKLSTF-EPAIMTLDLSMPKLDGLDV 68

Query: 90  TKAMRAMKVESK-IVGVTSRNSETEREVFMQAGLDL 124
            +++R  KV ++  + V S   + +     Q  +  
Sbjct: 69  IRSLRQNKVANQPKILVVSGLDKAKL----QQAVTE 100

>3hzh_A Chemotaxis response regulator (CHEY-3); phosphatase, complex, response regulator, receiver domain, two-component signal transduction; HET: BFD; 1.96A {Borrelia burgdorferi} Length = 157

 Score = 72.6 bits (178), Expect = 3e-17
 Identities = 28/115 (24%), Positives = 53/115 (46%), Gaps = 2/115 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKV-EVAENGKEAVDLFR-TGAKFHIVFIDMEMPVMDGI 87
           L+VDD     +  + I  S GF + + A +G+EAV  ++       IV + + MP MDGI
Sbjct: 40  LIVDDSVFTVKQLTQIFTSEGFNIIDTAADGEEAVIKYKNHYPNIDIVTLXITMPKMDGI 99

Query: 88  EATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
                +      ++++ +++   E   +  +  G      KPL  AK++  +  +
Sbjct: 100 TCLSNIMEFDKNARVIMISALGKEQLVKDCLIKGAKTFIVKPLDRAKVLQRVMSV 154

>2qxy_A Response regulator; regulation of transcription, NYSGXRC, protein structure initiative II (PSI II), structural genomics; 1.95A {Thermotoga maritima} Length = 142

 Score = 71.8 bits (177), Expect = 4e-17
 Identities = 22/107 (20%), Positives = 47/107 (43%), Gaps = 2/107 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           +VVD+  +        L+  GF V  A+N +EA    R   K  +VF+D+     + +  
Sbjct: 8   MVVDESRITFLAVKNALEKDGFNVIWAKNEQEAFTFLRR-EKIDLVFVDV-FEGEESLNL 65

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
            + +R    ++K+  +++   +      ++AG      KP  +  ++
Sbjct: 66  IRRIREEFPDTKVAVLSAYVDKDLIINSVKAGAVDYILKPFRLDYLL 112

>2zay_A Response regulator receiver protein; structural genomics, NYSGXRC, target 11006U, protein structure initiative; 2.00A {Desulfuromonas acetoxidans} Length = 147

 Score = 71.9 bits (177), Expect = 4e-17
 Identities = 18/102 (17%), Positives = 38/102 (37%), Gaps = 3/102 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           ++VD            L   GF +    N  EAV +       H++  +  MP + G++ 
Sbjct: 12  MLVDTQLPALAASISALSQEGFDIIQCGNAIEAVPVAVK-THPHLIITEANMPKISGMDL 70

Query: 90  TKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKP 129
             +++     +   ++ ++ R +  E    +  G      KP
Sbjct: 71  FNSLKKNPQTASIPVIALSGRATAKEEAQLLDMGFIDFIAKP 112

>3hdv_A Response regulator; PSI-II, structural genomics, Pro structure initiative, NEW YORK SGX research center for STRU genomics, nysgxrc; 2.09A {Pseudomonas putida} Length = 136

 Score = 71.5 bits (176), Expect = 4e-17
 Identities = 18/66 (27%), Positives = 31/66 (46%)

Query: 30 LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
          LVVDD+ + R    + LKS G     A+  +EA        +  ++  D+ M    G++ 
Sbjct: 11 LVVDDNAVNREALILYLKSRGIDAVGADGAEEARLYLHYQKRIGLMITDLRMQPESGLDL 70

Query: 90 TKAMRA 95
           + +RA
Sbjct: 71 IRTIRA 76

>2b4a_A BH3024; flavodoxin-like fold, structural genomics, joint center for structural genomics, JCSG, protein structure initiative; 2.42A {Bacillus halodurans} SCOP: c.23.1.1 Length = 138

 Score = 71.5 bits (176), Expect = 4e-17
 Identities = 14/101 (13%), Positives = 36/101 (35%), Gaps = 5/101 (4%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
            +V+D+P    +    L  +G +V V  +G          +   ++ +  ++  +     
Sbjct: 19  TLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHRSQLSTCDLLIVSDQLVDLSIFSL 78

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY-TKP 129
              ++    +  ++ +T+   E       +  L   Y  KP
Sbjct: 79  LDIVKEQTKQPSVLILTTGRHELIE--SSEHNLS--YLQKP 115

>3eqz_A Response regulator; structural genomics, unknown function, PSI-2, protein struct initiative; 2.15A {Colwellia psychrerythraea} Length = 135

 Score = 71.5 bits (176), Expect = 5e-17
 Identities = 21/87 (24%), Positives = 38/87 (43%), Gaps = 2/87 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
            +VDDD +   +   I++ +   VE A     A        K  I+ +D+ MP MDGIE 
Sbjct: 7   FIVDDDTLTCNLLKTIVEPIFGNVE-AFQHPRAFLTLSLN-KQDIIILDLMMPDMDGIEV 64

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREV 116
            + +   K  + ++ ++  +S      
Sbjct: 65  IRHLAEHKSPASLILISGYDSGVLHSA 91

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A* Length = 387

 Score = 75.2 bits (186), Expect = 5e-17
 Identities = 26/77 (33%), Positives = 45/77 (58%), Gaps = 1/77 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LV++DD + R +    L   G KVE AE GKEA  L      F++V +D+ +P ++G+E 
Sbjct: 4   LVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLSEK-HFNVVLLDLLLPDVNGLEI 62

Query: 90  TKAMRAMKVESKIVGVT 106
            K ++    E++++ +T
Sbjct: 63  LKWIKERSPETEVIVIT 79

>3rqi_A Response regulator protein; structural genomics, seattle structural genomics center for infectious disease, ssgcid; HET: PHD CIT; 1.70A {Burkholderia pseudomallei} Length = 184

 Score = 72.3 bits (178), Expect = 5e-17
 Identities = 24/113 (21%), Positives = 49/113 (43%), Gaps = 1/113 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LV+DD+ +     +  L+  G+ V  A N  EA+ L     KF  + + + +    G+  
Sbjct: 11  LVIDDNEVFAGTLARGLERRGYAVRQAHNKDEALKLAGAE-KFEFITVXLHLGNDSGLSL 69

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
              +  ++ +++I+ +T   S       ++ G D    KP  +  I+  L+  
Sbjct: 70  IAPLCDLQPDARILVLTGYASIATAVQAVKDGADNYLAKPANVESILAALQTN 122

>3bre_A Probable two-component response regulator; protein-nucleotide complex, signaling protein; HET: C2E; 2.40A {Pseudomonas aeruginosa} PDB: 3i5a_A* Length = 358

 Score = 74.8 bits (184), Expect = 6e-17
 Identities = 22/103 (21%), Positives = 41/103 (39%), Gaps = 4/103 (3%)

Query: 30  LVVDDDPMIRR-IHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           L+VDD  MI   +   +    G       + ++AV +     K  ++  D+ MP +DG+ 
Sbjct: 22  LLVDDQAMIGEAVRRSLASEAGIDFHFCSDPQQAVAVANQI-KPTVILQDLVMPGVDGLT 80

Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKP 129
              A R         I+ ++++   T +     AG +    K 
Sbjct: 81  LLAAYRGNPATRDIPIIVLSTKEEPTVKSAAFAAGANDYLVKL 123

>3lua_A Response regulator receiver protein; two-component signal transduction system, histidine kinase, phosphorelay, receiver domain, nysgxrc; 2.40A {Clostridium thermocellum} Length = 140

 Score = 71.2 bits (175), Expect = 7e-17
 Identities = 20/104 (19%), Positives = 44/104 (42%), Gaps = 4/104 (3%)

Query: 30  LVVDDDPMIRRIHSMILKSVG-FKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPV-MDGI 87
           L++D     R    +I  ++G +     EN K+   +F+      ++ +D+  PV  +G+
Sbjct: 8   LLIDYFEYEREKTKIIFDNIGEYDFIEVENLKKFYSIFKDLDSITLIIMDIAFPVEKEGL 67

Query: 88  EATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKP 129
           E   A+R     +   ++  T  ++   R   ++  +     KP
Sbjct: 68  EVLSAIRNNSRTANTPVIIATKSDNPGYRHAALKFKVSDYILKP 111

>2rdm_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein struct initiative; HET: MSE; 1.76A {Sinorhizobium medicae} Length = 132

 Score = 70.7 bits (174), Expect = 8e-17
 Identities = 25/115 (21%), Positives = 47/115 (40%), Gaps = 5/115 (4%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPV-MDGIE 88
           L+ DD+ ++       L   GF V    +G +A+++ ++GA    V  D+      DG +
Sbjct: 9   LLADDEAILLLDFESTLTDAGFLVTAVSSGAKAIEMLKSGAAIDGVVTDIRFCQPPDGWQ 68

Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY-TKPLTMAKIVPLLEEL 142
             +  R +     IV ++        E       D     KP T A+++  + +L
Sbjct: 69  VARVAREIDPNMPIVYISGH---AALEWASNGVPDSIILEKPFTSAQLITAVSQL 120

>3cg4_A Response regulator receiver domain protein (CHEY-; structural genomics, unknown function; HET: MSE; 1.61A {Methanospirillum hungatei jf-1} Length = 142

 Score = 71.1 bits (175), Expect = 8e-17
 Identities = 23/73 (31%), Positives = 39/73 (53%), Gaps = 1/73 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           ++VDDD  +R     IL   GF +  A++G + +DL +      +V +D+ MP MDG + 
Sbjct: 11  MIVDDDAHVRIAVKTILSDAGFHIISADSGGQCIDLLKK-GFSGVVLLDIMMPGMDGWDT 69

Query: 90  TKAMRAMKVESKI 102
            +A+    +E  I
Sbjct: 70  IRAILDNSLEQGI 82

>3nhm_A Response regulator; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 2.19A {Myxococcus xanthus} Length = 133

 Score = 70.3 bits (173), Expect = 1e-16
 Identities = 24/117 (20%), Positives = 42/117 (35%), Gaps = 9/117 (7%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+V++   +R    ++L    F    A +G   +          ++  D+ M  MDG   
Sbjct: 8   LIVENSWTMRETLRLLLSG-EFDCTTAADGASGLQQALA-HPPDVLISDVNMDGMDGYAL 65

Query: 90  TKAMRAMKVESKI--VGVTSRNSETEREVFMQAGLDLCYTKPLT----MAKIVPLLE 140
               R+      I  + V+     TE     Q   D    KP+     +A++  LL 
Sbjct: 66  CGHFRSEPTLKHIPVIFVSGYAPRTEGPAD-QPVPDAYLVKPVKPPVLIAQLHALLA 121

>3h5i_A Response regulator/sensory box protein/ggdef domain protein; structural genomics, transcription, PSI-2; 1.90A {Carboxydothermus hydrogenoformans z-2901} Length = 140

 Score = 70.7 bits (174), Expect = 1e-16
 Identities = 24/101 (23%), Positives = 45/101 (44%), Gaps = 2/101 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMP-VMDGIE 88
           L+V+D     +  + IL   G+ VE+A  G+ AV+    G    ++ +D+E+   MDG++
Sbjct: 9   LIVEDSKFQAKTIANILNKYGYTVEIALTGEAAVEKVSGGWYPDLILMDIELGEGMDGVQ 68

Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKP 129
              A++ +  E  +V +T+       E            K 
Sbjct: 69  TALAIQQIS-ELPVVFLTAHTEPAVVEKIRSVTAYGYVMKS 108

>3gt7_A Sensor protein; structural genomics, signal receiver domain, kinase, PSI-2, protein structure initiative; 2.30A {Syntrophus aciditrophicus SB} Length = 154

 Score = 70.8 bits (174), Expect = 1e-16
 Identities = 25/102 (24%), Positives = 45/102 (44%), Gaps = 3/102 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+V+D P        IL+  G++ E   NG+EAV       +  ++  D+ MP MDG   
Sbjct: 11  LIVEDSPTQAEHLKHILEETGYQTEHVRNGREAVRFLSL-TRPDLIISDVLMPEMDGYAL 69

Query: 90  TKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKP 129
            + ++         ++ +T  +   +    ++ G D   TKP
Sbjct: 70  CRWLKGQPDLRTIPVILLTILSDPRDVVRSLECGADDFITKP 111

>3gl9_A Response regulator; beta-sheet, surrounded by alpha helices, BOTH sides, signaling protein; HET: BFD; 1.80A {Thermotoga maritima} PDB: 3dgf_C 3dge_C Length = 122

 Score = 69.8 bits (171), Expect = 2e-16
 Identities = 28/109 (25%), Positives = 57/109 (52%), Gaps = 3/109 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDD  ++R+I S  LK  G++V  AENG+ A++         ++ + + MPVMDG   
Sbjct: 6   LLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKLSE-FTPDLIVLXIMMPVMDGFTV 64

Query: 90  TKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
            K ++  +   +  ++ +T++  E +  + +  G      KP + ++ +
Sbjct: 65  LKKLQEKEEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKPFSPSQFI 113

>3jte_A Response regulator receiver protein; structural genomics, nysgrc, response regulator receiver domain, target 11226E, PSI-2; 1.90A {Clostridium thermocellum atcc 27405} Length = 143

 Score = 70.3 bits (173), Expect = 2e-16
 Identities = 18/78 (23%), Positives = 39/78 (50%), Gaps = 1/78 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFR-TGAKFHIVFIDMEMPVMDGIE 88
           LV+DD+  I +    +L+  G +V  A +  E + +F        +V  DM+MP + G++
Sbjct: 7   LVIDDESTILQNIKFLLEIDGNEVLTASSSTEGLRIFTENCNSIDVVITDMKMPKLSGMD 66

Query: 89  ATKAMRAMKVESKIVGVT 106
             + ++ +     ++ +T
Sbjct: 67  ILREIKKITPHMAVIILT 84

>3cfy_A Putative LUXO repressor protein; structural genomics, unknown function, uncharacterized protein, signal receiver domain; 2.50A {Vibrio parahaemolyticus rimd 2210633} Length = 137

 Score = 69.9 bits (172), Expect = 2e-16
 Identities = 12/74 (16%), Positives = 35/74 (47%), Gaps = 1/74 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+V+D   +  ++   +K   + +   E G++A+       K  ++ +D+++P M G + 
Sbjct: 8   LLVEDSTSLAILYKQYVKDEPYDIFHVETGRDAIQFIERS-KPQLIILDLKLPDMSGEDV 66

Query: 90  TKAMRAMKVESKIV 103
              +    + + ++
Sbjct: 67  LDWINQNDIPTSVI 80

>1tmy_A CHEY protein, TMY; chemotaxis, phosphoryl transfer, signal transduction; 1.90A {Thermotoga maritima} SCOP: c.23.1.1 PDB: 2tmy_A 3tmy_A 4tmy_A 1u0s_Y Length = 120

 Score = 69.5 bits (171), Expect = 2e-16
 Identities = 34/116 (29%), Positives = 62/116 (53%), Gaps = 2/116 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKV-EVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           L+VDD   +R +   I+   G++V   A NG+EAV+ ++   K  IV +D+ MP M+GI+
Sbjct: 6   LIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKE-LKPDIVTMDITMPEMNGID 64

Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK 144
           A K +  +   +KI+  ++   +      ++AG      KP   +++V  L ++ K
Sbjct: 65  AIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKVSK 120

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A Length = 368

 Score = 73.3 bits (181), Expect = 2e-16
 Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 1/77 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDD+  I    S IL+  G+  + A+  +EA    +    F ++ +D+ MP  DG+  
Sbjct: 4   LVVDDEESITSSLSAILEEEGYHPDTAKTLREAEKKIKEL-FFPVIVLDVWMPDGDGVNF 62

Query: 90  TKAMRAMKVESKIVGVT 106
              ++    +S ++ +T
Sbjct: 63  IDFIKENSPDSVVIVIT 79

>1zh2_A KDP operon transcriptional regulatory protein KDPE; two-component system, gene regulation, transcription factor, KDP potassium transport system; 2.00A {Escherichia coli} SCOP: c.23.1.1 PDB: 1zh4_A Length = 121

 Score = 69.0 bits (170), Expect = 3e-16
 Identities = 25/95 (26%), Positives = 49/95 (51%), Gaps = 6/95 (6%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+V+D+  IRR     L+  G +V  AE  +  +    T  K  ++ +D+ +P  DGIE 
Sbjct: 5   LIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATR-KPDLIILDLGLPDGDGIEF 63

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDL 124
            + +R       ++ +++R+ E+++ +   A LD 
Sbjct: 64  IRDLRQWS-AVPVIVLSARSEESDK-I---AALDA 93

>1k66_A Phytochrome response regulator RCPB; CHEY homologue, homodimer, APO-protein, (beta/alpha)5, signaling protein; 1.75A {Tolypothrix SP} SCOP: c.23.1.1 Length = 149

 Score = 69.6 bits (171), Expect = 3e-16
 Identities = 23/126 (18%), Positives = 51/126 (40%), Gaps = 13/126 (10%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEV--AENGKEAVDLFRTGAKFH---------IVFID 78
           LVV+D          +L+  G    +     G +A+D       +          ++ +D
Sbjct: 10  LVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSYCNPDIAPRPAVILLD 69

Query: 79  MEMPVMDGIEATKAMRAMKVESKI--VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
           + +P  DG E  + ++  +V  KI  V +T+ ++  + E+     +     KPL + ++ 
Sbjct: 70  LNLPGTDGREVLQEIKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEIDRLT 129

Query: 137 PLLEEL 142
             ++  
Sbjct: 130 ETVQTF 135

>1mvo_A PHOP response regulator; phosphate regulon, transcriptional regulatory protein, alpha/beta doubly wound fold, phosphorylation; 1.60A {Bacillus subtilis} SCOP: c.23.1.1 Length = 136

 Score = 69.1 bits (170), Expect = 4e-16
 Identities = 27/85 (31%), Positives = 49/85 (57%), Gaps = 1/85 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDD+  I  +    L+  G+ V  A +G+EA+    T  K  ++ +D+ +P +DGIE 
Sbjct: 7   LVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAETE-KPDLIVLDVMLPKLDGIEV 65

Query: 90  TKAMRAMKVESKIVGVTSRNSETER 114
            K +R  K+   I+ +T+++ E ++
Sbjct: 66  CKQLRQQKLMFPILMLTAKDEEFDK 90

>2oqr_A Sensory transduction protein REGX3; response regulator, winged-helix-turn-helix, DNA-binding, 3D swapping, two component system; 2.03A {Mycobacterium tuberculosis H37RV} Length = 230

 Score = 70.2 bits (173), Expect = 7e-16
 Identities = 33/106 (31%), Positives = 55/106 (51%), Gaps = 14/106 (13%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+V+D+  +    + +L+  GF+  V  +G  A+  F       IV +D+ +P M G + 
Sbjct: 8   LIVEDEESLADPLAFLLRKEGFEATVVTDGPAALAEFDRA-GADIVLLDLMLPGMSGTDV 66

Query: 90  TKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLC---Y-TKP 129
            K +RA    S   ++ VT+R+SE ++ V    GL+L    Y TKP
Sbjct: 67  CKQLRA---RSSVPVIMVTARDSEIDKVV----GLELGADDYVTKP 105

>3c3m_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein struct initiative; HET: MSE; 1.70A {Methanoculleus marisnigri JR1} Length = 138

 Score = 68.0 bits (167), Expect = 9e-16
 Identities = 24/102 (23%), Positives = 47/102 (46%), Gaps = 3/102 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDD PMI  +   +L+  G++   A +G+E ++         +V +D+ M  MDG E 
Sbjct: 7   LVVDDSPMIVDVFVTMLERGGYRPITAFSGEECLEALNA-TPPDLVLLDIMMEPMDGWET 65

Query: 90  TKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKP 129
            + ++         ++ +T++    E      + ++    KP
Sbjct: 66  LERIKTDPATRDIPVLMLTAKPLTPEEANEYGSYIEDYILKP 107

>2gwr_A DNA-binding response regulator MTRA; two-component regulatory system, transcription regulation, phosphorylation, OMPR family; 2.10A {Mycobacterium tuberculosis} PDB: 3nhz_A Length = 238

 Score = 70.3 bits (173), Expect = 1e-15
 Identities = 27/97 (27%), Positives = 52/97 (53%), Gaps = 10/97 (10%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDDD  +  + +++L+  GF   V  +G +A+   R   +  +V +D+ +P M+GI+ 
Sbjct: 9   LVVDDDASLAEMLTIVLRGEGFDTAVIGDGTQALTAVREL-RPDLVLLDLMLPGMNGIDV 67

Query: 90  TKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDL 124
            + +RA   +S   IV +T++    +  +    GL+ 
Sbjct: 68  CRVLRA---DSGVPIVMLTAKTDTVDVVL----GLES 97

>1xhf_A DYE resistance, aerobic respiration control protein ARCA; two-component system, gene regulation, transcription factor, anoxic redox control; 2.15A {Escherichia coli} SCOP: c.23.1.1 PDB: 1xhe_A Length = 123

 Score = 67.5 bits (166), Expect = 1e-15
 Identities = 18/85 (21%), Positives = 43/85 (50%), Gaps = 2/85 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+V+D+ + R     I ++ G+ V  A +G E   +       ++V +D+ +P  +G+  
Sbjct: 7   LIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSEY-DINLVIMDINLPGKNGLLL 65

Query: 90  TKAMRAMKVESKIVGVTSRNSETER 114
            + +R       ++ +T R++E ++
Sbjct: 66  ARELREQA-NVALMFLTGRDNEVDK 89

>2a9o_A Response regulator; essential protein, YYCF/YYCG homolog, signaling protein; 1.65A {Streptococcus pneumoniae} SCOP: c.23.1.1 PDB: 1nxo_A 1nxs_A 1nxv_A 1nxw_A 1nxx_A 1nxp_A 2a9p_A 2a9q_A 1nxt_A* 2a9r_A* Length = 120

 Score = 67.1 bits (165), Expect = 2e-15
 Identities = 25/85 (29%), Positives = 49/85 (57%), Gaps = 2/85 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDD+  I  I    +   G++V  A NG+EA++ F    +  I+ +D+ +P +DG+E 
Sbjct: 5   LIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAE-QPDIIILDLMLPEIDGLEV 63

Query: 90  TKAMRAMKVESKIVGVTSRNSETER 114
            K +R       I+ +++++SE ++
Sbjct: 64  AKTIRKTS-SVPILMLSAKDSEFDK 87

>3f6p_A Transcriptional regulatory protein YYCF; unphosphorelated, receiver domain, cytoplasm, DNA-binding, phosphoprotein, transcription regulation; 1.95A {Bacillus subtilis} PDB: 2zwm_A Length = 120

 Score = 66.7 bits (164), Expect = 2e-15
 Identities = 25/85 (29%), Positives = 49/85 (57%), Gaps = 2/85 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDD+  I  I    L+  G++V  A +G EAV++     +  ++ +D+ +P  DG+E 
Sbjct: 6   LVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMVEEL-QPDLILLDIMLPNKDGVEV 64

Query: 90  TKAMRAMKVESKIVGVTSRNSETER 114
            + +R    +  I+ +T+++SE ++
Sbjct: 65  CREVRKKY-DMPIIMLTAKDSEIDK 88

>2qzj_A Two-component response regulator; 11017X, PSI-II, structural genomics; 2.89A {Clostridium difficile} Length = 136

 Score = 67.1 bits (165), Expect = 2e-15
 Identities = 15/68 (22%), Positives = 34/68 (50%), Gaps = 1/68 (1%)

Query: 30 LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
          L++D D    +     L+  G  +++A N +EA+    +  K+ ++F+++ +   DG   
Sbjct: 8  LIIDGDKDNCQKLKGFLEEKGISIDLAYNCEEAIGKIFSN-KYDLIFLEIILSDGDGWTL 66

Query: 90 TKAMRAMK 97
           K +R + 
Sbjct: 67 CKKIRNVT 74

>2j48_A Two-component sensor kinase; pseudo-receiver, circadian clock, transferase, response regulator, histidine protein kinase; NMR {Synechococcus elongatus} Length = 119

 Score = 66.7 bits (164), Expect = 2e-15
 Identities = 15/106 (14%), Positives = 36/106 (33%), Gaps = 14/106 (13%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+++++     +   +L + GFKV    +G  A+D      +  ++ +    P    +  
Sbjct: 5   LLLEEEDEAATVVCEMLTAAGFKVIWLVDGSTALDQLDL-LQPIVILMAWPPPDQSCLLL 63

Query: 90  TKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDL----CYTKP 129
            + +R  + +    +V                  L        +KP
Sbjct: 64  LQHLREHQADPHPPLVLFLGEPPV-------DPLLTAQASAILSKP 102

>3n53_A Response regulator receiver modulated diguanylate; diguanylate cyclase, protein structure I II(PSI II), NYSGXRC, structural genomics; 2.20A {Pelobacter carbinolicus} Length = 140

 Score = 66.8 bits (164), Expect = 3e-15
 Identities = 15/87 (17%), Positives = 33/87 (37%), Gaps = 4/87 (4%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L++D     R      L S  + V  ++N KEA++         +V +DM++   +    
Sbjct: 7   LIIDQQDFSRIELKNFLDS-EYLVIESKNEKEALEQIDH-HHPDLVILDMDIIGENSPNL 64

Query: 90  TKAMRAMKVESK--IVGVTSRNSETER 114
              ++  K      ++ + S   +   
Sbjct: 65  CLKLKRSKGLKNVPLILLFSSEHKEAI 91

>2rjn_A Response regulator receiver:metal-dependent phosphohydrolase, HD subdomain; structural genomics, oceanospirillum SP. MED92; 2.10A {Neptuniibacter caesariensis} Length = 154

 Score = 66.9 bits (164), Expect = 4e-15
 Identities = 14/66 (21%), Positives = 29/66 (43%), Gaps = 1/66 (1%)

Query: 30 LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
          ++VDD+  I      ++K +G  +    +  +A++  +      +V  DM MP M G   
Sbjct: 11 MLVDDEQPILNSLKRLIKRLGCNIITFTSPLDALEALKGT-SVQLVISDMRMPEMGGEVF 69

Query: 90 TKAMRA 95
           + +  
Sbjct: 70 LEQVAK 75

>3cnb_A DNA-binding response regulator, MERR family; signal receiver domain, DNA binding protein, protein structu initiative, PSI-2; 2.00A {Colwellia psychrerythraea} Length = 143

 Score = 66.0 bits (162), Expect = 7e-15
 Identities = 28/119 (23%), Positives = 55/119 (46%), Gaps = 9/119 (7%)

Query: 30  LVVDDDPMIRRIHSMILKSV--GFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGI 87
           L+++DD     + +  L+++    K+++A N  +A DL  T  K  +V +D+ M  MDG 
Sbjct: 12  LIIEDDKEFADMLTQFLENLFPYAKIKIAYNPFDAGDLLHT-VKPDVVMLDLMMVGMDGF 70

Query: 88  EATKAMRAMKVESKI--VGVTSRNSETEREVFMQAGLDLCYTKP----LTMAKIVPLLE 140
                +++    + I  + +T   ++      +  G + C+ KP    L    I  L+E
Sbjct: 71  SICHRIKSTPATANIIVIAMTGALTDDNVSRIVALGAETCFGKPLNFTLLEKTIKQLVE 129

>3f6c_A Positive transcription regulator EVGA; structural genomics, PSI-2, protein structure initiative, PO transcription regulator EVGA; 1.45A {Escherichia coli k-12} Length = 134

 Score = 65.6 bits (161), Expect = 8e-15
 Identities = 23/96 (23%), Positives = 43/96 (44%), Gaps = 8/96 (8%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAE--NGKEAVDLFRTGAKFHIVFIDMEMPVMDGI 87
           +++DD P+       +L     ++ +AE   G  AV    T  K  IV ID+++P ++GI
Sbjct: 5   IIIDDHPLAIAAIRNLLIKNDIEI-LAELTEGGSAVQRVET-LKPDIVIIDVDIPGVNGI 62

Query: 88  EATKAMRAMKVESKIVGVTSRNSETEREVF--MQAG 121
           +  + +R  +    I+ V++              AG
Sbjct: 63  QVLETLRKRQYSGIIIIVSA--KNDHFYGKHCADAG 96

>1ys7_A Transcriptional regulatory protein PRRA; response regulator, DNA binding domain, phosphorylation; 1.58A {Mycobacterium tuberculosis} SCOP: a.4.6.1 c.23.1.1 PDB: 1ys6_A Length = 233

 Score = 67.5 bits (166), Expect = 9e-15
 Identities = 31/95 (32%), Positives = 51/95 (53%), Gaps = 5/95 (5%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDDD  +       L+  GF+V  A +G EA+       +   + +D+ MPV+DG+  
Sbjct: 11  LVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSATEN-RPDAIVLDINMPVLDGVSV 69

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDL 124
             A+RAM  +  +  +++R+S  +R V   AGL+ 
Sbjct: 70  VTALRAMDNDVPVCVLSARSSVDDR-V---AGLEA 100

>3cu5_A Two component transcriptional regulator, ARAC FAM; structural genomics, protein structure initiative; 2.60A {Clostridium phytofermentans isdg} Length = 141

 Score = 65.6 bits (161), Expect = 1e-14
 Identities = 19/77 (24%), Positives = 41/77 (53%), Gaps = 4/77 (5%)

Query: 30  LVVDDDPMIRR-IHSMI-LKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDG 86
           L+VDD+ + R  + + I  K++ F  ++ A++G  A+ +       +++  D+ MP MDG
Sbjct: 6   LIVDDEKLTRDGLIANINWKALSFDQIDQADDGINAIQIALK-HPPNVLLTDVRMPRMDG 64

Query: 87  IEATKAMRAMKVESKIV 103
           IE    +  +  +  ++
Sbjct: 65  IELVDNILKLYPDCSVI 81

>3hv2_A Response regulator/HD domain protein; PSI-2, NYSGXRC, structural genomics, protein structure initiative; 1.50A {Pseudomonas fluorescens pf-5} Length = 153

 Score = 65.7 bits (161), Expect = 1e-14
 Identities = 13/66 (19%), Positives = 28/66 (42%), Gaps = 1/66 (1%)

Query: 30 LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
          L+VD   +I +    +L  + + +  A +  +A+ L  +  +  +V     +P MDG   
Sbjct: 18 LLVDSQEVILQRLQQLLSPLPYTLHFARDATQALQLLASR-EVDLVISAAHLPQMDGPTL 76

Query: 90 TKAMRA 95
             +  
Sbjct: 77 LARIHQ 82

>3t6k_A Response regulator receiver; flavodoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: MSE; 1.86A {Chloroflexus aurantiacus} Length = 136

 Score = 65.3 bits (160), Expect = 1e-14
 Identities = 24/102 (23%), Positives = 49/102 (48%), Gaps = 3/102 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDDD  +  +  ++L+  G++V  A +G+EA+           +  D+ +P +DG   
Sbjct: 8   LIVDDDDTVAEMLELVLRGAGYEVRRAASGEEALQQIYK-NLPDALICDVLLPGIDGYTL 66

Query: 90  TKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKP 129
            K +R   +     I+ +T++   + +    +AG +    KP
Sbjct: 67  CKRVRQHPLTKTLPILMLTAQGDISAKIAGFEAGANDYLAKP 108

>1p2f_A Response regulator; DRRB, OMPR/PHOB, transcription; HET: MSE; 1.80A {Thermotoga maritima} SCOP: a.4.6.1 c.23.1.1 PDB: 3nns_A* Length = 220

 Score = 67.1 bits (165), Expect = 1e-14
 Identities = 20/85 (23%), Positives = 42/85 (49%), Gaps = 4/85 (4%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
            VVDDD  I +  S  L+ +G  V+    G++ ++       FH+V +D+ +P   G E 
Sbjct: 6   AVVDDDKNILKKVSEKLQQLGR-VKTFLTGEDFLNDEE---AFHVVVLDVMLPDYSGYEI 61

Query: 90  TKAMRAMKVESKIVGVTSRNSETER 114
            + ++  + E+ ++ +T  + +   
Sbjct: 62  CRMIKETRPETWVILLTLLSDDESV 86

>1zgz_A Torcad operon transcriptional regulatory protein; two-component system, gene regulation, transcription factor, respiratory system; 1.80A {Escherichia coli} SCOP: c.23.1.1 Length = 122

 Score = 64.8 bits (159), Expect = 1e-14
 Identities = 18/85 (21%), Positives = 41/85 (48%), Gaps = 2/85 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           ++V+D+P+ +          G+ V V  +G    ++ +      ++ +D+ +P  +G+  
Sbjct: 6   VIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIMQNQ-SVDLILLDINLPDENGLML 64

Query: 90  TKAMRAMKVESKIVGVTSRNSETER 114
           T+A+R       I+ VT R+   +R
Sbjct: 65  TRALRERS-TVGIILVTGRSDRIDR 88

>1dc7_A NTRC, nitrogen regulation protein; receiver domain, phosphorylation, signal transduction, conformational rearrangement; NMR {Salmonella typhimurium} SCOP: c.23.1.1 PDB: 1j56_A 1krw_A 1krx_A 1ntr_A 1dc8_A* Length = 124

 Score = 64.8 bits (159), Expect = 1e-14
 Identities = 20/66 (30%), Positives = 29/66 (43%), Gaps = 1/66 (1%)

Query: 30 LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           VVDDD  IR +    L   G      ENG E +    +     ++  D+ MP MDG+  
Sbjct: 7  WVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASK-TPDVLLSDIRMPGMDGLAL 65

Query: 90 TKAMRA 95
           K ++ 
Sbjct: 66 LKQIKQ 71

>3kcn_A Adenylate cyclase homolog; SGX, PSI 2, structural genomics, protein structure initiative; 2.45A {Rhodopirellula baltica} Length = 151

 Score = 65.3 bits (160), Expect = 1e-14
 Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)

Query: 30 LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
          L+VDDD  +       L    F+V   E+G EA+   +    F ++ +DM MP M+G E 
Sbjct: 8  LLVDDDYSLLNTLKRNLSF-DFEVTTCESGPEALACIKKSDPFSVIMVDMRMPGMEGTEV 66

Query: 90 TKAMRAM 96
           +  R +
Sbjct: 67 IQKARLI 73

>3heb_A Response regulator receiver domain protein (CHEY); NYSGXRC, PSI-II, respose regulator, structure initiative, structural genomics; 2.40A {Rhodospirillum rubrum} Length = 152

 Score = 65.0 bits (159), Expect = 2e-14
 Identities = 24/125 (19%), Positives = 54/125 (43%), Gaps = 12/125 (9%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEV--AENGKEAVD-LFRTGA-------KFHIVFIDM 79
           ++++DD    R+    ++  G   E+    +G  A++ LF           +  +V +D+
Sbjct: 8   VMIEDDLGHARLIEKNIRRAGVNNEIIAFTDGTSALNYLFGDDKSGRVSAGRAQLVLLDL 67

Query: 80  EMPVMDGIEATKAMRAMKVESKI--VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVP 137
            +P M GI+  K ++      +   V +T+ + + E +     G ++  TKP+       
Sbjct: 68  NLPDMTGIDILKLVKENPHTRRSPVVILTTTDDQREIQRCYDLGANVYITKPVNYENFAN 127

Query: 138 LLEEL 142
            + +L
Sbjct: 128 AIRQL 132

>2jba_A Phosphate regulon transcriptional regulatory PROT; transcription factor, sensory transduction, phosphate regula transcription regulation; 1.45A {Escherichia coli} PDB: 2jba_B 1b00_A 2iyn_A 2jb9_A 1zes_A Length = 127

 Score = 64.4 bits (158), Expect = 2e-14
 Identities = 29/102 (28%), Positives = 50/102 (49%), Gaps = 3/102 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVV+D+  IR +   +L+  GF+   AE+   AV+         ++ +   +P   GI+ 
Sbjct: 6   LVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNE-PWPDLILLAWMLPGGSGIQF 64

Query: 90  TKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKP 129
            K +R   +     +V +T+R  E +R   ++ G D C TKP
Sbjct: 65  IKHLRRESMTRDIPVVMLTARGEEEDRVRGLETGADDCITKP 106

>1i3c_A Response regulator RCP1; phytochrome, signaling protein; 1.90A {Synechocystis SP} SCOP: c.23.1.1 PDB: 1jlk_A Length = 149

 Score = 65.0 bits (159), Expect = 2e-14
 Identities = 19/123 (15%), Positives = 55/123 (44%), Gaps = 10/123 (8%)

Query: 30  LVVDDDPMIRRIHSMILKSVGF--KVEVAENGKEAVDLFRTGAKF------HIVFIDMEM 81
           L+V+D     R+   +LK+     ++ +  +G  A+   +   ++      +++ +D+ +
Sbjct: 12  LLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFLQQQGEYENSPRPNLILLDLNL 71

Query: 82  PVMDGIEATKAMRAMKVESKI--VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLL 139
           P  DG E    ++      +I  V +T+ ++E +     +  ++   TK   +  +  ++
Sbjct: 72  PKKDGREVLAEIKQNPDLKRIPVVVLTTSHNEDDVIASYELHVNCYLTKSRNLKDLFKMV 131

Query: 140 EEL 142
           + +
Sbjct: 132 QGI 134

>3cg0_A Response regulator receiver modulated diguanylate with PAS/PAC sensor; signal receiver domain, diguanylate cyclase; 2.15A {Desulfovibrio desulfuricans subsp} Length = 140

 Score = 64.5 bits (158), Expect = 3e-14
 Identities = 25/113 (22%), Positives = 48/113 (42%), Gaps = 4/113 (3%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKV-EVAENGKEAVDLFRTGAKFHIVFIDMEM-PVMDGI 87
           L+V+D  +      + L+S+G+ V  V +NG+EAV       +  I  +D+ +   +DG+
Sbjct: 13  LIVEDGRLAAATLRIQLESLGYDVLGVFDNGEEAVRCAPD-LRPDIALVDIMLCGALDGV 71

Query: 88  EATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLE 140
           E    + A      I+ +TS       +   +        KP+    +   +E
Sbjct: 72  ETAARLAA-GCNLPIIFITSSQDVETFQRAKRVNPFGYLAKPVAADTLHRSIE 123

>4dad_A Putative pilus assembly-related protein; response regulator receiver domain, CHEY-related protein, ST genomics; 2.50A {Burkholderia pseudomallei} PDB: 4dn6_A Length = 146

 Score = 63.6 bits (155), Expect = 6e-14
 Identities = 23/114 (20%), Positives = 42/114 (36%), Gaps = 4/114 (3%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAK--FHIVFIDMEMPVMDGI 87
           LV  +D       + ++   G        G+ A  + RT     F I+ ID        +
Sbjct: 24  LVASEDASRLAHLARLVGDAGRYRVTRTVGRAAQIVQRTDGLDAFDILMIDGAALDTAEL 83

Query: 88  EATKAMRAMKVESKIVGVTSRNS-ETEREVFMQAGLDLCYTKPLTMAKIVPLLE 140
            A + +  +      + VT+  S +T  +  M+AG+      PL    +   L+
Sbjct: 84  AAIEKLSRLHPGLTCLLVTTDASSQTLLDA-MRAGVRDVLRWPLEPRALDDALK 136

>2pl1_A Transcriptional regulatory protein PHOP; CHEY-like fold, response regulator, beryllium fluoride, transcription factor, activated, virulence; 1.90A {Escherichia coli} SCOP: c.23.1.1 PDB: 2pkx_A Length = 121

 Score = 62.5 bits (153), Expect = 1e-13
 Identities = 25/95 (26%), Positives = 46/95 (48%), Gaps = 5/95 (5%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVV+D+ ++R    + ++  G +V+ AE+ KEA           I  +D+ +P  DG+  
Sbjct: 4   LVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHI-PDIAIVDLGLPDEDGLSL 62

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDL 124
            +  R+  V   I+ +T+R S  ++ V     L  
Sbjct: 63  IRRWRSNDVSLPILVLTARESWQDK-V---EVLSA 93

>1yio_A Response regulatory protein; transcription regulation, DNA binding protein; 2.20A {Pseudomonas fluorescens} SCOP: a.4.6.2 c.23.1.1 PDB: 1zn2_A Length = 208

 Score = 64.2 bits (157), Expect = 1e-13
 Identities = 31/112 (27%), Positives = 51/112 (45%), Gaps = 1/112 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
            VVDDD  +R     +L+S GF+VE  +     ++  R   +   + +DM MP M GIE 
Sbjct: 8   FVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHRRP-EQHGCLVLDMRMPGMSGIEL 66

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEE 141
            + + A+     IV +T+          M+AG      KP     ++  +E+
Sbjct: 67  QEQLTAISDGIPIVFITAHGDIPMTVRAMKAGAIEFLPKPFEEQALLDAIEQ 118

>1qkk_A DCTD, C4-dicarboxylate transport transcriptional regulatory protein; receiver domain, 2-component signal transduction; 1.7A {Sinorhizobium meliloti} SCOP: c.23.1.1 PDB: 1l5z_A 1l5y_A Length = 155

 Score = 62.6 bits (153), Expect = 2e-13
 Identities = 19/70 (27%), Positives = 32/70 (45%), Gaps = 1/70 (1%)

Query: 30 LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           ++DDD  +R+     L+  GF V    +  EA+          IV  D+ MP MDG+  
Sbjct: 7  FLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSAD-FAGIVISDIRMPGMDGLAL 65

Query: 90 TKAMRAMKVE 99
           + + A+  +
Sbjct: 66 FRKILALDPD 75

>3q9s_A DNA-binding response regulator; DNA binding protein; 2.40A {Deinococcus radiodurans} Length = 249

 Score = 63.7 bits (156), Expect = 2e-13
 Identities = 23/95 (24%), Positives = 45/95 (47%), Gaps = 6/95 (6%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LV++DD  I  +  M L   G+ V+ A++    +   R      ++ +D+ +P  DG + 
Sbjct: 41  LVIEDDHDIANVLRMDLTDAGYVVDHADSAMNGLIKARED-HPDLILLDLGLPDFDGGDV 99

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDL 124
            + +R       I+ +T+R++  E+ V     L L
Sbjct: 100 VQRLRKNS-ALPIIVLTARDTVEEK-V---RLLGL 129

>1k68_A Phytochrome response regulator RCPA; phosphorylated aspartate, CHEY homologue, homodimer, (beta/alpha)5, signaling protein; HET: PHD; 1.90A {Tolypothrix SP} SCOP: c.23.1.1 Length = 140

 Score = 61.9 bits (150), Expect = 3e-13
 Identities = 19/123 (15%), Positives = 52/123 (42%), Gaps = 10/123 (8%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEV--AENGKEAVDLFRTGAKF------HIVFIDMEM 81
            +V+D+    R+    L +     EV    +G EA+   R   ++       ++ + + +
Sbjct: 6   FLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEYANASRPDLILLXLNL 65

Query: 82  PVMDGIEATKAMRAMKVESKI--VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLL 139
           P  DG E    +++     +I  V +++  +E +        ++   TK   ++++  ++
Sbjct: 66  PKKDGREVLAEIKSDPTLKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQLFQIV 125

Query: 140 EEL 142
           + +
Sbjct: 126 KGI 128

>2qsj_A DNA-binding response regulator, LUXR family; structural genomics, PSI-2, protein structure initiative; 2.10A {Silicibacter pomeroyi dss-3} Length = 154

 Score = 61.8 bits (151), Expect = 3e-13
 Identities = 14/96 (14%), Positives = 37/96 (38%), Gaps = 6/96 (6%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAE--NGKEAVDLFRTGAKFHIVFIDMEMPVMDGI 87
           L+VDD  +IR     +L+     + V       +A+          ++ +D+ +P  + I
Sbjct: 7   LIVDDHHLIRAGAKNLLEGAFSGMRVEGAETVSDALAFLEADNTVDLILLDVNLPDAEAI 66

Query: 88  EATKAMRAMKVESKIVGVTSRNSETEREVF--MQAG 121
           +    ++     + +  ++         +   ++AG
Sbjct: 67  DGLVRLKRFDPSNAVALISG--ETDHELIRAALEAG 100

>1a04_A Nitrate/nitrite response regulator protein NARL; signal transduction protein, response regulators, two- component systems; 2.20A {Escherichia coli} SCOP: a.4.6.2 c.23.1.1 PDB: 1rnl_A Length = 215

 Score = 62.5 bits (153), Expect = 5e-13
 Identities = 26/100 (26%), Positives = 49/100 (49%), Gaps = 15/100 (15%)

Query: 30  LVVDDDPMIRRIHSMILKSV-GFKVEVAE--NGKEAVDLFRTGAKFH---IVFIDMEMPV 83
           L++DD PM+R     ++       V V E  NG++ ++L    A+     ++ +D+ MP 
Sbjct: 9   LLIDDHPMLRTGVKQLISMAPDITV-VGEASNGEQGIEL----AESLDPDLILLDLNMPG 63

Query: 84  MDGIEATKAMRAMKVESKIVGVTSRNSETEREVF--MQAG 121
           M+G+E    +R   +  +IV  +   S  E +V   ++ G
Sbjct: 64  MNGLETLDKLREKSLSGRIVVFSV--SNHEEDVVTALKRG 101

>3b2n_A Uncharacterized protein Q99UF4; structural genomics, PSI-2, protein structure initiative, NE SGX research center for structural genomics; 2.04A {Staphylococcus aureus} Length = 133

 Score = 61.0 bits (149), Expect = 5e-13
 Identities = 22/81 (27%), Positives = 43/81 (53%), Gaps = 5/81 (6%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEV---AENGKEAVDLFRTGAKFHIVFIDMEMPVMDG 86
           ++ +D  M+R+    ++K  G   E+    +NG +A+ L       ++V +D+EMP M G
Sbjct: 7   IIAEDQNMLRQAMVQLIKLHG-DFEILADTDNGLDAMKLIEE-YNPNVVILDIEMPGMTG 64

Query: 87  IEATKAMRAMKVESKIVGVTS 107
           +E    +R   +  K++ VT+
Sbjct: 65  LEVLAEIRKKHLNIKVIIVTT 85

>4e7p_A Response regulator; DNA binding, cytosol, transcription regulator; 1.89A {Streptococcus pneumoniae} PDB: 4e7o_A Length = 150

 Score = 61.0 bits (149), Expect = 5e-13
 Identities = 29/80 (36%), Positives = 44/80 (55%), Gaps = 5/80 (6%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEV---AENGKEAVDLFRTGAKFHIVFIDMEMPVMDG 86
           LV +D  M+R     +L      VE    A+NG+EA+ L        I  +D+EMPV  G
Sbjct: 24  LVAEDQSMLRDAMCQLLTLQP-DVESVLQAKNGQEAIQLLEK-ESVDIAILDVEMPVKTG 81

Query: 87  IEATKAMRAMKVESKIVGVT 106
           +E  + +R+ K+E+K+V VT
Sbjct: 82  LEVLEWIRSEKLETKVVVVT 101

>2gkg_A Response regulator homolog; social motility, receiver domain, signalling, high resolutio signaling protein; 1.00A {Myxococcus xanthus} PDB: 2i6f_A 2nt4_A 2nt3_A Length = 127

 Score = 60.6 bits (148), Expect = 6e-13
 Identities = 13/74 (17%), Positives = 28/74 (37%), Gaps = 2/74 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFID-MEMPVMDGIE 88
           L+V+ D  +       L+  GF V+   +GK +V+  R   +  +V +        +G  
Sbjct: 9   LIVESDTALSATLRSALEGRGFTVDETTDGKGSVEQIRR-DRPDLVVLAVDLSAGQNGYL 67

Query: 89  ATKAMRAMKVESKI 102
               ++       +
Sbjct: 68  ICGKLKKDDDLKNV 81

>2jk1_A HUPR, hydrogenase transcriptional regulatory protein HU; nucleotide-binding, transcription regulation; 2.10A {Rhodobacter capsulatus} PDB: 2vui_B 2vuh_B Length = 139

 Score = 60.6 bits (148), Expect = 6e-13
 Identities = 14/59 (23%), Positives = 26/59 (44%), Gaps = 2/59 (3%)

Query: 30 LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
          L+VDD+P       + L+   F V  A+  + A+ +        ++  D  MP   G++
Sbjct: 5  LLVDDEPHSLAAMKLALED-DFDVLTAQGAEAAIAILEEEW-VQVIICDQRMPGRTGVD 61

>3kyj_B CHEY6 protein, putative histidine protein kinase; protein-protein interaction, histidine kinase, response regulator, phosphorylation; 1.40A {Rhodobacter sphaeroides} PDB: 3kyi_B* Length = 145

 Score = 60.7 bits (148), Expect = 7e-13
 Identities = 28/85 (32%), Positives = 45/85 (52%), Gaps = 2/85 (2%)

Query: 15 RISENPVSKNRPYFALVVDDDPMIRRIHSMILKSV-GFKV-EVAENGKEAVDLFRTGAKF 72
          R S +      PY  ++VDD  M+R   +  +K++  FKV   A NG+EA+D        
Sbjct: 2  RGSHHHHHHGSPYNVMIVDDAAMMRLYIASFIKTLPDFKVVAQAANGQEALDKLAAQPNV 61

Query: 73 HIVFIDMEMPVMDGIEATKAMRAMK 97
           ++ +D+EMPVMDG+E  +  +   
Sbjct: 62 DLILLDIEMPVMDGMEFLRHAKLKT 86

>3cz5_A Two-component response regulator, LUXR family; structural genomics, protein structure initiative; 2.70A {Aurantimonas SP} Length = 153

 Score = 61.0 bits (149), Expect = 7e-13
 Identities = 26/80 (32%), Positives = 45/80 (56%), Gaps = 5/80 (6%)

Query: 30  LVVDDDPMIRRIHSMILKSV-GFKVEVAE--NGKEAVDLFRTGAKFHIVFIDMEMPVMDG 86
           ++VDD P++R  +  +++   G+ V VAE  +  EA  L+R      IV +D+ +P   G
Sbjct: 9   MLVDDHPIVREGYRRLIERRPGYAV-VAEAADAGEAYRLYRETTP-DIVVMDLTLPGPGG 66

Query: 87  IEATKAMRAMKVESKIVGVT 106
           IEAT+ +R     ++I+  T
Sbjct: 67  IEATRHIRQWDGAARILIFT 86

>1kgs_A DRRD, DNA binding response regulator D; DNA-binding protein, ALPH-beta sandwich, winged-helix, helix helix, DNA binding protein; HET: DNA MSE; 1.50A {Thermotoga maritima} SCOP: a.4.6.1 c.23.1.1 PDB: 3nnn_A* Length = 225

 Score = 61.3 bits (150), Expect = 1e-12
 Identities = 28/95 (29%), Positives = 51/95 (53%), Gaps = 5/95 (5%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVV+D+  +  + +  LK   F V+V  +G+E + +      F +V +D+ +PV DG E 
Sbjct: 6   LVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMALNEP-FDVVILDIMLPVHDGWEI 64

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDL 124
            K+MR   V + ++ +T+ +    R V    GL++
Sbjct: 65  LKSMRESGVNTPVLMLTALSDVEYR-V---KGLNM 95

>2qr3_A Two-component system response regulator; structural genomics, signal receiver, PSI-2, protein structu initiative; 1.80A {Bacteroides fragilis} Length = 140

 Score = 59.1 bits (144), Expect = 3e-12
 Identities = 12/71 (16%), Positives = 27/71 (38%), Gaps = 6/71 (8%)

Query: 30 LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPV-----M 84
          ++VDD+  +     ++LK+   KV    +      + R      +V +DM          
Sbjct: 7  IIVDDNKGVLTAVQLLLKNHFSKVITLSSPVSLSTVLREE-NPEVVLLDMNFTSGINNGN 65

Query: 85 DGIEATKAMRA 95
          +G+     ++ 
Sbjct: 66 EGLFWLHEIKR 76

>1s8n_A Putative antiterminator; RV1626, structural genomics, transcriptional antiterminator, component system, PSI; 1.48A {Mycobacterium tuberculosis} SCOP: c.23.1.1 PDB: 1sd5_A Length = 205

 Score = 60.5 bits (147), Expect = 3e-12
 Identities = 28/112 (25%), Positives = 58/112 (51%), Gaps = 3/112 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKV-EVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           L+ +D+ +IR   + +L+  G+++   A +G+EAV+L     K  +V +D++MP  DGI+
Sbjct: 17  LIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAEL-HKPDLVIMDVKMPRRDGID 75

Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLE 140
           A   + + ++   +V       +        AG      KP +++ ++P +E
Sbjct: 76  AASEIASKRIAPIVVLTAFSQRDLVERA-RDAGAMAYLVKPFSISDLIPAIE 126

>2qv0_A Protein MRKE; structural genomics, transcription, PSI-2, protein structure initiative; 2.40A {Klebsiella pneumoniae} Length = 143

 Score = 58.8 bits (143), Expect = 3e-12
 Identities = 14/80 (17%), Positives = 39/80 (48%), Gaps = 3/80 (3%)

Query: 29  ALVVDDDPMIRRIHSMILKSVGF--KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDG 86
            ++V+D+ + ++  S ++ +      V   ++G + +   +   K   +F+D+ +P +DG
Sbjct: 12  VIIVEDEFLAQQELSWLINTHSQMEIVGSFDDGLDVLKFLQH-NKVDAIFLDINIPSLDG 70

Query: 87  IEATKAMRAMKVESKIVGVT 106
           +   + +     +  IV +T
Sbjct: 71  VLLAQNISQFAHKPFIVFIT 90

>3eul_A Possible nitrate/nitrite response transcriptional regulatory protein NARL (DNA-binding...; central beta strand flanked by alpha helices; 1.90A {Mycobacterium tuberculosis} Length = 152

 Score = 59.1 bits (144), Expect = 4e-12
 Identities = 21/83 (25%), Positives = 40/83 (48%), Gaps = 11/83 (13%)

Query: 30  LVVDDDPMIRRIHSMILKSV-GFKVEVAE--NGKEAVDLFRTGAKFH---IVFIDMEMPV 83
           +V DD P+ R      L       V V E  +G  A++L +     H   +  +D  MP 
Sbjct: 19  VVGDDHPLFREGVVRALSLSGSVNV-VGEADDGAAALELIKA----HLPDVALLDYRMPG 73

Query: 84  MDGIEATKAMRAMKVESKIVGVT 106
           MDG +   A+R+ ++ ++++ ++
Sbjct: 74  MDGAQVAAAVRSYELPTRVLLIS 96

>3c3w_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 2.20A {Mycobacterium tuberculosis} Length = 225

 Score = 59.8 bits (146), Expect = 6e-12
 Identities = 19/81 (23%), Positives = 39/81 (48%), Gaps = 5/81 (6%)

Query: 30  LVVDDDPMIRRIHSMILKSV-GFKVEVAE--NGKEAVDLFRTGAKFHIVFIDMEMPVMDG 86
            +VDD  ++RR    +L +     V V E  +  EA+      A+  +  +D+ +P  +G
Sbjct: 5   FLVDDHEVVRRGLVDLLGADPELDV-VGEAGSVAEAMARVPA-ARPDVAVLDVRLPDGNG 62

Query: 87  IEATKAMRAMKVESKIVGVTS 107
           IE  + + +   + + + +TS
Sbjct: 63  IELCRDLLSRMPDLRCLILTS 83

>3sy8_A ROCR; TIM barrel phosphodiesterase-A, transcription regulator; HET: EPE; 2.50A {Pseudomonas aeruginosa} Length = 400

 Score = 60.4 bits (147), Expect = 7e-12
 Identities = 20/79 (25%), Positives = 35/79 (44%), Gaps = 1/79 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           LV++D+P  R +    LK V    +  A +GKEAV +  +     I   D++M  MDG+ 
Sbjct: 7   LVLEDEPFQRLVAVTALKKVVPGSILEAADGKEAVAILESCGHVDIAICDLQMSGMDGLA 66

Query: 89  ATKAMRAMKVESKIVGVTS 107
             +          ++  + 
Sbjct: 67  FLRHASLSGKVHSVILSSE 85

>1dbw_A Transcriptional regulatory protein FIXJ; doubly wound five-stranded beta/alpha fold, nitrogen fixatio regulation; HET: 15P; 1.60A {Sinorhizobium meliloti} SCOP: c.23.1.1 PDB: 1dck_A* 1dcm_A 1d5w_A* Length = 126

 Score = 57.1 bits (139), Expect = 1e-11
 Identities = 14/67 (20%), Positives = 33/67 (49%), Gaps = 1/67 (1%)

Query: 30 LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           +VDD+  +R+  + +L   GF V++ ++ +  +          ++  D+ MP M G+E 
Sbjct: 7  HIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPDVR-NGVLVTDLRMPDMSGVEL 65

Query: 90 TKAMRAM 96
           + +  +
Sbjct: 66 LRNLGDL 72

>3klo_A Transcriptional regulator VPST; REC domain, HTH domain, DNA-binding, transcription regulation; HET: C2E TAR; 2.80A {Vibrio cholerae} PDB: 3kln_A* Length = 225

 Score = 58.8 bits (143), Expect = 1e-11
 Identities = 13/98 (13%), Positives = 33/98 (33%), Gaps = 5/98 (5%)

Query: 30  LVVDDDPMIRRIHSMILKS-VGFKVEVAE--NGKEAVDLFRTGAKFHIVFIDMEMPVMDG 86
            ++ D  M  R+    L+S +   +E+          +   +     ++ ID      D 
Sbjct: 11  RMLSDVCMQSRLLKEALESKLPLALEITPFSELWLEENKPES-RSIQMLVIDYSRISDDV 69

Query: 87  IEATKAMRAMKV-ESKIVGVTSRNSETEREVFMQAGLD 123
           +    + + +   ++K V +        + +F    L 
Sbjct: 70  LTDYSSFKHISCPDAKEVIINCPQDIEHKLLFKWNNLA 107

>1dz3_A Stage 0 sporulation protein A; response regulator, domain swapping; 1.65A {Bacillus stearothermophilus} SCOP: c.23.1.1 PDB: 1qmp_A* Length = 130

 Score = 56.8 bits (138), Expect = 2e-11
 Identities = 15/72 (20%), Positives = 33/72 (45%), Gaps = 11/72 (15%)

Query: 30 LVVDDDPMIRRIHSMILKS------VGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPV 83
           + DD+  +  +    + S      +G     A NG++ + +     +  I+ +D+ MP 
Sbjct: 6  CIADDNRELVSLLDEYISSQPDMEVIG----TAYNGQDCLQMLEE-KRPDILLLDIIMPH 60

Query: 84 MDGIEATKAMRA 95
          +DG+   + +RA
Sbjct: 61 LDGLAVLERIRA 72

>3n0r_A Response regulator; sigma factor, receiver, two-component SI transduction, signaling protein; HET: MSE GOL; 1.25A {Caulobacter vibrioides} PDB: 3t0y_A Length = 286

 Score = 59.0 bits (143), Expect = 2e-11
 Identities = 19/113 (16%), Positives = 48/113 (42%), Gaps = 6/113 (5%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKV-EVAENGKEAVDLFRTGAKFHIVFIDMEMP-VMDGI 87
           L+++D+P+I      +++ +G  V ++A    EA++         +V  D+++     GI
Sbjct: 164 LIIEDEPVIAADIEALVRELGHDVTDIAATRGEALEAVTR-RTPGLVLADIQLADGSSGI 222

Query: 88  EATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLE 140
           +A K +   +++  ++ +T+           +       TKP     +   + 
Sbjct: 223 DAVKDILG-RMDVPVIFITAFPERLLTG--ERPEPTFLITKPFQPETVKAAIG 272

>1a2o_A CHEB methylesterase; bacterial chemotaxis, adaptation, serine hydrolase; 2.40A {Salmonella typhimurium} SCOP: c.23.1.1 c.40.1.1 Length = 349

 Score = 57.1 bits (139), Expect = 1e-10
 Identities = 30/110 (27%), Positives = 54/110 (49%), Gaps = 18/110 (16%)

Query: 30  LVVDDDPMIRRIHSMILKSV-GFKV-EVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGI 87
           L VDD  ++R+I + I+ S    ++   A +   A DL +      ++ +D+EMP MDG+
Sbjct: 7   LSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIKK-FNPDVLTLDVEMPRMDGL 65

Query: 88  EATK---AMRAMKVESKIV--GVTSRNSETEREVF--MQAG-LDLCYTKP 129
           +  +    +R M V   ++   +T + SE        ++ G +D   TKP
Sbjct: 66  DFLEKLMRLRPMPV---VMVSSLTGKGSEV---TLRALELGAID-FVTKP 108

>3t8y_A CHEB, chemotaxis response regulator protein-glutamate methylesterase; CHEA, hydrolase; 1.90A {Thermotoga maritima} Length = 164

 Score = 53.1 bits (128), Expect = 9e-10
 Identities = 25/70 (35%), Positives = 38/70 (54%), Gaps = 3/70 (4%)

Query: 30 LVVDDDPMIRRIHSMILKSV-GFKV-EVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGI 87
          LVVDD   +R +   I+ S    KV   A++G EAV+      K  ++ +D+EMP ++GI
Sbjct: 29 LVVDDSAFMRMVLKDIIDSQPDMKVVGFAKDGLEAVEKAIE-LKPDVITMDIEMPNLNGI 87

Query: 88 EATKAMRAMK 97
          EA K +    
Sbjct: 88 EALKLIMKKA 97

>2pln_A HP1043, response regulator; signaling protein; 1.80A {Helicobacter pylori} PDB: 2hqo_A Length = 137

 Score = 51.4 bits (124), Expect = 2e-09
 Identities = 11/95 (11%), Positives = 33/95 (34%), Gaps = 9/95 (9%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+++ + ++       L   GF  +V E+ ++   L      + +V   M +   + +  
Sbjct: 22  LLIEKNSVLGGEIEKGLNVKGFMADVTESLEDGEYLMDIRN-YDLV---M-VSDKNALSF 76

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDL 124
              ++       ++  +   +  E  V      + 
Sbjct: 77  VSRIKEKHSSIVVLVSSDNPTSEEE-V---HAFEQ 107

>2hqr_A Putative transcriptional regulator; phosporylation-independent response regulator, H. pylori, SY dimer, signaling protein; NMR {Helicobacter pylori} Length = 223

 Score = 52.5 bits (127), Expect = 3e-09
 Identities = 11/95 (11%), Positives = 33/95 (34%), Gaps = 9/95 (9%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+++ + ++       L   GF  +V E+ ++   L      + +V   M +   + +  
Sbjct: 4   LLIEKNSVLGGEIEKGLNVKGFMADVTESLEDGEYLMDIRN-YDLV---M-VSDKNALSF 58

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDL 124
              ++       ++  +   +  E  V      + 
Sbjct: 59  VSRIKEKHSSIVVLVSSDNPTSEEE-V---HAFEQ 89

>3kto_A Response regulator receiver protein; PSI-II,structural genomics, protein structure initiative; 1.98A {Pseudoalteromonas atlantica T6C} Length = 136

 Score = 49.5 bits (119), Expect = 1e-08
 Identities = 9/67 (13%), Positives = 23/67 (34%), Gaps = 1/67 (1%)

Query: 30 LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVF-IDMEMPVMDGIE 88
           +VD     R   S +L  +   ++   + +  +    +     ++    +E     GIE
Sbjct: 10 YLVDHQKDARAALSKLLSPLDVTIQCFASAESFMRQQISDDAIGMIIEAHLEDKKDSGIE 69

Query: 89 ATKAMRA 95
            + +  
Sbjct: 70 LLETLVK 76

>1qo0_D AMIR; binding protein, gene regulator, receptor; 2.25A {Pseudomonas aeruginosa} SCOP: c.23.1.3 Length = 196

 Score = 42.8 bits (100), Expect = 7e-06
 Identities = 19/111 (17%), Positives = 37/111 (33%), Gaps = 6/111 (5%)

Query: 29  ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
            LV++    +     + L  +G  V       EA D         +VF  +         
Sbjct: 15  VLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAFD-----VPVDVVFTSIFQNRHHDEI 69

Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLL 139
           A   + A    + +V +    S       ++       T+PL   +++P+L
Sbjct: 70  A-ALLAAGTPRTTLVALVEYESPAVLSQIIELECHGVITQPLDAHRVLPVL 119

>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 = 41.0 bits (95), Expect = 5e-05
 Identities = 25/191 (13%), Positives = 58/191 (30%), Gaps = 55/191 (28%)

Query: 2   MIG-------AEGASSSKKARISENPV------SKNRPYFALVVDDDPMIRRIHSMILKS 48
           ++G        +   S K     +  +      + N P    V++   M++++   I  +
Sbjct: 158 VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSP--ETVLE---MLQKLLYQIDPN 212

Query: 49  VGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMP----VMDGIEATKAMRAMKVESKIVG 104
              + + + N K  +   +  A+   +           V+  ++  KA  A  +  KI+ 
Sbjct: 213 WTSRSDHSSNIKLRIHSIQ--AELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKIL- 269

Query: 105 VTSRNSE--------TEREVFM---QAGLDLCYTK--------------PLTMAKIVPLL 139
           +T+R  +        T   + +      L     K              P  +    P  
Sbjct: 270 LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRR 329

Query: 140 -----EELQKN 145
                E ++  
Sbjct: 330 LSIIAESIRDG 340

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	145
3to5_A	134	CHEY homolog; alpha(5)beta(5), chemotaxis, FLIM, p	99.97
3gl9_A	122	Response regulator; beta-sheet, surrounded by alph	99.94
3t6k_A	136	Response regulator receiver; flavodoxin-like, stru	99.93
3f6p_A	120	Transcriptional regulatory protein YYCF; unphospho	99.93
3h1g_A	129	Chemotaxis protein CHEY homolog; sulfate-bound CHE	99.93
2lpm_A	123	Two-component response regulator; transcription re	99.93
4e7p_A	150	Response regulator; DNA binding, cytosol, transcri	99.93
1dbw_A	126	Transcriptional regulatory protein FIXJ; doubly wo	99.93
3eod_A	130	Protein HNR; response regulator, phosphoprotein, t	99.92
3rqi_A	184	Response regulator protein; structural genomics, s	99.92
1srr_A	124	SPO0F, sporulation response regulatory protein; as	99.92
3hv2_A	153	Response regulator/HD domain protein; PSI-2, NYSGX	99.92
3m6m_D	143	Sensory/regulatory protein RPFC; RPFF, REC, enoyl-	99.92
2pl1_A	121	Transcriptional regulatory protein PHOP; CHEY-like	99.92
3crn_A	132	Response regulator receiver domain protein, CHEY-;	99.92
3hzh_A	157	Chemotaxis response regulator (CHEY-3); phosphatas	99.92
2r25_B	133	Osmosensing histidine protein kinase SLN1; alpha5-	99.92
3hdv_A	136	Response regulator; PSI-II, structural genomics, P	99.92
3gt7_A	154	Sensor protein; structural genomics, signal receiv	99.92
3hdg_A	137	Uncharacterized protein; two-component sensor acti	99.92
1tmy_A	120	CHEY protein, TMY; chemotaxis, phosphoryl transfer	99.92
3kto_A	136	Response regulator receiver protein; PSI-II,struct	99.92
4dad_A	146	Putative pilus assembly-related protein; response	99.91
3f6c_A	134	Positive transcription regulator EVGA; structural	99.91
3jte_A	143	Response regulator receiver protein; structural ge	99.91
3lua_A	140	Response regulator receiver protein; two-component	99.91
3snk_A	135	Response regulator CHEY-like protein; P-loop conta	99.91
3b2n_A	133	Uncharacterized protein Q99UF4; structural genomic	99.91
3r0j_A	250	Possible two component system response transcript	99.91
3i42_A	127	Response regulator receiver domain protein (CHEY-	99.91
1xhf_A	123	DYE resistance, aerobic respiration control protei	99.91
1zgz_A	122	Torcad operon transcriptional regulatory protein;	99.91
3grc_A	140	Sensor protein, kinase; protein structure initiati	99.91
1jbe_A	128	Chemotaxis protein CHEY; signaling protein; 1.08A	99.91
3heb_A	152	Response regulator receiver domain protein (CHEY);	99.91
3eul_A	152	Possible nitrate/nitrite response transcriptional	99.91
3cnb_A	143	DNA-binding response regulator, MERR family; signa	99.91
1mb3_A	124	Cell division response regulator DIVK; signal tran	99.91
1p6q_A	129	CHEY2; chemotaxis, signal transduction, response r	99.91
3kht_A	144	Response regulator; PSI-II, 11023K, structural gen	99.91
3cfy_A	137	Putative LUXO repressor protein; structural genomi	99.9
2a9o_A	120	Response regulator; essential protein, YYCF/YYCG h	99.9
2qzj_A	136	Two-component response regulator; 11017X, PSI-II,	99.9
1mvo_A	136	PHOP response regulator; phosphate regulon, transc	99.9
2qxy_A	142	Response regulator; regulation of transcription, N	99.9
3lte_A	132	Response regulator; structural genomics, PSI, prot	99.9
1i3c_A	149	Response regulator RCP1; phytochrome, signaling pr	99.9
1dz3_A	130	Stage 0 sporulation protein A; response regulator,	99.9
3mm4_A	206	Histidine kinase homolog; receiver domain, CKI1, c	99.9
2zay_A	147	Response regulator receiver protein; structural ge	99.9
3kcn_A	151	Adenylate cyclase homolog; SGX, PSI 2, structural	99.9
3ilh_A	146	Two component response regulator; NYSGXRC, PSI-II,	99.9
2qr3_A	140	Two-component system response regulator; structura	99.9
3h5i_A	140	Response regulator/sensory box protein/ggdef domai	99.9
1yio_A	208	Response regulatory protein; transcription regulat	99.9
3luf_A	259	Two-component system response regulator/ggdef doma	99.9
2ayx_A	254	Sensor kinase protein RCSC; two independent struct	99.9
3nhm_A	133	Response regulator; protein structure initiative I	99.9
2rjn_A	154	Response regulator receiver:metal-dependent phosph	99.9
1a04_A	215	Nitrate/nitrite response regulator protein NARL; s	99.9
1k68_A	140	Phytochrome response regulator RCPA; phosphorylate	99.9
3cg0_A	140	Response regulator receiver modulated diguanylate	99.9
3q9s_A	249	DNA-binding response regulator; DNA binding protei	99.9
3a10_A	116	Response regulator; phosphoacceptor, signaling pro	99.9
3cz5_A	153	Two-component response regulator, LUXR family; str	99.9
2jba_A	127	Phosphate regulon transcriptional regulatory PROT;	99.89
1qkk_A	155	DCTD, C4-dicarboxylate transport transcriptional r	99.89
3cg4_A	142	Response regulator receiver domain protein (CHEY-;	99.89
1zh2_A	121	KDP operon transcriptional regulatory protein KDPE	99.89
1k66_A	149	Phytochrome response regulator RCPB; CHEY homologu	99.89
1dcf_A	136	ETR1 protein; beta-alpha five sandwich, transferas	99.89
1kgs_A	225	DRRD, DNA binding response regulator D; DNA-bindin	99.89
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	99.89
3n0r_A	286	Response regulator; sigma factor, receiver, two-co	99.89
3c3m_A	138	Response regulator receiver protein; structural ge	99.89
3cu5_A	141	Two component transcriptional regulator, ARAC FAM;	99.88
1ys7_A	233	Transcriptional regulatory protein PRRA; response	99.88
1s8n_A	205	Putative antiterminator; RV1626, structural genomi	99.88
2jk1_A	139	HUPR, hydrogenase transcriptional regulatory prote	99.88
3n53_A	140	Response regulator receiver modulated diguanylate;	99.88
2gkg_A	127	Response regulator homolog; social motility, recei	99.88
2qvg_A	143	Two component response regulator; NYSGXRC, PSI-2,	99.88
3eqz_A	135	Response regulator; structural genomics, unknown f	99.88
2qsj_A	154	DNA-binding response regulator, LUXR family; struc	99.88
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	99.87
3eq2_A	394	Probable two-component response regulator; adaptor	99.87
2rdm_A	132	Response regulator receiver protein; structural ge	99.87
2oqr_A	230	Sensory transduction protein REGX3; response regul	99.87
2pln_A	137	HP1043, response regulator; signaling protein; 1.8	99.87
2j48_A	119	Two-component sensor kinase; pseudo-receiver, circ	99.87
3kyj_B	145	CHEY6 protein, putative histidine protein kinase;	99.87
2gwr_A	238	DNA-binding response regulator MTRA; two-component	99.86
2qv0_A	143	Protein MRKE; structural genomics, transcription,	99.86
3t8y_A	164	CHEB, chemotaxis response regulator protein-glutam	99.86
1w25_A	459	Stalked-cell differentiation controlling protein;	99.86
3klo_A	225	Transcriptional regulator VPST; REC domain, HTH do	99.86
3c3w_A	225	Two component transcriptional regulatory protein;	99.86
1p2f_A	220	Response regulator; DRRB, OMPR/PHOB, transcription	99.86
3c97_A	140	Signal transduction histidine kinase; structural g	99.85
2b4a_A	138	BH3024; flavodoxin-like fold, structural genomics,	99.85
2hqr_A	223	Putative transcriptional regulator; phosporylation	99.84
1dc7_A	124	NTRC, nitrogen regulation protein; receiver domain	99.84
3bre_A	358	Probable two-component response regulator; protein	99.83
3sy8_A	400	ROCR; TIM barrel phosphodiesterase-A, transcriptio	99.83
1qo0_D	196	AMIR; binding protein, gene regulator, receptor; 2	99.82
1a2o_A	349	CHEB methylesterase; bacterial chemotaxis, adaptat	99.8
2vyc_A	755	Biodegradative arginine decarboxylase; pyridoxal p	99.78
3luf_A	259	Two-component system response regulator/ggdef doma	99.74
3cwo_X	237	Beta/alpha-barrel protein based on 1THF and 1TMY;	99.33
1w25_A	459	Stalked-cell differentiation controlling protein;	99.18
3n75_A	715	LDC, lysine decarboxylase, inducible; pyridoxal-5'	98.21
3q7r_A	121	Transcriptional regulatory protein; CHXR, receiver	98.21
2ayx_A	254	Sensor kinase protein RCSC; two independent struct	98.08
2yxb_A	161	Coenzyme B12-dependent mutase; alpha/beta, structu	97.98
1ccw_A	137	Protein (glutamate mutase); coenzyme B12, radical	97.33
3cwo_X	237	Beta/alpha-barrel protein based on 1THF and 1TMY;	96.85
2i2x_B	258	MTAC, methyltransferase 1; TIM barrel and helix bu	96.74
3ezx_A	215	MMCP 1, monomethylamine corrinoid protein 1; N ter	96.5
1y80_A	210	Predicted cobalamin binding protein; corrinoid, fa	96.46
2xij_A	762	Methylmalonyl-COA mutase, mitochondrial; isomerase	96.42
1req_A	727	Methylmalonyl-COA mutase; isomerase, intramolecula	96.41
3q58_A	229	N-acetylmannosamine-6-phosphate 2-epimerase; TIM b	96.4
3igs_A	232	N-acetylmannosamine-6-phosphate 2-epimerase 2; ene	96.04
1xrs_B	262	D-lysine 5,6-aminomutase beta subunit; TIM barrel,	96.0
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	95.74
3qja_A	272	IGPS, indole-3-glycerol phosphate synthase; struct	94.86
1wv2_A	265	Thiazole moeity, thiazole biosynthesis protein THI	94.56
3kp1_A	763	D-ornithine aminomutase E component; 5 aminomutase	94.55
4e38_A	232	Keto-hydroxyglutarate-aldolase/keto-deoxy-phospho	94.03
3o63_A	243	Probable thiamine-phosphate pyrophosphorylase; thi	94.0
3qz6_A	261	HPCH/HPAI aldolase; structural genomics, PSI-biolo	93.55
2ekc_A	262	AQ_1548, tryptophan synthase alpha chain; structur	93.55
2htm_A	268	Thiazole biosynthesis protein THIG; thiamin biosyn	93.22
3lab_A	217	Putative KDPG (2-keto-3-deoxy-6-phosphogluconate)	93.09
3bul_A	579	Methionine synthase; transferase, reactivation con	92.88
1r8j_A	289	KAIA; circadian clock protein; 2.03A {Synechococcu	92.71
3f4w_A	211	Putative hexulose 6 phosphate synthase; humps, mal	92.39
1qop_A	268	Tryptophan synthase alpha chain; lyase, carbon-oxy	92.3
3tsm_A	272	IGPS, indole-3-glycerol phosphate synthase; struct	91.88
2lci_A	134	Protein OR36; structural genomics, northeast struc	91.86
1wa3_A	205	2-keto-3-deoxy-6-phosphogluconate aldolase; KDPG,	91.78
2v82_A	212	2-dehydro-3-deoxy-6-phosphogalactonate aldolase; l	91.29
3s83_A	259	Ggdef family protein; structural genomics, PSI-bio	90.88
3tqv_A	287	Nicotinate-nucleotide pyrophosphorylase; glycosylt	90.81
3inp_A	246	D-ribulose-phosphate 3-epimerase; IDP02542, isomer	90.51
3vnd_A	267	TSA, tryptophan synthase alpha chain; psychrophili	90.25
3nav_A	271	Tryptophan synthase alpha chain; alpha subunit, st	89.94
2xci_A	374	KDO-transferase, 3-deoxy-D-manno-2-octulosonic aci	89.41
3rht_A	259	(gatase1)-like protein; structural genomics, PSI-b	89.21
4fxs_A	496	Inosine-5'-monophosphate dehydrogenase; structural	89.15
3l9w_A	413	Glutathione-regulated potassium-efflux system Pro	88.78
1req_B	637	Methylmalonyl-COA mutase; isomerase, intramolecula	88.61
3fwz_A	140	Inner membrane protein YBAL; TRKA-N domain, E.coli	88.56
1geq_A	248	Tryptophan synthase alpha-subunit; hyperthermophIl	87.88
2gek_A	406	Phosphatidylinositol mannosyltransferase (PIMA); G	87.69
1yad_A	221	Regulatory protein TENI; TIM barrel, transcription	87.37
1mxs_A	225	KDPG aldolase; 2-keto-3-deoxy-6-phosphogluconate a	87.04
4fo4_A	366	Inosine 5'-monophosphate dehydrogenase; structural	87.03
3l0g_A	300	Nicotinate-nucleotide pyrophosphorylase; ssgcid, N	86.99
4af0_A	556	Inosine-5'-monophosphate dehydrogenase; oxidoreduc	86.78
4avf_A	490	Inosine-5'-monophosphate dehydrogenase; oxidoreduc	86.72
4e5v_A	281	Putative THUA-like protein; THUA-like proteins, tr	86.66
1ujp_A	271	Tryptophan synthase alpha chain; riken structural	86.61
3ajx_A	207	3-hexulose-6-phosphate synthase; HPS, OMPDC supraf	86.33
1qpo_A	284	Quinolinate acid phosphoribosyl transferase; type	86.32
1wbh_A	214	KHG/KDPG aldolase; lyase; 1.55A {Escherichia coli}	86.13
3r2g_A	361	Inosine 5'-monophosphate dehydrogenase; structural	86.08
3ceu_A	210	Thiamine phosphate pyrophosphorylase; TIM barrel-l	85.69
3usb_A	511	Inosine-5'-monophosphate dehydrogenase; structural	85.57
2q5c_A	196	NTRC family transcriptional regulator; structural	85.46
1vhc_A	224	Putative KHG/KDPG aldolase; structural genomics, u	85.34
2vws_A	267	YFAU, 2-keto-3-deoxy sugar aldolase; lyase, escher	84.84
2v5j_A	287	2,4-dihydroxyhept-2-ENE-1,7-dioic acid aldolase; l	84.67
3dr5_A	221	Putative O-methyltransferase; Q8NRD3, CGL1119, PF0	84.6
2fli_A	220	Ribulose-phosphate 3-epimerase; (beta/alpha)8-barr	84.5
1wa3_A	205	2-keto-3-deoxy-6-phosphogluconate aldolase; KDPG,	84.32
3paj_A	320	Nicotinate-nucleotide pyrophosphorylase, carboxyl;	83.82
1dxe_A	256	2-dehydro-3-deoxy-galactarate aldolase; class II a	83.79
1xm3_A	264	Thiazole biosynthesis protein THIG; structural gen	83.77
2yw3_A	207	4-hydroxy-2-oxoglutarate aldolase/2-deydro-3- deox	83.68
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	83.61
1xi3_A	215	Thiamine phosphate pyrophosphorylase; structural g	83.43
2l69_A	134	Rossmann 2X3 fold protein; structural genomics, no	83.27
2gjl_A	328	Hypothetical protein PA1024; 2-nitropropane dioxyg	83.13
1qdl_B	195	Protein (anthranilate synthase (TRPG-SUBUNIT)); tr	83.01
1i1q_B	192	Anthranilate synthase component II; tryptophan bio	82.13
1o4u_A	285	Type II quinolic acid phosphoribosyltransferase; s	81.78
1qpo_A	284	Quinolinate acid phosphoribosyl transferase; type	81.6
2tps_A	227	Protein (thiamin phosphate synthase); thiamin bios	81.57
1izc_A	339	Macrophomate synthase intermolecular diels-aldera;	81.57
1vc4_A	254	Indole-3-glycerol phosphate synthase; lyase, trypt	81.47
1x1o_A	286	Nicotinate-nucleotide pyrophosphorylase; transfera	81.37
2r6o_A	294	Putative diguanylate cyclase/phosphodiesterase (G	81.07
1h1y_A	228	D-ribulose-5-phosphate 3-epimerase; oxidative pent	81.03
4hjf_A	340	Ggdef family protein; structural genomics, PSI-bio	80.95
2ift_A	201	Putative methylase HI0767; NESG, Y767_haein, struc	80.61
1y0e_A	223	Putative N-acetylmannosamine-6-phosphate 2-epimer;	80.6

>3to5_A CHEY homolog; alpha(5)beta(5), chemotaxis, FLIM, phosphorylation, motor AC signaling protein; 1.65A {Vibrio cholerae}

Probab=99.97  E-value=4.1e-29  Score=161.18  Aligned_cols=120  Identities=28%  Similarity=0.428  Sum_probs=111.4

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCe-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh--CCCCc
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM--KVESK  101 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~--~~~~~  101 (145)
                      +.+||||+||++..+..++.+|+..||. +..++++.+|++.++. ..||+||+|++||+++|+++++.||+.  .+++|
T Consensus        11 k~~rILiVDD~~~~r~~l~~~L~~~G~~~v~~a~~g~~al~~~~~-~~~DlillD~~MP~mdG~el~~~ir~~~~~~~ip   89 (134)
T 3to5_A           11 KNMKILIVDDFSTMRRIVKNLLRDLGFNNTQEADDGLTALPMLKK-GDFDFVVTDWNMPGMQGIDLLKNIRADEELKHLP   89 (134)
T ss_dssp             TTCCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHH-HCCSEEEEESCCSSSCHHHHHHHHHHSTTTTTCC
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHcCCcEEEEECCHHHHHHHHHh-CCCCEEEEcCCCCCCCHHHHHHHHHhCCCCCCCe
Confidence            5679999999999999999999999986 6689999999999988 579999999999999999999999974  46899


Q ss_pred             EEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936          102 IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      ||++|+..+.+....+++.|+++|+.||+++++|..++++++++
T Consensus        90 vI~lTa~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~l~R  133 (134)
T 3to5_A           90 VLMITAEAKREQIIEAAQAGVNGYIVKPFTAATLKEKLDKIFER  133 (134)
T ss_dssp             EEEEESSCCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHCC-
T ss_pred             EEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999998763

>3gl9_A Response regulator; beta-sheet, surrounded by alpha helices, BOTH sides, signaling protein; HET: BFD; 1.80A {Thermotoga maritima} SCOP: c.23.1.0 PDB: 3dgf_C 3dge_C

Probab=99.94  E-value=7.9e-25  Score=138.40  Aligned_cols=117  Identities=25%  Similarity=0.415  Sum_probs=109.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh--CCCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM--KVESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~--~~~~~ii~  104 (145)
                      .+|+++||++..+..+...|+..||.+..+.+++++++.+.. ..||++|+|+.+|+++|+++++.+++.  .+.+|+++
T Consensus         3 ~~ILivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~al~~l~~-~~~dlvllD~~~p~~~g~~~~~~l~~~~~~~~~pii~   81 (122)
T 3gl9_A            3 KKVLLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKLSE-FTPDLIVLXIMMPVMDGFTVLKKLQEKEEWKRIPVIV   81 (122)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHTT-BCCSEEEECSCCSSSCHHHHHHHHHTSTTTTTSCEEE
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHHh-cCCCEEEEeccCCCCcHHHHHHHHHhcccccCCCEEE
Confidence            479999999999999999999999999999999999999987 579999999999999999999999875  36799999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +|+..+......+++.|+++|+.||++.++|..+++++++
T Consensus        82 ~s~~~~~~~~~~~~~~Ga~~~l~KP~~~~~L~~~i~~~l~  121 (122)
T 3gl9_A           82 LTAKGGEEDESLALSLGARKVMRKPFSPSQFIEEVKHLLN  121 (122)
T ss_dssp             EESCCSHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHC
T ss_pred             EecCCchHHHHHHHhcChhhhccCCCCHHHHHHHHHHHhc
Confidence            9999999999999999999999999999999999998875

>3t6k_A Response regulator receiver; flavodoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: MSE; 1.86A {Chloroflexus aurantiacus} SCOP: c.23.1.0

Probab=99.93  E-value=2.7e-24  Score=138.31  Aligned_cols=118  Identities=22%  Similarity=0.353  Sum_probs=110.5

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh--CCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM--KVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~--~~~~~ii  103 (145)
                      +.+|||+||++..+..+...|+..||.+..+.+++++++.+.. ..||+||+|+.+|+.+|+++++.+++.  .+.+|+|
T Consensus         4 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~dlvl~D~~lp~~~g~~~~~~lr~~~~~~~~pii   82 (136)
T 3t6k_A            4 PHTLLIVDDDDTVAEMLELVLRGAGYEVRRAASGEEALQQIYK-NLPDALICDVLLPGIDGYTLCKRVRQHPLTKTLPIL   82 (136)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-SCCSEEEEESCCSSSCHHHHHHHHHHSGGGTTCCEE
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHh-CCCCEEEEeCCCCCCCHHHHHHHHHcCCCcCCccEE
Confidence            4689999999999999999999999999999999999999987 579999999999999999999999985  4578999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++|+..+......++..|+++|+.||++.++|..+++++++
T Consensus        83 ~~t~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~l~  123 (136)
T 3t6k_A           83 MLTAQGDISAKIAGFEAGANDYLAKPFEPQELVYRVKNILA  123 (136)
T ss_dssp             EEECTTCHHHHHHHHHHTCSEEEETTCCHHHHHHHHHHHHH
T ss_pred             EEecCCCHHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999998874

>3f6p_A Transcriptional regulatory protein YYCF; unphosphorelated, receiver domain, cytoplasm, DNA-binding, phosphoprotein, transcription regulation; 1.95A {Bacillus subtilis} SCOP: c.23.1.1 PDB: 2zwm_A

Probab=99.93  E-value=3e-24  Score=135.29  Aligned_cols=117  Identities=26%  Similarity=0.456  Sum_probs=109.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .+|+++||++..+..+...|+..||.+..+.+++++++.+.. ..||++++|+.+|+.+|+++++.+++.. ..|++++|
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~dlii~D~~~p~~~g~~~~~~lr~~~-~~~ii~~t   80 (120)
T 3f6p_A            3 KKILVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMVEE-LQPDLILLDIMLPNKDGVEVCREVRKKY-DMPIIMLT   80 (120)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHT-TCCSEEEEETTSTTTHHHHHHHHHHTTC-CSCEEEEE
T ss_pred             CeEEEEECCHHHHHHHHHHHHhCCEEEEEeCCHHHHHHHHhh-CCCCEEEEeCCCCCCCHHHHHHHHHhcC-CCCEEEEE
Confidence            489999999999999999999999999999999999999987 6799999999999999999999999754 78999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      +..+......+++.|+++|+.||++.++|..++++.+++
T Consensus        81 ~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~l~~  119 (120)
T 3f6p_A           81 AKDSEIDKVIGLEIGADDYVTKPFSTRELLARVKANLRR  119 (120)
T ss_dssp             ESSCHHHHHHHHHTTCCEEEEESCCHHHHHHHHHHHHTC
T ss_pred             CCCChHHHHHHHhCCcceeEcCCCCHHHHHHHHHHHHhc
Confidence            999998899999999999999999999999999988753

>3h1g_A Chemotaxis protein CHEY homolog; sulfate-bound CHEY, cytoplasm, flagellar rotatio magnesium, metal-binding, phosphoprotein; 1.70A {Helicobacter pylori} SCOP: c.23.1.1 PDB: 3gwg_A 3h1e_A 3h1f_A

Probab=99.93  E-value=4.9e-24  Score=135.76  Aligned_cols=120  Identities=29%  Similarity=0.395  Sum_probs=109.1

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCe-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh--CCCCc
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM--KVESK  101 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~--~~~~~  101 (145)
                      .+++|+++||++..+..++..|+..||. +..+.++.+++..+.....||++|+|+.+|+++|+++++.+++.  .+.+|
T Consensus         4 ~~~~iLivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~a~~~~~~~~~~dlvi~D~~~p~~~g~~~~~~lr~~~~~~~~p   83 (129)
T 3h1g_A            4 GSMKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANADTKVLITDWNMPEMNGLDLVKKVRSDSRFKEIP   83 (129)
T ss_dssp             --CCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHHCTTCCEEEECSCCSSSCHHHHHHHHHTSTTCTTCC
T ss_pred             CCcEEEEEeCCHHHHHHHHHHHHHcCCcEEEEeCCHHHHHHHHHhCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCCCe
Confidence            4578999999999999999999999985 88999999999988763469999999999999999999999984  46899


Q ss_pred             EEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          102 IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |+++|+..+......+++.|+++|+.||++.++|..+++++++
T Consensus        84 ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~L~~~l~~~l~  126 (129)
T 3h1g_A           84 IIMITAEGGKAEVITALKAGVNNYIVKPFTPQVLKEKLEVVLG  126 (129)
T ss_dssp             EEEEESCCSHHHHHHHHHHTCCEEEESCCCHHHHHHHHHHHHC
T ss_pred             EEEEeCCCChHHHHHHHHcCccEEEeCCCCHHHHHHHHHHHhc
Confidence            9999999999999999999999999999999999999998875

>2lpm_A Two-component response regulator; transcription regulator; NMR {Sinorhizobium meliloti}

Probab=99.93  E-value=7.9e-27  Score=148.30  Aligned_cols=114  Identities=23%  Similarity=0.264  Sum_probs=102.2

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      +++||||+||++..+..+...|+..||.++ .++++++|++.++. .+||+||+|++||+++|+++++.+++.  ++|||
T Consensus         7 r~~rILiVdD~~~~~~~l~~~L~~~G~~v~~~a~~g~eAl~~~~~-~~~DlvllDi~mP~~~G~el~~~lr~~--~ipvI   83 (123)
T 2lpm_A            7 RRLRVLVVEDESMIAMLIEDTLCELGHEVAATASRMQEALDIARK-GQFDIAIIDVNLDGEPSYPVADILAER--NVPFI   83 (123)
T ss_dssp             CCCCEEEESSSTTTSHHHHHHHHHHCCCCCBCSCCHHHHHHHHHH-CCSSEEEECSSSSSCCSHHHHHHHHHT--CCSSC
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHh-CCCCEEEEecCCCCCCHHHHHHHHHcC--CCCEE
Confidence            467999999999999999999999999976 78999999999998 689999999999999999999999974  68999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++|++.+...   +.++|+.+|+.||+++++|..+++++.+
T Consensus        84 ~lTa~~~~~~---~~~~g~~~yl~KP~~~~~L~~~l~~~~~  121 (123)
T 2lpm_A           84 FATGYGSKGL---DTRYSNIPLLTKPFLDSELEAVLVQISK  121 (123)
T ss_dssp             CBCTTCTTSC---CSSSCSCSCBCSSSSHHHHHHHHSTTCS
T ss_pred             EEecCccHHH---HHhCCCCcEEECCCCHHHHHHHHHHHHh
Confidence            9999876543   3467999999999999999999988765

>4e7p_A Response regulator; DNA binding, cytosol, transcription regulator; 1.89A {Streptococcus pneumoniae} PDB: 4e7o_A

Probab=99.93  E-value=6.5e-24  Score=138.47  Aligned_cols=127  Identities=28%  Similarity=0.386  Sum_probs=112.3

Q ss_pred             CCCCCCCCCcEEEEEeCCHHHHHHHHHHHHhcC--CeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHh
Q 045936           18 ENPVSKNRPYFALVVDDDPMIRRIHSMILKSVG--FKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRA   95 (145)
Q Consensus        18 ~~~~~~~~~~~vlii~~~~~~~~~l~~~l~~~g--~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~   95 (145)
                      ..+......++|+|+||++..+..+...|+..|  +.+..+.+.+++++.+.. ..||+||+|+.+++.+|+++++.+++
T Consensus        12 ~~~~~~~~m~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~-~~~dlii~D~~l~~~~g~~~~~~l~~   90 (150)
T 4e7p_A           12 SGLVPRGSHMKVLVAEDQSMLRDAMCQLLTLQPDVESVLQAKNGQEAIQLLEK-ESVDIAILDVEMPVKTGLEVLEWIRS   90 (150)
T ss_dssp             --------CEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHTT-SCCSEEEECSSCSSSCHHHHHHHHHH
T ss_pred             cCCCCCCCccEEEEEcCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHhhc-cCCCEEEEeCCCCCCcHHHHHHHHHH
Confidence            334444556799999999999999999999887  778899999999999987 67999999999999999999999999


Q ss_pred             hCCCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936           96 MKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus        96 ~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      ..+.+|||++++..+......+++.|+++|+.||++.++|..+|++++++
T Consensus        91 ~~~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~~  140 (150)
T 4e7p_A           91 EKLETKVVVVTTFKRAGYFERAVKAGVDAYVLKERSIADLMQTLHTVLEG  140 (150)
T ss_dssp             TTCSCEEEEEESCCCHHHHHHHHHTTCSEEEETTSCHHHHHHHHHHHHTT
T ss_pred             hCCCCeEEEEeCCCCHHHHHHHHHCCCcEEEecCCCHHHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999999999998753

>1dbw_A Transcriptional regulatory protein FIXJ; doubly wound five-stranded beta/alpha fold, nitrogen fixatio regulation; HET: 15P; 1.60A {Sinorhizobium meliloti} SCOP: c.23.1.1 PDB: 1dck_A* 1dcm_A 1d5w_A*

Probab=99.93  E-value=1.6e-23  Score=132.69  Aligned_cols=118  Identities=20%  Similarity=0.340  Sum_probs=110.9

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      +.+|+++||++..+..+...|...||.+..+.++++++..+.. ..||++++|+.+|+.+|+++++.+++..+.+|++++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~-~~~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~ii~~   81 (126)
T 1dbw_A            3 DYTVHIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPD-VRNGVLVTDLRMPDMSGVELLRNLGDLKINIPSIVI   81 (126)
T ss_dssp             CCEEEEEESSHHHHHHHHHHHHHTTCEEEEESCHHHHHHHGGG-CCSEEEEEECCSTTSCHHHHHHHHHHTTCCCCEEEE
T ss_pred             CCEEEEEcCCHHHHHHHHHHHHhCCcEEEEeCCHHHHHHHHhc-CCCCEEEEECCCCCCCHHHHHHHHHhcCCCCCEEEE
Confidence            4589999999999999999999999999999999999999887 579999999999999999999999998889999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |+..+......+++.|+++|+.||++.++|..+++++++
T Consensus        82 s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~  120 (126)
T 1dbw_A           82 TGHGDVPMAVEAMKAGAVDFIEKPFEDTVIIEAIERASE  120 (126)
T ss_dssp             ECTTCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHT
T ss_pred             ECCCCHHHHHHHHHhCHHHheeCCCCHHHHHHHHHHHHH
Confidence            999999899999999999999999999999999998764

>3eod_A Protein HNR; response regulator, phosphoprotein, two-component regulatory system, signaling protein; 1.75A {Escherichia coli K12}

Probab=99.92  E-value=1e-23  Score=134.12  Aligned_cols=119  Identities=16%  Similarity=0.312  Sum_probs=105.8

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      .+.+|+++||++..+..+...|+..||.+..+.+++++++.+.. ..||+||+|+.+++.+|+++++.+++..+.+|+++
T Consensus         6 ~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-~~~dlvi~d~~l~~~~g~~~~~~l~~~~~~~~ii~   84 (130)
T 3eod_A            6 VGKQILIVEDEQVFRSLLDSWFSSLGATTVLAADGVDALELLGG-FTPDLMICDIAMPRMNGLKLLEHIRNRGDQTPVLV   84 (130)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHTT-CCCSEEEECCC-----CHHHHHHHHHTTCCCCEEE
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhc-CCCCEEEEecCCCCCCHHHHHHHHHhcCCCCCEEE
Confidence            46799999999999999999999999999999999999999987 67999999999999999999999999989999999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCC-CHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPL-TMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~-~~~~l~~~l~~~~~  144 (145)
                      +|+..+......+++.|+++|+.||+ +.++|...++++++
T Consensus        85 ~t~~~~~~~~~~~~~~g~~~~l~KP~~~~~~l~~~i~~~l~  125 (130)
T 3eod_A           85 ISATENMADIAKALRLGVEDVLLKPVKDLNRLREMVFACLY  125 (130)
T ss_dssp             EECCCCHHHHHHHHHHCCSEEEESCC---CHHHHHHHHHHC
T ss_pred             EEcCCCHHHHHHHHHcCCCEEEeCCCCcHHHHHHHHHHHhc
Confidence            99999999999999999999999999 89999999998875

>3rqi_A Response regulator protein; structural genomics, seattle structural genomics center for infectious disease, ssgcid; HET: PHD CIT; 1.70A {Burkholderia pseudomallei}

Probab=99.92  E-value=1.8e-24  Score=145.88  Aligned_cols=118  Identities=20%  Similarity=0.283  Sum_probs=110.7

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      .+.+|+|+||++..+..+..+|...||.|..+.+++++++.+.. ..||+||+|+.||+++|+++++.+++..+.+|||+
T Consensus         6 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~dlvl~D~~lp~~~g~~~~~~l~~~~~~~~ii~   84 (184)
T 3rqi_A            6 SDKNFLVIDDNEVFAGTLARGLERRGYAVRQAHNKDEALKLAGA-EKFEFITVXLHLGNDSGLSLIAPLCDLQPDARILV   84 (184)
T ss_dssp             -CCEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHHTT-SCCSEEEECSEETTEESHHHHHHHHHHCTTCEEEE
T ss_pred             CCCeEEEEcCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhh-CCCCEEEEeccCCCccHHHHHHHHHhcCCCCCEEE
Confidence            35689999999999999999999999999999999999999987 67999999999999999999999999989999999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +|+..+.+....+++.|+++|+.||++.++|..++++++
T Consensus        85 lt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~~  123 (184)
T 3rqi_A           85 LTGYASIATAVQAVKDGADNYLAKPANVESILAALQTNA  123 (184)
T ss_dssp             EESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHTSTTH
T ss_pred             EeCCCCHHHHHHHHHhCHHHheeCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999886654

>1srr_A SPO0F, sporulation response regulatory protein; aspartate pocket, two component system; 1.90A {Bacillus subtilis} SCOP: c.23.1.1 PDB: 1pey_A 3q15_C 2ftk_E* 1fsp_A 1nat_A 1pux_A 2fsp_A 2jvj_A 2jvk_A 2jvi_A 1f51_E

Probab=99.92  E-value=1.8e-23  Score=131.99  Aligned_cols=117  Identities=24%  Similarity=0.376  Sum_probs=110.2

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .+|+++||++..+..+...|+..||.+..+.++++++..+.. ..||++++|+.+|+.+|+++++.+++..+.+|++++|
T Consensus         4 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~~-~~~dlvl~D~~l~~~~g~~~~~~l~~~~~~~~ii~~s   82 (124)
T 1srr_A            4 EKILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTK-ERPDLVLLDMKIPGMDGIEILKRMKVIDENIRVIIMT   82 (124)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHH-HCCSEEEEESCCTTCCHHHHHHHHHHHCTTCEEEEEE
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHhc-cCCCEEEEecCCCCCCHHHHHHHHHHhCCCCCEEEEE
Confidence            489999999999999999999999999999999999999887 5799999999999999999999999988899999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+......++..|+++|+.||++.++|..+++++++
T Consensus        83 ~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~  120 (124)
T 1srr_A           83 AYGELDMIQESKELGALTHFAKPFDIDEIRDAVKKYLP  120 (124)
T ss_dssp             SSCCHHHHHHHHHHTCCCEEESSCCHHHHHHHHHHHSC
T ss_pred             ccCchHHHHHHHhcChHhhccCCCCHHHHHHHHHHHhc
Confidence            99998889999999999999999999999999998764

>3hv2_A Response regulator/HD domain protein; PSI-2, NYSGXRC, structural genomics, protein structure initiative; 1.50A {Pseudomonas fluorescens pf-5}

Probab=99.92  E-value=2.5e-23  Score=136.11  Aligned_cols=119  Identities=16%  Similarity=0.225  Sum_probs=112.5

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ...+|||+||++..+..+...|...||.+..+.++++++..+.. ..||+||+|+.+++.+|+++++.+++..+.+|||+
T Consensus        13 ~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-~~~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~ii~   91 (153)
T 3hv2_A           13 RRPEILLVDSQEVILQRLQQLLSPLPYTLHFARDATQALQLLAS-REVDLVISAAHLPQMDGPTLLARIHQQYPSTTRIL   91 (153)
T ss_dssp             SCCEEEEECSCHHHHHHHHHHHTTSSCEEEEESSHHHHHHHHHH-SCCSEEEEESCCSSSCHHHHHHHHHHHCTTSEEEE
T ss_pred             CCceEEEECCCHHHHHHHHHHhcccCcEEEEECCHHHHHHHHHc-CCCCEEEEeCCCCcCcHHHHHHHHHhHCCCCeEEE
Confidence            45699999999999999999999999999999999999999987 57999999999999999999999999989999999


Q ss_pred             EecCCChHHHHHHHHhc-ccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAG-LDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g-~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++..+......++..| +++|+.||++.++|..+|+++++
T Consensus        92 ~s~~~~~~~~~~~~~~g~~~~~l~KP~~~~~l~~~i~~~l~  132 (153)
T 3hv2_A           92 LTGDPDLKLIAKAINEGEIYRYLSKPWDDQELLLALRQALE  132 (153)
T ss_dssp             ECCCCCHHHHHHHHHTTCCSEEECSSCCHHHHHHHHHHHHH
T ss_pred             EECCCCHHHHHHHHhCCCcceEEeCCCCHHHHHHHHHHHHH
Confidence            99999999999999999 99999999999999999988764

>3m6m_D Sensory/regulatory protein RPFC; RPFF, REC, enoyl-COA hydratase, lyase-transferase COMP; 2.50A {Xanthomonas campestris PV}

Probab=99.92  E-value=2.1e-23  Score=135.24  Aligned_cols=118  Identities=25%  Similarity=0.405  Sum_probs=106.2

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh----CCCC
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM----KVES  100 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~----~~~~  100 (145)
                      ++++|+|+||++..+..+..+|+..||.+..+.+++++++.+.. ..||+||+|+.||+++|+++++.+++.    .+.+
T Consensus        13 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~dlvl~D~~mp~~~g~~~~~~lr~~~~~~~~~~   91 (143)
T 3m6m_D           13 RSMRMLVADDHEANRMVLQRLLEKAGHKVLCVNGAEQVLDAMAE-EDYDAVIVDLHMPGMNGLDMLKQLRVMQASGMRYT   91 (143)
T ss_dssp             --CEEEEECSSHHHHHHHHHHHHC--CEEEEESSHHHHHHHHHH-SCCSEEEEESCCSSSCHHHHHHHHHHHHHTTCCCC
T ss_pred             ccceEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhchhccCCCC
Confidence            46799999999999999999999999999999999999999987 579999999999999999999999853    3568


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      |++++|+..+......+++.|+++|+.||++.++|..+++++.
T Consensus        92 pii~~s~~~~~~~~~~~~~~Ga~~~l~KP~~~~~L~~~l~~~~  134 (143)
T 3m6m_D           92 PVVVLSADVTPEAIRACEQAGARAFLAKPVVAAKLLDTLADLA  134 (143)
T ss_dssp             CEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHC
T ss_pred             eEEEEeCCCCHHHHHHHHHcChhheeeCCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999998875

>2pl1_A Transcriptional regulatory protein PHOP; CHEY-like fold, response regulator, beryllium fluoride, transcription factor, activated, virulence; 1.90A {Escherichia coli} SCOP: c.23.1.1 PDB: 2pkx_A

Probab=99.92  E-value=4.4e-23  Score=129.50  Aligned_cols=117  Identities=26%  Similarity=0.405  Sum_probs=109.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      ++|+++||++..+..+...|...||.+..++++++++..+.. ..||++++|+.+|+.+|+++++.+++..+.+|+++++
T Consensus         1 ~~ilivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~~~~-~~~dlil~D~~l~~~~g~~~~~~l~~~~~~~~ii~~s   79 (121)
T 2pl1_A            1 MRVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNE-HIPDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVLT   79 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-SCCSEEEECSCCSSSCHHHHHHHHHHTTCCSCEEEEE
T ss_pred             CeEEEEeCcHHHHHHHHHHHhhcCCEEEEeCCHHHHHHHHhc-cCCCEEEEecCCCCCCHHHHHHHHHhcCCCCCEEEEe
Confidence            479999999999999999999999999999999999999987 5799999999999999999999999888899999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|..+++++++
T Consensus        80 ~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~  117 (121)
T 2pl1_A           80 ARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMR  117 (121)
T ss_dssp             SCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHcCccceEECCCCHHHHHHHHHHHHH
Confidence            99999889999999999999999999999999988764

>3crn_A Response regulator receiver domain protein, CHEY-; structural genomics, signal regulator receiver domain; HET: PHD; 1.58A {Methanospirillum hungatei jf-1}

Probab=99.92  E-value=2.5e-23  Score=132.97  Aligned_cols=118  Identities=24%  Similarity=0.335  Sum_probs=110.6

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      ..+|+++||++..+..+...|+..||.+..+.++.+++..+.. ..||++|+|+.+++.+|+++++.+++..+.+|+|++
T Consensus         3 ~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~dlvl~D~~l~~~~g~~~~~~l~~~~~~~~ii~~   81 (132)
T 3crn_A            3 LKRILIVDDDTAILDSTKQILEFEGYEVEIAATAGEGLAKIEN-EFFNLALFXIKLPDMEGTELLEKAHKLRPGMKKIMV   81 (132)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-SCCSEEEECSBCSSSBHHHHHHHHHHHCTTSEEEEE
T ss_pred             ccEEEEEeCCHHHHHHHHHHHHHCCceEEEeCCHHHHHHHHhc-CCCCEEEEecCCCCCchHHHHHHHHhhCCCCcEEEE
Confidence            3589999999999999999999999999999999999999987 579999999999999999999999998889999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |+..+......+++.|+++|+.||++.++|..+++++++
T Consensus        82 s~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~  120 (132)
T 3crn_A           82 TGYASLENSVFSLNAGADAYIMKPVNPRDLLEKIKEKLD  120 (132)
T ss_dssp             ESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             eccccHHHHHHHHhccchhhccCCCCHHHHHHHHHHHHh
Confidence            999999899999999999999999999999999988764

>3hzh_A Chemotaxis response regulator (CHEY-3); phosphatase, complex, response regulator, receiver domain, two-component signal transduction; HET: BFD; 1.96A {Borrelia burgdorferi}

Probab=99.92  E-value=1.4e-23  Score=138.07  Aligned_cols=120  Identities=24%  Similarity=0.398  Sum_probs=112.8

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEE-EecCHHHHHHHHhcCC--CccEEEEeCCCCCCCHHHHHHHHHhhCCCCc
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVE-VAENGKEAVDLFRTGA--KFHIVFIDMEMPVMDGIEATKAMRAMKVESK  101 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~-~~~~~~~~l~~l~~~~--~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~  101 (145)
                      .+++|+|+||++..+..+...|+..||.+. .+.+.++++..+.. .  .||+||+|+.+++.+|+++++.|++..+.+|
T Consensus        35 ~~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~al~~l~~-~~~~~dliilD~~l~~~~g~~~~~~lr~~~~~~~  113 (157)
T 3hzh_A           35 IPFNVLIVDDSVFTVKQLTQIFTSEGFNIIDTAADGEEAVIKYKN-HYPNIDIVTLXITMPKMDGITCLSNIMEFDKNAR  113 (157)
T ss_dssp             EECEEEEECSCHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHH-HGGGCCEEEECSSCSSSCHHHHHHHHHHHCTTCC
T ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCCeEEEEECCHHHHHHHHHh-cCCCCCEEEEeccCCCccHHHHHHHHHhhCCCCc
Confidence            456899999999999999999999999988 99999999999987 5  6899999999999999999999999999999


Q ss_pred             EEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936          102 IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      ||++++..+......+++.|+++|+.||++.++|..+|++++++
T Consensus       114 ii~ls~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~~  157 (157)
T 3hzh_A          114 VIMISALGKEQLVKDCLIKGAKTFIVKPLDRAKVLQRVMSVFVK  157 (157)
T ss_dssp             EEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHTTCC
T ss_pred             EEEEeccCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999988753

>2r25_B Osmosensing histidine protein kinase SLN1; alpha5-BETA5, response regulator, four helix bundle, histidine phosphotransfer (HPT) protein; 1.70A {Saccharomyces cerevisiae} SCOP: c.23.1.1 PDB: 1oxk_B 1oxb_B

Probab=99.92  E-value=3.6e-23  Score=132.52  Aligned_cols=119  Identities=27%  Similarity=0.495  Sum_probs=107.3

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCe-EEEecCHHHHHHHHhc----CCCccEEEEeCCCCCCCHHHHHHHHHhh-CCC
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRT----GAKFHIVFIDMEMPVMDGIEATKAMRAM-KVE   99 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~-v~~~~~~~~~l~~l~~----~~~~dlil~d~~~~~~~g~~~~~~l~~~-~~~   99 (145)
                      .++|||+||++..+..+...|+..||. +..+.++++++..+..    +..||++|+|+.||+++|+++++.+++. .+.
T Consensus         2 ~~~ILivdD~~~~~~~l~~~L~~~g~~~v~~~~~~~~al~~~~~~~~~~~~~dlvllD~~mp~~~G~~~~~~lr~~~~~~   81 (133)
T 2r25_B            2 SVKILVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGENYNMIFMDVQMPKVDGLLSTKMIRRDLGYT   81 (133)
T ss_dssp             CSCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHHHHHHTCCCSEEEECSCCSSSCHHHHHHHHHHHSCCC
T ss_pred             CceEEEEcCCHHHHHHHHHHHHHcCCceEEEECCHHHHHHHHHHHHhcCCCCCEEEEeCCCCCCChHHHHHHHHhhcCCC
Confidence            357999999999999999999988975 7789999999998864    1369999999999999999999999974 567


Q ss_pred             CcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          100 SKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       100 ~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      .|||++|+..+......+++.|+++|+.||++.++|...+++++.
T Consensus        82 ~~ii~lt~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~l~~~~~  126 (133)
T 2r25_B           82 SPIVALTAFADDSNIKECLESGMNGFLSKPIKRPKLKTILTEFCA  126 (133)
T ss_dssp             SCEEEEESCCSHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHH
Confidence            899999999999999999999999999999999999999988753

>3hdv_A Response regulator; PSI-II, structural genomics, Pro structure initiative, NEW YORK SGX research center for STRU genomics, nysgxrc; 2.09A {Pseudomonas putida} SCOP: c.23.1.0

Probab=99.92  E-value=4.6e-23  Score=132.07  Aligned_cols=120  Identities=23%  Similarity=0.326  Sum_probs=111.4

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh-CCCCcEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM-KVESKIV  103 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~-~~~~~ii  103 (145)
                      .+.+|+|+||++..+..+...|+..||.+..+.+..+++..+.....||+||+|+.+++.+|+++++.+++. .+.+|+|
T Consensus         6 ~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~~~~~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~~ii   85 (136)
T 3hdv_A            6 ARPLVLVVDDNAVNREALILYLKSRGIDAVGADGAEEARLYLHYQKRIGLMITDLRMQPESGLDLIRTIRASERAALSII   85 (136)
T ss_dssp             -CCEEEEECSCHHHHHHHHHHHHHTTCCEEEESSHHHHHHHHHHCTTEEEEEECSCCSSSCHHHHHHHHHTSTTTTCEEE
T ss_pred             CCCeEEEECCCHHHHHHHHHHHHHcCceEEEeCCHHHHHHHHHhCCCCcEEEEeccCCCCCHHHHHHHHHhcCCCCCCEE
Confidence            356899999999999999999999999999999999999998874349999999999999999999999998 6889999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++++..+......++..|+++|+.||++.++|..+|+++..
T Consensus        86 ~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~  126 (136)
T 3hdv_A           86 VVSGDTDVEEAVDVMHLGVVDFLLKPVDLGKLLELVNKELK  126 (136)
T ss_dssp             EEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHC
T ss_pred             EEeCCCChHHHHHHHhCCcceEEeCCCCHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999998875

>3gt7_A Sensor protein; structural genomics, signal receiver domain, kinase, PSI-2, protein structure initiative; 2.30A {Syntrophus aciditrophicus SB}

Probab=99.92  E-value=3.9e-23  Score=135.45  Aligned_cols=119  Identities=23%  Similarity=0.325  Sum_probs=111.0

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC--CCCcE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK--VESKI  102 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~--~~~~i  102 (145)
                      .+.+|||+||++..+..+...|+..||.+..+.++++++..+.. ..||+||+|+.+++.+|+++++.|++..  +.+||
T Consensus         6 ~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~-~~~dlii~D~~l~~~~g~~~~~~lr~~~~~~~~pi   84 (154)
T 3gt7_A            6 RAGEILIVEDSPTQAEHLKHILEETGYQTEHVRNGREAVRFLSL-TRPDLIISDVLMPEMDGYALCRWLKGQPDLRTIPV   84 (154)
T ss_dssp             -CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHTT-CCCSEEEEESCCSSSCHHHHHHHHHHSTTTTTSCE
T ss_pred             CCCcEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHh-CCCCEEEEeCCCCCCCHHHHHHHHHhCCCcCCCCE
Confidence            35689999999999999999999999999999999999999987 6799999999999999999999999864  78999


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |++++..+......+++.|+++|+.||++.++|..+++++++
T Consensus        85 i~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~  126 (154)
T 3gt7_A           85 ILLTILSDPRDVVRSLECGADDFITKPCKDVVLASHVKRLLS  126 (154)
T ss_dssp             EEEECCCSHHHHHHHHHHCCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             EEEECCCChHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999998864

>3hdg_A Uncharacterized protein; two-component sensor activity, response regulator, PSI-II, 11227F, NYSGXRC, structural genomics; 2.27A {Wolinella succinogenes} SCOP: c.23.1.0

Probab=99.92  E-value=1.4e-23  Score=134.64  Aligned_cols=119  Identities=21%  Similarity=0.307  Sum_probs=112.2

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      .+++|+|+||++..+..+...|...|+.+..+.+.++++..+.. ..||+||+|+.+++.+|+++++.+++..+.+|+++
T Consensus         6 ~~~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~a~~~l~~-~~~dlvi~d~~l~~~~g~~~~~~l~~~~~~~~ii~   84 (137)
T 3hdg_A            6 VALKILIVEDDTDAREWLSTIISNHFPEVWSAGDGEEGERLFGL-HAPDVIITDIRMPKLGGLEMLDRIKAGGAKPYVIV   84 (137)
T ss_dssp             -CCCEEEECSCHHHHHHHHHHHHTTCSCEEEESSHHHHHHHHHH-HCCSEEEECSSCSSSCHHHHHHHHHHTTCCCEEEE
T ss_pred             cccEEEEEeCCHHHHHHHHHHHHhcCcEEEEECCHHHHHHHHhc-cCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCcEEE
Confidence            35789999999999999999999989999999999999999987 57999999999999999999999999999999999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++..+.+....++..|+++|+.||++.++|..+++++++
T Consensus        85 ~s~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~  124 (137)
T 3hdg_A           85 ISAFSEMKYFIKAIELGVHLFLPKPIEPGRLMETLEDFRH  124 (137)
T ss_dssp             CCCCCCHHHHHHHHHHCCSEECCSSCCHHHHHHHHHHHHH
T ss_pred             EecCcChHHHHHHHhCCcceeEcCCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999998875

>1tmy_A CHEY protein, TMY; chemotaxis, phosphoryl transfer, signal transduction; 1.90A {Thermotoga maritima} SCOP: c.23.1.1 PDB: 2tmy_A 3tmy_A 4tmy_A 1u0s_Y

Probab=99.92  E-value=3.2e-23  Score=130.05  Aligned_cols=117  Identities=28%  Similarity=0.453  Sum_probs=108.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCe-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      .+|+++||++..+..+...|+..||. +..+.++++++..+.. ..||++++|+.+|+.+|.++++.+++..+.+|++++
T Consensus         3 ~~ilivdd~~~~~~~l~~~l~~~g~~vv~~~~~~~~a~~~~~~-~~~dlil~D~~l~~~~g~~~~~~l~~~~~~~~ii~~   81 (120)
T 1tmy_A            3 KRVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKE-LKPDIVTMDITMPEMNGIDAIKEIMKIDPNAKIIVC   81 (120)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHH-HCCSEEEEECSCGGGCHHHHHHHHHHHCTTCCEEEE
T ss_pred             ceEEEEcCcHHHHHHHHHHHhhcCcEEEEEECCHHHHHHHHHh-cCCCEEEEeCCCCCCcHHHHHHHHHhhCCCCeEEEE
Confidence            58999999999999999999999999 5589999999999887 579999999999999999999999998889999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++..+......+++.|+++|+.||++.++|..+++++++
T Consensus        82 s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~  120 (120)
T 1tmy_A           82 SAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKVSK  120 (120)
T ss_dssp             ECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHC-
T ss_pred             eCCCCHHHHHHHHHhCcceeEeCCCCHHHHHHHHHHHhC
Confidence            999999989999999999999999999999999988753

>3kto_A Response regulator receiver protein; PSI-II,structural genomics, protein structure initiative; 1.98A {Pseudoalteromonas atlantica T6C} SCOP: c.23.1.0

Probab=99.92  E-value=4.4e-24  Score=137.16  Aligned_cols=119  Identities=13%  Similarity=0.094  Sum_probs=111.3

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCC--CCHHHHHHHHHhhCCCCcE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPV--MDGIEATKAMRAMKVESKI  102 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~--~~g~~~~~~l~~~~~~~~i  102 (145)
                      ...+|+|+||++..+..+...|+..||.+..+.++++++..+.. ..||+||+|+.+++  .+|+++++.+++..+.+|+
T Consensus         5 ~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-~~~dlvi~D~~l~~~~~~g~~~~~~l~~~~~~~~i   83 (136)
T 3kto_A            5 HHPIIYLVDHQKDARAALSKLLSPLDVTIQCFASAESFMRQQIS-DDAIGMIIEAHLEDKKDSGIELLETLVKRGFHLPT   83 (136)
T ss_dssp             --CEEEEECSCHHHHHHHHHHHTTSSSEEEEESSHHHHTTSCCC-TTEEEEEEETTGGGBTTHHHHHHHHHHHTTCCCCE
T ss_pred             CCCeEEEEcCCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHhc-cCCCEEEEeCcCCCCCccHHHHHHHHHhCCCCCCE
Confidence            35689999999999999999999999999999999999999887 67999999999999  9999999999999899999


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |++|+..+......+++.|+++|+.||++.++|..+++++.+
T Consensus        84 i~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~~~  125 (136)
T 3kto_A           84 IVMASSSDIPTAVRAMRASAADFIEKPFIEHVLVHDVQQIIN  125 (136)
T ss_dssp             EEEESSCCHHHHHHHHHTTCSEEEESSBCHHHHHHHHHHHHH
T ss_pred             EEEEcCCCHHHHHHHHHcChHHheeCCCCHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999998764

>4dad_A Putative pilus assembly-related protein; response regulator receiver domain, CHEY-related protein, ST genomics; 2.50A {Burkholderia pseudomallei} PDB: 4dn6_A

Probab=99.91  E-value=6.9e-24  Score=137.55  Aligned_cols=124  Identities=16%  Similarity=0.121  Sum_probs=112.5

Q ss_pred             CCCCCCcEEEEEeCCHHHHHHHHHHHHhcC-CeEEEecCHHHHHHHHhcC-CCccEEEEeCCCCCCCHHHHHHHHHhhCC
Q 045936           21 VSKNRPYFALVVDDDPMIRRIHSMILKSVG-FKVEVAENGKEAVDLFRTG-AKFHIVFIDMEMPVMDGIEATKAMRAMKV   98 (145)
Q Consensus        21 ~~~~~~~~vlii~~~~~~~~~l~~~l~~~g-~~v~~~~~~~~~l~~l~~~-~~~dlil~d~~~~~~~g~~~~~~l~~~~~   98 (145)
                      .....+.+|||+||++..+..+..+|+..| |.+..+.+..+++..+... ..||+||+|+.+++.+|+++++.+++..+
T Consensus        15 ~~~~~~~~ilivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~~~~~~~~~~~~~dlvi~D~~l~~~~g~~~~~~l~~~~~   94 (146)
T 4dad_A           15 LYFQGMINILVASEDASRLAHLARLVGDAGRYRVTRTVGRAAQIVQRTDGLDAFDILMIDGAALDTAELAAIEKLSRLHP   94 (146)
T ss_dssp             CCCGGGCEEEEECSCHHHHHHHHHHHHHHCSCEEEEECCCHHHHTTCHHHHTTCSEEEEECTTCCHHHHHHHHHHHHHCT
T ss_pred             CCcCCCCeEEEEeCCHHHHHHHHHHHhhCCCeEEEEeCCHHHHHHHHHhcCCCCCEEEEeCCCCCccHHHHHHHHHHhCC
Confidence            333456799999999999999999999999 9999999999888776542 46999999999999999999999999999


Q ss_pred             CCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936           99 ESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus        99 ~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      .+|+|++++..+.+....++..|+++|+.||++.++|..+|+++++
T Consensus        95 ~~~ii~lt~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~  140 (146)
T 4dad_A           95 GLTCLLVTTDASSQTLLDAMRAGVRDVLRWPLEPRALDDALKRAAA  140 (146)
T ss_dssp             TCEEEEEESCCCHHHHHHHHTTTEEEEEESSCCHHHHHHHHHHHHH
T ss_pred             CCcEEEEeCCCCHHHHHHHHHhCCceeEcCCCCHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999998875

>3f6c_A Positive transcription regulator EVGA; structural genomics, PSI-2, protein structure initiative, PO transcription regulator EVGA; 1.45A {Escherichia coli k-12}

Probab=99.91  E-value=8.8e-24  Score=135.02  Aligned_cols=119  Identities=23%  Similarity=0.324  Sum_probs=109.1

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      +++|+++||++..+..+...|+..||.+. .+++.++++..+.. ..||+||+|+.+++.+|+++++.+++..+.+|+++
T Consensus         1 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~a~~~~~~-~~~dlii~d~~l~~~~g~~~~~~l~~~~~~~~ii~   79 (134)
T 3f6c_A            1 SLNAIIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVET-LKPDIVIIDVDIPGVNGIQVLETLRKRQYSGIIII   79 (134)
T ss_dssp             CEEEEEECCCHHHHHHHHHHHHHTTEEEEEEESSSTTHHHHHHH-HCCSEEEEETTCSSSCHHHHHHHHHHTTCCSEEEE
T ss_pred             CeEEEEEcCCHHHHHHHHHHHhhCCcEEEEEcCCHHHHHHHHHh-cCCCEEEEecCCCCCChHHHHHHHHhcCCCCeEEE
Confidence            36899999999999999999999999987 89999999999987 57999999999999999999999999999999999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      +|+..+......++..|+++|+.||++.++|..++++++++
T Consensus        80 ~s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~  120 (134)
T 3f6c_A           80 VSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNG  120 (134)
T ss_dssp             EECC---CTHHHHHHTTCSEEEEGGGCTHHHHHHHHHHHTT
T ss_pred             EeCCCChHHHHHHHHhCCCEEEeCCCCHHHHHHHHHHHHCC
Confidence            99999988999999999999999999999999999998753

>3jte_A Response regulator receiver protein; structural genomics, nysgrc, response regulator receiver DOM target 11226E, PSI-2; 1.90A {Clostridium thermocellum atcc 27405}

Probab=99.91  E-value=7.7e-23  Score=132.06  Aligned_cols=119  Identities=19%  Similarity=0.305  Sum_probs=111.4

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhc-CCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRT-GAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~-~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ..+|+|+||++..+..+...|...||.+..+.+.++++..+.. ...||+||+|+.+++.+|+++++.+++..+.+|||+
T Consensus         3 ~~~ilivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~~~~~~~~~dlvi~d~~l~~~~g~~~~~~l~~~~~~~~ii~   82 (143)
T 3jte_A            3 LAKILVIDDESTILQNIKFLLEIDGNEVLTASSSTEGLRIFTENCNSIDVVITDMKMPKLSGMDILREIKKITPHMAVII   82 (143)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHTTTTCCEEEEESCCSSSCHHHHHHHHHHHCTTCEEEE
T ss_pred             CCEEEEEcCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHHhCCCCCCEEEEeCCCCCCcHHHHHHHHHHhCCCCeEEE
Confidence            4689999999999999999999999999999999999999873 257999999999999999999999999999999999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++..+......++..|+++|+.||++.++|..+++++++
T Consensus        83 ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~~  122 (143)
T 3jte_A           83 LTGHGDLDNAILAMKEGAFEYLRKPVTAQDLSIAINNAIN  122 (143)
T ss_dssp             EECTTCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             EECCCCHHHHHHHHHhCcceeEeCCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999988764

>3lua_A Response regulator receiver protein; two-component signal transduction system, histidine kinase, phosphorelay, receiver domain, nysgxrc; 2.40A {Clostridium thermocellum}

Probab=99.91  E-value=2e-23  Score=134.51  Aligned_cols=121  Identities=16%  Similarity=0.221  Sum_probs=112.4

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHh-cCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCC-CCCHHHHHHHHHh--hCCCC
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKS-VGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMP-VMDGIEATKAMRA--MKVES  100 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~-~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~-~~~g~~~~~~l~~--~~~~~  100 (145)
                      .+.+|+|+||++..+..+...|+. .||.+..+.+++++++.+.....||+||+|+.++ +.+|+++++.+++  ..+.+
T Consensus         3 ~~~~ilivdd~~~~~~~l~~~L~~~~~~~v~~~~~~~~a~~~l~~~~~~dlvi~D~~l~~~~~g~~~~~~l~~~~~~~~~   82 (140)
T 3lua_A            3 LDGTVLLIDYFEYEREKTKIIFDNIGEYDFIEVENLKKFYSIFKDLDSITLIIMDIAFPVEKEGLEVLSAIRNNSRTANT   82 (140)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHHHHCCCEEEEECSHHHHHTTTTTCCCCSEEEECSCSSSHHHHHHHHHHHHHSGGGTTC
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHhccCccEEEECCHHHHHHHHhcCCCCcEEEEeCCCCCCCcHHHHHHHHHhCcccCCC
Confidence            356899999999999999999998 8999999999999999987624699999999999 9999999999999  78899


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      |+|++|+..+......++..|+++|+.||++.++|..++++++++
T Consensus        83 ~ii~ls~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  127 (140)
T 3lua_A           83 PVIIATKSDNPGYRHAALKFKVSDYILKPYPTKRLENSVRSVLKI  127 (140)
T ss_dssp             CEEEEESCCCHHHHHHHHHSCCSEEEESSCCTTHHHHHHHHHHCC
T ss_pred             CEEEEeCCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999998753

>3snk_A Response regulator CHEY-like protein; P-loop containing nucleoside triphosphate hydrolases, struct genomics; 2.02A {Mesorhizobium loti}

Probab=99.91  E-value=1.7e-24  Score=138.84  Aligned_cols=119  Identities=15%  Similarity=0.176  Sum_probs=111.9

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcC-CeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVG-FKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g-~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      ...+|+++||++..+..+...|+..| |.+..+.++++++..+.. ..||+||+|+.+++.+|+++++.+++..+.+|+|
T Consensus        13 ~~~~ilivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~a~~~l~~-~~~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~ii   91 (135)
T 3snk_A           13 KRKQVALFSSDPNFKRDVATRLDALAIYDVRVSETDDFLKGPPAD-TRPGIVILDLGGGDLLGKPGIVEARALWATVPLI   91 (135)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHHHHTSSEEEEEECGGGGGGCCCTT-CCCSEEEEEEETTGGGGSTTHHHHHGGGTTCCEE
T ss_pred             CCcEEEEEcCCHHHHHHHHHHHhhcCCeEEEEeccHHHHHHHHhc-cCCCEEEEeCCCCCchHHHHHHHHHhhCCCCcEE
Confidence            45689999999999999999999999 999999999999998876 6799999999999999999999999998899999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++|+..+......+++.|+++|+.||++.++|..+++++++
T Consensus        92 ~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~L~~~i~~~~~  132 (135)
T 3snk_A           92 AVSDELTSEQTRVLVRMNASDWLHKPLDGKELLNAVTFHDT  132 (135)
T ss_dssp             EEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHTC-
T ss_pred             EEeCCCCHHHHHHHHHcCcHhhccCCCCHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999998765

>3b2n_A Uncharacterized protein Q99UF4; structural genomics, PSI-2, protein structure initiative, NE SGX research center for structural genomics; 2.04A {Staphylococcus aureus}

Probab=99.91  E-value=6.6e-23  Score=131.16  Aligned_cols=118  Identities=21%  Similarity=0.322  Sum_probs=108.8

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcC--CeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVG--FKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g--~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      ..+|+++||++..+..+...|+..|  +.+..+.++.+++..+.. ..||++|+|+.+|+.+|+++++.+++..+.+|+|
T Consensus         3 ~~~Ilivdd~~~~~~~l~~~l~~~~~~~~v~~~~~~~~al~~~~~-~~~dlvilD~~lp~~~g~~~~~~l~~~~~~~~ii   81 (133)
T 3b2n_A            3 LTSLIIAEDQNMLRQAMVQLIKLHGDFEILADTDNGLDAMKLIEE-YNPNVVILDIEMPGMTGLEVLAEIRKKHLNIKVI   81 (133)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHHHSSEEEEEEESCHHHHHHHHHH-HCCSEEEECSSCSSSCHHHHHHHHHHTTCSCEEE
T ss_pred             ceEEEEECCCHHHHHHHHHHHhhCCCcEEEEEcCCHHHHHHHHhh-cCCCEEEEecCCCCCCHHHHHHHHHHHCCCCcEE
Confidence            3589999999999999999998876  456789999999999887 5799999999999999999999999988899999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++|+..+......++..|+++|+.||++.++|..+++++++
T Consensus        82 ~ls~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~  122 (133)
T 3b2n_A           82 IVTTFKRPGYFEKAVVNDVDAYVLKERSIEELVETINKVNN  122 (133)
T ss_dssp             EEESCCCHHHHHHHHHTTCSEEEETTSCHHHHHHHHHHHHC
T ss_pred             EEecCCCHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999998864

>3r0j_A Possible two component system response transcript positive regulator PHOP; beta-alpha fold, winged helix-turn-helix; 2.50A {Mycobacterium tuberculosis}

Probab=99.91  E-value=4e-23  Score=145.42  Aligned_cols=119  Identities=31%  Similarity=0.425  Sum_probs=112.5

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ..++|+|+||++..+..+...|+..||.+..+.++++++..+.. ..||+||+|+.||+++|+++++.|++..+.+|||+
T Consensus        22 ~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~dlvllD~~lp~~~g~~~~~~lr~~~~~~~ii~  100 (250)
T 3r0j_A           22 PEARVLVVDDEANIVELLSVSLKFQGFEVYTATNGAQALDRARE-TRPDAVILDVXMPGMDGFGVLRRLRADGIDAPALF  100 (250)
T ss_dssp             SSCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-HCCSEEEEESCCSSSCHHHHHHHHHHTTCCCCEEE
T ss_pred             CCceEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHh-CCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEEE
Confidence            35799999999999999999999999999999999999999987 57999999999999999999999999988999999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +|+..+......+++.|+++|+.||++.++|..+|+.+++
T Consensus       101 lt~~~~~~~~~~~~~~Ga~~yl~Kp~~~~~L~~~i~~~~~  140 (250)
T 3r0j_A          101 LTARDSLQDKIAGLTLGGDDYVTKPFSLEEVVARLRVILR  140 (250)
T ss_dssp             EECSTTHHHHHHHHTSTTCEEEESSCCHHHHHHHHHHHHH
T ss_pred             EECCCCHHHHHHHHHcCCcEEEeCCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999988764

>3i42_A Response regulator receiver domain protein (CHEY- like); structural genomics, PSI-2, protein structure initiative; 2.15A {Methylobacillus flagellatus KT} SCOP: c.23.1.0

Probab=99.91  E-value=4.2e-23  Score=130.79  Aligned_cols=117  Identities=25%  Similarity=0.421  Sum_probs=107.8

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh--CCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM--KVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~--~~~~~ii  103 (145)
                      ..+|||+||++..+..+...|+..||.+..+.++++++..+.. ..||+||+|+.+++.+|+++++.+++.  .+.+|++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-~~~dlii~D~~l~~~~g~~~~~~l~~~~~~~~~~ii   81 (127)
T 3i42_A            3 LQQALIVEDYQAAAETFKELLEMLGFQADYVMSGTDALHAMST-RGYDAVFIDLNLPDTSGLALVKQLRALPMEKTSKFV   81 (127)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHH-SCCSEEEEESBCSSSBHHHHHHHHHHSCCSSCCEEE
T ss_pred             cceEEEEcCCHHHHHHHHHHHHHcCCCEEEECCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHhhhccCCCCEE
Confidence            4689999999999999999999999999999999999999987 579999999999999999999999997  7889999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++++..+... ..++..|+++|+.||++.++|..+++...+
T Consensus        82 ~~s~~~~~~~-~~~~~~g~~~~l~KP~~~~~L~~~i~~~~~  121 (127)
T 3i42_A           82 AVSGFAKNDL-GKEACELFDFYLEKPIDIASLEPILQSIEG  121 (127)
T ss_dssp             EEECC-CTTC-CHHHHHHCSEEEESSCCHHHHHHHHHHHC-
T ss_pred             EEECCcchhH-HHHHHHhhHHheeCCCCHHHHHHHHHHhhc
Confidence            9999888887 788999999999999999999999987653

>1xhf_A DYE resistance, aerobic respiration control protein ARCA; two-component system, gene regulation, transcription factor, anoxic redox control; 2.15A {Escherichia coli} SCOP: c.23.1.1 PDB: 1xhe_A

Probab=99.91  E-value=1.4e-22  Score=127.62  Aligned_cols=117  Identities=21%  Similarity=0.368  Sum_probs=108.7

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      ..+|+++||++..+..+...|+..||.+..++++.+++..+.. ..||++++|+.+|+.+|+++++.+++. +.+|++++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~~-~~~dlvi~D~~l~~~~g~~~~~~l~~~-~~~~ii~~   80 (123)
T 1xhf_A            3 TPHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSE-YDINLVIMDINLPGKNGLLLARELREQ-ANVALMFL   80 (123)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHH-SCCSEEEECSSCSSSCHHHHHHHHHHH-CCCEEEEE
T ss_pred             CceEEEEeCCHHHHHHHHHHHhhCCcEEEEeCCHHHHHHHHhc-CCCCEEEEcCCCCCCCHHHHHHHHHhC-CCCcEEEE
Confidence            3479999999999999999999889999999999999999987 579999999999999999999999987 78999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++..+......+++.|+++|+.||++.++|..+++++++
T Consensus        81 s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~  119 (123)
T 1xhf_A           81 TGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLS  119 (123)
T ss_dssp             ESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             ECCCChHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHHH
Confidence            999998888999999999999999999999999988764

>1zgz_A Torcad operon transcriptional regulatory protein; two-component system, gene regulation, transcription factor, respiratory system; 1.80A {Escherichia coli} SCOP: c.23.1.1

Probab=99.91  E-value=2.1e-22  Score=126.61  Aligned_cols=116  Identities=23%  Similarity=0.432  Sum_probs=108.2

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .+|+++||++..+..+...|...||.+..+.++.+++..+.. ..||++++|+.+|+.+|+++++.+++ .+..|+++++
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~-~~~dlvi~d~~l~~~~g~~~~~~l~~-~~~~~ii~~s   80 (122)
T 1zgz_A            3 HHIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIMQN-QSVDLILLDINLPDENGLMLTRALRE-RSTVGIILVT   80 (122)
T ss_dssp             CEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-SCCSEEEEESCCSSSCHHHHHHHHHT-TCCCEEEEEE
T ss_pred             cEEEEEECCHHHHHHHHHHHHHCCCeEEEecCHHHHHHHHhc-CCCCEEEEeCCCCCCChHHHHHHHHh-cCCCCEEEEE
Confidence            479999999999999999999999999999999999999887 57999999999999999999999998 6789999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|..+++++++
T Consensus        81 ~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~  118 (122)
T 1zgz_A           81 GRSDRIDRIVGLEMGADDYVTKPLELRELVVRVKNLLW  118 (122)
T ss_dssp             SSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             CCCChhhHHHHHHhCHHHHccCCCCHHHHHHHHHHHHH
Confidence            99998888999999999999999999999999988764

>3grc_A Sensor protein, kinase; protein structure initiative II(PSI II), NYSGXRC, 11025B, structural genomics; 2.21A {Polaromonas SP}

Probab=99.91  E-value=1.9e-23  Score=134.52  Aligned_cols=119  Identities=21%  Similarity=0.342  Sum_probs=110.0

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHh--hCCCCcE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRA--MKVESKI  102 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~--~~~~~~i  102 (145)
                      .+.+|||+||++..+..+...|...||.+..+.+++++++.+.. ..||+||+|+.+++.+|+++++.+++  ..+.+|+
T Consensus         5 ~~~~iLivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~l~~-~~~dlvi~d~~l~~~~g~~~~~~l~~~~~~~~~~i   83 (140)
T 3grc_A            5 PRPRILICEDDPDIARLLNLMLEKGGFDSDMVHSAAQALEQVAR-RPYAAMTVDLNLPDQDGVSLIRALRRDSRTRDLAI   83 (140)
T ss_dssp             CCSEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHHHH-SCCSEEEECSCCSSSCHHHHHHHHHTSGGGTTCEE
T ss_pred             CCCCEEEEcCCHHHHHHHHHHHHHCCCeEEEECCHHHHHHHHHh-CCCCEEEEeCCCCCCCHHHHHHHHHhCcccCCCCE
Confidence            35689999999999999999999999999999999999999988 67999999999999999999999998  6688999


Q ss_pred             EEEecCCChHHHH-HHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          103 VGVTSRNSETERE-VFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       103 i~lt~~~~~~~~~-~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |++++..+..... .++..|+++|+.||++.++|..+++++++
T Consensus        84 i~~s~~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~l~  126 (140)
T 3grc_A           84 VVVSANAREGELEFNSQPLAVSTWLEKPIDENLLILSLHRAID  126 (140)
T ss_dssp             EEECTTHHHHHHHHCCTTTCCCEEECSSCCHHHHHHHHHHHHH
T ss_pred             EEEecCCChHHHHHHhhhcCCCEEEeCCCCHHHHHHHHHHHHH
Confidence            9999988777766 78999999999999999999999998875

>1jbe_A Chemotaxis protein CHEY; signaling protein; 1.08A {Escherichia coli} SCOP: c.23.1.1 PDB: 3chy_A 1a0o_A 1cey_A 1bdj_A 1eay_A 1f4v_A 1ffg_A 1ffs_A 1ffw_A 1fqw_A 2b1j_A 1chn_A 1djm_A 1kmi_Y* 1d4z_A 3olx_A 3olw_A 1cye_A 2che_A 2chf_A ...

Probab=99.91  E-value=2e-22  Score=127.73  Aligned_cols=119  Identities=33%  Similarity=0.443  Sum_probs=109.3

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCC-eEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHh--hCCCCc
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRA--MKVESK  101 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~-~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~--~~~~~~  101 (145)
                      +.++|+++||++..+..+...|...|| .+..+.++.+++..+.. ..||++++|+.+|+.+|+++++.+++  ..+.+|
T Consensus         3 ~~~~ilivdd~~~~~~~l~~~l~~~~~~~v~~~~~~~~a~~~~~~-~~~dlvi~D~~l~~~~g~~l~~~l~~~~~~~~~~   81 (128)
T 1jbe_A            3 KELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQA-GGYGFVISDWNMPNMDGLELLKTIRAXXAMSALP   81 (128)
T ss_dssp             TTCCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHTT-CCCCEEEEESCCSSSCHHHHHHHHHC--CCTTCC
T ss_pred             CccEEEEECCCHHHHHHHHHHHHHcCCcEEEeeCCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHhhcccCCCc
Confidence            356899999999999999999999998 68899999999999887 57999999999999999999999998  456889


Q ss_pred             EEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          102 IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++++++..+......+++.|+++|+.||++.++|..+++++++
T Consensus        82 ii~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~~~  124 (128)
T 1jbe_A           82 VLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIFE  124 (128)
T ss_dssp             EEEEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             EEEEecCccHHHHHHHHHhCcCceeecCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999988764

>3heb_A Response regulator receiver domain protein (CHEY); NYSGXRC, PSI-II, respose regulator, structure initiative, structural genomics; 2.40A {Rhodospirillum rubrum} SCOP: c.23.1.0

Probab=99.91  E-value=1.6e-22  Score=132.03  Aligned_cols=120  Identities=18%  Similarity=0.344  Sum_probs=109.4

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCC--eEEEecCHHHHHHHHh--------cCCCccEEEEeCCCCCCCHHHHHHHHH
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGF--KVEVAENGKEAVDLFR--------TGAKFHIVFIDMEMPVMDGIEATKAMR   94 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~--~v~~~~~~~~~l~~l~--------~~~~~dlil~d~~~~~~~g~~~~~~l~   94 (145)
                      .+++|+|+||++..+..+...|...|+  .+..+.+++++++.+.        ....||+||+|+.+++.+|+++++.++
T Consensus         3 ~~~~ILivddd~~~~~~l~~~L~~~g~~~~v~~~~~~~~al~~l~~~~~~~~~~~~~~dliilD~~l~~~~g~~~~~~lr   82 (152)
T 3heb_A            3 LSVTIVMIEDDLGHARLIEKNIRRAGVNNEIIAFTDGTSALNYLFGDDKSGRVSAGRAQLVLLDLNLPDMTGIDILKLVK   82 (152)
T ss_dssp             --CEEEEECCCHHHHHHHHHHHHHTTCCCCEEEESSHHHHHHHHHCTTSSSGGGTTCBEEEEECSBCSSSBHHHHHHHHH
T ss_pred             CCceEEEEeCCHHHHHHHHHHHHhCCCcceEEEeCCHHHHHHHHhccccccccccCCCCEEEEeCCCCCCcHHHHHHHHH
Confidence            357899999999999999999999998  7889999999999985        235799999999999999999999999


Q ss_pred             h--hCCCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936           95 A--MKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus        95 ~--~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +  ..+.+|+|++++..+......+++.|+++|+.||++.++|..+|+++.+
T Consensus        83 ~~~~~~~~pii~~t~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~  134 (152)
T 3heb_A           83 ENPHTRRSPVVILTTTDDQREIQRCYDLGANVYITKPVNYENFANAIRQLGL  134 (152)
T ss_dssp             HSTTTTTSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHH
T ss_pred             hcccccCCCEEEEecCCCHHHHHHHHHCCCcEEEeCCCCHHHHHHHHHHHHH
Confidence            9  6678999999999999999999999999999999999999999988753

>3eul_A Possible nitrate/nitrite response transcriptional regulatory protein NARL (DNA-binding...; central beta strand flanked by alpha helices; 1.90A {Mycobacterium tuberculosis}

Probab=99.91  E-value=1.4e-22  Score=132.24  Aligned_cols=123  Identities=22%  Similarity=0.299  Sum_probs=111.3

Q ss_pred             CCCCCcEEEEEeCCHHHHHHHHHHHHhcCCe--EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCC
Q 045936           22 SKNRPYFALVVDDDPMIRRIHSMILKSVGFK--VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVE   99 (145)
Q Consensus        22 ~~~~~~~vlii~~~~~~~~~l~~~l~~~g~~--v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~   99 (145)
                      ....+.+|+|+||++..+..+...|...|+.  +..+.+.+++++.+.. ..||+||+|+.+++.+|+++++.+++..+.
T Consensus        11 ~~~~~~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~~-~~~dlii~d~~l~~~~g~~~~~~l~~~~~~   89 (152)
T 3eul_A           11 PQPEKVRVVVGDDHPLFREGVVRALSLSGSVNVVGEADDGAAALELIKA-HLPDVALLDYRMPGMDGAQVAAAVRSYELP   89 (152)
T ss_dssp             ---CCEEEEEECSSHHHHHHHHHHHHHHSSEEEEEEESSHHHHHHHHHH-HCCSEEEEETTCSSSCHHHHHHHHHHTTCS
T ss_pred             CCCceEEEEEEcCCHHHHHHHHHHHhhCCCeEEEEEeCCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHhcCCC
Confidence            3345679999999999999999999998854  4589999999999987 579999999999999999999999999999


Q ss_pred             CcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936          100 SKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       100 ~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      +|||++++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        90 ~~ii~~s~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~~  135 (152)
T 3eul_A           90 TRVLLISAHDEPAIVYQALQQGAAGFLLKDSTRTEIVKAVLDCAKG  135 (152)
T ss_dssp             CEEEEEESCCCHHHHHHHHHTTCSEEEETTCCHHHHHHHHHHHHHC
T ss_pred             CeEEEEEccCCHHHHHHHHHcCCCEEEecCCCHHHHHHHHHHHHcC
Confidence            9999999999999999999999999999999999999999988753

>3cnb_A DNA-binding response regulator, MERR family; signal receiver domain, DNA binding protein, protein structu initiative, PSI-2; 2.00A {Colwellia psychrerythraea}

Probab=99.91  E-value=2.2e-22  Score=129.55  Aligned_cols=119  Identities=20%  Similarity=0.404  Sum_probs=110.3

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHh-cCCe-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHh--hCCCC
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKS-VGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRA--MKVES  100 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~-~g~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~--~~~~~  100 (145)
                      .+.+|||+|+++..+..+...|.. .||. +..+.+.++++..+.. ..||+||+|+.+++.+|+++++.+++  ..+.+
T Consensus         7 ~~~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~~-~~~dlii~d~~l~~~~g~~~~~~l~~~~~~~~~   85 (143)
T 3cnb_A            7 NDFSILIIEDDKEFADMLTQFLENLFPYAKIKIAYNPFDAGDLLHT-VKPDVVMLDLMMVGMDGFSICHRIKSTPATANI   85 (143)
T ss_dssp             --CEEEEECSCHHHHHHHHHHHHHHCTTCEEEEECSHHHHHHHHHH-TCCSEEEEETTCTTSCHHHHHHHHHTSTTTTTS
T ss_pred             CCceEEEEECCHHHHHHHHHHHHhccCccEEEEECCHHHHHHHHHh-cCCCEEEEecccCCCcHHHHHHHHHhCccccCC
Confidence            467899999999999999999998 8999 8899999999999987 57999999999999999999999998  56789


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |+|++++..+......++..|+++|+.||++.++|..+++++++
T Consensus        86 ~ii~~s~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~  129 (143)
T 3cnb_A           86 IVIAMTGALTDDNVSRIVALGAETCFGKPLNFTLLEKTIKQLVE  129 (143)
T ss_dssp             EEEEEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             cEEEEeCCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHH
Confidence            99999999999888999999999999999999999999998875

>1mb3_A Cell division response regulator DIVK; signal transduction protein, structural proteomics in europe, spine, structural genomics; 1.41A {Caulobacter vibrioides} SCOP: c.23.1.1 PDB: 1m5u_A 1mav_A 1mb0_A 1m5t_A

Probab=99.91  E-value=1.2e-22  Score=128.04  Aligned_cols=117  Identities=20%  Similarity=0.400  Sum_probs=102.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh--CCCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM--KVESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~--~~~~~ii~  104 (145)
                      .+|+++||++..+..+...|+..||.+..+.++.+++..+.. ..||++|+|+.+|+.+|+++++.+++.  .+.+|+++
T Consensus         2 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~a~~~~~~-~~~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~~~ii~   80 (124)
T 1mb3_A            2 KKVLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIARE-NKPDLILMDIQLPEISGLEVTKWLKEDDDLAHIPVVA   80 (124)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHHH-HCCSEEEEESBCSSSBHHHHHHHHHHSTTTTTSCEEE
T ss_pred             cEEEEEcCCHHHHHHHHHHHHHcCcEEEEeCCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHcCccccCCcEEE
Confidence            479999999999999999999999999999999999999887 579999999999999999999999985  46889999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++..+......+++.|+++|+.||++.++|..+++++++
T Consensus        81 ~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~  120 (124)
T 1mb3_A           81 VTAFAMKGDEERIREGGCEAYISKPISVVHFLETIKRLLE  120 (124)
T ss_dssp             EC------CHHHHHHHTCSEEECSSCCHHHHHHHHHHHHS
T ss_pred             EECCCCHHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHHh
Confidence            9998888888899999999999999999999999998875

>1p6q_A CHEY2; chemotaxis, signal transduction, response regulator, structural proteomics in europe, spine, structural genomics; NMR {Sinorhizobium meliloti} SCOP: c.23.1.1 PDB: 1p6u_A

Probab=99.91  E-value=1e-22  Score=129.19  Aligned_cols=118  Identities=24%  Similarity=0.399  Sum_probs=108.9

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCC-eEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh--CCCCcE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM--KVESKI  102 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~-~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~--~~~~~i  102 (145)
                      ..+|+++||++..+..+...|...|| .+..++++++++..+.. ..||++++|+.+|+.+|+++++.+++.  .+.+|+
T Consensus         6 ~~~ilivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~a~~~~~~-~~~dlvl~D~~l~~~~g~~~~~~l~~~~~~~~~~i   84 (129)
T 1p6q_A            6 KIKVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIMAQ-NPHHLVISDFNMPKMDGLGLLQAVRANPATKKAAF   84 (129)
T ss_dssp             CCCEEEECSSHHHHHHHHHHHHTTTCSCEECCSSHHHHHHHHHT-SCCSEEEECSSSCSSCHHHHHHHHTTCTTSTTCEE
T ss_pred             cCeEEEEcCCHHHHHHHHHHHHHCCCcEEEecCCHHHHHHHHHc-CCCCEEEEeCCCCCCCHHHHHHHHhcCccccCCCE
Confidence            46899999999999999999998898 78889999999999987 579999999999999999999999885  468899


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++|+..+......+++.|+++|+.||++.++|..+++++++
T Consensus        85 i~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~  126 (129)
T 1p6q_A           85 IILTAQGDRALVQKAAALGANNVLAKPFTIEKMKAAIEAVFG  126 (129)
T ss_dssp             EECCSCCCHHHHHHHHHHTCSCEECCCSSHHHHHHHHHHHHH
T ss_pred             EEEeCCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHH
Confidence            999999998888999999999999999999999999998764

>3kht_A Response regulator; PSI-II, 11023K, structural genomics, Pro structure initiative, NEW YORK SGX research center for STRU genomics, nysgxrc; 2.10A {Hahella chejuensis} SCOP: c.23.1.0

Probab=99.91  E-value=1.8e-22  Score=130.50  Aligned_cols=119  Identities=23%  Similarity=0.355  Sum_probs=110.5

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCe--EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHh--hCCCC
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFK--VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRA--MKVES  100 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~--v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~--~~~~~  100 (145)
                      .+.+|+|+||++..+..+...|+..|+.  +..+.++++++..+.. ..||+||+|+.+++.+|+++++.+++  ..+.+
T Consensus         4 ~~~~ILivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~~-~~~dlii~D~~l~~~~g~~~~~~lr~~~~~~~~   82 (144)
T 3kht_A            4 RSKRVLVVEDNPDDIALIRRVLDRKDIHCQLEFVDNGAKALYQVQQ-AKYDLIILDIGLPIANGFEVMSAVRKPGANQHT   82 (144)
T ss_dssp             -CEEEEEECCCHHHHHHHHHHHHHTTCCEEEEEESSHHHHHHHHTT-CCCSEEEECTTCGGGCHHHHHHHHHSSSTTTTC
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHhcCCCeeEEEECCHHHHHHHhhc-CCCCEEEEeCCCCCCCHHHHHHHHHhcccccCC
Confidence            3578999999999999999999999987  7799999999999987 67999999999999999999999998  56789


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEEeeCCC-CHHHHHHHHHHHhh
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLCYTKPL-TMAKIVPLLEELQK  144 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~-~~~~l~~~l~~~~~  144 (145)
                      |+|++++..+......++..|+++|+.||+ +.++|..+|+++++
T Consensus        83 pii~~s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~~l~~~i~~~l~  127 (144)
T 3kht_A           83 PIVILTDNVSDDRAKQCMAAGASSVVDKSSNNVTDFYGRIYAIFS  127 (144)
T ss_dssp             CEEEEETTCCHHHHHHHHHTTCSEEEECCTTSHHHHHHHHHHHHH
T ss_pred             CEEEEeCCCCHHHHHHHHHcCCCEEEECCCCcHHHHHHHHHHHHH
Confidence            999999999999999999999999999999 99999999988764

>3cfy_A Putative LUXO repressor protein; structural genomics, unknown function, uncharacterized protein, signal receiver domain; 2.50A {Vibrio parahaemolyticus rimd 2210633}

Probab=99.90  E-value=7.3e-23  Score=131.72  Aligned_cols=117  Identities=16%  Similarity=0.291  Sum_probs=109.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .+|+|+||++..+..+...|...||.+..+.++++++..+.. ..||++|+|+.+++.+|+++++.+++..+.+|+++++
T Consensus         5 ~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-~~~dlvllD~~l~~~~g~~l~~~l~~~~~~~~ii~ls   83 (137)
T 3cfy_A            5 PRVLLVEDSTSLAILYKQYVKDEPYDIFHVETGRDAIQFIER-SKPQLIILDLKLPDMSGEDVLDWINQNDIPTSVIIAT   83 (137)
T ss_dssp             CEEEEECSCTTHHHHHHHHTTTSSSEEEEESSHHHHHHHHHH-HCCSEEEECSBCSSSBHHHHHHHHHHTTCCCEEEEEE
T ss_pred             ceEEEEeCCHHHHHHHHHHHHhcCceEEEeCCHHHHHHHHHh-cCCCEEEEecCCCCCCHHHHHHHHHhcCCCCCEEEEE
Confidence            379999999999999999999889999999999999999887 5799999999999999999999999988899999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+......++..|+++|+.||++.++|..+++++++
T Consensus        84 ~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~  121 (137)
T 3cfy_A           84 AHGSVDLAVNLIQKGAEDFLEKPINADRLKTSVALHLK  121 (137)
T ss_dssp             SSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             ecCcHHHHHHHHHCCccEEEeCCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999988763

>2a9o_A Response regulator; essential protein, YYCF/YYCG homolog, signaling protein; 1.65A {Streptococcus pneumoniae} SCOP: c.23.1.1 PDB: 1nxo_A 1nxs_A 1nxv_A 1nxw_A 1nxx_A 1nxp_A 2a9p_A 2a9q_A 1nxt_A* 2a9r_A*

Probab=99.90  E-value=2.8e-22  Score=125.48  Aligned_cols=116  Identities=27%  Similarity=0.461  Sum_probs=107.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .+|+++||++..+..+...|...||.+..+.++.+++..+.. ..||++++|+.+|+.+|+++++.+++. +.+|+++++
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~~-~~~dlvl~D~~l~~~~g~~~~~~l~~~-~~~~ii~~s   79 (120)
T 2a9o_A            2 KKILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEA-EQPDIIILDLMLPEIDGLEVAKTIRKT-SSVPILMLS   79 (120)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-HCCSEEEECSSCSSSCHHHHHHHHHHH-CCCCEEEEE
T ss_pred             ceEEEEcCCHHHHHHHHHHHHhcCcEEEEecCHHHHHHHHHh-CCCCEEEEeccCCCCCHHHHHHHHHhC-CCCCEEEEe
Confidence            379999999999999999999999999999999999999887 579999999999999999999999974 679999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|..+++++++
T Consensus        80 ~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~  117 (120)
T 2a9o_A           80 AKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLR  117 (120)
T ss_dssp             SCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             cCCchHHHHHHHhCCHhheEeCCCCHHHHHHHHHHHHc
Confidence            99998888899999999999999999999999998765

>2qzj_A Two-component response regulator; 11017X, PSI-II, structural genomics; 2.89A {Clostridium difficile}

Probab=99.90  E-value=1.2e-22  Score=130.51  Aligned_cols=117  Identities=21%  Similarity=0.285  Sum_probs=108.8

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      ..+|+|+||++..+..+...|...||.+..+.++.+++..+.. ..||++|+|+.+|+.+|+++++.+++.. .+|++++
T Consensus         4 ~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~dlvllD~~l~~~~g~~l~~~l~~~~-~~~ii~l   81 (136)
T 2qzj_A            4 QTKILIIDGDKDNCQKLKGFLEEKGISIDLAYNCEEAIGKIFS-NKYDLIFLEIILSDGDGWTLCKKIRNVT-TCPIVYM   81 (136)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHH-CCCSEEEEESEETTEEHHHHHHHHHTTC-CCCEEEE
T ss_pred             CCeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHccCC-CCCEEEE
Confidence            4689999999999999999999889999999999999999987 5799999999999999999999999865 7899999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++..+......+++.|+++|+.||++.++|..+++++++
T Consensus        82 s~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~l~~~~~  120 (136)
T 2qzj_A           82 TYINEDQSILNALNSGGDDYLIKPLNLEILYAKVKAILR  120 (136)
T ss_dssp             ESCCCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHH
T ss_pred             EcCCCHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHH
Confidence            999999889999999999999999999999999988763

>1mvo_A PHOP response regulator; phosphate regulon, transcriptional regulatory protein, alpha/beta doubly wound fold, phosphorylation; 1.60A {Bacillus subtilis} SCOP: c.23.1.1

Probab=99.90  E-value=2.1e-22  Score=128.88  Aligned_cols=117  Identities=27%  Similarity=0.419  Sum_probs=109.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .+|+++||++..+..+...|...||.+..+.++.+++..+.. ..||++|+|+.+++.+|+++++.+++..+.+|+++++
T Consensus         4 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~-~~~dlvl~D~~l~~~~g~~~~~~l~~~~~~~~ii~~s   82 (136)
T 1mvo_A            4 KKILVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAET-EKPDLIVLDVMLPKLDGIEVCKQLRQQKLMFPILMLT   82 (136)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-HCCSEEEEESSCSSSCHHHHHHHHHHTTCCCCEEEEE
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCcEEEEecCHHHHHHHHhh-cCCCEEEEecCCCCCCHHHHHHHHHcCCCCCCEEEEE
Confidence            489999999999999999999999999999999999999887 5799999999999999999999999988889999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|..+++++++
T Consensus        83 ~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~  120 (136)
T 1mvo_A           83 AKDEEFDKVLGLELGADDYMTKPFSPREVNARVKAILR  120 (136)
T ss_dssp             CTTCCCCHHHHHHTTCCEEEESSCCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHhCCCCEEEECCCCHHHHHHHHHHHHH
Confidence            98888888889999999999999999999999988764

>2qxy_A Response regulator; regulation of transcription, NYSGXRC, protein structure initiative II (PSI II), structural genomics; 1.95A {Thermotoga maritima}

Probab=99.90  E-value=2.2e-22  Score=129.77  Aligned_cols=118  Identities=19%  Similarity=0.245  Sum_probs=111.0

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      .+.+|+++||++..+..+...|...||.+..+.+..+++..+.. ..||+||+|+ +++.+|+++++.+++..+.+|+|+
T Consensus         3 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-~~~dlvi~d~-~~~~~g~~~~~~l~~~~~~~pii~   80 (142)
T 2qxy_A            3 LTPTVMVVDESRITFLAVKNALEKDGFNVIWAKNEQEAFTFLRR-EKIDLVFVDV-FEGEESLNLIRRIREEFPDTKVAV   80 (142)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHGGGTCEEEEESSHHHHHHHHTT-SCCSEEEEEC-TTTHHHHHHHHHHHHHCTTCEEEE
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHhc-cCCCEEEEeC-CCCCcHHHHHHHHHHHCCCCCEEE
Confidence            35689999999999999999999999999999999999999987 5799999999 999999999999999888999999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++..+......++..|+++|+.||++.++|..+++++++
T Consensus        81 ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~  120 (142)
T 2qxy_A           81 LSAYVDKDLIINSVKAGAVDYILKPFRLDYLLERVKKIIS  120 (142)
T ss_dssp             EESCCCHHHHHHHHHHTCSCEEESSCCHHHHHHHHHHHHH
T ss_pred             EECCCCHHHHHHHHHCCcceeEeCCCCHHHHHHHHHHHHh
Confidence            9999999989999999999999999999999999998875

>3lte_A Response regulator; structural genomics, PSI, protein structure initiative, NYSG YORK structural genomix research consortium, nysgxrc; 2.00A {Bermanella marisrubri}

Probab=99.90  E-value=3.5e-22  Score=127.20  Aligned_cols=118  Identities=26%  Similarity=0.379  Sum_probs=103.4

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC--CCCcE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK--VESKI  102 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~--~~~~i  102 (145)
                      .+.+|+|+||++..+..+...|...||.+..+.+.++++..+.. ..||+||+|+.+++.+|+++++.+++..  +..+|
T Consensus         5 ~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-~~~dlii~d~~l~~~~g~~~~~~l~~~~~~~~~~i   83 (132)
T 3lte_A            5 QSKRILVVDDDQAMAAAIERVLKRDHWQVEIAHNGFDAGIKLST-FEPAIMTLDLSMPKLDGLDVIRSLRQNKVANQPKI   83 (132)
T ss_dssp             --CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-TCCSEEEEESCBTTBCHHHHHHHHHTTTCSSCCEE
T ss_pred             CCccEEEEECCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHHh-cCCCEEEEecCCCCCCHHHHHHHHHhcCccCCCeE
Confidence            45689999999999999999999999999999999999999987 5799999999999999999999999876  34555


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++++.... .....+++.|+++|+.||++.++|..+|++...
T Consensus        84 i~~~~~~~-~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~  124 (132)
T 3lte_A           84 LVVSGLDK-AKLQQAVTEGADDYLEKPFDNDALLDRIHDLVN  124 (132)
T ss_dssp             EEECCSCS-HHHHHHHHHTCCEEECSSCCHHHHHHHHHHHHC
T ss_pred             EEEeCCCh-HHHHHHHHhChHHHhhCCCCHHHHHHHHHHHcC
Confidence            55555544 477889999999999999999999999998764

>1i3c_A Response regulator RCP1; phytochrome, signaling protein; 1.90A {Synechocystis SP} SCOP: c.23.1.1 PDB: 1jlk_A

Probab=99.90  E-value=4.5e-22  Score=129.61  Aligned_cols=120  Identities=16%  Similarity=0.319  Sum_probs=108.3

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCC--eEEEecCHHHHHHHHhcC------CCccEEEEeCCCCCCCHHHHHHHHHhh
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGF--KVEVAENGKEAVDLFRTG------AKFHIVFIDMEMPVMDGIEATKAMRAM   96 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~--~v~~~~~~~~~l~~l~~~------~~~dlil~d~~~~~~~g~~~~~~l~~~   96 (145)
                      .+++|+|+||++..+..+...|+..|+  .+..+.++.+++..+...      ..||++|+|+.+|+.+|+++++.|++.
T Consensus         7 ~~~~ILivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~~~~~~~~~~~dlillD~~lp~~~g~~l~~~l~~~   86 (149)
T 1i3c_A            7 PPKVILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFLQQQGEYENSPRPNLILLDLNLPKKDGREVLAEIKQN   86 (149)
T ss_dssp             CCEEEEEECCCHHHHHHHHHHHHSCCSCEEEEEECSHHHHHHHHTTCGGGTTCCCCSEEEECSCCSSSCHHHHHHHHHHC
T ss_pred             CCCeEEEEECCHHHHHHHHHHHHhcCCCccEEEeCCHHHHHHHHHhccccccCCCCCEEEEeCCCCCCcHHHHHHHHHhC
Confidence            357899999999999999999998886  688999999999998741      369999999999999999999999986


Q ss_pred             C--CCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936           97 K--VESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus        97 ~--~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      .  +.+|+|++|+..+......+++.|+++|+.||++.++|..+++++.+
T Consensus        87 ~~~~~~piiils~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~  136 (149)
T 1i3c_A           87 PDLKRIPVVVLTTSHNEDDVIASYELHVNCYLTKSRNLKDLFKMVQGIES  136 (149)
T ss_dssp             TTTTTSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHH
T ss_pred             cCcCCCeEEEEECCCChHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHH
Confidence            4  68899999999998889999999999999999999999999988753

>1dz3_A Stage 0 sporulation protein A; response regulator, domain swapping; 1.65A {Bacillus stearothermophilus} SCOP: c.23.1.1 PDB: 1qmp_A*

Probab=99.90  E-value=1.8e-22  Score=128.47  Aligned_cols=117  Identities=18%  Similarity=0.329  Sum_probs=107.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhc-CCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh-CCCCcEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSV-GFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM-KVESKIV  103 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~-g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~-~~~~~ii  103 (145)
                      ++|+++||++..+..+...|... ||.+. .+.++++++..+.. ..||++|+|+.+|+.+|+++++.+++. .+..|++
T Consensus         3 ~~ilivdd~~~~~~~l~~~l~~~~~~~~~~~~~~~~~a~~~~~~-~~~dlvllD~~l~~~~g~~~~~~l~~~~~~~~~ii   81 (130)
T 1dz3_A            3 IKVCIADDNRELVSLLDEYISSQPDMEVIGTAYNGQDCLQMLEE-KRPDILLLDIIMPHLDGLAVLERIRAGFEHQPNVI   81 (130)
T ss_dssp             EEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHH-HCCSEEEEESCCSSSCHHHHHHHHHHHCSSCCEEE
T ss_pred             eEEEEEcCCHHHHHHHHHHHHhCCCceEEEEeCCHHHHHHHHhc-CCCCEEEEecCCCCCCHHHHHHHHHhcCCCCCcEE
Confidence            58999999999999999999887 78865 79999999999887 579999999999999999999999986 5778999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++|+..+......++..|+++|+.||++.++|..+++++++
T Consensus        82 ~ls~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~~~  122 (130)
T 1dz3_A           82 MLTAFGQEDVTKKAVELGASYFILKPFDMENLAHHIRQVYG  122 (130)
T ss_dssp             EEEETTCHHHHHHHHHTTCEEEEECSSCCTTHHHHHHHHHH
T ss_pred             EEecCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999998764

>3mm4_A Histidine kinase homolog; receiver domain, CKI1, cytokinin signaling, ROS fold, CHEY-like, transferase; 2.00A {Arabidopsis thaliana} PDB: 3mmn_A

Probab=99.90  E-value=2.2e-22  Score=138.10  Aligned_cols=119  Identities=34%  Similarity=0.575  Sum_probs=107.2

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHHhcCC-eEEEecCHHHHHHHHhcC------------CCccEEEEeCCCCCCCHHHHH
Q 045936           24 NRPYFALVVDDDPMIRRIHSMILKSVGF-KVEVAENGKEAVDLFRTG------------AKFHIVFIDMEMPVMDGIEAT   90 (145)
Q Consensus        24 ~~~~~vlii~~~~~~~~~l~~~l~~~g~-~v~~~~~~~~~l~~l~~~------------~~~dlil~d~~~~~~~g~~~~   90 (145)
                      ..+.+|||+||++..+..+..+|+..|| .+..+.+++++++.+...            ..||+||+|+.||+++|++++
T Consensus        59 ~~~~~ILiVdDd~~~~~~l~~~L~~~g~~~v~~a~~~~eal~~l~~~~~~~~~~~~~~~~~~dlillD~~lp~~~G~el~  138 (206)
T 3mm4_A           59 LRGKRVLVVDDNFISRKVATGKLKKMGVSEVEQCDSGKEALRLVTEGLTQREEQGSVDKLPFDYIFMDCQMPEMDGYEAT  138 (206)
T ss_dssp             TTTCEEEEECSCHHHHHHHHHHHHHTTCSEEEEESSHHHHHHHHHHHHHHHHHHTCSSCCSCSEEEEESCCSSSCHHHHH
T ss_pred             cCCCEEEEEeCCHHHHHHHHHHHHHcCCCeeeeeCCHHHHHHHHHhhcccccccccccCCCCCEEEEcCCCCCCCHHHHH
Confidence            3567999999999999999999999998 799999999999998762            269999999999999999999


Q ss_pred             HHHHhh----CCCCcEEEEecCC-ChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936           91 KAMRAM----KVESKIVGVTSRN-SETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus        91 ~~l~~~----~~~~~ii~lt~~~-~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +.|++.    .+.+|||++|+.. +......+++.|+++|+.||++  +|..+|+++++
T Consensus       139 ~~lr~~~~~~~~~~piI~ls~~~~~~~~~~~~~~~Ga~~~l~KP~~--~L~~~i~~~l~  195 (206)
T 3mm4_A          139 REIRKVEKSYGVRTPIIAVSGHDPGSEEARETIQAGMDAFLDKSLN--QLANVIREIES  195 (206)
T ss_dssp             HHHHHHHHTTTCCCCEEEEESSCCCHHHHHHHHHHTCSEEEETTCT--THHHHHHHHC-
T ss_pred             HHHHhhhhhcCCCCcEEEEECCCCcHHHHHHHHhCCCCEEEcCcHH--HHHHHHHHHHh
Confidence            999985    5789999999988 7788889999999999999998  89999988764

>2zay_A Response regulator receiver protein; structural genomics, NYSGXRC, target 11006U, protein structure initiative; 2.00A {Desulfuromonas acetoxidans}

Probab=99.90  E-value=1.7e-22  Score=130.96  Aligned_cols=119  Identities=16%  Similarity=0.298  Sum_probs=110.9

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHh--hCCCCcE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRA--MKVESKI  102 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~--~~~~~~i  102 (145)
                      .+++|||+|+++..+..+...|...||.+..+.+.++++..+.. ..||+||+|+.+++.+|+++++.+++  ..+.+||
T Consensus         7 ~~~~iLivd~~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-~~~dlii~d~~l~~~~g~~~~~~l~~~~~~~~~pi   85 (147)
T 2zay_A            7 KWWRIMLVDTQLPALAASISALSQEGFDIIQCGNAIEAVPVAVK-THPHLIITEANMPKISGMDLFNSLKKNPQTASIPV   85 (147)
T ss_dssp             -CEEEEEECTTGGGGHHHHHHHHHHTEEEEEESSHHHHHHHHHH-HCCSEEEEESCCSSSCHHHHHHHHHTSTTTTTSCE
T ss_pred             CCceEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHHc-CCCCEEEEcCCCCCCCHHHHHHHHHcCcccCCCCE
Confidence            46799999999999999999999999999999999999999987 57999999999999999999999998  6788999


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |++++..+......++..|+++|+.||++.++|..+++++++
T Consensus        86 i~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~L~~~i~~~~~  127 (147)
T 2zay_A           86 IALSGRATAKEEAQLLDMGFIDFIAKPVNAIRLSARIKRVLK  127 (147)
T ss_dssp             EEEESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             EEEeCCCCHHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999988763

>3kcn_A Adenylate cyclase homolog; SGX, PSI 2, structural genomics, protein structure initiative; 2.45A {Rhodopirellula baltica}

Probab=99.90  E-value=2.6e-22  Score=130.96  Aligned_cols=119  Identities=25%  Similarity=0.314  Sum_probs=109.7

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      .+.+|+|+||++..+..+...|+. ||.+..+.++++++..+....+||+||+|+.+++.+|+++++.+++..+.+|+|+
T Consensus         3 ~~~~ILivdd~~~~~~~l~~~L~~-~~~v~~~~~~~~a~~~l~~~~~~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~ii~   81 (151)
T 3kcn_A            3 LNERILLVDDDYSLLNTLKRNLSF-DFEVTTCESGPEALACIKKSDPFSVIMVDMRMPGMEGTEVIQKARLISPNSVYLM   81 (151)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHTT-TSEEEEESSHHHHHHHHHHSCCCSEEEEESCCSSSCHHHHHHHHHHHCSSCEEEE
T ss_pred             CCCeEEEEeCCHHHHHHHHHHhcc-CceEEEeCCHHHHHHHHHcCCCCCEEEEeCCCCCCcHHHHHHHHHhcCCCcEEEE
Confidence            356899999999999999999975 8999999999999999987444699999999999999999999999999999999


Q ss_pred             EecCCChHHHHHHHHhc-ccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAG-LDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g-~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++..+......++..| +++|+.||++.++|..+|+++++
T Consensus        82 ~s~~~~~~~~~~~~~~g~~~~~l~KP~~~~~L~~~i~~~l~  122 (151)
T 3kcn_A           82 LTGNQDLTTAMEAVNEGQVFRFLNKPCQMSDIKAAINAGIK  122 (151)
T ss_dssp             EECGGGHHHHHHHHHHTCCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             EECCCCHHHHHHHHHcCCeeEEEcCCCCHHHHHHHHHHHHH
Confidence            99999998999999999 99999999999999999988764

>3ilh_A Two component response regulator; NYSGXRC, PSI-II, protein S initiative, structural genomics; 2.59A {Cytophaga hutchinsonii}

Probab=99.90  E-value=4.3e-22  Score=128.63  Aligned_cols=120  Identities=20%  Similarity=0.318  Sum_probs=110.5

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCC--eEEEecCHHHHHHHHhcC----CCccEEEEeCCCCCCCHHHHHHHHHh---
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGF--KVEVAENGKEAVDLFRTG----AKFHIVFIDMEMPVMDGIEATKAMRA---   95 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~--~v~~~~~~~~~l~~l~~~----~~~dlil~d~~~~~~~g~~~~~~l~~---   95 (145)
                      ...+|||+||++..+..+...|...|+  .+..+.++++++..+...    ..||+||+|+.+++.+|+++++.+++   
T Consensus         8 ~~~~iLivdd~~~~~~~l~~~l~~~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~dlvi~D~~l~~~~g~~~~~~l~~~~~   87 (146)
T 3ilh_A            8 KIDSVLLIDDDDIVNFLNTTIIRMTHRVEEIQSVTSGNAAINKLNELYAAGRWPSIICIDINMPGINGWELIDLFKQHFQ   87 (146)
T ss_dssp             CEEEEEEECSCHHHHHHHHHHHHTTCCEEEEEEESSHHHHHHHHHHHHTSSCCCSEEEEESSCSSSCHHHHHHHHHHHCG
T ss_pred             ccceEEEEeCCHHHHHHHHHHHHhcCCCeeeeecCCHHHHHHHHHHhhccCCCCCEEEEcCCCCCCCHHHHHHHHHHhhh
Confidence            457899999999999999999999998  788999999999998751    36999999999999999999999999   


Q ss_pred             -hCCCCcEEEEecCCChHHHHHHHHhc-ccEEeeCCCCHHHHHHHHHHHhh
Q 045936           96 -MKVESKIVGVTSRNSETEREVFMQAG-LDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus        96 -~~~~~~ii~lt~~~~~~~~~~~~~~g-~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                       ..+.+|+|++++..+......++..| +++|+.||++.++|..+|++...
T Consensus        88 ~~~~~~~ii~~t~~~~~~~~~~~~~~g~~~~~l~KP~~~~~L~~~i~~~~~  138 (146)
T 3ilh_A           88 PMKNKSIVCLLSSSLDPRDQAKAEASDWVDYYVSKPLTANALNNLYNKVLN  138 (146)
T ss_dssp             GGTTTCEEEEECSSCCHHHHHHHHHCSSCCEEECSSCCHHHHHHHHHHHHC
T ss_pred             hccCCCeEEEEeCCCChHHHHHHHhcCCcceeeeCCCCHHHHHHHHHHHHH
Confidence             56889999999999999999999999 99999999999999999998764

>2qr3_A Two-component system response regulator; structural genomics, signal receiver, PSI-2, protein structu initiative; 1.80A {Bacteroides fragilis}

Probab=99.90  E-value=3.6e-22  Score=128.27  Aligned_cols=118  Identities=16%  Similarity=0.120  Sum_probs=110.5

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCC-----CCCHHHHHHHHHhhCCCC
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMP-----VMDGIEATKAMRAMKVES  100 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~-----~~~g~~~~~~l~~~~~~~  100 (145)
                      ..+|+|+|+++..+..+...|+..||.+..+.+.++++..+.. ..||++|+|+.++     +.+|+++++.+++..+.+
T Consensus         3 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-~~~dlvi~d~~~~~~~~~~~~g~~~~~~l~~~~~~~   81 (140)
T 2qr3_A            3 LGTIIIVDDNKGVLTAVQLLLKNHFSKVITLSSPVSLSTVLRE-ENPEVVLLDMNFTSGINNGNEGLFWLHEIKRQYRDL   81 (140)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHTTTSSEEEEECCHHHHHHHHHH-SCEEEEEEETTTTC-----CCHHHHHHHHHHHCTTC
T ss_pred             CceEEEEeCCHHHHHHHHHHHHhCCcEEEEeCCHHHHHHHHHc-CCCCEEEEeCCcCCCCCCCccHHHHHHHHHhhCcCC
Confidence            4689999999999999999999999999999999999999988 5799999999999     999999999999998999


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |+|++++..+......+++.|+++|+.||++.++|..+++++++
T Consensus        82 ~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~~  125 (140)
T 2qr3_A           82 PVVLFTAYADIDLAVRGIKEGASDFVVKPWDNQKLLETLLNAAS  125 (140)
T ss_dssp             CEEEEEEGGGHHHHHHHHHTTCCEEEEESCCHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCHHHHHHHHHcCchheeeCCCCHHHHHHHHHHHHH
Confidence            99999999988889999999999999999999999999998875

>3h5i_A Response regulator/sensory box protein/ggdef domain protein; structural genomics, transcription, PSI-2; 1.90A {Carboxydothermus hydrogenoformans z-2901}

Probab=99.90  E-value=9.7e-23  Score=131.43  Aligned_cols=118  Identities=22%  Similarity=0.298  Sum_probs=108.2

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPV-MDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~-~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      +.+|+|+||++..+..+...|...||.+..+.++++++..+..+..||+||+|+.+|+ .+|+++++.+++. +.+|+|+
T Consensus         5 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~~~~dlvi~D~~l~~~~~g~~~~~~l~~~-~~~~ii~   83 (140)
T 3h5i_A            5 DKKILIVEDSKFQAKTIANILNKYGYTVEIALTGEAAVEKVSGGWYPDLILMDIELGEGMDGVQTALAIQQI-SELPVVF   83 (140)
T ss_dssp             -CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHTTCCCSEEEEESSCSSSCCHHHHHHHHHHH-CCCCEEE
T ss_pred             CcEEEEEeCCHHHHHHHHHHHHHcCCEEEEecChHHHHHHHhcCCCCCEEEEeccCCCCCCHHHHHHHHHhC-CCCCEEE
Confidence            5689999999999999999999999999999999999999976347999999999984 9999999999986 7899999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++..+......++..|+++|+.||++.++|..+++++++
T Consensus        84 ls~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~  123 (140)
T 3h5i_A           84 LTAHTEPAVVEKIRSVTAYGYVMKSATEQVLITIVEMALR  123 (140)
T ss_dssp             EESSSSCCCCGGGGGSCEEEEEETTCCHHHHHHHHHHHHH
T ss_pred             EECCCCHHHHHHHHhCCCcEEEeCCCCHHHHHHHHHHHHH
Confidence            9999988888889999999999999999999999988764

>1yio_A Response regulatory protein; transcription regulation, DNA binding protein; 2.20A {Pseudomonas fluorescens} SCOP: a.4.6.2 c.23.1.1 PDB: 1zn2_A

Probab=99.90  E-value=1e-22  Score=139.28  Aligned_cols=118  Identities=26%  Similarity=0.316  Sum_probs=110.4

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      +.+|+|+||++..+..+...|...||.+..+.++.+++..+.. ..||++|+|+.+|+.+|+++++.+++..+.+|||++
T Consensus         4 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~dlvl~D~~lp~~~g~~~~~~l~~~~~~~~ii~l   82 (208)
T 1yio_A            4 KPTVFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHRRP-EQHGCLVLDMRMPGMSGIELQEQLTAISDGIPIVFI   82 (208)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHCCT-TSCEEEEEESCCSSSCHHHHHHHHHHTTCCCCEEEE
T ss_pred             CCEEEEEcCCHHHHHHHHHHHHhCCceEEEcCCHHHHHHhhhc-cCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEEEE
Confidence            4589999999999999999999999999999999999999876 579999999999999999999999998889999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |+..+......+++.|+++|+.||++.++|..+++.+++
T Consensus        83 s~~~~~~~~~~a~~~Ga~~~l~Kp~~~~~L~~~i~~~~~  121 (208)
T 1yio_A           83 TAHGDIPMTVRAMKAGAIEFLPKPFEEQALLDAIEQGLQ  121 (208)
T ss_dssp             ESCTTSCCCHHHHHTTEEEEEESSCCHHHHHHHHHHHHH
T ss_pred             eCCCCHHHHHHHHHCCCcEEEeCCCCHHHHHHHHHHHHh
Confidence            999988888899999999999999999999999987753

>3luf_A Two-component system response regulator/ggdef domain protein; structural genomics, ASA_2441, PSI-2, protein structure initiative; HET: MSE; 1.76A {Aeromonas salmonicida} PDB: 3mf4_A*

Probab=99.90  E-value=3.2e-22  Score=141.84  Aligned_cols=120  Identities=19%  Similarity=0.306  Sum_probs=109.8

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCC--CCcE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKV--ESKI  102 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~--~~~i  102 (145)
                      .+.+||++||++..+..+...|+..||.+..+.++++++..+.....||+||+|+.||+++|+++++.+|+..+  .+||
T Consensus       123 ~~~~ILivDD~~~~~~~l~~~L~~~~~~v~~a~~~~eal~~l~~~~~~dlvllD~~mP~~dG~~l~~~lr~~~~~~~~~i  202 (259)
T 3luf_A          123 QQIEVLVVDDSRTSRHRTMAQLRKQLLQVHEASHAREALATLEQHPAIRLVLVDYYMPEIDGISLVRMLRERYSKQQLAI  202 (259)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHCTTEEEEEECSCCSSSCHHHHHHHHHHHCCTTTSEE
T ss_pred             CCCcEEEEeCCHHHHHHHHHHHHHcCcEEEEeCCHHHHHHHHhcCCCCCEEEEcCCCCCCCHHHHHHHHHhccCCCCCeE
Confidence            35689999999999999999999999999999999999999986334899999999999999999999998765  5789


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++|+..+......+++.|+++|+.||++.++|..++++.++
T Consensus       203 i~~s~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~~l~  244 (259)
T 3luf_A          203 IGISVSDKRGLSARYLKQGANDFLNQPFEPEELQCRVSHNLE  244 (259)
T ss_dssp             EEEECSSSSSHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             EEEEccCCHHHHHHHHhcChhheEcCCCCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999988764

>2ayx_A Sensor kinase protein RCSC; two independent structural domains, transferase; NMR {Escherichia coli} SCOP: c.23.1.1 c.23.1.6 PDB: 2ayz_A 2ayy_A

Probab=99.90  E-value=3.8e-22  Score=141.01  Aligned_cols=121  Identities=31%  Similarity=0.569  Sum_probs=112.9

Q ss_pred             CCCCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcE
Q 045936           23 KNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKI  102 (145)
Q Consensus        23 ~~~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~i  102 (145)
                      ...+++||++||++..+..+...|+..||.+..+.++.+++..+.. ..||+||+|+.||+++|+++++.|++..+.+||
T Consensus       126 ~~~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l~~-~~~dlvl~D~~mp~~~G~~l~~~ir~~~~~~pi  204 (254)
T 2ayx_A          126 DNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSK-NHIDIVLSDVNMPNMDGYRLTQRIRQLGLTLPV  204 (254)
T ss_dssp             CCCCCEEEEEESSHHHHHHHHHHHHHHTSEEEEECCSHHHHHHHHH-SCCSEEEEEESSCSSCCHHHHHHHHHHHCCSCE
T ss_pred             CCCCCEEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHh-CCCCEEEEcCCCCCCCHHHHHHHHHhcCCCCcE
Confidence            3346799999999999999999999999999999999999999987 579999999999999999999999998889999


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |++|+..+......++..|+++|+.||++.++|...++++++
T Consensus       205 I~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~  246 (254)
T 2ayx_A          205 IGVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTLTLYAE  246 (254)
T ss_dssp             EEEESSTTSHHHHHHHHCCCEEEEESSCCHHHHHHHHHHHHH
T ss_pred             EEEECCCCHHHHHHHHHcCCceEEECCCCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999987753

>3nhm_A Response regulator; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 2.19A {Myxococcus xanthus}

Probab=99.90  E-value=1.7e-22  Score=128.87  Aligned_cols=116  Identities=19%  Similarity=0.206  Sum_probs=103.0

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh--CCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM--KVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~--~~~~~ii  103 (145)
                      +.+|+|+||++..+..+...|+ .||.+..+.++++++..+.. ..||+||+|+.+++.+|+++++.+++.  .+.+|+|
T Consensus         4 ~~~ilivdd~~~~~~~l~~~l~-~~~~v~~~~~~~~a~~~l~~-~~~dlvi~d~~l~~~~g~~~~~~l~~~~~~~~~pii   81 (133)
T 3nhm_A            4 KPKVLIVENSWTMRETLRLLLS-GEFDCTTAADGASGLQQALA-HPPDVLISDVNMDGMDGYALCGHFRSEPTLKHIPVI   81 (133)
T ss_dssp             -CEEEEECSCHHHHHHHHHHHT-TTSEEEEESSHHHHHHHHHH-SCCSEEEECSSCSSSCHHHHHHHHHHSTTTTTCCEE
T ss_pred             CCEEEEEcCCHHHHHHHHHHHh-CCcEEEEECCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhCCccCCCCEE
Confidence            5689999999999999999998 88999999999999999988 579999999999999999999999997  4589999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++++..+... ..++..|+++|+.||++.++|..+++++++
T Consensus        82 ~~s~~~~~~~-~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~  121 (133)
T 3nhm_A           82 FVSGYAPRTE-GPADQPVPDAYLVKPVKPPVLIAQLHALLA  121 (133)
T ss_dssp             EEESCCC------TTSCCCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             EEeCCCcHhH-HHHhhcCCceEEeccCCHHHHHHHHHHHHh
Confidence            9999887777 788999999999999999999999998874

>2rjn_A Response regulator receiver:metal-dependent phosphohydrolase, HD subdomain; structural genomics, oceanospirillum SP. MED92; 2.10A {Neptuniibacter caesariensis}

Probab=99.90  E-value=6.1e-22  Score=129.47  Aligned_cols=119  Identities=17%  Similarity=0.249  Sum_probs=110.9

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      .+++|+|+||++..+..+...|...||.+..+.+..+++..+.. ..||+||+|+.+++.+|+++++.+++..+.+|+|+
T Consensus         6 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-~~~dlvi~d~~l~~~~g~~~~~~l~~~~~~~~ii~   84 (154)
T 2rjn_A            6 KNYTVMLVDDEQPILNSLKRLIKRLGCNIITFTSPLDALEALKG-TSVQLVISDMRMPEMGGEVFLEQVAKSYPDIERVV   84 (154)
T ss_dssp             SCCEEEEECSCHHHHHHHHHHHHTTTCEEEEESCHHHHHHHHTT-SCCSEEEEESSCSSSCHHHHHHHHHHHCTTSEEEE
T ss_pred             CCCeEEEEcCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHhc-CCCCEEEEecCCCCCCHHHHHHHHHHhCCCCcEEE
Confidence            46789999999999999999999999999999999999999987 57999999999999999999999999888999999


Q ss_pred             EecCCChHHHHHHHHhc-ccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAG-LDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g-~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++..+......++..| +++|+.||++.++|..+++++++
T Consensus        85 ls~~~~~~~~~~~~~~g~~~~~l~kP~~~~~L~~~i~~~~~  125 (154)
T 2rjn_A           85 ISGYADAQATIDAVNRGKISRFLLKPWEDEDVFKVVEKGLQ  125 (154)
T ss_dssp             EECGGGHHHHHHHHHTTCCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             EecCCCHHHHHHHHhccchheeeeCCCCHHHHHHHHHHHHH
Confidence            99998888888899988 99999999999999999988763

>1a04_A Nitrate/nitrite response regulator protein NARL; signal transduction protein, response regulators, two- component systems; 2.20A {Escherichia coli} SCOP: a.4.6.2 c.23.1.1 PDB: 1rnl_A

Probab=99.90  E-value=3.6e-22  Score=137.34  Aligned_cols=119  Identities=23%  Similarity=0.403  Sum_probs=110.3

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcC-CeE-EEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVG-FKV-EVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKI  102 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g-~~v-~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~i  102 (145)
                      ..++|+|+||++..+..+...|+..| |.+ ..+.++++++..+.. ..||++|+|+.+|+.+|+++++.+++..+.+|+
T Consensus         4 ~~~~ilivdd~~~~~~~l~~~L~~~~~~~vv~~~~~~~~al~~~~~-~~~dlvllD~~lp~~~g~~~~~~lr~~~~~~~i   82 (215)
T 1a04_A            4 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAES-LDPDLILLDLNMPGMNGLETLDKLREKSLSGRI   82 (215)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHHTTCTTEEEEEEESSHHHHHHHHHH-HCCSEEEEETTSTTSCHHHHHHHHHHSCCCSEE
T ss_pred             CceEEEEECCCHHHHHHHHHHHhcCCCcEEEEEeCCHHHHHHHHHh-cCCCEEEEeCCCCCCcHHHHHHHHHHhCCCCcE
Confidence            35789999999999999999998764 887 689999999999887 579999999999999999999999998889999


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++|+..+......+++.|+++|+.||++.++|..+++.+++
T Consensus        83 i~ls~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~  124 (215)
T 1a04_A           83 VVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAA  124 (215)
T ss_dssp             EEEECCCCHHHHHHHHHTTCSEEEETTCCHHHHHHHHHHHHH
T ss_pred             EEEECCCCHHHHHHHHHcCCcEEEeCCCCHHHHHHHHHHHHc
Confidence            999999999999999999999999999999999999998865

>1k68_A Phytochrome response regulator RCPA; phosphorylated aspartate, CHEY homologue, homodimer, (beta/alpha)5, signaling protein; HET: PHD; 1.90A {Tolypothrix SP} SCOP: c.23.1.1

Probab=99.90  E-value=8.6e-22  Score=126.11  Aligned_cols=119  Identities=14%  Similarity=0.249  Sum_probs=109.8

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCC--eEEEecCHHHHHHHHhcC------CCccEEEEeCCCCCCCHHHHHHHHHhhC
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGF--KVEVAENGKEAVDLFRTG------AKFHIVFIDMEMPVMDGIEATKAMRAMK   97 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~--~v~~~~~~~~~l~~l~~~------~~~dlil~d~~~~~~~g~~~~~~l~~~~   97 (145)
                      +++|+++||++..+..+...|+..|+  .+..+++.++++..+...      ..||++|+|+.+++.+|+++++.+++..
T Consensus         2 ~~~ilivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~   81 (140)
T 1k68_A            2 HKKIFLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEYANASRPDLILLXLNLPKKDGREVLAEIKSDP   81 (140)
T ss_dssp             CCEEEEECCCHHHHHHHHHHHHTCSSCCEEEEECSHHHHHHHHTTCGGGGSCCCCSEEEECSSCSSSCHHHHHHHHHHST
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHhcCCCceEEEECCHHHHHHHHHcccccccCCCCcEEEEecCCCcccHHHHHHHHHcCc
Confidence            46899999999999999999999998  888999999999998751      4699999999999999999999999976


Q ss_pred             --CCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936           98 --VESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus        98 --~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                        +.+|+|++++..+......+++.|+++|+.||++.++|...++++++
T Consensus        82 ~~~~~pii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~  130 (140)
T 1k68_A           82 TLKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQLFQIVKGIEE  130 (140)
T ss_dssp             TGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHH
T ss_pred             ccccccEEEEecCCcHHHHHHHHHhchhheecCCCCHHHHHHHHHHHHH
Confidence              78999999999999999999999999999999999999999988764

>3cg0_A Response regulator receiver modulated diguanylate with PAS/PAC sensor; signal receiver domain, diguanylate cyclase; 2.15A {Desulfovibrio desulfuricans subsp}

Probab=99.90  E-value=4.2e-22  Score=127.91  Aligned_cols=118  Identities=21%  Similarity=0.238  Sum_probs=110.0

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCC-CCCHHHHHHHHHhhCCCCcE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMP-VMDGIEATKAMRAMKVESKI  102 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~-~~~g~~~~~~l~~~~~~~~i  102 (145)
                      .+++|||+|+++..+..+...|+..||.+. .+.+.++++..+.. ..||++|+|+.++ +.+|+++++.+++. +.+|+
T Consensus         8 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~a~~~~~~-~~~dlii~d~~~~~~~~g~~~~~~l~~~-~~~~i   85 (140)
T 3cg0_A            8 DLPGVLIVEDGRLAAATLRIQLESLGYDVLGVFDNGEEAVRCAPD-LRPDIALVDIMLCGALDGVETAARLAAG-CNLPI   85 (140)
T ss_dssp             CCCEEEEECCBHHHHHHHHHHHHHHTCEEEEEESSHHHHHHHHHH-HCCSEEEEESSCCSSSCHHHHHHHHHHH-SCCCE
T ss_pred             CCceEEEEECCHHHHHHHHHHHHHCCCeeEEEECCHHHHHHHHHh-CCCCEEEEecCCCCCCCHHHHHHHHHhC-CCCCE
Confidence            467899999999999999999999999998 59999999999987 5799999999998 79999999999988 88999


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |++++..+......++..|+++|+.||++.++|..+++++++
T Consensus        86 i~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~  127 (140)
T 3cg0_A           86 IFITSSQDVETFQRAKRVNPFGYLAKPVAADTLHRSIEMAIH  127 (140)
T ss_dssp             EEEECCCCHHHHHHHHTTCCSEEEEESCCHHHHHHHHHHHHH
T ss_pred             EEEecCCCHHHHHHHHhcCCCEEEeCCCCHHHHHHHHHHHHh
Confidence            999999999989999999999999999999999999988764

>3q9s_A DNA-binding response regulator; DNA binding protein; 2.40A {Deinococcus radiodurans}

Probab=99.90  E-value=2.5e-22  Score=141.55  Aligned_cols=117  Identities=21%  Similarity=0.340  Sum_probs=110.6

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      +.+|+|+||++..+..+...|...||.+..+.++++++..+.. ..||+||+|+.+|+.+|+++++.|++ .+.+|||++
T Consensus        37 ~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~DlvllD~~lp~~~G~~l~~~lr~-~~~~~iI~l  114 (249)
T 3q9s_A           37 EQRILVIEDDHDIANVLRMDLTDAGYVVDHADSAMNGLIKARE-DHPDLILLDLGLPDFDGGDVVQRLRK-NSALPIIVL  114 (249)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHH-SCCSEEEEECCSCHHHHHHHHHHHHT-TCCCCEEEE
T ss_pred             CCEEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhc-CCCCEEEEcCCCCCCCHHHHHHHHHc-CCCCCEEEE
Confidence            4689999999999999999999999999999999999999987 57999999999999999999999998 678999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |+..+......+++.|+++|+.||++.++|..+|+.+++
T Consensus       115 t~~~~~~~~~~a~~~Ga~~yl~Kp~~~~~L~~~i~~~l~  153 (249)
T 3q9s_A          115 TARDTVEEKVRLLGLGADDYLIKPFHPDELLARVKVQLR  153 (249)
T ss_dssp             ESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHC
T ss_pred             ECCCCHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999998875

>3a10_A Response regulator; phosphoacceptor, signaling protein; HET: MSE PG4; 1.63A {Thermotoga maritima} PDB: 3a0r_B* 3a0u_A*

Probab=99.90  E-value=2.8e-22  Score=125.02  Aligned_cols=114  Identities=28%  Similarity=0.458  Sum_probs=104.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .+|+++||++..+..+...|...||.+..+.++++++..+.. ..||++++|+.+++.+|.++++.+++..+..|+++++
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~~-~~~dlvl~D~~l~~~~g~~~~~~l~~~~~~~~ii~~s   80 (116)
T 3a10_A            2 KRILVVDDEPNIRELLKEELQEEGYEIDTAENGEEALKKFFS-GNYDLVILDIEMPGISGLEVAGEIRKKKKDAKIILLT   80 (116)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-SCCSEEEECSCCSSSCHHHHHHHHHHHCTTCCEEEEE
T ss_pred             cEEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhc-CCCCEEEEECCCCCCCHHHHHHHHHccCCCCeEEEEE
Confidence            379999999999999999999999999999999999999987 5799999999999999999999999988899999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +..+..  ..++..|+++|+.||++.++|..++++++
T Consensus        81 ~~~~~~--~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~  115 (116)
T 3a10_A           81 AYSHYR--SDMSSWAADEYVVKSFNFDELKEKVKKLL  115 (116)
T ss_dssp             SCGGGG--GCGGGGGSSEEEECCSSTHHHHHHHHHHT
T ss_pred             CCcchH--HHHHhccccceEECCCCHHHHHHHHHHHh
Confidence            876654  56788999999999999999999998875

>3cz5_A Two-component response regulator, LUXR family; structural genomics, protein structure initiative; 2.70A {Aurantimonas SP}

Probab=99.90  E-value=7.8e-22  Score=128.84  Aligned_cols=119  Identities=26%  Similarity=0.346  Sum_probs=111.3

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHh-cCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKS-VGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKI  102 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~-~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~i  102 (145)
                      .+++|+|+||++..+..+...|.. .||.+. .+.+..+++..+.. ..||+||+|+.+++.+|+++++.+++..+.+||
T Consensus         4 ~~~~ILivdd~~~~~~~l~~~L~~~~~~~v~~~~~~~~~a~~~l~~-~~~dlii~D~~l~~~~g~~~~~~l~~~~~~~~i   82 (153)
T 3cz5_A            4 STARIMLVDDHPIVREGYRRLIERRPGYAVVAEAADAGEAYRLYRE-TTPDIVVMDLTLPGPGGIEATRHIRQWDGAARI   82 (153)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHHTTSTTEEEEEEESSHHHHHHHHHT-TCCSEEEECSCCSSSCHHHHHHHHHHHCTTCCE
T ss_pred             cccEEEEECCcHHHHHHHHHHHhhCCCcEEEEEeCCHHHHHHHHhc-CCCCEEEEecCCCCCCHHHHHHHHHHhCCCCeE
Confidence            357899999999999999999988 799987 89999999999987 579999999999999999999999999889999


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |++++..+......++..|+++|+.||++.++|..+++++++
T Consensus        83 i~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~L~~~i~~~~~  124 (153)
T 3cz5_A           83 LIFTMHQGSAFALKAFEAGASGYVTKSSDPAELVQAIEAILA  124 (153)
T ss_dssp             EEEESCCSHHHHHHHHHTTCSEEEETTSCTTHHHHHHHHHTT
T ss_pred             EEEECCCCHHHHHHHHHCCCcEEEecCCCHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999998865

>2jba_A Phosphate regulon transcriptional regulatory PROT; transcription factor, sensory transduction, phosphate regula transcription regulation; 1.45A {Escherichia coli} PDB: 2jba_B 1b00_A 2iyn_A 2jb9_A 1zes_A

Probab=99.89  E-value=6.8e-23  Score=129.63  Aligned_cols=117  Identities=26%  Similarity=0.395  Sum_probs=108.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC--CCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK--VESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~--~~~~ii~  104 (145)
                      .+|+++||++..+..+...|...||.+..+.++++++..+.. ..||++++|+.+++.+|+++++.+++..  +.+|+++
T Consensus         3 ~~ilivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~~~~-~~~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~~~ii~   81 (127)
T 2jba_A            3 RRILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNE-PWPDLILLAWMLPGGSGIQFIKHLRRESMTRDIPVVM   81 (127)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHTTCSS-SCCSEEEEESEETTEEHHHHHHHHHTSTTTTTSCEEE
T ss_pred             cEEEEEcCCHHHHHHHHHHHHHCCceEEEeCCHHHHHHHHhc-cCCCEEEEecCCCCCCHHHHHHHHHhCcccCCCCEEE
Confidence            479999999999999999999999999999999999998876 5799999999999999999999999865  7899999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +|+..+......+++.|+++|+.||++.++|...++++++
T Consensus        82 ~s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~  121 (127)
T 2jba_A           82 LTARGEEEDRVRGLETGADDCITKPFSPKELVARIKAVMR  121 (127)
T ss_dssp             EEETTHHHHHHTTCCCSCSEEEEESCCHHHHHHHHHHHHH
T ss_pred             EeCCCCHHHHHHHHhcCCCeEEeCCCCHHHHHHHHHHHHh
Confidence            9999888888889999999999999999999999998765

>1qkk_A DCTD, C4-dicarboxylate transport transcriptional regulatory protein; receiver domain, 2-component signal transduction; 1.7A {Sinorhizobium meliloti} SCOP: c.23.1.1 PDB: 1l5z_A 1l5y_A

Probab=99.89  E-value=5.1e-22  Score=129.97  Aligned_cols=118  Identities=22%  Similarity=0.285  Sum_probs=110.2

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      +++|+|+|+++..+..+...|...||.+..+.+.++++..+.. ..||++|+|+.+++.+|+++++.+++..+.+|+|++
T Consensus         3 ~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-~~~dliild~~l~~~~g~~~~~~l~~~~~~~pii~l   81 (155)
T 1qkk_A            3 APSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSA-DFAGIVISDIRMPGMDGLALFRKILALDPDLPMILV   81 (155)
T ss_dssp             -CEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHTCCT-TCCSEEEEESCCSSSCHHHHHHHHHHHCTTSCEEEE
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHcCcEEEEECCHHHHHHHHHh-CCCCEEEEeCCCCCCCHHHHHHHHHhhCCCCCEEEE
Confidence            5689999999999999999999999999999999999999887 579999999999999999999999998889999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++..+......++..|+++|+.||++.++|..+++++++
T Consensus        82 s~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  120 (155)
T 1qkk_A           82 TGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEE  120 (155)
T ss_dssp             ECGGGHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHH
T ss_pred             ECCCChHHHHHHHhcCCCeEEeCCCCHHHHHHHHHHHHH
Confidence            999998889999999999999999999999999987753

>3cg4_A Response regulator receiver domain protein (CHEY-; structural genomics, unknown function; HET: MSE; 1.61A {Methanospirillum hungatei jf-1}

Probab=99.89  E-value=2.3e-22  Score=129.56  Aligned_cols=119  Identities=24%  Similarity=0.364  Sum_probs=110.6

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHh--hCCCCcE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRA--MKVESKI  102 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~--~~~~~~i  102 (145)
                      .+.+|||+|+++..+..+...|...||.+..+.+.++++..+.. ..||+||+|+.+++.+|+++++.+++  ..+.+||
T Consensus         6 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-~~~dlii~d~~l~~~~g~~~~~~l~~~~~~~~~pi   84 (142)
T 3cg4_A            6 HKGDVMIVDDDAHVRIAVKTILSDAGFHIISADSGGQCIDLLKK-GFSGVVLLDIMMPGMDGWDTIRAILDNSLEQGIAI   84 (142)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHT-CCCEEEEEESCCSSSCHHHHHHHHHHTTCCTTEEE
T ss_pred             CCCeEEEEcCCHHHHHHHHHHHHHCCeEEEEeCCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHhhcccCCCCE
Confidence            46789999999999999999999999999999999999999987 57999999999999999999999998  6788999


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |++++..+......++..|+++|+.||++.++|..+++++++
T Consensus        85 i~~s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~  126 (142)
T 3cg4_A           85 VMLTAKNAPDAKMIGLQEYVVDYITKPFDNEDLIEKTTFFMG  126 (142)
T ss_dssp             EEEECTTCCCCSSTTGGGGEEEEEESSCCHHHHHHHHHHHHH
T ss_pred             EEEECCCCHHHHHHHHhcCccEEEeCCCCHHHHHHHHHHHHH
Confidence            999998888888889999999999999999999999988764

>1zh2_A KDP operon transcriptional regulatory protein KDPE; two-component system, gene regulation, transcription factor, KDP potassium transport system; 2.00A {Escherichia coli} SCOP: c.23.1.1 PDB: 1zh4_A

Probab=99.89  E-value=5.4e-22  Score=124.35  Aligned_cols=116  Identities=24%  Similarity=0.360  Sum_probs=107.2

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      ++|+++||++..+..+...|...||.+..+.++.+++..+.. ..||++++|+.+|+.+|+++++.+++ .+..|+++++
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~-~~~dlvi~D~~l~~~~g~~~~~~l~~-~~~~~ii~~s   79 (121)
T 1zh2_A            2 TNVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAAT-RKPDLIILDLGLPDGDGIEFIRDLRQ-WSAVPVIVLS   79 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHH-HCCSEEEEESEETTEEHHHHHHHHHT-TCCCCEEEEE
T ss_pred             cEEEEEeCCHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHhc-CCCCEEEEeCCCCCCcHHHHHHHHHh-CCCCcEEEEE
Confidence            479999999999999999999889999999999999998876 57999999999999999999999994 5789999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|..+++++++
T Consensus        80 ~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~  117 (121)
T 1zh2_A           80 ARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALR  117 (121)
T ss_dssp             SCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHhcCCCeEEeCCcCHHHHHHHHHHHHH
Confidence            99999888999999999999999999999999988764

>1k66_A Phytochrome response regulator RCPB; CHEY homologue, homodimer, APO-protein, (beta/alpha)5, signaling protein; 1.75A {Tolypothrix SP} SCOP: c.23.1.1

Probab=99.89  E-value=1.5e-21  Score=126.32  Aligned_cols=120  Identities=18%  Similarity=0.293  Sum_probs=110.2

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCC--eEEEecCHHHHHHHHhcC---------CCccEEEEeCCCCCCCHHHHHHHH
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGF--KVEVAENGKEAVDLFRTG---------AKFHIVFIDMEMPVMDGIEATKAM   93 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~--~v~~~~~~~~~l~~l~~~---------~~~dlil~d~~~~~~~g~~~~~~l   93 (145)
                      .+.+|+|+||++..+..+...|...|+  .+..+.++++++..+...         ..||++|+|+.+++.+|+++++.+
T Consensus         5 ~~~~iLivdd~~~~~~~l~~~L~~~g~~~~v~~~~~~~~al~~l~~~~~~~~~~~~~~~dlvi~D~~l~~~~g~~~~~~l   84 (149)
T 1k66_A            5 ATQPLLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSYCNPDIAPRPAVILLDLNLPGTDGREVLQEI   84 (149)
T ss_dssp             TTSCEEEECCCHHHHHHHHHHHHHTTBCSCEEEECSHHHHHHHHHTCCSSSCGGGCCCCSEEEECSCCSSSCHHHHHHHH
T ss_pred             CCccEEEEECCHHHHHHHHHHHHHcCCCceEEEECCHHHHHHHHHhcccccCcccCCCCcEEEEECCCCCCCHHHHHHHH
Confidence            456899999999999999999999998  889999999999999851         369999999999999999999999


Q ss_pred             HhhC--CCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936           94 RAMK--VESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus        94 ~~~~--~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++..  +.+|+|++++..+......+++.|+++|+.||++.++|...++++++
T Consensus        85 ~~~~~~~~~~ii~~t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~  137 (149)
T 1k66_A           85 KQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEIDRLTETVQTFIK  137 (149)
T ss_dssp             TTSTTGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHH
T ss_pred             HhCcccCCCeEEEEeCCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHH
Confidence            9876  78999999999999999999999999999999999999999988764

>1dcf_A ETR1 protein; beta-alpha five sandwich, transferase; 2.50A {Arabidopsis thaliana} SCOP: c.23.1.2

Probab=99.89  E-value=1.5e-21  Score=125.12  Aligned_cols=118  Identities=20%  Similarity=0.375  Sum_probs=105.1

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCC----C-
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKV----E-   99 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~----~-   99 (145)
                      .+.+|+++||++..+..+...|+..||.+..+.++++++..+.. .. |++++|+.+|+.+|+++++.+++..+    . 
T Consensus         6 ~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~-~~-dlvllD~~lp~~~g~~~~~~l~~~~~~~~~~~   83 (136)
T 1dcf_A            6 TGLKVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVSH-EH-KVVFMDVCMPGVENYQIALRIHEKFTKQRHQR   83 (136)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHCCT-TC-SEEEEECCSSTTTTTHHHHHHHHHHC-CCSCC
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHhc-cC-CEEEEeCCCCCCcHHHHHHHHHHhhhhccCCC
Confidence            45789999999999999999999999999999999999998865 44 99999999999999999999985322    2 


Q ss_pred             CcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          100 SKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       100 ~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      .+++++|+..+......+++.|+++|+.||++.++|..+++++++
T Consensus        84 ~~ii~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~l~~~~~  128 (136)
T 1dcf_A           84 PLLVALSGNTDKSTKEKCMSFGLDGVLLKPVSLDNIRDVLSDLLE  128 (136)
T ss_dssp             CEEEEEESCCSHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHS
T ss_pred             ceEEEEeCCCCHHHHHHHHHcCCCeEEECCCCHHHHHHHHHHHhc
Confidence            357788999888888899999999999999999999999998874

>1kgs_A DRRD, DNA binding response regulator D; DNA-binding protein, ALPH-beta sandwich, winged-helix, helix helix, DNA binding protein; HET: DNA MSE; 1.50A {Thermotoga maritima} SCOP: a.4.6.1 c.23.1.1 PDB: 3nnn_A*

Probab=99.89  E-value=4.8e-22  Score=137.36  Aligned_cols=117  Identities=26%  Similarity=0.391  Sum_probs=110.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      ++|+|+||++..+..+...|...||.+..+.++.+++..+.. ..||++|+|+.+|+.+|+++++.+++..+.+|||++|
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~-~~~dlvllD~~l~~~~g~~~~~~lr~~~~~~~ii~ls   81 (225)
T 1kgs_A            3 VRVLVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMALN-EPFDVVILDIMLPVHDGWEILKSMRESGVNTPVLMLT   81 (225)
T ss_dssp             CEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-SCCSEEEEESCCSSSCHHHHHHHHHHTTCCCCEEEEE
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEEEEe
Confidence            589999999999999999999999999999999999999987 5799999999999999999999999988899999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|..+++.+++
T Consensus        82 ~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~  119 (225)
T 1kgs_A           82 ALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRALIR  119 (225)
T ss_dssp             SSCHHHHHHHTCCCCCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHhCCccEEEeCCCCHHHHHHHHHHHHh
Confidence            99988889999999999999999999999999988764

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=99.89  E-value=2.2e-22  Score=149.22  Aligned_cols=116  Identities=22%  Similarity=0.310  Sum_probs=110.6

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEec
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      +|||+||++..+..+..+|+..||.+..+.++++++..+.. ..||+||+|++||+++|+++++.+++..+.+|||++|+
T Consensus         2 ~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l~~-~~~DlvllDi~mP~~dG~ell~~lr~~~~~~pvI~lT~   80 (368)
T 3dzd_A            2 RVLVVDDEESITSSLSAILEEEGYHPDTAKTLREAEKKIKE-LFFPVIVLDVWMPDGDGVNFIDFIKENSPDSVVIVITG   80 (368)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-BCCSEEEEESEETTEETTTHHHHHHHHCTTCEEEEEEC
T ss_pred             EEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHh-CCCCEEEEeCCCCCCCHHHHHHHHHhhCCCCeEEEEeC
Confidence            79999999999999999999999999999999999999987 57999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          108 RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       108 ~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ..+.+....+++.|+++|+.||++.++|...++++++
T Consensus        81 ~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~~l~  117 (368)
T 3dzd_A           81 HGSVDTAVKAIKKGAYEFLEKPFSVERFLLTIKHAFE  117 (368)
T ss_dssp             SSCCHHHHHHHHHTCCEEEESSCCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999988763

>3n0r_A Response regulator; sigma factor, receiver, two-component SI transduction, signaling protein; HET: MSE GOL; 1.25A {Caulobacter vibrioides} PDB: 3t0y_A

Probab=99.89  E-value=8e-23  Score=146.94  Aligned_cols=115  Identities=17%  Similarity=0.238  Sum_probs=105.9

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCC-CCCHHHHHHHHHhhCCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMP-VMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~-~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      +.+|+++||++..+..+..+|+..||.+. .+.++.+|+..+.. ..||+||+|+.|| +++|+++++.||+.. .+|||
T Consensus       160 ~~rILvVdD~~~~~~~l~~~L~~~g~~v~~~a~~g~eAl~~~~~-~~~dlvl~D~~MPd~mdG~e~~~~ir~~~-~~piI  237 (286)
T 3n0r_A          160 ATEVLIIEDEPVIAADIEALVRELGHDVTDIAATRGEALEAVTR-RTPGLVLADIQLADGSSGIDAVKDILGRM-DVPVI  237 (286)
T ss_dssp             CCEEEEECCSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHH-CCCSEEEEESCCTTSCCTTTTTHHHHHHT-TCCEE
T ss_pred             CCcEEEEcCCHHHHHHHHHHhhccCceEEEEeCCHHHHHHHHHh-CCCCEEEEcCCCCCCCCHHHHHHHHHhcC-CCCEE
Confidence            45899999999999999999999999999 99999999999988 5799999999999 799999999999988 99999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++|+..+  ....++..|+++|+.||+++++|..+|+++++
T Consensus       238 ~lT~~~~--~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~l~  276 (286)
T 3n0r_A          238 FITAFPE--RLLTGERPEPTFLITKPFQPETVKAAIGQALF  276 (286)
T ss_dssp             EEESCGG--GGCCSSSCCCSSEEESSCCHHHHHHHHHHHHH
T ss_pred             EEeCCHH--HHHHHHhCCCcEEEeCCCCHHHHHHHHHHHHH
Confidence            9999753  45568899999999999999999999998874

>3c3m_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein struct initiative; HET: MSE; 1.70A {Methanoculleus marisnigri JR1}

Probab=99.89  E-value=2.1e-21  Score=124.83  Aligned_cols=117  Identities=23%  Similarity=0.349  Sum_probs=104.4

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC--CCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK--VESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~--~~~~ii~  104 (145)
                      .+|+|+||++..+..+...|+..||.+..+.++.+++..+.. ..||++|+|+.+|+.+|+++++.+++..  +.+|+|+
T Consensus         4 ~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~-~~~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~~~ii~   82 (138)
T 3c3m_A            4 YTILVVDDSPMIVDVFVTMLERGGYRPITAFSGEECLEALNA-TPPDLVLLDIMMEPMDGWETLERIKTDPATRDIPVLM   82 (138)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-SCCSEEEEESCCSSSCHHHHHHHHHHSTTTTTSCEEE
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHcCceEEEeCCHHHHHHHHhc-cCCCEEEEeCCCCCCCHHHHHHHHHcCcccCCCCEEE
Confidence            589999999999999999999999999999999999999987 5799999999999999999999999853  5789999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +|+.............|+++|+.||++.++|..+++++++
T Consensus        83 ls~~~~~~~~~~~~~~~~~~~l~KP~~~~~L~~~i~~~~~  122 (138)
T 3c3m_A           83 LTAKPLTPEEANEYGSYIEDYILKPTTHHQLYEAIEHVLA  122 (138)
T ss_dssp             EESSCCCHHHHHHTTTTCSEEEECCCHHHHHHHHHHHHHS
T ss_pred             EECCCChHHHHHHhhcCHhheEeCCCCHHHHHHHHHHHHH
Confidence            9988766555556667789999999999999999988764

>3cu5_A Two component transcriptional regulator, ARAC FAM; structural genomics, protein structure initiative; 2.60A {Clostridium phytofermentans isdg}

Probab=99.88  E-value=6.5e-22  Score=127.84  Aligned_cols=117  Identities=18%  Similarity=0.259  Sum_probs=101.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHh--cCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKS--VGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~--~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      .+|+|+||++..+..+...|..  .||.+. .+.++.+++..+.. ..||++|+|+.+|+.+|+++++.+++..+.+|+|
T Consensus         3 ~~ILivdd~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~al~~~~~-~~~dlvllD~~lp~~~g~~l~~~l~~~~~~~~ii   81 (141)
T 3cu5_A            3 LRILIVDDEKLTRDGLIANINWKALSFDQIDQADDGINAIQIALK-HPPNVLLTDVRMPRMDGIELVDNILKLYPDCSVI   81 (141)
T ss_dssp             CEEEEECSCHHHHHHHHHHCCGGGSCCSEEEEESSHHHHHHHHTT-SCCSEEEEESCCSSSCHHHHHHHHHHHCTTCEEE
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHccCCcEEeeecccHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Confidence            4899999999999999999963  578877 89999999999886 5799999999999999999999999988899999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++|+..+......++..|+++|+.||++.++|..+++++++
T Consensus        82 ~ls~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~  122 (141)
T 3cu5_A           82 FMSGYSDKEYLKAAIKFRAIRYVEKPIDPSEIMDALKQSIQ  122 (141)
T ss_dssp             EECCSTTTCCC------CCCEEECSSCCHHHHHHHHHHHHH
T ss_pred             EEeCCCcHHHHHHHHhCCccEEEeCCCCHHHHHHHHHHHHH
Confidence            99999888888889999999999999999999999987753

>1ys7_A Transcriptional regulatory protein PRRA; response regulator, DNA binding domain, phosphorylation; 1.58A {Mycobacterium tuberculosis} SCOP: a.4.6.1 c.23.1.1 PDB: 1ys6_A

Probab=99.88  E-value=5.1e-22  Score=137.92  Aligned_cols=118  Identities=30%  Similarity=0.443  Sum_probs=110.8

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      +++|+|+||++..+..+...|...||.+..+.++.+++..+.. ..||++|+|+.+|+.+|+++++.+++..+.+|||++
T Consensus         7 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~-~~~dlvllD~~l~~~~g~~~~~~l~~~~~~~~ii~l   85 (233)
T 1ys7_A            7 SPRVLVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSATE-NRPDAIVLDINMPVLDGVSVVTALRAMDNDVPVCVL   85 (233)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-SCCSEEEEESSCSSSCHHHHHHHHHHTTCCCCEEEE
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHHh-CCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEEEE
Confidence            5689999999999999999999999999999999999999987 579999999999999999999999998889999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |+..+......+++.|+++|+.||++.++|..+++.+++
T Consensus        86 t~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~  124 (233)
T 1ys7_A           86 SARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLR  124 (233)
T ss_dssp             ECCCTTTCCCTTTTTTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             EcCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHh
Confidence            999888888889999999999999999999999988764

>1s8n_A Putative antiterminator; RV1626, structural genomics, transcriptional antiterminator, component system, PSI; 1.48A {Mycobacterium tuberculosis} SCOP: c.23.1.1 PDB: 1sd5_A

Probab=99.88  E-value=8.8e-22  Score=134.56  Aligned_cols=117  Identities=27%  Similarity=0.447  Sum_probs=107.7

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      +.+|+|+||++..+..+...|...||.+. .+.++.+++..+.. ..||+||+|+.+|+.+|+++++.+++..+. |||+
T Consensus        13 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~al~~~~~-~~~dlvi~D~~~p~~~g~~~~~~l~~~~~~-pii~   90 (205)
T 1s8n_A           13 PRRVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAEL-HKPDLVIMDVKMPRRDGIDAASEIASKRIA-PIVV   90 (205)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHH-HCCSEEEEESSCSSSCHHHHHHHHHHTTCS-CEEE
T ss_pred             CccEEEEECCHHHHHHHHHHHHHCCCEEEEEeCCHHHHHHHHhh-cCCCEEEEeCCCCCCChHHHHHHHHhcCCC-CEEE
Confidence            35899999999999999999999999988 89999999999887 579999999999999999999999987664 9999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +|+..+......++..|+++|+.||++.++|..+++.+++
T Consensus        91 lt~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~  130 (205)
T 1s8n_A           91 LTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIELAVS  130 (205)
T ss_dssp             EEEGGGHHHHHTTGGGSCEEEEEESCCHHHHHHHHHHHHH
T ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHH
Confidence            9999998888899999999999999999999999987653

>2jk1_A HUPR, hydrogenase transcriptional regulatory protein HU; nucleotide-binding, transcription regulation; 2.10A {Rhodobacter capsulatus} PDB: 2vui_B 2vuh_B

Probab=99.88  E-value=3.5e-21  Score=123.84  Aligned_cols=115  Identities=18%  Similarity=0.281  Sum_probs=104.2

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEec
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      +|+++||++..+..+...|... |.+..+.++.+++..+.. ..||++|+|+.+|+.+|+++++.+++..+.+|+|++++
T Consensus         3 ~Ilivdd~~~~~~~l~~~l~~~-~~v~~~~~~~~a~~~~~~-~~~dlvl~D~~lp~~~g~~~~~~l~~~~~~~~ii~~s~   80 (139)
T 2jk1_A            3 AILLVDDEPHSLAAMKLALEDD-FDVLTAQGAEAAIAILEE-EWVQVIICDQRMPGRTGVDFLTEVRERWPETVRIIITG   80 (139)
T ss_dssp             EEEEECSSHHHHHHHHHHHTTT-SCEEEESSHHHHHHHHHH-SCEEEEEEESCCSSSCHHHHHHHHHHHCTTSEEEEEES
T ss_pred             eEEEEcCCHHHHHHHHHHhhcC-ceEEEcCCHHHHHHHHhc-CCCCEEEEeCCCCCCcHHHHHHHHHHhCCCCcEEEEeC
Confidence            7999999999999999999765 889999999999999987 57999999999999999999999999888899999999


Q ss_pred             CCChHHHHHHHHh-cccEEeeCCCCHHHHHHHHHHHhh
Q 045936          108 RNSETEREVFMQA-GLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       108 ~~~~~~~~~~~~~-g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ..+......++.. |+++|+.||++.++|..+++++++
T Consensus        81 ~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~  118 (139)
T 2jk1_A           81 YTDSASMMAAINDAGIHQFLTKPWHPEQLLSSARNAAR  118 (139)
T ss_dssp             CTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHhhchhhhccCCCCHHHHHHHHHHHHH
Confidence            8887777777765 599999999999999999987653

>3n53_A Response regulator receiver modulated diguanylate; diguanylate cyclase, protein structure I II(PSI II), NYSGXRC, structural genomics; 2.20A {Pelobacter carbinolicus} SCOP: c.23.1.0

Probab=99.88  E-value=2.2e-22  Score=129.55  Aligned_cols=117  Identities=18%  Similarity=0.190  Sum_probs=99.6

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC--CCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK--VESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~--~~~~ii  103 (145)
                      ..+|+|+||++..+..+...|+.. |.+..+.++++++..+.. ..||+||+|+.+++.+|+++++.+++..  +.+|+|
T Consensus         3 ~~~iLivdd~~~~~~~l~~~l~~~-~~v~~~~~~~~a~~~~~~-~~~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~~~ii   80 (140)
T 3n53_A            3 LKKILIIDQQDFSRIELKNFLDSE-YLVIESKNEKEALEQIDH-HHPDLVILDMDIIGENSPNLCLKLKRSKGLKNVPLI   80 (140)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHTTT-SEEEEESSHHHHHHHHHH-HCCSEEEEETTC------CHHHHHHTSTTCTTCCEE
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHhc-ceEEEeCCHHHHHHHHhc-CCCCEEEEeCCCCCCcHHHHHHHHHcCcccCCCCEE
Confidence            458999999999999999999887 999999999999999987 5799999999999999999999999976  889999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++++..+.+....++..|+++|+.||++.++|..+++++++
T Consensus        81 ~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~  121 (140)
T 3n53_A           81 LLFSSEHKEAIVNGLHSGADDYLTKPFNRNDLLSRIEIHLR  121 (140)
T ss_dssp             EEECC----CTTTTTTCCCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             EEecCCCHHHHHHHHhcCCCeeeeCCCCHHHHHHHHHHHHh
Confidence            99999888888889999999999999999999999988864

>2gkg_A Response regulator homolog; social motility, receiver domain, signalling, high resolutio signaling protein; 1.00A {Myxococcus xanthus} PDB: 2i6f_A 2nt4_A 2nt3_A

Probab=99.88  E-value=1.7e-21  Score=122.76  Aligned_cols=116  Identities=18%  Similarity=0.245  Sum_probs=107.8

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCC-CCCHHHHHHHHHhh--CCCCcEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMP-VMDGIEATKAMRAM--KVESKIV  103 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~-~~~g~~~~~~l~~~--~~~~~ii  103 (145)
                      .+|+++|+++..+..+...|+..||.+..+.+.++++..+.. ..||++++|+.++ +.+|+++++.+++.  .+.+|++
T Consensus         6 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~-~~~dlvi~d~~~~~~~~g~~~~~~l~~~~~~~~~~ii   84 (127)
T 2gkg_A            6 KKILIVESDTALSATLRSALEGRGFTVDETTDGKGSVEQIRR-DRPDLVVLAVDLSAGQNGYLICGKLKKDDDLKNVPIV   84 (127)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHHTCEEEEECCHHHHHHHHHH-HCCSEEEEESBCGGGCBHHHHHHHHHHSTTTTTSCEE
T ss_pred             CeEEEEeCCHHHHHHHHHHHHhcCceEEEecCHHHHHHHHHh-cCCCEEEEeCCCCCCCCHHHHHHHHhcCccccCCCEE
Confidence            589999999999999999999999999999999999999987 5799999999999 99999999999987  6789999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++ +..+......+++.|+++|+.||++.++|...++++++
T Consensus        85 ~~-~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~  124 (127)
T 2gkg_A           85 II-GNPDGFAQHRKLKAHADEYVAKPVDADQLVERAGALIG  124 (127)
T ss_dssp             EE-ECGGGHHHHHHSTTCCSEEEESSCCHHHHHHHHHHHHC
T ss_pred             EE-ecCCchhHHHHHHhCcchheeCCCCHHHHHHHHHHHHc
Confidence            99 87777888889999999999999999999999998875

>2qvg_A Two component response regulator; NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.50A {Legionella pneumophila subsp}

Probab=99.88  E-value=4.1e-21  Score=123.77  Aligned_cols=119  Identities=21%  Similarity=0.354  Sum_probs=108.4

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCC--eEEEecCHHHHHHHHhc-----CCCccEEEEeCCCCCCCHHHHHHHHHhhC
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGF--KVEVAENGKEAVDLFRT-----GAKFHIVFIDMEMPVMDGIEATKAMRAMK   97 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~--~v~~~~~~~~~l~~l~~-----~~~~dlil~d~~~~~~~g~~~~~~l~~~~   97 (145)
                      .+.+|+|+||++..+..+...|+..|+  .+..+.+.++++..+..     ...||+||+|+.+++.+|+++++.+++..
T Consensus         6 ~~~~ILivdd~~~~~~~l~~~L~~~g~~~~v~~~~~~~~a~~~l~~~~~~~~~~~dlii~D~~l~~~~g~~~~~~l~~~~   85 (143)
T 2qvg_A            6 DKVDILYLEDDEVDIQSVERVFHKISSLIKIEIAKSGNQALDMLYGRNKENKIHPKLILLDINIPKMNGIEFLKELRDDS   85 (143)
T ss_dssp             -CCSEEEECCCHHHHHHHHHHHHHHCTTCCEEEESSHHHHHHHHHTCTTCCCCCCSEEEEETTCTTSCHHHHHHHHTTSG
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHHhCCCceEEEECCHHHHHHHHHhcccccCCCCCEEEEecCCCCCCHHHHHHHHHcCc
Confidence            356899999999999999999999998  89999999999999875     14699999999999999999999999876


Q ss_pred             --CCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936           98 --VESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus        98 --~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                        +.+|+|++++..+......+++.|+++|+.||++.++|..++....
T Consensus        86 ~~~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~~~~~~  133 (143)
T 2qvg_A           86 SFTDIEVFVLTAAYTSKDKLAFESLNIRGHLIKPLDYGEAIKLFWILQ  133 (143)
T ss_dssp             GGTTCEEEEEESCCCHHHHHHHTTTTCCEEEESSCCHHHHHHHHHHHH
T ss_pred             cccCCcEEEEeCCCCHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHH
Confidence              7899999999999989999999999999999999999999987654

>3eqz_A Response regulator; structural genomics, unknown function, PSI-2, protein struct initiative; 2.15A {Colwellia psychrerythraea} SCOP: c.23.1.0

Probab=99.88  E-value=7.4e-22  Score=125.94  Aligned_cols=117  Identities=21%  Similarity=0.296  Sum_probs=107.0

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      +.+|+|+||++..+..+...|+..++.+..+++.++++..+.. . ||+||+|+.+++.+|+++++.+++..+.+|++++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~-~-~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~ii~~   80 (135)
T 3eqz_A            3 LNRVFIVDDDTLTCNLLKTIVEPIFGNVEAFQHPRAFLTLSLN-K-QDIIILDLMMPDMDGIEVIRHLAEHKSPASLILI   80 (135)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHTTTCSCEEEESCHHHHTTSCCC-T-TEEEEEECCTTTTHHHHHHHHHHHTTCCCEEEEE
T ss_pred             cceEEEEeCCHHHHHHHHHHHHhhcceeeeecCHHHHHHhhcc-C-CCEEEEeCCCCCCCHHHHHHHHHhCCCCCCEEEE
Confidence            4689999999999999999999888889999999999988876 5 9999999999999999999999999999999999


Q ss_pred             ecCCCh-----HHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          106 TSRNSE-----TEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       106 t~~~~~-----~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++..+.     .....++..|+++|+.||++.++|..+++++..
T Consensus        81 s~~~~~~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~l~~~~~  124 (135)
T 3eqz_A           81 SGYDSGVLHSAETLALSCGLNVINTFTKPINTEVLTCFLTSLSN  124 (135)
T ss_dssp             ESSCHHHHHHHHHHHHHTTCEEEEEEESSCCHHHHHHHHHHHSC
T ss_pred             EeccchhHHHHHHHHHHcCCCcceeeCCCCCHHHHHHHHHHHHh
Confidence            998875     556678899999999999999999999998864

>2qsj_A DNA-binding response regulator, LUXR family; structural genomics, PSI-2, protein structure initiative; 2.10A {Silicibacter pomeroyi dss-3}

Probab=99.88  E-value=2.3e-21  Score=126.66  Aligned_cols=119  Identities=16%  Similarity=0.266  Sum_probs=99.5

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhc-CC-eEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSV-GF-KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~-g~-~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      .++|+|+|+++..+..+...|... |+ .+..+.+.++++..+..+..||++|+|+.+++.+|+++++.+++..+.+|+|
T Consensus         3 ~~~iLivdd~~~~~~~l~~~L~~~~g~~~v~~~~~~~~a~~~l~~~~~~dlvi~d~~l~~~~g~~~~~~l~~~~~~~~ii   82 (154)
T 2qsj_A            3 LTVVLIVDDHHLIRAGAKNLLEGAFSGMRVEGAETVSDALAFLEADNTVDLILLDVNLPDAEAIDGLVRLKRFDPSNAVA   82 (154)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHHHCTTEEEEEESSHHHHHHHHHTTCCCSEEEECC------CHHHHHHHHHHCTTSEEE
T ss_pred             ccEEEEEcCCHHHHHHHHHHHHhCCCceEEEEecCHHHHHHHHhccCCCCEEEEeCCCCCCchHHHHHHHHHhCCCCeEE
Confidence            468999999999999999999987 88 5779999999999998624699999999999999999999999998899999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++++..+......++..|+++|+.||++.++|..+++++++
T Consensus        83 ~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~L~~~l~~~~~  123 (154)
T 2qsj_A           83 LISGETDHELIRAALEAGADGFIPKSADPQVLIHAVSLILE  123 (154)
T ss_dssp             EC-----CHHHHHHHHTTCCBBCCTTSCHHHHHHHHHHHHT
T ss_pred             EEeCCCCHHHHHHHHHccCCEEEeCCCCHHHHHHHHHHHHc
Confidence            99999888888999999999999999999999999998875

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=99.87  E-value=3.6e-21  Score=143.56  Aligned_cols=116  Identities=28%  Similarity=0.413  Sum_probs=110.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      ++|||+||++..+..+...|...||.+..+.++++++..+.. ..||+||+|+.||+++|+++++.+++..+.+|||++|
T Consensus         1 m~ILIVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l~~-~~~DlvllD~~mp~~dG~ell~~lr~~~~~~pvIvlT   79 (387)
T 1ny5_A            1 MNVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLSE-KHFNVVLLDLLLPDVNGLEILKWIKERSPETEVIVIT   79 (387)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHHHTCEEEEESSHHHHHHHHHH-SCCSEEEEESBCSSSBHHHHHHHHHHHCTTSEEEEEE
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHh-CCCCEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Confidence            479999999999999999999899999999999999999987 5799999999999999999999999988999999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +..+.+....++..|+++|+.||++.++|..++++++
T Consensus        80 ~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l  116 (387)
T 1ny5_A           80 GHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAI  116 (387)
T ss_dssp             ETTCHHHHHHHHTTTCCEEEEESCCHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHhcCceEEecCCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999998765

>3eq2_A Probable two-component response regulator; adaptor sigmas, signaling protein; 3.40A {Pseudomonas aeruginosa} PDB: 3f7a_A

Probab=99.87  E-value=1.5e-21  Score=145.64  Aligned_cols=117  Identities=24%  Similarity=0.390  Sum_probs=106.3

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      +.+|||+||++..+..+...|+..||.+..+.+++++++.+.. ..||+||+|++||+++|+++++.+++..+.+|||++
T Consensus         5 ~~~iLivdD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~-~~~dlvllD~~mp~~~G~~~~~~lr~~~~~~pii~l   83 (394)
T 3eq2_A            5 SATLLIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIFES-EQPDLVICDLRMPQIDGLELIRRIRQTASETPIIVL   83 (394)
T ss_dssp             EEEEEEECSCHHHHHHHHHHHHHTTEEEEECSSHHHHHHHHHH-SCCSEEEECCCSSSSCTHHHHHHHHHTTCCCCEEEC
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHhh-CCCCEEEEcCCCCCCCHHHHHHHHHhhCCCCcEEEE
Confidence            4689999999999999999999999999999999999999987 579999999999999999999999999899999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCC-CHHHHHHHHHHHh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPL-TMAKIVPLLEELQ  143 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~-~~~~l~~~l~~~~  143 (145)
                      |+..+.+....+++.|+++|+.||+ +.++|..++++.+
T Consensus        84 t~~~~~~~~~~a~~~ga~~yl~KP~~~~~~l~~~i~~~~  122 (394)
T 3eq2_A           84 SGAGVMSDAVEALRLGAADYLIKPLEDLAVLEHSVRRAL  122 (394)
T ss_dssp             ---CHHHHHHHHHHHTCSEECCSSCSCTHHHHHHHHHHH
T ss_pred             EcCCCHHHHHHHHhcChhhEEECCCChHHHHHHHHHHHH
Confidence            9999999999999999999999999 6888888776654

>2rdm_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein struct initiative; HET: MSE; 1.76A {Sinorhizobium medicae}

Probab=99.87  E-value=1e-20  Score=120.28  Aligned_cols=117  Identities=20%  Similarity=0.320  Sum_probs=105.7

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCC-CCHHHHHHHHHhhCCCCcEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPV-MDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~-~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      +++|+|+||++..+..+...|...||.+..+.+.++++..+.....||++|+|+.+++ .+|+++++.+++..+.+|+|+
T Consensus         5 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~~~~dlvi~d~~l~~~~~g~~~~~~l~~~~~~~~ii~   84 (132)
T 2rdm_A            5 AVTILLADDEAILLLDFESTLTDAGFLVTAVSSGAKAIEMLKSGAAIDGVVTDIRFCQPPDGWQVARVAREIDPNMPIVY   84 (132)
T ss_dssp             SCEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHTTCCCCEEEEESCCSSSSCHHHHHHHHHHHCTTCCEEE
T ss_pred             CceEEEEcCcHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHcCCCCCEEEEeeeCCCCCCHHHHHHHHHhcCCCCCEEE
Confidence            5689999999999999999999999999999999999999987227999999999997 999999999999888999999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++..+......++..|  +|+.||++.++|..+++++.+
T Consensus        85 ~s~~~~~~~~~~~~~~~--~~l~kP~~~~~l~~~i~~~~~  122 (132)
T 2rdm_A           85 ISGHAALEWASNGVPDS--IILEKPFTSAQLITAVSQLLN  122 (132)
T ss_dssp             EESSCCTTHHHHSCTTC--EEEESSCCHHHHHHHHHHHHH
T ss_pred             EeCCccHHHHHhhcCCc--ceEeCCCCHHHHHHHHHHHHh
Confidence            99988887776666665  799999999999999998875

>2oqr_A Sensory transduction protein REGX3; response regulator, winged-helix-turn-helix, DNA-binding, 3D swapping, two component system; 2.03A {Mycobacterium tuberculosis H37RV}

Probab=99.87  E-value=4.2e-21  Score=133.12  Aligned_cols=117  Identities=26%  Similarity=0.452  Sum_probs=109.2

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      ++|+|+||++..+..+...|...||.+..+.++++++..+.. ..||++|+|+.+|+.+|+++++.+++. +.+|+|++|
T Consensus         5 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~dlvllD~~l~~~~g~~~~~~l~~~-~~~~ii~lt   82 (230)
T 2oqr_A            5 TSVLIVEDEESLADPLAFLLRKEGFEATVVTDGPAALAEFDR-AGADIVLLDLMLPGMSGTDVCKQLRAR-SSVPVIMVT   82 (230)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHHHH-HCCSEEEEESSCSSSCHHHHHHHHHHH-CSCSEEEEE
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhc-cCCCEEEEECCCCCCCHHHHHHHHHcC-CCCCEEEEe
Confidence            589999999999999999999999999999999999999887 579999999999999999999999986 789999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      +..+......+++.|+++|+.||++.++|..+++.++++
T Consensus        83 ~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~  121 (230)
T 2oqr_A           83 ARDSEIDKVVGLELGADDYVTKPYSARELIARIRAVLRR  121 (230)
T ss_dssp             CCHHHHHHHHHHHHCCSCCCCSSCCHHHHHHHHHHHHTT
T ss_pred             CCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhh
Confidence            998888889999999999999999999999999988753

>2pln_A HP1043, response regulator; signaling protein; 1.80A {Helicobacter pylori} PDB: 2hqo_A

Probab=99.87  E-value=2e-20  Score=119.91  Aligned_cols=115  Identities=13%  Similarity=0.218  Sum_probs=107.1

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCC-CCcE
Q 045936           24 NRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKV-ESKI  102 (145)
Q Consensus        24 ~~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~-~~~i  102 (145)
                      ..+.+|+|+||++..+..+...|...||.+..+.+.++++..+.. ..||++|    +++.+|+++++.+++. + .+|+
T Consensus        16 ~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~-~~~dlvi----~~~~~g~~~~~~l~~~-~~~~~i   89 (137)
T 2pln_A           16 RGSMRVLLIEKNSVLGGEIEKGLNVKGFMADVTESLEDGEYLMDI-RNYDLVM----VSDKNALSFVSRIKEK-HSSIVV   89 (137)
T ss_dssp             TTCSEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHHH-SCCSEEE----ECSTTHHHHHHHHHHH-STTSEE
T ss_pred             CCCCeEEEEeCCHHHHHHHHHHHHHcCcEEEEeCCHHHHHHHHHc-CCCCEEE----EcCccHHHHHHHHHhc-CCCccE
Confidence            356799999999999999999999999999999999999999987 5799999    7889999999999998 8 8999


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCC-CHHHHHHHHHHHhh
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPL-TMAKIVPLLEELQK  144 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~-~~~~l~~~l~~~~~  144 (145)
                      |++++..+......++..|+++|+.||+ +.++|..+++++++
T Consensus        90 i~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~~l~~~i~~~~~  132 (137)
T 2pln_A           90 LVSSDNPTSEEEVHAFEQGADDYIAKPYRSIKALVARIEARLR  132 (137)
T ss_dssp             EEEESSCCHHHHHHHHHTTCSEEEESSCSCHHHHHHHHHHHTC
T ss_pred             EEEeCCCCHHHHHHHHHcCCceeeeCCCCCHHHHHHHHHHHHh
Confidence            9999999999999999999999999999 99999999998764

>2j48_A Two-component sensor kinase; pseudo-receiver, circadian clock, transferase, response regulator, histidine protein kinase; NMR {Synechococcus elongatus}

Probab=99.87  E-value=6.1e-21  Score=118.57  Aligned_cols=114  Identities=16%  Similarity=0.208  Sum_probs=105.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC--CCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK--VESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~--~~~~ii~  104 (145)
                      .+|+++++++..+..+...|+..||.+..+.+.++++..+.. ..||++++|+.+++.+|.++++.+++..  +.+|+|+
T Consensus         2 ~~iliv~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~l~~-~~~dlii~d~~~~~~~~~~~~~~l~~~~~~~~~~ii~   80 (119)
T 2j48_A            2 GHILLLEEEDEAATVVCEMLTAAGFKVIWLVDGSTALDQLDL-LQPIVILMAWPPPDQSCLLLLQHLREHQADPHPPLVL   80 (119)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHHH-HCCSEEEEECSTTCCTHHHHHHHHHHTCCCSSCCCEE
T ss_pred             CEEEEEeCCHHHHHHHHHHHHhCCcEEEEecCHHHHHHHHHh-cCCCEEEEecCCCCCCHHHHHHHHHhccccCCCCEEE
Confidence            479999999999999999999999999999999999999987 5799999999999999999999999875  7899999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++..+..   .++..|+++|+.||++.++|...++++++
T Consensus        81 ~~~~~~~~---~~~~~g~~~~l~kp~~~~~l~~~l~~~~~  117 (119)
T 2j48_A           81 FLGEPPVD---PLLTAQASAILSKPLDPQLLLTTLQGLCP  117 (119)
T ss_dssp             EESSCCSS---HHHHHHCSEECSSCSTTHHHHHHHHTTCC
T ss_pred             EeCCCCch---hhhhcCHHHhccCCCCHHHHHHHHHHHhc
Confidence            99887766   88899999999999999999999987764

>3kyj_B CHEY6 protein, putative histidine protein kinase; protein-protein interaction, histidine kinase, response regulator, phosphorylation; 1.40A {Rhodobacter sphaeroides} PDB: 3kyi_B*

Probab=99.87  E-value=3.6e-21  Score=124.61  Aligned_cols=121  Identities=28%  Similarity=0.447  Sum_probs=100.7

Q ss_pred             CCCCCcEEEEEeCCHHHHHHHHHHHHhc-CCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCC
Q 045936           22 SKNRPYFALVVDDDPMIRRIHSMILKSV-GFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVE   99 (145)
Q Consensus        22 ~~~~~~~vlii~~~~~~~~~l~~~l~~~-g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~   99 (145)
                      ....+.+|+++||++..+..++.+|+.. ||.++ .+.++++++..+.....||+||+|+.+++.+|+++++.+++..+ 
T Consensus         9 ~~~~~~~vlivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~~~~~dlvilD~~l~~~~g~~~~~~lr~~~~-   87 (145)
T 3kyj_B            9 HHGSPYNVMIVDDAAMMRLYIASFIKTLPDFKVVAQAANGQEALDKLAAQPNVDLILLDIEMPVMDGMEFLRHAKLKTR-   87 (145)
T ss_dssp             --CCSEEEEEECSCHHHHHHHHHHHTTCTTEEEEEEESSHHHHHHHHHHCTTCCEEEECTTSCCCTTCHHHHHHHHHCC-
T ss_pred             CCCCCCeEEEEcCCHHHHHHHHHHHHhCCCceEEEEECCHHHHHHHHhcCCCCCEEEEeCCCCCCCHHHHHHHHHhcCC-
Confidence            3345668999999999999999999988 88865 89999999999987327999999999999999999999998776 


Q ss_pred             CcEEEEec--CCChHHHHHHHHhcccEEeeCCCC----------HHHHHHHHHHHh
Q 045936          100 SKIVGVTS--RNSETEREVFMQAGLDLCYTKPLT----------MAKIVPLLEELQ  143 (145)
Q Consensus       100 ~~ii~lt~--~~~~~~~~~~~~~g~~~~l~kP~~----------~~~l~~~l~~~~  143 (145)
                      .++++++.  ..+......++..|+++|+.||++          ..++..++++++
T Consensus        88 ~~iiil~~~~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~~~l~~~i~~~~  143 (145)
T 3kyj_B           88 AKICMLSSVAVSGSPHAARARELGADGVVAKPSGTVSHDLEEKTGGELARTMRTLM  143 (145)
T ss_dssp             CEEC-CBSSCSTTSSHHHHHHHTTCSCCCBCCCSCC------CTTHHHHHHHHHHH
T ss_pred             CCeEEEEEeccCChHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence            88888877  555667788999999999999999          455666666554

>2gwr_A DNA-binding response regulator MTRA; two-component regulatory system, transcription regulation, phosphorylation, OMPR family; 2.10A {Mycobacterium tuberculosis} PDB: 3nhz_A

Probab=99.86  E-value=5.5e-21  Score=133.49  Aligned_cols=116  Identities=25%  Similarity=0.436  Sum_probs=108.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      ++|+|+||++..+..+...|...||.+..+.++++++..+.. ..||+||+|+.+|+.+|+++++.+++.. .+|||++|
T Consensus         6 ~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~-~~~dlvilD~~l~~~~g~~~~~~lr~~~-~~~ii~lt   83 (238)
T 2gwr_A            6 QRILVVDDDASLAEMLTIVLRGEGFDTAVIGDGTQALTAVRE-LRPDLVLLDLMLPGMNGIDVCRVLRADS-GVPIVMLT   83 (238)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEECCGGGHHHHHHH-HCCSEEEEESSCSSSCHHHHHHHHHTTC-CCCEEEEE
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHh-CCCCEEEEeCCCCCCCHHHHHHHHHhCC-CCcEEEEe
Confidence            589999999999999999999999999999999999999887 5799999999999999999999999865 89999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|..+++.+++
T Consensus        84 ~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~  121 (238)
T 2gwr_A           84 AKTDTVDVVLGLESGADDYIMKPFKPKELVARVRARLR  121 (238)
T ss_dssp             ETTCCSCHHHHHHTTCCEEEEESCCHHHHHHHHHHHCC
T ss_pred             CCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHh
Confidence            99988888999999999999999999999999998865

>2qv0_A Protein MRKE; structural genomics, transcription, PSI-2, protein structure initiative; 2.40A {Klebsiella pneumoniae}

Probab=99.86  E-value=2.4e-20  Score=120.26  Aligned_cols=117  Identities=15%  Similarity=0.318  Sum_probs=102.8

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhc-CCeE-EEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSV-GFKV-EVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKI  102 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~-g~~v-~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~i  102 (145)
                      .+++|+|+||++..+..+...|... |+.+ ..+.++.+++..+.. ..||++|+|+.+++.+|+++++.+++..+..+|
T Consensus         8 ~~~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~-~~~dlvi~d~~l~~~~g~~~~~~l~~~~~~~~i   86 (143)
T 2qv0_A            8 EKMKVIIVEDEFLAQQELSWLINTHSQMEIVGSFDDGLDVLKFLQH-NKVDAIFLDINIPSLDGVLLAQNISQFAHKPFI   86 (143)
T ss_dssp             --CEEEEECSCHHHHHHHHHHHHHHSCCEEEEEESCHHHHHHHHHH-CCCSEEEECSSCSSSCHHHHHHHHTTSTTCCEE
T ss_pred             CceEEEEEcCCHHHHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHh-CCCCEEEEecCCCCCCHHHHHHHHHccCCCceE
Confidence            3578999999999999999999876 7885 489999999999987 579999999999999999999999988777888


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++++..+  ....++..|+++|+.||++.++|..+++++++
T Consensus        87 i~~s~~~~--~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~  126 (143)
T 2qv0_A           87 VFITAWKE--HAVEAFELEAFDYILKPYQESRIINMLQKLTT  126 (143)
T ss_dssp             EEEESCCT--THHHHHHTTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             EEEeCCHH--HHHHHHhCCcceEEeCCCCHHHHHHHHHHHHH
Confidence            88888633  56778999999999999999999999988764

>3t8y_A CHEB, chemotaxis response regulator protein-glutamate methylesterase; CHEA, hydrolase; 1.90A {Thermotoga maritima}

Probab=99.86  E-value=2.8e-20  Score=123.09  Aligned_cols=118  Identities=28%  Similarity=0.347  Sum_probs=103.0

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcC-Ce-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVG-FK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKI  102 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g-~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~i  102 (145)
                      ..++|+|+||++..+..+..+|+..| +. +..+.++++++..+.. ..||+||+|+.+++.+|+++++.+++..+ .|+
T Consensus        24 ~~~~ILivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~-~~~dlvilD~~l~~~~g~~l~~~lr~~~~-~~i  101 (164)
T 3t8y_A           24 RVIRVLVVDDSAFMRMVLKDIIDSQPDMKVVGFAKDGLEAVEKAIE-LKPDVITMDIEMPNLNGIEALKLIMKKAP-TRV  101 (164)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHH-HCCSEEEECSSCSSSCHHHHHHHHHHHSC-CEE
T ss_pred             CccEEEEEcCCHHHHHHHHHHHhcCCCeEEEEecCCHHHHHHHhcc-CCCCEEEEeCCCCCCCHHHHHHHHHhcCC-ceE
Confidence            35789999999999999999999875 44 4479999999999987 57999999999999999999999999887 899


Q ss_pred             EEEecCCChH--HHHHHHHhcccEEeeCCCC---------HHHHHHHHHHHhh
Q 045936          103 VGVTSRNSET--EREVFMQAGLDLCYTKPLT---------MAKIVPLLEELQK  144 (145)
Q Consensus       103 i~lt~~~~~~--~~~~~~~~g~~~~l~kP~~---------~~~l~~~l~~~~~  144 (145)
                      |++++..+..  ....+++.|+++|+.||++         .+++..++++.+.
T Consensus       102 i~~s~~~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~r~~~~~l~~~i~~~~~  154 (164)
T 3t8y_A          102 IMVSSLTEEGAAITIEALRNGAVDFITKPHGSISLTFRQVAPELLEKIRQAMN  154 (164)
T ss_dssp             EEEESSCCTTCHHHHHHHHTTCCEEEECSSSSSCGGGGGGHHHHHHHHHHHTT
T ss_pred             EEEecCCccchHHHHHHHHcCcCEEEeCCCCHHHHHHHhhhHHHHHHHHHHhC
Confidence            9998876654  6678999999999999999         6788888877764

>1w25_A Stalked-cell differentiation controlling protein; two-component system, ggdef domain, cyclic dinucleotide, cyclic-digmp; HET: C2E; 2.70A {Caulobacter vibrioides} SCOP: c.23.1.1 c.23.1.1 d.58.29.2 PDB: 2v0n_A* 2wb4_A*

Probab=99.86  E-value=1.7e-20  Score=142.10  Aligned_cols=116  Identities=22%  Similarity=0.279  Sum_probs=108.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh--CCCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM--KVESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~--~~~~~ii~  104 (145)
                      .+|||+||++..+..+...|...||.+..+.++++++..+.. ..||+||+|+.||+++|+++++.|++.  .+.+|||+
T Consensus         2 ~~iLivdD~~~~~~~l~~~L~~~~~~v~~a~~~~~al~~~~~-~~~dlvllD~~mp~~~G~~~~~~l~~~~~~~~~pii~   80 (459)
T 1w25_A            2 ARILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAAR-DLPDIILLDVMMPGMDGFTVCRKLKDDPTTRHIPVVL   80 (459)
T ss_dssp             CEEEEECSSTTHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-HCCSEEEEESCCSSSCHHHHHHHHHHSTTTTTSCEEE
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhc-CCCCEEEEcCCCCCCCHHHHHHHHhcCcccCCCCEEE
Confidence            479999999999999999999999999999999999999887 579999999999999999999999985  35789999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +|+..+......+++.|+++|+.||++.++|..++++++
T Consensus        81 lt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~l~~~i~~~~  119 (459)
T 1w25_A           81 ITALDGRGDRIQGLESGASDFLTKPIDDVMLFARVRSLT  119 (459)
T ss_dssp             EECSSCHHHHHHHHHHTCCEEEESSCCHHHHHHHHHHHH
T ss_pred             EECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999998765

>3klo_A Transcriptional regulator VPST; REC domain, HTH domain, DNA-binding, transcription regulation; HET: C2E TAR; 2.80A {Vibrio cholerae} PDB: 3kln_A*

Probab=99.86  E-value=1.3e-21  Score=135.66  Aligned_cols=120  Identities=12%  Similarity=0.083  Sum_probs=104.8

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHh-cCCeEE-EecCHHHHHH-HHhcCCCccEEEEeCCCCCCCHHHHHHHHHh-hCCCC
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKS-VGFKVE-VAENGKEAVD-LFRTGAKFHIVFIDMEMPVMDGIEATKAMRA-MKVES  100 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~-~g~~v~-~~~~~~~~l~-~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~-~~~~~  100 (145)
                      ..++|+|+||++..+..+..+|+. .||.+. .+.+..+++. .+.. ..||+||+|+.||+++|+++++.+++ ..+.+
T Consensus         6 ~~~~IlivdD~~~~~~~l~~~L~~~~~~~v~~~~~~~~~~~~~~~~~-~~~dlvllD~~mp~~~G~~~~~~lr~~~~~~~   84 (225)
T 3klo_A            6 NKLNVRMLSDVCMQSRLLKEALESKLPLALEITPFSELWLEENKPES-RSIQMLVIDYSRISDDVLTDYSSFKHISCPDA   84 (225)
T ss_dssp             SSEEEEEESCCSHHHHHHHHHHHHHSSEEEEEECGGGHHHHTTCSGG-GGCCEEEEEGGGCCHHHHHHHHHHHHHHCTTC
T ss_pred             CceEEEEEcCcHHHHHHHHHHHhhCCCceEEEEeCCcHHHHHHHhhc-cCCCEEEEeCCCCCCCHHHHHHHHHHhhCCCC
Confidence            457999999999999999999984 588875 4455555554 3555 57999999999999999999999999 78999


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      |||++|+..+......++..|+++|+.||+++++|..++++++++
T Consensus        85 ~ii~lt~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~  129 (225)
T 3klo_A           85 KEVIINCPQDIEHKLLFKWNNLAGVFYIDDDMDTLIKGMSKILQD  129 (225)
T ss_dssp             EEEEEEECTTCCHHHHTTSTTEEEEEETTCCHHHHHHHHHHHHTT
T ss_pred             cEEEEECCcchhHHHHHHHhCCCEEEecCCCHHHHHHHHHHHHCC
Confidence            999999999988888999999999999999999999999988753

>3c3w_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 2.20A {Mycobacterium tuberculosis}

Probab=99.86  E-value=8e-22  Score=136.83  Aligned_cols=117  Identities=19%  Similarity=0.198  Sum_probs=109.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcC-CeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVG-FKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g-~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ++|+|+||++..+..+...|...| |.++ .+.++++++..+.. ..||+||+|+.+|+.+|+++++.+++..+.+|||+
T Consensus         2 ~~ILivdd~~~~~~~l~~~L~~~~~~~vv~~~~~~~~al~~l~~-~~~dlvllD~~lp~~~g~~~~~~lr~~~~~~~ii~   80 (225)
T 3c3w_A            2 VKVFLVDDHEVVRRGLVDLLGADPELDVVGEAGSVAEAMARVPA-ARPDVAVLDVRLPDGNGIELCRDLLSRMPDLRCLI   80 (225)
T ss_dssp             EEEEEECSCHHHHHHHHHHHHTCTTEEEEEEESSHHHHHHHHHH-HCCSEEEECSEETTEEHHHHHHHHHHHCTTCEEEE
T ss_pred             cEEEEEcCCHHHHHHHHHHHhcCCCcEEEEEECCHHHHHHHHhh-cCCCEEEEeCCCCCCCHHHHHHHHHHhCCCCcEEE
Confidence            589999999999999999999886 8854 79999999999887 57999999999999999999999999989999999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +|+..+......+++.|+++|+.||++.++|..+++.+++
T Consensus        81 lt~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~  120 (225)
T 3c3w_A           81 LTSYTSDEAMLDAILAGASGYVVKDIKGMELARAVKDVGA  120 (225)
T ss_dssp             GGGSSSHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             EECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHc
Confidence            9999999999999999999999999999999999988764

>1p2f_A Response regulator; DRRB, OMPR/PHOB, transcription; HET: MSE; 1.80A {Thermotoga maritima} SCOP: a.4.6.1 c.23.1.1 PDB: 3nns_A*

Probab=99.86  E-value=2e-20  Score=129.02  Aligned_cols=114  Identities=23%  Similarity=0.327  Sum_probs=106.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      ++|+|+||++..+..+...|...| .+..+.++++++..+   ..||++|+|+.+|+.+|+++++.+++..+.+|++++|
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~~-~v~~~~~~~~al~~~---~~~dlvllD~~lp~~~g~~~~~~lr~~~~~~~ii~lt   78 (220)
T 1p2f_A            3 WKIAVVDDDKNILKKVSEKLQQLG-RVKTFLTGEDFLNDE---EAFHVVVLDVMLPDYSGYEICRMIKETRPETWVILLT   78 (220)
T ss_dssp             EEEEEECSCHHHHHHHHHHHTTTE-EEEEESSHHHHHHCC---SCCSEEEEESBCSSSBHHHHHHHHHHHCTTSEEEEEE
T ss_pred             ceEEEEeCCHHHHHHHHHHHHhCC-CEEEECCHHHHHHhc---CCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCcEEEEE
Confidence            589999999999999999999888 888999999999876   3599999999999999999999999988899999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+......++..|+++|+.||++.++|..+++.+++
T Consensus        79 ~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~  116 (220)
T 1p2f_A           79 LLSDDESVLKGFEAGADDYVTKPFNPEILLARVKRFLE  116 (220)
T ss_dssp             SCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999998764

>3c97_A Signal transduction histidine kinase; structural genomics, signaling, PSI-2, protein structure initiative; 1.70A {Aspergillus oryzae RIB40}

Probab=99.85  E-value=1.6e-20  Score=120.86  Aligned_cols=115  Identities=25%  Similarity=0.499  Sum_probs=101.6

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh-----CCCC
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM-----KVES  100 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~-----~~~~  100 (145)
                      +.+|+|+||++..+..+...|...|+.+..+.++++++..+.. ..||++|+|+.+|+.+|+++++.+++.     .+.+
T Consensus        10 ~~~iLivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~al~~l~~-~~~dlvllD~~lp~~~g~~~~~~l~~~~~~~~~~~~   88 (140)
T 3c97_A           10 PLSVLIAEDNDICRLVAAKALEKCTNDITVVTNGLQALQAYQN-RQFDVIIMDIQMPVMDGLEAVSEIRNYERTHNTKRA   88 (140)
T ss_dssp             CCEEEEECCCHHHHHHHHHHHTTTCSEEEEESSHHHHHHHHHH-SCCSEEEECTTCCSSCHHHHHHHHHHHHHHHTCCCC
T ss_pred             CceEEEEcCCHHHHHHHHHHHHHcCCceEEECCHHHHHHHHhc-CCCCEEEEeCCCCCCcHHHHHHHHHhhhhhcCCCce
Confidence            3589999999999999999999889999999999999999987 579999999999999999999999874     3678


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++++++........   ..|+++|+.||++.++|..+++++++
T Consensus        89 ~ii~~s~~~~~~~~~---~~g~~~~l~KP~~~~~L~~~i~~~~~  129 (140)
T 3c97_A           89 SIIAITADTIDDDRP---GAELDEYVSKPLNPNQLRDVVLTCHS  129 (140)
T ss_dssp             CCEEEESSCCSCCCC---CSSCSEEEESSCCHHHHHHHHHHHHC
T ss_pred             EEEEEeCccchhHHH---hCChhheEeCCCCHHHHHHHHHHHhC
Confidence            899888866544332   78999999999999999999998874

>2b4a_A BH3024; flavodoxin-like fold, structural genomics, joint center for structural genomics, JCSG, protein structure initiative; 2.42A {Bacillus halodurans} SCOP: c.23.1.1

Probab=99.85  E-value=9.1e-21  Score=121.64  Aligned_cols=120  Identities=12%  Similarity=0.171  Sum_probs=102.1

Q ss_pred             CCCCCCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCC
Q 045936           21 VSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVES  100 (145)
Q Consensus        21 ~~~~~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~  100 (145)
                      .......+|+++||++..+..+...|+..||.+..+.++.+++..+..+..||++|+|+.+++.+|+++++.+++..+.+
T Consensus        10 ~~~~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~~dlvilD~~l~~~~g~~~~~~l~~~~~~~   89 (138)
T 2b4a_A           10 HHHMQPFRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHRSQLSTCDLLIVSDQLVDLSIFSLLDIVKEQTKQP   89 (138)
T ss_dssp             ----CCCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHTGGGGGSCSEEEEETTCTTSCHHHHHHHHTTSSSCC
T ss_pred             cCCCCCCeEEEECCCHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHHhCCCCCEEEEeCCCCCCCHHHHHHHHHhhCCCC
Confidence            34445678999999999999999999999999999999999999887513699999999999999999999999988899


Q ss_pred             cEEEEe-cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          101 KIVGVT-SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       101 ~ii~lt-~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |+|+++ +..+... ..++   +++|+.||++.++|..+++++++
T Consensus        90 ~ii~ls~~~~~~~~-~~~~---~~~~l~KP~~~~~L~~~i~~~~~  130 (138)
T 2b4a_A           90 SVLILTTGRHELIE-SSEH---NLSYLQKPFAISELRAAIDYHKP  130 (138)
T ss_dssp             EEEEEESCC--CCC-CSSS---CEEEEESSCCHHHHHHHHHHTCC
T ss_pred             CEEEEECCCCCHHH-HHHH---HHheeeCCCCHHHHHHHHHHHHH
Confidence            999999 7766655 5554   99999999999999999988764

>2hqr_A Putative transcriptional regulator; phosporylation-independent response regulator, H. pylori, SY dimer, signaling protein; NMR {Helicobacter pylori}

Probab=99.84  E-value=9.5e-20  Score=125.82  Aligned_cols=113  Identities=13%  Similarity=0.214  Sum_probs=105.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCC-CCcEEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKV-ESKIVGV  105 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~-~~~ii~l  105 (145)
                      ++|+|+||++..+..+...|...||.+..+.++++++..+.. ..||++|    +|+.+|+++++.+++. + .+|||++
T Consensus         1 m~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~-~~~dlvi----lp~~~g~~~~~~lr~~-~~~~~ii~l   74 (223)
T 2hqr_A            1 MRVLLIEKNSVLGGEIEKGLNVKGFMADVTESLEDGEYLMDI-RNYDLVM----VSDKNALSFVSRIKEK-HSSIVVLVS   74 (223)
T ss_dssp             CCEEEECSCHHHHHHHHHHHGGGTCCEEEESSHHHHHHHHTT-SCCSEEE----ECCTTHHHHHHHHHHH-CTTSEEEEE
T ss_pred             CEEEEEcCCHHHHHHHHHHHHHCCcEEEEECCHHHHHHHHhc-CCCCEEE----eCCCCHHHHHHHHHhC-CCCCcEEEE
Confidence            479999999999999999999999999999999999999987 5799999    8999999999999998 6 8999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCC-CHHHHHHHHHHHhhC
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPL-TMAKIVPLLEELQKN  145 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~-~~~~l~~~l~~~~~~  145 (145)
                      |+..+......++..|+++|+.||+ +.++|..+++.++++
T Consensus        75 t~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~~L~~~i~~~~~~  115 (223)
T 2hqr_A           75 SDNPTSEEEVHAFEQGADDYIAKPYRSIKALVARIEARLRF  115 (223)
T ss_dssp             ESSCCHHHHHHHHHHTCSEEEETTCSCTHHHHHHHHHHTSS
T ss_pred             ECCCCHHHHHHHHHcCCCEEEECCCCCHHHHHHHHHHHhcc
Confidence            9999999999999999999999999 999999999988753

>1dc7_A NTRC, nitrogen regulation protein; receiver domain, phosphorylation, signal transduction, conformational rearrangement; NMR {Salmonella typhimurium} SCOP: c.23.1.1 PDB: 1j56_A 1krw_A 1krx_A 1ntr_A 1dc8_A*

Probab=99.84  E-value=1.7e-22  Score=127.07  Aligned_cols=118  Identities=24%  Similarity=0.319  Sum_probs=108.3

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      ..+|+++||++..+..+...|...||.+..+.++.+++..+.. ..||++++|+.+++.+|+++++.+++..+.+|++++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~-~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~ii~~   81 (124)
T 1dc7_A            3 RGIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALAS-KTPDVLLSDIRMPGMDGLALLKQIKQRHPMLPVIIM   81 (124)
T ss_dssp             CCCCEEECSSSSHHHHHHHHHTTTTCCCEECCCTTHHHHHSSS-CCCSCEEECSCSSHHHHCSTHHHHHHHCTTSCCCCB
T ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCcEEEEeCCHHHHHHHHhc-CCCCEEEEeeecCCCCHHHHHHHHHhhCCCCCEEEE
Confidence            3479999999999999999999889998899999999999886 579999999999999999999999998889999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++..+......+++.|+++|+.||++.++|..+++++++
T Consensus        82 s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~  120 (124)
T 1dc7_A           82 TAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAIS  120 (124)
T ss_dssp             CCSTTSTTTTSSCTTCCCCCBCSSCCHHHHHHHHHHHHH
T ss_pred             ecCCCHHHHHHHHhcCcceEeeCCCCHHHHHHHHHHHHH
Confidence            998888888888999999999999999999999988764

>3bre_A Probable two-component response regulator; protein-nucleotide complex, signaling protein; HET: C2E; 2.40A {Pseudomonas aeruginosa} PDB: 3i5a_A*

Probab=99.83  E-value=6.2e-20  Score=134.89  Aligned_cols=117  Identities=21%  Similarity=0.286  Sum_probs=106.2

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHH-hcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh--CCCCc
Q 045936           25 RPYFALVVDDDPMIRRIHSMILK-SVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM--KVESK  101 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~-~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~--~~~~~  101 (145)
                      ...+|||+||++..+..+...|. ..||.+..+.++.+++..+.. ..||+||+|+.||+++|+++++.+++.  .+.+|
T Consensus        17 ~~~~ilivdD~~~~~~~l~~~l~~~~~~~v~~~~~~~~al~~~~~-~~~dlvl~D~~mp~~~G~~~~~~l~~~~~~~~~~   95 (358)
T 3bre_A           17 GAVMVLLVDDQAMIGEAVRRSLASEAGIDFHFCSDPQQAVAVANQ-IKPTVILQDLVMPGVDGLTLLAAYRGNPATRDIP   95 (358)
T ss_dssp             -CEEEEEECSCTTHHHHHHTTSSSCTTEEEEEECCHHHHHHHHHH-HCCSEEEEESBCSSSBHHHHHHHHTTSTTTTTSC
T ss_pred             cCceEEEEECCHHHHHHHHHHHHhccCcEEEEeCCHHHHHHHHHh-CCCCEEEEeCCCCCCCHHHHHHHHhcCcccCCCc
Confidence            34679999999999999999996 458999899999999999987 579999999999999999999999985  46799


Q ss_pred             EEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936          102 IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      ||++|+..+......++..|+++|+.||++.++|..+++..
T Consensus        96 ii~~s~~~~~~~~~~a~~~Ga~~~l~Kp~~~~~l~~~v~~~  136 (358)
T 3bre_A           96 IIVLSTKEEPTVKSAAFAAGANDYLVKLPDAIELVARIRYH  136 (358)
T ss_dssp             EEEEESSCCHHHHHHHHHTTCSEEEESCCCHHHHHHHHHHH
T ss_pred             EEEEeCCCCHHHHHHHHhcChheEeeccCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988765

>3sy8_A ROCR; TIM barrel phosphodiesterase-A, transcription regulator; HET: EPE; 2.50A {Pseudomonas aeruginosa}

Probab=99.83  E-value=4.6e-20  Score=137.98  Aligned_cols=118  Identities=21%  Similarity=0.275  Sum_probs=104.1

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHh-cCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKS-VGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~-~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      .++|||+||++..+..+...|+. .|+.+..+.+++++++.+.....||+||+|++||+++|+++++.+++..+..+|++
T Consensus         3 ~~~ILivDD~~~~~~~l~~~L~~~~~~~v~~a~~g~eal~~l~~~~~~DlvllDi~mP~~dG~ell~~l~~~~~~~~ii~   82 (400)
T 3sy8_A            3 DLNVLVLEDEPFQRLVAVTALKKVVPGSILEAADGKEAVAILESCGHVDIAICDLQMSGMDGLAFLRHASLSGKVHSVIL   82 (400)
T ss_dssp             CEEEEEECSSHHHHHHHHHHHHHHCSEEEEEESSHHHHHHHHHHHSCEEEEEECSSCSSSCHHHHHHHHHHHTCEEEEEE
T ss_pred             CceEEEEcCCHHHHHHHHHHHHhcCCcEEEEecCHHHHHHHHhhCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCCceEEE
Confidence            46899999999999999999987 57888899999999999876226999999999999999999999999887777777


Q ss_pred             EecCCCh-----HHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          105 VTSRNSE-----TEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       105 lt~~~~~-----~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +|+..+.     .....++..|+++|+.||++.++|..++++++
T Consensus        83 ~s~~~~~~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~i~~~~  126 (400)
T 3sy8_A           83 SSEVDPILRQATISMIECLGLNFLGDLGKPFSLERITALLTRYN  126 (400)
T ss_dssp             SCCCCGGGHHHHHHHHHTTTCEEEEECCSSCCHHHHHHHHHHHH
T ss_pred             EcCchHHHHHHHHHHHHHcCCeeccCcCCCcCHHHHHHHHHHHH
Confidence            7777665     45667889999999999999999999998875

>1qo0_D AMIR; binding protein, gene regulator, receptor; 2.25A {Pseudomonas aeruginosa} SCOP: c.23.1.3

Probab=99.82  E-value=5.9e-20  Score=124.63  Aligned_cols=113  Identities=16%  Similarity=0.178  Sum_probs=100.5

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      .+.+|+|+||++..+..+...|...||.+..+.++.+++    . ..||+||+|+.+|+++|. +++.++...+.+|+|+
T Consensus        11 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al----~-~~~dlvl~D~~mp~~~g~-l~~~~~~~~~~~~ii~   84 (196)
T 1qo0_D           11 RELQVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAF----D-VPVDVVFTSIFQNRHHDE-IAALLAAGTPRTTLVA   84 (196)
T ss_dssp             GGCEEEEESCTTHHHHHHHHHHHHHTCEEEEECSCCSSC----S-SCCSEEEEECCSSTHHHH-HHHHHHHSCTTCEEEE
T ss_pred             cCCeEEEEcCChhHHHHHHHHHHHcCCeEEEecCchhhC----C-CCCCEEEEeCCCCccchH-HHHHHhccCCCCCEEE
Confidence            356899999999999999999999999988777766654    3 469999999999999998 8888887658899999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +|+..+.+....+++.|+++|+.||++.++|..+++.++
T Consensus        85 lt~~~~~~~~~~a~~~ga~~~l~KP~~~~~L~~~l~~~~  123 (196)
T 1qo0_D           85 LVEYESPAVLSQIIELECHGVITQPLDAHRVLPVLVSAR  123 (196)
T ss_dssp             EECCCSHHHHHHHHHHTCSEEEESSCCGGGHHHHHHHHH
T ss_pred             EEcCCChHHHHHHHHcCCCeeEecCcCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999887664

>1a2o_A CHEB methylesterase; bacterial chemotaxis, adaptation, serine hydrolase; 2.40A {Salmonella typhimurium} SCOP: c.23.1.1 c.40.1.1

Probab=99.80  E-value=3.3e-18  Score=125.95  Aligned_cols=116  Identities=24%  Similarity=0.288  Sum_probs=102.7

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhc-CCe-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSV-GFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~-g~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      +++|||+||++..+..+...|+.. ||. +..+.+++++++.+.. ..||++++|+.||+++|+++++.|++..+ +|||
T Consensus         3 ~~rVLIVDD~~~~r~~L~~~L~~~~g~~vv~~a~~~~eAl~~l~~-~~pDlVllDi~mp~~dGlell~~l~~~~p-~pVI   80 (349)
T 1a2o_A            3 KIRVLSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIKK-FNPDVLTLDVEMPRMDGLDFLEKLMRLRP-MPVV   80 (349)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHH-HCCSEEEEECCCSSSCHHHHHHHHHHSSC-CCEE
T ss_pred             CCEEEEEECCHHHHHHHHHHHhcCCCcEEEEEeCCHHHHHHHHhc-cCCCEEEEECCCCCCCHHHHHHHHHhcCC-CcEE
Confidence            468999999999999999999986 888 5589999999999987 57999999999999999999999999877 9999


Q ss_pred             EEecCCCh--HHHHHHHHhcccEEeeCCCCH---------HHHHHHHHHHh
Q 045936          104 GVTSRNSE--TEREVFMQAGLDLCYTKPLTM---------AKIVPLLEELQ  143 (145)
Q Consensus       104 ~lt~~~~~--~~~~~~~~~g~~~~l~kP~~~---------~~l~~~l~~~~  143 (145)
                      ++|+..+.  +....+++.|+++|+.||++.         ++|...++.+.
T Consensus        81 vlS~~~~~~~~~~~~al~~Ga~d~l~KP~~~~~~~l~~~~~~L~~~I~~~~  131 (349)
T 1a2o_A           81 MVSSLTGKGSEVTLRALELGAIDFVTKPQLGIREGMLAYSEMIAEKVRTAA  131 (349)
T ss_dssp             EEECCTHHHHHHHHHHHHHTCCEEEECSSSSCSSCHHHHHHHHHHHHHHHH
T ss_pred             EEECCCcccHHHHHHHHhCCceEEEECCCCccchhHHHHHHHHHHHHHHHH
Confidence            99988765  347789999999999999984         77888877664

>2vyc_A Biodegradative arginine decarboxylase; pyridoxal phosphate, PLP-dependent E lyase, acid resistance; HET: LLP; 2.4A {Escherichia coli}

Probab=99.78  E-value=9.3e-19  Score=139.85  Aligned_cols=118  Identities=8%  Similarity=-0.021  Sum_probs=106.9

Q ss_pred             cEEEEEeCCH-HH-------HHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCC----CCHHHHHHHHH
Q 045936           27 YFALVVDDDP-MI-------RRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPV----MDGIEATKAMR   94 (145)
Q Consensus        27 ~~vlii~~~~-~~-------~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~----~~g~~~~~~l~   94 (145)
                      |+|||+||++ ..       +..+...|+..||.|..+.++++++..+.....+|+||+|++||+    ++|+++++.||
T Consensus         1 m~ILiVdDd~~~~~~~~~~~~~~L~~~L~~~g~~v~~a~~g~~al~~~~~~~~~d~vilDi~lp~~~~~~~G~~ll~~iR   80 (755)
T 2vyc_A            1 MKVLIVESEFLHQDTWVGNAVERLADALSQQNVTVIKSTSFDDGFAILSSNEAIDCLMFSYQMEHPDEHQNVRQLIGKLH   80 (755)
T ss_dssp             CEEEEECCTTSTTSHHHHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHTTTCCCSEEEEECCCCSHHHHHHHHHHHHHHH
T ss_pred             CeEEEEeCCccccccccHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHhcCCCCcEEEEeCCCCcccccccHHHHHHHHH
Confidence            4899999999 88       999999999999999999999999999987334999999999999    99999999999


Q ss_pred             hhCCCCcEEEEecCCC-hHHHHHHHHhcccEEeeCCCCHHH-HHHHHHHHhh
Q 045936           95 AMKVESKIVGVTSRNS-ETEREVFMQAGLDLCYTKPLTMAK-IVPLLEELQK  144 (145)
Q Consensus        95 ~~~~~~~ii~lt~~~~-~~~~~~~~~~g~~~~l~kP~~~~~-l~~~l~~~~~  144 (145)
                      +..+.+||+++|+... .+.....+..|+++|+.||++..+ +.++|+..++
T Consensus        81 ~~~~~iPIi~lTa~~~~~~d~~~~l~~gaddyi~kpf~~~efl~~ri~a~~r  132 (755)
T 2vyc_A           81 ERQQNVPVFLLGDREKALAAMDRDLLELVDEFAWILEDTADFIAGRAVAAMT  132 (755)
T ss_dssp             HHSTTCCEEEEECHHHHHHTCSHHHHHHCSEEEETTTSCHHHHHHHHHHHHH
T ss_pred             HhCCCCCEEEEecCCcchhhccHhHhhcCCceEeCCCCCHHHHHHHHHHHHH
Confidence            9988999999999876 666777899999999999999999 8888887664

>3luf_A Two-component system response regulator/ggdef domain protein; structural genomics, ASA_2441, PSI-2, protein structure initiative; HET: MSE; 1.76A {Aeromonas salmonicida} PDB: 3mf4_A*

Probab=99.74  E-value=1.2e-17  Score=118.24  Aligned_cols=102  Identities=22%  Similarity=0.297  Sum_probs=86.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHh-cCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKS-VGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~-~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      .+|||+||++..+..+...|.. .|+.+..+ ++.+++..+.. ..||+||+|++||+++|+++++.+++.  .+|||++
T Consensus         5 ~~ILiVdD~~~~~~~l~~~L~~~~~~~v~~~-~~~~~~~~~~~-~~~dlvllD~~mP~~~G~~~~~~lr~~--~~pvi~l   80 (259)
T 3luf_A            5 QKILIVEDSMTIRRMLIQAIAQQTGLEIDAF-DTLEGARHCQG-DEYVVALVDLTLPDAPSGEAVKVLLER--GLPVVIL   80 (259)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHHHHCCEEEEE-SSTGGGTTCCT-TTEEEEEEESCBTTBTTSHHHHHHHHT--TCCEEEE
T ss_pred             CeEEEEECCHHHHHHHHHHHHhcCCeEEEEe-ChHHHHHHhhc-CCCcEEEEeCCCCCCCHHHHHHHHHhC--CCCEEEE
Confidence            5899999999999999999965 47777654 44455555554 579999999999999999999999875  5899999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCH
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTM  132 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~  132 (145)
                      |+..+.+....+++.||++|+.||...
T Consensus        81 t~~~~~~~~~~a~~~Ga~dyl~Kp~~~  107 (259)
T 3luf_A           81 TADISEDKREAWLEAGVLDYVMKDSRH  107 (259)
T ss_dssp             ECC-CHHHHHHHHHTTCCEEEECSSHH
T ss_pred             EccCCHHHHHHHHHCCCcEEEeCCchh
Confidence            999999999999999999999999654

>3cwo_X Beta/alpha-barrel protein based on 1THF and 1TMY; XRAY, CHEY, HISF, half barrel, de novo protein; 3.10A {Thermotoga maritima} PDB: 2lle_A

Probab=99.33  E-value=1.7e-12  Score=89.71  Aligned_cols=92  Identities=24%  Similarity=0.365  Sum_probs=78.1

Q ss_pred             CeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEeeCC-
Q 045936           51 FKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKP-  129 (145)
Q Consensus        51 ~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP-  129 (145)
                      +.|..+.++.++++.+.. ..||++|+|+.||+.+|+++++.+++..+..++++++.....+....+++.|+++|+.|| 
T Consensus         6 ~~v~~~~~~~~a~~~~~~-~~~dlvl~D~~~p~~~g~~~~~~l~~~~~~~~i~vi~~~~~~~~~~~~~~~Ga~~~l~kp~   84 (237)
T 3cwo_X            6 LIVDDATNGREAVEKYKE-LKPDIVTMDITMPEMNGIDAIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKAGAKDFIVNTA   84 (237)
T ss_dssp             EEEECCCSSSTTHHHHHH-HCCSCEEEECCSTTSSHHHHHHHHHHHSSSCCEEEECCSSTHHHHHHHHHTTCCEEEESHH
T ss_pred             EEEEECCCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHHhCCCCCEEEEECCCCHHHHHHHHHCCHHheEeCCc
Confidence            445678889999998887 569999999999999999999999988777777777776677888899999999999999 


Q ss_pred             -CCHHHHHHHHHHHh
Q 045936          130 -LTMAKIVPLLEELQ  143 (145)
Q Consensus       130 -~~~~~l~~~l~~~~  143 (145)
                       ++..++...+.+.+
T Consensus        85 ~~~~~~l~~~i~~~~   99 (237)
T 3cwo_X           85 AVENPSLITQIAQTF   99 (237)
T ss_dssp             HHHCTHHHHHHHHHH
T ss_pred             ccChHHHHHHHHHHh
Confidence             77778887776654

>1w25_A Stalked-cell differentiation controlling protein; two-component system, ggdef domain, cyclic dinucleotide, cyclic-digmp; HET: C2E; 2.70A {Caulobacter vibrioides} SCOP: c.23.1.1 c.23.1.1 d.58.29.2 PDB: 2v0n_A* 2wb4_A*

Probab=99.18  E-value=2.8e-09  Score=80.60  Aligned_cols=115  Identities=12%  Similarity=0.167  Sum_probs=95.5

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC--CCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK--VESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~--~~~~ii  103 (145)
                      ..++++++++......+...+.. .+.+....+.+++.. ... ..||++++|..||.++|+++++.++...  ...|++
T Consensus       152 ~~~ilivdd~~~~~~~i~~~L~~-~~~~~~~~~~~~~~~-~~~-~~~dlil~D~~mp~~dG~~~~~~ir~~~~~~~~pii  228 (459)
T 1w25_A          152 GGRVLIVDDNERQAQRVAAELGV-EHRPVIESDPEKAKI-SAG-GPVDLVIVNAAAKNFDGLRFTAALRSEERTRQLPVL  228 (459)
T ss_dssp             SCEEEEECSCHHHHHHHHHHHTT-TSEEEEECCHHHHHH-HHH-SSCSEEEEETTCSSSCHHHHHHHHHTSGGGTTCCEE
T ss_pred             CCeEEEECCchhhHHHHHHHHhc-ccceeeccCHHHHhh-hcc-CCCCEEEEecCCCCCcHHHHHHHHHhCccccCCcEE
Confidence            45899999999888888777754 355667778887753 344 4699999999999999999999998753  468999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +++...+......++..|+++|+.||+..+++...+....
T Consensus       229 ~lt~~~~~~~~~~~l~~Ga~d~~~kp~~~~~l~~~v~~~~  268 (459)
T 1w25_A          229 AMVDPDDRGRMVKALEIGVNDILSRPIDPQELSARVKTQI  268 (459)
T ss_dssp             EEECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHH
T ss_pred             EEcCCCchHHHHHHHhccccccccCCCCHHHHHHHHHHHH
Confidence            9999999888889999999999999999999988776543

>3n75_A LDC, lysine decarboxylase, inducible; pyridoxal-5'-phosphate dependent decarboxylase, acid stress stringent response; HET: LLP G4P P6G; 2.00A {Escherichia coli} PDB: 3q16_A*

Probab=98.21  E-value=3.8e-06  Score=67.03  Aligned_cols=99  Identities=12%  Similarity=0.129  Sum_probs=75.3

Q ss_pred             HHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHH
Q 045936           39 RRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFM  118 (145)
Q Consensus        39 ~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~  118 (145)
                      ...|...|+..||.|..+.+.++++..+++...+++|++|++++   +.++++.|++..+.+||++++............
T Consensus        19 i~~L~~~Le~~g~~V~~a~s~~Da~~~i~~~~~i~avIld~d~~---~~~ll~~Ir~~~~~iPVFl~~~~~~~~~~~~~~   95 (715)
T 3n75_A           19 IRELHRALERLNFQIVYPNDRDDLLKLIENNARLCGVIFDWDKY---NLELCEEISKMNENLPLYAFANTYSTLDVSLND   95 (715)
T ss_dssp             HHHHHHHHHHTTCEEECCSSHHHHHHHHHHCTTEEEEEEEHHHH---HHHHHHHHHHHCTTCEEEEECCTTCCCCGGGTT
T ss_pred             HHHHHHHHHHCCcEEEEeCCHHHHHHHHHhCCCceEEEEecccc---HHHHHHHHHHhCCCCCEEEEecCCcccccchhh
Confidence            35566888889999999999999999998855689999999875   688999999999999999998875433222112


Q ss_pred             HhcccEEeeCCCCH-HHHHHHHH
Q 045936          119 QAGLDLCYTKPLTM-AKIVPLLE  140 (145)
Q Consensus       119 ~~g~~~~l~kP~~~-~~l~~~l~  140 (145)
                      ..++++|+.+..+. +.+...|.
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~  118 (715)
T 3n75_A           96 LRLQISFFEYALGAAEDIANKIK  118 (715)
T ss_dssp             SCCEEEEECCCTTCHHHHHHHHH
T ss_pred             hhccCeEEEeCCCCHHHHHHHHH
Confidence            35788888876644 44444443

>3q7r_A Transcriptional regulatory protein; CHXR, receiver domain, transcription factor, OMPR, chlamydia transcription; 1.60A {Chlamydia trachomatis} PDB: 3q7s_A* 3q7t_A

Probab=98.21  E-value=3.3e-05  Score=46.06  Aligned_cols=108  Identities=10%  Similarity=0.147  Sum_probs=81.2

Q ss_pred             CCCCCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHh--hCCC
Q 045936           22 SKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRA--MKVE   99 (145)
Q Consensus        22 ~~~~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~--~~~~   99 (145)
                      ..+++..||++..+-...-.++.++....|+++....       +......|+|+|++.+-..+       +.+  ..+.
T Consensus         8 ~~~~~~~iL~VtEd~~ls~QlKel~~~~eY~~~is~~-------~~~e~~AdlIfCEYlLLPe~-------ifS~k~~~~   73 (121)
T 3q7r_A            8 RTAGPKHVLLVSEHWDLFFQTKELLNPEEYRCTIGQQ-------YKQELSADLVVCEYSLLPRE-------IRSPKSLEG   73 (121)
T ss_dssp             --CCCEEEEEECSCHHHHHHHHHHSCTTTEEEEEESS-------CCCCTTEEEEEEEGGGSCTT-------CCCCTTCCS
T ss_pred             ccCCCcEEEEEecCchhhHHHHHhcCCcceeEEeccc-------cCCcccceeEEEeeecChHH-------hcCCCCCCc
Confidence            3445678999999999999999998767788876542       12224689999998664322       111  1234


Q ss_pred             CcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          100 SKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       100 ~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      .-++++-+.-+.+.....+..|+. |+.+|+++.-+-++|+..++
T Consensus        74 ~dliVLfD~F~EEa~v~vLd~Ga~-yLlrPIT~kvldAvIraFLr  117 (121)
T 3q7r_A           74 SFVLVLLDFFDEETSVDLLDRGFW-YLIRPITPRILKSAISLFLS  117 (121)
T ss_dssp             CEEEEEESSCCHHHHHHHHHTTCE-EEESCCCHHHHHHHHHHHHH
T ss_pred             ccEEEEehhhchHHHHHHHhCCce-eEeccCcHHHHHHHHHHHHh
Confidence            457788888899999999999999 99999999999999998875

>2ayx_A Sensor kinase protein RCSC; two independent structural domains, transferase; NMR {Escherichia coli} SCOP: c.23.1.1 c.23.1.6 PDB: 2ayz_A 2ayy_A

Probab=98.08  E-value=4.2e-05  Score=53.42  Aligned_cols=98  Identities=9%  Similarity=0.015  Sum_probs=69.9

Q ss_pred             CCCCCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCc
Q 045936           22 SKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESK  101 (145)
Q Consensus        22 ~~~~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~  101 (145)
                      +...+.+||+++|++..+..+..+|..+|+.+..+.+       .. ...+|++++|++++...+            ...
T Consensus         7 ~~l~~~~vlvv~d~~~~~~~l~~~L~~~g~~v~~~~~-------~~-~~~~~~ii~d~~~~~~~~------------~~~   66 (254)
T 2ayx_A            7 EGLSGKRCWLAVRNASLCQFLETSLQRSGIVVTTYEG-------QE-PTPEDVLITDEVVSKKWQ------------GRA   66 (254)
T ss_dssp             CTTTTEEEEEECCCHHHHHHHHHHHTTTTEEEEECSS-------CC-CCTTCEEEEESSCSCCCC------------SSE
T ss_pred             cccCCCEEEEEcCCHHHHHHHHHHHHHCCCEEEEecC-------CC-CCcCcEEEEcCCCccccc------------cce
Confidence            4456789999999999999999999999999887764       12 256999999999876532            122


Q ss_pred             EEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          102 IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      ++.++.......    ...+...++.+|+...++...+.++.
T Consensus        67 ~i~~~~~~~~~~----~~~~~~~~~~~~~~~~~l~~~l~~~~  104 (254)
T 2ayx_A           67 VVTFCRRHIGIP----LEKAPGEWVHSVAAPHELPALLARIY  104 (254)
T ss_dssp             EEEECSSCCCSC----CTTSTTEEEECSSCCSHHHHHHHHHH
T ss_pred             EEEEecccCCCc----ccccCCceeccccchHHHHHHHHHHh
Confidence            455554332110    12344578899999988888877654

>2yxb_A Coenzyme B12-dependent mutase; alpha/beta, structural genomics, NPPSFA, national project on structural and functional analyses; 1.80A {Aeropyrum pernix}

Probab=97.98  E-value=0.00078  Score=44.02  Aligned_cols=116  Identities=12%  Similarity=0.156  Sum_probs=80.3

Q ss_pred             CcEEEEE----eCCHHHHHHHHHHHHhcCCeEEE---ecCHHHHHHHHhcCCCccEEEEeCCCCCC--CHHHHHHHHHhh
Q 045936           26 PYFALVV----DDDPMIRRIHSMILKSVGFKVEV---AENGKEAVDLFRTGAKFHIVFIDMEMPVM--DGIEATKAMRAM   96 (145)
Q Consensus        26 ~~~vlii----~~~~~~~~~l~~~l~~~g~~v~~---~~~~~~~l~~l~~~~~~dlil~d~~~~~~--~g~~~~~~l~~~   96 (145)
                      ..+|++.    |.+..-...+...|+..||+|..   ..+.++.++.+.. ..+|+|.+...+...  ...++++.|++.
T Consensus        18 ~~~vlla~~~gd~HdiG~~~va~~l~~~G~eVi~lG~~~p~e~lv~aa~~-~~~diV~lS~~~~~~~~~~~~~i~~L~~~   96 (161)
T 2yxb_A           18 RYKVLVAKMGLDGHDRGAKVVARALRDAGFEVVYTGLRQTPEQVAMAAVQ-EDVDVIGVSILNGAHLHLMKRLMAKLREL   96 (161)
T ss_dssp             SCEEEEEEESSSSCCHHHHHHHHHHHHTTCEEECCCSBCCHHHHHHHHHH-TTCSEEEEEESSSCHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEeCCCCccHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHh-cCCCEEEEEeechhhHHHHHHHHHHHHhc
Confidence            3467777    67777778889999999999873   4578888888887 579999988766532  244677888886


Q ss_pred             CC-CCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936           97 KV-ESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus        97 ~~-~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      .+ +++|+ +.+.........+...|++.++..--+..+....+++.+
T Consensus        97 g~~~i~v~-vGG~~~~~~~~~l~~~G~d~v~~~~~~~~~~~~~~~~~~  143 (161)
T 2yxb_A           97 GADDIPVV-LGGTIPIPDLEPLRSLGIREIFLPGTSLGEIIEKVRKLA  143 (161)
T ss_dssp             TCTTSCEE-EEECCCHHHHHHHHHTTCCEEECTTCCHHHHHHHHHHHH
T ss_pred             CCCCCEEE-EeCCCchhcHHHHHHCCCcEEECCCCCHHHHHHHHHHHH
Confidence            54 56655 445544445555778999986654445556666665543

>1ccw_A Protein (glutamate mutase); coenzyme B12, radical reaction, TIM-barrel rossman-fold, isomerase; HET: CNC TAR; 1.60A {Clostridium cochlearium} SCOP: c.23.6.1 PDB: 1cb7_A* 1b1a_A 1i9c_A* 1be1_A 1fmf_A 1id8_A*

Probab=97.33  E-value=0.0073  Score=38.24  Aligned_cols=109  Identities=10%  Similarity=0.002  Sum_probs=74.6

Q ss_pred             CCHHHHHHHHHHHHhcCCeEE---EecCHHHHHHHHhcCCCccEEEEeCCCCCCC--HHHHHHHHHhhCC-CCcEEEEec
Q 045936           34 DDPMIRRIHSMILKSVGFKVE---VAENGKEAVDLFRTGAKFHIVFIDMEMPVMD--GIEATKAMRAMKV-ESKIVGVTS  107 (145)
Q Consensus        34 ~~~~~~~~l~~~l~~~g~~v~---~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~--g~~~~~~l~~~~~-~~~ii~lt~  107 (145)
                      .+..-...+...|+..||+|.   ...+.++.++.+.+ ..+|+|.+...+....  ..++++.+++... ++++++=..
T Consensus        15 ~HdiG~~~v~~~l~~~G~~Vi~lG~~~p~e~~v~~a~~-~~~d~v~lS~~~~~~~~~~~~~i~~l~~~g~~~i~v~vGG~   93 (137)
T 1ccw_A           15 CHAVGNKILDHAFTNAGFNVVNIGVLSPQELFIKAAIE-TKADAILVSSLYGQGEIDCKGLRQKCDEAGLEGILLYVGGN   93 (137)
T ss_dssp             CCCHHHHHHHHHHHHTTCEEEEEEEEECHHHHHHHHHH-HTCSEEEEEECSSTHHHHHTTHHHHHHHTTCTTCEEEEEES
T ss_pred             hhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHh-cCCCEEEEEecCcCcHHHHHHHHHHHHhcCCCCCEEEEECC
Confidence            344455667788899999977   46688999998887 5699999887765432  3357788887654 566544332


Q ss_pred             C----CChH-HHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          108 R----NSET-EREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       108 ~----~~~~-~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      .    .+.. ....+.+.|++.|+..--+..++...+...+
T Consensus        94 ~~~~~~~~~~~~~~~~~~G~d~~~~~g~~~~~~~~~l~~~~  134 (137)
T 1ccw_A           94 IVVGKQHWPDVEKRFKDMGYDRVYAPGTPPEVGIADLKKDL  134 (137)
T ss_dssp             CSSSSCCHHHHHHHHHHTTCSEECCTTCCHHHHHHHHHHHH
T ss_pred             CcCchHhhhhhHHHHHHCCCCEEECCCCCHHHHHHHHHHHh
Confidence            2    1111 2455789999999977777777777776543

>3cwo_X Beta/alpha-barrel protein based on 1THF and 1TMY; XRAY, CHEY, HISF, half barrel, de novo protein; 3.10A {Thermotoga maritima} PDB: 2lle_A

Probab=96.85  E-value=0.0071  Score=40.93  Aligned_cols=83  Identities=12%  Similarity=0.103  Sum_probs=59.8

Q ss_pred             CHHHHHHHHhcCCCccEEEEeC-CCCCCCHH--HHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe------eC
Q 045936           58 NGKEAVDLFRTGAKFHIVFIDM-EMPVMDGI--EATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY------TK  128 (145)
Q Consensus        58 ~~~~~l~~l~~~~~~dlil~d~-~~~~~~g~--~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l------~k  128 (145)
                      +..+.+..+......++++.+. ..+.++|+  +.++.++.. .+.|++.+++...++....++..|+++++      .+
T Consensus       131 ~~~~~i~~~~~~~~~~vli~~~~~~g~~~g~~~~~i~~~~~~-~~~Pvia~~g~~~~~~~~~~~~~G~~~~~vg~a~~~~  209 (237)
T 3cwo_X          131 LLRDWVVEVEKRGAGEILLTSIDRDGTKSGYDTEMIRFVRPL-TTLPIIASGGAGKMEHFLEAFLAGADAALAASVFHFR  209 (237)
T ss_dssp             EHHHHHHHHHHHTCSEEEEEETTTTTCCSCCCHHHHHHHGGG-CCSCEEEESCCCSHHHHHHHHHHTCSEEEESHHHHTT
T ss_pred             CHHHHHHHHhhcCCCeEEEEecCCCCccccccHHHHHHHHHh-cCCCEEecCCCCCHHHHHHHHHcCcHHHhhhHHHHcC
Confidence            4556555555423456888886 44545554  455555543 37899999999999999999999999984      78


Q ss_pred             CCCHHHHHHHHHH
Q 045936          129 PLTMAKIVPLLEE  141 (145)
Q Consensus       129 P~~~~~l~~~l~~  141 (145)
                      |++..++...+++
T Consensus       210 ~~~~~~~~~~l~~  222 (237)
T 3cwo_X          210 EIDVRELKEYLKK  222 (237)
T ss_dssp             SSCHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHH
Confidence            9999998887653

>2i2x_B MTAC, methyltransferase 1; TIM barrel and helix bundle (MTAB), rossman fold and helix B (MTAC); HET: B13; 2.50A {Methanosarcina barkeri}

Probab=96.74  E-value=0.077  Score=37.10  Aligned_cols=110  Identities=11%  Similarity=0.035  Sum_probs=73.7

Q ss_pred             CcEEEEE----eCCHHHHHHHHHHHHhcCCeEEE---ecCHHHHHHHHhcCCCccEEEEeCCCCCC-C-HHHHHHHHHhh
Q 045936           26 PYFALVV----DDDPMIRRIHSMILKSVGFKVEV---AENGKEAVDLFRTGAKFHIVFIDMEMPVM-D-GIEATKAMRAM   96 (145)
Q Consensus        26 ~~~vlii----~~~~~~~~~l~~~l~~~g~~v~~---~~~~~~~l~~l~~~~~~dlil~d~~~~~~-~-g~~~~~~l~~~   96 (145)
                      ..+|++.    |-+..-...+..+|+..||.|..   --..++.+..+.. ..||+|.+...+... . ..++++.+++.
T Consensus       123 ~~~vlla~~~gd~HdiG~~iva~~L~~~G~~Vi~LG~~vp~e~l~~~~~~-~~~d~V~lS~l~~~~~~~~~~~i~~l~~~  201 (258)
T 2i2x_B          123 KGTVVCHVAEGDVHDIGKNIVTALLRANGYNVVDLGRDVPAEEVLAAVQK-EKPIMLTGTALMTTTMYAFKEVNDMLLEN  201 (258)
T ss_dssp             SCEEEEEECTTCCCCHHHHHHHHHHHHTTCEEEEEEEECCSHHHHHHHHH-HCCSEEEEECCCTTTTTHHHHHHHHHHTT
T ss_pred             CCeEEEEeCCCCccHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHH-cCCCEEEEEeeccCCHHHHHHHHHHHHhc
Confidence            3467766    45566677888899999999752   3467777787776 569999998876543 3 44688899888


Q ss_pred             CCCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936           97 KVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus        97 ~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      .+.++|++-......+.   +...|++.|....   .+....++++
T Consensus       202 ~~~~~v~vGG~~~~~~~---~~~igad~~~~da---~~av~~~~~l  241 (258)
T 2i2x_B          202 GIKIPFACGGGAVNQDF---VSQFALGVYGEEA---ADAPKIADAI  241 (258)
T ss_dssp             TCCCCEEEESTTCCHHH---HHTSTTEEECSST---THHHHHHHHH
T ss_pred             CCCCcEEEECccCCHHH---HHHcCCeEEECCH---HHHHHHHHHH
Confidence            77777776555555443   2367887776433   3444444433

>3ezx_A MMCP 1, monomethylamine corrinoid protein 1; N terminal all helical bundle C terminal rossmann fold, cobalt, metal-binding; HET: HCB; 2.56A {Methanosarcina barkeri}

Probab=96.50  E-value=0.023  Score=38.75  Aligned_cols=97  Identities=16%  Similarity=0.108  Sum_probs=69.0

Q ss_pred             cEEEEE----eCCHHHHHHHHHHHHhcCCeEEEe---cCHHHHHHHHhcCCCccEEEE--eCCCCC-CC-HHHHHHHHHh
Q 045936           27 YFALVV----DDDPMIRRIHSMILKSVGFKVEVA---ENGKEAVDLFRTGAKFHIVFI--DMEMPV-MD-GIEATKAMRA   95 (145)
Q Consensus        27 ~~vlii----~~~~~~~~~l~~~l~~~g~~v~~~---~~~~~~l~~l~~~~~~dlil~--d~~~~~-~~-g~~~~~~l~~   95 (145)
                      -+|++.    |-+..-...+..+|+..||+|...   -..++.++.+.. ..||+|.+  ...+.. .. ..++++.+++
T Consensus        93 ~~vll~~v~gd~HdiG~~iv~~~l~~~G~~Vi~LG~~vp~e~iv~~~~~-~~~d~v~l~~S~l~~~~~~~~~~~i~~l~~  171 (215)
T 3ezx_A           93 GLAITFVAEGDIHDIGHRLVTTMLGANGFQIVDLGVDVLNENVVEEAAK-HKGEKVLLVGSALMTTSMLGQKDLMDRLNE  171 (215)
T ss_dssp             CEEEEEECTTCCCCHHHHHHHHHHHHTSCEEEECCSSCCHHHHHHHHHH-TTTSCEEEEEECSSHHHHTHHHHHHHHHHH
T ss_pred             CeEEEEeCCCChhHHHHHHHHHHHHHCCCeEEEcCCCCCHHHHHHHHHH-cCCCEEEEEchhcccCcHHHHHHHHHHHHH
Confidence            466666    566666777888999999998743   467888888887 57999999  776642 23 4468888888


Q ss_pred             hCC--CCcEEEEecCCChHHHHHHHHhcccEEee
Q 045936           96 MKV--ESKIVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus        96 ~~~--~~~ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      ...  +++|++-.....++.   +...|++.|-.
T Consensus       172 ~~~~~~v~v~vGG~~~~~~~---a~~iGad~~~~  202 (215)
T 3ezx_A          172 EKLRDSVKCMFGGAPVSDKW---IEEIGADATAE  202 (215)
T ss_dssp             TTCGGGSEEEEESSSCCHHH---HHHHTCCBCCS
T ss_pred             cCCCCCCEEEEECCCCCHHH---HHHhCCeEEEC
Confidence            765  677766655555543   44679988864

>1y80_A Predicted cobalamin binding protein; corrinoid, factor IIIM, methyl transferase, structural genomics, PSI, protein structure initiative; HET: B1M; 1.70A {Moorella thermoacetica}

Probab=96.46  E-value=0.062  Score=36.24  Aligned_cols=97  Identities=16%  Similarity=0.034  Sum_probs=67.6

Q ss_pred             cEEEEE----eCCHHHHHHHHHHHHhcCCeEEEe---cCHHHHHHHHhcCCCccEEEEeCCCCCC-C-HHHHHHHHHhhC
Q 045936           27 YFALVV----DDDPMIRRIHSMILKSVGFKVEVA---ENGKEAVDLFRTGAKFHIVFIDMEMPVM-D-GIEATKAMRAMK   97 (145)
Q Consensus        27 ~~vlii----~~~~~~~~~l~~~l~~~g~~v~~~---~~~~~~l~~l~~~~~~dlil~d~~~~~~-~-g~~~~~~l~~~~   97 (145)
                      .+|++.    |-+..-...+...|+..||.+...   -..++.++.+.. ..||+|.+...+... . ..++++.+++..
T Consensus        89 ~~vll~~~~gd~H~iG~~~va~~l~~~G~~v~~LG~~vp~~~l~~~~~~-~~~d~v~lS~~~~~~~~~~~~~i~~l~~~~  167 (210)
T 1y80_A           89 GKIVLGTVKGDLHDIGKNLVAMMLESGGFTVYNLGVDIEPGKFVEAVKK-YQPDIVGMSALLTTTMMNMKSTIDALIAAG  167 (210)
T ss_dssp             CEEEEEEBTTCCCCHHHHHHHHHHHHTTCEEEECCSSBCHHHHHHHHHH-HCCSEEEEECCSGGGTHHHHHHHHHHHHTT
T ss_pred             CEEEEEeCCCcccHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHH-cCCCEEEEeccccccHHHHHHHHHHHHhcC
Confidence            367777    566677788888999999998743   367778888776 569999998866543 2 345778888764


Q ss_pred             --CCCcEEEEecCCChHHHHHHHHhcccEEee
Q 045936           98 --VESKIVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus        98 --~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                        +++||++-....+.+.   +...|++.|..
T Consensus       168 ~~~~~~v~vGG~~~~~~~---~~~~gad~~~~  196 (210)
T 1y80_A          168 LRDRVKVIVGGAPLSQDF---ADEIGADGYAP  196 (210)
T ss_dssp             CGGGCEEEEESTTCCHHH---HHHHTCSEECS
T ss_pred             CCCCCeEEEECCCCCHHH---HHHcCCeEEEC
Confidence              4577766555555433   35679988764

>2xij_A Methylmalonyl-COA mutase, mitochondrial; isomerase, organic aciduria, vitamin B12; HET: B12 5AD BTB; 1.95A {Homo sapiens} PDB: 2xiq_A* 3bic_A

Probab=96.42  E-value=0.077  Score=42.69  Aligned_cols=115  Identities=13%  Similarity=0.105  Sum_probs=76.9

Q ss_pred             EEEEEe----CCHHHHHHHHHHHHhcCCeEEEe---cCHHHHHHHHhcCCCccEEEEeCCCCCC--CHHHHHHHHHhhCC
Q 045936           28 FALVVD----DDPMIRRIHSMILKSVGFKVEVA---ENGKEAVDLFRTGAKFHIVFIDMEMPVM--DGIEATKAMRAMKV   98 (145)
Q Consensus        28 ~vlii~----~~~~~~~~l~~~l~~~g~~v~~~---~~~~~~l~~l~~~~~~dlil~d~~~~~~--~g~~~~~~l~~~~~   98 (145)
                      +|++.-    .+..-...+...|...||+|...   .+.++.++.+.+ ..+|+|.+...+...  ...++++.|++...
T Consensus       606 kVvlatvg~D~HdiG~~iVa~~l~~~GfeVi~lG~~v~~eeiv~aA~e-~~adiVglSsl~~~~~~~~~~vi~~Lr~~G~  684 (762)
T 2xij_A          606 RLLVAKMGQDGHDRGAKVIATGFADLGFDVDIGPLFQTPREVAQQAVD-ADVHAVGVSTLAAGHKTLVPELIKELNSLGR  684 (762)
T ss_dssp             EEEEECCSSCCCCHHHHHHHHHHHHTTCEEEECCTTCCHHHHHHHHHH-TTCSEEEEEECSSCHHHHHHHHHHHHHHTTC
T ss_pred             EEEEEecCcchhhHHHHHHHHHHHhCCeEEeeCCCCCCHHHHHHHHHH-cCCCEEEEeeecHHHHHHHHHHHHHHHhcCC
Confidence            565553    34444566777889999998742   467888888877 569988887665432  24568888888766


Q ss_pred             CCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936           99 ESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus        99 ~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      .-..+++.+.........+.+.|++.|+..--+..+....+.+.+
T Consensus       685 ~dv~VivGG~~P~~d~~~l~~~GaD~~f~pgtd~~e~~~~i~~~l  729 (762)
T 2xij_A          685 PDILVMCGGVIPPQDYEFLFEVGVSNVFGPGTRIPKAAVQVLDDI  729 (762)
T ss_dssp             TTSEEEEEESCCGGGHHHHHHHTCCEEECTTCCHHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCcccHHHHHhCCCCEEeCCCCCHHHHHHHHHHHH
Confidence            323344444233334556789999999986557777776665544

>1req_A Methylmalonyl-COA mutase; isomerase, intramolecular transferase; HET: B12 DCA; 2.00A {Propionibacterium freudenreichii subspshermanii} SCOP: c.1.19.1 c.23.6.1 PDB: 2req_A* 3req_A* 4req_A* 6req_A* 7req_A* 5req_A* 1e1c_A*

Probab=96.41  E-value=0.062  Score=43.00  Aligned_cols=116  Identities=15%  Similarity=0.098  Sum_probs=77.6

Q ss_pred             cEEEEE----eCCHHHHHHHHHHHHhcCCeEEEe---cCHHHHHHHHhcCCCccEEEEeCCCCCC--CHHHHHHHHHhhC
Q 045936           27 YFALVV----DDDPMIRRIHSMILKSVGFKVEVA---ENGKEAVDLFRTGAKFHIVFIDMEMPVM--DGIEATKAMRAMK   97 (145)
Q Consensus        27 ~~vlii----~~~~~~~~~l~~~l~~~g~~v~~~---~~~~~~l~~l~~~~~~dlil~d~~~~~~--~g~~~~~~l~~~~   97 (145)
                      .+|++.    |.+..-...+...|...||+|...   .+.++.++...+ ..+|+|.+...+...  ...++++.|++..
T Consensus       597 ~kVvlatvg~D~HdiG~~iVa~~l~~~GfeVi~lG~~v~~eeiv~aA~e-~~adiVglSsl~~~~~~~~~~vi~~L~~~G  675 (727)
T 1req_A          597 PRILLAKMGQDGHDRGQKVIATAYADLGFDVDVGPLFQTPEETARQAVE-ADVHVVGVSSLAGGHLTLVPALRKELDKLG  675 (727)
T ss_dssp             CEEEEECBTTCCCCHHHHHHHHHHHHHTCEEEECCTTBCHHHHHHHHHH-TTCSEEEEEECSSCHHHHHHHHHHHHHHTT
T ss_pred             CEEEEEeCCcchhHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHHH-cCCCEEEEeeecHhHHHHHHHHHHHHHhcC
Confidence            356655    344445566777889999998743   467888888887 569988887765432  2456888888876


Q ss_pred             CCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936           98 VESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus        98 ~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      ..-..+++.+.........+.+.|++.|+..--+..++...+.+.+
T Consensus       676 ~~~i~VivGG~~p~~d~~~l~~~GaD~~f~~gt~~~e~a~~l~~~l  721 (727)
T 1req_A          676 RPDILITVGGVIPEQDFDELRKDGAVEIYTPGTVIPESAISLVKKL  721 (727)
T ss_dssp             CTTSEEEEEESCCGGGHHHHHHTTEEEEECTTCCHHHHHHHHHHHH
T ss_pred             CCCCEEEEcCCCccccHHHHHhCCCCEEEcCCccHHHHHHHHHHHH
Confidence            6323344554333334556789999999986667777666665544

>3q58_A N-acetylmannosamine-6-phosphate 2-epimerase; TIM beta/alpha barrel, ribulose-phosphate binding barrel, carbohydrate metabolic process; HET: BTB; 1.80A {Salmonella enterica subsp}

Probab=96.40  E-value=0.086  Score=36.26  Aligned_cols=88  Identities=8%  Similarity=0.069  Sum_probs=64.3

Q ss_pred             HHHHHHHHHHHHhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCC------CCCCCHHHHHHHHHhhCCCCcEEEEecC
Q 045936           36 PMIRRIHSMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDME------MPVMDGIEATKAMRAMKVESKIVGVTSR  108 (145)
Q Consensus        36 ~~~~~~l~~~l~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~------~~~~~g~~~~~~l~~~~~~~~ii~lt~~  108 (145)
                      |.....+...+++.|..+. .+++.+++......  .+|.|.+...      .....++++++.+++.  ++|+|.-.+-
T Consensus       115 p~~l~~~i~~~~~~g~~v~~~v~t~eea~~a~~~--Gad~Ig~~~~g~t~~~~~~~~~~~li~~l~~~--~ipvIA~GGI  190 (229)
T 3q58_A          115 PVDIDSLLTRIRLHGLLAMADCSTVNEGISCHQK--GIEFIGTTLSGYTGPITPVEPDLAMVTQLSHA--GCRVIAEGRY  190 (229)
T ss_dssp             SSCHHHHHHHHHHTTCEEEEECSSHHHHHHHHHT--TCSEEECTTTTSSSSCCCSSCCHHHHHHHHTT--TCCEEEESSC
T ss_pred             hHHHHHHHHHHHHCCCEEEEecCCHHHHHHHHhC--CCCEEEecCccCCCCCcCCCCCHHHHHHHHHc--CCCEEEECCC
Confidence            4445555566666786644 78899999887765  3898864321      1234567888888875  7888888888


Q ss_pred             CChHHHHHHHHhcccEEee
Q 045936          109 NSETEREVFMQAGLDLCYT  127 (145)
Q Consensus       109 ~~~~~~~~~~~~g~~~~l~  127 (145)
                      .+++....++..|+++++.
T Consensus       191 ~t~~d~~~~~~~GadgV~V  209 (229)
T 3q58_A          191 NTPALAANAIEHGAWAVTV  209 (229)
T ss_dssp             CSHHHHHHHHHTTCSEEEE
T ss_pred             CCHHHHHHHHHcCCCEEEE
Confidence            8899999999999999863

>3igs_A N-acetylmannosamine-6-phosphate 2-epimerase 2; energy metabolism, sugars, csgid, carbohydrate metabolism, isomerase; HET: MSE 16G; 1.50A {Salmonella enterica subsp} SCOP: c.1.2.0

Probab=96.04  E-value=0.18  Score=34.73  Aligned_cols=88  Identities=11%  Similarity=0.049  Sum_probs=63.8

Q ss_pred             HHHHHHHHHHHHhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCC-C-----CCCCHHHHHHHHHhhCCCCcEEEEecC
Q 045936           36 PMIRRIHSMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDME-M-----PVMDGIEATKAMRAMKVESKIVGVTSR  108 (145)
Q Consensus        36 ~~~~~~l~~~l~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~-~-----~~~~g~~~~~~l~~~~~~~~ii~lt~~  108 (145)
                      |.....+...+++.|..+. .+++.+++.+....  .+|.|.+... .     ....++++++.+++.  ++|++.-.+-
T Consensus       115 p~~l~~~i~~~~~~g~~v~~~v~t~eea~~a~~~--Gad~Ig~~~~g~t~~~~~~~~~~~~i~~l~~~--~ipvIA~GGI  190 (232)
T 3igs_A          115 PVAVEALLARIHHHHLLTMADCSSVDDGLACQRL--GADIIGTTMSGYTTPDTPEEPDLPLVKALHDA--GCRVIAEGRY  190 (232)
T ss_dssp             SSCHHHHHHHHHHTTCEEEEECCSHHHHHHHHHT--TCSEEECTTTTSSSSSCCSSCCHHHHHHHHHT--TCCEEEESCC
T ss_pred             HHHHHHHHHHHHHCCCEEEEeCCCHHHHHHHHhC--CCCEEEEcCccCCCCCCCCCCCHHHHHHHHhc--CCcEEEECCC
Confidence            4455555666666786644 78899999887765  3898864321 1     223467888888875  7888888887


Q ss_pred             CChHHHHHHHHhcccEEee
Q 045936          109 NSETEREVFMQAGLDLCYT  127 (145)
Q Consensus       109 ~~~~~~~~~~~~g~~~~l~  127 (145)
                      .+.+....++..|+++++.
T Consensus       191 ~t~~d~~~~~~~GadgV~V  209 (232)
T 3igs_A          191 NSPALAAEAIRYGAWAVTV  209 (232)
T ss_dssp             CSHHHHHHHHHTTCSEEEE
T ss_pred             CCHHHHHHHHHcCCCEEEE
Confidence            7899999999999999863

>1xrs_B D-lysine 5,6-aminomutase beta subunit; TIM barrel, rossmann domain, PLP, cobalamin, 5'-deoxyad radical, adenosylcobalamin; HET: B12 PLP 5AD; 2.80A {Clostridium sticklandii} SCOP: c.23.6.1 d.230.4.1

Probab=96.00  E-value=0.19  Score=35.34  Aligned_cols=112  Identities=6%  Similarity=0.010  Sum_probs=74.2

Q ss_pred             CcEEEEE----eCCHHHHHHHHHH--------HHhc-CCeEEE---ecCHHHHHHHHhcCCCccEEEEeCCCCCC----C
Q 045936           26 PYFALVV----DDDPMIRRIHSMI--------LKSV-GFKVEV---AENGKEAVDLFRTGAKFHIVFIDMEMPVM----D   85 (145)
Q Consensus        26 ~~~vlii----~~~~~~~~~l~~~--------l~~~-g~~v~~---~~~~~~~l~~l~~~~~~dlil~d~~~~~~----~   85 (145)
                      ..+|++.    |-+..-...+..+        |+.. ||+|..   .-..++.++.+.. ..+|+|.+...+...    .
T Consensus       120 ~~~Vvlatv~gD~HdiG~~iv~~~k~~~~~~~L~~~~G~eVi~LG~~vp~e~iv~aa~e-~~~d~VglS~l~t~~~~~~~  198 (262)
T 1xrs_B          120 KIVVVGASTGTDAHTVGIDAIMNMKGYAGHYGLERYEMIDAYNLGSQVANEDFIKKAVE-LEADVLLVSQTVTQKNVHIQ  198 (262)
T ss_dssp             CEEEEEEEBTTCCCCHHHHHHHSTTCBTTBCCGGGCTTEEEEECCSSBCHHHHHHHHHH-TTCSEEEEECCCCTTSHHHH
T ss_pred             CCEEEEEeCCCCCchHHHHHHhhhhcccchHHHHhcCCcEEEECCCCCCHHHHHHHHHH-cCCCEEEEEeecCCccchHH
Confidence            3456554    4555555566666        8899 999863   3478888888887 579999999887752    2


Q ss_pred             -HHHHHHHHHhhCC--CCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHH
Q 045936           86 -GIEATKAMRAMKV--ESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEE  141 (145)
Q Consensus        86 -g~~~~~~l~~~~~--~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~  141 (145)
                       ..++++.+++...  ++++++=....+.   ..+.+.|++.|..-.....++...+..
T Consensus       199 ~~~~~i~~L~~~g~~~~i~vivGG~~~~~---~~a~~iGad~~~~da~~~~~~a~~l~~  254 (262)
T 1xrs_B          199 NMTHLIELLEAEGLRDRFVLLCGGPRINN---EIAKELGYDAGFGPGRFADDVATFAVK  254 (262)
T ss_dssp             HHHHHHHHHHHTTCGGGSEEEEECTTCCH---HHHHTTTCSEEECTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCCCEEEEECCcCCH---HHHHHcCCeEEECCchHHHHHHHHHHH
Confidence             2346777877643  3555443333333   336688999999877777666665543

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=95.74  E-value=0.32  Score=35.66  Aligned_cols=104  Identities=9%  Similarity=0.077  Sum_probs=72.4

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHHhc---CCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCC
Q 045936           24 NRPYFALVVDDDPMIRRIHSMILKSV---GFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVES  100 (145)
Q Consensus        24 ~~~~~vlii~~~~~~~~~l~~~l~~~---g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~  100 (145)
                      ..+.++.|+|.++.....|..++.+.   .|++..|++.+.+.+..++ ..+|++++|-.+....        ......+
T Consensus        19 ~~~i~l~i~d~d~~Y~~~l~~y~~~~~~~~~~v~~ft~~e~~~~~~~~-~~~dilli~e~~~~~~--------~~~~~~~   89 (373)
T 3fkq_A           19 GMKIKVALLDKDKEYLDRLTGVFNTKYADKLEVYSFTDEKNAIESVKE-YRIDVLIAEEDFNIDK--------SEFKRNC   89 (373)
T ss_dssp             -CCEEEEEECSCHHHHHHHHHHHHHHTTTTEEEEEESCHHHHHHHHHH-HTCSEEEEETTCCCCG--------GGGCSSC
T ss_pred             CceEEEEEEeCCHHHHHHHHHHHhhccCCceEEEEECCHHHHHHHHhc-CCCCEEEEcchhhhhh--------hhhcccC
Confidence            34678999999999999999999643   4889999999999999887 5799999997765431        1122345


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      ++++++.....+.      ..-...+.|--+.+++...+...
T Consensus        90 ~v~~l~~~~~~~~------~~~~~~i~kyq~~~~i~~ei~~~  125 (373)
T 3fkq_A           90 GLAYFTGTPGIEL------IKDEIAICKYQRVDVIFKQILGV  125 (373)
T ss_dssp             EEEEEESCTTCCE------ETTEEEEETTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCc------CCCCceeeccCCHHHHHHHHHHH
Confidence            6666655432210      11123577888888887666443

>3qja_A IGPS, indole-3-glycerol phosphate synthase; structural genomics, T structural genomics consortium, TBSGC, lyase; 1.29A {Mycobacterium tuberculosis} PDB: 3t40_A* 3t44_A* 3t55_A* 3t78_A* 4fb7_A*

Probab=94.86  E-value=0.66  Score=32.68  Aligned_cols=98  Identities=8%  Similarity=0.023  Sum_probs=65.5

Q ss_pred             EEEEEeC--CHHHHHHHHHHHHhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCC-CC-CCHHHHHHHHHhhCC-CCc
Q 045936           28 FALVVDD--DPMIRRIHSMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEM-PV-MDGIEATKAMRAMKV-ESK  101 (145)
Q Consensus        28 ~vlii~~--~~~~~~~l~~~l~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~-~~-~~g~~~~~~l~~~~~-~~~  101 (145)
                      .|+++..  ++.....+....+..|..+. .+++.+++...+..  .+|+|-+.-.- .. ..+++.+..+...-+ +.|
T Consensus       138 ~VlLi~a~l~~~~l~~l~~~a~~lGl~~lvev~t~ee~~~A~~~--Gad~IGv~~r~l~~~~~dl~~~~~l~~~v~~~~p  215 (272)
T 3qja_A          138 MLLLIVAALEQSVLVSMLDRTESLGMTALVEVHTEQEADRALKA--GAKVIGVNARDLMTLDVDRDCFARIAPGLPSSVI  215 (272)
T ss_dssp             EEEEEGGGSCHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHH--TCSEEEEESBCTTTCCBCTTHHHHHGGGSCTTSE
T ss_pred             EEEEecccCCHHHHHHHHHHHHHCCCcEEEEcCCHHHHHHHHHC--CCCEEEECCCcccccccCHHHHHHHHHhCcccCE
Confidence            3555422  33344555666677897744 78999998777665  37888776321 11 123556677766544 678


Q ss_pred             EEEEecCCChHHHHHHHHhcccEEee
Q 045936          102 IVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      ++..++-.+++....+...|+++++.
T Consensus       216 vVaegGI~t~edv~~l~~~GadgvlV  241 (272)
T 3qja_A          216 RIAESGVRGTADLLAYAGAGADAVLV  241 (272)
T ss_dssp             EEEESCCCSHHHHHHHHHTTCSEEEE
T ss_pred             EEEECCCCCHHHHHHHHHcCCCEEEE
Confidence            88877777889999999999999864

>1wv2_A Thiazole moeity, thiazole biosynthesis protein THIG; structural genomics, protein structure initiative, PSI; 2.90A {Pseudomonas aeruginosa} SCOP: c.1.31.1

Probab=94.56  E-value=0.78  Score=32.17  Aligned_cols=95  Identities=9%  Similarity=0.079  Sum_probs=63.2

Q ss_pred             HHHHHHhcCCeEE--EecCHHHHHHHHhcCCCccEEEEeCCCC--C---CCHHHHHHHHHhhCCCCcEEEEecCCChHHH
Q 045936           42 HSMILKSVGFKVE--VAENGKEAVDLFRTGAKFHIVFIDMEMP--V---MDGIEATKAMRAMKVESKIVGVTSRNSETER  114 (145)
Q Consensus        42 l~~~l~~~g~~v~--~~~~~~~~l~~l~~~~~~dlil~d~~~~--~---~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~  114 (145)
                      ....|...||.+.  +..|...+-+....  .+++| +.+..+  .   ....++++.+++ .+++|||+=..-..++..
T Consensus       127 aa~~L~~~Gf~Vlpy~~dd~~~akrl~~~--G~~aV-mPlg~pIGsG~Gi~~~~lI~~I~e-~~~vPVI~eGGI~TPsDA  202 (265)
T 1wv2_A          127 AAEQLVKDGFDVMVYTSDDPIIARQLAEI--GCIAV-MPLAGLIGSGLGICNPYNLRIILE-EAKVPVLVDAGVGTASDA  202 (265)
T ss_dssp             HHHHHHTTTCEEEEEECSCHHHHHHHHHS--CCSEE-EECSSSTTCCCCCSCHHHHHHHHH-HCSSCBEEESCCCSHHHH
T ss_pred             HHHHHHHCCCEEEEEeCCCHHHHHHHHHh--CCCEE-EeCCccCCCCCCcCCHHHHHHHHh-cCCCCEEEeCCCCCHHHH
Confidence            3444556799866  56666666555544  36777 443332  1   224678898888 467898887788899999


Q ss_pred             HHHHHhcccEEe-----eCCCCHHHHHHHHH
Q 045936          115 EVFMQAGLDLCY-----TKPLTMAKIVPLLE  140 (145)
Q Consensus       115 ~~~~~~g~~~~l-----~kP~~~~~l~~~l~  140 (145)
                      ..+++.|+++++     .|.-++..+...+.
T Consensus       203 a~AmeLGAdgVlVgSAI~~a~dP~~ma~af~  233 (265)
T 1wv2_A          203 AIAMELGCEAVLMNTAIAHAKDPVMMAEAMK  233 (265)
T ss_dssp             HHHHHHTCSEEEESHHHHTSSSHHHHHHHHH
T ss_pred             HHHHHcCCCEEEEChHHhCCCCHHHHHHHHH
Confidence            999999999985     44444555544443

>3kp1_A D-ornithine aminomutase E component; 5 aminomutase (OAM), metal binding protein; HET: PLP B12 5AD; 2.01A {Clostridium sticklandii} PDB: 3kow_A* 3koy_A* 3koz_A* 3kp0_A* 3kox_A*

Probab=94.55  E-value=0.29  Score=38.74  Aligned_cols=112  Identities=12%  Similarity=0.076  Sum_probs=73.8

Q ss_pred             CcEEEEE----eCCHHHHHHH----HHHHHhcCCeEEE---ecCHHHHHHHHhcCCCccEEEEeCCCCC----CCH-HHH
Q 045936           26 PYFALVV----DDDPMIRRIH----SMILKSVGFKVEV---AENGKEAVDLFRTGAKFHIVFIDMEMPV----MDG-IEA   89 (145)
Q Consensus        26 ~~~vlii----~~~~~~~~~l----~~~l~~~g~~v~~---~~~~~~~l~~l~~~~~~dlil~d~~~~~----~~g-~~~   89 (145)
                      +.+|++.    |-+..-...+    ...|+..||+|..   .-+.++.++.+.+ ..+|+|.+...+..    ... .++
T Consensus       602 kGKVVIATVgGD~HDIGKklVaNIVa~~LE~aGFEVIDLGvdVPpEeIVeAA~E-edADVVGLSsLLTt~dihL~~Mkev  680 (763)
T 3kp1_A          602 PLKIVAATVGEDEHSVGLREVIDIKHGGIEKYGVEVHYLGTSVPVEKLVDAAIE-LKADAILASTIISHDDIHYKNMKRI  680 (763)
T ss_dssp             CCEEEEEEBTTCCCCHHHHHTTSTTTTCGGGGTCEEEECCSSBCHHHHHHHHHH-TTCSEEEEECCCCGGGHHHHHHHHH
T ss_pred             CCEEEEEeCCCChhhhhhHHHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHHHH-cCCCEEEEeccccCchhhHHHHHHH
Confidence            3467776    3333333222    4678889999873   3478899998887 57999999987776    233 357


Q ss_pred             HHHHHhhCCC--CcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHH
Q 045936           90 TKAMRAMKVE--SKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEE  141 (145)
Q Consensus        90 ~~~l~~~~~~--~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~  141 (145)
                      ++.+++....  ++|++=....+++   -+...|++.|........++...+..
T Consensus       681 IelLrE~GlrDkIkVIVGGa~~tqd---~AkeIGADa~f~DATeAVeVA~~Ll~  731 (763)
T 3kp1_A          681 HELAVEKGIRDKIMIGCGGTQVTPE---VAVKQGVDAGFGRGSKGIHVATFLVK  731 (763)
T ss_dssp             HHHHHHTTCTTTSEEEEECTTCCHH---HHHTTTCSEEECTTCCHHHHHHHHHH
T ss_pred             HHHHHhcCCCCCCEEEEECCCCCHH---HHHHcCCcEEECCcchHHHHHHHHHH
Confidence            7888887654  4444333333433   34589999999877777666665544

>4e38_A Keto-hydroxyglutarate-aldolase/keto-deoxy-phospho aldolase; lyase; 1.64A {Vibrionales bacterium swat-3}

Probab=94.03  E-value=0.52  Score=32.45  Aligned_cols=94  Identities=16%  Similarity=0.169  Sum_probs=61.2

Q ss_pred             HHHHHHhcCC-eEEEecCHHHHHHHHh---cCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHH
Q 045936           42 HSMILKSVGF-KVEVAENGKEAVDLFR---TGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVF  117 (145)
Q Consensus        42 l~~~l~~~g~-~v~~~~~~~~~l~~l~---~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~  117 (145)
                      +.+.+.+.+. .|....+.+++....+   .+ ...++=+.  +...++.+.++.+++..+. .++-..+..+.+....+
T Consensus        27 ~~~~l~~~~vv~Vir~~~~~~a~~~a~al~~g-Gi~~iEvt--~~t~~a~e~I~~l~~~~~~-~~iGaGTVlt~~~a~~A  102 (232)
T 4e38_A           27 INNQLKALKVIPVIAIDNAEDIIPLGKVLAEN-GLPAAEIT--FRSDAAVEAIRLLRQAQPE-MLIGAGTILNGEQALAA  102 (232)
T ss_dssp             HHHHHHHHCEEEEECCSSGGGHHHHHHHHHHT-TCCEEEEE--TTSTTHHHHHHHHHHHCTT-CEEEEECCCSHHHHHHH
T ss_pred             HHHHHHhCCEEEEEEcCCHHHHHHHHHHHHHC-CCCEEEEe--CCCCCHHHHHHHHHHhCCC-CEEeECCcCCHHHHHHH
Confidence            4555666673 4666777777666543   32 35555444  4455789999999998765 34445556678889999


Q ss_pred             HHhcccEEeeCCCCHHHHHHHHH
Q 045936          118 MQAGLDLCYTKPLTMAKIVPLLE  140 (145)
Q Consensus       118 ~~~g~~~~l~kP~~~~~l~~~l~  140 (145)
                      .++|++-.+. |....++....+
T Consensus       103 i~AGA~fIvs-P~~~~~vi~~~~  124 (232)
T 4e38_A          103 KEAGATFVVS-PGFNPNTVRACQ  124 (232)
T ss_dssp             HHHTCSEEEC-SSCCHHHHHHHH
T ss_pred             HHcCCCEEEe-CCCCHHHHHHHH
Confidence            9999977655 555555554443

>3o63_A Probable thiamine-phosphate pyrophosphorylase; thiamin biosynthesis, TIM barrel, transferase; 2.35A {Mycobacterium tuberculosis}

Probab=94.00  E-value=0.95  Score=31.31  Aligned_cols=86  Identities=7%  Similarity=0.028  Sum_probs=60.0

Q ss_pred             EecCHHHHHHHHhcCCCccEEEEeCCCCC-------CCHHHHHHHHHhhC-CCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           55 VAENGKEAVDLFRTGAKFHIVFIDMEMPV-------MDGIEATKAMRAMK-VESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        55 ~~~~~~~~l~~l~~~~~~dlil~d~~~~~-------~~g~~~~~~l~~~~-~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      .+++.+++.+....  .+|.|.+.--.+.       .-|++.++++++.. ..+|++.+.+- +.+....++..|++++.
T Consensus       141 S~ht~~Ea~~A~~~--GaDyI~vgpvf~T~tK~~~~~~gl~~l~~~~~~~~~~iPvvAiGGI-~~~ni~~~~~aGa~gva  217 (243)
T 3o63_A          141 STHDPDQVAAAAAG--DADYFCVGPCWPTPTKPGRAAPGLGLVRVAAELGGDDKPWFAIGGI-NAQRLPAVLDAGARRIV  217 (243)
T ss_dssp             EECSHHHHHHHHHS--SCSEEEECCSSCCCC-----CCCHHHHHHHHTC---CCCEEEESSC-CTTTHHHHHHTTCCCEE
T ss_pred             eCCCHHHHHHHhhC--CCCEEEEcCccCCCCCCCcchhhHHHHHHHHHhccCCCCEEEecCC-CHHHHHHHHHcCCCEEE
Confidence            68899998877664  4899988653332       23677888887753 47899888766 67778889999999974


Q ss_pred             -----eCCCCHHHHHHHHHHHh
Q 045936          127 -----TKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       127 -----~kP~~~~~l~~~l~~~~  143 (145)
                           .+.-++.+-.+.+.+.+
T Consensus       218 v~sai~~a~dp~~a~~~l~~~~  239 (243)
T 3o63_A          218 VVRAITSADDPRAAAEQLRSAL  239 (243)
T ss_dssp             ESHHHHTCSSHHHHHHHHHHHH
T ss_pred             EeHHHhCCCCHHHHHHHHHHHH
Confidence                 45556666665555544

>3qz6_A HPCH/HPAI aldolase; structural genomics, PSI-biology, protein structure initiati midwest center for structural genomics, MCSG; 2.00A {Desulfitobacterium hafniense} SCOP: c.1.12.0

Probab=93.55  E-value=1.3  Score=30.97  Aligned_cols=100  Identities=8%  Similarity=0.031  Sum_probs=63.2

Q ss_pred             HHHHHHhcCC--eEEEec-CHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC-CCCcEEEEecCCChHHHHHH
Q 045936           42 HSMILKSVGF--KVEVAE-NGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK-VESKIVGVTSRNSETEREVF  117 (145)
Q Consensus        42 l~~~l~~~g~--~v~~~~-~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~-~~~~ii~lt~~~~~~~~~~~  117 (145)
                      ++..|.....  -.+... +..+.++.+.. ..+|.|++|+.....+.-++...++... ..+++++=.+..+...+..+
T Consensus         6 ~k~~l~~g~~~~g~~~~~~~~p~~~e~a~~-~g~D~vilDlEhav~~~~k~~~~l~a~~~~~~~~~VRVn~~~~~di~~~   84 (261)
T 3qz6_A            6 LKKKLSAGKSVVGTMLNLVYNPDIVRIYAE-AGLDYFIVDCEHAAYTFREINHLVSVAKNAGVSVLVRIPQVDRAHVQRL   84 (261)
T ss_dssp             HHHHHHTTCCEEEEEESSCCCTTHHHHHHH-TTCSEEEEESSSSCCCHHHHHHHHHHHHHHTCEEEEECSSCCHHHHHHH
T ss_pred             HHHHHHCCCCEEEEEEecCCCHHHHHHHhc-CCcCEEEEeccCCCCCHHHHHHHHHHHhhcCCeEEEEeCCCCHHHHHHH
Confidence            4455544322  233333 34555555554 3599999999887776666666665532 23444444555667788889


Q ss_pred             HHhcccEE-eeCCCCHHHHHHHHHHH
Q 045936          118 MQAGLDLC-YTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       118 ~~~g~~~~-l~kP~~~~~l~~~l~~~  142 (145)
                      ++.|++.. ++|--+.+++....+.+
T Consensus        85 ld~G~~gI~lP~v~saed~~~~~~~~  110 (261)
T 3qz6_A           85 LDIGAEGFMIPGVQSAETMRETVRLA  110 (261)
T ss_dssp             HHHTCCEEEETTCCSHHHHHHHHHHH
T ss_pred             HhcCCCEEEECCcCCHHHHHHHHHHh
Confidence            99999986 56677888887776553

>2ekc_A AQ_1548, tryptophan synthase alpha chain; structural genomics, lyase, NPPSFA, national project on PROT structural and functional analyses; 2.00A {Aquifex aeolicus}

Probab=93.55  E-value=0.67  Score=32.35  Aligned_cols=57  Identities=16%  Similarity=0.072  Sum_probs=40.1

Q ss_pred             HHHHHHHHHhhCCCCcEEEEecCC------ChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936           86 GIEATKAMRAMKVESKIVGVTSRN------SETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus        86 g~~~~~~l~~~~~~~~ii~lt~~~------~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      .+++++.+|+..|+.|+++++-..      -......+.++|+++++...+..+++...++..
T Consensus        81 ~~~~v~~ir~~~~~~Pi~~m~y~n~v~~~g~~~f~~~~~~aG~dgvii~dl~~ee~~~~~~~~  143 (262)
T 2ekc_A           81 VLELSETLRKEFPDIPFLLMTYYNPIFRIGLEKFCRLSREKGIDGFIVPDLPPEEAEELKAVM  143 (262)
T ss_dssp             HHHHHHHHHHHCTTSCEEEECCHHHHHHHCHHHHHHHHHHTTCCEEECTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcCCCCEEEEecCcHHHHhhHHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHH
Confidence            446688888776688998863322      134567788999999998888777766655443

>2htm_A Thiazole biosynthesis protein THIG; thiamin biosynthesis, THIG, thermus thermophilus HB8, structural genomics, NPPSFA; 2.30A {Thermus thermophilus}

Probab=93.22  E-value=0.39  Score=33.73  Aligned_cols=93  Identities=14%  Similarity=0.060  Sum_probs=60.1

Q ss_pred             HHHhcCCeEE--EecCHHHHHHHHhcCCCccEEEEeCCCC--CC---CHHHHHHHHHhhCCC-CcEEEEecCCChHHHHH
Q 045936           45 ILKSVGFKVE--VAENGKEAVDLFRTGAKFHIVFIDMEMP--VM---DGIEATKAMRAMKVE-SKIVGVTSRNSETEREV  116 (145)
Q Consensus        45 ~l~~~g~~v~--~~~~~~~~l~~l~~~~~~dlil~d~~~~--~~---~g~~~~~~l~~~~~~-~~ii~lt~~~~~~~~~~  116 (145)
                      .|...||.+.  +..|...+-+....  .+++| +.+..+  ..   ...++++.+++..++ .|||+=..-..++....
T Consensus       119 ~L~k~Gf~Vlpy~~~D~~~ak~l~~~--G~~aV-mPlg~pIGsG~Gi~~~~~L~~i~~~~~~~vPVI~~GGI~tpsDAa~  195 (268)
T 2htm_A          119 RLIEEDFLVLPYMGPDLVLAKRLAAL--GTATV-MPLAAPIGSGWGVRTRALLELFAREKASLPPVVVDAGLGLPSHAAE  195 (268)
T ss_dssp             HHHHTTCEECCEECSCHHHHHHHHHH--TCSCB-EEBSSSTTTCCCSTTHHHHHHHHHTTTTSSCBEEESCCCSHHHHHH
T ss_pred             HHHHCCCEEeeccCCCHHHHHHHHhc--CCCEE-EecCccCcCCcccCCHHHHHHHHHhcCCCCeEEEeCCCCCHHHHHH
Confidence            3445698866  44566555444443  36666 554432  11   235668888875566 89988788889999999


Q ss_pred             HHHhcccEEe-----eCCCCHHHHHHHHH
Q 045936          117 FMQAGLDLCY-----TKPLTMAKIVPLLE  140 (145)
Q Consensus       117 ~~~~g~~~~l-----~kP~~~~~l~~~l~  140 (145)
                      +++.|+++.+     .|.-++......+.
T Consensus       196 AmeLGAdgVlVgSAI~~a~dP~~ma~af~  224 (268)
T 2htm_A          196 VMELGLDAVLVNTAIAEAQDPPAMAEAFR  224 (268)
T ss_dssp             HHHTTCCEEEESHHHHTSSSHHHHHHHHH
T ss_pred             HHHcCCCEEEEChHHhCCCCHHHHHHHHH
Confidence            9999999975     45444555544443

>3bul_A Methionine synthase; transferase, reactivation conformation, cobalamin, intermodular interactions, amino-acid biosynthesis, cobalt; HET: B12; 2.30A {Escherichia coli} SCOP: a.46.1.1 c.23.6.1 d.173.1.1 PDB: 3iv9_A* 3iva_A* 1k7y_A* 1k98_A* 1bmt_A*

Probab=92.88  E-value=1.7  Score=34.04  Aligned_cols=99  Identities=7%  Similarity=0.082  Sum_probs=67.7

Q ss_pred             CcEEEEE----eCCHHHHHHHHHHHHhcCCeEEEe---cCHHHHHHHHhcCCCccEEEEeCCCCCC--CHHHHHHHHHhh
Q 045936           26 PYFALVV----DDDPMIRRIHSMILKSVGFKVEVA---ENGKEAVDLFRTGAKFHIVFIDMEMPVM--DGIEATKAMRAM   96 (145)
Q Consensus        26 ~~~vlii----~~~~~~~~~l~~~l~~~g~~v~~~---~~~~~~l~~l~~~~~~dlil~d~~~~~~--~g~~~~~~l~~~   96 (145)
                      ..+|++.    |-+..-...+..+|+..||.|...   -..++.+..+.. ..+|+|.+...+...  ...++++.|++.
T Consensus        98 ~~kVLlatv~GD~HdiG~~iva~~L~~~G~eVi~LG~~vP~e~iv~aa~~-~~~diVgLS~l~t~~~~~m~~~i~~Lr~~  176 (579)
T 3bul_A           98 NGKMVIATVKGDVHDIGKNIVGVVLQCNNYEIVDLGVMVPAEKILRTAKE-VNADLIGLSGLITPSLDEMVNVAKEMERQ  176 (579)
T ss_dssp             SCEEEEEEBTTCCCCHHHHHHHHHHHTTTCEEEECCSSBCHHHHHHHHHH-HTCSEEEEECCSTHHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCchHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHH-cCCCEEEEEecCCCCHHHHHHHHHHHHHc
Confidence            3467766    456666677888899999998743   467888888876 579999998866432  133577888887


Q ss_pred             CCCCcEEEEecCCChHHHHHHHHh-----cccEEee
Q 045936           97 KVESKIVGVTSRNSETEREVFMQA-----GLDLCYT  127 (145)
Q Consensus        97 ~~~~~ii~lt~~~~~~~~~~~~~~-----g~~~~l~  127 (145)
                      .+++||++-..........  ...     |++.|..
T Consensus       177 g~~i~ViVGGa~~~~~~a~--~~i~p~~~GAD~ya~  210 (579)
T 3bul_A          177 GFTIPLLIGGATTSKAHTA--VKIEQNYSGPTVYVQ  210 (579)
T ss_dssp             TCCSCEEEESTTCCHHHHH--HHTGGGCSSCEEECC
T ss_pred             CCCCeEEEEccccchhhhh--hhhhhcccCCeEEEC
Confidence            7788887665555554332  122     8877753

>1r8j_A KAIA; circadian clock protein; 2.03A {Synechococcus elongatus pcc 7942} SCOP: a.186.1.1 c.23.1.5 PDB: 1m2e_A 1m2f_A

Probab=92.71  E-value=1.8  Score=30.40  Aligned_cols=82  Identities=11%  Similarity=0.061  Sum_probs=65.7

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcC-CCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTG-AKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~-~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      ....|-+.-.++.....+..+|....|.+..+.+.++.+..++.. ..+|++++...  +..-..+...|.+.+--.|++
T Consensus         8 ~~LsI~~~~~s~~l~~~~~~~L~~dRY~l~~~~s~~~f~~~le~~~e~iDcLvle~~--~~~~~~~~~~L~~~g~lLP~v   85 (289)
T 1r8j_A            8 SQIAICIWVESTAILQDCQRALSADRYQLQVCESGEMLLEYAQTHRDQIDCLILVAA--NPSFRAVVQQLCFEGVVVPAI   85 (289)
T ss_dssp             CCEEEEEECCCHHHHHHHHHHTCSTTEEEEEECSHHHHHHHHHHSTTSCSEEEEETT--STTHHHHHHHHHHTTCCCCEE
T ss_pred             cceeEEEEeCCHHHHHHHHHhcccCceEEEEcCcHHHHHHHHHhccccCCEEEEEeC--CCccHHHHHHHHHcCccccEE
Confidence            456788888999999999999987779999999999988888543 47999998751  223567888999988889999


Q ss_pred             EEecC
Q 045936          104 GVTSR  108 (145)
Q Consensus       104 ~lt~~  108 (145)
                      ++...
T Consensus        86 il~~~   90 (289)
T 1r8j_A           86 VVGDR   90 (289)
T ss_dssp             EESCC
T ss_pred             EeccC
Confidence            88554

>3f4w_A Putative hexulose 6 phosphate synthase; humps, malonate, lyase; 1.65A {Salmonella typhimurium} SCOP: c.1.2.0

Probab=92.39  E-value=1.5  Score=29.13  Aligned_cols=104  Identities=14%  Similarity=0.110  Sum_probs=61.7

Q ss_pred             HHHHHHHHHHHhcCCeEEE----ecCHHHHHHHHhcCCCccEEEEeCCCC----CCCHHHHHHHHHhhCCCCcEEEEecC
Q 045936           37 MIRRIHSMILKSVGFKVEV----AENGKEAVDLFRTGAKFHIVFIDMEMP----VMDGIEATKAMRAMKVESKIVGVTSR  108 (145)
Q Consensus        37 ~~~~~l~~~l~~~g~~v~~----~~~~~~~l~~l~~~~~~dlil~d~~~~----~~~g~~~~~~l~~~~~~~~ii~lt~~  108 (145)
                      .....+...+++.|..+..    ..+..+.++.+.. ...|.|.++....    ...+.+.++.+++..++.|+++-.+-
T Consensus        90 ~~~~~~~~~~~~~g~~~~v~~~~~~t~~~~~~~~~~-~g~d~i~v~~g~~g~~~~~~~~~~i~~l~~~~~~~~i~~~gGI  168 (211)
T 3f4w_A           90 LTIQSCIRAAKEAGKQVVVDMICVDDLPARVRLLEE-AGADMLAVHTGTDQQAAGRKPIDDLITMLKVRRKARIAVAGGI  168 (211)
T ss_dssp             HHHHHHHHHHHHHTCEEEEECTTCSSHHHHHHHHHH-HTCCEEEEECCHHHHHTTCCSHHHHHHHHHHCSSCEEEEESSC
T ss_pred             hHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHH-cCCCEEEEcCCCcccccCCCCHHHHHHHHHHcCCCcEEEECCC
Confidence            3445666667777866542    2344343343333 2378776652111    11356788888887666777655444


Q ss_pred             CChHHHHHHHHhcccEEe-----eCCCCHHHHHHHHHHH
Q 045936          109 NSETEREVFMQAGLDLCY-----TKPLTMAKIVPLLEEL  142 (145)
Q Consensus       109 ~~~~~~~~~~~~g~~~~l-----~kP~~~~~l~~~l~~~  142 (145)
                       +.+....+.+.|++.++     .+.-++.+-.+.+++.
T Consensus       169 -~~~~~~~~~~~Gad~vvvGsai~~~~d~~~~~~~l~~~  206 (211)
T 3f4w_A          169 -SSQTVKDYALLGPDVVIVGSAITHAADPAGEARKISQV  206 (211)
T ss_dssp             -CTTTHHHHHTTCCSEEEECHHHHTCSSHHHHHHHHHHH
T ss_pred             -CHHHHHHHHHcCCCEEEECHHHcCCCCHHHHHHHHHHH
Confidence             57788889999999974     4555665555555443

>1qop_A Tryptophan synthase alpha chain; lyase, carbon-oxygen lyase, tryptophan biosynthesis, pyridoxal phosphate; HET: IPL PLP; 1.4A {Salmonella typhimurium} SCOP: c.1.2.4 PDB: 1k8x_A* 1wbj_A* 2clk_A* 2j9z_A* 3cep_A* 1k8y_A* 1a5s_A* 1a50_A* 1c29_A* 1c8v_A* 1c9d_A* 1bks_A* 1cx9_A* 1fuy_A* 1cw2_A* 1k7e_A* 1k7f_A* 1k7x_A* 1k3u_A* 1k8z_A* ...

Probab=92.30  E-value=1.4  Score=30.83  Aligned_cols=56  Identities=14%  Similarity=0.098  Sum_probs=39.0

Q ss_pred             HHHHHHHHHhhCCCCcEEEEecCC------ChHHHHHHHHhcccEEeeCCCCHHHHHHHHHH
Q 045936           86 GIEATKAMRAMKVESKIVGVTSRN------SETEREVFMQAGLDLCYTKPLTMAKIVPLLEE  141 (145)
Q Consensus        86 g~~~~~~l~~~~~~~~ii~lt~~~------~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~  141 (145)
                      ++++++.+|+.+.+.|+++++-..      .......+.++|+++++......+++...++.
T Consensus        81 ~~~~v~~ir~~~~~~Pv~lm~y~n~v~~~g~~~~~~~~~~aGadgii~~d~~~e~~~~~~~~  142 (268)
T 1qop_A           81 CFEMLAIIREKHPTIPIGLLMYANLVFNNGIDAFYARCEQVGVDSVLVADVPVEESAPFRQA  142 (268)
T ss_dssp             HHHHHHHHHHHCSSSCEEEEECHHHHHTTCHHHHHHHHHHHTCCEEEETTCCGGGCHHHHHH
T ss_pred             HHHHHHHHHhcCCCCCEEEEEcccHHHHhhHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHHH
Confidence            456788888775678887764221      14567788999999998887777665555443

>3tsm_A IGPS, indole-3-glycerol phosphate synthase; structural genomics, ssgcid, seattle structural GE center for infectious disease, lyase; 2.15A {Brucella melitensis} SCOP: c.1.2.0

Probab=91.88  E-value=2.4  Score=29.88  Aligned_cols=99  Identities=7%  Similarity=0.097  Sum_probs=65.6

Q ss_pred             HHHHHHHHHHHhcCCeE-EEecCHHHHHHHHhcCCCccEEEEeC-CCCCC-CHHHHHHHHHhhCC-CCcEEEEecCCChH
Q 045936           37 MIRRIHSMILKSVGFKV-EVAENGKEAVDLFRTGAKFHIVFIDM-EMPVM-DGIEATKAMRAMKV-ESKIVGVTSRNSET  112 (145)
Q Consensus        37 ~~~~~l~~~l~~~g~~v-~~~~~~~~~l~~l~~~~~~dlil~d~-~~~~~-~g~~~~~~l~~~~~-~~~ii~lt~~~~~~  112 (145)
                      .....+....+..|..+ +.+++.+|+.+.+..  .+|+|=++- ++... ..++....|...-| +.++|.-++-..++
T Consensus       156 ~~l~~l~~~a~~lGl~~lvevh~~eEl~~A~~~--ga~iIGinnr~l~t~~~dl~~~~~L~~~ip~~~~vIaesGI~t~e  233 (272)
T 3tsm_A          156 DLAKELEDTAFALGMDALIEVHDEAEMERALKL--SSRLLGVNNRNLRSFEVNLAVSERLAKMAPSDRLLVGESGIFTHE  233 (272)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEECSHHHHHHHTTS--CCSEEEEECBCTTTCCBCTHHHHHHHHHSCTTSEEEEESSCCSHH
T ss_pred             HHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHhc--CCCEEEECCCCCccCCCChHHHHHHHHhCCCCCcEEEECCCCCHH
Confidence            34455555566789774 489999998777654  478776552 22211 12455555555433 67788888888999


Q ss_pred             HHHHHHHhcccEEe-----eCCCCHHHHHH
Q 045936          113 EREVFMQAGLDLCY-----TKPLTMAKIVP  137 (145)
Q Consensus       113 ~~~~~~~~g~~~~l-----~kP~~~~~l~~  137 (145)
                      ....+...|+++++     .++-++.+...
T Consensus       234 dv~~l~~~Ga~gvLVG~almr~~d~~~~~~  263 (272)
T 3tsm_A          234 DCLRLEKSGIGTFLIGESLMRQHDVAAATR  263 (272)
T ss_dssp             HHHHHHTTTCCEEEECHHHHTSSCHHHHHH
T ss_pred             HHHHHHHcCCCEEEEcHHHcCCcCHHHHHH
Confidence            99999999999996     45655554433

>2lci_A Protein OR36; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, de novo protein; NMR {Artificial gene}

Probab=91.86  E-value=1.1  Score=26.32  Aligned_cols=27  Identities=19%  Similarity=0.360  Sum_probs=19.2

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEE
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVE   54 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~   54 (145)
                      +|+++.++......+..+++..||.+.
T Consensus        53 kiliisndkqllkemlelisklgykvf   79 (134)
T 2lci_A           53 KILIISNDKQLLKEMLELISKLGYKVF   79 (134)
T ss_dssp             CEEEEESCHHHHHHHHHHHHHHTCCEE
T ss_pred             eEEEEcCcHHHHHHHHHHHHHhCceeE
Confidence            577777777777777777777776654

>1wa3_A 2-keto-3-deoxy-6-phosphogluconate aldolase; KDPG, pyruvate, lyase; 1.9A {Thermotoga maritima} SCOP: c.1.10.1 PDB: 1vlw_A

Probab=91.78  E-value=1.2  Score=29.56  Aligned_cols=91  Identities=18%  Similarity=0.201  Sum_probs=52.8

Q ss_pred             HHHhcCCe-EEEecCHHHHHHHH---hcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHh
Q 045936           45 ILKSVGFK-VEVAENGKEAVDLF---RTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQA  120 (145)
Q Consensus        45 ~l~~~g~~-v~~~~~~~~~l~~l---~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~  120 (145)
                      .|...+.- +....+.+++.+.+   .. ...+++-+....  ..+.+.++.+|+..+.-.++-+....+.+....+.+.
T Consensus         6 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~-~G~~~iev~~~~--~~~~~~i~~ir~~~~~~~~ig~~~v~~~~~~~~a~~~   82 (205)
T 1wa3_A            6 LFKKHKIVAVLRANSVEEAKEKALAVFE-GGVHLIEITFTV--PDADTVIKELSFLKEKGAIIGAGTVTSVEQCRKAVES   82 (205)
T ss_dssp             HHHHHCEEEEECCSSHHHHHHHHHHHHH-TTCCEEEEETTS--TTHHHHHHHTHHHHHTTCEEEEESCCSHHHHHHHHHH
T ss_pred             HHhhCCEEEEEecCCHHHHHHHHHHHHH-CCCCEEEEeCCC--hhHHHHHHHHHHHCCCCcEEEecccCCHHHHHHHHHc
Confidence            34444533 33455666554433   33 246777555543  3566778888876542223444444577778888999


Q ss_pred             cccEEeeCCCCHHHHHHHH
Q 045936          121 GLDLCYTKPLTMAKIVPLL  139 (145)
Q Consensus       121 g~~~~l~kP~~~~~l~~~l  139 (145)
                      |++.. .-|....++....
T Consensus        83 Gad~i-v~~~~~~~~~~~~  100 (205)
T 1wa3_A           83 GAEFI-VSPHLDEEISQFC  100 (205)
T ss_dssp             TCSEE-ECSSCCHHHHHHH
T ss_pred             CCCEE-EcCCCCHHHHHHH
Confidence            99887 5566555554443

>2v82_A 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; lyase, kdpgal; HET: KDP; 2.1A {Escherichia coli} PDB: 2v81_A*

Probab=91.29  E-value=1.7  Score=28.95  Aligned_cols=78  Identities=15%  Similarity=0.083  Sum_probs=52.6

Q ss_pred             HHHHhcCCeE-EEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCC-CCcEEEEecCCChHHHHHHHHhc
Q 045936           44 MILKSVGFKV-EVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKV-ESKIVGVTSRNSETEREVFMQAG  121 (145)
Q Consensus        44 ~~l~~~g~~v-~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~-~~~ii~lt~~~~~~~~~~~~~~g  121 (145)
                      ...+..|..+ ..+.+.+++......  ..|.|.+.-  .+..|.+.++.+++..+ +.|+++..+-. .+....++..|
T Consensus        95 ~~~~~~g~~~~~g~~t~~e~~~a~~~--G~d~v~v~~--t~~~g~~~~~~l~~~~~~~ipvia~GGI~-~~~i~~~~~~G  169 (212)
T 2v82_A           95 RRAVGYGMTVCPGCATATEAFTALEA--GAQALKIFP--SSAFGPQYIKALKAVLPSDIAVFAVGGVT-PENLAQWIDAG  169 (212)
T ss_dssp             HHHHHTTCEEECEECSHHHHHHHHHT--TCSEEEETT--HHHHCHHHHHHHHTTSCTTCEEEEESSCC-TTTHHHHHHHT
T ss_pred             HHHHHcCCCEEeecCCHHHHHHHHHC--CCCEEEEec--CCCCCHHHHHHHHHhccCCCeEEEeCCCC-HHHHHHHHHcC
Confidence            4455567553 257888888777654  489887611  11225677888877655 57887766654 77788888999


Q ss_pred             ccEEe
Q 045936          122 LDLCY  126 (145)
Q Consensus       122 ~~~~l  126 (145)
                      ++.+.
T Consensus       170 a~gv~  174 (212)
T 2v82_A          170 CAGAG  174 (212)
T ss_dssp             CSEEE
T ss_pred             CCEEE
Confidence            99985

>3s83_A Ggdef family protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, signaling protein; HET: MSE; 1.34A {Caulobacter crescentus} PDB: 3u2e_A

Probab=90.88  E-value=1.9  Score=29.55  Aligned_cols=100  Identities=13%  Similarity=0.110  Sum_probs=64.2

Q ss_pred             HHHHHHHhcCCeEE--EecCHHHHHHHHhcCCCccEEEEeCCC----CCC-CHHHHHHHHHhhC-CCCcEEEEecCCChH
Q 045936           41 IHSMILKSVGFKVE--VAENGKEAVDLFRTGAKFHIVFIDMEM----PVM-DGIEATKAMRAMK-VESKIVGVTSRNSET  112 (145)
Q Consensus        41 ~l~~~l~~~g~~v~--~~~~~~~~l~~l~~~~~~dlil~d~~~----~~~-~g~~~~~~l~~~~-~~~~ii~lt~~~~~~  112 (145)
                      .....|+..|+.+.  -+.++...+..+.. -++|.|=+|..+    ... ....+++.+.... ....-++..+-.+.+
T Consensus       143 ~~l~~l~~~G~~ialDdfG~g~ssl~~L~~-l~~d~iKiD~~~v~~~~~~~~~~~~~~~i~~~a~~~g~~viaeGVEt~~  221 (259)
T 3s83_A          143 VILKTLRDAGAGLALDDFGTGFSSLSYLTR-LPFDTLKIDRYFVRTMGNNAGSAKIVRSVVKLGQDLDLEVVAEGVENAE  221 (259)
T ss_dssp             HHHHHHHHHTCEEEEECC---CHHHHHHHH-SCCCEEEECHHHHHHTTTCHHHHHHHHHHHHHHHHTTCEEEECCCCSHH
T ss_pred             HHHHHHHHCCCEEEEECCCCCchhHHHHHh-CCCCEEEECHHHHhhhhcCchHHHHHHHHHHHHHHCCCeEEEEeCCCHH
Confidence            34456677898865  45566667777776 579999998533    121 2334455544421 112234566777888


Q ss_pred             HHHHHHHhcccE----EeeCCCCHHHHHHHHHH
Q 045936          113 EREVFMQAGLDL----CYTKPLTMAKIVPLLEE  141 (145)
Q Consensus       113 ~~~~~~~~g~~~----~l~kP~~~~~l~~~l~~  141 (145)
                      ....+...|++.    |+.||.+.+++...++.
T Consensus       222 ~~~~l~~lG~~~~QG~~~~~p~~~~~~~~~l~~  254 (259)
T 3s83_A          222 MAHALQSLGCDYGQGFGYAPALSPQEAEVYLNE  254 (259)
T ss_dssp             HHHHHHHHTCCEECBTTTBCCBCHHHHHHHHHH
T ss_pred             HHHHHHhcCCCEeecCcccCCCCHHHHHHHHHH
Confidence            888888999865    37899999999887765

>3tqv_A Nicotinate-nucleotide pyrophosphorylase; glycosyltransferase, transferase; 2.62A {Francisella tularensis subsp}

Probab=90.81  E-value=1.8  Score=30.74  Aligned_cols=69  Identities=10%  Similarity=0.012  Sum_probs=48.3

Q ss_pred             ccEEEEeCCCCCC--CHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936           72 FHIVFIDMEMPVM--DGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus        72 ~dlil~d~~~~~~--~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      .|.+++--+.-..  +-.+.++..|+..|..+|.+  ...+.+....++++|++......++++++...++.+
T Consensus       169 ~d~vlikdNHi~~~G~i~~Av~~ar~~~~~~~IeV--Ev~tl~ea~eAl~aGaD~I~LDn~~~~~l~~av~~~  239 (287)
T 3tqv_A          169 FDAYLIKENHIRSAGGIAKAVTKAKKLDSNKVVEV--EVTNLDELNQAIAAKADIVMLDNFSGEDIDIAVSIA  239 (287)
T ss_dssp             SSSEEECTTTC----CHHHHHHHHHHHCTTSCEEE--EESSHHHHHHHHHTTCSEEEEESCCHHHHHHHHHHH
T ss_pred             ccEEEEeHHHHHHhCCHHHHHHHHHhhCCCCcEEE--EeCCHHHHHHHHHcCCCEEEEcCCCHHHHHHHHHhh
Confidence            4666654333221  23457777777777777765  334557788899999999999999999999888764

>3inp_A D-ribulose-phosphate 3-epimerase; IDP02542, isomerase, struc genomics, center for structural genomics of infectious DISE csgid; 2.05A {Francisella tularensis subsp}

Probab=90.51  E-value=1.5  Score=30.38  Aligned_cols=86  Identities=17%  Similarity=0.135  Sum_probs=55.1

Q ss_pred             ecCHHHHHHHHhcCCCccEEEEeCCC----CCC-CHHHHHHHHHhhCCCCcEEE-EecCCChHHHHHHHHhcccEEeeCC
Q 045936           56 AENGKEAVDLFRTGAKFHIVFIDMEM----PVM-DGIEATKAMRAMKVESKIVG-VTSRNSETEREVFMQAGLDLCYTKP  129 (145)
Q Consensus        56 ~~~~~~~l~~l~~~~~~dlil~d~~~----~~~-~g~~~~~~l~~~~~~~~ii~-lt~~~~~~~~~~~~~~g~~~~l~kP  129 (145)
                      +.+.++.++.+.. ...|.+=+|..-    |.. -|.++++.||+..|..++-+ +--.........+.++||+.+....
T Consensus        39 ~~~L~~~i~~l~~-~G~d~lHvDVmDg~FVpnit~G~~~v~~lr~~~p~~~ldvHLmv~~p~~~i~~~~~aGAd~itvH~  117 (246)
T 3inp_A           39 LARLGDDVKAVLA-AGADNIHFDVMDNHYVPNLTFGPMVLKALRDYGITAGMDVHLMVKPVDALIESFAKAGATSIVFHP  117 (246)
T ss_dssp             GGGHHHHHHHHHH-TTCCCEEEEEEBSSSSSCBCCCHHHHHHHHHHTCCSCEEEEEECSSCHHHHHHHHHHTCSEEEECG
T ss_pred             hhhHHHHHHHHHH-cCCCEEEEEecCCCcCcchhcCHHHHHHHHHhCCCCeEEEEEeeCCHHHHHHHHHHcCCCEEEEcc
Confidence            3456777777766 346666555422    333 38899999999876677643 3223334467788899999987766


Q ss_pred             CCHHHHHHHHHHH
Q 045936          130 LTMAKIVPLLEEL  142 (145)
Q Consensus       130 ~~~~~l~~~l~~~  142 (145)
                      ...+.+.+.++.+
T Consensus       118 Ea~~~~~~~i~~i  130 (246)
T 3inp_A          118 EASEHIDRSLQLI  130 (246)
T ss_dssp             GGCSCHHHHHHHH
T ss_pred             ccchhHHHHHHHH
Confidence            5445555555544

>3vnd_A TSA, tryptophan synthase alpha chain; psychrophilic enzyme, cold adaptation; HET: PE8; 2.60A {Shewanella frigidimarina}

Probab=90.25  E-value=0.78  Score=32.24  Aligned_cols=55  Identities=15%  Similarity=0.126  Sum_probs=38.9

Q ss_pred             HHHHHHHHhhCCCCcEEEEecCC------ChHHHHHHHHhcccEEeeCCCCHHHHHHHHHH
Q 045936           87 IEATKAMRAMKVESKIVGVTSRN------SETEREVFMQAGLDLCYTKPLTMAKIVPLLEE  141 (145)
Q Consensus        87 ~~~~~~l~~~~~~~~ii~lt~~~------~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~  141 (145)
                      +++++.+|+....+|+++++-..      -......+.++|+++++...+..++....++.
T Consensus        83 ~~~v~~ir~~~~~~Pivlm~Y~npv~~~g~e~f~~~~~~aGvdgvii~Dlp~ee~~~~~~~  143 (267)
T 3vnd_A           83 FDIITKVRAQHPDMPIGLLLYANLVFANGIDEFYTKAQAAGVDSVLIADVPVEESAPFSKA  143 (267)
T ss_dssp             HHHHHHHHHHCTTCCEEEEECHHHHHHHCHHHHHHHHHHHTCCEEEETTSCGGGCHHHHHH
T ss_pred             HHHHHHHHhcCCCCCEEEEecCcHHHHhhHHHHHHHHHHcCCCEEEeCCCCHhhHHHHHHH
Confidence            67777777765788988775322      24567888999999998877777765554443

>3nav_A Tryptophan synthase alpha chain; alpha subunit, structural genomics, CSG center for structural genomics of infectious diseases; 2.10A {Vibrio cholerae o1 biovar el tor} SCOP: c.1.2.4

Probab=89.94  E-value=1.3  Score=31.19  Aligned_cols=55  Identities=18%  Similarity=0.177  Sum_probs=38.6

Q ss_pred             HHHHHHHHHhhCCCCcEEEEec------CCChHHHHHHHHhcccEEeeCCCCHHHHHHHHH
Q 045936           86 GIEATKAMRAMKVESKIVGVTS------RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLE  140 (145)
Q Consensus        86 g~~~~~~l~~~~~~~~ii~lt~------~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~  140 (145)
                      .++.++.+|+.++.+|+++++-      +.-......+.++|+++++..-+.+++.....+
T Consensus        84 ~~~~v~~~r~~~~~~Pivlm~Y~n~v~~~g~~~f~~~~~~aGvdGvIipDlp~ee~~~~~~  144 (271)
T 3nav_A           84 CFELIAQIRARNPETPIGLLMYANLVYARGIDDFYQRCQKAGVDSVLIADVPTNESQPFVA  144 (271)
T ss_dssp             HHHHHHHHHHHCTTSCEEEEECHHHHHHTCHHHHHHHHHHHTCCEEEETTSCGGGCHHHHH
T ss_pred             HHHHHHHHHhcCCCCCEEEEecCcHHHHHhHHHHHHHHHHCCCCEEEECCCCHHHHHHHHH
Confidence            4567778877767889988752      223456788899999998887676666544433

>2xci_A KDO-transferase, 3-deoxy-D-manno-2-octulosonic acid transferase; KDTA, GSEA, glycosyltransferase superfamily B,; HET: PG4; 2.00A {Aquifex aeolicus} PDB: 2xcu_A*

Probab=89.41  E-value=2  Score=31.24  Aligned_cols=110  Identities=14%  Similarity=0.101  Sum_probs=57.1

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCe----------EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHh
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFK----------VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRA   95 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~----------v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~   95 (145)
                      ..+++|+.+.+.....++..+++.|..          +......++....+.   ..|++++-......-|..+++.+  
T Consensus       225 ~~~lvivG~g~~~~~~l~~~~~~~gl~~~~~~~~~~~v~~~~~~~dl~~~y~---~aDv~vl~ss~~e~gg~~~lEAm--  299 (374)
T 2xci_A          225 SLKLILVPRHIENAKIFEKKARDFGFKTSFFENLEGDVILVDRFGILKELYP---VGKIAIVGGTFVNIGGHNLLEPT--  299 (374)
T ss_dssp             TCEEEEEESSGGGHHHHHHHHHHTTCCEEETTCCCSSEEECCSSSCHHHHGG---GEEEEEECSSSSSSCCCCCHHHH--
T ss_pred             CcEEEEECCCHHHHHHHHHHHHHCCCceEEecCCCCcEEEECCHHHHHHHHH---hCCEEEECCcccCCCCcCHHHHH--
Confidence            456777777776555667777666643          222222233333332   36887664332221122233332  


Q ss_pred             hCCCCcEEEEecCCC-hHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936           96 MKVESKIVGVTSRNS-ETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus        96 ~~~~~~ii~lt~~~~-~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                       ...+|+|.-+...+ .+........|   ++..+-+.++|..++.++++
T Consensus       300 -A~G~PVI~~~~~~~~~e~~~~~~~~G---~l~~~~d~~~La~ai~~ll~  345 (374)
T 2xci_A          300 -CWGIPVIYGPYTHKVNDLKEFLEKEG---AGFEVKNETELVTKLTELLS  345 (374)
T ss_dssp             -TTTCCEEECSCCTTSHHHHHHHHHTT---CEEECCSHHHHHHHHHHHHH
T ss_pred             -HhCCCEEECCCccChHHHHHHHHHCC---CEEEeCCHHHHHHHHHHHHh
Confidence             33677764222222 23232222333   45667789999999988764

>3rht_A (gatase1)-like protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, unknown function; HET: MSE; 1.83A {Planctomyces limnophilus}

Probab=89.21  E-value=0.21  Score=35.00  Aligned_cols=79  Identities=14%  Similarity=0.113  Sum_probs=46.4

Q ss_pred             cEEEEEeCC--HHHHHHHHHHHHhcCCeEEEecCHHH--HHHHHhcCCCccEEEEeCCCC-CCCHHHHHHHHHhh-CCCC
Q 045936           27 YFALVVDDD--PMIRRIHSMILKSVGFKVEVAENGKE--AVDLFRTGAKFHIVFIDMEMP-VMDGIEATKAMRAM-KVES  100 (145)
Q Consensus        27 ~~vlii~~~--~~~~~~l~~~l~~~g~~v~~~~~~~~--~l~~l~~~~~~dlil~d~~~~-~~~g~~~~~~l~~~-~~~~  100 (145)
                      .+|||++++  +.....+...|+..||.|...+..+-  -...+.   .+|+||++.... ..+. +.++.|++. ....
T Consensus         5 ~~vLiV~g~~~~~~a~~l~~aL~~~g~~V~~i~~~~~~~~~~~L~---~yDvIIl~d~~~~~l~~-~~~~~L~~yV~~GG   80 (259)
T 3rht_A            5 TRVLYCGDTSLETAAGYLAGLMTSWQWEFDYIPSHVGLDVGELLA---KQDLVILSDYPAERMTA-QAIDQLVTMVKAGC   80 (259)
T ss_dssp             -CEEEEESSCTTTTHHHHHHHHHHTTCCCEEECTTSCBCSSHHHH---TCSEEEEESCCGGGBCH-HHHHHHHHHHHTTC
T ss_pred             ceEEEECCCCchhHHHHHHHHHHhCCceEEEecccccccChhHHh---cCCEEEEcCCccccCCH-HHHHHHHHHHHhCC
Confidence            479999988  66778899999999999876553221  112232   499888763111 1222 333344332 2356


Q ss_pred             cEEEEecCC
Q 045936          101 KIVGVTSRN  109 (145)
Q Consensus       101 ~ii~lt~~~  109 (145)
                      .+|++.+..
T Consensus        81 gLi~~gG~~   89 (259)
T 3rht_A           81 GLVMLGGWE   89 (259)
T ss_dssp             EEEEECSTT
T ss_pred             eEEEecCcc
Confidence            677775543

>4fxs_A Inosine-5'-monophosphate dehydrogenase; structural genomics, IMPDH, IMP, mycophenolic acid, MOA; HET: IMP MOA; 2.24A {Vibrio cholerae o1 biovar el tor}

Probab=89.15  E-value=3.1  Score=31.84  Aligned_cols=66  Identities=14%  Similarity=0.225  Sum_probs=48.5

Q ss_pred             HHHHHHHHhcCCCccEEEEeCCCCCCC-HHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEee
Q 045936           59 GKEAVDLFRTGAKFHIVFIDMEMPVMD-GIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus        59 ~~~~l~~l~~~~~~dlil~d~~~~~~~-g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      .+.+...+..  .+|+|.+|...+... ..+.++.+++..|..|+++ .+....+....+.++|++.+..
T Consensus       233 ~~~a~~l~~a--G~d~I~id~a~g~~~~~~~~i~~ir~~~p~~~Vi~-g~v~t~e~a~~l~~aGaD~I~V  299 (496)
T 4fxs_A          233 EERVKALVEA--GVDVLLIDSSHGHSEGVLQRIRETRAAYPHLEIIG-GNVATAEGARALIEAGVSAVKV  299 (496)
T ss_dssp             HHHHHHHHHT--TCSEEEEECSCTTSHHHHHHHHHHHHHCTTCCEEE-EEECSHHHHHHHHHHTCSEEEE
T ss_pred             HHHHHHHHhc--cCceEEeccccccchHHHHHHHHHHHHCCCceEEE-cccCcHHHHHHHHHhCCCEEEE
Confidence            4444444543  489999998876543 4578999999888777765 4556677888899999999864

>3l9w_A Glutathione-regulated potassium-efflux system Pro linker, ancillary protein KEFF; potassium channel regulation, domains, antiport; HET: FMN AMP GSH; 1.75A {Escherichia coli} PDB: 3eyw_A* 3l9x_A*

Probab=88.78  E-value=3.4  Score=30.77  Aligned_cols=93  Identities=15%  Similarity=0.142  Sum_probs=51.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEec-CHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAE-NGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~-~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      ..|+++|.++.....++    ..|+.+...+ +-.+.+..+.- ...+++++-+.- +.....++..+++.+|..+|++-
T Consensus        28 ~~vvvId~d~~~v~~~~----~~g~~vi~GDat~~~~L~~agi-~~A~~viv~~~~-~~~n~~i~~~ar~~~p~~~Iiar  101 (413)
T 3l9w_A           28 VKMVVLDHDPDHIETLR----KFGMKVFYGDATRMDLLESAGA-AKAEVLINAIDD-PQTNLQLTEMVKEHFPHLQIIAR  101 (413)
T ss_dssp             CCEEEEECCHHHHHHHH----HTTCCCEESCTTCHHHHHHTTT-TTCSEEEECCSS-HHHHHHHHHHHHHHCTTCEEEEE
T ss_pred             CCEEEEECCHHHHHHHH----hCCCeEEEcCCCCHHHHHhcCC-CccCEEEECCCC-hHHHHHHHHHHHHhCCCCeEEEE
Confidence            34555555554443322    2344433222 11223333222 246777775532 22345567777888888777765


Q ss_pred             ecCCChHHHHHHHHhcccEEee
Q 045936          106 TSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      +.  +......+...|++..+.
T Consensus       102 a~--~~~~~~~L~~~Gad~Vi~  121 (413)
T 3l9w_A          102 AR--DVDHYIRLRQAGVEKPER  121 (413)
T ss_dssp             ES--SHHHHHHHHHTTCSSCEE
T ss_pred             EC--CHHHHHHHHHCCCCEEEC
Confidence            54  456677788999998764

>1req_B Methylmalonyl-COA mutase; isomerase, intramolecular transferase; HET: B12 DCA; 2.00A {Propionibacterium freudenreichii subspshermanii} SCOP: c.1.19.1 c.23.6.1 PDB: 1e1c_B* 2req_B* 3req_B* 4req_B* 5req_B* 6req_B* 7req_B*

Probab=88.61  E-value=1.6  Score=34.57  Aligned_cols=98  Identities=12%  Similarity=0.134  Sum_probs=62.6

Q ss_pred             HHHHHHHHhcCCeEEE---ecCHHHHHHHHhcCCCccEEEEeCCCCCC--CHHHHHHHHHhhCCCCcEEEEecCC-Ch-H
Q 045936           40 RIHSMILKSVGFKVEV---AENGKEAVDLFRTGAKFHIVFIDMEMPVM--DGIEATKAMRAMKVESKIVGVTSRN-SE-T  112 (145)
Q Consensus        40 ~~l~~~l~~~g~~v~~---~~~~~~~l~~l~~~~~~dlil~d~~~~~~--~g~~~~~~l~~~~~~~~ii~lt~~~-~~-~  112 (145)
                      ..+...|...||.|..   ..+ ++.++...+ ..+|+|.+...+...  ...++++.|++... ..| ++.+.. +. +
T Consensus       528 ~~va~~l~~aGfeVi~~g~~~t-ee~v~aa~e-~~adiv~lSsl~~~~~~~~~~v~~~Lk~aG~-~~V-~vgG~P~~d~~  603 (637)
T 1req_B          528 GFSSPVWHIAGIDTPQVEGGTT-AEIVEAFKK-SGAQVADLCSSAKVYAQQGLEVAKALKAAGA-KAL-YLSGAFKEFGD  603 (637)
T ss_dssp             HHHHHHHHHTTCBCCEEECCCH-HHHHHHHHH-HTCSEEEEECCHHHHHHHHHHHHHHHHHTTC-SEE-EEESCGGGGGG
T ss_pred             HHHHHHHHhCCeeEEeCCCCCC-HHHHHHHHh-cCCCEEEEecccHHHHHHHHHHHHHHHhCCC-CeE-EEeCCCCccch
Confidence            4566788888998763   234 777777765 468988776544322  23568888888765 334 455432 21 1


Q ss_pred             HHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936          113 EREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       113 ~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      ....+.+ |+++|+.--.+..++...+.+-
T Consensus       604 ~~~~~~~-G~D~~~~~g~~~~~~l~~l~~~  632 (637)
T 1req_B          604 DAAEAEK-LIDGRLFMGMDVVDTLSSTLDI  632 (637)
T ss_dssp             GHHHHHH-HCCCEECTTCCHHHHHHHHHHH
T ss_pred             hhHHHHh-ccceEecCCcCHHHHHHHHHHH
Confidence            2345556 9999998887777776666443

>3fwz_A Inner membrane protein YBAL; TRKA-N domain, E.coli, structural genomics, PSI-2, Pro structure initiative; HET: MSE AMP; 1.79A {Escherichia coli k-12}

Probab=88.56  E-value=2.9  Score=25.73  Aligned_cols=54  Identities=11%  Similarity=0.118  Sum_probs=33.0

Q ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEee
Q 045936           71 KFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus        71 ~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      ..|++++-..-+ .....++..+++..+..++++.+.  +.+....+.+.|++..+.
T Consensus        71 ~ad~vi~~~~~~-~~n~~~~~~a~~~~~~~~iiar~~--~~~~~~~l~~~G~d~vi~  124 (140)
T 3fwz_A           71 CAKWLILTIPNG-YEAGEIVASARAKNPDIEIIARAH--YDDEVAYITERGANQVVM  124 (140)
T ss_dssp             GCSEEEECCSCH-HHHHHHHHHHHHHCSSSEEEEEES--SHHHHHHHHHTTCSEEEE
T ss_pred             cCCEEEEECCCh-HHHHHHHHHHHHHCCCCeEEEEEC--CHHHHHHHHHCCCCEEEC
Confidence            357676544221 122335566777777777665543  555667778899998764

>1geq_A Tryptophan synthase alpha-subunit; hyperthermophIle, pyrococ furiosus, X-RAY analysis, stability, calorimetry, lyase; 2.00A {Pyrococcus furiosus} SCOP: c.1.2.4 PDB: 1wdw_A* 2dzu_A 2dzp_A 2e09_A 2dzw_A 2dzs_A 2dzv_A 2dzt_A 2dzx_A

Probab=87.88  E-value=4.8  Score=27.38  Aligned_cols=52  Identities=17%  Similarity=0.073  Sum_probs=35.2

Q ss_pred             HHHHHHHHHhhCCCCcEEEEecCCC------hHHHHHHHHhcccEEeeCCCCHHHHHHH
Q 045936           86 GIEATKAMRAMKVESKIVGVTSRNS------ETEREVFMQAGLDLCYTKPLTMAKIVPL  138 (145)
Q Consensus        86 g~~~~~~l~~~~~~~~ii~lt~~~~------~~~~~~~~~~g~~~~l~kP~~~~~l~~~  138 (145)
                      +.++++.+++.. +.|+.+++....      ......+.+.|++.++......++....
T Consensus        68 ~~~~i~~i~~~~-~~pv~~~~~~~~~~~~~~~~~~~~~~~~Gad~v~~~~~~~~~~~~~  125 (248)
T 1geq_A           68 AFWIVKEFRRHS-STPIVLMTYYNPIYRAGVRNFLAEAKASGVDGILVVDLPVFHAKEF  125 (248)
T ss_dssp             HHHHHHHHHTTC-CCCEEEEECHHHHHHHCHHHHHHHHHHHTCCEEEETTCCGGGHHHH
T ss_pred             HHHHHHHHHhhC-CCCEEEEeccchhhhcCHHHHHHHHHHCCCCEEEECCCChhhHHHH
Confidence            467888888764 567776653222      4677888999999988766555544433

>2gek_A Phosphatidylinositol mannosyltransferase (PIMA); GT4 glycosyltransferase, rossmann fold, complex; HET: GDP; 2.40A {Mycobacterium smegmatis} PDB: 2gej_A*

Probab=87.69  E-value=6.1  Score=28.33  Aligned_cols=107  Identities=10%  Similarity=-0.042  Sum_probs=58.4

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEE--EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVE--VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~--~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      ..+++++++.+.  ..++..++...-.+.  ..-+.++....+..   .|++++-......-|..+++.+..   ++|+|
T Consensus       240 ~~~l~i~G~~~~--~~l~~~~~~~~~~v~~~g~~~~~~~~~~~~~---adv~v~ps~~~e~~~~~~~Ea~a~---G~PvI  311 (406)
T 2gek_A          240 DVEILIVGRGDE--DELREQAGDLAGHLRFLGQVDDATKASAMRS---ADVYCAPHLGGESFGIVLVEAMAA---GTAVV  311 (406)
T ss_dssp             TCEEEEESCSCH--HHHHHHTGGGGGGEEECCSCCHHHHHHHHHH---SSEEEECCCSCCSSCHHHHHHHHH---TCEEE
T ss_pred             CeEEEEEcCCcH--HHHHHHHHhccCcEEEEecCCHHHHHHHHHH---CCEEEecCCCCCCCchHHHHHHHc---CCCEE
Confidence            345566665544  444444433211122  22233444444443   477776532122334455555433   45655


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      .. ..   .........|..+++..|-+.+++...|.++++
T Consensus       312 ~~-~~---~~~~e~i~~~~~g~~~~~~d~~~l~~~i~~l~~  348 (406)
T 2gek_A          312 AS-DL---DAFRRVLADGDAGRLVPVDDADGMAAALIGILE  348 (406)
T ss_dssp             EC-CC---HHHHHHHTTTTSSEECCTTCHHHHHHHHHHHHH
T ss_pred             Ee-cC---CcHHHHhcCCCceEEeCCCCHHHHHHHHHHHHc
Confidence            32 22   344556677788899999999999999988764

>1yad_A Regulatory protein TENI; TIM barrel, transcription; 2.10A {Bacillus subtilis} PDB: 3qh2_A*

Probab=87.37  E-value=4.9  Score=26.88  Aligned_cols=73  Identities=12%  Similarity=0.115  Sum_probs=50.0

Q ss_pred             CCeE-EEecCHHHHHHHHhcCCCccEEEEeCCCCC-------CCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhc
Q 045936           50 GFKV-EVAENGKEAVDLFRTGAKFHIVFIDMEMPV-------MDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAG  121 (145)
Q Consensus        50 g~~v-~~~~~~~~~l~~l~~~~~~dlil~d~~~~~-------~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g  121 (145)
                      |..+ ..+.+.+++......  ..|.|+++...+.       ..+++.++.+++.. .+|+++..+- +.+....++..|
T Consensus       110 ~~~ig~sv~t~~~~~~a~~~--gaD~i~~~~~f~~~~~~g~~~~~~~~l~~~~~~~-~~pvia~GGI-~~~nv~~~~~~G  185 (221)
T 1yad_A          110 HLHIGRSVHSLEEAVQAEKE--DADYVLFGHVFETDCKKGLEGRGVSLLSDIKQRI-SIPVIAIGGM-TPDRLRDVKQAG  185 (221)
T ss_dssp             TCEEEEEECSHHHHHHHHHT--TCSEEEEECCC----------CHHHHHHHHHHHC-CSCEEEESSC-CGGGHHHHHHTT
T ss_pred             CCEEEEEcCCHHHHHHHHhC--CCCEEEECCccccCCCCCCCCCCHHHHHHHHHhC-CCCEEEECCC-CHHHHHHHHHcC
Confidence            4433 367788888776654  4899988764332       13567777776644 6788776666 788888999999


Q ss_pred             ccEEe
Q 045936          122 LDLCY  126 (145)
Q Consensus       122 ~~~~l  126 (145)
                      ++.+.
T Consensus       186 a~gv~  190 (221)
T 1yad_A          186 ADGIA  190 (221)
T ss_dssp             CSEEE
T ss_pred             CCEEE
Confidence            99864

>1mxs_A KDPG aldolase; 2-keto-3-deoxy-6-phosphogluconate aldolase, sulfate, beta-BA lyase; 2.20A {Pseudomonas putida} SCOP: c.1.10.1

Probab=87.04  E-value=3  Score=28.44  Aligned_cols=93  Identities=13%  Similarity=0.148  Sum_probs=56.1

Q ss_pred             HHHHHHHHhcCC-eEEEecCHHHHHH---HHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHH
Q 045936           40 RIHSMILKSVGF-KVEVAENGKEAVD---LFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETERE  115 (145)
Q Consensus        40 ~~l~~~l~~~g~-~v~~~~~~~~~l~---~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~  115 (145)
                      ..+...|.+.+. .|....+.++++.   .+..+ ..+++=+..  ...++.+.++.+++.++...+- .....+.+...
T Consensus        17 ~~~~~~l~~~~ii~V~r~~~~~~~~~~~~al~~g-Gv~~iel~~--k~~~~~~~i~~l~~~~~~~~ig-agtvl~~d~~~   92 (225)
T 1mxs_A           17 ARIDAICEKARILPVITIAREEDILPLADALAAG-GIRTLEVTL--RSQHGLKAIQVLREQRPELCVG-AGTVLDRSMFA   92 (225)
T ss_dssp             HHHHHHHHHHSEEEEECCSCGGGHHHHHHHHHHT-TCCEEEEES--SSTHHHHHHHHHHHHCTTSEEE-EECCCSHHHHH
T ss_pred             HHHHHHHHHCCEEEEEeCCCHHHHHHHHHHHHHC-CCCEEEEec--CCccHHHHHHHHHHhCcccEEe-eCeEeeHHHHH
Confidence            344455666663 3545555555443   34443 467665554  4456788899888887755433 33345678888


Q ss_pred             HHHHhcccEEeeCCCCHHHHHH
Q 045936          116 VFMQAGLDLCYTKPLTMAKIVP  137 (145)
Q Consensus       116 ~~~~~g~~~~l~kP~~~~~l~~  137 (145)
                      .++..||+..+. |-+..++..
T Consensus        93 ~A~~aGAd~v~~-p~~d~~v~~  113 (225)
T 1mxs_A           93 AVEAAGAQFVVT-PGITEDILE  113 (225)
T ss_dssp             HHHHHTCSSEEC-SSCCHHHHH
T ss_pred             HHHHCCCCEEEe-CCCCHHHHH
Confidence            899999988765 444444433

>4fo4_A Inosine 5'-monophosphate dehydrogenase; structural genomics, IMPDH, IMP, mycophenolic acid, MOA; HET: IMP MOA; 2.03A {Vibrio cholerae o1 biovar el tor} PDB: 4ff0_A* 4hlv_A* 4fez_A

Probab=87.03  E-value=4.7  Score=29.64  Aligned_cols=66  Identities=17%  Similarity=0.251  Sum_probs=44.7

Q ss_pred             HHHHHHHhcCCCccEEEEeCCCCCCC-HHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEee
Q 045936           60 KEAVDLFRTGAKFHIVFIDMEMPVMD-GIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus        60 ~~~l~~l~~~~~~dlil~d~~~~~~~-g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      .+.++.+.+ ..+|+|.+|....... -.+.++.+++..|+.++++ ......+....+.++|++.+..
T Consensus       110 ~~~~~~lie-aGvd~I~idta~G~~~~~~~~I~~ik~~~p~v~Vi~-G~v~t~e~A~~a~~aGAD~I~v  176 (366)
T 4fo4_A          110 EERVKALVE-AGVDVLLIDSSHGHSEGVLQRIRETRAAYPHLEIIG-GNVATAEGARALIEAGVSAVKV  176 (366)
T ss_dssp             HHHHHHHHH-TTCSEEEEECSCTTSHHHHHHHHHHHHHCTTCEEEE-EEECSHHHHHHHHHHTCSEEEE
T ss_pred             HHHHHHHHh-CCCCEEEEeCCCCCCHHHHHHHHHHHHhcCCCceEe-eeeCCHHHHHHHHHcCCCEEEE
Confidence            344444444 3589999986543322 3567888888877777654 3445677788889999998766

>3l0g_A Nicotinate-nucleotide pyrophosphorylase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ALS collaborative crystallography; 2.05A {Ehrlichia chaffeensis}

Probab=86.99  E-value=2.9  Score=29.88  Aligned_cols=69  Identities=12%  Similarity=0.063  Sum_probs=48.7

Q ss_pred             ccEEEEeCCC-C-CCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936           72 FHIVFIDMEM-P-VMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus        72 ~dlil~d~~~-~-~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      .|.|++.-+. . -.+-.+.++..|+..|..+|.+-..  +.+....++++|++-.+.-.++++++...++.+
T Consensus       178 ~D~vLIKdNHi~~~G~i~~Av~~ar~~~p~~kIeVEv~--tl~e~~eAl~aGaDiImLDn~s~~~l~~av~~~  248 (300)
T 3l0g_A          178 CDGVLIKDNHIASCGSITLAIQRLRKNLKNEYIAIECD--NISQVEESLSNNVDMILLDNMSISEIKKAVDIV  248 (300)
T ss_dssp             TSCEEECHHHHHHHSCHHHHHHHHHHHSSSCCEEEEES--SHHHHHHHHHTTCSEEEEESCCHHHHHHHHHHH
T ss_pred             cceEEEcHhHHHHhCCHHHHHHHHHHhCCCCCEEEEEC--CHHHHHHHHHcCCCEEEECCCCHHHHHHHHHhh
Confidence            4656654322 1 1123457777887777777765443  457888899999999999999999999988754

>4af0_A Inosine-5'-monophosphate dehydrogenase; oxidoreductase, GTP biosynthesis, drug resistance; HET: MOA IMP; 2.20A {Cryptococcus neoformans} PDB: 4af0_B*

Probab=86.78  E-value=3.2  Score=32.25  Aligned_cols=55  Identities=15%  Similarity=0.131  Sum_probs=43.4

Q ss_pred             CccEEEEeCCCCCCC-HHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           71 KFHIVFIDMEMPVMD-GIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        71 ~~dlil~d~~~~~~~-g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      ..|++++|....... -++.++++++.+|+.+|+ ..+....+....+.++||+..-
T Consensus       293 GvD~iviD~ahGhs~~v~~~i~~ik~~~p~~~vi-aGNVaT~e~a~~Li~aGAD~vk  348 (556)
T 4af0_A          293 GLDVVVLDSSQGNSVYQIEFIKWIKQTYPKIDVI-AGNVVTREQAAQLIAAGADGLR  348 (556)
T ss_dssp             TCCEEEECCSCCCSHHHHHHHHHHHHHCTTSEEE-EEEECSHHHHHHHHHHTCSEEE
T ss_pred             CCcEEEEeccccccHHHHHHHHHHHhhCCcceEE-eccccCHHHHHHHHHcCCCEEe
Confidence            489999998765543 568999999999888765 5566677778888899999863

>4avf_A Inosine-5'-monophosphate dehydrogenase; oxidoreductase; 2.23A {Pseudomonas aeruginosa}

Probab=86.72  E-value=4.9  Score=30.68  Aligned_cols=66  Identities=17%  Similarity=0.218  Sum_probs=47.6

Q ss_pred             HHHHHHHhcCCCccEEEEeCCCCCCC-HHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEee
Q 045936           60 KEAVDLFRTGAKFHIVFIDMEMPVMD-GIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus        60 ~~~l~~l~~~~~~dlil~d~~~~~~~-g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      .+..+.+.. ..+|+|.+|...+... -.+.++.+++..|..|+++ .+....+....+.++|++.+..
T Consensus       231 ~~~a~~l~~-aG~d~I~id~a~g~~~~~~~~v~~i~~~~p~~~Vi~-g~v~t~e~a~~l~~aGaD~I~v  297 (490)
T 4avf_A          231 GERVAALVA-AGVDVVVVDTAHGHSKGVIERVRWVKQTFPDVQVIG-GNIATAEAAKALAEAGADAVKV  297 (490)
T ss_dssp             HHHHHHHHH-TTCSEEEEECSCCSBHHHHHHHHHHHHHCTTSEEEE-EEECSHHHHHHHHHTTCSEEEE
T ss_pred             HHHHHHHhh-cccceEEecccCCcchhHHHHHHHHHHHCCCceEEE-eeeCcHHHHHHHHHcCCCEEEE
Confidence            344444444 3589999998766543 4578999998887777765 4456777888899999999865

>4e5v_A Putative THUA-like protein; THUA-like proteins, trehalose utilisation, structural genomi center for structural genomics, JCSG; 1.75A {Parabacteroides merdae}

Probab=86.66  E-value=1.6  Score=30.82  Aligned_cols=80  Identities=14%  Similarity=0.209  Sum_probs=48.6

Q ss_pred             CCcEEEEEeC-----CHHHHHHHHHHHHhcC-CeEEEecCHH-----HHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHH
Q 045936           25 RPYFALVVDD-----DPMIRRIHSMILKSVG-FKVEVAENGK-----EAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAM   93 (145)
Q Consensus        25 ~~~~vlii~~-----~~~~~~~l~~~l~~~g-~~v~~~~~~~-----~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l   93 (145)
                      ++.+|||+..     -+.....|..+|++.| |.|....+..     +.+.. .- ..+|+||++......+... .+.+
T Consensus         3 ~~~kvLiv~G~~~H~~~~~~~~l~~~l~~~g~f~V~~~~d~~~~~d~~~f~~-~L-~~~D~vV~~~~~~~l~~~~-~~~l   79 (281)
T 4e5v_A            3 KPIKTLLITGQNNHNWQVSHVVLKQILENSGRFDVDFVISPEQGKDMSGFVL-DF-SPYQLVVLDYNGDSWPEET-NRRF   79 (281)
T ss_dssp             CCEEEEEEESCCSSCHHHHHHHHHHHHHHTTSEEEEEEECCCTTSCCTTCCC-CC-TTCSEEEECCCSSCCCHHH-HHHH
T ss_pred             CceEEEEEcCCCCCChHHHHHHHHHHHHhcCCEEEEEEeCCccccchhHHhh-hh-hcCCEEEEeCCCCcCCHHH-HHHH
Confidence            4678999876     3566688999999888 9988766531     22211 11 3599999887644433322 2222


Q ss_pred             Hh-hCCCCcEEEEec
Q 045936           94 RA-MKVESKIVGVTS  107 (145)
Q Consensus        94 ~~-~~~~~~ii~lt~  107 (145)
                      .+ -.....++.+-+
T Consensus        80 ~~yV~~Ggglv~~H~   94 (281)
T 4e5v_A           80 LEYVQNGGGVVIYHA   94 (281)
T ss_dssp             HHHHHTTCEEEEEGG
T ss_pred             HHHHHcCCCEEEEec
Confidence            22 223677887743

>1ujp_A Tryptophan synthase alpha chain; riken structural genomics/P initiative, RSGI, structural genomics, lyase; HET: CIT; 1.34A {Thermus thermophilus} SCOP: c.1.2.4 PDB: 1wxj_A*

Probab=86.61  E-value=2.7  Score=29.50  Aligned_cols=76  Identities=21%  Similarity=0.169  Sum_probs=48.7

Q ss_pred             HHHHHhcCCCccEEEEeCCCCC-------------------C---CHHHHHHHHHhhCCCCcEEEEecC------CChHH
Q 045936           62 AVDLFRTGAKFHIVFIDMEMPV-------------------M---DGIEATKAMRAMKVESKIVGVTSR------NSETE  113 (145)
Q Consensus        62 ~l~~l~~~~~~dlil~d~~~~~-------------------~---~g~~~~~~l~~~~~~~~ii~lt~~------~~~~~  113 (145)
                      .++.+.+ . .|+|.++.-..+                   .   ..++.++.+|+. ++.|+++++-.      .....
T Consensus        35 ~~~~l~~-~-aD~IElG~PfsdP~adGp~Iq~a~~~Al~~G~~~~~~~~~v~~ir~~-~~~Pii~m~y~n~v~~~g~~~f  111 (271)
T 1ujp_A           35 AVEEVLP-Y-ADLLEIGLPYSDPLGDGPVIQRASELALRKGMSVQGALELVREVRAL-TEKPLFLMTYLNPVLAWGPERF  111 (271)
T ss_dssp             HHHHHGG-G-CSSEEEECCCCC----CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH-CCSCEEEECCHHHHHHHCHHHH
T ss_pred             HHHHHHh-c-CCEEEECCCCCCcccccHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc-CCCCEEEEecCcHHHHhhHHHH
Confidence            4444555 4 888888764321                   1   135677888877 67899886321      12345


Q ss_pred             HHHHHHhcccEEeeCCCCHHHHHHHHH
Q 045936          114 REVFMQAGLDLCYTKPLTMAKIVPLLE  140 (145)
Q Consensus       114 ~~~~~~~g~~~~l~kP~~~~~l~~~l~  140 (145)
                      ...+.++|+++++.--+..++....++
T Consensus       112 ~~~~~~aG~dGviv~Dl~~ee~~~~~~  138 (271)
T 1ujp_A          112 FGLFKQAGATGVILPDLPPDEDPGLVR  138 (271)
T ss_dssp             HHHHHHHTCCEEECTTCCGGGCHHHHH
T ss_pred             HHHHHHcCCCEEEecCCCHHHHHHHHH
Confidence            677889999999877666665554443

>3ajx_A 3-hexulose-6-phosphate synthase; HPS, OMPDC suprafamily, LYA; 1.60A {Mycobacterium gastri}

Probab=86.33  E-value=1  Score=29.92  Aligned_cols=47  Identities=19%  Similarity=0.254  Sum_probs=27.8

Q ss_pred             HHHHHHHHHhhCCCCcEEE--EecCCChHHHHHHHHhcccEEeeCCCCH
Q 045936           86 GIEATKAMRAMKVESKIVG--VTSRNSETEREVFMQAGLDLCYTKPLTM  132 (145)
Q Consensus        86 g~~~~~~l~~~~~~~~ii~--lt~~~~~~~~~~~~~~g~~~~l~kP~~~  132 (145)
                      |.++++.|++..++.|+++  ....-.......+.+.|++.+...+...
T Consensus        40 g~~~i~~l~~~~~~~~i~~~l~~~di~~~~~~~a~~~Gad~v~vh~~~~   88 (207)
T 3ajx_A           40 GLSVITAVKKAHPDKIVFADMKTMDAGELEADIAFKAGADLVTVLGSAD   88 (207)
T ss_dssp             CTHHHHHHHHHSTTSEEEEEEEECSCHHHHHHHHHHTTCSEEEEETTSC
T ss_pred             CHHHHHHHHHhCCCCeEEEEEEecCccHHHHHHHHhCCCCEEEEeccCC
Confidence            4567777777665666653  2221123346677888888776555544

>1qpo_A Quinolinate acid phosphoribosyl transferase; type II prtase, de novo NAD biosynthesis, PRPP, phosphoribos transferase; 2.40A {Mycobacterium tuberculosis H37RV} SCOP: c.1.17.1 d.41.2.1 PDB: 1qpn_A 1qpq_A* 1qpr_A*

Probab=86.32  E-value=7  Score=27.66  Aligned_cols=94  Identities=11%  Similarity=0.065  Sum_probs=59.8

Q ss_pred             EEEEeCCHHHHH----HHHHHHHhcCC--eEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcE
Q 045936           29 ALVVDDDPMIRR----IHSMILKSVGF--KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKI  102 (145)
Q Consensus        29 vlii~~~~~~~~----~l~~~l~~~g~--~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~i  102 (145)
                      +|+-|++-....    .++..-+..++  ..+.+.+.+++.+.+..  ..|+|++|-. ....-.+.++.++..+++. .
T Consensus       168 vlikdnHi~~ag~i~~av~~ar~~~~~~~I~Vev~t~eea~eal~a--GaD~I~LDn~-~~~~~~~~v~~l~~~~~~v-~  243 (284)
T 1qpo_A          168 ALIKDNHVAAAGSVVDALRAVRNAAPDLPCEVEVDSLEQLDAVLPE--KPELILLDNF-AVWQTQTAVQRRDSRAPTV-M  243 (284)
T ss_dssp             EEECHHHHHHHSSHHHHHHHHHHHCTTSCEEEEESSHHHHHHHGGG--CCSEEEEETC-CHHHHHHHHHHHHHHCTTC-E
T ss_pred             hcccHhHHHHcCCHHHHHHHHHHhCCCCCEEEEeCCHHHHHHHHHc--CCCEEEECCC-CHHHHHHHHHHhhccCCCe-E
Confidence            666666543322    23332222332  24478899999998876  3899999963 3223334566666544444 4


Q ss_pred             EEEecCCChHHHHHHHHhcccEEe
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      +..++.-+.+.+......|++.+-
T Consensus       244 ieaSGGIt~~~i~~~a~tGVD~is  267 (284)
T 1qpo_A          244 LESSGGLSLQTAATYAETGVDYLA  267 (284)
T ss_dssp             EEEESSCCTTTHHHHHHTTCSEEE
T ss_pred             EEEECCCCHHHHHHHHhcCCCEEE
Confidence            557777888889999999998874

>1wbh_A KHG/KDPG aldolase; lyase; 1.55A {Escherichia coli} SCOP: c.1.10.1 PDB: 2c0a_A 1wau_A 1eua_A 1eun_A 1fq0_A* 1fwr_A*

Probab=86.13  E-value=5.2  Score=26.96  Aligned_cols=87  Identities=16%  Similarity=0.164  Sum_probs=47.1

Q ss_pred             HHHHhcCC-eEEEecCHHHHHH---HHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHH
Q 045936           44 MILKSVGF-KVEVAENGKEAVD---LFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQ  119 (145)
Q Consensus        44 ~~l~~~g~-~v~~~~~~~~~l~---~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~  119 (145)
                      ..|.+.+. .|....+.++++.   .+..+ ..+++=+..  ...++.+.++.+++.++... +-...-.+.+....++.
T Consensus        11 ~~l~~~~~i~v~r~~~~~~~~~~~~al~~g-Gv~~iel~~--k~~~~~~~i~~l~~~~~~~~-vgagtvi~~d~~~~A~~   86 (214)
T 1wbh_A           11 SILTTGPVVPVIVVKKLEHAVPMAKALVAG-GVRVLNVTL--RTECAVDAIRAIAKEVPEAI-VGAGTVLNPQQLAEVTE   86 (214)
T ss_dssp             HHHHSCSEEEEECCSSGGGHHHHHHHHHHT-TCCEEEEES--CSTTHHHHHHHHHHHCTTSE-EEEESCCSHHHHHHHHH
T ss_pred             HHHHHCCEEEEEECCCHHHHHHHHHHHHHc-CCCEEEEeC--CChhHHHHHHHHHHHCcCCE-EeeCEEEEHHHHHHHHH
Confidence            33444452 2334444444333   33332 356555443  34567778887877766433 22333556677888888


Q ss_pred             hcccEEeeCCCCHHHH
Q 045936          120 AGLDLCYTKPLTMAKI  135 (145)
Q Consensus       120 ~g~~~~l~kP~~~~~l  135 (145)
                      .||+..+.. -+..++
T Consensus        87 aGAd~v~~p-~~d~~v  101 (214)
T 1wbh_A           87 AGAQFAISP-GLTEPL  101 (214)
T ss_dssp             HTCSCEEES-SCCHHH
T ss_pred             cCCCEEEcC-CCCHHH
Confidence            888876554 333333

>3r2g_A Inosine 5'-monophosphate dehydrogenase; structural genomics, PSI-biology, NEW YORK structural genomi research consortium, nysgrc; 1.94A {Legionella pneumophila subsp}

Probab=86.08  E-value=5  Score=29.46  Aligned_cols=65  Identities=12%  Similarity=0.154  Sum_probs=44.3

Q ss_pred             HHHHHHhcCCCccEEEEeCCCCCCC-HHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEee
Q 045936           61 EAVDLFRTGAKFHIVFIDMEMPVMD-GIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus        61 ~~l~~l~~~~~~dlil~d~~~~~~~-g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      +.++.+.+ ..+|+|.+|....... -.+.++++++..+..+|++ .+....+....+.++|+|....
T Consensus       103 e~~~~a~~-aGvdvI~id~a~G~~~~~~e~I~~ir~~~~~~~Vi~-G~V~T~e~A~~a~~aGaD~I~V  168 (361)
T 3r2g_A          103 QRAEALRD-AGADFFCVDVAHAHAKYVGKTLKSLRQLLGSRCIMA-GNVATYAGADYLASCGADIIKA  168 (361)
T ss_dssp             HHHHHHHH-TTCCEEEEECSCCSSHHHHHHHHHHHHHHTTCEEEE-EEECSHHHHHHHHHTTCSEEEE
T ss_pred             HHHHHHHH-cCCCEEEEeCCCCCcHhHHHHHHHHHHhcCCCeEEE-cCcCCHHHHHHHHHcCCCEEEE
Confidence            34444444 3489999987654322 3568888988777777765 2345667788899999999874

>3ceu_A Thiamine phosphate pyrophosphorylase; TIM barrel-like protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacteroides thetaiotaomicron vpi-5482}

Probab=85.69  E-value=3.1  Score=27.77  Aligned_cols=67  Identities=15%  Similarity=0.137  Sum_probs=46.4

Q ss_pred             EecCHHHHHHHHhcCCCccEEEEeCCCCC--------CCHHHHHHHHHhhC-CCCcEEEEecCCChHHHHHHHHhcccEE
Q 045936           55 VAENGKEAVDLFRTGAKFHIVFIDMEMPV--------MDGIEATKAMRAMK-VESKIVGVTSRNSETEREVFMQAGLDLC  125 (145)
Q Consensus        55 ~~~~~~~~l~~l~~~~~~dlil~d~~~~~--------~~g~~~~~~l~~~~-~~~~ii~lt~~~~~~~~~~~~~~g~~~~  125 (145)
                      .+.+.+++.... .  ..|.+.++.-.+.        .-|++.++.++... ...|++.+.+-. ++....++..|++++
T Consensus        94 s~~t~~e~~~A~-~--GaDyv~~g~vf~t~sk~~~~~~~g~~~l~~~~~~~~~~iPviaiGGI~-~~nv~~~~~~Ga~gV  169 (210)
T 3ceu_A           94 SCHSVEEVKNRK-H--FYDYVFMSPIYDSISKVNYYSTYTAEELREAQKAKIIDSKVMALGGIN-EDNLLEIKDFGFGGA  169 (210)
T ss_dssp             EECSHHHHHTTG-G--GSSEEEECCCC---------CCCCHHHHHHHHHTTCSSTTEEEESSCC-TTTHHHHHHTTCSEE
T ss_pred             ecCCHHHHHHHh-h--CCCEEEECCcCCCCCCCCCCCCCCHHHHHHHHHhcCCCCCEEEECCCC-HHHHHHHHHhCCCEE
Confidence            677888876654 4  3798887654332        12567778777653 578988776654 677888889999886

>3usb_A Inosine-5'-monophosphate dehydrogenase; structural genomics, center for structural genomics of infec diseases, csgid, TIM barrel, CBS-domain; HET: MSE IMP; 2.38A {Bacillus anthracis} PDB: 3tsd_A* 3tsb_A*

Probab=85.57  E-value=5.7  Score=30.51  Aligned_cols=66  Identities=17%  Similarity=0.271  Sum_probs=47.4

Q ss_pred             HHHHHHHhcCCCccEEEEeCCCCCCCH-HHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEee
Q 045936           60 KEAVDLFRTGAKFHIVFIDMEMPVMDG-IEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus        60 ~~~l~~l~~~~~~dlil~d~~~~~~~g-~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      .+.+..+.+ ..+|++.+|...+...+ .+.++++++.+++.++++ ......+....+.++|++.+..
T Consensus       258 ~era~aLve-aGvd~I~Id~a~g~~~~v~~~i~~i~~~~~~~~vi~-g~v~t~e~a~~~~~aGad~i~v  324 (511)
T 3usb_A          258 MTRIDALVK-ASVDAIVLDTAHGHSQGVIDKVKEVRAKYPSLNIIA-GNVATAEATKALIEAGANVVKV  324 (511)
T ss_dssp             HHHHHHHHH-TTCSEEEEECSCTTSHHHHHHHHHHHHHCTTSEEEE-EEECSHHHHHHHHHHTCSEEEE
T ss_pred             HHHHHHHHh-hccceEEecccccchhhhhhHHHHHHHhCCCceEEe-eeeccHHHHHHHHHhCCCEEEE
Confidence            344444444 35899999987765544 468999999887777763 4555777888899999998764

>2q5c_A NTRC family transcriptional regulator; structural genomics, protein structure initiative; HET: SO4 GOL; 1.49A {Clostridium acetobutylicum atcc 824}

Probab=85.46  E-value=6.1  Score=26.17  Aligned_cols=115  Identities=10%  Similarity=0.133  Sum_probs=68.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEE-EecCHHHHHHHHhc-CCCccEEEEe----------CCCC----CCCHHHHH
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVE-VAENGKEAVDLFRT-GAKFHIVFID----------MEMP----VMDGIEAT   90 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~-~~~~~~~~l~~l~~-~~~~dlil~d----------~~~~----~~~g~~~~   90 (145)
                      .+++++-..+.+....+.+..+.+.++. ...+.++++...+. ...+|++|.-          .+.|    ..+|++++
T Consensus         5 ~~I~~iapy~~l~~~~~~i~~e~~~~i~i~~~~l~~~v~~a~~~~~~~dVIISRGgta~~lr~~~~iPVV~I~~s~~Dil   84 (196)
T 2q5c_A            5 LKIALISQNENLLNLFPKLALEKNFIPITKTASLTRASKIAFGLQDEVDAIISRGATSDYIKKSVSIPSISIKVTRFDTM   84 (196)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHTCEEEEEECCHHHHHHHHHHHTTTCSEEEEEHHHHHHHHTTCSSCEEEECCCHHHHH
T ss_pred             CcEEEEEccHHHHHHHHHHHhhhCCceEEEECCHHHHHHHHHHhcCCCeEEEECChHHHHHHHhCCCCEEEEcCCHhHHH
Confidence            4788888889999999998887765543 55677877776543 3457887732          1222    35677777


Q ss_pred             HHHHhhC-CCCcEEEEecCCCh---HHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936           91 KAMRAMK-VESKIVGVTSRNSE---TEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus        91 ~~l~~~~-~~~~ii~lt~~~~~---~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +.|.... ...+|-+++-....   ......+  |.+-......+.+++...++++.
T Consensus        85 ~al~~a~~~~~kIavvg~~~~~~~~~~~~~ll--~~~i~~~~~~~~~e~~~~i~~l~  139 (196)
T 2q5c_A           85 RAVYNAKRFGNELALIAYKHSIVDKHEIEAML--GVKIKEFLFSSEDEITTLISKVK  139 (196)
T ss_dssp             HHHHHHGGGCSEEEEEEESSCSSCHHHHHHHH--TCEEEEEEECSGGGHHHHHHHHH
T ss_pred             HHHHHHHhhCCcEEEEeCcchhhHHHHHHHHh--CCceEEEEeCCHHHHHHHHHHHH
Confidence            7776642 23344444332222   2233333  44333333455677777776654

>1vhc_A Putative KHG/KDPG aldolase; structural genomics, unknown function; HET: MSE; 1.89A {Haemophilus influenzae} SCOP: c.1.10.1

Probab=85.34  E-value=6.8  Score=26.61  Aligned_cols=93  Identities=17%  Similarity=0.177  Sum_probs=55.8

Q ss_pred             HHHHHHhcCC-eEEEecCHHHHHH---HHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHH
Q 045936           42 HSMILKSVGF-KVEVAENGKEAVD---LFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVF  117 (145)
Q Consensus        42 l~~~l~~~g~-~v~~~~~~~~~l~---~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~  117 (145)
                      +...|...+. .|....+.++++.   .+..+ ..+++=+..  ...++.+.++.+++..+...+ -.....+.+....+
T Consensus        10 ~~~~l~~~~ii~vir~~~~~~~~~~~~al~~g-Gv~~iel~~--k~~~~~~~i~~l~~~~~~l~v-gaGtvl~~d~~~~A   85 (224)
T 1vhc_A           10 IIEKLRELKIVPVIALDNADDILPLADTLAKN-GLSVAEITF--RSEAAADAIRLLRANRPDFLI-AAGTVLTAEQVVLA   85 (224)
T ss_dssp             HHHHHHHHCEEEEECCSSGGGHHHHHHHHHHT-TCCEEEEET--TSTTHHHHHHHHHHHCTTCEE-EEESCCSHHHHHHH
T ss_pred             HHHHHHHCCeEEEEeCCCHHHHHHHHHHHHHc-CCCEEEEec--cCchHHHHHHHHHHhCcCcEE-eeCcEeeHHHHHHH
Confidence            3345555663 3445555555543   33342 367665554  455788899988888765433 23334467888899


Q ss_pred             HHhcccEEeeCCCCHHHHHHHH
Q 045936          118 MQAGLDLCYTKPLTMAKIVPLL  139 (145)
Q Consensus       118 ~~~g~~~~l~kP~~~~~l~~~l  139 (145)
                      +..||+..+. |.+..++....
T Consensus        86 ~~aGAd~v~~-p~~d~~v~~~a  106 (224)
T 1vhc_A           86 KSSGADFVVT-PGLNPKIVKLC  106 (224)
T ss_dssp             HHHTCSEEEC-SSCCHHHHHHH
T ss_pred             HHCCCCEEEE-CCCCHHHHHHH
Confidence            9999988765 44444444333

>2vws_A YFAU, 2-keto-3-deoxy sugar aldolase; lyase, escherichia coli K-12 protein YFAU, 2-keto-3-deoxy SU aldolase, degradation of homoprotocatechuate; 1.39A {Escherichia coli} PDB: 2vwt_A

Probab=84.84  E-value=7.9  Score=26.95  Aligned_cols=99  Identities=12%  Similarity=0.051  Sum_probs=61.4

Q ss_pred             HHHHHHhcCC---eEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC-CCCcEEEEecCCChHHHHHH
Q 045936           42 HSMILKSVGF---KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK-VESKIVGVTSRNSETEREVF  117 (145)
Q Consensus        42 l~~~l~~~g~---~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~-~~~~ii~lt~~~~~~~~~~~  117 (145)
                      ++..|.. |.   .++..-...+.++.+.. ..+|.+++|+.....+..++...++... ...++++=+...++..+..+
T Consensus         9 ~k~~l~~-g~~~~g~~~~~~~p~~~e~a~~-~GaD~v~lDlE~~~~~~~~~~~~~~a~~~~~~~~~VRv~~~~~~~i~~~   86 (267)
T 2vws_A            9 FKERLRK-GEVQIGLWLSSTTAYMAEIAAT-SGYDWLLIDGEHAPNTIQDLYHQLQAVAPYASQPVIRPVEGSKPLIKQV   86 (267)
T ss_dssp             HHHHHHT-TCCEEEEEECSCCHHHHHHHHT-TCCSEEEEETTTSCCCHHHHHHHHHHHTTSSSEEEEECSSCCHHHHHHH
T ss_pred             HHHHHHC-CCCEEEEEEeCCCHHHHHHHHh-CCCCEEEEcCCCCCCCHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHH
Confidence            4455543 43   23333333444444444 4599999998766555555555555432 24555555666778888889


Q ss_pred             HHhcccEE-eeCCCCHHHHHHHHHHH
Q 045936          118 MQAGLDLC-YTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       118 ~~~g~~~~-l~kP~~~~~l~~~l~~~  142 (145)
                      ++.|++.. ++|--+.+++...++.+
T Consensus        87 l~~g~~~I~~P~V~s~ee~~~~~~~~  112 (267)
T 2vws_A           87 LDIGAQTLLIPMVDTAEQARQVVSAT  112 (267)
T ss_dssp             HHTTCCEEEECCCCSHHHHHHHHHHT
T ss_pred             HHhCCCEEEeCCCCCHHHHHHHHHHH
Confidence            99999885 56677788877766543

>2v5j_A 2,4-dihydroxyhept-2-ENE-1,7-dioic acid aldolase; lyase, class II aldolase, homoprotocatechuate, aromatic DEGR aromatic hydrocarbons catabolism; 1.60A {Escherichia coli} PDB: 2v5k_A

Probab=84.67  E-value=8.5  Score=27.18  Aligned_cols=84  Identities=15%  Similarity=0.120  Sum_probs=56.3

Q ss_pred             ecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC-CCCcEEEEecCCChHHHHHHHHhcccEE-eeCCCCHH
Q 045936           56 AENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK-VESKIVGVTSRNSETEREVFMQAGLDLC-YTKPLTMA  133 (145)
Q Consensus        56 ~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~-~~~~ii~lt~~~~~~~~~~~~~~g~~~~-l~kP~~~~  133 (145)
                      ..+.+.+ +.+.. ..+|.+++|+.-...+--++...++... ...++++=+...++..+..+++.|++.. ++|--+.+
T Consensus        47 ~~~p~~~-e~a~~-~GaD~v~lDlEh~~~~~~~~~~~l~a~~~~~~~~~VRv~~~d~~di~~~ld~ga~~ImlP~V~sae  124 (287)
T 2v5j_A           47 LSSSYSA-ELLAG-AGFDWLLIDGEHAPNNVQTVLTQLQAIAPYPSQPVVRPSWNDPVQIKQLLDVGTQTLLVPMVQNAD  124 (287)
T ss_dssp             SCCHHHH-HHHHT-SCCSEEEEESSSSSCCHHHHHHHHHHHTTSSSEEEEECSSSCHHHHHHHHHTTCCEEEESCCCSHH
T ss_pred             CCCHHHH-HHHHh-CCCCEEEEeCCCccchHHHHHHHHHHHHhcCCCEEEEECCCCHHHHHHHHhCCCCEEEeCCCCCHH
Confidence            3444444 44444 3599999998766555555555555432 2455665577777888888999999886 56677788


Q ss_pred             HHHHHHHH
Q 045936          134 KIVPLLEE  141 (145)
Q Consensus       134 ~l~~~l~~  141 (145)
                      ++...++.
T Consensus       125 ea~~~~~~  132 (287)
T 2v5j_A          125 EAREAVRA  132 (287)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            87776654

>3dr5_A Putative O-methyltransferase; Q8NRD3, CGL1119, PF01596, CGR117, NESG, structural genomics, PSI-2, protein structure initiative; 2.25A {Corynebacterium glutamicum}

Probab=84.60  E-value=6.8  Score=26.24  Aligned_cols=76  Identities=11%  Similarity=0.171  Sum_probs=49.7

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCe---EE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh-CCCC
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFK---VE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM-KVES  100 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~---v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~-~~~~  100 (145)
                      ..+|..+|-++......+..++..|+.   +. ...+..+.+..+.. ..||+|++|....  .-.++++.+.+. .|+ 
T Consensus        81 ~~~v~~vD~~~~~~~~a~~~~~~~g~~~~~i~~~~gda~~~l~~~~~-~~fD~V~~d~~~~--~~~~~l~~~~~~LkpG-  156 (221)
T 3dr5_A           81 NTTLTCIDPESEHQRQAKALFREAGYSPSRVRFLLSRPLDVMSRLAN-DSYQLVFGQVSPM--DLKALVDAAWPLLRRG-  156 (221)
T ss_dssp             TSEEEEECSCHHHHHHHHHHHHHTTCCGGGEEEECSCHHHHGGGSCT-TCEEEEEECCCTT--THHHHHHHHHHHEEEE-
T ss_pred             CCEEEEEECCHHHHHHHHHHHHHcCCCcCcEEEEEcCHHHHHHHhcC-CCcCeEEEcCcHH--HHHHHHHHHHHHcCCC-
Confidence            358999999999999999999887754   54 45566665544323 4699999997533  333455555443 333 


Q ss_pred             cEEEE
Q 045936          101 KIVGV  105 (145)
Q Consensus       101 ~ii~l  105 (145)
                      .++++
T Consensus       157 G~lv~  161 (221)
T 3dr5_A          157 GALVL  161 (221)
T ss_dssp             EEEEE
T ss_pred             cEEEE
Confidence            34444

>2fli_A Ribulose-phosphate 3-epimerase; (beta/alpha)8-barrel, D- xylitol 5-phosphate, isomerase; HET: DX5; 1.80A {Streptococcus pyogenes} SCOP: c.1.2.2

Probab=84.50  E-value=4.6  Score=26.87  Aligned_cols=70  Identities=17%  Similarity=0.189  Sum_probs=41.7

Q ss_pred             ccEEEEeCCCCCCCH-------HHHHHHHHhhC----CCCcEEEEecCCChHHHHHHHHhcccEEe-----eCCCCHHHH
Q 045936           72 FHIVFIDMEMPVMDG-------IEATKAMRAMK----VESKIVGVTSRNSETEREVFMQAGLDLCY-----TKPLTMAKI  135 (145)
Q Consensus        72 ~dlil~d~~~~~~~g-------~~~~~~l~~~~----~~~~ii~lt~~~~~~~~~~~~~~g~~~~l-----~kP~~~~~l  135 (145)
                      .|.++++...++.+|       ++-++.+++..    .+.|++ ++..-+++....+.+.|++.+.     .+.-++.+-
T Consensus       132 ~d~vl~~~~~~g~~g~~~~~~~~~~i~~~~~~~~~~~~~~~i~-v~GGI~~~~~~~~~~~Gad~vvvGsai~~~~d~~~a  210 (220)
T 2fli_A          132 VDQVLIMTVNPGFGGQAFIPECLEKVATVAKWRDEKGLSFDIE-VDGGVDNKTIRACYEAGANVFVAGSYLFKASDLVSQ  210 (220)
T ss_dssp             CSEEEEESSCTTCSSCCCCGGGHHHHHHHHHHHHHTTCCCEEE-EESSCCTTTHHHHHHHTCCEEEESHHHHTSSCHHHH
T ss_pred             CCEEEEEEECCCCcccccCHHHHHHHHHHHHHHHhcCCCceEE-EECcCCHHHHHHHHHcCCCEEEEChHHhCCCCHHHH
Confidence            688877665544332       34455555532    245655 4455556777778888999874     445556665


Q ss_pred             HHHHHHH
Q 045936          136 VPLLEEL  142 (145)
Q Consensus       136 ~~~l~~~  142 (145)
                      .+.+++.
T Consensus       211 ~~~~~~~  217 (220)
T 2fli_A          211 VQTLRTA  217 (220)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555544

>1wa3_A 2-keto-3-deoxy-6-phosphogluconate aldolase; KDPG, pyruvate, lyase; 1.9A {Thermotoga maritima} SCOP: c.1.10.1 PDB: 1vlw_A

Probab=84.32  E-value=5.7  Score=26.13  Aligned_cols=75  Identities=17%  Similarity=0.044  Sum_probs=46.9

Q ss_pred             HhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEE
Q 045936           47 KSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLC  125 (145)
Q Consensus        47 ~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~  125 (145)
                      ++.|..+. .+.+..++...+..  ..|++-+...  ...|.+.++.++...++.|++...+- +.+....++..|++.+
T Consensus       101 ~~~g~~vi~g~~t~~e~~~a~~~--Gad~vk~~~~--~~~g~~~~~~l~~~~~~~pvia~GGI-~~~~~~~~~~~Ga~~v  175 (205)
T 1wa3_A          101 KEKGVFYMPGVMTPTELVKAMKL--GHTILKLFPG--EVVGPQFVKAMKGPFPNVKFVPTGGV-NLDNVCEWFKAGVLAV  175 (205)
T ss_dssp             HHHTCEEECEECSHHHHHHHHHT--TCCEEEETTH--HHHHHHHHHHHHTTCTTCEEEEBSSC-CTTTHHHHHHHTCSCE
T ss_pred             HHcCCcEECCcCCHHHHHHHHHc--CCCEEEEcCc--cccCHHHHHHHHHhCCCCcEEEcCCC-CHHHHHHHHHCCCCEE
Confidence            33444333 33467777666654  3676654311  11367788888776667777766555 4667888999999887


Q ss_pred             e
Q 045936          126 Y  126 (145)
Q Consensus       126 l  126 (145)
                      .
T Consensus       176 ~  176 (205)
T 1wa3_A          176 G  176 (205)
T ss_dssp             E
T ss_pred             E
Confidence            4

>3paj_A Nicotinate-nucleotide pyrophosphorylase, carboxyl; TIM barrel, pyridin dicarboxylate, 5-phospho-alpha-D-ribose 1-diphosphate; 2.00A {Vibrio cholerae o1 biovar el tor}

Probab=83.82  E-value=4.8  Score=29.05  Aligned_cols=54  Identities=13%  Similarity=0.108  Sum_probs=41.8

Q ss_pred             HHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936           87 IEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus        87 ~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      .+.++..++..|..+|.+....  .+....++..|++......++++.+...++.+
T Consensus       219 ~~Av~~ar~~~p~~kIeVEVdt--ldea~eAl~aGaD~I~LDn~~~~~l~~av~~l  272 (320)
T 3paj_A          219 RQAISTAKQLNPGKPVEVETET--LAELEEAISAGADIIMLDNFSLEMMREAVKIN  272 (320)
T ss_dssp             HHHHHHHHHHSTTSCEEEEESS--HHHHHHHHHTTCSEEEEESCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCeEEEEECC--HHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence            4567777887777777665443  35677888999999999999999999888654

>1dxe_A 2-dehydro-3-deoxy-galactarate aldolase; class II aldolase; 1.8A {Escherichia coli} SCOP: c.1.12.5 PDB: 1dxf_A

Probab=83.79  E-value=8.6  Score=26.54  Aligned_cols=99  Identities=13%  Similarity=0.002  Sum_probs=60.6

Q ss_pred             HHHHHHhcC--CeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh-CCCCcEEEEecCCChHHHHHHH
Q 045936           42 HSMILKSVG--FKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM-KVESKIVGVTSRNSETEREVFM  118 (145)
Q Consensus        42 l~~~l~~~g--~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~-~~~~~ii~lt~~~~~~~~~~~~  118 (145)
                      ++..|....  +.++.+-+..+.++.+.. ..+|.+++|+.-...+--+....++.. ....++++=+...++..+..++
T Consensus        10 ~k~~l~~g~~~~~~~l~v~~p~~~e~a~~-~gaD~v~lDlEd~p~~~~~a~~~~~~~~~~~~~~~VRv~~~~~~~i~~~l   88 (256)
T 1dxe_A           10 FKAALAAKQVQIGCWSALSNPISTEVLGL-AGFDWLVLDGEHAPNDISTFIPQLMALKGSASAPVVRVPTNEPVIIKRLL   88 (256)
T ss_dssp             HHHHHHTTCCEEEEEECSCSHHHHHHHTT-SCCSEEEEESSSSSCCHHHHHHHHHHTTTCSSEEEEECSSSCHHHHHHHH
T ss_pred             HHHHHHCCCCeEEEEEeCCCHHHHHHHHh-CCCCEEEEcCCCCCCCHHHHHHHHHHHHhCCCcEEEECCCCCHHHHHHHH
Confidence            455554422  233433334444455544 459999999876544444444444432 2235565556777788888899


Q ss_pred             HhcccEE-eeCCCCHHHHHHHHHH
Q 045936          119 QAGLDLC-YTKPLTMAKIVPLLEE  141 (145)
Q Consensus       119 ~~g~~~~-l~kP~~~~~l~~~l~~  141 (145)
                      +.|++++ ++|--+.+++...++.
T Consensus        89 ~~g~~gI~~P~V~s~~ev~~~~~~  112 (256)
T 1dxe_A           89 DIGFYNFLIPFVETKEEAELAVAS  112 (256)
T ss_dssp             HTTCCEEEESCCCSHHHHHHHHHT
T ss_pred             hcCCceeeecCcCCHHHHHHHHHH
Confidence            9999885 5677788888766543

>1xm3_A Thiazole biosynthesis protein THIG; structural genomics, protein structure initiative, PSI, NESG, northeast structural genomics consortium; 1.80A {Bacillus subtilis} SCOP: c.1.31.1 PDB: 1tyg_A

Probab=83.77  E-value=8.8  Score=26.64  Aligned_cols=74  Identities=14%  Similarity=0.050  Sum_probs=48.9

Q ss_pred             CCeEE--EecCHHHHHHHHhcCCCccEEEE-eCCCC---CCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhccc
Q 045936           50 GFKVE--VAENGKEAVDLFRTGAKFHIVFI-DMEMP---VMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLD  123 (145)
Q Consensus        50 g~~v~--~~~~~~~~l~~l~~~~~~dlil~-d~~~~---~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~  123 (145)
                      |+.+.  .+.+.+++.+....  ..|.|+. .....   +..+.+.++.+++. .+.|+++..+-.+++....++..|++
T Consensus       126 g~~vi~~~~~~~~~a~~~~~~--gad~v~~~~~~~Gt~~~~~~~~~l~~i~~~-~~iPviv~gGI~t~eda~~~~~~GAd  202 (264)
T 1xm3_A          126 GFIVLPYTSDDVVLARKLEEL--GVHAIMPGASPIGSGQGILNPLNLSFIIEQ-AKVPVIVDAGIGSPKDAAYAMELGAD  202 (264)
T ss_dssp             TCCEEEEECSCHHHHHHHHHH--TCSCBEECSSSTTCCCCCSCHHHHHHHHHH-CSSCBEEESCCCSHHHHHHHHHTTCS
T ss_pred             CeEEEEEcCCCHHHHHHHHHh--CCCEEEECCcccCCCCCCCCHHHHHHHHhc-CCCCEEEEeCCCCHHHHHHHHHcCCC
Confidence            76654  55677666555544  3565532 11111   12246788888874 47899888888788999999999999


Q ss_pred             EEe
Q 045936          124 LCY  126 (145)
Q Consensus       124 ~~l  126 (145)
                      .++
T Consensus       203 gVi  205 (264)
T 1xm3_A          203 GVL  205 (264)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            985

>2yw3_A 4-hydroxy-2-oxoglutarate aldolase/2-deydro-3- deoxyphosphogluconate aldolase; structural genomics, NPPSFA; 1.67A {Thermus thermophilus} PDB: 2yw4_A

Probab=83.68  E-value=7.7  Score=25.89  Aligned_cols=91  Identities=9%  Similarity=0.028  Sum_probs=61.2

Q ss_pred             HHhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCC-CC-HHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcc
Q 045936           46 LKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPV-MD-GIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGL  122 (145)
Q Consensus        46 l~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~-~~-g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~  122 (145)
                      .+..|..+. -+.+.+++.+..+.  ..|.+-+   .|. .- |.+.++.++...++.|++.+.+ -+.+.....+..|+
T Consensus       100 ~~~~g~~~i~G~~t~~e~~~A~~~--Gad~v~~---fpa~~~gG~~~lk~l~~~~~~ipvvaiGG-I~~~n~~~~l~aGa  173 (207)
T 2yw3_A          100 AQARGVPYLPGVLTPTEVERALAL--GLSALKF---FPAEPFQGVRVLRAYAEVFPEVRFLPTGG-IKEEHLPHYAALPN  173 (207)
T ss_dssp             HHHHTCCEEEEECSHHHHHHHHHT--TCCEEEE---TTTTTTTHHHHHHHHHHHCTTCEEEEBSS-CCGGGHHHHHTCSS
T ss_pred             HHHhCCCEEecCCCHHHHHHHHHC--CCCEEEE---ecCccccCHHHHHHHHhhCCCCcEEEeCC-CCHHHHHHHHhCCC
Confidence            333554433 57889999888765  3787765   333 22 8889999998887888876554 45678888999998


Q ss_pred             cEEe-----eCCCCHHHHHHHHHHHh
Q 045936          123 DLCY-----TKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       123 ~~~l-----~kP~~~~~l~~~l~~~~  143 (145)
                      +.+.     .+ -+++++....+++.
T Consensus       174 ~~vavgSai~~-~d~~~i~~~a~~~~  198 (207)
T 2yw3_A          174 LLAVGGSWLLQ-GNLEAVRAKVRAAK  198 (207)
T ss_dssp             BSCEEESGGGS-SCHHHHHHHHHHHH
T ss_pred             cEEEEehhhhC-CCHHHHHHHHHHHH
Confidence            7753     33 45555666655543

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=83.61  E-value=4.3  Score=27.10  Aligned_cols=45  Identities=11%  Similarity=0.013  Sum_probs=29.2

Q ss_pred             CCccEEEEeCC-----CCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHH
Q 045936           70 AKFHIVFIDME-----MPVMDGIEATKAMRAMKVESKIVGVTSRNSETER  114 (145)
Q Consensus        70 ~~~dlil~d~~-----~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~  114 (145)
                      ..+|+||+|--     +.-.+.-++++.|...+...-+|+.+....++.+
T Consensus       119 ~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~ap~~l~  168 (196)
T 1g5t_A          119 PLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGCHRDIL  168 (196)
T ss_dssp             TTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSCCHHHH
T ss_pred             CCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCCcHHHH
Confidence            46999999953     2335566788888877666666654444444433

>1xi3_A Thiamine phosphate pyrophosphorylase; structural genomics, southeast collaboratory for structural genomics, hyperthermophIle; 1.70A {Pyrococcus furiosus} SCOP: c.1.3.1

Probab=83.43  E-value=7.5  Score=25.57  Aligned_cols=68  Identities=13%  Similarity=0.150  Sum_probs=47.4

Q ss_pred             EecCHHHHHHHHhcCCCccEEEEeCCCCC-------CCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           55 VAENGKEAVDLFRTGAKFHIVFIDMEMPV-------MDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        55 ~~~~~~~~l~~l~~~~~~dlil~d~~~~~-------~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      .+.+.+++......  .+|.++++.-.+.       ..+++.++.+++.. ..|+++..+-. .+....++..|++.+.
T Consensus       114 ~~~t~~e~~~~~~~--g~d~i~~~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~pvia~GGI~-~~nv~~~~~~Ga~gv~  188 (215)
T 1xi3_A          114 SVYSLEEALEAEKK--GADYLGAGSVFPTKTKEDARVIGLEGLRKIVESV-KIPVVAIGGIN-KDNAREVLKTGVDGIA  188 (215)
T ss_dssp             EESSHHHHHHHHHH--TCSEEEEECSSCC----CCCCCHHHHHHHHHHHC-SSCEEEESSCC-TTTHHHHHTTTCSEEE
T ss_pred             ecCCHHHHHHHHhc--CCCEEEEcCCccCCCCCCCCCcCHHHHHHHHHhC-CCCEEEECCcC-HHHHHHHHHcCCCEEE
Confidence            56788887665544  4899988753332       34778888887654 67877665554 7777788889999874

>2l69_A Rossmann 2X3 fold protein; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Artificial gene}

Probab=83.27  E-value=5  Score=23.45  Aligned_cols=113  Identities=18%  Similarity=0.211  Sum_probs=63.8

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcC-CCcc--EEEEeCCCCCCC-HHHHHHHHHhhCCCCcEE
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTG-AKFH--IVFIDMEMPVMD-GIEATKAMRAMKVESKIV  103 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~-~~~d--lil~d~~~~~~~-g~~~~~~l~~~~~~~~ii  103 (145)
                      -+++...+......++.+++.+||.+.++.+..+.-..+..- ..|.  ++++-  ..+.. +-..++..++.+...-||
T Consensus         4 vivvfstdeetlrkfkdiikkngfkvrtvrspqelkdsieelvkkynativvvv--vddkewaekairfvkslgaqvlii   81 (134)
T 2l69_A            4 VIVVFSTDEETLRKFKDIIKKNGFKVRTVRSPQELKDSIEELVKKYNATIVVVV--VDDKEWAEKAIRFVKSLGAQVLII   81 (134)
T ss_dssp             EEEECCCCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHHHHHTTCCCCEEEEEE--CSSHHHHHHHHHHHHHHCCCCEEE
T ss_pred             EEEEEeCCHHHHHHHHHHHHhcCceEEEecCHHHHHHHHHHHHHHhCCeEEEEE--EccHHHHHHHHHHHHhcCCeEEEE
Confidence            356677788888999999999999999999998876655420 1233  33221  12222 334566666665544444


Q ss_pred             EEecCCCh--HHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSE--TEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~--~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++....+.  +.-....+-|..--  .--+++.+...++++++
T Consensus        82 iydqdqnrleefsrevrrrgfevr--tvtspddfkkslerlir  122 (134)
T 2l69_A           82 IYDQDQNRLEEFSREVRRRGFEVR--TVTSPDDFKKSLERLIR  122 (134)
T ss_dssp             EECSCHHHHHHHHHHHHHTTCCEE--EESSHHHHHHHHHHHHH
T ss_pred             EEeCchhHHHHHHHHHHhcCceEE--EecChHHHHHHHHHHHH
Confidence            44332211  12223344454332  12345667666666653

>2gjl_A Hypothetical protein PA1024; 2-nitropropane dioxygenase, 2-nitropropane, FMN, oxidoreduct; HET: FMN; 2.00A {Pseudomonas aeruginosa PAO1} PDB: 2gjn_A*

Probab=83.13  E-value=10  Score=27.01  Aligned_cols=81  Identities=16%  Similarity=0.026  Sum_probs=55.1

Q ss_pred             HHHHHhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCC----C---CCHHHHHHHHHhhCCCCcEEEEecCCChHHH
Q 045936           43 SMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMP----V---MDGIEATKAMRAMKVESKIVGVTSRNSETER  114 (145)
Q Consensus        43 ~~~l~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~----~---~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~  114 (145)
                      ...++..|..+. .+.+.+++......  ..|.++++-.-.    +   ...+++++.+++.. ++||++-.+-.+.+..
T Consensus       111 ~~~l~~~gi~vi~~v~t~~~a~~~~~~--GaD~i~v~g~~~GG~~G~~~~~~~~~l~~v~~~~-~iPviaaGGI~~~~~v  187 (328)
T 2gjl_A          111 IAEFRRHGVKVIHKCTAVRHALKAERL--GVDAVSIDGFECAGHPGEDDIPGLVLLPAAANRL-RVPIIASGGFADGRGL  187 (328)
T ss_dssp             HHHHHHTTCEEEEEESSHHHHHHHHHT--TCSEEEEECTTCSBCCCSSCCCHHHHHHHHHTTC-CSCEEEESSCCSHHHH
T ss_pred             HHHHHHcCCCEEeeCCCHHHHHHHHHc--CCCEEEEECCCCCcCCCCccccHHHHHHHHHHhc-CCCEEEECCCCCHHHH
Confidence            344555576554 56788888776654  379888753221    1   24677777777643 6788877777788888


Q ss_pred             HHHHHhcccEEe
Q 045936          115 EVFMQAGLDLCY  126 (145)
Q Consensus       115 ~~~~~~g~~~~l  126 (145)
                      ..++..|++.+.
T Consensus       188 ~~al~~GAdgV~  199 (328)
T 2gjl_A          188 VAALALGADAIN  199 (328)
T ss_dssp             HHHHHHTCSEEE
T ss_pred             HHHHHcCCCEEE
Confidence            888899999864

>1qdl_B Protein (anthranilate synthase (TRPG-SUBUNIT)); tryptophan biosynthesis, glutamine amidotransferase, allosteric interaction, lyase; 2.50A {Sulfolobus solfataricus} SCOP: c.23.16.1

Probab=83.01  E-value=4.7  Score=26.45  Aligned_cols=78  Identities=14%  Similarity=0.115  Sum_probs=43.1

Q ss_pred             EEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEe-CCCCCCCH--HH-HHHHHHhhCCCCcEEE
Q 045936           29 ALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFID-MEMPVMDG--IE-ATKAMRAMKVESKIVG  104 (145)
Q Consensus        29 vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d-~~~~~~~g--~~-~~~~l~~~~~~~~ii~  104 (145)
                      |+|+|........+...|++.|+.+..+...+..+..+.. ..+|.+++- --....+.  .. ..+.++......|++-
T Consensus         4 i~iid~~~s~~~~~~~~l~~~G~~~~v~~~~~~~~~~~~~-~~~dglil~gG~~~~~~~~~~~~~~~~i~~~~~~~PvLG   82 (195)
T 1qdl_B            4 TLIIDNYDSFVYNIAQIVGELGSYPIVIRNDEISIKGIER-IDPDRLIISPGPGTPEKREDIGVSLDVIKYLGKRTPILG   82 (195)
T ss_dssp             EEEEECSCSSHHHHHHHHHHTTCEEEEEETTTSCHHHHHH-HCCSEEEECCCSSCTTSHHHHTTHHHHHHHHTTTSCEEE
T ss_pred             EEEEECCCchHHHHHHHHHhCCCEEEEEeCCCCCHHHHhh-CCCCEEEECCCCCChhhhhhhhHHHHHHHHhcCCCcEEE
Confidence            8999987776677888999899887655543211222332 247877772 11111111  11 1234443334678876


Q ss_pred             Eec
Q 045936          105 VTS  107 (145)
Q Consensus       105 lt~  107 (145)
                      ++-
T Consensus        83 IC~   85 (195)
T 1qdl_B           83 VCL   85 (195)
T ss_dssp             ETH
T ss_pred             Eeh
Confidence            644

>1i1q_B Anthranilate synthase component II; tryptophan biosynthesis, lyase; HET: TRP; 1.90A {Salmonella typhimurium} SCOP: c.23.16.1 PDB: 1i7q_B 1i7s_B*

Probab=82.13  E-value=5.4  Score=26.05  Aligned_cols=51  Identities=16%  Similarity=0.115  Sum_probs=33.2

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEecCH---HHHHHHHhcCCCccEEEEe
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAENG---KEAVDLFRTGAKFHIVFID   78 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~---~~~l~~l~~~~~~dlil~d   78 (145)
                      +|+|+|+.......+...|++.|+.+..+.+.   ++....+.....+++||..
T Consensus         2 ~i~iiDn~~s~~~~i~~~l~~~G~~~~v~~~~~~~~~i~~~l~~~~~~~iil~g   55 (192)
T 1i1q_B            2 DILLLDNIDSFTWNLADQLRTNGHNVVIYRNHIPAQTLIDRLATMKNPVLMLSP   55 (192)
T ss_dssp             EEEEEECSCSSHHHHHHHHHHTTCEEEEEETTSCSHHHHHHHTTCSSEEEEECC
T ss_pred             cEEEEECCccHHHHHHHHHHHCCCeEEEEECCCCHHHHHHHhhhccCCeEEECC
Confidence            68999977777788889999999887655544   4444444321234566643

>1o4u_A Type II quinolic acid phosphoribosyltransferase; structural genomics, joint center for structural genomics, J protein structure initiative; 2.50A {Thermotoga maritima} SCOP: c.1.17.1 d.41.2.1

Probab=81.78  E-value=6.1  Score=28.00  Aligned_cols=55  Identities=15%  Similarity=0.137  Sum_probs=41.6

Q ss_pred             HHHHHHHHHhhCCC-CcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936           86 GIEATKAMRAMKVE-SKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus        86 g~~~~~~l~~~~~~-~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      -.+.++..|+..+. .+|.+-  ..+.+....+++.|++.++..+++++.+...++.+
T Consensus       179 i~~av~~ar~~~~~~~~I~VE--V~tleea~eA~~aGaD~I~LDn~~~e~l~~av~~l  234 (285)
T 1o4u_A          179 AERAVQEVRKIIPFTTKIEVE--VENLEDALRAVEAGADIVMLDNLSPEEVKDISRRI  234 (285)
T ss_dssp             HHHHHHHHHTTSCTTSCEEEE--ESSHHHHHHHHHTTCSEEEEESCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCceEEEE--eCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence            34577777877665 455443  33577888899999999989999999999888765

>1qpo_A Quinolinate acid phosphoribosyl transferase; type II prtase, de novo NAD biosynthesis, PRPP, phosphoribos transferase; 2.40A {Mycobacterium tuberculosis H37RV} SCOP: c.1.17.1 d.41.2.1 PDB: 1qpn_A 1qpq_A* 1qpr_A*

Probab=81.60  E-value=7.3  Score=27.56  Aligned_cols=54  Identities=9%  Similarity=0.081  Sum_probs=41.9

Q ss_pred             HHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936           87 IEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus        87 ~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      .+.++..|+..|..+|.+-..  +.+....++++|++.++..+++++++...++.+
T Consensus       182 ~~av~~ar~~~~~~~I~Vev~--t~eea~eal~aGaD~I~LDn~~~~~~~~~v~~l  235 (284)
T 1qpo_A          182 VDALRAVRNAAPDLPCEVEVD--SLEQLDAVLPEKPELILLDNFAVWQTQTAVQRR  235 (284)
T ss_dssp             HHHHHHHHHHCTTSCEEEEES--SHHHHHHHGGGCCSEEEEETCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCCEEEEeC--CHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence            457777888776666655443  467888899999999989999999999888764

>2tps_A Protein (thiamin phosphate synthase); thiamin biosynthesis, TIM barrel; HET: TPS; 1.25A {Bacillus subtilis} SCOP: c.1.3.1 PDB: 1g4t_A* 3o15_A* 1g6c_A* 1g4e_A* 1g69_A* 3o16_A 1g4s_A* 1g4p_A* 1g67_A*

Probab=81.57  E-value=9.4  Score=25.40  Aligned_cols=69  Identities=20%  Similarity=0.183  Sum_probs=45.1

Q ss_pred             EecCHHHHHHHHhcCCCccEEEEeCCCC--------CCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           55 VAENGKEAVDLFRTGAKFHIVFIDMEMP--------VMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        55 ~~~~~~~~l~~l~~~~~~dlil~d~~~~--------~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      .+.+.+++......  .+|.+++..-.+        ...+++.++.+++..++.|+++..+-. .+....++..|++.+.
T Consensus       122 s~~t~~e~~~a~~~--g~d~v~~~~v~~t~~~~~~~~~~~~~~l~~~~~~~~~~pvia~GGI~-~~nv~~~~~~Ga~gv~  198 (227)
T 2tps_A          122 SAHTMSEVKQAEED--GADYVGLGPIYPTETKKDTRAVQGVSLIEAVRRQGISIPIVGIGGIT-IDNAAPVIQAGADGVS  198 (227)
T ss_dssp             EECSHHHHHHHHHH--TCSEEEECCSSCCCSSSSCCCCCTTHHHHHHHHTTCCCCEEEESSCC-TTTSHHHHHTTCSEEE
T ss_pred             ecCCHHHHHHHHhC--CCCEEEECCCcCCCCCCCCCCccCHHHHHHHHHhCCCCCEEEEcCCC-HHHHHHHHHcCCCEEE
Confidence            45788886665544  489888632111        123678888887754447887766555 6677778889998873

>1izc_A Macrophomate synthase intermolecular diels-aldera; TIM-barrel, pyruvate Mg(II) complex, lyase; 1.70A {Macrophoma commelinae} SCOP: c.1.12.5

Probab=81.57  E-value=13  Score=26.98  Aligned_cols=85  Identities=16%  Similarity=0.234  Sum_probs=54.9

Q ss_pred             ecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC--C--CCcEEEEecCCChHHHHHHHHhcccEE-eeCCC
Q 045936           56 AENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK--V--ESKIVGVTSRNSETEREVFMQAGLDLC-YTKPL  130 (145)
Q Consensus        56 ~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~--~--~~~ii~lt~~~~~~~~~~~~~~g~~~~-l~kP~  130 (145)
                      ..+.+.+ +.+.. ..+|.|++|+.-...+--++...++...  .  ..++++=+...++..+..+++.|++++ ++|--
T Consensus        50 i~~p~~~-e~a~~-~GaD~vilDlEha~~~~e~~~~~l~a~~~~~~~~~~~~VRv~~~~~~di~~~LdaGa~gImlP~V~  127 (339)
T 1izc_A           50 IPSTFVT-KVLAA-TKPDFVWIDVEHGMFNRLELHDAIHAAQHHSEGRSLVIVRVPKHDEVSLSTALDAGAAGIVIPHVE  127 (339)
T ss_dssp             SCCHHHH-HHHHH-TCCSEEEEETTTSCCCHHHHHHHHHHHHHHTTTCSEEEEECCTTCHHHHHHHHHHTCSEEEETTCC
T ss_pred             CCCHHHH-HHHHh-CCCCEEEEECCCCCCcHHHHHHHHHHhhhcCCCCCeEEEEeCCCCHHHHHHHHhCCCCEEEeCCCC
Confidence            3444444 44444 3599999998765555444555554422  1  255655566777888889999999985 56677


Q ss_pred             CHHHHHHHHHHH
Q 045936          131 TMAKIVPLLEEL  142 (145)
Q Consensus       131 ~~~~l~~~l~~~  142 (145)
                      +.+++....+.+
T Consensus       128 saee~~~~~~~~  139 (339)
T 1izc_A          128 TVEEVREFVKEM  139 (339)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHh
Confidence            778887766543

>1vc4_A Indole-3-glycerol phosphate synthase; lyase, tryptophan biosynthesis, riken structural genomics/PR initiative, RSGI, structural genomics; 1.80A {Thermus thermophilus} SCOP: c.1.2.4

Probab=81.47  E-value=6.5  Score=27.24  Aligned_cols=84  Identities=10%  Similarity=0.109  Sum_probs=53.0

Q ss_pred             HHHHHHHH---hcCCeE-EEecCHHHHHHHHhcCCCccEEEEeCCC-CC-CCHHHHHHHHHhhCC----CCcEEEEecCC
Q 045936           40 RIHSMILK---SVGFKV-EVAENGKEAVDLFRTGAKFHIVFIDMEM-PV-MDGIEATKAMRAMKV----ESKIVGVTSRN  109 (145)
Q Consensus        40 ~~l~~~l~---~~g~~v-~~~~~~~~~l~~l~~~~~~dlil~d~~~-~~-~~g~~~~~~l~~~~~----~~~ii~lt~~~  109 (145)
                      ..++.++.   ..|..+ +.+++.+++...+.. . .|++=+.... .+ ...++....+...-|    +.+++..++-.
T Consensus       141 ~~l~~l~~~a~~lGl~~lvev~~~~E~~~a~~~-g-ad~IGvn~~~l~~~~~dl~~~~~L~~~i~~~~~~~~vIAegGI~  218 (254)
T 1vc4_A          141 ELTGAYLEEARRLGLEALVEVHTERELEIALEA-G-AEVLGINNRDLATLHINLETAPRLGRLARKRGFGGVLVAESGYS  218 (254)
T ss_dssp             GGHHHHHHHHHHHTCEEEEEECSHHHHHHHHHH-T-CSEEEEESBCTTTCCBCTTHHHHHHHHHHHTTCCSEEEEESCCC
T ss_pred             HHHHHHHHHHHHCCCeEEEEECCHHHHHHHHHc-C-CCEEEEccccCcCCCCCHHHHHHHHHhCccccCCCeEEEEcCCC
Confidence            44555554   678774 478899888776665 3 5776554322 11 112344444444332    56777777777


Q ss_pred             ChHHHHHHHHhcccEEe
Q 045936          110 SETEREVFMQAGLDLCY  126 (145)
Q Consensus       110 ~~~~~~~~~~~g~~~~l  126 (145)
                      +.+....+.. |+++++
T Consensus       219 s~~dv~~l~~-Ga~gvl  234 (254)
T 1vc4_A          219 RKEELKALEG-LFDAVL  234 (254)
T ss_dssp             SHHHHHTTTT-TCSEEE
T ss_pred             CHHHHHHHHc-CCCEEE
Confidence            7899999999 999986

>1x1o_A Nicotinate-nucleotide pyrophosphorylase; transferase, structural genomics, NPPSFA, national project O structural and functional analyses; 1.90A {Thermus thermophilus}

Probab=81.37  E-value=7.6  Score=27.51  Aligned_cols=55  Identities=22%  Similarity=0.183  Sum_probs=39.8

Q ss_pred             HHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936           87 IEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus        87 ~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      .+.++..|+..+....|.++. .+.+....+...|++.+...|++++.+...++.+
T Consensus       183 ~~av~~ar~~~~~~~~IgVev-~t~eea~eA~~aGaD~I~ld~~~~~~~k~av~~v  237 (286)
T 1x1o_A          183 GEAVRRAKARAPHYLKVEVEV-RSLEELEEALEAGADLILLDNFPLEALREAVRRV  237 (286)
T ss_dssp             HHHHHHHHHHSCTTSCEEEEE-SSHHHHHHHHHHTCSEEEEESCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCCEEEEEe-CCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence            346777777765543343433 4577788889999999989999999988877654

>2r6o_A Putative diguanylate cyclase/phosphodiesterase (G domains); ggdef and EAL domains, structural genomics, PSI-2; 1.80A {Thiobacillus denitrificans} PDB: 3ii8_A* 3n3t_A*

Probab=81.07  E-value=6.8  Score=27.62  Aligned_cols=101  Identities=15%  Similarity=0.230  Sum_probs=64.4

Q ss_pred             HHHHHHHHhcCCeEE--EecCHHHHHHHHhcCCCccEEEEeCCC----CCC-CHHHHHHHHHhhC--CCCcEEEEecCCC
Q 045936           40 RIHSMILKSVGFKVE--VAENGKEAVDLFRTGAKFHIVFIDMEM----PVM-DGIEATKAMRAMK--VESKIVGVTSRNS  110 (145)
Q Consensus        40 ~~l~~~l~~~g~~v~--~~~~~~~~l~~l~~~~~~dlil~d~~~----~~~-~g~~~~~~l~~~~--~~~~ii~lt~~~~  110 (145)
                      ......|+..|+.+.  -+.++-..+..+.. -++|.|=+|-..    ... ....+++.+-...  .++ -++.-+..+
T Consensus       166 ~~~l~~Lr~~G~~ialDDFGtG~ssl~~L~~-l~~d~iKID~sfv~~i~~~~~~~~iv~~ii~la~~lg~-~vvAEGVEt  243 (294)
T 2r6o_A          166 RTCLDALRARGVRLALDDFGTGYSSLSYLSQ-LPFHGLKIDQSFVRKIPAHPSETQIVTTILALARGLGM-EVVAEGIET  243 (294)
T ss_dssp             HHHHHHHHHHTCEEEEEEETSSCBCHHHHHH-SCCCEEEECHHHHTTTTTSHHHHHHHHHHHHHHHHTTC-EEEECCCCS
T ss_pred             HHHHHHHHHCCCEEEEECCCCCchhHHHHHh-CCCCEEEECHHHHhhhhcChHHHHHHHHHHHHHHHCCC-EEEEecCCc
Confidence            344455677788765  45555555666666 579999888433    221 2333445443321  223 344666777


Q ss_pred             hHHHHHHHHhcccE----EeeCCCCHHHHHHHHHHH
Q 045936          111 ETEREVFMQAGLDL----CYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       111 ~~~~~~~~~~g~~~----~l~kP~~~~~l~~~l~~~  142 (145)
                      .+....+.+.|++.    |+.||...+++...+.+.
T Consensus       244 ~~q~~~l~~lG~d~~QGy~~~~P~~~~~~~~~l~~~  279 (294)
T 2r6o_A          244 AQQYAFLRDRGCEFGQGNLMSTPQAADAFASLLDRQ  279 (294)
T ss_dssp             HHHHHHHHHTTCCEECSTTTCCCEEHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCEEEcCccCCCCCHHHHHHHHHhh
Confidence            77888888999876    478999999998877653

>1h1y_A D-ribulose-5-phosphate 3-epimerase; oxidative pentose phosphate pathway, isomerase; 1.87A {Oryza sativa} SCOP: c.1.2.2 PDB: 1h1z_A

Probab=81.03  E-value=10  Score=25.50  Aligned_cols=70  Identities=14%  Similarity=0.143  Sum_probs=44.0

Q ss_pred             CccEEEEeCCCCCC-------CHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe-----eCCCCHHHHHHH
Q 045936           71 KFHIVFIDMEMPVM-------DGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY-----TKPLTMAKIVPL  138 (145)
Q Consensus        71 ~~dlil~d~~~~~~-------~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l-----~kP~~~~~l~~~  138 (145)
                      ..|.++++.-.|+.       .+++.++.+++..++.|+++ ...-+.+....+...|++.++     .+.-++.+-.+.
T Consensus       138 ~~d~vl~~sv~pg~~g~~~~~~~l~~i~~~~~~~~~~pi~v-~GGI~~~ni~~~~~aGaD~vvvGsai~~~~d~~~~~~~  216 (228)
T 1h1y_A          138 PVELVLVMTVEPGFGGQKFMPEMMEKVRALRKKYPSLDIEV-DGGLGPSTIDVAASAGANCIVAGSSIFGAAEPGEVISA  216 (228)
T ss_dssp             CCSEEEEESSCTTCSSCCCCGGGHHHHHHHHHHCTTSEEEE-ESSCSTTTHHHHHHHTCCEEEESHHHHTSSCHHHHHHH
T ss_pred             CCCEEEEEeecCCCCcccCCHHHHHHHHHHHHhcCCCCEEE-ECCcCHHHHHHHHHcCCCEEEECHHHHCCCCHHHHHHH
Confidence            47888887766542       24566777777655667654 454555777788888999975     333345554444


Q ss_pred             HHH
Q 045936          139 LEE  141 (145)
Q Consensus       139 l~~  141 (145)
                      +++
T Consensus       217 l~~  219 (228)
T 1h1y_A          217 LRK  219 (228)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>4hjf_A Ggdef family protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, EAL domain, signaling protein; HET: MSE C2E; 1.75A {Caulobacter crescentus}

Probab=80.95  E-value=2  Score=31.08  Aligned_cols=102  Identities=12%  Similarity=0.148  Sum_probs=65.2

Q ss_pred             HHHHHHHHHhcCCeEE--EecCHHHHHHHHhcCCCccEEEEeCCC----CC-CCHHHHHHHHHhhC--CCCcEEEEecCC
Q 045936           39 RRIHSMILKSVGFKVE--VAENGKEAVDLFRTGAKFHIVFIDMEM----PV-MDGIEATKAMRAMK--VESKIVGVTSRN  109 (145)
Q Consensus        39 ~~~l~~~l~~~g~~v~--~~~~~~~~l~~l~~~~~~dlil~d~~~----~~-~~g~~~~~~l~~~~--~~~~ii~lt~~~  109 (145)
                      .......|+..|+.+.  -|.++-..+..+.. -++|.|=+|-.+    .. .....+++.+-...  .++.+ +.-+-.
T Consensus       214 ~~~~l~~Lr~~G~~ialDDFGtG~ssl~~L~~-lp~d~iKID~sfv~~~~~~~~~~~iv~~ii~la~~lg~~v-vAEGVE  291 (340)
T 4hjf_A          214 AAVILKTLRDAGAGLALDDFGTGFSSLSYLTR-LPFDTLKIDRYFVRTMGNNAGSAKIVRSVVKLGQDLDLEV-VAEGVE  291 (340)
T ss_dssp             HHHHHHHHHHHTCEEEEECTTSSSCGGGTGGG-SCCSEEEECHHHHHHTTTCHHHHHHHHHHHHHHHHHTCEE-EEECCC
T ss_pred             HHHHHHHHHHcCCCccccCCCCCcchHHHHHh-CCCChhcccHHhhhcccCCHhHHHHHHHHHHHHHHcCCEE-EEEeCC
Confidence            3444556677788765  35555556666766 579999888533    22 12334555443321  13333 455667


Q ss_pred             ChHHHHHHHHhcccE----EeeCCCCHHHHHHHHHHH
Q 045936          110 SETEREVFMQAGLDL----CYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       110 ~~~~~~~~~~~g~~~----~l~kP~~~~~l~~~l~~~  142 (145)
                      +.+....+.+.|++.    |+.||.+.+++...+++.
T Consensus       292 t~~q~~~L~~lG~d~~QGy~~~~P~~~~~~~~~l~~~  328 (340)
T 4hjf_A          292 NAEMAHALQSLGCDYGQGFGYAPALSPQEAEVYLNEA  328 (340)
T ss_dssp             SHHHHHHHHHTTCCEEESTTTCCSBCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHcCCCEeecCccccCCCHHHHHHHHHhc
Confidence            777888888999876    478999999999888654

>2ift_A Putative methylase HI0767; NESG, Y767_haein, structural genomics, PSI-2, protein structure initiative; 2.30A {Haemophilus influenzae} SCOP: c.66.1.46

Probab=80.61  E-value=7.3  Score=25.45  Aligned_cols=80  Identities=14%  Similarity=0.135  Sum_probs=49.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCC---eEE-EecCHHHHHHHHhcCCC-ccEEEEeCCCCCCCHHHHHHHHHh---hCC
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGF---KVE-VAENGKEAVDLFRTGAK-FHIVFIDMEMPVMDGIEATKAMRA---MKV   98 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~---~v~-~~~~~~~~l~~l~~~~~-~dlil~d~~~~~~~g~~~~~~l~~---~~~   98 (145)
                      .+|.-+|-++...+..+..+...|.   .+. ...|..+.+..+.. .. +|+|++|.-.......++++.+.+   ..|
T Consensus        77 ~~v~gvD~s~~~l~~a~~~~~~~~~~~~~v~~~~~d~~~~~~~~~~-~~~fD~I~~~~~~~~~~~~~~l~~~~~~~~Lkp  155 (201)
T 2ift_A           77 KKVTFLELDKTVANQLKKNLQTLKCSSEQAEVINQSSLDFLKQPQN-QPHFDVVFLDPPFHFNLAEQAISLLCENNWLKP  155 (201)
T ss_dssp             SEEEEECSCHHHHHHHHHHHHHTTCCTTTEEEECSCHHHHTTSCCS-SCCEEEEEECCCSSSCHHHHHHHHHHHTTCEEE
T ss_pred             CEEEEEECCHHHHHHHHHHHHHhCCCccceEEEECCHHHHHHhhcc-CCCCCEEEECCCCCCccHHHHHHHHHhcCccCC
Confidence            3799999999999999888887775   344 44455544322112 46 999999865433334456666644   234


Q ss_pred             CCcEEEEec
Q 045936           99 ESKIVGVTS  107 (145)
Q Consensus        99 ~~~ii~lt~  107 (145)
                      +..+++.+.
T Consensus       156 gG~l~i~~~  164 (201)
T 2ift_A          156 NALIYVETE  164 (201)
T ss_dssp             EEEEEEEEE
T ss_pred             CcEEEEEEC
Confidence            444444333

>1y0e_A Putative N-acetylmannosamine-6-phosphate 2-epimer; mannac-6-P epimerase, NANE, structural genomics, protein STR initiative, PSI; 1.95A {Staphylococcus aureus subsp} SCOP: c.1.2.5

Probab=80.60  E-value=10  Score=25.20  Aligned_cols=75  Identities=11%  Similarity=0.097  Sum_probs=50.4

Q ss_pred             CCeE-EEecCHHHHHHHHhcCCCccEEEEeCC------CC---CCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHH
Q 045936           50 GFKV-EVAENGKEAVDLFRTGAKFHIVFIDME------MP---VMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQ  119 (145)
Q Consensus        50 g~~v-~~~~~~~~~l~~l~~~~~~dlil~d~~------~~---~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~  119 (145)
                      |..+ ..+.+.+++......  ..|++.+...      ..   ...+++.++.+++.. +.|+++..+-.+.+....++.
T Consensus       119 ~~~v~~~~~t~~e~~~~~~~--G~d~i~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~-~ipvia~GGI~~~~~~~~~~~  195 (223)
T 1y0e_A          119 NVEIMADIATVEEAKNAARL--GFDYIGTTLHGYTSYTQGQLLYQNDFQFLKDVLQSV-DAKVIAEGNVITPDMYKRVMD  195 (223)
T ss_dssp             TSEEEEECSSHHHHHHHHHT--TCSEEECTTTTSSTTSTTCCTTHHHHHHHHHHHHHC-CSEEEEESSCCSHHHHHHHHH
T ss_pred             CceEEecCCCHHHHHHHHHc--CCCEEEeCCCcCcCCCCCCCCCcccHHHHHHHHhhC-CCCEEEecCCCCHHHHHHHHH
Confidence            5554 367788888776554  3787765321      01   112455777777653 688887777778999999999


Q ss_pred             hcccEEee
Q 045936          120 AGLDLCYT  127 (145)
Q Consensus       120 ~g~~~~l~  127 (145)
                      .|++.++.
T Consensus       196 ~Gad~v~v  203 (223)
T 1y0e_A          196 LGVHCSVV  203 (223)
T ss_dssp             TTCSEEEE
T ss_pred             cCCCEEEE
Confidence            99998753

---

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	145
d1peya_	119	c.23.1.1 (A:) Sporulation response regulator Spo0F	7e-22
d1u0sy_	118	c.23.1.1 (Y:) CheY protein {Thermotoga maritima [T	3e-21
d1dcfa_	134	c.23.1.2 (A:) Receiver domain of the ethylene rece	9e-21
d1dz3a_	123	c.23.1.1 (A:) Sporulation response regulator Spo0A	1e-20
d2r25b1	128	c.23.1.1 (B:1087-1214) Response regulator Sin1 {Ba	3e-20
d1zesa1	121	c.23.1.1 (A:3-123) PhoB receiver domain {Escherich	7e-20
d1a04a2	138	c.23.1.1 (A:5-142) Nitrate/nitrite response regula	1e-19
d1mb3a_	123	c.23.1.1 (A:) Cell division response regulator Div	2e-18
d2ayxa1	133	c.23.1.1 (A:817-949) Sensor kinase protein RcsC, C	3e-18
d2b4aa1	118	c.23.1.1 (A:2-119) Hypothetical protein BH3024 {Ba	4e-18
d1jbea_	128	c.23.1.1 (A:) CheY protein {Escherichia coli [TaxI	4e-18
d1i3ca_	144	c.23.1.1 (A:) Response regulator for cyanobacteria	6e-18
d1qkka_	140	c.23.1.1 (A:) Transcriptional regulatory protein D	7e-18
d1s8na_	190	c.23.1.1 (A:) Probable two-component system transc	2e-17
d1dbwa_	123	c.23.1.1 (A:) Transcriptional regulatory protein F	2e-17
d2a9pa1	117	c.23.1.1 (A:2-118) DNA-binding response regulator	2e-17
d1zgza1	120	c.23.1.1 (A:2-121) TorCAD operon transcriptional r	3e-17
d1ys7a2	121	c.23.1.1 (A:7-127) Transcriptional regulatory prot	3e-17
d1a2oa1	140	c.23.1.1 (A:1-140) Methylesterase CheB, N-terminal	3e-17
d2pl1a1	119	c.23.1.1 (A:1-119) PhoP receiver domain {Escherich	7e-17
d1yioa2	128	c.23.1.1 (A:3-130) Response regulatory protein Sty	1e-16
d1xhfa1	121	c.23.1.1 (A:2-122) Aerobic respiration control pro	2e-16
d1mvoa_	121	c.23.1.1 (A:) PhoP receiver domain {Bacillus subti	3e-16
d1krwa_	123	c.23.1.1 (A:) NTRC receiver domain {Salmonella typ	5e-16
d1zh2a1	119	c.23.1.1 (A:2-120) Transcriptional regulatory prot	8e-16
d1kgsa2	122	c.23.1.1 (A:2-123) PhoB receiver domain {Thermotog	1e-15
d1k68a_	140	c.23.1.1 (A:) Response regulator for cyanobacteria	2e-15
d1ny5a1	137	c.23.1.1 (A:1-137) Transcriptional activator sigm5	4e-15
d1p6qa_	129	c.23.1.1 (A:) CheY protein {Sinorhizobium meliloti	1e-14
d1k66a_	149	c.23.1.1 (A:) Response regulator for cyanobacteria	2e-14
d1w25a1	139	c.23.1.1 (A:2-140) Response regulator PleD, receiv	1e-13
d1p2fa2	120	c.23.1.1 (A:1-120) Response regulator DrrB {Thermo	1e-13
d1w25a2	153	c.23.1.1 (A:141-293) Response regulator PleD, rece	6e-12
d1qo0d_	189	c.23.1.3 (D:) Positive regulator of the amidase op	2e-10

>d1peya_ c.23.1.1 (A:) Sporulation response regulator Spo0F {Bacillus subtilis [TaxId: 1423]} Length = 119

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Sporulation response regulator Spo0F
species: Bacillus subtilis [TaxId: 1423]

 Score = 82.3 bits (203), Expect = 7e-22
 Identities = 28/113 (24%), Positives = 57/113 (50%), Gaps = 1/113 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDD   IR + + +    G++   A NG +A+D+     +  +V +DM++P MDGIE 
Sbjct: 5   LIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTKE-RPDLVLLDMKIPGMDGIEI 63

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
            K M+ +    +++ +T+       +   + G    + KP  + +I   +++ 
Sbjct: 64  LKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIRDAVKKY 116

>d1u0sy_ c.23.1.1 (Y:) CheY protein {Thermotoga maritima [TaxId: 2336]} Length = 118

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: CheY protein
species: Thermotoga maritima [TaxId: 2336]

 Score = 80.7 bits (199), Expect = 3e-21
 Identities = 32/114 (28%), Positives = 60/114 (52%), Gaps = 2/114 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           L+VDD   +R +   I+   G++    A NG+EAV+ ++   K  IV +D+ MP M+GI+
Sbjct: 5   LIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKEL-KPDIVTMDITMPEMNGID 63

Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
           A K +  +   +KI+  ++   +      ++AG      KP   +++V  L ++
Sbjct: 64  AIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKV 117

>d1dcfa_ c.23.1.2 (A:) Receiver domain of the ethylene receptor {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 134

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: Receiver domain of the ethylene receptor
domain: Receiver domain of the ethylene receptor
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 80.0 bits (197), Expect = 9e-21
 Identities = 24/118 (20%), Positives = 57/118 (48%), Gaps = 7/118 (5%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LV+D++ + R +   +L  +G +V    + +E + +     +  +VF+D+ MP ++  + 
Sbjct: 11  LVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVS--HEHKVVFMDVCMPGVENYQI 68

Query: 90  TKAMRAMKVESK-----IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
              +     + +     +V ++    ++ +E  M  GLD    KP+++  I  +L +L
Sbjct: 69  ALRIHEKFTKQRHQRPLLVALSGNTDKSTKEKCMSFGLDGVLLKPVSLDNIRDVLSDL 126

>d1dz3a_ c.23.1.1 (A:) Sporulation response regulator Spo0A {Bacillus stearothermophilus [TaxId: 1422]} Length = 123

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Sporulation response regulator Spo0A
species: Bacillus stearothermophilus [TaxId: 1422]

 Score = 79.5 bits (196), Expect = 1e-20
 Identities = 20/116 (17%), Positives = 51/116 (43%), Gaps = 4/116 (3%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFK--VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGI 87
            + DD+  +  +    + S      +  A NG++ + +     +  I+ +D+ MP +DG+
Sbjct: 5   CIADDNRELVSLLDEYISSQPDMEVIGTAYNGQDCLQMLEEK-RPDILLLDIIMPHLDGL 63

Query: 88  EATKAMRA-MKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
              + +RA  + +  ++ +T+   E   +  ++ G      KP  M  +   + ++
Sbjct: 64  AVLERIRAGFEHQPNVIMLTAFGQEDVTKKAVELGASYFILKPFDMENLAHHIRQV 119

>d2r25b1 c.23.1.1 (B:1087-1214) Response regulator Sin1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 128

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator Sin1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 78.5 bits (193), Expect = 3e-20
 Identities = 32/119 (26%), Positives = 70/119 (58%), Gaps = 6/119 (5%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFR----TGAKFHIVFIDMEMPVM 84
           LVV+D+ + + +   +L   G + +E+A +G+EA D  +     G  ++++F+D++MP +
Sbjct: 5   LVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGENYNMIFMDVQMPKV 64

Query: 85  DGIEATKAMRA-MKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
           DG+ +TK +R  +   S IV +T+   ++  +  +++G++   +KP+   K+  +L E 
Sbjct: 65  DGLLSTKMIRRDLGYTSPIVALTAFADDSNIKECLESGMNGFLSKPIKRPKLKTILTEF 123

>d1zesa1 c.23.1.1 (A:3-123) PhoB receiver domain {Escherichia coli [TaxId: 562]} Length = 121

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoB receiver domain
species: Escherichia coli [TaxId: 562]

 Score = 77.3 bits (190), Expect = 7e-20
 Identities = 29/115 (25%), Positives = 58/115 (50%), Gaps = 3/115 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVV+D+  IR +   +L+  GF+   AE+   AV+         ++ +D  +P   GI+ 
Sbjct: 4   LVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEP-WPDLILLDWMLPGGSGIQF 62

Query: 90  TKAMRAMKV--ESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
            K ++   +  +  +V +T+R  E +R   ++ G D   TKP +  ++V  ++ +
Sbjct: 63  IKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAV 117

>d1a04a2 c.23.1.1 (A:5-142) Nitrate/nitrite response regulator (NarL), receiver domain {Escherichia coli [TaxId: 562]} Length = 138

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Nitrate/nitrite response regulator (NarL), receiver domain
species: Escherichia coli [TaxId: 562]

 Score = 76.8 bits (189), Expect = 1e-19
 Identities = 26/115 (22%), Positives = 53/115 (46%), Gaps = 3/115 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVG--FKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGI 87
           L++DD PM+R     ++        V  A NG++ ++L  +     ++ +D+ MP M+G+
Sbjct: 6   LLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESL-DPDLILLDLNMPGMNGL 64

Query: 88  EATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
           E    +R   +  +IV  +  N E +    ++ G D    K +    ++  L + 
Sbjct: 65  ETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQA 119

>d1mb3a_ c.23.1.1 (A:) Cell division response regulator DivK {Caulobacter crescentus [TaxId: 155892]} Length = 123

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Cell division response regulator DivK
species: Caulobacter crescentus [TaxId: 155892]

 Score = 73.5 bits (180), Expect = 2e-18
 Identities = 24/115 (20%), Positives = 60/115 (52%), Gaps = 3/115 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+V+D+ +  ++   +L++ G++      G  A+ + R   K  ++ +D+++P + G+E 
Sbjct: 5   LIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIAREN-KPDLILMDIQLPEISGLEV 63

Query: 90  TKAMRAMKVESKI--VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
           TK ++     + I  V VT+   + + E   + G +   +KP+++   +  ++ L
Sbjct: 64  TKWLKEDDDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKPISVVHFLETIKRL 118

>d2ayxa1 c.23.1.1 (A:817-949) Sensor kinase protein RcsC, C-terminal domain {Escherichia coli [TaxId: 562]} Length = 133

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Sensor kinase protein RcsC, C-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 73.2 bits (179), Expect = 3e-18
 Identities = 39/122 (31%), Positives = 68/122 (55%), Gaps = 1/122 (0%)

Query: 21  VSKNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDME 80
           VS N     LVVDD P+ RR+ +  L S+G++ + A +G +A+++        IV  D+ 
Sbjct: 3   VSDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKN-HIDIVLSDVN 61

Query: 81  MPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLE 140
           MP MDG   T+ +R + +   ++GVT+     E++  +++G+D C +KP+T+  I   L 
Sbjct: 62  MPNMDGYRLTQRIRQLGLTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTLT 121

Query: 141 EL 142
             
Sbjct: 122 LY 123

>d2b4aa1 c.23.1.1 (A:2-119) Hypothetical protein BH3024 {Bacillus halodurans [TaxId: 86665]} Length = 118

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Hypothetical protein BH3024
species: Bacillus halodurans [TaxId: 86665]

 Score = 72.6 bits (178), Expect = 4e-18
 Identities = 15/113 (13%), Positives = 43/113 (38%), Gaps = 5/113 (4%)

Query: 25  RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVM 84
           +P+   +V+D+P    +    L  +G +V V  +G          +   ++ +  ++  +
Sbjct: 1   QPFRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHRSQLSTCDLLIVSDQLVDL 60

Query: 85  DGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY-TKPLTMAKIV 136
                   ++    +  ++ +T+   E       +  L   Y  KP  ++++ 
Sbjct: 61  SIFSLLDIVKEQTKQPSVLILTTGRHELIES--SEHNLS--YLQKPFAISELR 109

>d1i3ca_ c.23.1.1 (A:) Response regulator for cyanobacterial phytochrome {Synechocystis sp. PCC 6803, RCP1 [TaxId: 1148]} Length = 144

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator for cyanobacterial phytochrome
species: Synechocystis sp. PCC 6803, RCP1 [TaxId: 1148]

 Score = 72.8 bits (178), Expect = 6e-18
 Identities = 21/129 (16%), Positives = 54/129 (41%), Gaps = 10/129 (7%)

Query: 24  NRPYFALVVDDDPMIRRIHSMILKSVGFKVEV--AENGKEAVDLFRTGA------KFHIV 75
           N P   L+V+D     R+   +LK+     E+    +G  A+   +         + +++
Sbjct: 1   NPPKVILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFLQQQGEYENSPRPNLI 60

Query: 76  FIDMEMPVMDGIEATKAMRAMK--VESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMA 133
            +D+ +P  DG E    ++         +V +T+ ++E +     +  ++   TK   + 
Sbjct: 61  LLDLNLPKKDGREVLAEIKQNPDLKRIPVVVLTTSHNEDDVIASYELHVNCYLTKSRNLK 120

Query: 134 KIVPLLEEL 142
            +  +++ +
Sbjct: 121 DLFKMVQGI 129

>d1qkka_ c.23.1.1 (A:) Transcriptional regulatory protein DctD, receiver domain {Sinorhizobium meliloti [TaxId: 382]} Length = 140

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein DctD, receiver domain
species: Sinorhizobium meliloti [TaxId: 382]

 Score = 72.8 bits (178), Expect = 7e-18
 Identities = 26/113 (23%), Positives = 44/113 (38%), Gaps = 1/113 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
            ++DDD  +R+     L+  GF V    +  EA+          IV  D+ MP MDG+  
Sbjct: 4   FLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSAD-FAGIVISDIRMPGMDGLAL 62

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
            + + A+  +  ++ VT           +Q G      KP    ++V      
Sbjct: 63  FRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRA 115

>d1s8na_ c.23.1.1 (A:) Probable two-component system transcriptional regulator Rv1626 {Mycobacterium tuberculosis [TaxId: 1773]} Length = 190

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Probable two-component system transcriptional regulator Rv1626
species: Mycobacterium tuberculosis [TaxId: 1773]

 Score = 73.0 bits (178), Expect = 2e-17
 Identities = 30/108 (27%), Positives = 59/108 (54%), Gaps = 3/108 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           L+ +D+ +IR   + +L+  G++ V  A +G+EAV+L     K  +V +D++MP  DGI+
Sbjct: 7   LIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAEL-HKPDLVIMDVKMPRRDGID 65

Query: 89  ATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
           A   + + +  + IV +T+ +     E    AG      KP +++ ++
Sbjct: 66  AASEIASKR-IAPIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDLI 112

>d1dbwa_ c.23.1.1 (A:) Transcriptional regulatory protein FixJ, receiver domain {Rhizobium meliloti [TaxId: 382]} Length = 123

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein FixJ, receiver domain
species: Rhizobium meliloti [TaxId: 382]

 Score = 71.2 bits (174), Expect = 2e-17
 Identities = 23/111 (20%), Positives = 49/111 (44%), Gaps = 1/111 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
            +VDD+  +R+  + +L   GF V++ ++ +  +       +  ++  D+ MP M G+E 
Sbjct: 7   HIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPDV-RNGVLVTDLRMPDMSGVEL 65

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLE 140
            + +  +K+    + +T           M+AG      KP     I+  +E
Sbjct: 66  LRNLGDLKINIPSIVITGHGDVPMAVEAMKAGAVDFIEKPFEDTVIIEAIE 116

>d2a9pa1 c.23.1.1 (A:2-118) DNA-binding response regulator MicA, N-terminal domain {Streptococcus pneumoniae [TaxId: 1313]} Length = 117

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: DNA-binding response regulator MicA, N-terminal domain
species: Streptococcus pneumoniae [TaxId: 1313]

 Score = 70.8 bits (173), Expect = 2e-17
 Identities = 31/113 (27%), Positives = 63/113 (55%), Gaps = 2/113 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDD+  I  I    +   G++V  A NG+EA++ F    +  I+ +D+ +P +DG+E 
Sbjct: 4   LIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAE-QPDIIILDLMLPEIDGLEV 62

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
            K +R       I+ +++++SE ++ + ++ G D   TKP +  ++   ++ L
Sbjct: 63  AKTIRKTS-SVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQARVKAL 114

>d1zgza1 c.23.1.1 (A:2-121) TorCAD operon transcriptional regulator TorD, N-terminal domain {Escherichia coli [TaxId: 562]} Length = 120

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: TorCAD operon transcriptional regulator TorD, N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 70.8 bits (173), Expect = 3e-17
 Identities = 27/113 (23%), Positives = 58/113 (51%), Gaps = 2/113 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           ++V+D+P+ +          G+ V V  +G    ++ +      ++ +D+ +P  +G+  
Sbjct: 5   VIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIMQNQ-SVDLILLDINLPDENGLML 63

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
           T+A+R  +    I+ VT R+   +R V ++ G D   TKPL + ++V  ++ L
Sbjct: 64  TRALR-ERSTVGIILVTGRSDRIDRIVGLEMGADDYVTKPLELRELVVRVKNL 115

>d1ys7a2 c.23.1.1 (A:7-127) Transcriptional regulatory protein PrrA, N-terminal domain {Mycobacterium tuberculosis [TaxId: 1773]} Length = 121

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein PrrA, N-terminal domain
species: Mycobacterium tuberculosis [TaxId: 1773]

 Score = 70.8 bits (173), Expect = 3e-17
 Identities = 35/113 (30%), Positives = 61/113 (53%), Gaps = 1/113 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDDD  +       L+  GF+V  A +G EA+       +   + +D+ MPV+DG+  
Sbjct: 5   LVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSATEN-RPDAIVLDINMPVLDGVSV 63

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
             A+RAM  +  +  +++R+S  +R   ++AG D    KP  +A++V  ++ L
Sbjct: 64  VTALRAMDNDVPVCVLSARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKAL 116

>d1a2oa1 c.23.1.1 (A:1-140) Methylesterase CheB, N-terminal domain {Salmonella typhimurium [TaxId: 90371]} Length = 140

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Methylesterase CheB, N-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

 Score = 70.8 bits (173), Expect = 3e-17
 Identities = 26/104 (25%), Positives = 49/104 (47%), Gaps = 6/104 (5%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEV--AENGKEAVDLFRTGAKFHIVFIDMEMPVMDGI 87
           L VDD  ++R+I + I+ S      V  A +   A DL +      ++ +D+EMP MDG+
Sbjct: 7   LSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIKKF-NPDVLTLDVEMPRMDGL 65

Query: 88  EATKAMRAMKVESKIVGVTSRNSETEREVF--MQAGLDLCYTKP 129
           +  + +  ++    ++ V+S   +        ++ G     TKP
Sbjct: 66  DFLEKLMRLRPMPVVM-VSSLTGKGSEVTLRALELGAIDFVTKP 108

>d2pl1a1 c.23.1.1 (A:1-119) PhoP receiver domain {Escherichia coli [TaxId: 562]} Length = 119

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoP receiver domain
species: Escherichia coli [TaxId: 562]

 Score = 69.4 bits (169), Expect = 7e-17
 Identities = 30/113 (26%), Positives = 58/113 (51%), Gaps = 1/113 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVV+D+ ++R    + ++  G +V+ AE+ KEA           I  +D+ +P  DG+  
Sbjct: 4   LVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEH-IPDIAIVDLGLPDEDGLSL 62

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
            +  R+  V   I+ +T+R S  ++   + AG D   TKP  + +++  ++ L
Sbjct: 63  IRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQAL 115

>d1yioa2 c.23.1.1 (A:3-130) Response regulatory protein StyR, N-terminal domain {Pseudomonas fluorescens [TaxId: 294]} Length = 128

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulatory protein StyR, N-terminal domain
species: Pseudomonas fluorescens [TaxId: 294]

 Score = 69.3 bits (169), Expect = 1e-16
 Identities = 31/113 (27%), Positives = 51/113 (45%), Gaps = 1/113 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
            VVDDD  +R     +L+S GF+VE  +     ++  R   +   + +DM MP M GIE 
Sbjct: 6   FVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHRRPE-QHGCLVLDMRMPGMSGIEL 64

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
            + + A+     IV +T+          M+AG      KP     ++  +E+ 
Sbjct: 65  QEQLTAISDGIPIVFITAHGDIPMTVRAMKAGAIEFLPKPFEEQALLDAIEQG 117

>d1xhfa1 c.23.1.1 (A:2-122) Aerobic respiration control protein ArcA, N-terminal domain {Escherichia coli [TaxId: 562]} Length = 121

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Aerobic respiration control protein ArcA, N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 68.5 bits (167), Expect = 2e-16
 Identities = 24/113 (21%), Positives = 54/113 (47%), Gaps = 2/113 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+V+D+ + R     I ++ G+ V  A +G E   +       ++V +D+ +P  +G+  
Sbjct: 6   LIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSEY-DINLVIMDINLPGKNGLLL 64

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
            + +R       ++ +T R++E ++ + ++ G D   TKP    ++      L
Sbjct: 65  ARELREQA-NVALMFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNL 116

>d1mvoa_ c.23.1.1 (A:) PhoP receiver domain {Bacillus subtilis [TaxId: 1423]} Length = 121

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoP receiver domain
species: Bacillus subtilis [TaxId: 1423]

 Score = 68.2 bits (166), Expect = 3e-16
 Identities = 32/113 (28%), Positives = 63/113 (55%), Gaps = 1/113 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDD+  I  +    L+  G+ V  A +G+EA+    T  K  ++ +D+ +P +DGIE 
Sbjct: 6   LVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAETE-KPDLIVLDVMLPKLDGIEV 64

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
            K +R  K+   I+ +T+++ E ++ + ++ G D   TKP +  ++   ++ +
Sbjct: 65  CKQLRQQKLMFPILMLTAKDEEFDKVLGLELGADDYMTKPFSPREVNARVKAI 117

>d1krwa_ c.23.1.1 (A:) NTRC receiver domain {Salmonella typhimurium [TaxId: 90371]} Length = 123

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: NTRC receiver domain
species: Salmonella typhimurium [TaxId: 90371]

 Score = 67.4 bits (164), Expect = 5e-16
 Identities = 28/113 (24%), Positives = 45/113 (39%), Gaps = 1/113 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
            VVDDD  IR +    L   G      ENG E +    +     ++  D+ MP MDG+  
Sbjct: 7   WVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASK-TPDVLLSDIRMPGMDGLAL 65

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
            K ++       ++ +T+ +         Q G      KP  + + V L+E  
Sbjct: 66  LKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERA 118

>d1zh2a1 c.23.1.1 (A:2-120) Transcriptional regulatory protein KdpE, N-terminal domain {Escherichia coli [TaxId: 562]} Length = 119

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein KdpE, N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 66.7 bits (162), Expect = 8e-16
 Identities = 28/113 (24%), Positives = 56/113 (49%), Gaps = 2/113 (1%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+V+D+  IRR     L+  G +V  AE  +  +    T  K  ++ +D+ +P  DGIE 
Sbjct: 4   LIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATR-KPDLIILDLGLPDGDGIEF 62

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
            + +R       ++ +++R+ E+++   + AG D   +KP  + ++   L   
Sbjct: 63  IRDLR-QWSAVPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVA 114

>d1kgsa2 c.23.1.1 (A:2-123) PhoB receiver domain {Thermotoga maritima [TaxId: 2336]} Length = 122

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoB receiver domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 66.3 bits (161), Expect = 1e-15
 Identities = 30/113 (26%), Positives = 57/113 (50%), Gaps = 1/113 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVV+D+  +  + +  LK   F V+V  +G+E + +      F +V +D+ +PV DG E 
Sbjct: 5   LVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMALNE-PFDVVILDIMLPVHDGWEI 63

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
            K+MR   V + ++ +T+ +    R   +  G D    KP  + +++  +  L
Sbjct: 64  LKSMRESGVNTPVLMLTALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRAL 116

>d1k68a_ c.23.1.1 (A:) Response regulator for cyanobacterial phytochrome {Calothrix sp. pcc 7601, RcpA [TaxId: 1188]} Length = 140

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator for cyanobacterial phytochrome
species: Calothrix sp. pcc 7601, RcpA [TaxId: 1188]

 Score = 66.3 bits (161), Expect = 2e-15
 Identities = 19/125 (15%), Positives = 54/125 (43%), Gaps = 10/125 (8%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEV--AENGKEAVDLFRTGA------KFHIVFIDMEM 81
            +V+D+    R+    L +     EV    +G EA+   R         +  ++ +D+ +
Sbjct: 6   FLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEYANASRPDLILLDLNL 65

Query: 82  PVMDGIEATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLL 139
           P  DG E    +++     +  +V +++  +E +        ++   TK   ++++  ++
Sbjct: 66  PKKDGREVLAEIKSDPTLKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQLFQIV 125

Query: 140 EELQK 144
           + +++
Sbjct: 126 KGIEE 130

>d1ny5a1 c.23.1.1 (A:1-137) Transcriptional activator sigm54 (NtrC1), N-terminal domain {Aquifex aeolicus [TaxId: 63363]} Length = 137

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional activator sigm54 (NtrC1), N-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

 Score = 65.4 bits (159), Expect = 4e-15
 Identities = 32/113 (28%), Positives = 57/113 (50%), Gaps = 1/113 (0%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LV++DD + R +    L   G KVE AE GKEA  L      F++V +D+ +P ++G+E 
Sbjct: 4   LVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLSEK-HFNVVLLDLLLPDVNGLEI 62

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
            K ++    E++++ +T   +       M+ G     TKP  + +I   + + 
Sbjct: 63  LKWIKERSPETEVIVITGHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKA 115

>d1p6qa_ c.23.1.1 (A:) CheY protein {Sinorhizobium meliloti, CheY2 [TaxId: 382]} Length = 129

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: CheY protein
species: Sinorhizobium meliloti, CheY2 [TaxId: 382]

 Score = 63.9 bits (155), Expect = 1e-14
 Identities = 30/116 (25%), Positives = 54/116 (46%), Gaps = 4/116 (3%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIE 88
           L+VDD    R +    L+ +GFK +  A +G++ + +       H+V  D  MP MDG+ 
Sbjct: 10  LIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIMAQN-PHHLVISDFNMPKMDGLG 68

Query: 89  ATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
             +A+RA     K   + +T++      +     G +    KP T+ K+   +E +
Sbjct: 69  LLQAVRANPATKKAAFIILTAQGDRALVQKAAALGANNVLAKPFTIEKMKAAIEAV 124

>d1k66a_ c.23.1.1 (A:) Response regulator for cyanobacterial phytochrome {Calothrix sp. pcc 7601, RcpB [TaxId: 1188]} Length = 149

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator for cyanobacterial phytochrome
species: Calothrix sp. pcc 7601, RcpB [TaxId: 1188]

 Score = 64.1 bits (155), Expect = 2e-14
 Identities = 22/126 (17%), Positives = 51/126 (40%), Gaps = 13/126 (10%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEV--AENGKEAVDLFRTGA---------KFHIVFID 78
           LVV+D          +L+  G    +     G +A+D               +  ++ +D
Sbjct: 10  LVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSYCNPDIAPRPAVILLD 69

Query: 79  MEMPVMDGIEATKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIV 136
           + +P  DG E  + ++  +V  K  +V +T+ ++  + E+     +     KPL + ++ 
Sbjct: 70  LNLPGTDGREVLQEIKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEIDRLT 129

Query: 137 PLLEEL 142
             ++  
Sbjct: 130 ETVQTF 135

>d1w25a1 c.23.1.1 (A:2-140) Response regulator PleD, receiver domain {Caulobacter crescentus [TaxId: 155892]} Length = 139

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator PleD, receiver domain
species: Caulobacter crescentus [TaxId: 155892]

 Score = 61.4 bits (148), Expect = 1e-13
 Identities = 26/117 (22%), Positives = 51/117 (43%), Gaps = 3/117 (2%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LVVDD     R+    L +  ++V  A +G  A+ +        I+ +D+ MP MDG   
Sbjct: 5   LVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARD-LPDIILLDVMMPGMDGFTV 63

Query: 90  TKAMRAMKVESK--IVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK 144
            + ++         +V +T+ +   +R   +++G     TKP+    +   +  L +
Sbjct: 64  CRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPIDDVMLFARVRSLTR 120

>d1p2fa2 c.23.1.1 (A:1-120) Response regulator DrrB {Thermotoga maritima [TaxId: 2336]} Length = 120

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator DrrB
species: Thermotoga maritima [TaxId: 2336]

 Score = 60.8 bits (147), Expect = 1e-13
 Identities = 26/113 (23%), Positives = 53/113 (46%), Gaps = 4/113 (3%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
            VVDDD  I +  S  L+ +G  V+    G++ ++       FH+V +D+ +P   G E 
Sbjct: 6   AVVDDDKNILKKVSEKLQQLGR-VKTFLTGEDFLNDEE---AFHVVVLDVMLPDYSGYEI 61

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
            + ++  + E+ ++ +T  + +       +AG D   TKP     ++  ++  
Sbjct: 62  CRMIKETRPETWVILLTLLSDDESVLKGFEAGADDYVTKPFNPEILLARVKRF 114

>d1w25a2 c.23.1.1 (A:141-293) Response regulator PleD, receiver domain {Caulobacter crescentus [TaxId: 155892]} Length = 153

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator PleD, receiver domain
species: Caulobacter crescentus [TaxId: 155892]

 Score = 57.4 bits (138), Expect = 6e-12
 Identities = 17/115 (14%), Positives = 46/115 (40%), Gaps = 5/115 (4%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           L+VDD+    +  +  L        V E+  E   +   G    +V ++      DG+  
Sbjct: 17  LIVDDNERQAQRVAAELGVEHR--PVIESDPEKAKISAGG-PVDLVIVNAAAKNFDGLRF 73

Query: 90  TKAMRAMK--VESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL 142
           T A+R+ +   +  ++ +   +        ++ G++   ++P+   ++   ++  
Sbjct: 74  TAALRSEERTRQLPVLAMVDPDDRGRMVKALEIGVNDILSRPIDPQELSARVKTQ 128

>d1qo0d_ c.23.1.3 (D:) Positive regulator of the amidase operon AmiR {Pseudomonas aeruginosa [TaxId: 287]} Length = 189

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: Positive regulator of the amidase operon AmiR
domain: Positive regulator of the amidase operon AmiR
species: Pseudomonas aeruginosa [TaxId: 287]

 Score = 54.2 bits (129), Expect = 2e-10
 Identities = 18/108 (16%), Positives = 35/108 (32%), Gaps = 6/108 (5%)

Query: 30  LVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEA 89
           LV++    +     + L  +G  V       EA D         +VF  +         A
Sbjct: 15  LVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAFD-----VPVDVVFTSIFQNRHHDEIA 69

Query: 90  TKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVP 137
              + A    + +V +    S       ++       T+PL   +++P
Sbjct: 70  AL-LAAGTPRTTLVALVEYESPAVLSQIIELECHGVITQPLDAHRVLP 116

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	145
d2pl1a1	119	PhoP receiver domain {Escherichia coli [TaxId: 562	99.97
d1dbwa_	123	Transcriptional regulatory protein FixJ, receiver	99.97
d1peya_	119	Sporulation response regulator Spo0F {Bacillus sub	99.97
d1ys7a2	121	Transcriptional regulatory protein PrrA, N-termina	99.97
d1mvoa_	121	PhoP receiver domain {Bacillus subtilis [TaxId: 14	99.97
d1kgsa2	122	PhoB receiver domain {Thermotoga maritima [TaxId:	99.97
d2a9pa1	117	DNA-binding response regulator MicA, N-terminal do	99.96
d1u0sy_	118	CheY protein {Thermotoga maritima [TaxId: 2336]}	99.96
d1ny5a1	137	Transcriptional activator sigm54 (NtrC1), N-termin	99.96
d1krwa_	123	NTRC receiver domain {Salmonella typhimurium [TaxI	99.96
d1zesa1	121	PhoB receiver domain {Escherichia coli [TaxId: 562	99.96
d1xhfa1	121	Aerobic respiration control protein ArcA, N-termin	99.96
d2ayxa1	133	Sensor kinase protein RcsC, C-terminal domain {Esc	99.96
d1qkka_	140	Transcriptional regulatory protein DctD, receiver	99.96
d1zh2a1	119	Transcriptional regulatory protein KdpE, N-termina	99.96
d1mb3a_	123	Cell division response regulator DivK {Caulobacter	99.96
d1a04a2	138	Nitrate/nitrite response regulator (NarL), receive	99.96
d1zgza1	120	TorCAD operon transcriptional regulator TorD, N-te	99.96
d1yioa2	128	Response regulatory protein StyR, N-terminal domai	99.96
d1p6qa_	129	CheY protein {Sinorhizobium meliloti, CheY2 [TaxId	99.96
d1w25a1	139	Response regulator PleD, receiver domain {Caulobac	99.95
d2r25b1	128	Response regulator Sin1 {Baker's yeast (Saccharomy	99.95
d1p2fa2	120	Response regulator DrrB {Thermotoga maritima [TaxI	99.95
d1jbea_	128	CheY protein {Escherichia coli [TaxId: 562]}	99.95
d1dz3a_	123	Sporulation response regulator Spo0A {Bacillus ste	99.95
d1s8na_	190	Probable two-component system transcriptional regu	99.95
d1dcfa_	134	Receiver domain of the ethylene receptor {Thale cr	99.95
d1i3ca_	144	Response regulator for cyanobacterial phytochrome	99.94
d1k66a_	149	Response regulator for cyanobacterial phytochrome	99.94
d1k68a_	140	Response regulator for cyanobacterial phytochrome	99.94
d2b4aa1	118	Hypothetical protein BH3024 {Bacillus halodurans [	99.94
d1w25a2	153	Response regulator PleD, receiver domain {Caulobac	99.94
d1a2oa1	140	Methylesterase CheB, N-terminal domain {Salmonella	99.91
d1qo0d_	189	Positive regulator of the amidase operon AmiR {Pse	99.88
d1ccwa_	137	Glutamate mutase, small subunit {Clostridium cochl	97.87
d7reqa2	168	Methylmalonyl-CoA mutase alpha subunit, C-terminal	97.44
d1xrsb1	160	D-lysine 5,6-aminomutase beta subunit KamE, C-term	96.67
d7reqb2	163	Methylmalonyl-CoA mutase beta subunit, C-terminal	96.36
d3bula2	156	Methionine synthase, C-terminal domain {Escherichi	95.93
d1wa3a1	202	KDPG aldolase {Thermotoga maritima [TaxId: 2336]}	95.24
d1qpoa1	169	Quinolinic acid phosphoribosyltransferase (Nicotin	95.22
d1vhca_	212	Hypothetical protein HI0047 {Haemophilus influenza	95.01
d1mxsa_	216	KDPG aldolase {Pseudomonas putida [TaxId: 303]}	94.76
d1wbha1	213	KDPG aldolase {Escherichia coli [TaxId: 562]}	94.65
d1r8ja2	135	N-terminal domain of the circadian clock protein K	94.49
d1dxea_	253	2-dehydro-3-deoxy-galactarate aldolase {Escherichi	94.32
d1o4ua1	170	Quinolinic acid phosphoribosyltransferase (Nicotin	93.8
d1id1a_	153	Rck domain from putative potassium channel Kch {Es	93.46
d1izca_	299	Macrophomate synthase {Macrophoma commelinae [TaxI	92.55
d1eepa_	388	Inosine monophosphate dehydrogenase (IMPDH) {Lyme	91.15
d1xm3a_	251	Thiazole biosynthesis protein ThiG {Bacillus subti	91.11
d1zfja1	365	Inosine monophosphate dehydrogenase (IMPDH) {Strep	88.67
d1a53a_	247	Indole-3-glycerophosphate synthase, IPGS {Archaeon	88.52
d1vrda1	330	Inosine monophosphate dehydrogenase (IMPDH) {Therm	86.3
d1vl0a_	281	DTDP-4-dehydrorhamnose reductase RfbD {Clostridium	85.66
d1i7qb_	192	Anthranilate synthase GAT subunit, TrpG {Serratia	85.34
d1gtea2	312	Dihydropyrimidine dehydrogenase, domain 4 {Pig (Su	85.32
d1qapa1	167	Quinolinic acid phosphoribosyltransferase (Nicotin	85.2
d1xeaa1	167	Putative oxidoreductase VCA1048 {Vibrio cholerae [	84.86
d1qapa1	167	Quinolinic acid phosphoribosyltransferase (Nicotin	84.47
d1w0ma_	226	Triosephosphate isomerase {Thermoproteus tenax [Ta	83.16
d1wl8a1	188	GMP synthase subunit A, GuaAA {Archaeon Pyrococcus	82.68
d1qopa_	267	Trp synthase alpha-subunit {Salmonella typhimurium	82.37
d1xi3a_	206	Thiamin phosphate synthase {Archaeon (Pyrococcus f	82.19
d1vpxa_	218	Decameric fructose-6-phosphate aldolase/transaldol	82.17
d2tpsa_	226	Thiamin phosphate synthase {Bacillus subtilis [Tax	82.03
d2ifta1	183	Putative methylase HI0767 {Haemophilus influenzae	81.83
d2basa1	261	Hypothetical protein YkuI, N-terminal domain {Baci	81.82
d2fy8a1	129	Potassium channel-related protein MthK {Archaeon M	81.23
d1vc4a_	254	Indole-3-glycerophosphate synthase, IPGS {Thermus	81.0
d2fhpa1	182	Putative methylase EF2452 {Enterococcus faecalis [	80.98
d2ayxa2	117	Sensor kinase protein RcsC {Escherichia coli [TaxI	80.94

>d2pl1a1 c.23.1.1 (A:1-119) PhoP receiver domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoP receiver domain
species: Escherichia coli [TaxId: 562]

Probab=99.97  E-value=2.8e-30  Score=162.13  Aligned_cols=117  Identities=26%  Similarity=0.405  Sum_probs=113.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      +||||+||++..+..+...|+..||.|..+.++++|+..++. ..||+||+|++||+++|+++++.+++..+.+|++++|
T Consensus         1 mrILvVDDd~~~~~~l~~~L~~~G~~v~~a~~g~eal~~l~~-~~~dliilD~~mP~~~G~e~~~~i~~~~~~~pvi~lt   79 (119)
T d2pl1a1           1 MRVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNE-HIPDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVLT   79 (119)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-SCCSEEEECSCCSSSCHHHHHHHHHHTTCCSCEEEEE
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHh-cccceeehhccCCCchhHHHHHHHHhcCcccceEeee
Confidence            589999999999999999999999999999999999999998 6799999999999999999999999998999999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+.+....+++.|+++|+.||++.++|..+++++++
T Consensus        80 ~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~v~~~lr  117 (119)
T d2pl1a1          80 ARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMR  117 (119)
T ss_dssp             SCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999876

>d1dbwa_ c.23.1.1 (A:) Transcriptional regulatory protein FixJ, receiver domain {Rhizobium meliloti [TaxId: 382]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein FixJ, receiver domain
species: Rhizobium meliloti [TaxId: 382]

Probab=99.97  E-value=1.9e-29  Score=159.15  Aligned_cols=118  Identities=20%  Similarity=0.340  Sum_probs=113.5

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      .++|||+||++..+..+..+|+..||.|..+++++++++.+.. ..||++|+|++||+++|+++++.+++..+.+|+|++
T Consensus         3 ~~~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~-~~~dlvi~D~~mp~~~G~e~~~~lr~~~~~~~iI~l   81 (123)
T d1dbwa_           3 DYTVHIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPD-VRNGVLVTDLRMPDMSGVELLRNLGDLKINIPSIVI   81 (123)
T ss_dssp             CCEEEEEESSHHHHHHHHHHHHHTTCEEEEESCHHHHHHHGGG-CCSEEEEEECCSTTSCHHHHHHHHHHTTCCCCEEEE
T ss_pred             CCEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhh-cCCcEEEEeccCccccchHHHHHHHhcCCCCeEEEE
Confidence            4699999999999999999999999999999999999999988 679999999999999999999999999999999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |+..+.+....+++.|+++|+.||++.++|..++++.++
T Consensus        82 t~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~a~e  120 (123)
T d1dbwa_          82 TGHGDVPMAVEAMKAGAVDFIEKPFEDTVIIEAIERASE  120 (123)
T ss_dssp             ECTTCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHT
T ss_pred             EeeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999998875

>d1peya_ c.23.1.1 (A:) Sporulation response regulator Spo0F {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Sporulation response regulator Spo0F
species: Bacillus subtilis [TaxId: 1423]

Probab=99.97  E-value=2.7e-29  Score=157.61  Aligned_cols=116  Identities=24%  Similarity=0.387  Sum_probs=111.6

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEec
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      ||||+||++..+..+...|+..||.+..++++++|++.++. ..||+|++|+.||+++|+++++.+|+..+.+|||++|+
T Consensus         3 rILvVDD~~~~~~~l~~~L~~~g~~v~~a~~g~eal~~~~~-~~~dlillD~~mP~~~G~el~~~lr~~~~~~pvi~lt~   81 (119)
T d1peya_           3 KILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTK-ERPDLVLLDMKIPGMDGIEILKRMKVIDENIRVIIMTA   81 (119)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-HCCSEEEEESCCTTCCHHHHHHHHHHHCTTCEEEEEES
T ss_pred             EEEEEeCCHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHHh-CCCCEEEEeccCCCCCHHHHHHHHHHhCCCCcEEEEec
Confidence            89999999999999999999999999999999999999988 57999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          108 RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       108 ~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ..+.+....+++.|+++|+.||++.++|..++++++.
T Consensus        82 ~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~v~~~L~  118 (119)
T d1peya_          82 YGELDMIQESKELGALTHFAKPFDIDEIRDAVKKYLP  118 (119)
T ss_dssp             SCCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHSC
T ss_pred             CCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHCC
Confidence            9999999999999999999999999999999998763

>d1ys7a2 c.23.1.1 (A:7-127) Transcriptional regulatory protein PrrA, N-terminal domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein PrrA, N-terminal domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=99.97  E-value=7.6e-30  Score=160.59  Aligned_cols=116  Identities=30%  Similarity=0.458  Sum_probs=112.0

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEec
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      +|||+||++..+..+...|+..||.|..+.++++|++.++. ..||+||+|++||+++|+++++.+|+..+.+|||++|+
T Consensus         3 kILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~~~-~~~dlvl~D~~mP~~~G~el~~~ir~~~~~~piI~lt~   81 (121)
T d1ys7a2           3 RVLVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSATE-NRPDAIVLDINMPVLDGVSVVTALRAMDNDVPVCVLSA   81 (121)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-SCCSEEEEESSCSSSCHHHHHHHHHHTTCCCCEEEEEC
T ss_pred             EEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHh-CCCCEEEEEeeccCcccHHHHHHHHhcCCCCEEEEEEe
Confidence            79999999999999999999999999999999999999998 67999999999999999999999999888999999999


Q ss_pred             CCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          108 RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       108 ~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ..+.+....+++.|+++|+.||++.++|..+++++++
T Consensus        82 ~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~  118 (121)
T d1ys7a2          82 RSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLR  118 (121)
T ss_dssp             CCTTTCCCTTTTTTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             eCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999885

>d1mvoa_ c.23.1.1 (A:) PhoP receiver domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoP receiver domain
species: Bacillus subtilis [TaxId: 1423]

Probab=99.97  E-value=4.1e-29  Score=157.24  Aligned_cols=118  Identities=27%  Similarity=0.416  Sum_probs=112.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .+|||+||++..+..+..+|+..||.|..++++++|++.+.. ..||+||+|++||+++|+++++.++...+..||+++|
T Consensus         3 krILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~-~~~dlillD~~mp~~~G~~~~~~~r~~~~~~~ii~lt   81 (121)
T d1mvoa_           3 KKILVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAET-EKPDLIVLDVMLPKLDGIEVCKQLRQQKLMFPILMLT   81 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-HCCSEEEEESSCSSSCHHHHHHHHHHTTCCCCEEEEE
T ss_pred             CCEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhc-ccccEEEecccccCCCCchhhhhhhccCCCCEEEEEE
Confidence            389999999999999999999999999999999999999988 6799999999999999999999999998899999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      +..+.+....+++.|+++|+.||+++++|..++++++++
T Consensus        82 ~~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~lrR  120 (121)
T d1mvoa_          82 AKDEEFDKVLGLELGADDYMTKPFSPREVNARVKAILRR  120 (121)
T ss_dssp             CTTCCCCHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHT
T ss_pred             eeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            999999899999999999999999999999999998864

>d1kgsa2 c.23.1.1 (A:2-123) PhoB receiver domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoB receiver domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.97  E-value=2.8e-29  Score=158.19  Aligned_cols=117  Identities=26%  Similarity=0.391  Sum_probs=112.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      +||||+||++..+..+...|+..||.|..++++++|++.+.. ..||+||+|+.||+++|+++++.+|+..+.+|+|++|
T Consensus         2 irILiVdDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~-~~~dlillD~~mp~~~g~~~~~~lr~~~~~~piI~lt   80 (122)
T d1kgsa2           2 VRVLVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMALN-EPFDVVILDIMLPVHDGWEILKSMRESGVNTPVLMLT   80 (122)
T ss_dssp             CEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-SCCSEEEEESCCSSSCHHHHHHHHHHTTCCCCEEEEE
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEEcchHHHHHHHHh-hCccccccccccccchhHHHHHHHHhcCCCCcEEEEc
Confidence            689999999999999999999999999999999999999998 6899999999999999999999999988899999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+......+++.|+++|+.||+++++|..+++++++
T Consensus        81 ~~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~l~  118 (122)
T d1kgsa2          81 ALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRALIR  118 (122)
T ss_dssp             SSCHHHHHHHTCCCCCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHcCCceeecCCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999998875

>d2a9pa1 c.23.1.1 (A:2-118) DNA-binding response regulator MicA, N-terminal domain {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: DNA-binding response regulator MicA, N-terminal domain
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=99.96  E-value=9.6e-29  Score=154.67  Aligned_cols=116  Identities=27%  Similarity=0.468  Sum_probs=110.5

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEec
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      ||||+||++..+..+...|+..||.|..++++++|+..++. ..||+||+|+.||+++|+++++.+++. +.+|+|++|+
T Consensus         2 rILiVdDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~~~-~~~dlillD~~mp~~~G~~~~~~i~~~-~~~pvI~lt~   79 (117)
T d2a9pa1           2 KILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEA-EQPDIIILDLMLPEIDGLEVAKTIRKT-SSVPILMLSA   79 (117)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-HCCSEEEECSSCSSSCHHHHHHHHHTT-CCCCEEEEES
T ss_pred             EEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHh-cCCCEEEeccccCCCCccHHHHHHHhC-CCCCEEEEec
Confidence            79999999999999999999999999999999999999998 679999999999999999999999875 5799999999


Q ss_pred             CCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936          108 RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       108 ~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      ..+......+++.|+++|+.||+++++|..++++++++
T Consensus        80 ~~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~lrR  117 (117)
T d2a9pa1          80 KDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLRR  117 (117)
T ss_dssp             CCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHhCC
Confidence            99999999999999999999999999999999998874

>d1u0sy_ c.23.1.1 (Y:) CheY protein {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: CheY protein
species: Thermotoga maritima [TaxId: 2336]

Probab=99.96  E-value=7.7e-29  Score=155.31  Aligned_cols=116  Identities=28%  Similarity=0.455  Sum_probs=110.3

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      +.||||+||++..+..+..+|+..||.+. .+++++++++.+++ ..||+|++|++||+++|+++++.+++..+++||++
T Consensus         1 GkrILivDD~~~~~~~l~~~L~~~g~~v~~~a~~~~~al~~~~~-~~~dliilD~~mp~~~G~e~~~~ir~~~~~~pvi~   79 (118)
T d1u0sy_           1 GKRVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKE-LKPDIVTMDITMPEMNGIDAIKEIMKIDPNAKIIV   79 (118)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHH-HCCSEEEEECSCGGGCHHHHHHHHHHHCTTCCEEE
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHcCCceEEEECCHHHHHHHHHh-ccCCEEEEecCCCCCCHHHHHHHHHHhCCCCcEEE
Confidence            35899999999999999999999999976 68999999999988 67999999999999999999999999999999999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      +|+..+.+....+++.|+++|+.||+++++|..+++++
T Consensus        80 ls~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~l~~v  117 (118)
T d1u0sy_          80 CSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKV  117 (118)
T ss_dssp             EECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHH
T ss_pred             EEccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence            99999999999999999999999999999999999876

>d1ny5a1 c.23.1.1 (A:1-137) Transcriptional activator sigm54 (NtrC1), N-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional activator sigm54 (NtrC1), N-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=99.96  E-value=7.5e-29  Score=159.15  Aligned_cols=117  Identities=27%  Similarity=0.413  Sum_probs=111.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      ++|||+||++..+..+...|+..||.|..++++++|+..+.. ..||+||+|+.||+++|+++++.+++..+++|||++|
T Consensus         1 mkILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eAl~~l~~-~~~dlvilD~~mp~~~G~e~~~~lr~~~~~~piI~lT   79 (137)
T d1ny5a1           1 MNVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLSE-KHFNVVLLDLLLPDVNGLEILKWIKERSPETEVIVIT   79 (137)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHHHTCEEEEESSHHHHHHHHHH-SCCSEEEEESBCSSSBHHHHHHHHHHHCTTSEEEEEE
T ss_pred             CEEEEEecCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHhhc-cccccchHHHhhhhhhHHHHHHHHHHhCCCCCEEEEE
Confidence            589999999999999999999999999999999999999998 5799999999999999999999999999999999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+......+++.||++|+.||++.++|..++++.++
T Consensus        80 ~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~  117 (137)
T d1ny5a1          80 GHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAIE  117 (137)
T ss_dssp             ETTCHHHHHHHHTTTCCEEEEESCCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999987653

>d1krwa_ c.23.1.1 (A:) NTRC receiver domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: NTRC receiver domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=99.96  E-value=2.6e-29  Score=158.55  Aligned_cols=117  Identities=24%  Similarity=0.324  Sum_probs=112.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .+|||+||++..+..+...|+..||.|..+++++++++.+.. ..||+||+|++||+++|+++++.+++.++.+|||++|
T Consensus         4 ~~ILIVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~a~~~l~~-~~~dlii~D~~mp~~~G~el~~~l~~~~~~~piI~~t   82 (123)
T d1krwa_           4 GIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALAS-KTPDVLLSDIRMPGMDGLALLKQIKQRHPMLPVIIMT   82 (123)
T ss_dssp             CEEEEESSSHHHHHHHHHHHHHTTCEEEEESSSHHHHHHHTT-CCCSEEEECCSSSSSTTHHHHHHHHHHSSSCCEEESC
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHh-CCCCEEEehhhcCCchHHHHHHHHHHhCCCCeEEEEe
Confidence            379999999999999999999999999999999999999987 6899999999999999999999999999999999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+.+....+++.|+++|+.||++.++|..++++.++
T Consensus        83 ~~~~~~~~~~a~~~Ga~dyl~KP~~~~eL~~~i~~~l~  120 (123)
T d1krwa_          83 AHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAIS  120 (123)
T ss_dssp             CCSCHHHHHHHHHHTEEEECSSCCHHHHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHcCCCeEEeCcCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999998875

>d1zesa1 c.23.1.1 (A:3-123) PhoB receiver domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoB receiver domain
species: Escherichia coli [TaxId: 562]

Probab=99.96  E-value=2.6e-28  Score=153.55  Aligned_cols=117  Identities=25%  Similarity=0.375  Sum_probs=111.0

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh--CCCCcEEEE
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM--KVESKIVGV  105 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~--~~~~~ii~l  105 (145)
                      ||||+||++..+..+...|+..||.+..++++++|++.+.. ..||+||+|+.||+++|+++++.||+.  .+.+|+|++
T Consensus         2 kILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~-~~~dlil~D~~mp~~~G~~l~~~lr~~~~~~~~pvi~l   80 (121)
T d1zesa1           2 RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNE-PWPDLILLDWMLPGGSGIQFIKHLKRESMTRDIPVVML   80 (121)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHSSS-SCCSEEEECSSCTTSCHHHHHHHHHHSTTTTTSCEEEE
T ss_pred             EEEEEeCCHHHHHHHHHHHHHCCCEEEEECChHHHHHHHHc-cCCCEEEeecCCCCCCHHHHHHHHHhCccCCCCeEEEE
Confidence            79999999999999999999999999999999999999987 689999999999999999999999985  357999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      |+..+......+++.|+++|+.||++.++|..++++++++
T Consensus        81 t~~~~~~~~~~~~~~G~~d~l~KP~~~~~L~~~v~~~lrR  120 (121)
T d1zesa1          81 TARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMRR  120 (121)
T ss_dssp             ESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHT
T ss_pred             ECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcC
Confidence            9999999999999999999999999999999999998864

>d1xhfa1 c.23.1.1 (A:2-122) Aerobic respiration control protein ArcA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Aerobic respiration control protein ArcA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.96  E-value=2.8e-28  Score=153.34  Aligned_cols=116  Identities=21%  Similarity=0.371  Sum_probs=110.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      -+|||+||++..+..+...|+..||.+..+.+++++++.+.. ..||+|++|++||+++|+++++.+++. +++|+|++|
T Consensus         3 p~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~-~~~dlii~D~~mp~~~G~~~~~~~r~~-~~~pii~lt   80 (121)
T d1xhfa1           3 PHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSE-YDINLVIMDINLPGKNGLLLARELREQ-ANVALMFLT   80 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHH-SCCSEEEECSSCSSSCHHHHHHHHHHH-CCCEEEEEE
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEECChHHHHHHHHh-cCCCEEEeecccCCccCcHHHHHHHhc-CCCcEEEEE
Confidence            389999999999999999999999999999999999999998 689999999999999999999999885 579999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+......+++.|+++|+.||+++++|..+++++++
T Consensus        81 ~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~v~~~l~  118 (121)
T d1xhfa1          81 GRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLS  118 (121)
T ss_dssp             SCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999875

>d2ayxa1 c.23.1.1 (A:817-949) Sensor kinase protein RcsC, C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Sensor kinase protein RcsC, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.96  E-value=1.7e-28  Score=156.78  Aligned_cols=120  Identities=31%  Similarity=0.573  Sum_probs=113.7

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           24 NRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        24 ~~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      ...++|||+||++..+..+..+|+..||.|..+.++.+|++.+.. .+||+||+|+.||+++|+++++.||+..+.+||+
T Consensus         6 ~~~~~ILiVDD~~~~~~~l~~~L~~~g~~v~~a~~g~ea~~~~~~-~~~dlillD~~mP~~dG~el~~~ir~~~~~~pii   84 (133)
T d2ayxa1           6 NDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSK-NHIDIVLSDVNMPNMDGYRLTQRIRQLGLTLPVI   84 (133)
T ss_dssp             CCCCEEEEEESSHHHHHHHHHHHHHHTSEEEEECCSHHHHHHHHH-SCCSEEEEEESSCSSCCHHHHHHHHHHHCCSCEE
T ss_pred             CCCCEEEEEECCHHHHHHHHHHHHHcCCEEEEECcHHHHHHHHhc-cCceEEEEeccCCCCCHHHHHHHHHHhCCCCCEE
Confidence            356799999999999999999999999999999999999999998 6899999999999999999999999998899999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++|+..+.+....+++.|+++|+.||++.++|..+++.+++
T Consensus        85 ~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~  125 (133)
T d2ayxa1          85 GVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTLTLYAE  125 (133)
T ss_dssp             EEESSTTSHHHHHHHHCCCEEEEESSCCHHHHHHHHHHHHH
T ss_pred             EEeccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999987763

>d1qkka_ c.23.1.1 (A:) Transcriptional regulatory protein DctD, receiver domain {Sinorhizobium meliloti [TaxId: 382]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein DctD, receiver domain
species: Sinorhizobium meliloti [TaxId: 382]

Probab=99.96  E-value=1.7e-28  Score=158.04  Aligned_cols=116  Identities=22%  Similarity=0.298  Sum_probs=111.3

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEec
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      +|||+||++..+..+..+|+..||.+..+.++++++..+.. ..||+||+|+.||+++|+++++.+++..|++|||++|+
T Consensus         2 ~ILiVDDd~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~-~~~dlil~D~~mP~~~G~el~~~lr~~~~~~pvI~lT~   80 (140)
T d1qkka_           2 SVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSA-DFAGIVISDIRMPGMDGLALFRKILALDPDLPMILVTG   80 (140)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHTCCT-TCCSEEEEESCCSSSCHHHHHHHHHHHCTTSCEEEEEC
T ss_pred             EEEEEECCHHHHHHHHHHHHHCCCEEEEeCChHHHHHHHhc-cCcchHHHhhccCCCCHHHHHHHHHHhCCCCcEEEEEC
Confidence            69999999999999999999999999999999999999987 68999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          108 RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       108 ~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ..+.+....+++.||++|+.||++.++|..++++.++
T Consensus        81 ~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~~~  117 (140)
T d1qkka_          81 HGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEE  117 (140)
T ss_dssp             GGGHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHcCCCEeecCCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999988763

>d1zh2a1 c.23.1.1 (A:2-120) Transcriptional regulatory protein KdpE, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein KdpE, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.96  E-value=1.4e-28  Score=154.31  Aligned_cols=115  Identities=24%  Similarity=0.376  Sum_probs=109.5

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEec
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      +|||+||++..+..+...|+..||.+..++++++|++.+++ ..||+||+|+.||+++|+++++.+|+. +..|+|++|+
T Consensus         2 nILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l~~-~~~dliilD~~mP~~~G~e~~~~ir~~-~~~piI~lt~   79 (119)
T d1zh2a1           2 NVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAAT-RKPDLIILDLGLPDGDGIEFIRDLRQW-SAVPVIVLSA   79 (119)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHH-HCCSEEEEESEETTEEHHHHHHHHHTT-CCCCEEEEES
T ss_pred             EEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHh-cCCCEEEeccccCCCCCchHHHHHHhc-cCCcEEEEec
Confidence            69999999999999999999999999999999999999988 679999999999999999999999875 5679999999


Q ss_pred             CCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          108 RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       108 ~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ..+.+....+++.|+++|+.||++.++|..+++++++
T Consensus        80 ~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~lr  116 (119)
T d1zh2a1          80 RSEESDKIAALDAGADDYLSKPFGIGELQARLRVALR  116 (119)
T ss_dssp             CCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999886

>d1mb3a_ c.23.1.1 (A:) Cell division response regulator DivK {Caulobacter crescentus [TaxId: 155892]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Cell division response regulator DivK
species: Caulobacter crescentus [TaxId: 155892]

Probab=99.96  E-value=2.9e-28  Score=153.68  Aligned_cols=118  Identities=19%  Similarity=0.405  Sum_probs=105.4

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC--CCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK--VESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~--~~~~ii~  104 (145)
                      .||||+||++..+..+..+|+..||.+..+.++.+|++.++. ..||+||+|++||+++|+++++.||+..  +++|+++
T Consensus         2 krILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~-~~~dlil~D~~mp~~dG~el~~~ir~~~~~~~iPii~   80 (123)
T d1mb3a_           2 KKVLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIARE-NKPDLILMDIQLPEISGLEVTKWLKEDDDLAHIPVVA   80 (123)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHHH-HCCSEEEEESBCSSSBHHHHHHHHHHSTTTTTSCEEE
T ss_pred             ceEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHh-CCCCEEEEEeccCCCcHHHHHHHHHhCCCcCCCCeEE
Confidence            489999999999999999999999999999999999999988 5799999999999999999999999864  5789999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      +|+.........+++.|+++|+.||++.++|..++++++++
T Consensus        81 lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~l~r  121 (123)
T d1mb3a_          81 VTAFAMKGDEERIREGGCEAYISKPISVVHFLETIKRLLER  121 (123)
T ss_dssp             EC------CHHHHHHHTCSEEECSSCCHHHHHHHHHHHHSC
T ss_pred             EEEecCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHhC
Confidence            99999888899999999999999999999999999998863

>d1a04a2 c.23.1.1 (A:5-142) Nitrate/nitrite response regulator (NarL), receiver domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Nitrate/nitrite response regulator (NarL), receiver domain
species: Escherichia coli [TaxId: 562]

Probab=99.96  E-value=9.8e-28  Score=154.08  Aligned_cols=119  Identities=23%  Similarity=0.389  Sum_probs=111.2

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcC--CeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVG--FKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g--~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      +++|||+||++..+..++.+|+..|  +.+..+++++++++.++. ..||++|+|++||+++|+++++.+|+..+.+|++
T Consensus         2 Pi~VLiVDD~~~~r~~l~~~L~~~~~~~~v~~a~~~~~al~~~~~-~~~DlvllD~~mP~~~G~el~~~ir~~~~~~~vi   80 (138)
T d1a04a2           2 PATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAES-LDPDLILLDLNMPGMNGLETLDKLREKSLSGRIV   80 (138)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHTTCTTEEEEEEESSHHHHHHHHHH-HCCSEEEEETTSTTSCHHHHHHHHHHSCCCSEEE
T ss_pred             CCEEEEECCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHh-cCCCEEEEecCCCCCCHHHHHHHHHhhCCCCCEE
Confidence            5799999999999999999998776  446689999999999987 5799999999999999999999999999999999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhhC
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQKN  145 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~~  145 (145)
                      ++|...+......+++.||++|+.||+++++|..+++++++|
T Consensus        81 vlt~~~~~~~~~~a~~~Ga~~yl~Kp~~~~~L~~~i~~v~~g  122 (138)
T d1a04a2          81 VFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAG  122 (138)
T ss_dssp             EEECCCCHHHHHHHHHTTCSEEEETTCCHHHHHHHHHHHHHS
T ss_pred             EEEEECCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHCC
Confidence            999999999999999999999999999999999999998764

>d1zgza1 c.23.1.1 (A:2-121) TorCAD operon transcriptional regulator TorD, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: TorCAD operon transcriptional regulator TorD, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.96  E-value=1.7e-27  Score=149.60  Aligned_cols=117  Identities=24%  Similarity=0.438  Sum_probs=109.9

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      +.||||+||++..+..+..+|+..||.|..+++++++++.+.+ ..||+|++|++||+++|+++++.++.. +..|+|++
T Consensus         1 P~rILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~a~~~~~~-~~~dliilD~~mp~~~g~~~~~~~~~~-~~~piI~l   78 (120)
T d1zgza1           1 PHHIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIMQN-QSVDLILLDINLPDENGLMLTRALRER-STVGIILV   78 (120)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-SCCSEEEEESCCSSSCHHHHHHHHHTT-CCCEEEEE
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHh-cCCCEEeeehhhccchhHHHHHHHhcc-CCCeEEEE
Confidence            3589999999999999999999999999999999999999998 679999999999999999999988764 56899999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |+..+......+++.||++|+.||++.++|..+++++++
T Consensus        79 t~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~lr  117 (120)
T d1zgza1          79 TGRSDRIDRIVGLEMGADDYVTKPLELRELVVRVKNLLW  117 (120)
T ss_dssp             ESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             EccCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHc
Confidence            999999999999999999999999999999999999875

>d1yioa2 c.23.1.1 (A:3-130) Response regulatory protein StyR, N-terminal domain {Pseudomonas fluorescens [TaxId: 294]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulatory protein StyR, N-terminal domain
species: Pseudomonas fluorescens [TaxId: 294]

Probab=99.96  E-value=6.4e-28  Score=153.12  Aligned_cols=116  Identities=27%  Similarity=0.332  Sum_probs=111.1

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEec
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      +|||+||++..+..+..+|+..||.|..++++++++..++. ..||+||+|++||+++|+++++.+++..+..||+++|+
T Consensus         4 ~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~-~~~dliilD~~mp~~~G~~~~~~i~~~~~~~~ii~lt~   82 (128)
T d1yioa2           4 TVFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHRRP-EQHGCLVLDMRMPGMSGIELQEQLTAISDGIPIVFITA   82 (128)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHCCT-TSCEEEEEESCCSSSCHHHHHHHHHHTTCCCCEEEEES
T ss_pred             EEEEEECCHHHHHHHHHHHHHcCCCccccccHHHHHHHHHh-cCCCEeehhhhcccchhHHHHHHHHhhCCCCeEEEEEE
Confidence            89999999999999999999999999999999999999987 67999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          108 RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       108 ~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ..+.+....++..|+++|+.||++.++|..++++.++
T Consensus        83 ~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~  119 (128)
T d1yioa2          83 HGDIPMTVRAMKAGAIEFLPKPFEEQALLDAIEQGLQ  119 (128)
T ss_dssp             CTTSCCCHHHHHTTEEEEEESSCCHHHHHHHHHHHHH
T ss_pred             ECCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHH
Confidence            9998889999999999999999999999999988764

>d1p6qa_ c.23.1.1 (A:) CheY protein {Sinorhizobium meliloti, CheY2 [TaxId: 382]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: CheY protein
species: Sinorhizobium meliloti, CheY2 [TaxId: 382]

Probab=99.96  E-value=8.5e-28  Score=152.71  Aligned_cols=120  Identities=24%  Similarity=0.398  Sum_probs=111.3

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHHhcCCe-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh--CCCC
Q 045936           24 NRPYFALVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM--KVES  100 (145)
Q Consensus        24 ~~~~~vlii~~~~~~~~~l~~~l~~~g~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~--~~~~  100 (145)
                      ..+++|||+||++..+..+...|+..||. +..++++++|++.+.+ .+||+||+|++||+++|+++++.+|+.  .+++
T Consensus         4 ~~~~kILiVDD~~~~~~~l~~~L~~~g~~~v~~a~~~~~al~~l~~-~~~dlii~D~~mP~~~G~el~~~lr~~~~~~~~   82 (129)
T d1p6qa_           4 AEKIKVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIMAQ-NPHHLVISDFNMPKMDGLGLLQAVRANPATKKA   82 (129)
T ss_dssp             SSCCCEEEECSSHHHHHHHHHHHHTTTCSCEECCSSHHHHHHHHHT-SCCSEEEECSSSCSSCHHHHHHHHTTCTTSTTC
T ss_pred             CCCCEEEEEECCHHHHHHHHHHHHHCCCeEEEEECCHHHHHHHHHh-CCCCeEEeeeecCCCChHHHHHHHHhCcccCCC
Confidence            35679999999999999999999999995 7788999999999997 679999999999999999999999985  4578


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      |+|++|+..+.+....++..|+++|+.||++.++|..+|++++.
T Consensus        83 pii~lt~~~~~~~~~~a~~~G~~~~l~KP~~~~~L~~~i~~vl~  126 (129)
T d1p6qa_          83 AFIILTAQGDRALVQKAAALGANNVLAKPFTIEKMKAAIEAVFG  126 (129)
T ss_dssp             EEEECCSCCCHHHHHHHHHHTCSCEECCCSSHHHHHHHHHHHHH
T ss_pred             eEEEEEecCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999875

>d1w25a1 c.23.1.1 (A:2-140) Response regulator PleD, receiver domain {Caulobacter crescentus [TaxId: 155892]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator PleD, receiver domain
species: Caulobacter crescentus [TaxId: 155892]

Probab=99.95  E-value=2.8e-27  Score=152.06  Aligned_cols=117  Identities=22%  Similarity=0.282  Sum_probs=110.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhC--CCCcEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMK--VESKIVG  104 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~--~~~~ii~  104 (145)
                      .||||+||++..+..+..+|+..||.|..+.++++|+..+.. ..||+|++|+.+|+.+|+++++.++...  +.+|||+
T Consensus         2 arILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~~~-~~~dlil~D~~~p~~~G~~~~~~ir~~~~~~~~piI~   80 (139)
T d1w25a1           2 ARILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAAR-DLPDIILLDVMMPGMDGFTVCRKLKDDPTTRHIPVVL   80 (139)
T ss_dssp             CEEEEECSSTTHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-HCCSEEEEESCCSSSCHHHHHHHHHHSTTTTTSCEEE
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEEccchhhhhhhhc-ccceeeeeeccccCCCchHHHHHhhhcccccCCCEEE
Confidence            589999999999999999999999999999999999999998 5799999999999999999999999853  5789999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +|+..+......+++.|+++|+.||+++.+|..+++.+++
T Consensus        81 lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~lr  120 (139)
T d1w25a1          81 ITALDGRGDRIQGLESGASDFLTKPIDDVMLFARVRSLTR  120 (139)
T ss_dssp             EECSSCHHHHHHHHHHTCCEEEESSCCHHHHHHHHHHHHH
T ss_pred             EEcCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999987764

>d2r25b1 c.23.1.1 (B:1087-1214) Response regulator Sin1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator Sin1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.95  E-value=4.4e-27  Score=149.12  Aligned_cols=119  Identities=27%  Similarity=0.495  Sum_probs=108.6

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCe-EEEecCHHHHHHHHhc----CCCccEEEEeCCCCCCCHHHHHHHHHhh-CCC
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRT----GAKFHIVFIDMEMPVMDGIEATKAMRAM-KVE   99 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~-v~~~~~~~~~l~~l~~----~~~~dlil~d~~~~~~~g~~~~~~l~~~-~~~   99 (145)
                      +.||||+||++..+..+...|+..||. |..+.++++|++.++.    +.+||+||+|++||+++|+++++.+|+. .+.
T Consensus         1 sirVLvVDD~~~~~~~l~~~L~~~g~~~v~~a~~g~eAl~~l~~~~~~~~~~dlillD~~mP~~dG~el~~~ir~~~~~~   80 (128)
T d2r25b1           1 SVKILVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGENYNMIFMDVQMPKVDGLLSTKMIRRDLGYT   80 (128)
T ss_dssp             CSCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHHHHHHTCCCSEEEECSCCSSSCHHHHHHHHHHHSCCC
T ss_pred             CeEEEEEeCCHHHHHHHHHHHHHcCCeEEEEEcChHHHHHHHHhhhhccCCCCEEEEEeCCCCCCHHHHHHHHHHccCCC
Confidence            358999999999999999999999986 7789999999988752    3579999999999999999999999875 557


Q ss_pred             CcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          100 SKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       100 ~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      .|||++|+..+......+++.|+++|+.||++.++|...+++++.
T Consensus        81 ~piI~lT~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~  125 (128)
T d2r25b1          81 SPIVALTAFADDSNIKECLESGMNGFLSKPIKRPKLKTILTEFCA  125 (128)
T ss_dssp             SCEEEEESCCSHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHCT
T ss_pred             CeEEEEECCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHH
Confidence            899999999999999999999999999999999999999998764

>d1p2fa2 c.23.1.1 (A:1-120) Response regulator DrrB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator DrrB
species: Thermotoga maritima [TaxId: 2336]

Probab=99.95  E-value=1.9e-27  Score=149.35  Aligned_cols=114  Identities=23%  Similarity=0.332  Sum_probs=106.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .+|||+||++..+..+...|+..|+ +.++.++++++.  .. ..||+||+|+.||+++|+++++.+|...+.+||+++|
T Consensus         3 ~kILiVDDd~~~~~~l~~~L~~~g~-v~~~~~~~~al~--~~-~~~dlillD~~mP~~~G~~~~~~lr~~~~~~~ii~it   78 (120)
T d1p2fa2           3 WKIAVVDDDKNILKKVSEKLQQLGR-VKTFLTGEDFLN--DE-EAFHVVVLDVMLPDYSGYEICRMIKETRPETWVILLT   78 (120)
T ss_dssp             EEEEEECSCHHHHHHHHHHHTTTEE-EEEESSHHHHHH--CC-SCCSEEEEESBCSSSBHHHHHHHHHHHCTTSEEEEEE
T ss_pred             CEEEEEECCHHHHHHHHHHHHhCCE-EEEECCHHHHHh--cC-CCCCEEEEeCcccccchhHHHHHHhhcCCCCcEEEEe
Confidence            5899999999999999999998886 778999999876  23 5699999999999999999999999999999999999


Q ss_pred             cCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..+.+....+++.||++|+.||+++++|..+++++++
T Consensus        79 ~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~  116 (120)
T d1p2fa2          79 LLSDDESVLKGFEAGADDYVTKPFNPEILLARVKRFLE  116 (120)
T ss_dssp             SCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999875

>d1dz3a_ c.23.1.1 (A:) Sporulation response regulator Spo0A {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Sporulation response regulator Spo0A
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=99.95  E-value=3.5e-27  Score=148.68  Aligned_cols=118  Identities=17%  Similarity=0.311  Sum_probs=107.4

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcC-Ce-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCC-CcE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVG-FK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVE-SKI  102 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g-~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~-~~i  102 (145)
                      ++||||+||++..+..+..+|...| +. |..+.++++|++.+++ ..||+||+|+.||+++|+++++.+|+..+. .||
T Consensus         1 sirILivDD~~~~~~~l~~~L~~~~~~~~v~~a~~g~~al~~~~~-~~~dlillD~~mP~~dG~e~~~~ir~~~~~~~~i   79 (123)
T d1dz3a_           1 SIKVCIADDNRELVSLLDEYISSQPDMEVIGTAYNGQDCLQMLEE-KRPDILLLDIIMPHLDGLAVLERIRAGFEHQPNV   79 (123)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHH-HCCSEEEEESCCSSSCHHHHHHHHHHHCSSCCEE
T ss_pred             CcEEEEEeCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHh-cCCCEEEEcCCCCCCCHHHHHHHHHhcCCCCCeE
Confidence            4689999999999999999998776 44 4589999999999998 579999999999999999999999987654 468


Q ss_pred             EEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          103 VGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       103 i~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +++|+..+......+++.|+++|+.||+++++|..+++++++
T Consensus        80 i~~t~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~v~~  121 (123)
T d1dz3a_          80 IMLTAFGQEDVTKKAVELGASYFILKPFDMENLAHHIRQVYG  121 (123)
T ss_dssp             EEEEETTCHHHHHHHHHTTCEEEEECSSCCTTHHHHHHHHHH
T ss_pred             EEEECcCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHc
Confidence            899999999999999999999999999999999999999875

>d1s8na_ c.23.1.1 (A:) Probable two-component system transcriptional regulator Rv1626 {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Probable two-component system transcriptional regulator Rv1626
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=99.95  E-value=1.5e-27  Score=160.78  Aligned_cols=117  Identities=27%  Similarity=0.428  Sum_probs=109.4

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEE-EecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVE-VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~-~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      .+.||||+||++..+..+..+|+..||.++ .++++++|++.+.. ..||+||+|++||+++|+++++.+++.. .+||+
T Consensus         2 ~p~kILiVDD~~~~r~~l~~~L~~~g~~vv~~a~~g~eal~~~~~-~~pDlvllDi~mP~~dG~e~~~~ir~~~-~~pIi   79 (190)
T d1s8na_           2 VPRRVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAEL-HKPDLVIMDVKMPRRDGIDAASEIASKR-IAPIV   79 (190)
T ss_dssp             CCCEEEEECSSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHH-HCCSEEEEESSCSSSCHHHHHHHHHHTT-CSCEE
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHhc-CCCCEEEEeccccCcchHHHHHHHHhcC-CCCEE
Confidence            367999999999999999999999999976 79999999999998 6799999999999999999999999864 58999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      ++|+..+.+....++++||++|+.||+++++|..+++..+
T Consensus        80 ~lTa~~~~~~~~~al~~Ga~~yl~KP~~~~~L~~~i~~~~  119 (190)
T d1s8na_          80 VLTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIELAV  119 (190)
T ss_dssp             EEEEGGGHHHHHTTGGGSCEEEEEESCCHHHHHHHHHHHH
T ss_pred             EEeCCCCHHHHHHHHHcCCCEeccCCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999997765

>d1dcfa_ c.23.1.2 (A:) Receiver domain of the ethylene receptor {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: Receiver domain of the ethylene receptor
domain: Receiver domain of the ethylene receptor
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.95  E-value=1.8e-26  Score=147.35  Aligned_cols=120  Identities=20%  Similarity=0.367  Sum_probs=109.3

Q ss_pred             CCCCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh-----C
Q 045936           23 KNRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM-----K   97 (145)
Q Consensus        23 ~~~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~-----~   97 (145)
                      ...+.+|||+||++..+..+..+|+..||.+..++++++|++.+..  .||+||+|++||+++|+++++.+|+.     .
T Consensus         4 d~~g~rILvVDD~~~~~~~l~~~L~~~G~~v~~a~~g~eal~~l~~--~~dlillD~~mP~~dG~el~~~ir~~~~~~~~   81 (134)
T d1dcfa_           4 NFTGLKVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVSH--EHKVVFMDVCMPGVENYQIALRIHEKFTKQRH   81 (134)
T ss_dssp             CCTTCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHCCT--TCSEEEEECCSSTTTTTHHHHHHHHHHC-CCS
T ss_pred             CCCCCEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHhhc--CCCeEEEEeccCCCchHHHHHHHHHhcccccC
Confidence            3457899999999999999999999999999999999999998753  69999999999999999999999863     2


Q ss_pred             CCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936           98 VESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus        98 ~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +.+|||++|+..+.+....+++.|+++|+.||++.++|..+++++++
T Consensus        82 ~~~~ii~lT~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~l~  128 (134)
T d1dcfa_          82 QRPLLVALSGNTDKSTKEKCMSFGLDGVLLKPVSLDNIRDVLSDLLE  128 (134)
T ss_dssp             CCCEEEEEESCCSHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHS
T ss_pred             CCCeEEEEeCCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHhh
Confidence            34678889999999999999999999999999999999999998874

>d1i3ca_ c.23.1.1 (A:) Response regulator for cyanobacterial phytochrome {Synechocystis sp. PCC 6803, RCP1 [TaxId: 1148]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator for cyanobacterial phytochrome
species: Synechocystis sp. PCC 6803, RCP1 [TaxId: 1148]

Probab=99.94  E-value=7.4e-26  Score=146.15  Aligned_cols=120  Identities=16%  Similarity=0.316  Sum_probs=108.2

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcC--CeEEEecCHHHHHHHHhcC------CCccEEEEeCCCCCCCHHHHHHHHHhh
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVG--FKVEVAENGKEAVDLFRTG------AKFHIVFIDMEMPVMDGIEATKAMRAM   96 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g--~~v~~~~~~~~~l~~l~~~------~~~dlil~d~~~~~~~g~~~~~~l~~~   96 (145)
                      ++.+|||+||++..+..++..|++.|  +.+..+.++++|+..++..      ..||+||+|++||+++|+++++.||+.
T Consensus         2 ppk~ILiVdD~~~~~~~l~~~L~~~g~~~~v~~a~~g~~Al~~l~~~~~~~~~~~pdlIllD~~mP~~~G~el~~~ir~~   81 (144)
T d1i3ca_           2 PPKVILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFLQQQGEYENSPRPNLILLDLNLPKKDGREVLAEIKQN   81 (144)
T ss_dssp             CCEEEEEECCCHHHHHHHHHHHHSCCSCEEEEEECSHHHHHHHHTTCGGGTTCCCCSEEEECSCCSSSCHHHHHHHHHHC
T ss_pred             CCCEEEEEECCHHHHHHHHHHHHHcCCCeEEEEECCHHHHHHHHHhchhhhccCCCCEEEEECccccccchHHHHHHHhC
Confidence            45689999999999999999998876  5788999999999998642      259999999999999999999999985


Q ss_pred             C--CCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936           97 K--VESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus        97 ~--~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      .  .++|||++|+..+.+....+++.|+++|+.||++.++|..+++++.+
T Consensus        82 ~~~~~iPvi~lT~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~l~~  131 (144)
T d1i3ca_          82 PDLKRIPVVVLTTSHNEDDVIASYELHVNCYLTKSRNLKDLFKMVQGIES  131 (144)
T ss_dssp             TTTTTSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHH
T ss_pred             cccCCCeEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHH
Confidence            3  57899999999999999999999999999999999999999987753

>d1k66a_ c.23.1.1 (A:) Response regulator for cyanobacterial phytochrome {Calothrix sp. pcc 7601, RcpB [TaxId: 1188]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator for cyanobacterial phytochrome
species: Calothrix sp. pcc 7601, RcpB [TaxId: 1188]

Probab=99.94  E-value=4.7e-26  Score=147.87  Aligned_cols=119  Identities=18%  Similarity=0.298  Sum_probs=108.8

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCC--eEEEecCHHHHHHHHhcC---------CCccEEEEeCCCCCCCHHHHHHHHH
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGF--KVEVAENGKEAVDLFRTG---------AKFHIVFIDMEMPVMDGIEATKAMR   94 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~--~v~~~~~~~~~l~~l~~~---------~~~dlil~d~~~~~~~g~~~~~~l~   94 (145)
                      +.+|||+||++..+..++..|+..||  .+..+.++++|++.++..         ..||+||+|++||+++|++++++||
T Consensus         6 ~~~ILiVDD~~~~~~~l~~~L~~~g~~~~v~~a~~g~eAl~~l~~~~~~~~~~~~~~pdlillD~~mP~~~G~el~~~ir   85 (149)
T d1k66a_           6 TQPLLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSYCNPDIAPRPAVILLDLNLPGTDGREVLQEIK   85 (149)
T ss_dssp             TSCEEEECCCHHHHHHHHHHHHHTTBCSCEEEECSHHHHHHHHHTCCSSSCGGGCCCCSEEEECSCCSSSCHHHHHHHHT
T ss_pred             CCcEEEEECCHHHHHHHHHHHHHcCCceEEEEECChHHHHHHHHhhccccccccccCCCeEEccccccCCCcHHHHHHHH
Confidence            45799999999999999999999997  688999999999998742         2599999999999999999999998


Q ss_pred             hhC--CCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936           95 AMK--VESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus        95 ~~~--~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      +..  +.+|||++|+..+.+....+++.|+++|+.||++.++|..+++++++
T Consensus        86 ~~~~~~~ipiI~lT~~~~~~~~~~~~~~Ga~~~l~KP~~~~~L~~~i~~~l~  137 (149)
T d1k66a_          86 QDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEIDRLTETVQTFIK  137 (149)
T ss_dssp             TSTTGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHH
T ss_pred             hccccCCCeEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHH
Confidence            853  57899999999999999999999999999999999999999988764

>d1k68a_ c.23.1.1 (A:) Response regulator for cyanobacterial phytochrome {Calothrix sp. pcc 7601, RcpA [TaxId: 1188]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator for cyanobacterial phytochrome
species: Calothrix sp. pcc 7601, RcpA [TaxId: 1188]

Probab=99.94  E-value=1.8e-25  Score=143.69  Aligned_cols=118  Identities=15%  Similarity=0.265  Sum_probs=107.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcC--CeEEEecCHHHHHHHHhcC------CCccEEEEeCCCCCCCHHHHHHHHHhhC-
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVG--FKVEVAENGKEAVDLFRTG------AKFHIVFIDMEMPVMDGIEATKAMRAMK-   97 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g--~~v~~~~~~~~~l~~l~~~------~~~dlil~d~~~~~~~g~~~~~~l~~~~-   97 (145)
                      .||||+||++..+..++..|+..|  |.+..+.++++|++.+...      ..||+||+|++||+++|+++++.+|+.. 
T Consensus         3 krILiVDD~~~~~~~l~~~L~~~g~~~~v~~a~~g~eAl~~l~~~~~~~~~~~pdlillD~~mP~~dG~el~~~ir~~~~   82 (140)
T d1k68a_           3 KKIFLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEYANASRPDLILLDLNLPKKDGREVLAEIKSDPT   82 (140)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHTCSSCCEEEEECSHHHHHHHHTTCGGGGSCCCCSEEEECSSCSSSCHHHHHHHHHHSTT
T ss_pred             CcEEEEECCHHHHHHHHHHHHHcCCCeEEEEECCHHHHHHHHHHhHHhhccCCCCEEEEeeccccccChHHHHHHHhCcc
Confidence            389999999999999999999876  6888999999999988641      3589999999999999999999999854 


Q ss_pred             -CCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936           98 -VESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus        98 -~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                       .++|||++|+..+.+....+++.|+++|+.||++.++|..+++++.+
T Consensus        83 ~~~iPvI~ls~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~i~~  130 (140)
T d1k68a_          83 LKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQLFQIVKGIEE  130 (140)
T ss_dssp             GGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHH
T ss_pred             cCCCcEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHH
Confidence             46899999999999999999999999999999999999999988753

>d2b4aa1 c.23.1.1 (A:2-119) Hypothetical protein BH3024 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Hypothetical protein BH3024
species: Bacillus halodurans [TaxId: 86665]

Probab=99.94  E-value=2e-26  Score=144.10  Aligned_cols=114  Identities=12%  Similarity=0.200  Sum_probs=99.9

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      +++|||+||++..+..+..+|+..||.+..+.++.++++.+....+||+||+|++||+++|+++++.+|+..+.+||+++
T Consensus         2 p~rILvVdDd~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~~dliilD~~lp~~~G~el~~~ir~~~~~~pii~l   81 (118)
T d2b4aa1           2 PFRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHRSQLSTCDLLIVSDQLVDLSIFSLLDIVKEQTKQPSVLIL   81 (118)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHTGGGGGSCSEEEEETTCTTSCHHHHHHHHTTSSSCCEEEEE
T ss_pred             CCEEEEEECCHHHHHHHHHHHHhcCCCeEEECCHHHHHHHHHhcCCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCcEEEE
Confidence            57999999999999999999999999999999999999877543469999999999999999999999998889999999


Q ss_pred             ecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936          106 TSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      |+..+..  ..+...|+ +|+.||+++++|.++|+..
T Consensus        82 t~~~~~~--~~~~~~~~-dyl~KP~~~~eL~~~i~~~  115 (118)
T d2b4aa1          82 TTGRHEL--IESSEHNL-SYLQKPFAISELRAAIDYH  115 (118)
T ss_dssp             ESCC--C--CCCSSSCE-EEEESSCCHHHHHHHHHHT
T ss_pred             ECCccHH--HHHhhcCC-CEEECCCCHHHHHHHHHHH
Confidence            9876533  23455666 8999999999999999864

>d1w25a2 c.23.1.1 (A:141-293) Response regulator PleD, receiver domain {Caulobacter crescentus [TaxId: 155892]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator PleD, receiver domain
species: Caulobacter crescentus [TaxId: 155892]

Probab=99.94  E-value=1.8e-25  Score=145.70  Aligned_cols=116  Identities=13%  Similarity=0.160  Sum_probs=103.8

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh--CCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM--KVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~--~~~~~ii  103 (145)
                      +.+|||+||++..+..+...|+..||.+..  ++.++...+.. .+||+||+|++||+++|+++++.||+.  .+++|||
T Consensus        13 ~~rILiVDD~~~~~~~l~~~L~~~g~~v~~--~~~~~~~~~~~-~~~DlillD~~mP~~dG~el~~~ir~~~~~~~iPiI   89 (153)
T d1w25a2          13 GGRVLIVDDNERQAQRVAAELGVEHRPVIE--SDPEKAKISAG-GPVDLVIVNAAAKNFDGLRFTAALRSEERTRQLPVL   89 (153)
T ss_dssp             SCEEEEECSCHHHHHHHHHHHTTTSEEEEE--CCHHHHHHHHH-SSCSEEEEETTCSSSCHHHHHHHHHTSGGGTTCCEE
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHHCCCEEEE--ccHHHHHHHhc-CCCCEEEEECccccccchHHHHHHHhccccccceeE
Confidence            558999999999999999999999988743  45667777776 679999999999999999999999875  4689999


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ++|+..+......+++.|+++|+.||+++++|..+++..++
T Consensus        90 ~lt~~~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~l~  130 (153)
T d1w25a2          90 AMVDPDDRGRMVKALEIGVNDILSRPIDPQELSARVKTQIQ  130 (153)
T ss_dssp             EEECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHH
T ss_pred             EeecCCCHHHHHHHHhcCcceEEECCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999987764

>d1a2oa1 c.23.1.1 (A:1-140) Methylesterase CheB, N-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Methylesterase CheB, N-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=99.91  E-value=1.7e-23  Score=134.33  Aligned_cols=105  Identities=23%  Similarity=0.268  Sum_probs=92.0

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcC--CeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVG--FKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g--~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      +++|||+||++..+..+..+|+..|  +.|..+.|+.+|++.+.. ..||+||+|++||+++|+++++.+++..+..+++
T Consensus         3 kirVLiVDD~~~~r~~l~~~L~~~g~~~~v~~a~~g~~al~~~~~-~~pDlvllDi~MP~~dG~e~~~~ir~~~~~~~i~   81 (140)
T d1a2oa1           3 KIRVLSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIKK-FNPDVLTLDVEMPRMDGLDFLEKLMRLRPMPVVM   81 (140)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHH-HCCSEEEEECCCSSSCHHHHHHHHHHSSCCCEEE
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHhCCCeEEEEEECCHHHHHHHHHh-cCCCEEEEcCCCCCCCHHHHHHHHHHhCCCCcEE
Confidence            5799999999999999999999888  446689999999999987 6799999999999999999999999988877777


Q ss_pred             EEecCC-ChHHHHHHHHhcccEEeeCCCC
Q 045936          104 GVTSRN-SETEREVFMQAGLDLCYTKPLT  131 (145)
Q Consensus       104 ~lt~~~-~~~~~~~~~~~g~~~~l~kP~~  131 (145)
                      +++... +.+....+++.|+++|+.||+.
T Consensus        82 i~~~~~~~~~~~~~al~~Ga~~yl~KP~~  110 (140)
T d1a2oa1          82 VSSLTGKGSEVTLRALELGAIDFVTKPQL  110 (140)
T ss_dssp             EECCTHHHHHHHHHHHHHTCCEEEECSSS
T ss_pred             EEEecCCChHHHHHHHHcCCCEEEECCCC
Confidence            776543 3345678999999999999964

>d1qo0d_ c.23.1.3 (D:) Positive regulator of the amidase operon AmiR {Pseudomonas aeruginosa [TaxId: 287]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: Positive regulator of the amidase operon AmiR
domain: Positive regulator of the amidase operon AmiR
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=99.88  E-value=1.2e-22  Score=136.11  Aligned_cols=113  Identities=18%  Similarity=0.192  Sum_probs=101.2

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEE
Q 045936           25 RPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVG  104 (145)
Q Consensus        25 ~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~  104 (145)
                      ++++|||+||++..+..+...|+..||.|..+.++.+++.     ..||+||+|++||+.+|..+ ..++...|.+|||+
T Consensus        10 ~~~~iLvvdd~~~~~~~l~~~L~~~G~~v~~~~~~~~al~-----~~~Dlvl~D~~mp~~~~~~~-~~~~~~~p~~pvI~   83 (189)
T d1qo0d_          10 RELQVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAFD-----VPVDVVFTSIFQNRHHDEIA-ALLAAGTPRTTLVA   83 (189)
T ss_dssp             GGCEEEEESCTTHHHHHHHHHHHHHTCEEEEECSCCSSCS-----SCCSEEEEECCSSTHHHHHH-HHHHHSCTTCEEEE
T ss_pred             cCCEEEEEeCCHHHHHHHHHHHHHcCCcceecCCHHHhcc-----CCCCEEEEcCCCCCcHHHHH-HHHHHcCCCCCEEE
Confidence            4679999999999999999999999999999998888763     46999999999998766544 55666788999999


Q ss_pred             EecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936          105 VTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       105 lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      +|++.+.+....+++.|+++|+.||++.++|..+++...
T Consensus        84 lta~~~~~~~~~al~~Ga~~yL~KP~~~~~L~~~i~~~~  122 (189)
T d1qo0d_          84 LVEYESPAVLSQIIELECHGVITQPLDAHRVLPVLVSAR  122 (189)
T ss_dssp             EECCCSHHHHHHHHHHTCSEEEESSCCGGGHHHHHHHHH
T ss_pred             EeccchHHHHHHHHHcCCcEEEEecchhhHHHHHHhhcc
Confidence            999999999999999999999999999999999997654

>d1ccwa_ c.23.6.1 (A:) Glutamate mutase, small subunit {Clostridium cochlearium [TaxId: 1494]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: Glutamate mutase, small subunit
species: Clostridium cochlearium [TaxId: 1494]

Probab=97.87  E-value=0.00022  Score=43.89  Aligned_cols=111  Identities=11%  Similarity=0.000  Sum_probs=80.6

Q ss_pred             eCCHHHHHHHHHHHHhcCCeEE---EecCHHHHHHHHhcCCCccEEEEeCCCCCCC--HHHHHHHHHhhC-CCCcEEEEe
Q 045936           33 DDDPMIRRIHSMILKSVGFKVE---VAENGKEAVDLFRTGAKFHIVFIDMEMPVMD--GIEATKAMRAMK-VESKIVGVT  106 (145)
Q Consensus        33 ~~~~~~~~~l~~~l~~~g~~v~---~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~--g~~~~~~l~~~~-~~~~ii~lt  106 (145)
                      |-+..-...+...|+..||+|.   .....++.++.+.+ ..||+|.+...+....  ..++++.+++.. .+++|++=.
T Consensus        14 D~H~lG~~mva~~l~~~G~~V~~LG~~~p~e~iv~a~~~-~~~d~v~lS~~~~~~~~~~~~~~~~l~~~~~~~i~iivGG   92 (137)
T d1ccwa_          14 DCHAVGNKILDHAFTNAGFNVVNIGVLSPQELFIKAAIE-TKADAILVSSLYGQGEIDCKGLRQKCDEAGLEGILLYVGG   92 (137)
T ss_dssp             CCCCHHHHHHHHHHHHTTCEEEEEEEEECHHHHHHHHHH-HTCSEEEEEECSSTHHHHHTTHHHHHHHTTCTTCEEEEEE
T ss_pred             ChhHHHHHHHHHHHHHCCCeEEecccccCHHHHHHHHHh-cCCCEEEEeeccccchHHHHHHHHHHHHhccCCCEEEEeC
Confidence            4455566778889999999977   35688999998887 5799999998776542  224677777764 356665433


Q ss_pred             cCC-----ChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          107 SRN-----SETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       107 ~~~-----~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      ...     .+.....+.+.|++..+...-+++++...+++-++
T Consensus        93 ~~~~~~~~~~~~~~~l~~~Gv~~if~~~t~~~~~~~~l~~~l~  135 (137)
T d1ccwa_          93 NIVVGKQHWPDVEKRFKDMGYDRVYAPGTPPEVGIADLKKDLN  135 (137)
T ss_dssp             SCSSSSCCHHHHHHHHHHTTCSEECCTTCCHHHHHHHHHHHHT
T ss_pred             CcCCCccccHHHHHHHHHcCCCEEECCCCCHHHHHHHHHHHhC
Confidence            221     24455566788999999888899999999987664

>d7reqa2 c.23.6.1 (A:561-728) Methylmalonyl-CoA mutase alpha subunit, C-terminal domain {Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: Methylmalonyl-CoA mutase alpha subunit, C-terminal domain
species: Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]

Probab=97.44  E-value=0.002  Score=40.86  Aligned_cols=106  Identities=15%  Similarity=0.103  Sum_probs=73.0

Q ss_pred             cEEEEEe----CCHHHHHHHHHHHHhcCCeEEE---ecCHHHHHHHHhcCCCccEEEEeCCCCCC--CHHHHHHHHHhhC
Q 045936           27 YFALVVD----DDPMIRRIHSMILKSVGFKVEV---AENGKEAVDLFRTGAKFHIVFIDMEMPVM--DGIEATKAMRAMK   97 (145)
Q Consensus        27 ~~vlii~----~~~~~~~~l~~~l~~~g~~v~~---~~~~~~~l~~l~~~~~~dlil~d~~~~~~--~g~~~~~~l~~~~   97 (145)
                      .+|++.-    -+..-...+...|+..||+|..   ..+.++..+.+.+ ..+|+|.+...+...  ..-++++.|++..
T Consensus        38 pkVlla~~g~D~Hd~G~~~va~~l~~~G~eVi~lg~~~~~e~iv~aa~~-~~advI~iSs~~~~~~~~~~~l~~~L~~~g  116 (168)
T d7reqa2          38 PRILLAKMGQDGHDRGQKVIATAYADLGFDVDVGPLFQTPEETARQAVE-ADVHVVGVSSLAGGHLTLVPALRKELDKLG  116 (168)
T ss_dssp             CEEEEECBTTCCCCHHHHHHHHHHHHTTCEEEECCTTBCHHHHHHHHHH-HTCSEEEEEECSSCHHHHHHHHHHHHHHTT
T ss_pred             CeEEEEeCCccHHHHHHHHHHHHHHhCCcceecCCCcCcHHHHHHHHHc-cCCCEEEEecCcccchHHHHHHHHHHHhcC
Confidence            3666653    4556667888999999999874   4588999888887 569999888665543  2345777888775


Q ss_pred             -CCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHH
Q 045936           98 -VESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAK  134 (145)
Q Consensus        98 -~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~  134 (145)
                       ++++| ++.+.-.......+.+.|++.++..--+..+
T Consensus       117 ~~~v~V-ivGG~ip~~d~~~l~~~Gv~~iF~pgt~~~e  153 (168)
T d7reqa2         117 RPDILI-TVGGVIPEQDFDELRKDGAVEIYTPGTVIPE  153 (168)
T ss_dssp             CTTSEE-EEEESCCGGGHHHHHHHTEEEEECTTCCHHH
T ss_pred             CCCeEE-EEeCCCCHHHHHHHHhCCCCEEECcCCCHHH
Confidence             34433 4555555666777889999997754333333

>d1xrsb1 c.23.6.1 (B:102-261) D-lysine 5,6-aminomutase beta subunit KamE, C-terminal domain {Clostridium sticklandii [TaxId: 1511]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: D-lysine 5,6-aminomutase beta subunit KamE, C-terminal domain
species: Clostridium sticklandii [TaxId: 1511]

Probab=96.67  E-value=0.011  Score=37.05  Aligned_cols=107  Identities=7%  Similarity=0.027  Sum_probs=73.1

Q ss_pred             eCCHHHHHHHHHHHHhcC---------CeEEE---ecCHHHHHHHHhcCCCccEEEEeCCCCCCCH-----HHHHHHHHh
Q 045936           33 DDDPMIRRIHSMILKSVG---------FKVEV---AENGKEAVDLFRTGAKFHIVFIDMEMPVMDG-----IEATKAMRA   95 (145)
Q Consensus        33 ~~~~~~~~~l~~~l~~~g---------~~v~~---~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g-----~~~~~~l~~   95 (145)
                      |-+..=...+...|+..|         |+|..   ..+.++.++.+.+ ..+|+|-+...+....+     .++++.+++
T Consensus        30 D~HdiG~~iv~~~l~~~G~~~~~~~~~~eVi~LG~~vp~e~~v~~a~e-~~~d~VglS~l~t~~~~h~~~~~~~i~~l~~  108 (160)
T d1xrsb1          30 DAHTVGIDAIMNMKGYAGHYGLERYEMIDAYNLGSQVANEDFIKKAVE-LEADVLLVSQTVTQKNVHIQNMTHLIELLEA  108 (160)
T ss_dssp             CCCCHHHHHHHSTTCBTTBCCGGGCTTEEEEECCSSBCHHHHHHHHHH-TTCSEEEEECCCCTTSHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHcCCcccccccceEEEeCCCCCCHHHHHHHHHh-cCCCEEEEeecccccchhHHHHHHHHHHHHH
Confidence            344455566777888888         78762   4488889998887 57999999988765432     356777777


Q ss_pred             hCCCC-cEEEEec-CCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHh
Q 045936           96 MKVES-KIVGVTS-RNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus        96 ~~~~~-~ii~lt~-~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~  143 (145)
                      ....- ..+++.+ ..++   .-+.+.|++.|+..-.+..++...+...+
T Consensus       109 ~g~~d~v~vivGG~~~~~---~~a~~~GaD~~f~~g~~a~~~a~~l~~~l  155 (160)
T d1xrsb1         109 EGLRDRFVLLCGGPRINN---EIAKELGYDAGFGPGRFADDVATFAVKTL  155 (160)
T ss_dssp             TTCGGGSEEEEECTTCCH---HHHHTTTCSEEECTTCCHHHHHHHHHHHH
T ss_pred             cCCCCceEEEEcCCCCCH---HHHHHcCCCEEcCCCCCHHHHHHHHHHHH
Confidence            66532 3334443 3333   34568899999988778888887776554

>d7reqb2 c.23.6.1 (B:476-638) Methylmalonyl-CoA mutase beta subunit, C-terminal domain {Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: Methylmalonyl-CoA mutase beta subunit, C-terminal domain
species: Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]

Probab=96.36  E-value=0.0078  Score=37.78  Aligned_cols=101  Identities=12%  Similarity=0.099  Sum_probs=66.3

Q ss_pred             HHHHHHHHhcCCeEEE--ecCHHHHHHHHhcCCCccEEEEeCCCCCCC--HHHHHHHHHhhCCCCcEEEEecCCChHHHH
Q 045936           40 RIHSMILKSVGFKVEV--AENGKEAVDLFRTGAKFHIVFIDMEMPVMD--GIEATKAMRAMKVESKIVGVTSRNSETERE  115 (145)
Q Consensus        40 ~~l~~~l~~~g~~v~~--~~~~~~~l~~l~~~~~~dlil~d~~~~~~~--g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~  115 (145)
                      ....++|...||.+..  .-+.+++.+.... ...|++.+........  .-++++.|+....... +++..........
T Consensus        54 ~f~~n~f~~gGfev~~~~~~~~~e~v~aa~~-~~a~vvvicssd~~y~~~~~~~~~aLk~ag~~~~-vlaGg~~~~~d~~  131 (163)
T d7reqb2          54 GFSSPVWHIAGIDTPQVEGGTTAEIVEAFKK-SGAQVADLCSSAKVYAQQGLEVAKALKAAGAKAL-YLSGAFKEFGDDA  131 (163)
T ss_dssp             HHHHHHHHHTTCBCCEEESCCHHHHHHHHHH-HTCSEEEEECCHHHHHHHHHHHHHHHHHTTCSEE-EEESCGGGGGGGH
T ss_pred             HHHHHHHHccCeeeccCCCCCcHHHHHHHHh-CCCCEEEEecCccchHHHHHHHHHHHHhccccee-EEEecCCCcccHH
Confidence            4467788888988652  2356676666665 4578666554433222  3468889998776433 3344444555666


Q ss_pred             HHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936          116 VFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       116 ~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      .+.+.|+++|+..-.+.-+....+.+.
T Consensus       132 ~l~~aGVd~~i~~G~d~~~~l~~l~~~  158 (163)
T d7reqb2         132 AEAEKLIDGRLFMGMDVVDTLSSTLDI  158 (163)
T ss_dssp             HHHHHHCCEEECTTCCHHHHHHHHHHH
T ss_pred             HHHhCCCCeEecCCCcHHHHHHHHHHH
Confidence            788999999998887777777666554

>d3bula2 c.23.6.1 (A:741-896) Methionine synthase, C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: Methionine synthase, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.93  E-value=0.066  Score=33.07  Aligned_cols=81  Identities=9%  Similarity=0.098  Sum_probs=59.3

Q ss_pred             eCCHHHHHHHHHHHHhcCCeEEE---ecCHHHHHHHHhcCCCccEEEEeCCCCCC-C-HHHHHHHHHhhCCCCcEEEEec
Q 045936           33 DDDPMIRRIHSMILKSVGFKVEV---AENGKEAVDLFRTGAKFHIVFIDMEMPVM-D-GIEATKAMRAMKVESKIVGVTS  107 (145)
Q Consensus        33 ~~~~~~~~~l~~~l~~~g~~v~~---~~~~~~~l~~l~~~~~~dlil~d~~~~~~-~-g~~~~~~l~~~~~~~~ii~lt~  107 (145)
                      |-+..=...+..+|+..||+|..   -...++.++.+.+ ..||+|.+...+... . ..++++.+++..++.|+++-..
T Consensus        17 D~HdiG~~iv~~~l~~~G~~Vi~LG~~~p~e~~~~~~~~-~~~d~i~lS~l~~~~~~~~~~~~~~l~~~g~~~~vivGG~   95 (156)
T d3bula2          17 DVHDIGKNIVGVVLQCNNYEIVDLGVMVPAEKILRTAKE-VNADLIGLSGLITPSLDEMVNVAKEMERQGFTIPLLIGGA   95 (156)
T ss_dssp             CCCCHHHHHHHHHHHTTTCEEEECCSSBCHHHHHHHHHH-HTCSEEEEECCSTHHHHHHHHHHHHHHHTTCCSCEEEEST
T ss_pred             ChhhHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHh-hCCCEEEEecccccchHHHHHHHHHHHhccccceEEEecc
Confidence            44555567788899999999874   3478889998887 579999999887643 2 3467888888888888776655


Q ss_pred             CCChHHH
Q 045936          108 RNSETER  114 (145)
Q Consensus       108 ~~~~~~~  114 (145)
                      .......
T Consensus        96 ~~~~~~~  102 (156)
T d3bula2          96 TTSKAHT  102 (156)
T ss_dssp             TCCHHHH
T ss_pred             cccchHH
Confidence            5554443

>d1wa3a1 c.1.10.1 (A:2-203) KDPG aldolase {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: KDPG aldolase
species: Thermotoga maritima [TaxId: 2336]

Probab=95.24  E-value=0.068  Score=34.48  Aligned_cols=93  Identities=18%  Similarity=0.217  Sum_probs=56.6

Q ss_pred             HHHHHHhcCC-eEEEecCHHHHHHHHhcC--CCccEEEEeCCCCCCCHHHHHHHHHhhC-CCCcEEEEecCCChHHHHHH
Q 045936           42 HSMILKSVGF-KVEVAENGKEAVDLFRTG--AKFHIVFIDMEMPVMDGIEATKAMRAMK-VESKIVGVTSRNSETEREVF  117 (145)
Q Consensus        42 l~~~l~~~g~-~v~~~~~~~~~l~~l~~~--~~~dlil~d~~~~~~~g~~~~~~l~~~~-~~~~ii~lt~~~~~~~~~~~  117 (145)
                      +.++|++.+. .+....+.+++....+.-  ....+  ++..+....+++.++.++..+ +++ ++-..+-.+.+....+
T Consensus         2 ~~~~l~~~~iipvlr~~~~~~a~~~~~al~~~Gi~~--iEitlr~p~a~~~i~~l~~~~~~~~-~vGaGTV~~~~~~~~a   78 (202)
T d1wa3a1           2 MEELFKKHKIVAVLRANSVEEAKEKALAVFEGGVHL--IEITFTVPDADTVIKELSFLKEKGA-IIGAGTVTSVEQCRKA   78 (202)
T ss_dssp             HHHHHHHHCEEEEECCSSHHHHHHHHHHHHHTTCCE--EEEETTSTTHHHHHHHTHHHHHTTC-EEEEESCCSHHHHHHH
T ss_pred             hHHHHHhCCEEEEEECCCHHHHHHHHHHHHHcCCCE--EEEecCCccHHHHHHHHHHhcCCCc-EEEecccccHHHHHHH
Confidence            3456666663 355677777766654320  12343  344455667888888887643 433 4556677788888889


Q ss_pred             HHhcccEEeeCCCCHHHHHHH
Q 045936          118 MQAGLDLCYTKPLTMAKIVPL  138 (145)
Q Consensus       118 ~~~g~~~~l~kP~~~~~l~~~  138 (145)
                      .++|++-.+. |....++...
T Consensus        79 ~~aGa~fivs-P~~~~~v~~~   98 (202)
T d1wa3a1          79 VESGAEFIVS-PHLDEEISQF   98 (202)
T ss_dssp             HHHTCSEEEC-SSCCHHHHHH
T ss_pred             HhhcccEEeC-CCCcHHHHHH
Confidence            9999977665 4444444443

>d1qpoa1 c.1.17.1 (A:117-285) Quinolinic acid phosphoribosyltransferase (Nicotinate-nucleotide pyrophosphorylase, NadC), C-terminal domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Nicotinate/Quinolinate PRTase C-terminal domain-like
family: NadC C-terminal domain-like
domain: Quinolinic acid phosphoribosyltransferase (Nicotinate-nucleotide pyrophosphorylase, NadC), C-terminal domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.22  E-value=0.052  Score=34.05  Aligned_cols=94  Identities=12%  Similarity=0.131  Sum_probs=66.9

Q ss_pred             EEEEEeCCHHHHHHHHHHHHh---cC--Ce-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCc
Q 045936           28 FALVVDDDPMIRRIHSMILKS---VG--FK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESK  101 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~---~g--~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~  101 (145)
                      .+|+-|++-.....+...++.   ..  .. .+.+.+.+++.+.+..  .+|+|++| ++...+--+.++.++...+. .
T Consensus        52 ~ilikdNHi~~~g~i~~~i~~~k~~~~~~~I~VEv~s~~q~~~a~~~--~~diImLD-N~sp~~~k~~v~~~~~~~~~-i  127 (169)
T d1qpoa1          52 AALIKDNHVAAAGSVVDALRAVRNAAPDLPCEVEVDSLEQLDAVLPE--KPELILLD-NFAVWQTQTAVQRRDSRAPT-V  127 (169)
T ss_dssp             SEEECHHHHHHHSSHHHHHHHHHHHCTTSCEEEEESSHHHHHHHGGG--CCSEEEEE-TCCHHHHHHHHHHHHHHCTT-C
T ss_pred             eEEeehhHHhHhcchhhhhhhhhhhcCCCceEEEeccHHHhhhhhhc--CCcEEEec-CcChHhHHHHHHHhhccCCe-e
Confidence            488888887776655555532   22  22 4489999999999876  38999999 44444445567776666554 3


Q ss_pred             EEEEecCCChHHHHHHHHhcccEE
Q 045936          102 IVGVTSRNSETEREVFMQAGLDLC  125 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~~  125 (145)
                      ++-.++.-+.+.+......|+|..
T Consensus       128 ~lEaSGgI~~~ni~~ya~~GvD~I  151 (169)
T d1qpoa1         128 MLESSGGLSLQTAATYAETGVDYL  151 (169)
T ss_dssp             EEEEESSCCTTTHHHHHHTTCSEE
T ss_pred             EEEEeCCCCHHHHHHHHHcCCCEE
Confidence            556778888888989999999876

>d1vhca_ c.1.10.1 (A:) Hypothetical protein HI0047 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: Hypothetical protein HI0047
species: Haemophilus influenzae [TaxId: 727]

Probab=95.01  E-value=0.096  Score=34.02  Aligned_cols=95  Identities=16%  Similarity=0.217  Sum_probs=62.0

Q ss_pred             HHHHHHHHhcCC-eEEEecCHHHHHHH---HhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHH
Q 045936           40 RIHSMILKSVGF-KVEVAENGKEAVDL---FRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETERE  115 (145)
Q Consensus        40 ~~l~~~l~~~g~-~v~~~~~~~~~l~~---l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~  115 (145)
                      +.+...|++.+. .+....+.+++...   +..+ .+.+  ++..+.....++.++.+++.+|+ -++-..+-.+.+...
T Consensus         5 ~~~~~~l~~~~iipvlr~~~~~~~~~~~~al~~~-Gi~~--iEitl~~~~a~~~I~~l~~~~p~-~~vGaGTV~~~~~~~   80 (212)
T d1vhca_           5 QQIIEKLRELKIVPVIALDNADDILPLADTLAKN-GLSV--AEITFRSEAAADAIRLLRANRPD-FLIAAGTVLTAEQVV   80 (212)
T ss_dssp             HHHHHHHHHHCEEEEECCSSGGGHHHHHHHHHHT-TCCE--EEEETTSTTHHHHHHHHHHHCTT-CEEEEESCCSHHHHH
T ss_pred             HHHHHHHHHCCEEEEEeCCCHHHHHHHHHHHHHC-CCCE--EEEeCCChhHHHHHHHHHhcCCC-ceEeeeecccHHHHH
Confidence            344555666663 35566666666544   3332 2443  34445566789999999988887 356677788999999


Q ss_pred             HHHHhcccEEeeCCCCHHHHHHHH
Q 045936          116 VFMQAGLDLCYTKPLTMAKIVPLL  139 (145)
Q Consensus       116 ~~~~~g~~~~l~kP~~~~~l~~~l  139 (145)
                      .+.++|++-++. |...+++....
T Consensus        81 ~a~~aGa~FivS-P~~~~~v~~~a  103 (212)
T d1vhca_          81 LAKSSGADFVVT-PGLNPKIVKLC  103 (212)
T ss_dssp             HHHHHTCSEEEC-SSCCHHHHHHH
T ss_pred             HHHhhCCcEEEC-CCCCHHHHHHH
Confidence            999999976665 55445554443

>d1mxsa_ c.1.10.1 (A:) KDPG aldolase {Pseudomonas putida [TaxId: 303]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: KDPG aldolase
species: Pseudomonas putida [TaxId: 303]

Probab=94.76  E-value=0.1  Score=34.02  Aligned_cols=99  Identities=14%  Similarity=0.147  Sum_probs=66.5

Q ss_pred             HHHHHHHHHHHhcCC-eEEEecCHHHHHHHHh---cCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChH
Q 045936           37 MIRRIHSMILKSVGF-KVEVAENGKEAVDLFR---TGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSET  112 (145)
Q Consensus        37 ~~~~~l~~~l~~~g~-~v~~~~~~~~~l~~l~---~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~  112 (145)
                      .....+...+++.+. .+....+.++++...+   .+ .+.++  +..+.....++.++.+++.+|+ -++-..+-.+.+
T Consensus         5 ~~~~~i~~~l~~~~iipvl~~~~~~~a~~~~~al~~~-Gi~~i--Eitl~~p~a~~~i~~l~~~~p~-~~vGaGTV~~~~   80 (216)
T d1mxsa_           5 DKAARIDAICEKARILPVITIAREEDILPLADALAAG-GIRTL--EVTLRSQHGLKAIQVLREQRPE-LCVGAGTVLDRS   80 (216)
T ss_dssp             HHHHHHHHHHHHHSEEEEECCSCGGGHHHHHHHHHHT-TCCEE--EEESSSTHHHHHHHHHHHHCTT-SEEEEECCCSHH
T ss_pred             HHHHHHHHHHHhCCEEEEEECCCHHHHHHHHHHHHHC-CCCEE--EEeCCChhHHHHHHHHHHhCCC-cceeeeeeecHH
Confidence            345667777777663 3556677777665443   32 34443  4444455688999999998887 456677788899


Q ss_pred             HHHHHHHhcccEEeeCCCCHHHHHHHHH
Q 045936          113 EREVFMQAGLDLCYTKPLTMAKIVPLLE  140 (145)
Q Consensus       113 ~~~~~~~~g~~~~l~kP~~~~~l~~~l~  140 (145)
                      ....+.++|++- +..|....++....+
T Consensus        81 ~~~~a~~aGa~F-ivsP~~~~~v~~~a~  107 (216)
T d1mxsa_          81 MFAAVEAAGAQF-VVTPGITEDILEAGV  107 (216)
T ss_dssp             HHHHHHHHTCSS-EECSSCCHHHHHHHH
T ss_pred             HHHHHHhCCCCE-EECCCCcHHHHHHHH
Confidence            999999999955 555666666655443

>d1wbha1 c.1.10.1 (A:1-213) KDPG aldolase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: KDPG aldolase
species: Escherichia coli [TaxId: 562]

Probab=94.65  E-value=0.11  Score=33.71  Aligned_cols=89  Identities=18%  Similarity=0.196  Sum_probs=53.4

Q ss_pred             HHHhcCC-eEEEecCHHHHHHHHhcC--CCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhc
Q 045936           45 ILKSVGF-KVEVAENGKEAVDLFRTG--AKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAG  121 (145)
Q Consensus        45 ~l~~~g~-~v~~~~~~~~~l~~l~~~--~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g  121 (145)
                      +|+..+. .+....+.++++..++.-  ..+.  .+++.+..-..++.++.+++.+|+. ++-..+-.+.+....+.++|
T Consensus        11 ~l~~~~iipvlr~~~~~~a~~~~~al~~~Gi~--~iEitl~tp~a~~~I~~l~~~~p~~-~vGaGTV~~~~~~~~a~~aG   87 (213)
T d1wbha1          11 ILTTGPVVPVIVVKKLEHAVPMAKALVAGGVR--VLNVTLRTECAVDAIRAIAKEVPEA-IVGAGTVLNPQQLAEVTEAG   87 (213)
T ss_dssp             HHHSCSEEEEECCSSGGGHHHHHHHHHHTTCC--EEEEESCSTTHHHHHHHHHHHCTTS-EEEEESCCSHHHHHHHHHHT
T ss_pred             HHHhCCEEEEEECCCHHHHHHHHHHHHHCCCC--EEEEeCCChhHHHHHHHHHHHCCCC-eeeccccccHHHHHHHHHCC
Confidence            4444443 344555666655443220  1233  3334444456788888888888774 46677778888888899999


Q ss_pred             ccEEeeCCCCHHHHH
Q 045936          122 LDLCYTKPLTMAKIV  136 (145)
Q Consensus       122 ~~~~l~kP~~~~~l~  136 (145)
                      ++-.+..-++++-+.
T Consensus        88 a~FivSP~~~~~v~~  102 (213)
T d1wbha1          88 AQFAISPGLTEPLLK  102 (213)
T ss_dssp             CSCEEESSCCHHHHH
T ss_pred             CcEEECCCCCHHHHH
Confidence            876665444444333

>d1r8ja2 c.23.1.5 (A:1-135) N-terminal domain of the circadian clock protein KaiA {Synechococcus elongatus [TaxId: 32046]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: N-terminal domain of the circadian clock protein KaiA
domain: N-terminal domain of the circadian clock protein KaiA
species: Synechococcus elongatus [TaxId: 32046]

Probab=94.49  E-value=0.24  Score=29.69  Aligned_cols=81  Identities=11%  Similarity=0.082  Sum_probs=63.1

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcC-CCccEEEE-eCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           26 PYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTG-AKFHIVFI-DMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        26 ~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~-~~~dlil~-d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      ...|-+.-.++.....+.++|....|.+..+.+.++.++.++.. +.+|++++ ..   ..+-..+...|.+.+--.|.|
T Consensus         4 ~LtI~l~l~s~~L~q~~~q~L~~dRY~l~~~~s~~ef~~~le~~~e~iDcLVl~~~---~~~l~~l~~qL~~~GlLlPaV   80 (135)
T d1r8ja2           4 QIAICIWVESTAILQDCQRALSADRYQLQVCESGEMLLEYAQTHRDQIDCLILVAA---NPSFRAVVQQLCFEGVVVPAI   80 (135)
T ss_dssp             CEEEEEECCCHHHHHHHHHHTCSTTEEEEEECSHHHHHHHHHHSTTSCSEEEEETT---STTHHHHHHHHHHTTCCCCEE
T ss_pred             eEEEEEEeCCHHHHHHHHHhcCCCceEEEEcCCHHHHHHHHHhCcccCCEEEEEec---CCccHHHHHHHHhcCccccEE
Confidence            35677778889999999999987779988999999999998764 36998875 43   233445678898888888998


Q ss_pred             EEecCC
Q 045936          104 GVTSRN  109 (145)
Q Consensus       104 ~lt~~~  109 (145)
                      ++....
T Consensus        81 iv~~~~   86 (135)
T d1r8ja2          81 VVGDRD   86 (135)
T ss_dssp             EESCCC
T ss_pred             EEecCC
Confidence            886443

>d1dxea_ c.1.12.5 (A:) 2-dehydro-3-deoxy-galactarate aldolase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Phosphoenolpyruvate/pyruvate domain
family: HpcH/HpaI aldolase
domain: 2-dehydro-3-deoxy-galactarate aldolase
species: Escherichia coli [TaxId: 562]

Probab=94.32  E-value=0.41  Score=31.73  Aligned_cols=100  Identities=14%  Similarity=0.019  Sum_probs=67.2

Q ss_pred             HHHHHHHhcC--CeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCC-CCcEEEEecCCChHHHHHH
Q 045936           41 IHSMILKSVG--FKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKV-ESKIVGVTSRNSETEREVF  117 (145)
Q Consensus        41 ~l~~~l~~~g--~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~-~~~ii~lt~~~~~~~~~~~  117 (145)
                      .++..|+...  +-++.........+.+.. ..+|.+++|......+--++...++.... .+..++=....++..+..+
T Consensus         6 ~lk~~l~~g~~~~G~~~~~~~p~~~ei~a~-~G~Dfv~iD~EHg~~~~~~~~~~i~a~~~~g~~~~VRvp~~~~~~i~~~   84 (253)
T d1dxea_           6 KFKAALAAKQVQIGCWSALSNPISTEVLGL-AGFDWLVLDGEHAPNDISTFIPQLMALKGSASAPVVRVPTNEPVIIKRL   84 (253)
T ss_dssp             HHHHHHHTTCCEEEEEECSCSHHHHHHHTT-SCCSEEEEESSSSSCCHHHHHHHHHHTTTCSSEEEEECSSSCHHHHHHH
T ss_pred             HHHHHHHCCCCEEEEEecCCCHHHHHHHHc-CCCCEEEEecccCCCChhHHHHHHHHHhccCCCceecCCCCCHHHHHHH
Confidence            3455565432  223334444555666655 45999999999888887777777776533 4555555667889999999


Q ss_pred             HHhcccEEeeCCC-CHHHHHHHHHH
Q 045936          118 MQAGLDLCYTKPL-TMAKIVPLLEE  141 (145)
Q Consensus       118 ~~~g~~~~l~kP~-~~~~l~~~l~~  141 (145)
                      ++.|+++.+..-+ +.++....++.
T Consensus        85 LD~Ga~GIivP~v~s~eea~~~v~~  109 (253)
T d1dxea_          85 LDIGFYNFLIPFVETKEEAELAVAS  109 (253)
T ss_dssp             HHTTCCEEEESCCCSHHHHHHHHHT
T ss_pred             HhcCccEEEecccCCHHHHHHHHHh
Confidence            9999999876544 45666666543

>d1o4ua1 c.1.17.1 (A:104-273) Quinolinic acid phosphoribosyltransferase (Nicotinate-nucleotide pyrophosphorylase, NadC), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Nicotinate/Quinolinate PRTase C-terminal domain-like
family: NadC C-terminal domain-like
domain: Quinolinic acid phosphoribosyltransferase (Nicotinate-nucleotide pyrophosphorylase, NadC), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=93.80  E-value=0.066  Score=33.61  Aligned_cols=94  Identities=14%  Similarity=0.212  Sum_probs=64.6

Q ss_pred             EEEEEeCCHHHHHHHHHHHHh----cCC---eEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCC
Q 045936           28 FALVVDDDPMIRRIHSMILKS----VGF---KVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVES  100 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~----~g~---~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~  100 (145)
                      .+||-|++-.....+...++.    .++   -.+.+.+.+++.+.+..  .+|+|++| ++...+--++.+.++...+.+
T Consensus        50 ~ilikdNHi~~~g~~~~~~~~~~~~~~~~~~I~VEv~~~~e~~~a~~~--g~d~i~LD-n~~pe~~k~~~~~lk~~~~~i  126 (170)
T d1o4ua1          50 CVMIKDNHLKMYGSAERAVQEVRKIIPFTTKIEVEVENLEDALRAVEA--GADIVMLD-NLSPEEVKDISRRIKDINPNV  126 (170)
T ss_dssp             CEEECHHHHHHHSSHHHHHHHHHTTSCTTSCEEEEESSHHHHHHHHHT--TCSEEEEE-SCCHHHHHHHHHHHHHHCTTS
T ss_pred             ceEEcccHHHHhccHHHHHHHHHhhCCCCceEEEEeCcHHHHHHHHhc--CccEEEEc-CcChhhHhHHHHHHHhhCCcE
Confidence            478888877766655555543    222   24489999999999876  48999999 444334445666777766553


Q ss_pred             cEEEEecCCChHHHHHHHHhcccEE
Q 045936          101 KIVGVTSRNSETEREVFMQAGLDLC  125 (145)
Q Consensus       101 ~ii~lt~~~~~~~~~~~~~~g~~~~  125 (145)
                       .+-.++.-+.+.+......|+|..
T Consensus       127 -~lEaSGGI~~~ni~~~a~~GVD~I  150 (170)
T d1o4ua1         127 -IVEVSGGITEENVSLYDFETVDVI  150 (170)
T ss_dssp             -EEEEEECCCTTTGGGGCCTTCCEE
T ss_pred             -EEEEECCCCHHHHHHHHHcCCCEE
Confidence             455677777777777778888864

>d1id1a_ c.2.1.9 (A:) Rck domain from putative potassium channel Kch {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Potassium channel NAD-binding domain
domain: Rck domain from putative potassium channel Kch
species: Escherichia coli [TaxId: 562]

Probab=93.46  E-value=0.41  Score=28.75  Aligned_cols=97  Identities=10%  Similarity=-0.007  Sum_probs=54.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEec-CHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAE-NGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGV  105 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~-~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~l  105 (145)
                      ..+.+++.++.........+...|+.+...+ +-.+.++.+.- ...+.+++-..-. ..-...+..+|+..|..++++.
T Consensus        27 ~~v~vId~d~~~~~~~~~~~~~~~~~vi~Gd~~d~~~L~~a~i-~~a~~vi~~~~~d-~~n~~~~~~~r~~~~~~~iia~  104 (153)
T d1id1a_          27 QNVTVISNLPEDDIKQLEQRLGDNADVIPGDSNDSSVLKKAGI-DRCRAILALSDND-ADNAFVVLSAKDMSSDVKTVLA  104 (153)
T ss_dssp             CCEEEEECCCHHHHHHHHHHHCTTCEEEESCTTSHHHHHHHTT-TTCSEEEECSSCH-HHHHHHHHHHHHHTSSSCEEEE
T ss_pred             CCEEEEeccchhHHHHHHHhhcCCcEEEEccCcchHHHHHhcc-ccCCEEEEccccH-HHHHHHHHHHHHhCCCCceEEE
Confidence            3566666666544444444444566655332 22334444433 3467777654322 2234455566777788887765


Q ss_pred             ecCCChHHHHHHHHhcccEEee
Q 045936          106 TSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus       106 t~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      +.  +++....+...|++..+.
T Consensus       105 ~~--~~~~~~~l~~~Gad~vi~  124 (153)
T d1id1a_         105 VS--DSKNLNKIKMVHPDIILS  124 (153)
T ss_dssp             CS--SGGGHHHHHTTCCSEEEC
T ss_pred             Ec--CHHHHHHHHHCCCCEEEC
Confidence            44  455667778899987664

>d1izca_ c.1.12.5 (A:) Macrophomate synthase {Macrophoma commelinae [TaxId: 108330]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Phosphoenolpyruvate/pyruvate domain
family: HpcH/HpaI aldolase
domain: Macrophomate synthase
species: Macrophoma commelinae [TaxId: 108330]

Probab=92.55  E-value=0.96  Score=30.63  Aligned_cols=105  Identities=14%  Similarity=0.147  Sum_probs=65.9

Q ss_pred             HHHHHHHHHHHhcC-Ce--EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHH---HHhhC-CCCcEEEEecCC
Q 045936           37 MIRRIHSMILKSVG-FK--VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKA---MRAMK-VESKIVGVTSRN  109 (145)
Q Consensus        37 ~~~~~l~~~l~~~g-~~--v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~---l~~~~-~~~~ii~lt~~~  109 (145)
                      ..+..|++.+...+ ..  ++..-......+.+.. ..+|-|++|+.....+--++...   ++... ..++.++=....
T Consensus        26 ~~r~~l~~~~~~~~~~~~G~~~~~~s~~~~e~~a~-~g~D~v~iD~EHg~~~~~~~~~~i~a~~~~~~~~~~~iVRvp~~  104 (299)
T d1izca_          26 NLRQALKDAMADPSKTLMGVAHGIPSTFVTKVLAA-TKPDFVWIDVEHGMFNRLELHDAIHAAQHHSEGRSLVIVRVPKH  104 (299)
T ss_dssp             CHHHHHHHHHHCGGGCEEEEEECSCCHHHHHHHHH-TCCSEEEEETTTSCCCHHHHHHHHHHHHHHTTTCSEEEEECCTT
T ss_pred             hHHHHHHHHhhccCCceeeeeccCCCHHHHHHHHc-CCCCEEEEcCCCCCCCHHHHHHHHHHHHHhCCCCCCeEEeCCCC
Confidence            36778887776432 22  3333333444455554 46999999999877775544444   43332 234444445667


Q ss_pred             ChHHHHHHHHhcccEEeeC-CCCHHHHHHHHHHH
Q 045936          110 SETEREVFMQAGLDLCYTK-PLTMAKIVPLLEEL  142 (145)
Q Consensus       110 ~~~~~~~~~~~g~~~~l~k-P~~~~~l~~~l~~~  142 (145)
                      ++..+..+++.|+++.+.. =-+.++....++..
T Consensus       105 ~~~~I~~~LD~Ga~GIivP~V~s~eea~~~v~~~  138 (299)
T d1izca_         105 DEVSLSTALDAGAAGIVIPHVETVEEVREFVKEM  138 (299)
T ss_dssp             CHHHHHHHHHHTCSEEEETTCCCHHHHHHHHHHH
T ss_pred             ChHHHHHHHHhCcCeeeccccccHHHHHHHHHhh
Confidence            8888999999999998654 44567777776654

>d1eepa_ c.1.5.1 (A:) Inosine monophosphate dehydrogenase (IMPDH) {Lyme disease spirochete (Borrelia burgdorferi) [TaxId: 139]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Inosine monophosphate dehydrogenase (IMPDH)
family: Inosine monophosphate dehydrogenase (IMPDH)
domain: Inosine monophosphate dehydrogenase (IMPDH)
species: Lyme disease spirochete (Borrelia burgdorferi) [TaxId: 139]

Probab=91.15  E-value=0.65  Score=32.69  Aligned_cols=64  Identities=17%  Similarity=0.148  Sum_probs=47.9

Q ss_pred             HHHHHHhcCCCccEEEEeCCCCCCC-HHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           61 EAVDLFRTGAKFHIVFIDMEMPVMD-GIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        61 ~~l~~l~~~~~~dlil~d~~~~~~~-g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      +-...+.+ ...|++++|....... ..++++++++.+|+.+|| ..+....+....+++.||+...
T Consensus       154 ~ra~~L~~-aG~D~ivID~AhG~s~~~~~~i~~ik~~~~~v~vI-aGNV~T~e~a~~L~~~GaD~Vk  218 (388)
T d1eepa_         154 ERVEELVK-AHVDILVIDSAHGHSTRIIELIKKIKTKYPNLDLI-AGNIVTKEAALDLISVGADCLK  218 (388)
T ss_dssp             HHHHHHHH-TTCSEEEECCSCCSSHHHHHHHHHHHHHCTTCEEE-EEEECSHHHHHHHHTTTCSEEE
T ss_pred             HHHHHHHh-hccceeeeeccccchHHHHHHHHHHHHHCCCCcee-eccccCHHHHHHHHhcCCCeee
Confidence            33333443 3489999998665443 568999999988888764 6777788888899999999874

>d1xm3a_ c.1.31.1 (A:) Thiazole biosynthesis protein ThiG {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: ThiG-like
family: ThiG-like
domain: Thiazole biosynthesis protein ThiG
species: Bacillus subtilis [TaxId: 1423]

Probab=91.11  E-value=1.3  Score=29.08  Aligned_cols=94  Identities=14%  Similarity=0.007  Sum_probs=59.8

Q ss_pred             HHHHhcCCeEE--EecCHHHHHHHHhcCCCccEEEEeCCCCCCCH---HHHHHHHHhhCCCCcEEEEecCCChHHHHHHH
Q 045936           44 MILKSVGFKVE--VAENGKEAVDLFRTGAKFHIVFIDMEMPVMDG---IEATKAMRAMKVESKIVGVTSRNSETEREVFM  118 (145)
Q Consensus        44 ~~l~~~g~~v~--~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g---~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~  118 (145)
                      ..|-..||.|.  +..|.--+-+...- .+.-+.-+..-+....|   ...++.|+++ +++|+|+=++-..++....++
T Consensus       119 e~Lv~eGF~VlpY~~~D~v~ak~Le~~-Gc~avMPlgsPIGSg~Gl~n~~~l~~i~~~-~~vPvIvDAGIG~pSdAa~AM  196 (251)
T d1xm3a_         119 EQLLEEGFIVLPYTSDDVVLARKLEEL-GVHAIMPGASPIGSGQGILNPLNLSFIIEQ-AKVPVIVDAGIGSPKDAAYAM  196 (251)
T ss_dssp             HHHHHTTCCEEEEECSCHHHHHHHHHH-TCSCBEECSSSTTCCCCCSCHHHHHHHHHH-CSSCBEEESCCCSHHHHHHHH
T ss_pred             HHHHhCCcEEEEecCCCHHHHHHHHHc-CChhHHHhhhhhhcCCCcCChHHHHHHHhc-CCccEEEecCCCCHHHHHHHH
Confidence            34446799877  34455555554444 34444444433333333   4566777776 689999889999999999999


Q ss_pred             HhcccEEee-----CCCCHHHHHHHH
Q 045936          119 QAGLDLCYT-----KPLTMAKIVPLL  139 (145)
Q Consensus       119 ~~g~~~~l~-----kP~~~~~l~~~l  139 (145)
                      +.|+|++|.     +--++-.+..+.
T Consensus       197 ElG~daVLvNTAIA~a~dPv~MA~A~  222 (251)
T d1xm3a_         197 ELGADGVLLNTAVSGADDPVKMARAM  222 (251)
T ss_dssp             HTTCSEEEESHHHHTSSSHHHHHHHH
T ss_pred             HccCCEEEechhhhcCCCHHHHHHHH
Confidence            999999873     334444444443

>d1zfja1 c.1.5.1 (A:2-94,A:221-492) Inosine monophosphate dehydrogenase (IMPDH) {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Inosine monophosphate dehydrogenase (IMPDH)
family: Inosine monophosphate dehydrogenase (IMPDH)
domain: Inosine monophosphate dehydrogenase (IMPDH)
species: Streptococcus pyogenes [TaxId: 1314]

Probab=88.67  E-value=1.3  Score=30.92  Aligned_cols=55  Identities=13%  Similarity=0.153  Sum_probs=44.0

Q ss_pred             CccEEEEeCCCCCCC-HHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEe
Q 045936           71 KFHIVFIDMEMPVMD-GIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus        71 ~~dlil~d~~~~~~~-g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l  126 (145)
                      ..|++++|....... ..+.++.+|+.+|+.+|| ..+....+....+.++|||.+.
T Consensus       119 gvd~ivID~A~G~s~~~~~~i~~ik~~~~~~~iI-aGNV~T~e~a~~L~~aGaD~Vk  174 (365)
T d1zfja1         119 GADAIVIDTAHGHSAGVLRKIAEIRAHFPNRTLI-AGNIATAEGARALYDAGVDVVK  174 (365)
T ss_dssp             TCSEEEECCSCTTCHHHHHHHHHHHHHCSSSCEE-EEEECSHHHHHHHHHTTCSEEE
T ss_pred             CCCEEEEECCcccccchhHHHHHHHhhCCCccee-ecccccHHHHHHHHhcCCceEE
Confidence            489999997665443 467899999888888775 6777788888899999999874

>d1a53a_ c.1.2.4 (A:) Indole-3-glycerophosphate synthase, IPGS {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Ribulose-phoshate binding barrel
family: Tryptophan biosynthesis enzymes
domain: Indole-3-glycerophosphate synthase, IPGS
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=88.52  E-value=2.2  Score=27.99  Aligned_cols=90  Identities=10%  Similarity=0.072  Sum_probs=60.7

Q ss_pred             HHHHHHHHHHHHhcCCe-EEEecCHHHHHHHHhcCCCccEEEEeC-CCCC--CCHHHHHHHHHhhCCCCcEEEEecCCCh
Q 045936           36 PMIRRIHSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDM-EMPV--MDGIEATKAMRAMKVESKIVGVTSRNSE  111 (145)
Q Consensus        36 ~~~~~~l~~~l~~~g~~-v~~~~~~~~~l~~l~~~~~~dlil~d~-~~~~--~~g~~~~~~l~~~~~~~~ii~lt~~~~~  111 (145)
                      ......+...-...|.. ++.+++.+|+.+.+..  ..++|-++- ++..  .+--...+.+.....+..+|.-++-..+
T Consensus       138 ~~~l~~l~~~a~~lgl~~LvEvh~~~El~~a~~~--~a~iIGINnRnL~t~~vd~~~~~~L~~~ip~~~~~IaESGI~t~  215 (247)
T d1a53a_         138 ERELESLLEYARSYGMEPLIEINDENDLDIALRI--GARFIGINSRDLETLEINKENQRKLISMIPSNVVKVAESGISER  215 (247)
T ss_dssp             HHHHHHHHHHHHTTTCCCEEEECSHHHHHHHHHT--TCSEEEEESBCTTTCCBCHHHHHHHHHHSCTTSEEEEESCCCCH
T ss_pred             HHHHHHHHHHHHHHhhhHHhhcCCHHHHHHHHhC--CCCeEeeeccChhhhhhhhhHHHHHHhhCCCCCeEEEecCCCCH
Confidence            34456666666778976 5699999999888875  367775553 3332  2333333333333446666777888888


Q ss_pred             HHHHHHHHhcccEEee
Q 045936          112 TEREVFMQAGLDLCYT  127 (145)
Q Consensus       112 ~~~~~~~~~g~~~~l~  127 (145)
                      +........|++++|.
T Consensus       216 ~dv~~l~~~G~davLI  231 (247)
T d1a53a_         216 NEIEELRKLGVNAFLI  231 (247)
T ss_dssp             HHHHHHHHTTCCEEEE
T ss_pred             HHHHHHHHCCCCEEEE
Confidence            8899999999999975

>d1vrda1 c.1.5.1 (A:1-85,A:213-457) Inosine monophosphate dehydrogenase (IMPDH) {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Inosine monophosphate dehydrogenase (IMPDH)
family: Inosine monophosphate dehydrogenase (IMPDH)
domain: Inosine monophosphate dehydrogenase (IMPDH)
species: Thermotoga maritima [TaxId: 2336]

Probab=86.30  E-value=3  Score=28.47  Aligned_cols=65  Identities=20%  Similarity=0.229  Sum_probs=45.2

Q ss_pred             HHHHHHhcCCCccEEEEeCCCCCCC-HHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEee
Q 045936           61 EAVDLFRTGAKFHIVFIDMEMPVMD-GIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYT  127 (145)
Q Consensus        61 ~~l~~l~~~~~~dlil~d~~~~~~~-g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~  127 (145)
                      +-+..+.+ ...|++++|....... -.+.++.++..+++.+|+ ..+....+....+.++|||....
T Consensus       101 e~~~~li~-agvd~ivId~A~G~~~~~~~~ik~ik~~~~~~~vi-aGnV~t~~~a~~l~~~GaD~v~V  166 (330)
T d1vrda1         101 ERVEKLVK-AGVDVIVIDTAHGHSRRVIETLEMIKADYPDLPVV-AGNVATPEGTEALIKAGADAVKV  166 (330)
T ss_dssp             HHHHHHHH-TTCSEEEECCSCCSSHHHHHHHHHHHHHCTTSCEE-EEEECSHHHHHHHHHTTCSEEEE
T ss_pred             HHHHHHHH-CCCCEEEEecCCCCchhHHHHHHHHHHhCCCCCEE-eechhHHHHHHHHHHcCCCEEee
Confidence            33333433 3479999998665543 457888999888887765 44555667777888999998643

>d1vl0a_ c.2.1.2 (A:) DTDP-4-dehydrorhamnose reductase RfbD {Clostridium acetobutylicum [TaxId: 1488]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Tyrosine-dependent oxidoreductases
domain: DTDP-4-dehydrorhamnose reductase RfbD
species: Clostridium acetobutylicum [TaxId: 1488]

Probab=85.66  E-value=0.88  Score=29.48  Aligned_cols=51  Identities=18%  Similarity=0.103  Sum_probs=39.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEe-------cCHHHHHHHHhcCCCccEEEEe
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVA-------ENGKEAVDLFRTGAKFHIVFID   78 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~-------~~~~~~l~~l~~~~~~dlil~d   78 (145)
                      |+|||.+....+...+...|...||+|...       .+..+.-+.+.. ..+|+|+--
T Consensus         2 MKIlItGasGfiG~~l~~~L~~~g~~Vi~~~r~~~D~~d~~~~~~~l~~-~~~d~vih~   59 (281)
T d1vl0a_           2 MKILITGANGQLGREIQKQLKGKNVEVIPTDVQDLDITNVLAVNKFFNE-KKPNVVINC   59 (281)
T ss_dssp             EEEEEESTTSHHHHHHHHHHTTSSEEEEEECTTTCCTTCHHHHHHHHHH-HCCSEEEEC
T ss_pred             CEEEEECCCCHHHHHHHHHHHhCCCEEEEeechhccCCCHHHHHHHHHH-cCCCEEEee
Confidence            789999999999999999999999998764       355555555554 468987743

>d1i7qb_ c.23.16.1 (B:) Anthranilate synthase GAT subunit, TrpG {Serratia marcescens [TaxId: 615]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Class I glutamine amidotransferase-like
family: Class I glutamine amidotransferases (GAT)
domain: Anthranilate synthase GAT subunit, TrpG
species: Serratia marcescens [TaxId: 615]

Probab=85.34  E-value=2.2  Score=26.50  Aligned_cols=50  Identities=10%  Similarity=0.155  Sum_probs=35.3

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEec---CHHHHHHHHhcCCCccEEEEe
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAE---NGKEAVDLFRTGAKFHIVFID   78 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~---~~~~~l~~l~~~~~~dlil~d   78 (145)
                      +||++|....+...+..+|+..|+.+....   ..+...+.+.. ..++++++.
T Consensus         2 niliiD~~DSFt~ni~~~l~~lG~~~~v~~~~~~~~~~~~~l~~-~~~~~iils   54 (192)
T d1i7qb_           2 DILLLDNVDSFTYNLVDQLRASGHQVVIYRNQIGAEVIIERLQH-MEQPVLMLS   54 (192)
T ss_dssp             EEEEEECSCSSHHHHHHHHHHTTCEEEEEETTSCHHHHHHHHHH-CSSEEEEEC
T ss_pred             cEEEEECCCcHHHHHHHHHHHCCCeEEEEeCCCcccccHHHHHh-cCCCeEEec
Confidence            689999766666677888999998876553   34445555665 458888874

>d1gtea2 c.1.4.1 (A:533-844) Dihydropyrimidine dehydrogenase, domain 4 {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: FMN-linked oxidoreductases
family: FMN-linked oxidoreductases
domain: Dihydropyrimidine dehydrogenase, domain 4
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=85.32  E-value=1.6  Score=29.41  Aligned_cols=57  Identities=12%  Similarity=0.120  Sum_probs=45.2

Q ss_pred             HHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEE------eeC-CCCHHHHHHHHHHHh
Q 045936           87 IEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLC------YTK-PLTMAKIVPLLEELQ  143 (145)
Q Consensus        87 ~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~------l~k-P~~~~~l~~~l~~~~  143 (145)
                      ++.++.+++..+.+||+...+-.+.+...+++.+||+..      +.+ |--.+++.+-|++.+
T Consensus       243 l~~v~~~~~~~~~ipIi~~GGI~~~~d~~~~l~aGA~~Vqv~ta~~~~G~~~i~~i~~~L~~~m  306 (312)
T d1gtea2         243 LRAVTTIARALPGFPILATGGIDSAESGLQFLHSGASVLQVCSAVQNQDFTVIQDYCTGLKALL  306 (312)
T ss_dssp             HHHHHHHHHHSTTCCEEEESSCCSHHHHHHHHHTTCSEEEESHHHHTSCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCcEEEEcCCCCHHHHHHHHHcCCCeeEECHhhhccChHHHHHHHHHHHHHH
Confidence            677888888777899999999999999999999999985      344 444566777676654

>d1qapa1 c.1.17.1 (A:130-296) Quinolinic acid phosphoribosyltransferase (Nicotinate-nucleotide pyrophosphorylase, NadC), C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Nicotinate/Quinolinate PRTase C-terminal domain-like
family: NadC C-terminal domain-like
domain: Quinolinic acid phosphoribosyltransferase (Nicotinate-nucleotide pyrophosphorylase, NadC), C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=85.20  E-value=2.8  Score=25.76  Aligned_cols=91  Identities=14%  Similarity=0.213  Sum_probs=60.8

Q ss_pred             EEEEEeCCHHHHHHHHHHHHh----c-CCeE-EEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCc
Q 045936           28 FALVVDDDPMIRRIHSMILKS----V-GFKV-EVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESK  101 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~----~-g~~v-~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~  101 (145)
                      .|||-|++-.....+...+..    . ...+ +.+.+.+++...+..  .+|+|++|=    ++--++-+.++...+.+.
T Consensus        52 ~iLIkdNHi~~~~~~~~~~~~~~~~~~~~~IeVEv~~~~~~~~a~~~--g~diImLDN----~~pe~~~~av~~i~~~~~  125 (167)
T d1qapa1          52 AFLIKENHIIASGSVRQAVEKAFWLHPDVPVEVEVENLDELDDALKA--GADIIMLDN----FNTDQMREAVKRVNGQAR  125 (167)
T ss_dssp             CEEECHHHHHHHSSHHHHHHHHHHHSTTSCEEEEESSHHHHHHHHHT--TCSEEEESS----CCHHHHHHHHHTTCTTCC
T ss_pred             eeEechhhHhhhhhhhhhhHHHhhcCCCceEEEecCcHHHHHHHHhc--CCcEEEecC----CCHHHHHHHHHhcCCceE
Confidence            488888876655555444432    1 2333 489999999998875  489999983    222334444444444443


Q ss_pred             EEEEecCCChHHHHHHHHhcccEE
Q 045936          102 IVGVTSRNSETEREVFMQAGLDLC  125 (145)
Q Consensus       102 ii~lt~~~~~~~~~~~~~~g~~~~  125 (145)
                       +-.++.-+.+.+......|+|..
T Consensus       126 -lEaSGgI~~~ni~~ya~~GVD~I  148 (167)
T d1qapa1         126 -LEVSGNVTAETLREFAETGVDFI  148 (167)
T ss_dssp             -EEECCCSCHHHHHHHHHTTCSEE
T ss_pred             -EEEeCCCCHHHHHHHHHcCCCEE
Confidence             45688889999999999999864

>d1xeaa1 c.2.1.3 (A:2-122,A:267-312) Putative oxidoreductase VCA1048 {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
domain: Putative oxidoreductase VCA1048
species: Vibrio cholerae [TaxId: 666]

Probab=84.86  E-value=2.2  Score=25.66  Aligned_cols=19  Identities=26%  Similarity=0.482  Sum_probs=11.4

Q ss_pred             HHHHHHHhcccEEeeCCCC
Q 045936          113 EREVFMQAGLDLCYTKPLT  131 (145)
Q Consensus       113 ~~~~~~~~g~~~~l~kP~~  131 (145)
                      ....+++.|..-|+-||+.
T Consensus        78 ~~~~al~~gk~V~~EKP~~   96 (167)
T d1xeaa1          78 LAAFFLHLGIPTFVDKPLA   96 (167)
T ss_dssp             HHHHHHHTTCCEEEESCSC
T ss_pred             ccccccccccccccCCCCc
Confidence            3455566666666666663

>d1qapa1 c.1.17.1 (A:130-296) Quinolinic acid phosphoribosyltransferase (Nicotinate-nucleotide pyrophosphorylase, NadC), C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Nicotinate/Quinolinate PRTase C-terminal domain-like
family: NadC C-terminal domain-like
domain: Quinolinic acid phosphoribosyltransferase (Nicotinate-nucleotide pyrophosphorylase, NadC), C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=84.47  E-value=3  Score=25.60  Aligned_cols=69  Identities=9%  Similarity=0.053  Sum_probs=48.6

Q ss_pred             ccEEEEeC-CCC-CCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHH
Q 045936           72 FHIVFIDM-EMP-VMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEEL  142 (145)
Q Consensus        72 ~dlil~d~-~~~-~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~  142 (145)
                      .|-|++-- ++. -.+-.+.+..++...|..+|.+  ...+.+....+.+.|++-.+.-.++++++..+++.+
T Consensus        50 sd~iLIkdNHi~~~~~~~~~~~~~~~~~~~~~IeV--Ev~~~~~~~~a~~~g~diImLDN~~pe~~~~av~~i  120 (167)
T d1qapa1          50 TDAFLIKENHIIASGSVRQAVEKAFWLHPDVPVEV--EVENLDELDDALKAGADIIMLDNFNTDQMREAVKRV  120 (167)
T ss_dssp             SSCEEECHHHHHHHSSHHHHHHHHHHHSTTSCEEE--EESSHHHHHHHHHTTCSEEEESSCCHHHHHHHHHTT
T ss_pred             cceeEechhhHhhhhhhhhhhHHHhhcCCCceEEE--ecCcHHHHHHHHhcCCcEEEecCCCHHHHHHHHHhc
Confidence            56555443 222 1234467778887777777654  334566778889999999999999999999988653

>d1w0ma_ c.1.1.1 (A:) Triosephosphate isomerase {Thermoproteus tenax [TaxId: 2271]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Triosephosphate isomerase (TIM)
family: Triosephosphate isomerase (TIM)
domain: Triosephosphate isomerase
species: Thermoproteus tenax [TaxId: 2271]

Probab=83.16  E-value=4  Score=26.02  Aligned_cols=81  Identities=14%  Similarity=0.075  Sum_probs=55.5

Q ss_pred             HHHhcCCe-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCC-----------HHHHHHHHHhhCCCCcEEEEecCCChH
Q 045936           45 ILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMD-----------GIEATKAMRAMKVESKIVGVTSRNSET  112 (145)
Q Consensus        45 ~l~~~g~~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~-----------g~~~~~~l~~~~~~~~ii~lt~~~~~~  112 (145)
                      .....|+. +.++.+.+++......  .+++|...-.+.-..           ...+++.+++..+++||+.=.+-....
T Consensus       109 ~~~~~gl~~ivcvge~~~~~~~~~~--~~~iIayep~waIGtg~~~~~~~~~~i~~~i~~~~~~~~~i~vlygGgV~~~n  186 (226)
T d1w0ma_         109 KAKSLGLDVVVCAPDPRTSLAAAAL--GPHAVAVEPPELIGTGRAVSRYKPEAIVETVGLVSRHFPEVSVITGAGIESGD  186 (226)
T ss_dssp             HHHHTTCEEEEEESSHHHHHHHHHT--CCSEEEECCGGGTTTSCCHHHHCHHHHHHHHHHHHHHCTTSEEEEESSCCSHH
T ss_pred             HHHHcCCEEEEecCchHHhhhhhcc--ccceeeecchhhccCCCCCChhhhhHhhhhhhhhhccCCCceEEEecCcCChH
Confidence            34456887 4578888888877664  478888765443111           113455556666788888777767777


Q ss_pred             HHHHHHHhcccEEee
Q 045936          113 EREVFMQAGLDLCYT  127 (145)
Q Consensus       113 ~~~~~~~~g~~~~l~  127 (145)
                      ....+.+.|+|++|.
T Consensus       187 ~~~~~~~~g~dGvLV  201 (226)
T d1w0ma_         187 DVAAALRLGTRGVLL  201 (226)
T ss_dssp             HHHHHHHTTCSEEEE
T ss_pred             HHHHHhcCCCCEEEe
Confidence            788889999999974

>d1wl8a1 c.23.16.1 (A:1-188) GMP synthase subunit A, GuaAA {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Class I glutamine amidotransferase-like
family: Class I glutamine amidotransferases (GAT)
domain: GMP synthase subunit A, GuaAA
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=82.68  E-value=2.7  Score=25.71  Aligned_cols=79  Identities=9%  Similarity=0.130  Sum_probs=43.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh-CCCCcEEEE
Q 045936           27 YFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM-KVESKIVGV  105 (145)
Q Consensus        27 ~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~-~~~~~ii~l  105 (145)
                      |.|+|+|........+.+.|+..|+.+....+.... +.+.. ..+|.|++.-.............++.. ....|++-+
T Consensus         1 mmI~iiD~g~~~~~~i~~~L~~~G~~~~v~~~~~~~-~~~~~-~~~~gvilsgg~~~~~~~~~~~~i~~~~~~~~PiLGI   78 (188)
T d1wl8a1           1 MMIVIMDNGGQYVHRIWRTLRYLGVETKIIPNTTPL-EEIKA-MNPKGIIFSGGPSLENTGNCEKVLEHYDEFNVPILGI   78 (188)
T ss_dssp             CEEEEEECSCTTHHHHHHHHHHTTCEEEEEETTCCH-HHHHH-TCCSEEEECCCSCTTCCTTHHHHHHTGGGTCSCEEEE
T ss_pred             CEEEEEECCCcHHHHHHHHHHHCCCeEEEEeCCCCH-HHHhh-hccceeeeccCcccccccccccccccccccccceeeh
Confidence            468999987776777888999999887655433222 22333 246666554221111111222333332 336788766


Q ss_pred             ec
Q 045936          106 TS  107 (145)
Q Consensus       106 t~  107 (145)
                      +-
T Consensus        79 Cl   80 (188)
T d1wl8a1          79 CL   80 (188)
T ss_dssp             TH
T ss_pred             hh
Confidence            44

>d1qopa_ c.1.2.4 (A:) Trp synthase alpha-subunit {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Ribulose-phoshate binding barrel
family: Tryptophan biosynthesis enzymes
domain: Trp synthase alpha-subunit
species: Salmonella typhimurium [TaxId: 90371]

Probab=82.37  E-value=2.9  Score=27.65  Aligned_cols=52  Identities=13%  Similarity=0.080  Sum_probs=37.1

Q ss_pred             HHHHHHHHHhhCCCCcEEEEec------CCChHHHHHHHHhcccEEeeCCCCHHHHHH
Q 045936           86 GIEATKAMRAMKVESKIVGVTS------RNSETEREVFMQAGLDLCYTKPLTMAKIVP  137 (145)
Q Consensus        86 g~~~~~~l~~~~~~~~ii~lt~------~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~  137 (145)
                      .+++++.+++..+..|+++++-      +.-......+.+.|+++++...+.+++-..
T Consensus        81 ~~~~~~~~r~~~~~~pivlm~Y~N~i~~~G~~~f~~~~~~~Gv~GliipDlP~ee~~~  138 (267)
T d1qopa_          81 CFEMLAIIREKHPTIPIGLLMYANLVFNNGIDAFYARCEQVGVDSVLVADVPVEESAP  138 (267)
T ss_dssp             HHHHHHHHHHHCSSSCEEEEECHHHHHTTCHHHHHHHHHHHTCCEEEETTCCGGGCHH
T ss_pred             hhhhhhhhcccccccceEEEeeccchhhcCchHHHHHHHhcCCCceeccchhhhhhHH
Confidence            3556667777777889988763      223556788899999999988776665543

>d1xi3a_ c.1.3.1 (A:) Thiamin phosphate synthase {Archaeon (Pyrococcus furiosus) [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Thiamin phosphate synthase
family: Thiamin phosphate synthase
domain: Thiamin phosphate synthase
species: Archaeon (Pyrococcus furiosus) [TaxId: 2261]

Probab=82.19  E-value=4.1  Score=25.48  Aligned_cols=87  Identities=11%  Similarity=0.097  Sum_probs=61.4

Q ss_pred             EEEecCHHHHHHHHhcCCCccEEEEeCCCCCC-------CHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEE
Q 045936           53 VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVM-------DGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLC  125 (145)
Q Consensus        53 v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~-------~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~  125 (145)
                      ...+++.+++......  .+|.+.+.--.+..       -|++.++++.+.. .+||+++.+- +.+....++..|++++
T Consensus       103 g~s~h~~~e~~~a~~~--g~DYi~~gpvf~T~tk~~~~~~g~~~l~~~~~~~-~~Pv~AiGGI-~~~ni~~~~~~Ga~gv  178 (206)
T d1xi3a_         103 GASVYSLEEALEAEKK--GADYLGAGSVFPTKTKEDARVIGLEGLRKIVESV-KIPVVAIGGI-NKDNAREVLKTGVDGI  178 (206)
T ss_dssp             EEEESSHHHHHHHHHH--TCSEEEEECSSCC----CCCCCHHHHHHHHHHHC-SSCEEEESSC-CTTTHHHHHTTTCSEE
T ss_pred             ccccCCHHHHHHHHhc--CCCEEEeccccccccccccccccHHHHHHHHHhc-CCCEEEECCC-CHHHHHHHHHhCCCEE
Confidence            4478888888777665  48988888644321       2888888887754 5788888764 5566788999999997


Q ss_pred             -----eeCCCCHHHHHHHHHHHh
Q 045936          126 -----YTKPLTMAKIVPLLEELQ  143 (145)
Q Consensus       126 -----l~kP~~~~~l~~~l~~~~  143 (145)
                           +...-++.+....+++.+
T Consensus       179 Avis~I~~~~dp~~~~~~l~~~~  201 (206)
T d1xi3a_         179 AVISAVMGAEDVRKATEELRKIV  201 (206)
T ss_dssp             EESHHHHTSSSHHHHHHHHHHHH
T ss_pred             EEhHHHHCCCCHHHHHHHHHHHH
Confidence                 566556766666665554

>d1vpxa_ c.1.10.1 (A:) Decameric fructose-6-phosphate aldolase/transaldolase {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: Decameric fructose-6-phosphate aldolase/transaldolase
species: Thermotoga maritima [TaxId: 2336]

Probab=82.17  E-value=4.4  Score=25.83  Aligned_cols=86  Identities=19%  Similarity=0.218  Sum_probs=55.6

Q ss_pred             HHHHHhcCCe--EEEecCHHHHHHHHhcCCCccEEEEe-CCCCCCCHHHHHHHHHhh----CCCCcEEEEecCCChHHHH
Q 045936           43 SMILKSVGFK--VEVAENGKEAVDLFRTGAKFHIVFID-MEMPVMDGIEATKAMRAM----KVESKIVGVTSRNSETERE  115 (145)
Q Consensus        43 ~~~l~~~g~~--v~~~~~~~~~l~~l~~~~~~dlil~d-~~~~~~~g~~~~~~l~~~----~~~~~ii~lt~~~~~~~~~  115 (145)
                      ...|+..|+.  ++.+-+..+++.....+..+=..+++ +.-.+.+|.++++.+++.    ...++++ .++..+.....
T Consensus        96 i~~L~~~Gi~~n~Tavfs~~Qa~~Aa~aga~yispy~gR~~d~g~d~~~~i~~~~~~~~~~~~~tkil-~AS~r~~~~v~  174 (218)
T d1vpxa_          96 VKTLSAEGIKTNVTLVFSPAQAILAAKAGATYVSPFVGRMDDLSNDGMRMLGEIVEIYNNYGFETEII-AASIRHPMHVV  174 (218)
T ss_dssp             HHHHHHTTCCEEEEEECSHHHHHHHHHHTCSEEEEBHHHHHHTTSCHHHHHHHHHHHHHHHTCSCEEE-EBSCCSHHHHH
T ss_pred             HHHHHHcCCceeeEEecCHHHHHHHHhcCCCEEEeeecchhhhcccchhhHHHHHHHHhhhcccceee-eeccCCHHHHH
Confidence            3455666765  45777888888887764322222222 111356788877776653    4455555 58888888999


Q ss_pred             HHHHhcccEEeeCC
Q 045936          116 VFMQAGLDLCYTKP  129 (145)
Q Consensus       116 ~~~~~g~~~~l~kP  129 (145)
                      .+...|++.+-..|
T Consensus       175 ~a~~~G~d~iTip~  188 (218)
T d1vpxa_         175 EAALMGVDIVTMPF  188 (218)
T ss_dssp             HHHHHTCSEEEECH
T ss_pred             HHHHcCCCEEEcCH
Confidence            99999999765433

>d2tpsa_ c.1.3.1 (A:) Thiamin phosphate synthase {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Thiamin phosphate synthase
family: Thiamin phosphate synthase
domain: Thiamin phosphate synthase
species: Bacillus subtilis [TaxId: 1423]

Probab=82.03  E-value=4.5  Score=25.80  Aligned_cols=86  Identities=17%  Similarity=0.139  Sum_probs=57.9

Q ss_pred             EEecCHHHHHHHHhcCCCccEEEEeCCCC--------CCCHHHHHHHHHhhCCCCcEEEEecCCChHHHHHHHHhcccEE
Q 045936           54 EVAENGKEAVDLFRTGAKFHIVFIDMEMP--------VMDGIEATKAMRAMKVESKIVGVTSRNSETEREVFMQAGLDLC  125 (145)
Q Consensus        54 ~~~~~~~~~l~~l~~~~~~dlil~d~~~~--------~~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~~~~~~~g~~~~  125 (145)
                      ..+++.+++......  .+|.+.+.--.+        ...+.++++.++......||+++.+- +.+....++..|++++
T Consensus       120 ~S~h~~~e~~~a~~~--g~DYi~~gpvf~T~sK~~~~~~~~~~~~~~~~~~~~~~Pv~AiGGI-~~~ni~~l~~~Ga~gi  196 (226)
T d2tpsa_         120 VSAHTMSEVKQAEED--GADYVGLGPIYPTETKKDTRAVQGVSLIEAVRRQGISIPIVGIGGI-TIDNAAPVIQAGADGV  196 (226)
T ss_dssp             EEECSHHHHHHHHHH--TCSEEEECCSSCCCSSSSCCCCCTTHHHHHHHHTTCCCCEEEESSC-CTTTSHHHHHTTCSEE
T ss_pred             eeccchHHHHHHHhC--cCCeEEEecccccccccccccccccchhHHHHHhcCCCCEEEecCC-CHHHHHHHHHhCCCEE
Confidence            368888888877765  389888875322        22467788888766667899888664 5566778889999886


Q ss_pred             -----eeCCCCHHHHHHHHHHH
Q 045936          126 -----YTKPLTMAKIVPLLEEL  142 (145)
Q Consensus       126 -----l~kP~~~~~l~~~l~~~  142 (145)
                           +..--++..-...+.+.
T Consensus       197 Avis~I~~a~dp~~~~~~~~~~  218 (226)
T d2tpsa_         197 SMISAISQAEDPESAARKFREE  218 (226)
T ss_dssp             EESHHHHTSSCHHHHHHHHHHH
T ss_pred             EEhHHhhcCCCHHHHHHHHHHH
Confidence                 34444555554444433

>d2ifta1 c.66.1.46 (A:11-193) Putative methylase HI0767 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: YhhF-like
domain: Putative methylase HI0767
species: Haemophilus influenzae [TaxId: 727]

Probab=81.83  E-value=4  Score=25.03  Aligned_cols=69  Identities=10%  Similarity=0.101  Sum_probs=46.2

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCC---e-EEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhh
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGF---K-VEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAM   96 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~---~-v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~   96 (145)
                      +|..+|.+......++.-++..+.   . .....+..+.+........+|+|++|-=.......+++..+.+.
T Consensus        68 ~v~fVE~~~~a~~~ik~Ni~~l~~~~~~~~~~~~d~~~~l~~~~~~~~fDlIFlDPPY~~~~~~~~l~~l~~~  140 (183)
T d2ifta1          68 KVTFLELDKTVANQLKKNLQTLKCSSEQAEVINQSSLDFLKQPQNQPHFDVVFLDPPFHFNLAEQAISLLCEN  140 (183)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCCTTTEEEECSCHHHHTTSCCSSCCEEEEEECCCSSSCHHHHHHHHHHHT
T ss_pred             eeEEeecccchhhhHhhHHhhhcccccccccccccccccccccccCCcccEEEechhHhhhhHHHHHHHHHHh
Confidence            799999999999999998887763   2 33455555544433332469999999533333355677777664

>d2basa1 c.1.33.1 (A:2-262) Hypothetical protein YkuI, N-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: EAL domain-like
family: EAL domain
domain: Hypothetical protein YkuI, N-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=81.82  E-value=4.8  Score=25.96  Aligned_cols=93  Identities=8%  Similarity=0.013  Sum_probs=56.8

Q ss_pred             HHHHHHHHHHHhcCCeEE--EecCHHHHHHHHhcCCCccEEEEeCCC----CC-CCHHHHHHHHHhh-CC-CCcEEEEec
Q 045936           37 MIRRIHSMILKSVGFKVE--VAENGKEAVDLFRTGAKFHIVFIDMEM----PV-MDGIEATKAMRAM-KV-ESKIVGVTS  107 (145)
Q Consensus        37 ~~~~~l~~~l~~~g~~v~--~~~~~~~~l~~l~~~~~~dlil~d~~~----~~-~~g~~~~~~l~~~-~~-~~~ii~lt~  107 (145)
                      .........|+..|+.+.  .+..+...+..+.. -+||.|=+|..+    .. .....+++.+... +. +. -++..+
T Consensus       132 ~~~~~~l~~L~~~G~~lalddfG~~~~sl~~L~~-l~~d~IKld~s~i~~~~~~~~~~~~l~~l~~~a~~~~~-~vIaeG  209 (261)
T d2basa1         132 EQLYHMLAYYRTYGIKIAVDNIGKESSNLDRIAL-LSPDLLKIDLQALKVSQPSPSYEHVLYSISLLARKIGA-ALLYED  209 (261)
T ss_dssp             HHHHHHHHHHHTTTCEEEEEEETTTBCCHHHHHH-HCCSEEEEECTTTC----CCHHHHHHHHHHHHHHHHTC-EEEEEC
T ss_pred             HHHHHHHHHHhhcCceeeecCCccCccchhHHhh-hhhhhhhcccccccccccchhhHHHHHHHHHHHHHcCC-EEEEEe
Confidence            344445556677898865  34443344455544 468999999664    22 2234455555332 11 33 356778


Q ss_pred             CCChHHHHHHHHhcccE----EeeCCCC
Q 045936          108 RNSETEREVFMQAGLDL----CYTKPLT  131 (145)
Q Consensus       108 ~~~~~~~~~~~~~g~~~----~l~kP~~  131 (145)
                      -.+......+.+.|++.    |+.||..
T Consensus       210 VE~~~~~~~l~~lg~d~~QG~~~~~P~~  237 (261)
T d2basa1         210 IEANFQLQYAWRNGGRYFQGYYLVSPSE  237 (261)
T ss_dssp             CCSHHHHHHHHHTTEEEECSTTTCCCBS
T ss_pred             CCcHHHHHHHHHcCCCEEECCcccccCC
Confidence            88888888999999876    5777854

>d2fy8a1 c.2.1.9 (A:116-244) Potassium channel-related protein MthK {Archaeon Methanothermobacter thermautotrophicus [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Potassium channel NAD-binding domain
domain: Potassium channel-related protein MthK
species: Archaeon Methanothermobacter thermautotrophicus [TaxId: 145262]

Probab=81.23  E-value=3.3  Score=23.67  Aligned_cols=91  Identities=14%  Similarity=0.176  Sum_probs=56.2

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCCeEEEec-CHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEEe
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGFKVEVAE-NGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIVGVT  106 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~~v~~~~-~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii~lt  106 (145)
                      .|.+++.++...+.+    ...|+.+...+ +..+.++...- ...+.+++-..- +...+.++..+|+..|..++++.+
T Consensus        23 ~i~vi~~d~~~~~~~----~~~~~~~i~Gd~~~~~~L~~a~i-~~A~~vi~~~~~-d~~n~~~~~~~r~~~~~~~iia~~   96 (129)
T d2fy8a1          23 EVFVLAEDENVRKKV----LRSGANFVHGDPTRVSDLEKANV-RGARAVIVNLES-DSETIHCILGIRKIDESVRIIAEA   96 (129)
T ss_dssp             GEEEEESCTTHHHHH----HHTTCEEEESCTTSHHHHHHTTC-TTCSEEEECCSS-HHHHHHHHHHHHHHCSSSCEEEEC
T ss_pred             CCEEEEcchHHHHHH----HhcCccccccccCCHHHHHHhhh-hcCcEEEEeccc-hhhhHHHHHHHHHHCCCceEEEEE
Confidence            467778777765443    45577765433 22455555444 356777764422 223445666777888888877665


Q ss_pred             cCCChHHHHHHHHhcccEEe
Q 045936          107 SRNSETEREVFMQAGLDLCY  126 (145)
Q Consensus       107 ~~~~~~~~~~~~~~g~~~~l  126 (145)
                      .  +++....+...|++..+
T Consensus        97 ~--~~~~~~~l~~~G~d~vi  114 (129)
T d2fy8a1          97 E--RYENIEQLRMAGADQVI  114 (129)
T ss_dssp             S--SGGGHHHHHHHHCSEEE
T ss_pred             c--CHHHHHHHHHCCCCEEE
Confidence            4  45566677889999866

>d1vc4a_ c.1.2.4 (A:) Indole-3-glycerophosphate synthase, IPGS {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Ribulose-phoshate binding barrel
family: Tryptophan biosynthesis enzymes
domain: Indole-3-glycerophosphate synthase, IPGS
species: Thermus thermophilus [TaxId: 274]

Probab=81.00  E-value=5.5  Score=26.11  Aligned_cols=83  Identities=8%  Similarity=0.077  Sum_probs=51.2

Q ss_pred             HHHHHHhcCCe-EEEecCHHHHHHHHhcCCCccEEEEe-CCCCC-----CCHHHHHHHHHhhCCCCcEEEEecCCChHHH
Q 045936           42 HSMILKSVGFK-VEVAENGKEAVDLFRTGAKFHIVFID-MEMPV-----MDGIEATKAMRAMKVESKIVGVTSRNSETER  114 (145)
Q Consensus        42 l~~~l~~~g~~-v~~~~~~~~~l~~l~~~~~~dlil~d-~~~~~-----~~g~~~~~~l~~~~~~~~ii~lt~~~~~~~~  114 (145)
                      +...-...|.. ++.+++.+|+-..+.. + +.+|=++ .++..     .....+.+.+.....+..+|.=++-.+.+..
T Consensus       146 l~~~A~~lgl~~LVEvh~~~El~~a~~~-~-a~iIGINnRdL~t~~vd~~~~~~l~~~i~~~~~~~i~IsESGI~~~~dv  223 (254)
T d1vc4a_         146 YLEEARRLGLEALVEVHTERELEIALEA-G-AEVLGINNRDLATLHINLETAPRLGRLARKRGFGGVLVAESGYSRKEEL  223 (254)
T ss_dssp             HHHHHHHHTCEEEEEECSHHHHHHHHHH-T-CSEEEEESBCTTTCCBCTTHHHHHHHHHHHTTCCSEEEEESCCCSHHHH
T ss_pred             HHHHHHHhCCceEEEeccHHHHhhhhcC-C-CCEEEEeccchhhhhcchHHHHHhhhcccccCCCCEEEEccCCCCHHHH
Confidence            33444567877 5599999999888776 3 5777665 23322     1234455555554445555555666666665


Q ss_pred             HHHHHhcccEEee
Q 045936          115 EVFMQAGLDLCYT  127 (145)
Q Consensus       115 ~~~~~~g~~~~l~  127 (145)
                      . .+..|++++|.
T Consensus       224 ~-~l~~g~davLI  235 (254)
T d1vc4a_         224 K-ALEGLFDAVLI  235 (254)
T ss_dssp             H-TTTTTCSEEEE
T ss_pred             H-HHHcCCCEEEE
Confidence            4 45789999963

>d2fhpa1 c.66.1.46 (A:1-182) Putative methylase EF2452 {Enterococcus faecalis [TaxId: 1351]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: YhhF-like
domain: Putative methylase EF2452
species: Enterococcus faecalis [TaxId: 1351]

Probab=80.98  E-value=4.3  Score=24.90  Aligned_cols=69  Identities=10%  Similarity=0.125  Sum_probs=49.7

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhcCC--eE-EEecCHHHHHHHHh-cCCCccEEEEeCCCCCCCHHHHHHHHHhh
Q 045936           28 FALVVDDDPMIRRIHSMILKSVGF--KV-EVAENGKEAVDLFR-TGAKFHIVFIDMEMPVMDGIEATKAMRAM   96 (145)
Q Consensus        28 ~vlii~~~~~~~~~l~~~l~~~g~--~v-~~~~~~~~~l~~l~-~~~~~dlil~d~~~~~~~g~~~~~~l~~~   96 (145)
                      +|..+|.++.....++.-++..+.  .+ ....|....+..+. .+..+|+|++|-=.......+.+..|.+.
T Consensus        66 ~v~~ve~~~~a~~~~~~N~~~~~~~~~~~i~~~D~~~~l~~~~~~~~~fDlIflDPPY~~~~~~~~l~~i~~~  138 (182)
T d2fhpa1          66 KSICIEKNFAALKVIKENIAITKEPEKFEVRKMDANRALEQFYEEKLQFDLVLLDPPYAKQEIVSQLEKMLER  138 (182)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHHTCGGGEEEEESCHHHHHHHHHHTTCCEEEEEECCCGGGCCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhhcccccccccccchhhhhhhcccCCCcceEEechhhhhhHHHHHHHHHHHC
Confidence            799999999999999988876663  23 25678888777653 33579999999533344566777777553

>d2ayxa2 c.23.1.6 (A:700-816) Sensor kinase protein RcsC {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: RcsC linker domain-like
domain: Sensor kinase protein RcsC
species: Escherichia coli [TaxId: 562]

Probab=80.94  E-value=3.4  Score=23.73  Aligned_cols=97  Identities=9%  Similarity=0.016  Sum_probs=67.6

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHHhcCCeEEEecCHHHHHHHHhcCCCccEEEEeCCCCCCCHHHHHHHHHhhCCCCcEE
Q 045936           24 NRPYFALVVDDDPMIRRIHSMILKSVGFKVEVAENGKEAVDLFRTGAKFHIVFIDMEMPVMDGIEATKAMRAMKVESKIV  103 (145)
Q Consensus        24 ~~~~~vlii~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~l~~l~~~~~~dlil~d~~~~~~~g~~~~~~l~~~~~~~~ii  103 (145)
                      -.+.+.++.-.|......+..+|+..|+.|..++.        .+..+.|++|+|......            .+.-..|
T Consensus         5 ~~gk~cWL~iRNa~Le~fL~~lL~~~G~~v~ry~~--------q~~~~~DvlItD~~~~~~------------~~~~a~I   64 (117)
T d2ayxa2           5 LSGKRCWLAVRNASLCQFLETSLQRSGIVVTTYEG--------QEPTPEDVLITDEVVSKK------------WQGRAVV   64 (117)
T ss_dssp             TTTEEEEEECCCHHHHHHHHHHHTTTTEEEEECSS--------CCCCTTCEEEEESSCSCC------------CCSSEEE
T ss_pred             ccCcEeehhhhHHHHHHHHHHHHHhCCcEEEEecC--------CCCCcccEEEeCCccccC------------ccccEEE
Confidence            35668899999999999999999999999987753        122357999999754321            1223356


Q ss_pred             EEecCCChHHHHHHHHhcccEEeeCCCCHHHHHHHHHHHhh
Q 045936          104 GVTSRNSETEREVFMQAGLDLCYTKPLTMAKIVPLLEELQK  144 (145)
Q Consensus       104 ~lt~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~l~~~~~  144 (145)
                      .++......    +.+-....++....++.+|...|.++.+
T Consensus        65 ~~s~~hiG~----~~E~~pg~Wl~sT~t~~eLp~LL~rI~~  101 (117)
T d2ayxa2          65 TFCRRHIGI----PLEKAPGEWVHSVAAPHELPALLARIYL  101 (117)
T ss_dssp             EECSSCCCS----CCTTSTTEEEECSSCCSHHHHHHHHHHT
T ss_pred             EecHhhCCC----hhhcCCCceEeccCCHhHHHHHHHHHhc
Confidence            665544322    2234456678888888999888888764