Citrus Sinensis ID: 048318

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-----
Protein Sequence
MMLGEGESSSKKAKIMENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccEEEEEcccHHHHHHHHHHHHHcccEEEEEccHHHHHHHHHccccccEEEEEcccccccHHHHHHHHHHccccccEEEEcccccHHHHHHHHHccccccccccccHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccEEEEEcccHHHHHHHHHHHHHcccEEEEEccHHHHHHHHHHcccccEEEEEcccccccHHHHHHHHHHccccccEEEEEccccHHHHHHHHHcccccEEEccccHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
mmlgegessskkakimenpsaknLRLFALvvdddcfiRTIHSMALKSLGFKVEVAENGKEAVDLFRsgakfdivfidkempvmngIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLdlchtkplsvdkiLPLMEDLMKNN
Flexible Loop (DISEMBL)
mmlgegessskkakimenpsaknLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN
Low Complexity Region (SEG)
MMLGEGESSSKKAKIMENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN
Disordered region (IsUnstruct)
**********************NLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPL********
Disordered Region (DISOPRED)
***************************ALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK**
Disordered Region (DISEMBL)
**************IMENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN
Disordered Region (DISPRO)
***********************LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MMLGEGESSSKKAKIMENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN
Positional Conservation
no confident homologs detected

---

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	no	no	0.779	0.795	0.478	4e-23
A1TEL7	231	Response regulator MprA O	yes	no	0.8	0.502	0.367	9e-14
Q9P896	682	Two-component system prot	yes	no	0.786	0.167	0.327	3e-13
Q56128	948	Sensor protein RcsC OS=Sa	N/A	no	0.889	0.136	0.307	3e-13
P58662	948	Sensor protein RcsC OS=Sa	yes	no	0.875	0.133	0.312	4e-13
Q1B3X8	230	Response regulator MprA O	yes	no	0.8	0.504	0.358	6e-13
A1UL70	230	Response regulator MprA O	yes	no	0.8	0.504	0.358	6e-13
A3Q5L9	230	Response regulator MprA O	yes	no	0.8	0.504	0.358	6e-13
P14376	949	Sensor kinase protein Rcs	N/A	no	0.779	0.119	0.333	2e-12
A1KHB7	230	Response regulator MprA O	yes	no	0.8	0.504	0.350	3e-12

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

 Score =  106 bits (265), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 55/115 (47%), Positives = 79/115 (68%), Gaps = 2/115 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSG-AKFDIVFIDKEMPVMNGIE 87
           L+VDDD   R +H M +K++G   + A+NG+EAV L R G A FD++ +DKEMP  +G+ 
Sbjct: 25  LIVDDDPLNRRLHEMIIKTIGGISQTAKNGEEAVILHRDGEASFDLILMDKEMPERDGVS 84

Query: 88  ATREIRSMGIKIKIVGVTSL-NSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL 141
            T+++R M +   IVGVTS+ + E ER+AFM+AGL+ C  KPL+  KI PL+  L
Sbjct: 85  TTKKLREMKVTSMIVGVTSVADQEEERKAFMEAGLNHCLEKPLTKAKIFPLISHL 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|A1TEL7|MPRA_MYCVP Response regulator MprA OS=Mycobacterium vanbaalenii (strain DSM 7251 / PYR-1) GN=mprA PE=3 SV=1

 Score = 75.5 bits (184), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 43/117 (36%), Positives = 72/117 (61%), Gaps = 1/117 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDDD  +R     +L   G+ VE+A++G+EA+DL  S  + D V +D  MP ++G+E 
Sbjct: 6   LVVDDDRAVRESLRRSLSFNGYSVELAQDGREALDLIASD-RPDAVVLDVMMPRLDGLEV 64

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN 145
            R++RS G  + I+ +T+ +S +ER A + AG D    KP +++++L  M  L++  
Sbjct: 65  CRQLRSTGDDLPILVLTARDSVSERVAGLDAGADDYLPKPFALEELLARMRALLRRT 121

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 = 73.9 bits (180), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 38/116 (32%), Positives = 69/116 (59%), Gaps = 2/116 (1%)

Query: 25  RLFALVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGA-KFDIVFIDKEMPV 82
           R   L+V+D+    T+    L ++GF +++ A NG EAV + R     +DI+ +D  MPV
Sbjct: 561 RKHVLLVEDNIVNHTVMLKLLHTIGFQRIDGAWNGAEAVRMVRQKPLSYDIILMDVSMPV 620

Query: 83  MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLM 138
           ++G+ AT +IR MG+ + I+ +T    + + E ++  G+D C  KP+  D++L ++
Sbjct: 621 LDGLAATEQIRDMGLTMPIIAITGNAMKGDAETYIAQGMDDCICKPVHRDQLLRVL 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|Q56128|RCSC_SALTI Sensor protein RcsC OS=Salmonella typhi GN=rcsC PE=3 SV=2

 Score = 73.9 bits (180), Expect = 3e-13,   Method: Composition-based stats.
 Identities = 40/130 (30%), Positives = 73/130 (56%), Gaps = 1/130 (0%)

Query: 5   EGESSSKKAKIMENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDL 64
           + E+ S      +  +  N  +  LVVDD    R + +  L SLG++ + A +G +A+++
Sbjct: 804 DSEALSSALPTTDKTADSNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNV 863

Query: 65  FRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLC 124
               A  DIV  D  MP M+G   T+ IR +G+ + +VGVT+     E++  +++G+D C
Sbjct: 864 LSKNA-IDIVLSDVNMPNMDGYRLTQRIRQLGLTLPVVGVTANALAEEKQRCLESGMDSC 922

Query: 125 HTKPLSVDKI 134
            +KP+++D +
Sbjct: 923 LSKPVTLDAL 932

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 = 73.6 bits (179), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 40/128 (31%), Positives = 72/128 (56%), Gaps = 1/128 (0%)

Query: 5   EGESSSKKAKIMENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDL 64
           + E+ S      +  +  N  +  LVVDD    R + +  L SLG++ + A +G +A+++
Sbjct: 804 DSEALSSALPTTDKTADSNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNV 863

Query: 65  FRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLC 124
               A  DIV  D  MP M+G   T+ IR +G+ + +VGVT+     E++  +++G+D C
Sbjct: 864 LSKNA-IDIVLSDVNMPNMDGYRLTQRIRQLGLTLPVVGVTANALAEEKQRCLESGMDSC 922

Query: 125 HTKPLSVD 132
            +KP+++D
Sbjct: 923 LSKPVTLD 930

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|Q1B3X8|MPRA_MYCSS Response regulator MprA OS=Mycobacterium sp. (strain MCS) GN=mprA PE=3 SV=1

 Score = 72.8 bits (177), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 42/117 (35%), Positives = 71/117 (60%), Gaps = 1/117 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDDD  +R     +L   G+ VE+A++G EA+DL  +  + D V +D  MP ++G+E 
Sbjct: 6   LVVDDDRAVRESLRRSLSFNGYSVELAQDGVEALDLI-ANNRPDAVVLDVMMPRLDGLEV 64

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN 145
            R++RS G  + I+ +T+ +S +ER A + AG D    KP +++++L  M  L++  
Sbjct: 65  CRQLRSTGDDLPILVLTARDSVSERVAGLDAGADDYLPKPFALEELLARMRALLRRT 121

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 sp. (strain MCS) (taxid: 164756)

>sp|A1UL70|MPRA_MYCSK Response regulator MprA OS=Mycobacterium sp. (strain KMS) GN=mprA PE=3 SV=1

 Score = 72.8 bits (177), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 42/117 (35%), Positives = 71/117 (60%), Gaps = 1/117 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDDD  +R     +L   G+ VE+A++G EA+DL  +  + D V +D  MP ++G+E 
Sbjct: 6   LVVDDDRAVRESLRRSLSFNGYSVELAQDGVEALDLI-ANNRPDAVVLDVMMPRLDGLEV 64

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN 145
            R++RS G  + I+ +T+ +S +ER A + AG D    KP +++++L  M  L++  
Sbjct: 65  CRQLRSTGDDLPILVLTARDSVSERVAGLDAGADDYLPKPFALEELLARMRALLRRT 121

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 sp. (strain KMS) (taxid: 189918)

>sp|A3Q5L9|MPRA_MYCSJ Response regulator MprA OS=Mycobacterium sp. (strain JLS) GN=mprA PE=3 SV=1

 Score = 72.8 bits (177), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 42/117 (35%), Positives = 71/117 (60%), Gaps = 1/117 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDDD  +R     +L   G+ VE+A++G EA+DL  +  + D V +D  MP ++G+E 
Sbjct: 6   LVVDDDRAVRESLRRSLSFNGYSVELAQDGVEALDLI-ANNRPDAVVLDVMMPRLDGLEV 64

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN 145
            R++RS G  + I+ +T+ +S +ER A + AG D    KP +++++L  M  L++  
Sbjct: 65  CRQLRSTGDDLPILVLTARDSVSERVAGLDAGADDYLPKPFALEELLARMRALLRRT 121

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 sp. (strain JLS) (taxid: 164757)

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

 Score = 71.2 bits (173), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 38/114 (33%), Positives = 68/114 (59%), Gaps = 1/114 (0%)

Query: 21  AKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEM 80
           + N  +  LVVDD    R + +  L SLG++ + A +G +A+++  S    DIV  D  M
Sbjct: 820 SDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVL-SKNHIDIVLSDVNM 878

Query: 81  PVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKI 134
           P M+G   T+ IR +G+ + ++GVT+     E++  +++G+D C +KP+++D I
Sbjct: 879 PNMDGYRLTQRIRQLGLTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVI 932

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|A1KHB7|MPRA_MYCBP Response regulator MprA OS=Mycobacterium bovis (strain BCG / Pasteur 1173P2) GN=mprA PE=3 SV=1

 Score = 70.5 bits (171), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 41/117 (35%), Positives = 70/117 (59%), Gaps = 1/117 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDDD  +R     +L   G+ VE+A +G EA+D+  S  + D + +D  MP ++G+E 
Sbjct: 6   LVVDDDRAVRESLRRSLSFNGYSVELAHDGVEALDMIASD-RPDALVLDVMMPRLDGLEV 64

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN 145
            R++RS G  + I+ +T+ +S +ER A + AG D    KP +++++L  M  L++  
Sbjct: 65  CRQLRSTGDDLPILVLTARDSVSERVAGLDAGADDYLPKPFALEELLARMRALLRRT 121

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 bovis (strain BCG / Pasteur 1173P2) (taxid: 410289)

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
225430645	140	PREDICTED: two-component response regula	0.965	1.0	0.455	5e-30
225430664	131	PREDICTED: two-component response regula	0.834	0.923	0.504	6e-30
225430668	130	PREDICTED: two-component response regula	0.813	0.907	0.5	2e-29
224105501	129	extra response regulator [Populus tricho	0.834	0.937	0.504	2e-27
357510255	140	Chemotaxis protein cheY-like protein [Me	0.862	0.892	0.496	4e-26
30690228	139	response regulator 24 [Arabidopsis thali	0.862	0.899	0.464	1e-25
356570702	150	PREDICTED: two-component response regula	0.820	0.793	0.478	1e-25
224069957	138	extra response regulator [Populus tricho	0.855	0.898	0.472	3e-25
297808661	139	predicted protein [Arabidopsis lyrata su	0.862	0.899	0.456	7e-25
356503660	132	PREDICTED: two-component response regula	0.806	0.886	0.504	9e-25

>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 =  135 bits (341), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 66/145 (45%), Positives = 101/145 (69%), Gaps = 5/145 (3%)

Query: 1   MMLGEGESSSKKAKIMENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKE 60
           M  G+  SSSK  KI++       ++  L+V+DD  I+ IH + +   G +V+V  NGKE
Sbjct: 1   MGFGKATSSSKAMKIIDTEK----KISVLIVEDDPLIQKIHKVMMAKFGTEVQVVANGKE 56

Query: 61  AVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAG 120
            VDL+RSGA FD++ +D EMP+M+G EAT+E+RSMG+   IVGVTS + ++E +AFM++G
Sbjct: 57  VVDLYRSGASFDLILMDFEMPIMDGFEATKELRSMGVTSMIVGVTSRSQDSEIQAFMKSG 116

Query: 121 LDLCHTKPLSVDKILPLMEDLMKNN 145
           L+ C+ KPL+ +K+  ++ +L KNN
Sbjct: 117 LNACYVKPLNAEKVTAVLNEL-KNN 140

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 =  135 bits (340), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 61/121 (50%), Positives = 89/121 (73%)

Query: 25  RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMN 84
           ++ ALV DDD  I+ IH   L  LG +V V  NGKE +DL+RSG  FD++F+D EMP+M+
Sbjct: 11  KISALVADDDTIIQKIHKALLTKLGLEVNVVANGKEVLDLYRSGTSFDLIFMDMEMPIMD 70

Query: 85  GIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN 144
           G E T+E+R+MG++  I+GVTS + ++E+EAFM +GL+ C+ KPL++ KI  L++DL K 
Sbjct: 71  GPEVTKELRAMGVQSIIMGVTSRDLDSEKEAFMASGLNDCYMKPLTISKISSLLQDLKKK 130

Query: 145 N 145
           N
Sbjct: 131 N 131

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  133 bits (335), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 59/118 (50%), Positives = 86/118 (72%)

Query: 28  ALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
            L+VDDD   R IH + L  +G + +  ENGKEAVDL+RSGA FD++ +D EMP+M+G +
Sbjct: 13  TLIVDDDPLTRRIHKVLLTKVGLETQAVENGKEAVDLYRSGASFDLILMDLEMPIMDGPK 72

Query: 88  ATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN 145
           AT+E+R+MG++  IVGVT+ + E E++ FM +GLD C+ KPL+ D +  L+E L K+N
Sbjct: 73  ATKELRAMGVQSMIVGVTARDLEVEKQMFMASGLDDCYVKPLTTDTVTALVEKLNKDN 130

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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 =  126 bits (317), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 61/121 (50%), Positives = 88/121 (72%)

Query: 25  RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMN 84
           ++ ALVVDDD  I+TIHS  L  LG + +VA NG+EAVDL  SG KFD++ +D++MP+MN
Sbjct: 9   KITALVVDDDRIIKTIHSKLLSKLGIENQVAANGEEAVDLHCSGKKFDLIVMDRDMPIMN 68

Query: 85  GIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN 144
           GIEATRE+R++GI+  IVGV++ + E E + FM AGLD    KPL+  K++ ++  +  N
Sbjct: 69  GIEATRELRALGIRSIIVGVSTRSLEQEIQEFMDAGLDDYQEKPLTSSKVISILHKINHN 128

Query: 145 N 145
           +
Sbjct: 129 S 129

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357510255|ref|XP_003625416.1| Chemotaxis protein cheY-like protein [Medicago truncatula] gi|355500431|gb|AES81634.1| Chemotaxis protein cheY-like protein [Medicago truncatula]

 Score =  122 bits (307), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 63/127 (49%), Positives = 87/127 (68%), Gaps = 2/127 (1%)

Query: 5   EGESSSKKAKIMENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDL 64
           E +   K   IME+  +    L AL+VDDD  +R IH   LK  G K E  +NGKEAVD+
Sbjct: 2   EDQGKGKGKGIMESQDS-GTELTALIVDDDKLVRMIHQGLLKRAGVKSEAVKNGKEAVDI 60

Query: 65  FRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLC 124
             +G +FDI+ +DKEMP+MNGIEAT+++RSMGI   IVGV+S  +EAE++ FM+AG++  
Sbjct: 61  HCNGQRFDIILMDKEMPIMNGIEATKKLRSMGIGSMIVGVSSC-TEAEKQEFMEAGINDY 119

Query: 125 HTKPLSV 131
             KPL++
Sbjct: 120 QVKPLTI 126

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

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 =  120 bits (302), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 58/125 (46%), Positives = 85/125 (68%)

Query: 17  ENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFI 76
           E P+    +L ALVVDD    +TIH   L  LG K +V  NGKEAVD++ SG  +D++ +
Sbjct: 9   ELPNLAESKLTALVVDDSFVNQTIHQKLLNRLGIKNDVVTNGKEAVDVYCSGGNYDLILM 68

Query: 77  DKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILP 136
           D +MP+MNGI+AT+ +R MGI+ KI GVT+  +E E++ FM+AGL+    KPL++ K+L 
Sbjct: 69  DMDMPIMNGIQATKRLREMGIESKIAGVTTRANEGEKKEFMEAGLNDFQEKPLTISKLLS 128

Query: 137 LMEDL 141
           ++  L
Sbjct: 129 ILHKL 133

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  120 bits (302), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 57/119 (47%), Positives = 83/119 (69%)

Query: 25  RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMN 84
           +L AL+V+DD  IR +H   L S+G K++VAENGKEA+++  SG  FD++ +D++MPVMN
Sbjct: 27  QLTALIVEDDMVIRMVHQKILNSVGLKIQVAENGKEAIEIHGSGQSFDLILMDRDMPVMN 86

Query: 85  GIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
           GIEAT+ +RSMGI   I GV++ +  A    FM+AGLD    KPL++DK+  +   + K
Sbjct: 87  GIEATKTLRSMGINSMITGVSTRSVAAHIREFMEAGLDDYVEKPLTLDKLTSITHKINK 145

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224069957|ref|XP_002303092.1| extra response regulator [Populus trichocarpa] gi|222844818|gb|EEE82365.1| extra response regulator [Populus trichocarpa]

 Score =  119 bits (299), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 59/125 (47%), Positives = 87/125 (69%), Gaps = 1/125 (0%)

Query: 18  NPSAK-NLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFI 76
           N S K   ++ ALVVDDD   +TIH   L+ LG + +VA NGKEA+D+  SG KFD++ +
Sbjct: 6   NSSWKLGTKMTALVVDDDSINQTIHHRLLEQLGIENQVARNGKEAIDIHCSGKKFDLILM 65

Query: 77  DKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILP 136
           D++MP+MNGIEATR++R+MGI+  I GV++   + E + FM+AGLD    KPL+  KI+ 
Sbjct: 66  DRDMPIMNGIEATRKLRAMGIRSMIAGVSTRCVKQEIQEFMEAGLDDYQEKPLTSAKIIS 125

Query: 137 LMEDL 141
           ++  +
Sbjct: 126 ILHKI 130

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297808661|ref|XP_002872214.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297318051|gb|EFH48473.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score =  118 bits (296), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 57/125 (45%), Positives = 85/125 (68%)

Query: 17  ENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFI 76
           E P+    +L ALVVDD    +TIH   L  LG + +V  NGKEAVD++ SG  +D++ +
Sbjct: 9   ELPNLAESKLTALVVDDSFVNQTIHQKLLNRLGIENDVVTNGKEAVDVYCSGRNYDLILM 68

Query: 77  DKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILP 136
           D +MP+MNGI+AT+ +R MGI+ KI GVT+  +E E++ FM+AGL+    KPL++ K+L 
Sbjct: 69  DMDMPIMNGIQATKRLREMGIESKIAGVTTRANEGEKKEFMEAGLNDFQEKPLTISKLLS 128

Query: 137 LMEDL 141
           ++  L
Sbjct: 129 ILHKL 133

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  118 bits (295), Expect = 9e-25,   Method: Compositional matrix adjust.
 Identities = 59/117 (50%), Positives = 83/117 (70%)

Query: 25  RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMN 84
           +L ALVVDD+   R IH   L+S+G K +  ENG+EAVD+   G +FD++ +D +MP+MN
Sbjct: 9   KLTALVVDDNKINRKIHQKLLESVGMKNQGVENGQEAVDIHCHGQRFDLILMDMDMPIMN 68

Query: 85  GIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL 141
           GIEAT+E+RSMGI   IVGV+S  +EAE   FM+AGL+  H KPL+  K+  L++ +
Sbjct: 69  GIEATKELRSMGIGSMIVGVSSRCTEAEIRKFMEAGLNDYHEKPLNNSKLSSLLDKI 125

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	145
TAIR|locus:1005716875	139	RR24 "response regulator 24" [	0.862	0.899	0.464	1.5e-26
TAIR|locus:2102960	142	RR22 "response regulator 22" [	0.944	0.964	0.422	2.3e-23
ASPGD|ASPL0000033199	682	tcsA [Emericella nidulans (tax	0.786	0.167	0.327	5e-13
UNIPROTKB|Q9P896	682	tcsA "Two-component system pro	0.786	0.167	0.327	5e-13
DICTYBASE|DDB_G0268012	382	DDB_G0268012 "response regulat	0.696	0.264	0.409	5.5e-13
UNIPROTKB|O53894	230	mprA "Response regulator MprA"	0.786	0.495	0.347	9.1e-13
ASPGD|ASPL0000013405	659	hk2 [Emericella nidulans (taxi	0.765	0.168	0.391	1.3e-12
UNIPROTKB|Q9KS16	572	VC_1445 "Sensor histidine kina	0.875	0.222	0.310	3.5e-12
TIGR_CMR|VC_1445	572	VC_1445 "sensor histidine kina	0.875	0.222	0.310	3.5e-12
TIGR_CMR|GSU_1671	322	GSU_1671 "response regulator/G	0.682	0.307	0.411	4.2e-12

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

 Score = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 58/125 (46%), Positives = 85/125 (68%)

Query:    17 ENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFI 76
             E P+    +L ALVVDD    +TIH   L  LG K +V  NGKEAVD++ SG  +D++ +
Sbjct:     9 ELPNLAESKLTALVVDDSFVNQTIHQKLLNRLGIKNDVVTNGKEAVDVYCSGGNYDLILM 68

Query:    77 DKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILP 136
             D +MP+MNGI+AT+ +R MGI+ KI GVT+  +E E++ FM+AGL+    KPL++ K+L 
Sbjct:    69 DMDMPIMNGIQATKRLREMGIESKIAGVTTRANEGEKKEFMEAGLNDFQEKPLTISKLLS 128

Query:   137 LMEDL 141
             ++  L
Sbjct:   129 ILHKL 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

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

 Score = 269 (99.8 bits), Expect = 2.3e-23, P = 2.3e-23
 Identities = 60/142 (42%), Positives = 89/142 (62%)

Query:     2 MLGEGESSSKKAKIMENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEA 61
             M  +    ++K K +E    K   +  L+VDDD   R +H M +K++G   + A+NG+EA
Sbjct:     1 MATKSTGGTEKTKSIE---VKKKLINVLIVDDDPLNRRLHEMIIKTIGGISQTAKNGEEA 57

Query:    62 VDLFRSG-AKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSL-NSEAEREAFMQA 119
             V L R G A FD++ +DKEMP  +G+  T+++R M +   IVGVTS+ + E ER+AFM+A
Sbjct:    58 VILHRDGEASFDLILMDKEMPERDGVSTTKKLREMKVTSMIVGVTSVADQEEERKAFMEA 117

Query:   120 GLDLCHTKPLSVDKILPLMEDL 141
             GL+ C  KPL+  KI PL+  L
Sbjct:   118 GLNHCLEKPLTKAKIFPLISHL 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

ASPGD|ASPL0000033199 tcsA [Emericella nidulans (taxid:162425)]

 Score = 182 (69.1 bits), Expect = 5.0e-13, P = 5.0e-13
 Identities = 38/116 (32%), Positives = 69/116 (59%)

Query:    25 RLFALVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGA-KFDIVFIDKEMPV 82
             R   L+V+D+    T+    L ++GF +++ A NG EAV + R     +DI+ +D  MPV
Sbjct:   561 RKHVLLVEDNIVNHTVMLKLLHTIGFQRIDGAWNGAEAVRMVRQKPLSYDIILMDVSMPV 620

Query:    83 MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLM 138
             ++G+ AT +IR MG+ + I+ +T    + + E ++  G+D C  KP+  D++L ++
Sbjct:   621 LDGLAATEQIRDMGLTMPIIAITGNAMKGDAETYIAQGMDDCICKPVHRDQLLRVL 676

GO:0004673 "protein histidine kinase activity" evidence=ISA

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

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

GO:0075306 "regulation of conidium formation" evidence=IMP

GO:0035690 "cellular response to drug" evidence=IEA

GO:0009405 "pathogenesis" evidence=IEA

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

GO:0016310 "phosphorylation" evidence=IEA

GO:0016020 "membrane" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

GO:0048315 "conidium formation" evidence=IMP

UNIPROTKB|Q9P896 tcsA "Two-component system protein A" [Aspergillus nidulans FGSC A4 (taxid:227321)]

 Score = 182 (69.1 bits), Expect = 5.0e-13, P = 5.0e-13
 Identities = 38/116 (32%), Positives = 69/116 (59%)

Query:    25 RLFALVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGA-KFDIVFIDKEMPV 82
             R   L+V+D+    T+    L ++GF +++ A NG EAV + R     +DI+ +D  MPV
Sbjct:   561 RKHVLLVEDNIVNHTVMLKLLHTIGFQRIDGAWNGAEAVRMVRQKPLSYDIILMDVSMPV 620

Query:    83 MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLM 138
             ++G+ AT +IR MG+ + I+ +T    + + E ++  G+D C  KP+  D++L ++
Sbjct:   621 LDGLAATEQIRDMGLTMPIIAITGNAMKGDAETYIAQGMDDCICKPVHRDQLLRVL 676

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

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

GO:0005737 "cytoplasm" evidence=NAS

GO:0030437 "ascospore formation" evidence=IMP

GO:0035556 "intracellular signal transduction" evidence=NAS

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

 Score = 177 (67.4 bits), Expect = 5.5e-13, P = 5.5e-13
 Identities = 45/110 (40%), Positives = 68/110 (61%)

Query:    29 LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
             LVV+DD   R I S  LK LG K+ +AENG +AV+   +  K+DI+ +D  MP+M G EA
Sbjct:    11 LVVEDDPLNRIIASKFLKKLGHKITLAENGLQAVNAVENN-KYDIILMDVNMPIMGGKEA 69

Query:    89 TREIRSM--GIKIK--IVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKI 134
             T+ IR M   ++IK  I+G+T++    ER+  ++AG+D    KP    ++
Sbjct:    70 TKIIREMQQSLRIKTPIIGLTTV----ERQECIEAGMDDHLFKPCKFQQL 115

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|O53894 mprA "Response regulator MprA" [Mycobacterium tuberculosis (taxid:1773)]

 Score = 169 (64.5 bits), Expect = 9.1e-13, P = 9.1e-13
 Identities = 40/115 (34%), Positives = 68/115 (59%)

Query:    29 LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
             LVVDDD  +R     +L   G+ VE+A +G EA+D+  S    D + +D  MP ++G+E 
Sbjct:     6 LVVDDDRAVRESLRRSLSFNGYSVELAHDGVEALDMIASDRP-DALVLDVMMPRLDGLEV 64

Query:    89 TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
              R++R  G  + I+ +T+ +S +ER A + AG D    KP +++++L  M  L++
Sbjct:    65 CRQLRGTGDDLPILVLTARDSVSERVAGLDAGADDYLPKPFALEELLARMRALLR 119

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

GO:0003677 "DNA binding" evidence=IDA

GO:0005618 "cell wall" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

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

GO:0006950 "response to stress" evidence=IEP

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IDA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IDA

GO:0090034 "regulation of chaperone-mediated protein complex assembly" evidence=IDA

ASPGD|ASPL0000013405 hk2 [Emericella nidulans (taxid:162425)]

 Score = 178 (67.7 bits), Expect = 1.3e-12, P = 1.3e-12
 Identities = 47/120 (39%), Positives = 74/120 (61%)

Query:    29 LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
             L V+D+   + +    L+  GF+V  A NG+EA+ L+ S  KFD + +D+EMPVM+G  A
Sbjct:   540 LFVEDNVINQKVVCRKLRVSGFEVTTANNGQEALGLWDSD-KFDCILMDQEMPVMDGNTA 598

Query:    89 TREIRSM----GIKIKIVGVTSLNSEAEREAFM-QAGLD-LCHTKPLSVDKILPLMEDLM 142
             TREIR+M    G  I I+GVT+ N   +++A M  AG+D + H KP  + ++   + D++
Sbjct:   599 TREIRAMEKEKGSHIPILGVTA-NVRQDQQADMLNAGMDGIIH-KPYKMHELCEKIHDML 656

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

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

GO:0016310 "phosphorylation" evidence=IEA

GO:0016020 "membrane" evidence=IEA

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

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

GO:0005524 "ATP binding" evidence=IEA

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

 Score = 173 (66.0 bits), Expect = 3.5e-12, P = 3.5e-12
 Identities = 41/132 (31%), Positives = 77/132 (58%)

Query:     8 SSSKKAKIMENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRS 67
             S+S   +I+   + KN  +  LVV+D    + +  + L  LG+ V +AENG +AV+L   
Sbjct:   441 STSSSQQIV---NVKNHHI--LVVEDTKTNQMVIQLLLNKLGYDVTIAENGLQAVELLEK 495

Query:    68 GAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTK 127
                FD+V +D  MP+M+GI AT+ +R   I+I I+ +T+  + ++++  + AG++    K
Sbjct:   496 NHVFDLVLMDISMPIMDGIAATKILRDKHIEIPIIALTAHTAGSDKQNCIDAGMNDIVLK 555

Query:   128 PLSVDKILPLME 139
             P+    I+ +++
Sbjct:   556 PIRSKDIMEVVK 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 = 173 (66.0 bits), Expect = 3.5e-12, P = 3.5e-12
 Identities = 41/132 (31%), Positives = 77/132 (58%)

Query:     8 SSSKKAKIMENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRS 67
             S+S   +I+   + KN  +  LVV+D    + +  + L  LG+ V +AENG +AV+L   
Sbjct:   441 STSSSQQIV---NVKNHHI--LVVEDTKTNQMVIQLLLNKLGYDVTIAENGLQAVELLEK 495

Query:    68 GAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTK 127
                FD+V +D  MP+M+GI AT+ +R   I+I I+ +T+  + ++++  + AG++    K
Sbjct:   496 NHVFDLVLMDISMPIMDGIAATKILRDKHIEIPIIALTAHTAGSDKQNCIDAGMNDIVLK 555

Query:   128 PLSVDKILPLME 139
             P+    I+ +++
Sbjct:   556 PIRSKDIMEVVK 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 = 167 (63.8 bits), Expect = 4.2e-12, P = 4.2e-12
 Identities = 42/102 (41%), Positives = 63/102 (61%)

Query:    29 LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
             L+VDD+  +RT+   +LKS G+ V +AENGKEA+++F  G  + IV  D  MP M+G+E 
Sbjct:    19 LIVDDNRLLRTMLETSLKSAGYDVVMAENGKEALEIFNKGY-YPIVMTDWVMPEMDGLEL 77

Query:    89 TREIRS--MGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKP 128
              R IR+   G    I+ +TS +S+ +  A ++AG D    KP
Sbjct:    78 CRAIRADCSGRYTYIILLTSQDSKNDVIAGLEAGADEYLVKP 119

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

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00026729001	SubName- Full=Chromosome chr4 scaffold_39, whole genome shotgun sequence; (140 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00023075001	SubName- Full=Chromosome chr8 scaffold_29, whole genome shotgun sequence; (185 aa)	•		•				•		0.615
	GSVIVG00030942001	SubName- Full=Chromosome undetermined scaffold_53, whole genome shotgun sequence; (146 aa)	•		•				•		0.600
	GSVIVG00030939001	SubName- Full=Chromosome undetermined scaffold_53, whole genome shotgun sequence; (140 aa)	•		•				•		0.599
	GSVIVG00031391001	SubName- Full=Chromosome chr11 scaffold_56, whole genome shotgun sequence; (257 aa)			•				•		0.583
	GSVIVG00030944001	SubName- Full=Chromosome undetermined scaffold_53, whole genome shotgun sequence; (197 aa)			•				•		0.573
	RRa1	SubName- Full=Chromosome chr1 scaffold_46, whole genome shotgun sequence; (221 aa)			•				•		0.541
	GSVIVG00028044001	SubName- Full=Chromosome chr7 scaffold_42, whole genome shotgun sequence; (636 aa)	•		•						0.512
	RRa2	SubName- Full=Chromosome chr17 scaffold_12, whole genome shotgun sequence; (258 aa)			•				•		0.511
	GSVIVG00000667001	SubName- Full=Chromosome chr8 scaffold_106, whole genome shotgun sequence; (218 aa)			•				•		0.507
	GSVIVG00030937001	SubName- Full=Chromosome undetermined scaffold_53, whole genome shotgun sequence; (220 aa)			•				•		0.436

---

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	1e-27
COG0784	130	COG0784, CheY, FOG: CheY-like receiver [Signal tra	2e-23
pfam00072	111	pfam00072, Response_reg, Response regulator receiv	2e-23
COG0745	229	COG0745, OmpR, Response regulators consisting of a	1e-16
PRK10841	924	PRK10841, PRK10841, hybrid sensory kinase in two-c	2e-16
PRK11107	919	PRK11107, PRK11107, hybrid sensory histidine kinas	1e-13
COG2204	464	COG2204, AtoC, Response regulator containing CheY-	2e-13
COG2197	211	COG2197, CitB, Response regulator containing a Che	4e-13
PRK13557	540	PRK13557, PRK13557, histidine kinase; Provisional	4e-13
PRK10816	223	PRK10816, PRK10816, DNA-binding transcriptional re	2e-12
PRK15347	921	PRK15347, PRK15347, two component system sensor ki	3e-12
PRK11361	457	PRK11361, PRK11361, acetoacetate metabolism regula	3e-12
PRK11091	779	PRK11091, PRK11091, aerobic respiration control se	8e-12
PRK09959	1197	PRK09959, PRK09959, hybrid sensory histidine kinas	1e-11
PRK10365	441	PRK10365, PRK10365, transcriptional regulatory pro	8e-11
TIGR02154	226	TIGR02154, PhoB, phosphate regulon transcriptional	2e-10
COG2201	350	COG2201, CheB, Chemotaxis response regulator conta	2e-10
PRK00742	354	PRK00742, PRK00742, chemotaxis-specific methyleste	4e-10
CHL00148	240	CHL00148, orf27, Ycf27; Reviewed	5e-10
PRK10610	129	PRK10610, PRK10610, chemotaxis regulatory protein	6e-10
smart00448	55	smart00448, REC, cheY-homologous receiver domain	1e-09
COG3706	435	COG3706, PleD, Response regulator containing a Che	2e-09
COG3437	360	COG3437, COG3437, Response regulator containing a	4e-09
COG4753	475	COG4753, COG4753, Response regulator containing Ch	7e-09
PRK09468	239	PRK09468, ompR, osmolarity response regulator; Pro	3e-08
PRK15115	444	PRK15115, PRK15115, response regulator GlrR; Provi	4e-08
TIGR01818	463	TIGR01818, ntrC, nitrogen regulation protein NR(I)	5e-08
PRK12555	337	PRK12555, PRK12555, chemotaxis-specific methyleste	1e-07
PRK09581	457	PRK09581, pleD, response regulator PleD; Reviewed	2e-07
COG3947	361	COG3947, COG3947, Response regulator containing Ch	4e-07
COG4565	224	COG4565, CitB, Response regulator of citrate/malat	2e-06
PRK10955	232	PRK10955, PRK10955, DNA-binding transcriptional re	3e-06
COG3279	244	COG3279, LytT, Response regulator of the LytR/AlgR	4e-06
PRK10336	219	PRK10336, PRK10336, DNA-binding transcriptional re	4e-06
PRK10766	221	PRK10766, PRK10766, DNA-binding transcriptional re	4e-06
PRK10693	303	PRK10693, PRK10693, response regulator of RpoS; Pr	5e-06
PRK11083	228	PRK11083, PRK11083, DNA-binding response regulator	7e-06
PRK09483	217	PRK09483, PRK09483, response regulator; Provisiona	2e-05
PRK09836	227	PRK09836, PRK09836, DNA-binding transcriptional ac	2e-05
PRK10923	469	PRK10923, glnG, nitrogen regulation protein NR(I);	3e-05
PRK11466	914	PRK11466, PRK11466, hybrid sensory histidine kinas	3e-05
PRK15479	221	PRK15479, PRK15479, transcriptional regulatory pro	5e-05
COG4567	182	COG4567, COG4567, Response regulator consisting of	9e-05
PRK10161	229	PRK10161, PRK10161, transcriptional regulator PhoB	1e-04
TIGR02956	968	TIGR02956, TMAO_torS, TMAO reductase sytem sensor	2e-04
PRK10529	225	PRK10529, PRK10529, DNA-binding transcriptional ac	3e-04
COG4566	202	COG4566, TtrR, Response regulator [Signal transduc	5e-04
PRK10643	222	PRK10643, PRK10643, DNA-binding transcriptional re	5e-04
PRK10651	216	PRK10651, PRK10651, transcriptional regulator NarL	0.002
TIGR01387	218	TIGR01387, cztR_silR_copR, heavy metal response re	0.003
PRK09390	202	PRK09390, fixJ, response regulator FixJ; Provision	0.004

>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 = 98.4 bits (246), Expect = 1e-27
 Identities = 40/114 (35%), Positives = 65/114 (57%), Gaps = 1/114 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDDD  IR +    L+  G++V  AE+G+EA+ L     K D++ +D  MP M+G+E 
Sbjct: 1   LIVDDDPLIRELLRRLLEKEGYEVVEAEDGEEALALLAEE-KPDLILLDIMMPGMDGLEL 59

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM 142
            R IR  G  I I+ +T+   + +    ++AG D   TKP S +++L  +  L+
Sbjct: 60  LRRIRKRGPDIPIIFLTAHGDDEDAVEALKAGADDYLTKPFSPEELLARIRALL 113

Length = 113

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

 Score = 88.4 bits (219), Expect = 2e-23
 Identities = 40/108 (37%), Positives = 66/108 (61%), Gaps = 1/108 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGK-EAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD+   R +    L+ LG++V  A +G+ EA++L R   + D++ +D  MP M+GIE
Sbjct: 9   LVVDDEPVNRRLLKRLLEDLGYEVVEAADGEEEALELLRELPQPDLILLDINMPGMDGIE 68

Query: 88  ATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
             R +R+ G  I ++ +T+   EA+RE  + AG D   TKP+ +++ L
Sbjct: 69  LLRRLRARGPNIPVILLTAYADEADRERALAAGADDYLTKPIFLEEEL 116

Length = 130

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

 Score = 87.6 bits (218), Expect = 2e-23
 Identities = 31/107 (28%), Positives = 60/107 (56%), Gaps = 1/107 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDDD  IR +    L+  G+ V  A++G+EA++L +   + D++ +D  MP M+G+E 
Sbjct: 2   LIVDDDPLIRELLRQLLEKEGYVVAEADDGEEALELLKEK-RPDLILLDIRMPGMDGLEL 60

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
            R IR       ++ +T+   E +    ++AG +   +KP   ++++
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|223816 COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]

 Score = 73.1 bits (180), Expect = 1e-16
 Identities = 34/108 (31%), Positives = 64/108 (59%), Gaps = 3/108 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V+DD  +  +    L+  G++V+VA +G+EA++  R   + D+V +D  +P ++G+E 
Sbjct: 4   LLVEDDPELAELLKEYLEEEGYEVDVAADGEEALEAARE--QPDLVLLDLMLPDLDGLEL 61

Query: 89  TREIRS-MGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
            R +R+  G    I+ +T+ + E +R   ++AG D   TKP S  ++L
Sbjct: 62  CRRLRAKKGSGPPIIVLTARDDEEDRVLGLEAGADDYLTKPFSPRELL 109

Length = 229

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

 Score = 74.6 bits (184), Expect = 2e-16
 Identities = 37/105 (35%), Positives = 66/105 (62%), Gaps = 3/105 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDD    R + +  L SLG++ + A +G +A+++       DIV  D  MP M+G   
Sbjct: 805 LVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNH-IDIVLTDVNMPNMDGYRL 863

Query: 89  TREIRSMGIKIKIVGVTSLNSEAE-REAFMQAGLDLCHTKPLSVD 132
           T+ +R +G+ + ++GVT+ N+ AE ++  ++AG+D C +KP+++D
Sbjct: 864 TQRLRQLGLTLPVIGVTA-NALAEEKQRCLEAGMDSCLSKPVTLD 907

Length = 924

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

 Score = 66.4 bits (163), Expect = 1e-13
 Identities = 26/79 (32%), Positives = 41/79 (51%), Gaps = 3/79 (3%)

Query: 52  VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIR--SMGIKIKIVGVTSLNS 109
           V + ++G +AV+  +    FD++ +D +MP M+GI A   IR         I+ VT+   
Sbjct: 694 VVLCDSGHQAVEQAKQ-RPFDLILMDIQMPGMDGIRACELIRQLPHNQNTPIIAVTAHAM 752

Query: 110 EAEREAFMQAGLDLCHTKP 128
             ERE  + AG+D    KP
Sbjct: 753 AGERERLLSAGMDDYLAKP 771

Length = 919

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

 Score = 65.8 bits (161), Expect = 2e-13
 Identities = 35/108 (32%), Positives = 58/108 (53%), Gaps = 3/108 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDDD  IR +   AL+  G++V  AE+ +EA++       FD+V +D  MP M+G+E 
Sbjct: 8   LVVDDDPDIRELLEQALELAGYEVVTAESAEEALEALSES-PFDLVLLDIRMPGMDGLEL 66

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAG-LDLCHTKPLSVDKIL 135
            +EI+S    + ++ +T           ++ G  D    KP  +D++L
Sbjct: 67  LKEIKSRDPDLPVIVMTGHGDIDTAVEALRLGAFDF-LEKPFDLDRLL 113

Length = 464

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

 Score = 63.5 bits (155), Expect = 4e-13
 Identities = 36/109 (33%), Positives = 61/109 (55%), Gaps = 3/109 (2%)

Query: 29  LVVDDDCFIRT-IHSMALKSLGFKV-EVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGI 86
           L+VDD   +R  +  +       +V   A NG+EA+DL R   K D+V +D  MP M+G+
Sbjct: 4   LIVDDHPLVREGLRQLLELEPDLEVVGEASNGEEALDLARE-LKPDVVLLDLSMPGMDGL 62

Query: 87  EATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
           EA +++R+ G  IK+V +T+ +  A     ++AG D    K  S ++++
Sbjct: 63  EALKQLRARGPDIKVVVLTAHDDPAYVIRALRAGADGYLLKDASPEELV 111

Length = 211

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

 Score = 64.7 bits (158), Expect = 4e-13
 Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 1/74 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMP-VMNGIE 87
           L+VDD   +  +  M L+  G++  VA NG+EA+++  S  + D++F D  MP  MNG+ 
Sbjct: 419 LIVDDRPDVAELARMILEDFGYRTLVASNGREALEILDSHPEVDLLFTDLIMPGGMNGVM 478

Query: 88  ATREIRSMGIKIKI 101
             RE R    KIK+
Sbjct: 479 LAREARRRQPKIKV 492

Length = 540

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

 Score = 61.7 bits (150), Expect = 2e-12
 Identities = 35/117 (29%), Positives = 64/117 (54%), Gaps = 1/117 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVV+D+  +R    + L+  G +V+ AE+ KEA D + +    DI  +D  +P  +G+  
Sbjct: 4   LVVEDNALLRHHLKVQLQDAGHQVDAAEDAKEA-DYYLNEHLPDIAIVDLGLPDEDGLSL 62

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN 145
            R  RS  + + I+ +T+  S  ++   + AG D   TKP  +++++  M+ LM+ N
Sbjct: 63  IRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRRN 119

Length = 223

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

 Score = 62.4 bits (152), Expect = 3e-12
 Identities = 37/110 (33%), Positives = 60/110 (54%), Gaps = 5/110 (4%)

Query: 25  RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMN 84
           +L  L+VDD    R I  M L  LG +V  A +G EA++L R   +FD+V +D  MP ++
Sbjct: 690 QLQILLVDDVETNRDIIGMMLVELGQQVTTAASGTEALELGR-QHRFDLVLMDIRMPGLD 748

Query: 85  GIEATREIR----SMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
           G+E T+  R    ++     IV +T+  +  E     +AG++   TKP++
Sbjct: 749 GLETTQLWRDDPNNLDPDCMIVALTANAAPEEIHRCKKAGMNHYLTKPVT 798

Length = 921

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

 Score = 62.2 bits (151), Expect = 3e-12
 Identities = 32/91 (35%), Positives = 52/91 (57%), Gaps = 4/91 (4%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDD+  +R + S A    GF+   A NG+ A+ LF      D+V +D  MP M+GI+A
Sbjct: 8   LIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFAD-IHPDVVLMDIRMPEMDGIKA 66

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQA 119
            +E+RS   +  ++ +T+    AE E  ++A
Sbjct: 67  LKEMRSHETRTPVILMTAY---AEVETAVEA 94

Length = 457

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

 Score = 61.1 bits (149), Expect = 8e-12
 Identities = 31/100 (31%), Positives = 59/100 (59%), Gaps = 5/100 (5%)

Query: 45  LKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIK---I 101
           L+ LG  V+VA  GKEA+++F     +D+V +D ++P M G++  RE+R    +     +
Sbjct: 545 LEKLGNSVDVAMTGKEALEMFDPDE-YDLVLLDIQLPDMTGLDIARELRERYPREDLPPL 603

Query: 102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL 141
           V +T+ N   +++ ++ AG+D   +KPLSV  +  +++  
Sbjct: 604 VALTA-NVLKDKKEYLDAGMDDVLSKPLSVPALTAMIKKF 642

Length = 779

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

 Score = 60.9 bits (147), Expect = 1e-11
 Identities = 38/116 (32%), Positives = 60/116 (51%), Gaps = 1/116 (0%)

Query: 17   ENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFI 76
            E P     +L  L+ DD    R +    L  LG+ V+ A +G +A+    S   +D++  
Sbjct: 950  EQPITLPEKLSILIADDHPTNRLLLKRQLNLLGYDVDEATDGVQALHKV-SMQHYDLLIT 1008

Query: 77   DKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVD 132
            D  MP M+G E TR++R     + I G+T+     ERE  +  G++LC  KPL++D
Sbjct: 1009 DVNMPNMDGFELTRKLREQNSSLPIWGLTANAQANEREKGLSCGMNLCLFKPLTLD 1064

Length = 1197

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

 Score = 58.1 bits (140), Expect = 8e-11
 Identities = 38/112 (33%), Positives = 59/112 (52%), Gaps = 3/112 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDDD    TI    L+  G+ V +A +G++A++  R    FD+V  D  M  M+GI  
Sbjct: 9   LVVDDDISHCTILQALLRGWGYNVALANSGRQALEQVR-EQVFDLVLCDVRMAEMDGIAT 67

Query: 89  TREIRSMGIKIKIVGVTSLNS-EAEREAFMQAGLDLCHTKPLSVDKILPLME 139
            +EI+++   I ++ +T+ +S E   EA     LD    KPL  D +   +E
Sbjct: 68  LKEIKALNPAIPVLIMTAYSSVETAVEALKTGALDYL-IKPLDFDNLQATLE 118

Length = 441

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

 Score = 56.6 bits (137), Expect = 2e-10
 Identities = 34/109 (31%), Positives = 56/109 (51%), Gaps = 3/109 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVV+D+  IR + +  L+  G+ V  A +G EA+ L       D++ +D  +P  +GIE 
Sbjct: 6   LVVEDEPAIRELIAYNLEKAGYDVVEAGDGDEALTLINE-RGPDLILLDWMLPGTSGIEL 64

Query: 89  TREIRS--MGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
            R +R       I I+ +T+   E +R   ++ G D   TKP S  ++L
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|225111 COG2201, CheB, Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]

 Score = 56.5 bits (137), Expect = 2e-10
 Identities = 34/90 (37%), Positives = 50/90 (55%), Gaps = 6/90 (6%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEV---AENGKEAVDLFRSGAKFDIVFIDKEMPVMNG 85
           LVVDD   +R + S  L S    +EV   A NG+EA+D  +   K D++ +D EMPVM+G
Sbjct: 5   LVVDDSALMRKVISDILNSDP-DIEVVGTARNGREAIDKVK-KLKPDVITLDVEMPVMDG 62

Query: 86  IEATREIRSMGIKIKIVGVTSLNSEAEREA 115
           +EA R+I      + ++ V+SL  E     
Sbjct: 63  LEALRKIMR-LRPLPVIMVSSLTEEGAEAT 91

Length = 350

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

 Score = 55.9 bits (136), Expect = 4e-10
 Identities = 38/108 (35%), Positives = 59/108 (54%), Gaps = 14/108 (12%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEV---AENGKEAVDLFRSGAKFDIVFIDKEMPVMNG 85
           LVVDD  F+R + S  L S    +EV   A +G EA +  +     D++ +D EMPVM+G
Sbjct: 7   LVVDDSAFMRRLISEILNSDP-DIEVVGTAPDGLEAREKIKK-LNPDVITLDVEMPVMDG 64

Query: 86  IEATREIRSMGIK-IKIVGVTSL---NSEAEREAFMQAG-LDLCHTKP 128
           ++A  +I  M ++   +V V+SL    +E    A ++ G +D   TKP
Sbjct: 65  LDALEKI--MRLRPTPVVMVSSLTERGAEITLRA-LELGAVD-FVTKP 108

Length = 354

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

 Score = 55.1 bits (133), Expect = 5e-10
 Identities = 40/120 (33%), Positives = 63/120 (52%), Gaps = 7/120 (5%)

Query: 15  IMENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIV 74
            MEN   K      LVVDD+ +IR I    L  +G++V  A +G+EA+ LFR     D+V
Sbjct: 1   TMENSKEK-----ILVVDDEAYIRKILETRLSIIGYEVITASDGEEALKLFRKEQP-DLV 54

Query: 75  FIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKI 134
            +D  MP ++G    +EIR     + I+ +T+L   ++R   ++ G D    KP S  ++
Sbjct: 55  ILDVMMPKLDGYGVCQEIRKES-DVPIIMLTALGDVSDRITGLELGADDYVVKPFSPKEL 113

Length = 240

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

 Score = 53.4 bits (128), Expect = 6e-10
 Identities = 42/113 (37%), Positives = 60/113 (53%), Gaps = 8/113 (7%)

Query: 22  KNLRLFALVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGAKFDIVFIDKEM 80
           K L+   LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  F  V  D  M
Sbjct: 4   KELKF--LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-FGFVISDWNM 60

Query: 81  PVMNGIEATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
           P M+G+E  + IR+ G    +  V  + +EA++E   A  QAG      KP +
Sbjct: 61  PNMDGLELLKTIRADGAMSAL-PVLMVTAEAKKENIIAAAQAGASGYVVKPFT 112

Length = 129

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

 Score = 50.6 bits (122), Expect = 1e-09
 Identities = 20/53 (37%), Positives = 34/53 (64%), Gaps = 1/53 (1%)

Query: 29 LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMP 81
          LVVDDD  +R +    L+  G++V+ A +G+EA++L +   K D++ +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|226229 COG3706, PleD, Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]

 Score = 54.3 bits (131), Expect = 2e-09
 Identities = 31/103 (30%), Positives = 52/103 (50%), Gaps = 3/103 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDDD   R      L+  GF+V  A +G+EA+    +    D+V +D  MP M+G+E 
Sbjct: 136 LVVDDDATQRERLRRILQVEGFRVVEATDGEEALLQL-AELPPDLVLLDANMPDMDGLEL 194

Query: 89  TREIRSM--GIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPL 129
              +R +     I I+ ++S + +       + G++   TKP+
Sbjct: 195 CTRLRQLERTRDIPIILLSSKDDDELVVRAFELGVNDYITKPI 237

Length = 435

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

 Score = 53.1 bits (128), Expect = 4e-09
 Identities = 34/121 (28%), Positives = 66/121 (54%), Gaps = 4/121 (3%)

Query: 13  AKIMENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFD 72
            + M+  +  + +L  L+VDD+          L+ +G++V  AENG+EA+ L +     D
Sbjct: 2   RQSMQGKNEPDEKLTVLLVDDEPDNLEALRQLLRMIGYRVIEAENGEEALKLLQE-EPPD 60

Query: 73  IVFIDKEMPVMNGIEATREIRSM---GIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPL 129
           +V +D  MP M+G E   ++++M     +I ++ +T+     +R+  ++AG D   +KP+
Sbjct: 61  LVLLDVRMPEMDGAEVLNKLKAMSPSTRRIPVILLTAYADSEDRQRALEAGADDYLSKPI 120

Query: 130 S 130
           S
Sbjct: 121 S 121

Length = 360

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

 Score = 52.7 bits (127), Expect = 7e-09
 Identities = 31/115 (26%), Positives = 60/115 (52%), Gaps = 6/115 (5%)

Query: 29  LVVDDDCFIRT--IHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNG 85
           L+VDD+  IR      +  ++LG + V  A NGKEA++L +   + DIV  D  MP M+G
Sbjct: 5   LIVDDEPLIREGLKSLIDWEALGIEVVGTAANGKEALELIQE-TQPDIVITDINMPGMDG 63

Query: 86  IEATREIRSMGIKIKIVGVTSLNS-EAEREAFMQAGLDLCHTKPLSVDKILPLME 139
           ++  + I+      + + ++  +  E  ++A M+ G+     KP+   ++   ++
Sbjct: 64  LDLIKAIKEQSPDTEFIILSGYDEFEYAKKA-MKLGVKDYLLKPVDKAELEEALK 117

Length = 475

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

 Score = 50.4 bits (121), Expect = 3e-08
 Identities = 28/94 (29%), Positives = 46/94 (48%), Gaps = 1/94 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDDD  +R +    L   GF+V  A N  E +D   +   F ++ +D  +P  +G+  
Sbjct: 9   LVVDDDMRLRALLERYLTEQGFQVRSAANA-EQMDRLLTRESFHLMVLDLMLPGEDGLSI 67

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLD 122
            R +RS      I+ +T+   E +R   ++ G D
Sbjct: 68  CRRLRSQNNPTPIIMLTAKGEEVDRIVGLEIGAD 101

Length = 239

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

 Score = 50.6 bits (121), Expect = 4e-08
 Identities = 34/115 (29%), Positives = 61/115 (53%), Gaps = 1/115 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDDD  +  +  M L S G+ V  AE+G+EA+ +     K D+V  D  M  M+G++ 
Sbjct: 9   LLVDDDPGLLKLLGMRLTSEGYSVVTAESGQEALRVLNR-EKVDLVISDLRMDEMDGMQL 67

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
             EI+ +   + ++ +T+  S  +  A  Q G+    TKP+  D +   ++D ++
Sbjct: 68  FAEIQKVQPGMPVIILTAHGSIPDAVAATQQGVFSFLTKPVDRDALYKAIDDALE 122

Length = 444

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

 Score = 50.1 bits (120), Expect = 5e-08
 Identities = 28/111 (25%), Positives = 50/111 (45%), Gaps = 1/111 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
            VVDDD  IR +   AL   G++V    N    +     G   D++  D  MP  +G++ 
Sbjct: 2   WVVDDDRSIRWVLEKALSRAGYEVRTFGNAASVLRALARGQP-DLLITDVRMPGEDGLDL 60

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLME 139
             +I+    ++ ++ +T+ +      A  Q G      KP  +D+ + L+E
Sbjct: 61  LPQIKKRHPQLPVIVMTAHSDLDTAVAAYQRGAFEYLPKPFDLDEAVTLVE 111

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|237135 PRK12555, PRK12555, chemotaxis-specific methylesterase; Provisional

 Score = 48.7 bits (117), Expect = 1e-07
 Identities = 32/78 (41%), Positives = 44/78 (56%), Gaps = 9/78 (11%)

Query: 54  VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIK-IKIVGVTSL---NS 109
           VA +G +AV+   +    D++ +D EMP M+G+EATR I  M  +   I+ VTSL   N+
Sbjct: 31  VATDGAQAVERCAAQPP-DVILMDLEMPRMDGVEATRRI--MAERPCPILIVTSLTERNA 87

Query: 110 EAEREAFMQAG-LDLCHT 126
               EA M AG LD   T
Sbjct: 88  SRVFEA-MGAGALDAVDT 104

Length = 337

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

 Score = 48.4 bits (116), Expect = 2e-07
 Identities = 27/83 (32%), Positives = 45/83 (54%), Gaps = 3/83 (3%)

Query: 50  FKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRS--MGIKIKIVGVTSL 107
           + V  A +G EA+ +     + DI+ +D  MP M+G E  R ++S      I +V VT+L
Sbjct: 27  YTVLTASSGAEAIAICER-EQPDIILLDVMMPGMDGFEVCRRLKSDPATTHIPVVMVTAL 85

Query: 108 NSEAEREAFMQAGLDLCHTKPLS 130
           +   +R   ++AG D   TKP++
Sbjct: 86  DDPEDRVRGLEAGADDFLTKPIN 108

Length = 457

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

 Score = 47.5 bits (113), Expect = 4e-07
 Identities = 34/118 (28%), Positives = 62/118 (52%), Gaps = 3/118 (2%)

Query: 28  ALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
            ++VDDD  I  + S+ L   G +V    +  EA+DL     K D++F+D  MP MNGIE
Sbjct: 3   IIIVDDDAAIVKLLSVILSRAGHEVRSCSHPVEALDLLEV-FKPDLIFLDIVMPYMNGIE 61

Query: 88  ATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN 145
              ++R +   + I+ ++S ++E   ++F     D    KP++ +K+   ++  +K  
Sbjct: 62  FAEQVRDIESAVPIIFISS-HAEYADDSFGMNLDDYL-PKPVTPEKLNRAIDRRLKRV 117

Length = 361

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

 Score = 45.3 bits (108), Expect = 2e-06
 Identities = 29/96 (30%), Positives = 49/96 (51%), Gaps = 7/96 (7%)

Query: 29  LVVDDDCFIRTIHSMALKSL-GFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGI 86
           L+++DD  +  IH   +K + GF  V  A   +EA  +       D++ +D  MP  NGI
Sbjct: 4   LIIEDDPMVAEIHRRYVKQIPGFSVVGTAGTLEEAKMIIEEFKP-DLILLDIYMPDGNGI 62

Query: 87  EATREIRSMGIKIKIVGVTSLNSEAE--REAFMQAG 120
           E   E+RS    + ++ V +  S+ E  +EA ++ G
Sbjct: 63  ELLPELRSQHYPVDVI-VITAASDMETIKEA-LRYG 96

Length = 224

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

 Score = 44.8 bits (106), Expect = 3e-06
 Identities = 32/102 (31%), Positives = 56/102 (54%), Gaps = 3/102 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDDD  + ++    L+  GF V VA +G++A+DL       D++ +D  MP  NGI+ 
Sbjct: 5   LLVDDDRELTSLLKELLEMEGFNVIVAHDGEQALDLLDD--SIDLLLLDVMMPKKNGIDT 62

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
            +E+R    +  ++ +T+  SE +R   ++ G D    KP +
Sbjct: 63  LKELRQTH-QTPVIMLTARGSELDRVLGLELGADDYLPKPFN 103

Length = 232

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

 Score = 44.3 bits (105), Expect = 4e-06
 Identities = 37/109 (33%), Positives = 54/109 (49%), Gaps = 5/109 (4%)

Query: 28  ALVVDDDCFIRT--IHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNG 85
            L+VDD+   R      +        V  AENG+EA+ L +   + D+VF+D  MP +NG
Sbjct: 4   VLIVDDEPLAREELRRILNEIPDIEIVGEAENGEEALQLLQGL-RPDLVFLDIAMPDING 62

Query: 86  IEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKI 134
           IE    IR    +  IV VT+ + E    AF    LD    KP+S +++
Sbjct: 63  IELAARIRKGDPRPAIVFVTA-HDEYAVAAFEVEALDYL-LKPISEERL 109

Length = 244

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

 Score = 44.1 bits (104), Expect = 4e-06
 Identities = 32/115 (27%), Positives = 60/115 (52%), Gaps = 1/115 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+++DD  I       L  +GF V+    G++  +   S A +D V +D  +P M+G + 
Sbjct: 4   LLIEDDMLIGDGIKTGLSKMGFSVDWFTQGRQGKEALYS-APYDAVILDLTLPGMDGRDI 62

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
            RE R  G +  ++ +T+ ++ AER   ++ G D    KP ++ ++   +E LM+
Sbjct: 63  LREWREKGQREPVLILTARDALAERVEGLRLGADDYLCKPFALIEVAARLEALMR 117

Length = 219

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

 Score = 44.3 bits (105), Expect = 4e-06
 Identities = 29/107 (27%), Positives = 51/107 (47%), Gaps = 2/107 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVV+D+   R       +  G+ V  A +G    ++       D++ +D  +P  +G+  
Sbjct: 6   LVVEDEPVTRARLQGYFEQEGYTVSEAASGAGMREIM-QNQHVDLILLDINLPGEDGLML 64

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
           TRE+RS    + I+ VT      +R   ++ G D   TKPL + ++L
Sbjct: 65  TRELRSRS-TVGIILVTGRTDSIDRIVGLEMGADDYVTKPLELRELL 110

Length = 221

>gnl|CDD|182652 PRK10693, PRK10693, response regulator of RpoS; Provisional

 Score = 44.2 bits (105), Expect = 5e-06
 Identities = 17/59 (28%), Positives = 33/59 (55%), Gaps = 1/59 (1%)

Query: 54  VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAE 112
           +A NG +A++L       D++  D  MP MNGIE    +R+ G +  ++ +++  + A+
Sbjct: 2   LAANGVDALELLGG-FTPDLIICDLAMPRMNGIEFVEHLRNRGDQTPVLVISATENMAD 59

Length = 303

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

 Score = 43.4 bits (103), Expect = 7e-06
 Identities = 31/102 (30%), Positives = 53/102 (51%), Gaps = 1/102 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V+D+  I      AL+S GF VE  E G  A+D  R     D+V +D  +P ++G E 
Sbjct: 7   LLVEDEQAIADTLVYALQSEGFTVEWFERGLPALDKLRQQP-PDLVILDVGLPDISGFEL 65

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
            R++ +    + ++ +T+ + E +R   ++ G D    KP S
Sbjct: 66  CRQLLAFHPALPVIFLTARSDEVDRLVGLEIGADDYVAKPFS 107

Length = 228

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

 Score = 42.0 bits (99), Expect = 2e-05
 Identities = 32/94 (34%), Positives = 46/94 (48%), Gaps = 3/94 (3%)

Query: 29  LVVDDDCFIRT-IHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGI 86
           L+VDD   +R  I  +     G KV   A  G++AV   R+    D+V +D  MP + G+
Sbjct: 5   LLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWCRTN-AVDVVLMDMNMPGIGGL 63

Query: 87  EATREIRSMGIKIKIVGVTSLNSEAEREAFMQAG 120
           EATR+I      +KI+ +T           MQAG
Sbjct: 64  EATRKILRYTPDVKIIMLTVHTENPLPAKVMQAG 97

Length = 217

>gnl|CDD|182102 PRK09836, PRK09836, DNA-binding transcriptional activator CusR; Provisional

 Score = 42.2 bits (99), Expect = 2e-05
 Identities = 29/115 (25%), Positives = 58/115 (50%), Gaps = 1/115 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V+D+       +  L   GF V++A+NG     L  +   +D++ +D  +P +NG + 
Sbjct: 4   LIVEDEKKTGEYLTKGLTEAGFVVDLADNGLNGYHLAMT-GDYDLIILDIMLPDVNGWDI 62

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
            R +RS    + I+ +T+L +   R   ++ G D    KP +  ++L  +  L++
Sbjct: 63  VRMLRSANKGMPILLLTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLR 117

Length = 227

>gnl|CDD|182842 PRK10923, glnG, nitrogen regulation protein NR(I); Provisional

 Score = 42.2 bits (99), Expect = 3e-05
 Identities = 32/111 (28%), Positives = 54/111 (48%), Gaps = 3/111 (2%)

Query: 30  VVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEAT 89
           VVDDD  IR +   AL   G      ENG E ++   S    D++  D  MP M+G+   
Sbjct: 8   VVDDDSSIRWVLERALAGAGLTCTTFENGNEVLEALASKTP-DVLLSDIRMPGMDGLALL 66

Query: 90  REIRSMGIKIKIVGVTSLNS-EAEREAFMQAGLDLCHTKPLSVDKILPLME 139
           ++I+     + ++ +T+ +  +A   A+ Q   D    KP  +D+ + L+E
Sbjct: 67  KQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYL-PKPFDIDEAVALVE 116

Length = 469

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

 Score = 42.2 bits (99), Expect = 3e-05
 Identities = 18/83 (21%), Positives = 42/83 (50%), Gaps = 2/83 (2%)

Query: 24  LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVM 83
           LRL  L+++D+   + I +  L + G +V    N  +A++  ++   F    +D ++P  
Sbjct: 682 LRL--LLIEDNPLTQRITAEMLNTSGAQVVAVGNAAQALETLQNSEPFAAALVDFDLPDY 739

Query: 84  NGIEATREIRSMGIKIKIVGVTS 106
           +GI   R++      + ++G ++
Sbjct: 740 DGITLARQLAQQYPSLVLIGFSA 762

Length = 914

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

 Score = 41.2 bits (97), Expect = 5e-05
 Identities = 24/91 (26%), Positives = 47/91 (51%), Gaps = 1/91 (1%)

Query: 44  ALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG 103
           AL   GF V+   +G  A  L +S   + +  +D  MP M+G+E  + +R  G  + ++ 
Sbjct: 19  ALVQNGFAVDCVFDGLAADHLLQS-EMYALAVLDINMPGMDGLEVLQRLRKRGQTLPVLL 77

Query: 104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKI 134
           +T+ ++ A+R   +  G D    KP  ++++
Sbjct: 78  LTARSAVADRVKGLNVGADDYLPKPFELEEL 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 = 40.1 bits (94), Expect = 9e-05
 Identities = 31/111 (27%), Positives = 52/111 (46%), Gaps = 2/111 (1%)

Query: 25  RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMN 84
           +   LV DD  F+RT+ + A++  GF V  AE+ +EA+   R+ A      +D ++   +
Sbjct: 10  KSLLLVDDDTPFLRTL-ARAMERRGFAVVTAESVEEALAAART-APPAYAVVDLKLGDGS 67

Query: 85  GIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
           G+     +R     ++IV +T   S A     ++ G      KP   D IL
Sbjct: 68  GLAVIEALRERRADMRIVVLTGYASIATAVEAVKLGACDYLAKPADADDIL 118

Length = 182

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

 Score = 39.7 bits (92), Expect = 1e-04
 Identities = 32/117 (27%), Positives = 61/117 (52%), Gaps = 3/117 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVV+D+  IR +    L+  GF+   AE+   AV+        D++ +D  +P  +GI+ 
Sbjct: 6   LVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWP-DLILLDWMLPGGSGIQF 64

Query: 89  TREIR--SMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
            + ++  SM   I +V +T+   E +R   ++ G D   TKP S  +++  ++ +M+
Sbjct: 65  IKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMR 121

Length = 229

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

 Score = 40.1 bits (94), Expect = 2e-04
 Identities = 26/118 (22%), Positives = 62/118 (52%), Gaps = 4/118 (3%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V+D+   + +    L  LG KV +AE+G+ A++ F   A FD+  +D  +P  +G+  
Sbjct: 706 LLVEDNEVNQMVAQGFLTRLGHKVTLAESGQSALECFHQHA-FDLALLDINLPDGDGVTL 764

Query: 89  TREIRSM---GIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
            +++R++     ++K +  ++     +   ++ AG D    KP+  +++  ++  ++ 
Sbjct: 765 LQQLRAIYGAKNEVKFIAFSAHVFNEDVAQYLAAGFDGFLAKPVVEEQLTAMIAVILA 822

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

 Score = 38.6 bits (90), Expect = 3e-04
 Identities = 29/108 (26%), Positives = 57/108 (52%), Gaps = 4/108 (3%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGA-KFDIVFIDKEMPVMNGIE 87
           L+V+D+  IR     AL+  G +V  AE  +    L  +   K D++ +D  +P  +GIE
Sbjct: 5   LIVEDEQAIRRFLRTALEGDGMRVFEAETLQRG--LLEAATRKPDLIILDLGLPDGDGIE 62

Query: 88  ATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
             R++R     I ++ +++ + E+++ A + AG D   +KP  + ++ 
Sbjct: 63  FIRDLRQWS-AIPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQ 109

Length = 225

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

 Score = 38.4 bits (90), Expect = 5e-04
 Identities = 24/79 (30%), Positives = 42/79 (53%), Gaps = 7/79 (8%)

Query: 30  VVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVD---LFRSGAKFDIVFIDKEMPVMNGI 86
           VVDDD  +R   +  L+S GF+V+   + +E +    L R G     + +D  MP M+G+
Sbjct: 9   VVDDDESVRDALAFLLESAGFQVKCFASAEEFLAAAPLDRPG----CLLLDVRMPGMSGL 64

Query: 87  EATREIRSMGIKIKIVGVT 105
           E    +   GI++ ++ +T
Sbjct: 65  ELQDRLAERGIRLPVIFLT 83

Length = 202

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

 Score = 38.1 bits (89), Expect = 5e-04
 Identities = 26/107 (24%), Positives = 55/107 (51%), Gaps = 1/107 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V+DD  +     +AL++ G+  + A   +EA  L  SG  + +V +D  +P  +G+  
Sbjct: 4   LIVEDDTLLLQGLILALQTEGYACDCASTAREAEALLESG-HYSLVVLDLGLPDEDGLHL 62

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
            R  R     + ++ +T+ ++  +R A +  G D    KP +++++ 
Sbjct: 63  LRRWRQKKYTLPVLILTARDTLEDRVAGLDVGADDYLVKPFALEELH 109

Length = 222

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

 Score = 36.5 bits (85), Expect = 0.002
 Identities = 20/68 (29%), Positives = 36/68 (52%), Gaps = 1/68 (1%)

Query: 55  AENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAERE 114
           A NG++ ++L  S    D++ +D  MP MNG+E   ++R   +  +IV  +  N E +  
Sbjct: 38  ASNGEQGIELAES-LDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVV 96

Query: 115 AFMQAGLD 122
             ++ G D
Sbjct: 97  TALKRGAD 104

Length = 216

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

 Score = 36.3 bits (84), Expect = 0.003
 Identities = 27/107 (25%), Positives = 54/107 (50%), Gaps = 1/107 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVV+D+          L   G+ V+ A NG++ + L      +D++ +D  +P M+G + 
Sbjct: 2   LVVEDEQKTAEYLQQGLSESGYVVDAASNGRDGLHLALKDD-YDLIILDVMLPGMDGWQI 60

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
            + +R  G +  ++ +T+ +S A++   +  G D    KP S  ++L
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|181815 PRK09390, fixJ, response regulator FixJ; Provisional

 Score = 35.4 bits (82), Expect = 0.004
 Identities = 25/76 (32%), Positives = 42/76 (55%), Gaps = 1/76 (1%)

Query: 30  VVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEAT 89
           VVDDD  +R   +  L S GF+V + E+ +  +D    G +F  V  D  MP ++GIE  
Sbjct: 8   VVDDDEAMRDSLAFLLDSAGFEVRLFESAQAFLD-ALPGLRFGCVVTDVRMPGIDGIELL 66

Query: 90  REIRSMGIKIKIVGVT 105
           R +++ G  + ++ +T
Sbjct: 67  RRLKARGSPLPVIVMT 82

Length = 202

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	99.95
PF00072	112	Response_reg: Response regulator receiver domain;	99.91
COG2204	464	AtoC Response regulator containing CheY-like recei	99.9
COG4753	475	Response regulator containing CheY-like receiver d	99.89
COG4565	224	CitB Response regulator of citrate/malate metaboli	99.88
COG4566	202	TtrR Response regulator [Signal transduction mecha	99.88
COG2197	211	CitB Response regulator containing a CheY-like rec	99.87
PRK10046	225	dpiA two-component response regulator DpiA; Provis	99.84
PRK10816	223	DNA-binding transcriptional regulator PhoP; Provis	99.84
COG3437	360	Response regulator containing a CheY-like receiver	99.84
PRK09836	227	DNA-binding transcriptional activator CusR; Provis	99.83
PRK10161	229	transcriptional regulator PhoB; Provisional	99.82
PRK10529	225	DNA-binding transcriptional activator KdpE; Provis	99.82
PRK10766	221	DNA-binding transcriptional regulator TorR; Provis	99.82
PRK09468	239	ompR osmolarity response regulator; Provisional	99.82
PRK10643	222	DNA-binding transcriptional regulator BasR; Provis	99.82
PRK10336	219	DNA-binding transcriptional regulator QseB; Provis	99.82
PRK11173	237	two-component response regulator; Provisional	99.82
COG0784	130	CheY FOG: CheY-like receiver [Signal transduction	99.82
PRK10840	216	transcriptional regulator RcsB; Provisional	99.81
TIGR03787	227	marine_sort_RR proteobacterial dedicated sortase s	99.81
PRK11083	228	DNA-binding response regulator CreB; Provisional	99.81
COG4567	182	Response regulator consisting of a CheY-like recei	99.81
TIGR02154	226	PhoB phosphate regulon transcriptional regulatory	99.81
COG3706	435	PleD Response regulator containing a CheY-like rec	99.8
PRK10955	232	DNA-binding transcriptional regulator CpxR; Provis	99.8
PRK09958	204	DNA-binding transcriptional activator EvgA; Provis	99.8
PRK13856	241	two-component response regulator VirG; Provisional	99.8
PRK10701	240	DNA-binding transcriptional regulator RstA; Provis	99.79
PRK10841	924	hybrid sensory kinase in two-component regulatory	99.79
CHL00148	240	orf27 Ycf27; Reviewed	99.79
PRK09483	217	response regulator; Provisional	99.79
PRK10430	239	DNA-binding transcriptional activator DcuR; Provis	99.79
PRK11517	223	transcriptional regulatory protein YedW; Provision	99.79
TIGR01387	218	cztR_silR_copR heavy metal response regulator. Mem	99.79
PLN03029	222	type-a response regulator protein; Provisional	99.79
PRK11466	914	hybrid sensory histidine kinase TorS; Provisional	99.78
KOG0519	786	consensus Sensory transduction histidine kinase [S	99.78
COG3947	361	Response regulator containing CheY-like receiver a	99.77
PRK11107	919	hybrid sensory histidine kinase BarA; Provisional	99.77
PRK15347	921	two component system sensor kinase SsrA; Provision	99.76
PRK09935	210	transcriptional regulator FimZ; Provisional	99.76
PRK15115	444	response regulator GlrR; Provisional	99.76
TIGR02875	262	spore_0_A sporulation transcription factor Spo0A.	99.76
TIGR02956	968	TMAO_torS TMAO reductase sytem sensor TorS. This p	99.76
PRK10365	441	transcriptional regulatory protein ZraR; Provision	99.75
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	99.75
PRK15479	221	transcriptional regulatory protein TctD; Provision	99.75
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	99.74
PRK10710	240	DNA-binding transcriptional regulator BaeR; Provis	99.74
PRK10360	196	DNA-binding transcriptional activator UhpA; Provis	99.74
PRK14084	246	two-component response regulator; Provisional	99.74
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	99.73
PRK11091	779	aerobic respiration control sensor protein ArcB; P	99.73
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	99.73
PRK09959	1197	hybrid sensory histidine kinase in two-component r	99.73
PRK09390	202	fixJ response regulator FixJ; Provisional	99.72
PRK09581	457	pleD response regulator PleD; Reviewed	99.7
PRK09581	457	pleD response regulator PleD; Reviewed	99.7
PRK10100	216	DNA-binding transcriptional regulator CsgD; Provis	99.7
PRK10610	129	chemotaxis regulatory protein CheY; Provisional	99.69
PRK10651	216	transcriptional regulator NarL; Provisional	99.69
PRK10403	215	transcriptional regulator NarP; Provisional	99.69
PRK11475	207	DNA-binding transcriptional activator BglJ; Provis	99.68
PRK11697	238	putative two-component response-regulatory protein	99.68
PRK13435	145	response regulator; Provisional	99.68
PRK13558	665	bacterio-opsin activator; Provisional	99.67
PRK15369	211	two component system sensor kinase SsrB; Provision	99.67
PRK15411	207	rcsA colanic acid capsular biosynthesis activation	99.67
PRK12555	337	chemotaxis-specific methylesterase; Provisional	99.66
PRK00742	354	chemotaxis-specific methylesterase; Provisional	99.65
PRK13837	828	two-component VirA-like sensor kinase; Provisional	99.62
COG3707	194	AmiR Response regulator with putative antiterminat	99.6
PRK13557	540	histidine kinase; Provisional	99.59
PRK09191	261	two-component response regulator; Provisional	99.59
cd00156	113	REC Signal receiver domain; originally thought to	99.57
COG2201	350	CheB Chemotaxis response regulator containing a Ch	99.54
PRK10693	303	response regulator of RpoS; Provisional	99.49
PRK15029	755	arginine decarboxylase; Provisional	99.47
COG3279	244	LytT Response regulator of the LytR/AlgR family [T	99.25
PRK11107	919	hybrid sensory histidine kinase BarA; Provisional	98.86
PF06490	109	FleQ: Flagellar regulatory protein FleQ; InterPro:	98.81
PF03709	115	OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal	98.6
cd02071	122	MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 bin	98.4
PRK02261	137	methylaspartate mutase subunit S; Provisional	98.39
COG3706	435	PleD Response regulator containing a CheY-like rec	98.37
TIGR00640	132	acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal	98.32
smart00448	55	REC cheY-homologous receiver domain. CheY regulate	98.25
TIGR01501	134	MthylAspMutase methylaspartate mutase, S subunit.	97.96
cd02067	119	B12-binding B12 binding domain (B12-BD). This doma	97.85
PRK15399	713	lysine decarboxylase LdcC; Provisional	97.84
PRK15400	714	lysine decarboxylase CadA; Provisional	97.74
cd02072	128	Glm_B12_BD B12 binding domain of glutamate mutase	97.61
PF02310	121	B12-binding: B12 binding domain; InterPro: IPR0061	97.46
COG2185	143	Sbm Methylmalonyl-CoA mutase, C-terminal domain/su	97.42
cd02070	201	corrinoid_protein_B12-BD B12 binding domain of cor	97.19
COG4999	140	Uncharacterized domain of BarA-like signal transdu	97.11
cd02069	213	methionine_synthase_B12_BD B12 binding domain of m	97.11
PRK09426	714	methylmalonyl-CoA mutase; Reviewed	97.01
TIGR03815	322	CpaE_hom_Actino helicase/secretion neighborhood Cp	96.75
cd02068	127	radical_SAM_B12_BD B12 binding domain_like associa	96.69
COG0512	191	PabA Anthranilate/para-aminobenzoate synthases com	96.66
PRK10618	894	phosphotransfer intermediate protein in two-compon	96.63
TIGR02370	197	pyl_corrinoid methyltransferase cognate corrinoid	96.47
PRK10558	256	alpha-dehydro-beta-deoxy-D-glucarate aldolase; Pro	96.41
PRK10128	267	2-keto-3-deoxy-L-rhamnonate aldolase; Provisional	96.36
cd04728	248	ThiG Thiazole synthase (ThiG) is the tetrameric en	96.32
PRK00208	250	thiG thiazole synthase; Reviewed	96.28
TIGR02311	249	HpaI 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldola	96.12
TIGR03239	249	GarL 2-dehydro-3-deoxyglucarate aldolase. In E. co	96.07
TIGR02026	497	BchE magnesium-protoporphyrin IX monomethyl ester	95.88
PF02254	116	TrkA_N: TrkA-N domain; InterPro: IPR003148 The reg	95.78
PRK10669	558	putative cation:proton antiport protein; Provision	95.52
PRK00043	212	thiE thiamine-phosphate pyrophosphorylase; Reviewe	95.33
PRK03659	601	glutathione-regulated potassium-efflux system prot	95.29
PRK08385	278	nicotinate-nucleotide pyrophosphorylase; Provision	94.96
COG3836	255	HpcH 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldola	94.95
PRK05749	425	3-deoxy-D-manno-octulosonic-acid transferase; Revi	94.94
PRK07428	288	nicotinate-nucleotide pyrophosphorylase; Provision	94.89
PF01729	169	QRPTase_C: Quinolinate phosphoribosyl transferase,	94.76
PRK05458	326	guanosine 5'-monophosphate oxidoreductase; Provisi	94.75
cd02065	125	B12-binding_like B12 binding domain (B12-BD). Most	94.74
PF10087	97	DUF2325: Uncharacterized protein conserved in bact	94.68
TIGR01334	277	modD putative molybdenum utilization protein ModD.	94.59
PF07688	283	KaiA: KaiA domain; InterPro: IPR011648 KaiA is a c	94.56
PRK07896	289	nicotinate-nucleotide pyrophosphorylase; Provision	94.54
PRK03562	621	glutathione-regulated potassium-efflux system prot	94.41
PRK01130	221	N-acetylmannosamine-6-phosphate 2-epimerase; Provi	93.99
COG0157	280	NadC Nicotinate-nucleotide pyrophosphorylase [Coen	93.83
cd00452	190	KDPG_aldolase KDPG and KHG aldolase. This family b	93.8
PF01408	120	GFO_IDH_MocA: Oxidoreductase family, NAD-binding R	93.77
PRK05718	212	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	93.73
PF05690	247	ThiG: Thiazole biosynthesis protein ThiG; InterPro	93.62
PRK05848	273	nicotinate-nucleotide pyrophosphorylase; Provision	93.62
PF03602	183	Cons_hypoth95: Conserved hypothetical protein 95;	93.38
PF03328	221	HpcH_HpaI: HpcH/HpaI aldolase/citrate lyase family	93.36
cd01573	272	modD_like ModD; Quinolinate phosphoribosyl transfe	93.33
TIGR02082	1178	metH 5-methyltetrahydrofolate--homocysteine methyl	93.18
PRK06843	404	inosine 5-monophosphate dehydrogenase; Validated	93.03
TIGR00693	196	thiE thiamine-phosphate pyrophosphorylase. This mo	92.94
TIGR01305	343	GMP_reduct_1 guanosine monophosphate reductase, eu	92.94
PF01596	205	Methyltransf_3: O-methyltransferase; InterPro: IPR	92.91
TIGR00566	188	trpG_papA glutamine amidotransferase of anthranila	92.88
cd04729	219	NanE N-acetylmannosamine-6-phosphate epimerase (Na	92.78
PRK07649	195	para-aminobenzoate/anthranilate synthase glutamine	92.69
PRK05096	346	guanosine 5'-monophosphate oxidoreductase; Provisi	92.53
cd06533	171	Glyco_transf_WecG_TagA The glycosyltransferase Wec	92.28
PRK08007	187	para-aminobenzoate synthase component II; Provisio	92.25
TIGR03151	307	enACPred_II putative enoyl-(acyl-carrier-protein)	92.24
PRK06559	290	nicotinate-nucleotide pyrophosphorylase; Provision	92.22
PRK05637	208	anthranilate synthase component II; Provisional	92.14
PLN02335	222	anthranilate synthase	92.14
PRK06774	191	para-aminobenzoate synthase component II; Provisio	92.06
PF01081	196	Aldolase: KDPG and KHG aldolase; InterPro: IPR0008	92.05
TIGR00262	256	trpA tryptophan synthase, alpha subunit. Tryptopha	91.98
PRK06543	281	nicotinate-nucleotide pyrophosphorylase; Provision	91.9
TIGR00343	287	pyridoxal 5'-phosphate synthase, synthase subunit	91.85
COG2022	262	ThiG Uncharacterized enzyme of thiazole biosynthes	91.78
TIGR01579	414	MiaB-like-C MiaB-like tRNA modifying enzyme. This	91.72
cd04727	283	pdxS PdxS is a subunit of the pyridoxal 5'-phospha	91.66
TIGR01303	475	IMP_DH_rel_1 IMP dehydrogenase family protein. Thi	91.65
COG0742	187	N6-adenine-specific methylase [DNA replication, re	91.62
PRK13111	258	trpA tryptophan synthase subunit alpha; Provisiona	91.61
PRK15320	251	transcriptional activator SprB; Provisional	91.55
COG4122	219	Predicted O-methyltransferase [General function pr	91.42
PLN02274	505	inosine-5'-monophosphate dehydrogenase	91.39
PRK00278	260	trpC indole-3-glycerol-phosphate synthase; Reviewe	91.3
TIGR00642	619	mmCoA_mut_beta methylmalonyl-CoA mutase, heterodim	91.29
PRK07807	479	inosine 5-monophosphate dehydrogenase; Validated	91.28
PRK05670	189	anthranilate synthase component II; Provisional	91.1
PRK06552	213	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	91.07
TIGR01182	204	eda Entner-Doudoroff aldolase. 2-deydro-3-deoxypho	90.69
PRK09490	1229	metH B12-dependent methionine synthase; Provisiona	90.68
TIGR01302	450	IMP_dehydrog inosine-5'-monophosphate dehydrogenas	90.57
PF04131	192	NanE: Putative N-acetylmannosamine-6-phosphate epi	90.52
PRK09140	206	2-dehydro-3-deoxy-6-phosphogalactonate aldolase; R	90.46
PRK06096	284	molybdenum transport protein ModD; Provisional	90.46
PF00478	352	IMPDH: IMP dehydrogenase / GMP reductase domain; I	90.06
cd01568	269	QPRTase_NadC Quinolinate phosphoribosyl transferas	90.06
cd00381	325	IMPDH IMPDH: The catalytic domain of the inosine m	90.0
PRK14329	467	(dimethylallyl)adenosine tRNA methylthiotransferas	89.91
PF02581	180	TMP-TENI: Thiamine monophosphate synthase/TENI; In	89.84
CHL00101	190	trpG anthranilate synthase component 2	89.7
cd04724	242	Tryptophan_synthase_alpha Ttryptophan synthase (TR	89.69
COG5012	227	Predicted cobalamin binding protein [General funct	89.16
PRK05567	486	inosine 5'-monophosphate dehydrogenase; Reviewed	89.14
PRK04148	134	hypothetical protein; Provisional	88.68
COG0421	282	SpeE Spermidine synthase [Amino acid transport and	88.48
PRK04302	223	triosephosphate isomerase; Provisional	88.47
PRK03958	176	tRNA 2'-O-methylase; Reviewed	88.41
TIGR03088	374	stp2 sugar transferase, PEP-CTERM/EpsH1 system ass	88.39
PRK06106	281	nicotinate-nucleotide pyrophosphorylase; Provision	88.3
cd05212	140	NAD_bind_m-THF_DH_Cyclohyd_like NAD(P) binding dom	88.3
TIGR00736	231	nifR3_rel_arch TIM-barrel protein, putative. Membe	88.07
PF04321	286	RmlD_sub_bind: RmlD substrate binding domain; Inte	87.98
PRK00811	283	spermidine synthase; Provisional	87.83
PF01729	169	QRPTase_C: Quinolinate phosphoribosyl transferase,	87.82
PRK06895	190	putative anthranilate synthase component II; Provi	87.82
CHL00162	267	thiG thiamin biosynthesis protein G; Validated	87.59
PTZ00314	495	inosine-5'-monophosphate dehydrogenase; Provisiona	87.53
PRK13125	244	trpA tryptophan synthase subunit alpha; Provisiona	87.49
TIGR00696	177	wecB_tagA_cpsF bacterial polymer biosynthesis prot	87.32
PRK06015	201	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	87.31
cd00564	196	TMP_TenI Thiamine monophosphate synthase (TMP synt	87.19
PRK11359	799	cyclic-di-GMP phosphodiesterase; Provisional	87.02
PRK13566	720	anthranilate synthase; Provisional	87.02
PF03808	172	Glyco_tran_WecB: Glycosyl transferase WecB/TagA/Cp	86.96
COG0157	280	NadC Nicotinate-nucleotide pyrophosphorylase [Coen	86.88
PLN02591	250	tryptophan synthase	86.85
PLN02889	918	oxo-acid-lyase/anthranilate synthase	86.83
PRK09522	531	bifunctional glutamine amidotransferase/anthranila	86.8
PRK09016	296	quinolinate phosphoribosyltransferase; Validated	86.79
PLN02366	308	spermidine synthase	86.74
cd01948	240	EAL EAL domain. This domain is found in diverse ba	86.73
PRK14331	437	(dimethylallyl)adenosine tRNA methylthiotransferas	86.32
smart00052	241	EAL Putative diguanylate phosphodiesterase. Putati	86.0
PLN02589	247	caffeoyl-CoA O-methyltransferase	85.77
COG2109	198	BtuR ATP:corrinoid adenosyltransferase [Coenzyme m	85.75
CHL00200	263	trpA tryptophan synthase alpha subunit; Provisiona	85.7
PF14606	178	Lipase_GDSL_3: GDSL-like Lipase/Acylhydrolase fami	85.58
PRK14974	336	cell division protein FtsY; Provisional	85.58
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	85.42
KOG1562	337	consensus Spermidine synthase [Amino acid transpor	85.37
TIGR00007	230	phosphoribosylformimino-5-aminoimidazole carboxami	85.28
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	85.23
PRK10537	393	voltage-gated potassium channel; Provisional	85.21
PF10727	127	Rossmann-like: Rossmann-like domain; InterPro: IPR	85.17
PRK04180	293	pyridoxal biosynthesis lyase PdxS; Provisional	85.16
PLN02871	465	UDP-sulfoquinovose:DAG sulfoquinovosyltransferase	85.07
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	84.82
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	84.62
PF01564	246	Spermine_synth: Spermine/spermidine synthase; Inte	84.56
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	84.55
cd04824	320	eu_ALAD_PBGS_cysteine_rich Porphobilinogen synthas	84.54
COG1737	281	RpiR Transcriptional regulators [Transcription]	84.49
PF04131	192	NanE: Putative N-acetylmannosamine-6-phosphate epi	84.43
PRK08072	277	nicotinate-nucleotide pyrophosphorylase; Provision	84.38
PRK14098	489	glycogen synthase; Provisional	84.25
KOG2550	503	consensus IMP dehydrogenase/GMP reductase [Nucleot	84.17
PRK07896	289	nicotinate-nucleotide pyrophosphorylase; Provision	84.15
cd04726	202	KGPDC_HPS 3-Keto-L-gulonate 6-phosphate decarboxyl	84.01
PLN02476	278	O-methyltransferase	83.83
PLN02716	308	nicotinate-nucleotide diphosphorylase (carboxylati	83.8
TIGR01306	321	GMP_reduct_2 guanosine monophosphate reductase, ba	83.73
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	83.66
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	83.63
COG3967	245	DltE Short-chain dehydrogenase involved in D-alani	83.63
PRK14328	439	(dimethylallyl)adenosine tRNA methylthiotransferas	83.59
PRK01372	304	ddl D-alanine--D-alanine ligase; Reviewed	83.57
PRK07414	178	cob(I)yrinic acid a,c-diamide adenosyltransferase;	83.48
COG0621	437	MiaB 2-methylthioadenine synthetase [Translation,	83.48
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	83.43
PRK08857	193	para-aminobenzoate synthase component II; Provisio	83.4
PRK14326	502	(dimethylallyl)adenosine tRNA methylthiotransferas	83.24
TIGR00089	429	RNA modification enzyme, MiaB family. This subfami	82.95
COG2200	256	Rtn c-di-GMP phosphodiesterase class I (EAL domain	82.69
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	82.52
PRK06559	290	nicotinate-nucleotide pyrophosphorylase; Provision	82.43
PRK14333	448	(dimethylallyl)adenosine tRNA methylthiotransferas	82.4
PF00977	229	His_biosynth: Histidine biosynthesis protein; Inte	82.38
PRK07455	187	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	82.3
PF03060	330	NMO: Nitronate monooxygenase; InterPro: IPR004136	82.12
PRK00994	277	F420-dependent methylenetetrahydromethanopterin de	81.79
PRK06978	294	nicotinate-nucleotide pyrophosphorylase; Provision	81.65
PF06283	217	ThuA: Trehalose utilisation; PDB: 4E5V_A 1T0B_A.	81.64
PRK07315	293	fructose-bisphosphate aldolase; Provisional	81.53
PLN02823	336	spermine synthase	81.44
PRK10060	663	RNase II stability modulator; Provisional	81.4
PF07652	148	Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR	81.28
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	81.22
PF00290	259	Trp_syntA: Tryptophan synthase alpha chain; InterP	81.2
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	81.17
TIGR00064	272	ftsY signal recognition particle-docking protein F	81.07
PF10672	286	Methyltrans_SAM: S-adenosylmethionine-dependent me	80.84
COG0159	265	TrpA Tryptophan synthase alpha chain [Amino acid t	80.66
PRK13143	200	hisH imidazole glycerol phosphate synthase subunit	80.61
PRK14337	446	(dimethylallyl)adenosine tRNA methylthiotransferas	80.32
TIGR03128	206	RuMP_HxlA 3-hexulose-6-phosphate synthase. at the	80.31
cd04723	233	HisA_HisF Phosphoribosylformimino-5-aminoimidazole	80.26
PF02572	172	CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase	80.16
PF05582	287	Peptidase_U57: YabG peptidase U57; InterPro: IPR00	80.14
PLN02778	298	3,5-epimerase/4-reductase	80.07
PRK07114	222	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	80.02

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

Probab=99.95  E-value=4.1e-26  Score=159.68  Aligned_cols=118  Identities=31%  Similarity=0.485  Sum_probs=111.4

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHh-cCCcceEEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRS-MGIKIKIVGV  104 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~-~~~~~~iv~l  104 (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 999999999999999999999995 3557899999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhcC
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN  145 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~~  145 (145)
                      |+..+......++++|||||+.|||++.||..+|+.++++.
T Consensus        79 ta~~~~~d~v~gl~~GADDYl~KPf~~~EL~ARi~a~lRR~  119 (229)
T COG0745          79 TARDDEEDRVLGLEAGADDYLTKPFSPRELLARLRALLRRN  119 (229)
T ss_pred             ECCCcHHHHHHHHhCcCCeeeeCCCCHHHHHHHHHHHHCcC
Confidence            99999999999999999999999999999999999998863

>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=99.91  E-value=1.8e-22  Score=126.34  Aligned_cols=111  Identities=32%  Similarity=0.498  Sum_probs=106.3

Q ss_pred             EEEEeCcHHHHHHHHHHHHHcCC-eEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeC
Q 048318           28 ALVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTS  106 (145)
Q Consensus        28 iLii~~~~~~~~~l~~~L~~~g~-~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~  106 (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            68999999999999999999999 89999999999999988 67999999999999999999999999889999999999


Q ss_pred             CCCHHHHHHHHHhCCceeecCCCCHHHHHHHHH
Q 048318          107 LNSEAEREAFMQAGLDLCHTKPLSVDKILPLME  139 (145)
Q Consensus       107 ~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~  139 (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            999999999999999999999999999998874

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 ....

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

Probab=99.90  E-value=1.7e-22  Score=152.06  Aligned_cols=119  Identities=29%  Similarity=0.438  Sum_probs=114.0

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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 MARILVVDDDPDIRELLEQALELAGYEVVTAESAEEALEALSE-SPFDLVLLDIRMPGMDGLELLKEIKSRDPDLPVIVM   82 (464)
T ss_pred             cCCEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHhc-CCCCEEEEecCCCCCchHHHHHHHHhhCCCCCEEEE
Confidence            4569999999999999999999999999999999999999998 479999999999999999999999999999999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |+..+...+..|++.||.||+.||+++++|...++++++.
T Consensus        83 Tg~g~i~~AV~A~k~GA~Dfl~KP~~~~~L~~~v~ral~~  122 (464)
T COG2204          83 TGHGDIDTAVEALRLGAFDFLEKPFDLDRLLAIVERALEL  122 (464)
T ss_pred             eCCCCHHHHHHHHhcCcceeeeCCCCHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999998863

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

Probab=99.89  E-value=3.2e-22  Score=150.43  Aligned_cols=117  Identities=25%  Similarity=0.385  Sum_probs=110.9

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHH--cCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKS--LGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~--~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (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            4799999999999999999974  589977 99999999999988 7899999999999999999999999999999999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      ++|+.++-+.+..|++.|+.+||.||++.++|...+.++..
T Consensus        81 ILSGy~eFeYak~Am~lGV~dYLLKP~~k~eL~~~L~ki~~  121 (475)
T COG4753          81 ILSGYDEFEYAKKAMKLGVKDYLLKPVDKAELEEALKKIIG  121 (475)
T ss_pred             EEeccchhHHHHHHHhcCchhheeCcCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988764

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

Probab=99.88  E-value=1.6e-21  Score=131.92  Aligned_cols=117  Identities=24%  Similarity=0.369  Sum_probs=109.1

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHc-CCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSL-GFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (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            36899999999999999999986 89977 89999999999987 67999999999999999999999999988899999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      +|+-.+.+.+.++++.|+-|||.|||..+.+..++.+..+
T Consensus        80 iTAA~d~~tI~~alr~Gv~DYLiKPf~~eRl~~aL~~y~~  119 (224)
T COG4565          80 ITAASDMETIKEALRYGVVDYLIKPFTFERLQQALTRYRQ  119 (224)
T ss_pred             EeccchHHHHHHHHhcCchhheecceeHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999977554

>COG4566 TtrR Response regulator [Signal transduction mechanisms]

Probab=99.88  E-value=2.5e-21  Score=128.67  Aligned_cols=119  Identities=24%  Similarity=0.329  Sum_probs=111.6

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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            3468999999999999999999999999999999999988644 568999999999999999999999999999999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |+..+.....++++.||-|||.||++.+.|++.|++.+++
T Consensus        83 TGhgDIpmaV~AmK~GAvDFLeKP~~~q~Lldav~~Al~~  122 (202)
T COG4566          83 TGHGDIPMAVQAMKAGAVDFLEKPFSEQDLLDAVERALAR  122 (202)
T ss_pred             eCCCChHHHHHHHHcchhhHHhCCCchHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999988753

>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=1.1e-20  Score=131.00  Aligned_cols=118  Identities=31%  Similarity=0.400  Sum_probs=110.3

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcC-CeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           27 FALVVDDDCFIRTIHSMALKSLG-FKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g-~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      +|+++||++..+..++..|+..+ ++++ .+.+++++++.+.. ..||++++|+.||+++|.+.++.+++..|+++++++
T Consensus         2 ~vlivDDh~l~r~gl~~~L~~~~~~~vv~~a~~~~~~l~~~~~-~~pdvvl~Dl~mP~~~G~e~~~~l~~~~p~~~vvvl   80 (211)
T COG2197           2 KVLIVDDHPLVREGLRQLLELEPDLEVVGEASNGEEALDLARE-LKPDVVLLDLSMPGMDGLEALKQLRARGPDIKVVVL   80 (211)
T ss_pred             eEEEECCcHHHHHHHHHHHhhCCCCEEEEEeCCHHHHHHHhhh-cCCCEEEEcCCCCCCChHHHHHHHHHHCCCCcEEEE
Confidence            58999999999999999998765 8877 77789999999776 689999999999999999999999999999999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhcC
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN  145 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~~  145 (145)
                      |...+......+++.|+++|+.|..+++++...|+.++.|+
T Consensus        81 t~~~~~~~v~~al~~Ga~Gyl~K~~~~~~l~~ai~~v~~G~  121 (211)
T COG2197          81 TAHDDPAYVIRALRAGADGYLLKDASPEELVEAIRAVAAGG  121 (211)
T ss_pred             eccCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHCCC
Confidence            99999999999999999999999999999999999998763

>PRK10046 dpiA two-component response regulator DpiA; Provisional

Probab=99.84  E-value=1.9e-19  Score=125.96  Aligned_cols=119  Identities=18%  Similarity=0.257  Sum_probs=108.1

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHc-CCe-EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSL-GFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKI  101 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~-g~~-v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~i  101 (145)
                      .+++|+++||++..+..+...|+.. |+. +..+.++.++++.+.. ..||++++|+.+|+.+|+++++.+++..++.++
T Consensus         3 ~~~~ilivdd~~~~~~~l~~~L~~~~~~~~v~~a~~~~~al~~~~~-~~pdlvllD~~mp~~~gle~~~~l~~~~~~~~i   81 (225)
T PRK10046          3 APLTLLIVEDETPLAEMHAEYIRHIPGFSQILLAGNLAQARMMIER-FKPGLILLDNYLPDGRGINLLHELVQAHYPGDV   81 (225)
T ss_pred             CcceEEEECCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHh-cCCCEEEEeCCCCCCcHHHHHHHHHhcCCCCCE
Confidence            3578999999999999999999864 786 5689999999999987 679999999999999999999999987777899


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      +++++..+......+++.|+++|+.||++.++|...++++..
T Consensus        82 ivls~~~~~~~~~~al~~Ga~~yl~Kp~~~~~L~~~i~~~~~  123 (225)
T PRK10046         82 VFTTAASDMETVSEAVRCGVFDYLIKPIAYERLGQTLTRFRQ  123 (225)
T ss_pred             EEEEcCCCHHHHHHHHHcCccEEEECCcCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999987644

>PRK10816 DNA-binding transcriptional regulator PhoP; Provisional

Probab=99.84  E-value=3.5e-19  Score=123.71  Aligned_cols=118  Identities=28%  Similarity=0.447  Sum_probs=110.1

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            368999999999999999999999999999999999998876 5799999999999999999999999877889999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +..+......++..|+++|+.||++.++|..++..++++
T Consensus        80 ~~~~~~~~~~~l~~Ga~d~l~kp~~~~eL~~~i~~~~~~  118 (223)
T PRK10816         80 ARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRR  118 (223)
T ss_pred             cCCCHHHHHHHHHcCCCeeEeCCCCHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999988764

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

Probab=99.84  E-value=9.6e-20  Score=131.67  Aligned_cols=120  Identities=28%  Similarity=0.459  Sum_probs=110.4

Q ss_pred             ccCCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCC---c
Q 048318           22 KNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGI---K   98 (145)
Q Consensus        22 ~~~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~---~   98 (145)
                      .....+||++||++..+..+...|+..||.+..+.+++++++.... .++|++++|+.||+++|.+++.+++...|   .
T Consensus        11 ~~~~~~vl~vDD~~~~~~~~~~lL~~~~y~v~~ae~g~~a~kl~~~-~~~dlvllD~~mp~mdg~ev~~~lk~~~p~t~~   89 (360)
T COG3437          11 PDEKLTVLLVDDEPDNLEALRQLLRMIGYRVIEAENGEEALKLLQE-EPPDLVLLDVRMPEMDGAEVLNKLKAMSPSTRR   89 (360)
T ss_pred             CcccceEEEecCchhHHHHHHHHHHhcccceeeecCchHHHHHhcc-cCCceEEeeccCCCccHHHHHHHHHhcCCcccc
Confidence            4457789999999999999999999999999999999999999887 57999999999999999999999998444   6


Q ss_pred             ceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318           99 IKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus        99 ~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      +|++++|+..+......++..|+++|+.||+++.+|..++...+
T Consensus        90 ip~i~lT~~~d~~~~~~~~~~g~~dyl~KP~~~~~l~~rv~~~~  133 (360)
T COG3437          90 IPVILLTAYADSEDRQRALEAGADDYLSKPISPKELVARVSSHL  133 (360)
T ss_pred             cceEEEeecCChHHHHHHHHhhHHHHhcCCCCHHHHHHHHHHHH
Confidence            79999999999999999999999999999999999999996544

>PRK09836 DNA-binding transcriptional activator CusR; Provisional

Probab=99.83  E-value=6.4e-19  Score=122.70  Aligned_cols=118  Identities=25%  Similarity=0.412  Sum_probs=109.5

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            368999999999999999999999999999999999988876 5799999999999999999999999877889999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|..++..++++
T Consensus        80 ~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~  118 (227)
T PRK09836         80 ALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLRR  118 (227)
T ss_pred             cCCCHHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999987754

>PRK10161 transcriptional regulator PhoB; Provisional

Probab=99.82  E-value=2e-18  Score=120.39  Aligned_cols=119  Identities=25%  Similarity=0.361  Sum_probs=109.0

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcC--CcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMG--IKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~--~~~~iv  102 (145)
                      ..+|+++|+++.....+...|+..|+.+..+.+..+++..+.. ..||++++|+.+++.+|.++++.+++..  +.+|++
T Consensus         2 ~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~~~-~~~dlvild~~l~~~~g~~~~~~l~~~~~~~~~pvi   80 (229)
T PRK10161          2 ARRILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNE-PWPDLILLDWMLPGGSGIQFIKHLKRESMTRDIPVV   80 (229)
T ss_pred             CCeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhc-cCCCEEEEeCCCCCCCHHHHHHHHHhccccCCCCEE
Confidence            4679999999999999999999889999999999999998876 5799999999999999999999998753  678999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++++..+......++..|+++|+.||++.++|..++..++++
T Consensus        81 ~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~L~~~i~~~~~~  122 (229)
T PRK10161         81 MLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMRR  122 (229)
T ss_pred             EEECCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999999887754

>PRK10529 DNA-binding transcriptional activator KdpE; Provisional

Probab=99.82  E-value=2.2e-18  Score=119.82  Aligned_cols=117  Identities=24%  Similarity=0.353  Sum_probs=107.3

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            478999999999999999999999999999999999988776 579999999999999999999999974 578999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +..+......++..|+++|+.||++.++|..++++++++
T Consensus        80 ~~~~~~~~~~~~~~ga~~~l~kP~~~~~l~~~i~~~~~~  118 (225)
T PRK10529         80 ARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALRR  118 (225)
T ss_pred             CCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhh
Confidence            999999999999999999999999999999999887753

>PRK10766 DNA-binding transcriptional regulator TorR; Provisional

Probab=99.82  E-value=2.1e-18  Score=119.54  Aligned_cols=118  Identities=25%  Similarity=0.394  Sum_probs=108.3

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      ..+||++++++.....+...|+..||.+..+.++.+++..+.. ..||++++|..+++.+|.++++.+++. +.+|+|++
T Consensus         2 ~~~iLlv~d~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~-~~~dlvild~~l~~~~g~~~~~~lr~~-~~~~ii~l   79 (221)
T PRK10766          2 SYHILVVEDEPVTRARLQGYFEQEGYTVSEAASGAGMREIMQN-QHVDLILLDINLPGEDGLMLTRELRSR-STVGIILV   79 (221)
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhC-CCCCEEEE
Confidence            4579999999999999999999999999999999999998876 579999999999999999999999975 57899999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++..+......++..|+++|+.||++..+|..++..++++
T Consensus        80 ~~~~~~~~~~~~l~~Ga~d~l~kP~~~~~L~~~i~~~~~r  119 (221)
T PRK10766         80 TGRTDSIDRIVGLEMGADDYVTKPLELRELLVRVKNLLWR  119 (221)
T ss_pred             ECCCcHHHHHHHHHcCCCcEEeCCCCHHHHHHHHHHHHhh
Confidence            9999988899999999999999999999999999887653

>PRK09468 ompR osmolarity response regulator; Provisional

Probab=99.82  E-value=2.1e-18  Score=121.08  Aligned_cols=119  Identities=25%  Similarity=0.396  Sum_probs=110.4

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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            3579999999999999999999999999999999999998876 679999999999999999999999987778999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++..+......++..|+++|+.||++.++|..++..++++
T Consensus        84 s~~~~~~~~~~~l~~Ga~~~l~kP~~~~~L~~~i~~~~~r  123 (239)
T PRK09468         84 TAKGEEVDRIVGLEIGADDYLPKPFNPRELLARIRAVLRR  123 (239)
T ss_pred             ECCCcHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHhcc
Confidence            9999999899999999999999999999999999988754

>PRK10643 DNA-binding transcriptional regulator BasR; Provisional

Probab=99.82  E-value=2.4e-18  Score=118.94  Aligned_cols=118  Identities=22%  Similarity=0.404  Sum_probs=109.0

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            368999999999999999999999999899999999998876 5799999999999999999999999877789999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ...+......++..|+++|+.||++.++|..++..++++
T Consensus        80 ~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~~  118 (222)
T PRK10643         80 ARDTLEDRVAGLDVGADDYLVKPFALEELHARIRALIRR  118 (222)
T ss_pred             CCCCHHHHHHHHhcCCCeEEeCCCCHHHHHHHHHHHHhh
Confidence            999999999999999999999999999999999887653

>PRK10336 DNA-binding transcriptional regulator QseB; Provisional

Probab=99.82  E-value=2.4e-18  Score=118.89  Aligned_cols=117  Identities=27%  Similarity=0.430  Sum_probs=108.4

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            368999999999999999999899999999999999988876 5799999999999999999999999877889999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      +..+......++..|+++|+.||++.++|..++..+++
T Consensus        80 ~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~  117 (219)
T PRK10336         80 ARDALAERVEGLRLGADDYLCKPFALIEVAARLEALMR  117 (219)
T ss_pred             CCCCHHHHHHHHhCCCCeEEECCCCHHHHHHHHHHHHh
Confidence            99998888999999999999999999999999988765

>PRK11173 two-component response regulator; Provisional

Probab=99.82  E-value=2.4e-18  Score=120.78  Aligned_cols=117  Identities=21%  Similarity=0.364  Sum_probs=108.2

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            479999999999999999999999999999999999998877 579999999999999999999999975 578999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +..+......++..|+++|+.||++.++|..+++.++++
T Consensus        82 ~~~~~~~~~~~~~~ga~d~l~kP~~~~eL~~~i~~~l~r  120 (237)
T PRK11173         82 GRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLSR  120 (237)
T ss_pred             CCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHhc
Confidence            999888888999999999999999999999999888764

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

Probab=99.82  E-value=3.6e-18  Score=109.32  Aligned_cols=118  Identities=36%  Similarity=0.572  Sum_probs=103.2

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHH-HHHHHHHcCC-CccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGK-EAVDLFRSGA-KFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~-~al~~~~~~~-~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (145)
                      ..+||++||++..+..+...|+..|+.+..+.++. +++..+.. . .||++++|..||+++|+++++.+++..+.+|++
T Consensus         5 ~~~vLivdD~~~~~~~~~~~l~~~g~~v~~a~~g~~~al~~~~~-~~~~dlii~D~~mp~~~G~~~~~~l~~~~~~~pvv   83 (130)
T COG0784           5 GLRVLVVDDEPVNRRLLKRLLEDLGYEVVEAADGEEEALELLRE-LPQPDLILLDINMPGMDGIELLRRLRARGPNIPVI   83 (130)
T ss_pred             CcEEEEEcCCHHHHHHHHHHHHHcCCeEEEeCChHHHHHHHHHh-CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCCCCEE
Confidence            56899999999999999999999999999999995 99999987 5 499999999999999999999999875667777


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHH-HHHHHHHHHh
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDK-ILPLMEDLMK  143 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~-L~~~i~~~~~  143 (145)
                      ++++.........++..|+++|+.||+...+ +...+...+.
T Consensus        84 ~~t~~~~~~~~~~~~~~g~~~~l~kP~~~~~~l~~~i~~~~~  125 (130)
T COG0784          84 LLTAYADEADRERALAAGADDYLTKPIFLEEELLAALRRLLA  125 (130)
T ss_pred             EEEcCcCHHHHHHHHHcCCCeEEcCCCCcHHHHHHHHHHHHH
Confidence            7888887776677789999999999977666 7777776553

>PRK10840 transcriptional regulator RcsB; Provisional

Probab=99.81  E-value=2.2e-18  Score=119.77  Aligned_cols=119  Identities=16%  Similarity=0.169  Sum_probs=107.6

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCC-e-EEEEcCHHHHHHHHHcCCCccEEEEecCCCC---CCHHHHHHHHHhcCCcc
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGF-K-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPV---MNGIEATREIRSMGIKI   99 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~-~-v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~---~~~~~~~~~l~~~~~~~   99 (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            36899999999999999999987654 4 5588999999998876 57999999999998   59999999999888889


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (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            999999999999999999999999999999999999999988765

>TIGR03787 marine_sort_RR proteobacterial dedicated sortase system response regulator

Probab=99.81  E-value=5e-18  Score=118.12  Aligned_cols=117  Identities=24%  Similarity=0.336  Sum_probs=107.6

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCC--CCHHHHHHHHHhcCCcceEEEE
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPV--MNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~--~~~~~~~~~l~~~~~~~~iv~l  104 (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            58999999999999999999999999999999999998876 57999999999997  4899999999987778999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++..+......++..|+++|+.||++.+++..+++.++++
T Consensus        81 s~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~  120 (227)
T TIGR03787        81 TARDSDFDTVSGLRLGADDYLTKDISLPHLLARITALFRR  120 (227)
T ss_pred             ECCCCHHHHHHHHhcCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999888764

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.

>PRK11083 DNA-binding response regulator CreB; Provisional

Probab=99.81  E-value=5e-18  Score=117.83  Aligned_cols=118  Identities=26%  Similarity=0.383  Sum_probs=108.8

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            579999999999999999999899999999999999988876 5799999999999999999999999877889999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +..+......++..|+++|+.||++.++|..++..++++
T Consensus        83 ~~~~~~~~~~a~~~Ga~~~l~kp~~~~~l~~~i~~~~~~  121 (228)
T PRK11083         83 ARSDEVDRLVGLEIGADDYVAKPFSPREVAARVRTILRR  121 (228)
T ss_pred             cCCcHHHHHHHhhcCCCeEEECCCCHHHHHHHHHHHHCc
Confidence            998888888999999999999999999999999887654

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

Probab=99.81  E-value=2.8e-18  Score=110.33  Aligned_cols=114  Identities=25%  Similarity=0.256  Sum_probs=108.6

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeC
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTS  106 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~  106 (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            57999999999999999999999999999999999999988 78999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318          107 LNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus       107 ~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      ..+-.....|.+.|+++|+.||-+.+.+...+.+.
T Consensus        90 y~sIATAV~AvKlGA~~YLaKPAdaDdi~aAl~~~  124 (182)
T COG4567          90 YASIATAVEAVKLGACDYLAKPADADDILAALLRR  124 (182)
T ss_pred             chHHHHHHHHHHhhhhhhcCCCCChHHHHHHHhhc
Confidence            99999999999999999999999999998887643

>TIGR02154 PhoB phosphate regulon transcriptional regulatory protein PhoB

Probab=99.81  E-value=5.7e-18  Score=117.28  Aligned_cols=119  Identities=29%  Similarity=0.421  Sum_probs=108.5

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~iv  102 (145)
                      +.+|+++|+++..+..+...|+..|+.+..+.+..+++..+.. ..||++++|..+++.+|.++++.++..  .+.+|++
T Consensus         2 ~~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~-~~~d~vi~d~~~~~~~g~~~~~~l~~~~~~~~~~ii   80 (226)
T TIGR02154         2 TRRILVVEDEPAIRELIAYNLEKAGYDVVEAGDGDEALTLINE-RGPDLILLDWMLPGTSGIELCRRLRRRPETRAIPII   80 (226)
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHHCCCEEEEEcCHHHHHHHHHh-cCCCEEEEECCCCCCcHHHHHHHHHccccCCCCCEE
Confidence            4579999999999999999999889999999999999998876 579999999999999999999999875  3578999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++++..+......++..|+++|+.||++.++|...+..++++
T Consensus        81 ~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~  122 (226)
T TIGR02154        81 MLTARGEEEDRVRGLETGADDYITKPFSPRELLARIKAVLRR  122 (226)
T ss_pred             EEecCCCHHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHhcc
Confidence            999999988899999999999999999999999999887754

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.

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

Probab=99.80  E-value=2.2e-18  Score=129.08  Aligned_cols=120  Identities=26%  Similarity=0.354  Sum_probs=112.4

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKI  101 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~i  101 (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            35789999999999999999999999999999999999999988 589999999999999999999999974  347899


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |++++.++......+++.|++||+.||++..++..++++.+++
T Consensus       210 i~~~~~~d~~~~~~Af~~G~~Dyi~kPi~~~~l~~Rl~~~l~~  252 (435)
T COG3706         210 ILLSSKDDDELVVRAFELGVNDYITKPIEEGELRARLRRQLRR  252 (435)
T ss_pred             EEEecccchHHHHHHHHcCCcceEecCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999888764

>PRK10955 DNA-binding transcriptional regulator CpxR; Provisional

Probab=99.80  E-value=8.8e-18  Score=117.07  Aligned_cols=116  Identities=28%  Similarity=0.444  Sum_probs=106.3

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (145)
                      .+||++||++..+..+...|+..|+.+..+.+..+++..+..  .||++++|+.+++.+|.++++.+++..+ +|+++++
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~--~~d~vl~d~~~~~~~g~~~~~~l~~~~~-~~ii~lt   78 (232)
T PRK10955          2 NKILLVDDDRELTSLLKELLEMEGFNVIVAHDGEQALDLLDD--SIDLLLLDVMMPKKNGIDTLKELRQTHQ-TPVIMLT   78 (232)
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHhhc--CCCEEEEeCCCCCCcHHHHHHHHHhcCC-CcEEEEE
Confidence            378999999999999999999899999999999999987753  5999999999999999999999998765 8999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|..+++.++++
T Consensus        79 ~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~~  117 (232)
T PRK10955         79 ARGSELDRVLGLELGADDYLPKPFNDRELVARIRAILRR  117 (232)
T ss_pred             CCCCHHHHHHHHHcCCCEEEcCCCCHHHHHHHHHHHHhc
Confidence            988888889999999999999999999999999887754

>PRK09958 DNA-binding transcriptional activator EvgA; Provisional

Probab=99.80  E-value=8.2e-18  Score=115.18  Aligned_cols=118  Identities=22%  Similarity=0.253  Sum_probs=108.6

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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            4689999999999999999998899987 78999999998876 579999999999999999999999987778899999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++..+......++..|+++|+.||++.++|...++.+.++
T Consensus        80 s~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~~  119 (204)
T PRK09958         80 SAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNG  119 (204)
T ss_pred             eCCCCHHHHHHHHHCCCCEEEecCCCHHHHHHHHHHHHcC
Confidence            9998988999999999999999999999999999988754

>PRK13856 two-component response regulator VirG; Provisional

Probab=99.80  E-value=1e-17  Score=117.98  Aligned_cols=116  Identities=21%  Similarity=0.327  Sum_probs=104.6

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeC
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTS  106 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~  106 (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            69999999999999999999999999999999999998876 579999999999999999999999875 4689999988


Q ss_pred             C-CCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          107 L-NSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       107 ~-~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      . .+......++..|+++|+.||++.++|..+++.++++
T Consensus        81 ~~~~~~~~~~~l~~Ga~~yl~kP~~~~eL~~~i~~~l~~  119 (241)
T PRK13856         81 DRLEEADKVVALELGATDFIAKPFGTREFLARIRVALRV  119 (241)
T ss_pred             CCCcHHHHHHHHhcCcCeEEeCCCCHHHHHHHHHHHHhh
Confidence            5 4666677899999999999999999999999887754

>PRK10701 DNA-binding transcriptional regulator RstA; Provisional

Probab=99.79  E-value=1.3e-17  Score=117.23  Aligned_cols=117  Identities=21%  Similarity=0.237  Sum_probs=106.6

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (145)
                      .+||++++++..+..+...|+..||.+..+.++.+++..+.. ..||++++|+.+|+.+|+++++.+++. ...|+++++
T Consensus         2 ~~iLivedd~~~~~~l~~~L~~~g~~v~~~~~~~~~l~~~~~-~~~dlvild~~l~~~~g~~~~~~ir~~-~~~pii~l~   79 (240)
T PRK10701          2 NKIVFVEDDAEVGSLIAAYLAKHDIDVTVEPRGDRAEATILR-EQPDLVLLDIMLPGKDGMTICRDLRPK-WQGPIVLLT   79 (240)
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHhh-CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCCCEEEEE
Confidence            378999999999999999999999999999999999998876 679999999999999999999999974 467899999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ...+......++..|+++|+.||++..+|..++..++++
T Consensus        80 ~~~~~~~~~~~~~~Ga~d~l~kP~~~~~l~~~i~~~l~~  118 (240)
T PRK10701         80 SLDSDMNHILALEMGACDYILKTTPPAVLLARLRLHLRQ  118 (240)
T ss_pred             CCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHhc
Confidence            888888888999999999999999999999999887653

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

Probab=99.79  E-value=7.9e-18  Score=137.84  Aligned_cols=119  Identities=29%  Similarity=0.564  Sum_probs=112.2

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (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            46789999999999999999999999999999999999999987 67999999999999999999999999888899999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      +++.........+++.|+++|+.||++.++|...+.+...
T Consensus       879 lTa~~~~~~~~~~~~aG~d~~L~KPv~~~~L~~~L~~~~~  918 (924)
T PRK10841        879 VTANALAEEKQRCLEAGMDSCLSKPVTLDVLKQTLTVYAE  918 (924)
T ss_pred             EECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999987764

>CHL00148 orf27 Ycf27; Reviewed

Probab=99.79  E-value=1.5e-17  Score=116.37  Aligned_cols=118  Identities=31%  Similarity=0.510  Sum_probs=108.0

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      +++|+++|+++.....+...|+..|+.+..+.+..+++..+.. ..||++++|+.+++.+|.++++.++.. +.+|++++
T Consensus         6 ~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~l~~~~~-~~~d~illd~~~~~~~g~~~~~~l~~~-~~~~ii~l   83 (240)
T CHL00148          6 KEKILVVDDEAYIRKILETRLSIIGYEVITASDGEEALKLFRK-EQPDLVILDVMMPKLDGYGVCQEIRKE-SDVPIIML   83 (240)
T ss_pred             CceEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHhc-CCCcEEEE
Confidence            5689999999999999999999889999989999999988876 579999999999999999999999875 58899999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++..+......++..|+++|+.||++.++|..++..++++
T Consensus        84 s~~~~~~~~~~~~~~Ga~~~l~kp~~~~~L~~~i~~~~~~  123 (240)
T CHL00148         84 TALGDVSDRITGLELGADDYVVKPFSPKELEARIRSVLRR  123 (240)
T ss_pred             ECCCCHHhHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHhh
Confidence            9999888889999999999999999999999999887653

>PRK09483 response regulator; Provisional

Probab=99.79  E-value=1.5e-17  Score=114.94  Aligned_cols=118  Identities=28%  Similarity=0.386  Sum_probs=108.5

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHc-CCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSL-GFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (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            57999999999999999999874 78876 78899999998877 67999999999999999999999998888899999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++...+......++..|+++|+.||++.+++..++++++.+
T Consensus        81 ls~~~~~~~~~~~~~~g~~~~l~k~~~~~~l~~~i~~~~~g  121 (217)
T PRK09483         81 LTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSG  121 (217)
T ss_pred             EeCCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHCC
Confidence            99999999999999999999999999999999999988764

>PRK10430 DNA-binding transcriptional activator DcuR; Provisional

Probab=99.79  E-value=1.4e-17  Score=117.42  Aligned_cols=116  Identities=18%  Similarity=0.308  Sum_probs=103.8

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHH-cCCeEE-EEcCHHHHHHHHHc-CCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKS-LGFKVE-VAENGKEAVDLFRS-GAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~-~g~~v~-~~~~~~~al~~~~~-~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (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            5799999999999999999986 477755 78899999888752 24699999999999999999999999888889999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      ++++..+......++..|+++|+.||++.++|...+.+.
T Consensus        82 ~ls~~~~~~~~~~al~~Ga~~yl~Kp~~~~~l~~~i~~~  120 (239)
T PRK10430         82 VISSAADAATIKDSLHYGVVDYLIKPFQASRFEEALTGW  120 (239)
T ss_pred             EEECCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHH
Confidence            999999999999999999999999999999999999764

>PRK11517 transcriptional regulatory protein YedW; Provisional

Probab=99.79  E-value=1.8e-17  Score=114.81  Aligned_cols=117  Identities=16%  Similarity=0.362  Sum_probs=107.4

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            368999999999999999999999999999999999998876 679999999999999999999999875 478999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +..+......++..|+++|+.||++.+++..+++.++++
T Consensus        79 ~~~~~~~~~~a~~~Ga~~~l~kp~~~~~l~~~i~~~~~~  117 (223)
T PRK11517         79 ARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQ  117 (223)
T ss_pred             CCCCHHHHHHHHhcCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            999999999999999999999999999999999887653

>TIGR01387 cztR_silR_copR heavy metal response regulator

Probab=99.79  E-value=1.6e-17  Score=114.51  Aligned_cols=116  Identities=24%  Similarity=0.419  Sum_probs=107.7

Q ss_pred             EEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCC
Q 048318           28 ALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSL  107 (145)
Q Consensus        28 iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~  107 (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            5899999999999999999999999899999999998876 679999999999999999999999987788999999999


Q ss_pred             CCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          108 NSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       108 ~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      .+......++..|+++|+.||++.+++..++..++++
T Consensus        80 ~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~  116 (218)
T TIGR01387        80 DSVADKVKGLDLGADDYLVKPFSFSELLARVRTLLRR  116 (218)
T ss_pred             CCHHHHHHHHHcCCCeEEECCCCHHHHHHHHHHHhcc
Confidence            9999999999999999999999999999999887654

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.

>PLN03029 type-a response regulator protein; Provisional

Probab=99.79  E-value=1.6e-17  Score=116.17  Aligned_cols=119  Identities=21%  Similarity=0.357  Sum_probs=104.8

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcC-------------------CCccEEEEecCCCCCC
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSG-------------------AKFDIVFIDKEMPVMN   84 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~-------------------~~~dlvl~d~~~~~~~   84 (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            457899999999999999999999999999999999999988531                   1367999999999999


Q ss_pred             HHHHHHHHHhcC--CcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318           85 GIEATREIRSMG--IKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus        85 ~~~~~~~l~~~~--~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      |+++++.+++..  ..+|+|++++.........+++.|+++|+.||++..+|...+..++
T Consensus        87 G~e~l~~ir~~~~~~~ipvIils~~~~~~~~~~al~~Ga~dyl~KP~~~~~L~~l~~~~~  146 (222)
T PLN03029         87 GYDLLKKIKESSSLRNIPVVIMSSENVPSRITRCLEEGAEEFFLKPVQLSDLNRLKPHMM  146 (222)
T ss_pred             HHHHHHHHHhccccCCCcEEEEeCCCCHHHHHHHHHhCchheEECCCCHHHHHHHHHHHH
Confidence            999999999753  4789999999999999999999999999999999999877665443

>PRK11466 hybrid sensory histidine kinase TorS; Provisional

Probab=99.78  E-value=1.2e-17  Score=136.73  Aligned_cols=120  Identities=16%  Similarity=0.271  Sum_probs=111.2

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (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            35689999999999999999999999999999999999998864346899999999999999999999998888999999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      +++.........++..|+++|+.||++.++|...+.++++
T Consensus       760 ~t~~~~~~~~~~~~~~g~~~~l~KP~~~~~L~~~i~~~~~  799 (914)
T PRK11466        760 FSAHVIDETLRQRTSSLFRGIIPKPVPREVLGQLLAHYLQ  799 (914)
T ss_pred             EeCCCchhhHHHHHhcCcCCEEeCCCCHHHHHHHHHHHhh
Confidence            9999999989999999999999999999999999988765

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

Probab=99.78  E-value=5.1e-18  Score=136.51  Aligned_cols=120  Identities=31%  Similarity=0.535  Sum_probs=111.7

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc-CCcceEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM-GIKIKIV  102 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~-~~~~~iv  102 (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            467899999999999999999999999999999999999999844689999999999999999999999973 3689999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (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

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

Probab=99.77  E-value=4.4e-18  Score=120.12  Aligned_cols=116  Identities=28%  Similarity=0.414  Sum_probs=104.3

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            368999999999999999999999777799999999999988 7899999999999999999999999998999999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +...  ...+.+...+++|+.||++.+.|-++|.++..+
T Consensus        80 sh~e--ya~dsf~~n~~dYl~KPvt~ekLnraIdr~~k~  116 (361)
T COG3947          80 SHAE--YADDSFGMNLDDYLPKPVTPEKLNRAIDRRLKR  116 (361)
T ss_pred             cchh--hhhhhcccchHhhccCCCCHHHHHHHHHHHhcc
Confidence            8654  445566667799999999999999999988753

>PRK11107 hybrid sensory histidine kinase BarA; Provisional

Probab=99.77  E-value=3.4e-17  Score=133.88  Aligned_cols=119  Identities=27%  Similarity=0.400  Sum_probs=110.5

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKI  101 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~i  101 (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            35789999999999999999999999999999999999999987 689999999999999999999999974  457899


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      |++++.........+++.|+++|+.||++..+|...+.+...
T Consensus       745 i~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~  786 (919)
T PRK11107        745 IAVTAHAMAGERERLLSAGMDDYLAKPIDEAMLKQVLLRYKP  786 (919)
T ss_pred             EEEeCCCCHHHHHHHHHcCCCeEeeCCCCHHHHHHHHHHHcc
Confidence            999999999999999999999999999999999999988764

>PRK15347 two component system sensor kinase SsrA; Provisional

Probab=99.76  E-value=3.5e-17  Score=133.87  Aligned_cols=118  Identities=32%  Similarity=0.427  Sum_probs=109.1

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc----CCcc
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM----GIKI   99 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~----~~~~   99 (145)
                      .+++||++||++..+..+...|+..||.+.++.++.+|++.+.. ..||+|++|+.||+++|.++++.+++.    .+.+
T Consensus       689 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~-~~~dlil~D~~mp~~~G~~~~~~ir~~~~~~~~~~  767 (921)
T PRK15347        689 WQLQILLVDDVETNRDIIGMMLVELGQQVTTAASGTEALELGRQ-HRFDLVLMDIRMPGLDGLETTQLWRDDPNNLDPDC  767 (921)
T ss_pred             ccCCEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhchhhcCCCC
Confidence            35689999999999999999999999999999999999999887 679999999999999999999999863    3678


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      |||++++..+......+++.|+++|+.||++.++|..++.++.
T Consensus       768 pii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~  810 (921)
T PRK15347        768 MIVALTANAAPEEIHRCKKAGMNHYLTKPVTLAQLARALELAA  810 (921)
T ss_pred             cEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999998764

>PRK09935 transcriptional regulator FimZ; Provisional

Probab=99.76  E-value=1e-16  Score=109.95  Aligned_cols=119  Identities=15%  Similarity=0.255  Sum_probs=107.4

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHc-CCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSL-GFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (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            467999999999999999999876 57776 68899999888876 6799999999999999999999999877789999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++++..+......++..|+++|+.||++.++|...++.++.+
T Consensus        82 ~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~l~~  123 (210)
T PRK09935         82 FLSSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSG  123 (210)
T ss_pred             EEECCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHcC
Confidence            999999888899999999999999999999999999887664

>PRK15115 response regulator GlrR; Provisional

Probab=99.76  E-value=4.7e-17  Score=124.11  Aligned_cols=118  Identities=29%  Similarity=0.392  Sum_probs=110.3

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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            4679999999999999999999999999999999999998876 679999999999999999999999988888999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      ++..+......++..|+++|+.||++.++|...+.++++
T Consensus        84 t~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~l~~~~~  122 (444)
T PRK15115         84 TAHGSIPDAVAATQQGVFSFLTKPVDRDALYKAIDDALE  122 (444)
T ss_pred             ECCCCHHHHHHHHhcChhhhccCCCCHHHHHHHHHHHHH
Confidence            999988889999999999999999999999999988764

>TIGR02875 spore_0_A sporulation transcription factor Spo0A

Probab=99.76  E-value=9.1e-17  Score=114.64  Aligned_cols=118  Identities=19%  Similarity=0.358  Sum_probs=105.8

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHc-CCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCc--ce
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSL-GFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIK--IK  100 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~--~~  100 (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            468999999999999999999864 56655 78999999999887 679999999999999999999999986554  78


Q ss_pred             EEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          101 IVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       101 iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      ++++++..+......+++.|+++|+.||++.++|..++.+++.
T Consensus        81 iI~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~~~  123 (262)
T TIGR02875        81 VIMLSAFGQEKITQRAVALGADYYVLKPFDLEILAARIRQLAW  123 (262)
T ss_pred             EEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHc
Confidence            9999999999999999999999999999999999999988764

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.

>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS

Probab=99.76  E-value=4.6e-17  Score=133.87  Aligned_cols=118  Identities=21%  Similarity=0.410  Sum_probs=110.0

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCc---ceE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIK---IKI  101 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~---~~i  101 (145)
                      +.+||++||++..+..+...|+..||.+.++.++.++++.+.. ..||+||+|+.||+++|+++++.+++..+.   +|+
T Consensus       702 ~~~iLvvdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-~~~dlvl~D~~mp~~~g~~~~~~ir~~~~~~~~~pi  780 (968)
T TIGR02956       702 PQRVLLVEDNEVNQMVAQGFLTRLGHKVTLAESGQSALECFHQ-HAFDLALLDINLPDGDGVTLLQQLRAIYGAKNEVKF  780 (968)
T ss_pred             ccceEEEcCcHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHC-CCCCEEEECCCCCCCCHHHHHHHHHhCccccCCCeE
Confidence            3479999999999999999999999999999999999999987 679999999999999999999999986554   899


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      |++++.........++..|+++|+.||++.++|...+.+++.
T Consensus       781 i~lta~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~  822 (968)
T TIGR02956       781 IAFSAHVFNEDVAQYLAAGFDGFLAKPVVEEQLTAMIAVILA  822 (968)
T ss_pred             EEEECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999999988764

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).

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=99.75  E-value=6.8e-17  Score=123.02  Aligned_cols=118  Identities=29%  Similarity=0.437  Sum_probs=109.9

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      +++|+|+||++..+..+...|+..||.+.++.++.+++..+.. ..||+|++|+.||+++|.++++.++...+.+|+|++
T Consensus         5 ~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~-~~~DlvilD~~m~~~~G~~~~~~ir~~~~~~~vi~l   83 (441)
T PRK10365          5 NIDILVVDDDISHCTILQALLRGWGYNVALANSGRQALEQVRE-QVFDLVLCDVRMAEMDGIATLKEIKALNPAIPVLIM   83 (441)
T ss_pred             cceEEEEECCHHHHHHHHHHHHHCCCeEEEeCCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhhCCCCeEEEE
Confidence            4789999999999999999999999999999999999998876 579999999999999999999999988888999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      ++..+......+++.|+.+|+.||++.++|...+.++++
T Consensus        84 t~~~~~~~~~~a~~~ga~~~l~Kp~~~~~L~~~l~~~l~  122 (441)
T PRK10365         84 TAYSSVETAVEALKTGALDYLIKPLDFDNLQATLEKALA  122 (441)
T ss_pred             ECCCCHHHHHHHHHhhhHHHhcCCCCHHHHHHHHHHHHH
Confidence            999888899999999999999999999999999987654

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

Probab=99.75  E-value=9.4e-17  Score=123.21  Aligned_cols=117  Identities=26%  Similarity=0.353  Sum_probs=109.7

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            479999999999999999999999999999999999999987 6799999999999999999999999887889999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      +..+......+++.|+++|+.||++.+++...+.+++.
T Consensus        83 ~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~l~  120 (469)
T PRK10923         83 AHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAIS  120 (469)
T ss_pred             CCCCHHHHHHHHhcCcceEEecCCcHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999987764

>PRK15479 transcriptional regulatory protein TctD; Provisional

Probab=99.75  E-value=2.7e-16  Score=108.63  Aligned_cols=118  Identities=23%  Similarity=0.382  Sum_probs=107.8

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            368999999999999999999889998899999999888776 5799999999999999999999999877789999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +..+......++..|+++|+.||++.+++...+..++++
T Consensus        80 ~~~~~~~~~~~~~~g~~~~i~kp~~~~~l~~~i~~~~~~  118 (221)
T PRK15479         80 ARSAVADRVKGLNVGADDYLPKPFELEELDARLRALLRR  118 (221)
T ss_pred             CCCCHHHHHHHHHcCCCeeEeCCCCHHHHHHHHHHHHhh
Confidence            998888889999999999999999999999999887653

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=99.74  E-value=1.4e-16  Score=121.79  Aligned_cols=118  Identities=27%  Similarity=0.421  Sum_probs=109.3

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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            4479999999999999999999999999999999999998877 679999999999999999999999987788999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      ++..+......+++.|+++|+.||++.++|...+.+++.
T Consensus        83 t~~~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~l~  121 (457)
T PRK11361         83 TAYAEVETAVEALRCGAFDYVIKPFDLDELNLIVQRALQ  121 (457)
T ss_pred             eCCCCHHHHHHHHHCCccEEEecccCHHHHHHHHhhhcc
Confidence            999999999999999999999999999999998876653

>PRK10710 DNA-binding transcriptional regulator BaeR; Provisional

Probab=99.74  E-value=4.1e-16  Score=109.16  Aligned_cols=116  Identities=23%  Similarity=0.332  Sum_probs=106.0

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            379999999999999999999999999999999999998876 57999999999999999999999986 4578999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      ...+......++..|+++|+.||++.++|..++..+++
T Consensus        89 ~~~~~~~~~~~~~~ga~~~l~kp~~~~~L~~~i~~~~~  126 (240)
T PRK10710         89 AKIEEIDRLLGLEIGADDYICKPYSPREVVARVKTILR  126 (240)
T ss_pred             cCCCHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHHh
Confidence            98888888899999999999999999999999987765

>PRK10360 DNA-binding transcriptional activator UhpA; Provisional

Probab=99.74  E-value=3.1e-16  Score=106.74  Aligned_cols=115  Identities=18%  Similarity=0.255  Sum_probs=102.3

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHc-CCe-EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSL-GFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~-g~~-v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      ++|+++++++..+..+...|+.. ++. +..+.+..+++..+.. ..||++++|+.+++.+|.++++.++.   ..|+++
T Consensus         2 ~~ilivd~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~l~~~~~-~~~dlvi~d~~~~~~~g~~~~~~l~~---~~~vi~   77 (196)
T PRK10360          2 ITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPG-RGVQVCICDISMPDISGLELLSQLPK---GMATIM   77 (196)
T ss_pred             eEEEEECCcHHHHHHHHHHHccCCCcEEEEEECCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHcc---CCCEEE
Confidence            47999999999999999999754 666 4588999999998876 57999999999999999999988863   578999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++...+......++..|+++|+.||++.+++..+++++.++
T Consensus        78 ~s~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~~  118 (196)
T PRK10360         78 LSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATG  118 (196)
T ss_pred             EECCCCHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999988764

>PRK14084 two-component response regulator; Provisional

Probab=99.74  E-value=3.2e-16  Score=110.76  Aligned_cols=115  Identities=24%  Similarity=0.334  Sum_probs=100.2

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcC-C-eEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLG-F-KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g-~-~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (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            468999999999999999998765 4 36688999999998876 57999999999999999999999998777778888


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      +++..  ....++++.|+.+|+.||++.++|...++++..
T Consensus        80 ~t~~~--~~~~~~~~~~~~~yl~KP~~~~~l~~~l~~~~~  117 (246)
T PRK14084         80 ATAHD--QFAVKAFELNATDYILKPFEQKRIEQAVNKVRA  117 (246)
T ss_pred             EecCh--HHHHHHHhcCCcEEEECCCCHHHHHHHHHHHHH
Confidence            87754  356788999999999999999999999988764

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=99.73  E-value=1.6e-16  Score=121.20  Aligned_cols=113  Identities=19%  Similarity=0.303  Sum_probs=104.4

Q ss_pred             EEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCC-----CCHHHHHHHHHhcCCcceEE
Q 048318           28 ALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPV-----MNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        28 iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~-----~~~~~~~~~l~~~~~~~~iv  102 (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     79999999999888899999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      ++++..+......+++.|+++|+.||++.++|..++.++++
T Consensus        78 ~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~~~  118 (445)
T TIGR02915        78 VITGNDDRENAVKAIGLGAYDFYQKPIDPDVLKLIVDRAFH  118 (445)
T ss_pred             EEecCCCHHHHHHHHHCCccEEEeCCCCHHHHHHHHhhhhh
Confidence            99999999999999999999999999999999999877654

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).

>PRK11091 aerobic respiration control sensor protein ArcB; Provisional

Probab=99.73  E-value=2.1e-16  Score=127.67  Aligned_cols=118  Identities=29%  Similarity=0.498  Sum_probs=105.3

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcC--Cc-ce
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMG--IK-IK  100 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~--~~-~~  100 (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            35789999999999999999999999999999999999999876 6799999999999999999999999865  44 48


Q ss_pred             EEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          101 IVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       101 iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      +|++++.... ....++..|+++|+.||++.++|...+.+++.
T Consensus       603 ii~~ta~~~~-~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~  644 (779)
T PRK11091        603 LVALTANVLK-DKKEYLDAGMDDVLSKPLSVPALTAMIKKFWD  644 (779)
T ss_pred             EEEEECCchH-hHHHHHHCCCCEEEECCCCHHHHHHHHHHHhc
Confidence            8888877654 46788999999999999999999999988764

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=99.73  E-value=2.5e-16  Score=120.68  Aligned_cols=115  Identities=23%  Similarity=0.326  Sum_probs=107.2

Q ss_pred             EEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCC
Q 048318           28 ALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSL  107 (145)
Q Consensus        28 iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~  107 (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            5899999999999999999999999999999999998876 579999999999999999999999988788999999999


Q ss_pred             CCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          108 NSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       108 ~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      .+......++..|+++|+.||++.++|...+.+++.
T Consensus        80 ~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~l~  115 (463)
T TIGR01818        80 SDLDTAVAAYQRGAFEYLPKPFDLDEAVTLVERALA  115 (463)
T ss_pred             CCHHHHHHHHHcCcceeecCCCCHHHHHHHHHHHHH
Confidence            988889999999999999999999999999987654

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.

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

Probab=99.73  E-value=2.6e-16  Score=131.94  Aligned_cols=117  Identities=31%  Similarity=0.515  Sum_probs=109.8

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      +.+|||+||++..+..+...|+..||.+..+.++.+++..+.. ..||+|++|+.||+++|.++++.+++..+.+|++++
T Consensus       958 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~dlil~D~~mp~~~g~~~~~~i~~~~~~~pii~l 1036 (1197)
T PRK09959        958 KLSILIADDHPTNRLLLKRQLNLLGYDVDEATDGVQALHKVSM-QHYDLLITDVNMPNMDGFELTRKLREQNSSLPIWGL 1036 (1197)
T ss_pred             CceEEEcCCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHhhc-CCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEEEE
Confidence            5689999999999999999999999999999999999999977 679999999999999999999999988788999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      ++..+......+++.|+++|+.||++.++|...+.++.
T Consensus      1037 t~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~ 1074 (1197)
T PRK09959       1037 TANAQANEREKGLSCGMNLCLFKPLTLDVLKTHLSQLH 1074 (1197)
T ss_pred             ECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHh
Confidence            99999999999999999999999999999999987654

>PRK09390 fixJ response regulator FixJ; Provisional

Probab=99.72  E-value=5.9e-16  Score=105.01  Aligned_cols=118  Identities=25%  Similarity=0.367  Sum_probs=108.0

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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            3579999999999999999999899999999999999988876 579999999999999999999999987788999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      +...+......++..|+++|+.||++.+++...+..++.
T Consensus        82 ~~~~~~~~~~~~~~~g~~~~l~~p~~~~~l~~~l~~~~~  120 (202)
T PRK09390         82 TGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALA  120 (202)
T ss_pred             ECCCCHHHHHHHHHcChHHHhhCCCCHHHHHHHHHHHHH
Confidence            999998999999999999999999999999988887664

>PRK09581 pleD response regulator PleD; Reviewed

Probab=99.70  E-value=4.4e-16  Score=118.22  Aligned_cols=118  Identities=17%  Similarity=0.234  Sum_probs=106.1

Q ss_pred             cCCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcce
Q 048318           23 NLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIK  100 (145)
Q Consensus        23 ~~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~  100 (145)
                      ..+.+||++||++..+..+...|.. ++.+..+.++.+++..+.. ..||+|++|+.||+++|.++++.+++.  .+.+|
T Consensus       153 ~~~~~vlivdd~~~~~~~l~~~l~~-~~~~~~~~~~~~a~~~~~~-~~~d~vi~d~~~p~~~g~~l~~~i~~~~~~~~~~  230 (457)
T PRK09581        153 DEDGRILLVDDDVSQAERIANILKE-EFRVVVVSDPSEALFNAAE-TNYDLVIVSANFENYDPLRLCSQLRSKERTRYVP  230 (457)
T ss_pred             ccCceEEEEecccchHHHHHHHHhh-cceeeeecChHHHHHhccc-CCCCEEEecCCCCCchHhHHHHHHHhccccCCCc
Confidence            3466899999999999999999965 4677789999999998776 679999999999999999999999974  47899


Q ss_pred             EEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318          101 IVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus       101 iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      ++++++..+......+++.|+++|+.||++.++|..++....
T Consensus       231 ii~ls~~~~~~~~~~a~~~Ga~d~l~kp~~~~~l~~~i~~~~  272 (457)
T PRK09581        231 ILLLVDEDDDPRLVKALELGVNDYLMRPIDKNELLARVRTQI  272 (457)
T ss_pred             EEEEeCCCChHHHHHHHHccchhhhhCCCcHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999887644

>PRK09581 pleD response regulator PleD; Reviewed

Probab=99.70  E-value=1.9e-15  Score=114.78  Aligned_cols=117  Identities=29%  Similarity=0.360  Sum_probs=107.3

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcC--CcceEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMG--IKIKIVG  103 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~--~~~~iv~  103 (145)
                      .+||++++++..+..+...|...||.+..+.+..+++..+.. ..||+|++|..+++.+|.++++.+++..  +.+|+|+
T Consensus         3 ~~ilii~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~-~~~dlvi~d~~~~~~~g~~l~~~i~~~~~~~~~~ii~   81 (457)
T PRK09581          3 ARILVVDDIPANVKLLEAKLLAEYYTVLTASSGAEAIAICER-EQPDIILLDVMMPGMDGFEVCRRLKSDPATTHIPVVM   81 (457)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHhCCCEEEEeCCHHHHHHHHhh-cCCCEEEEeCCCCCCCHHHHHHHHHcCcccCCCCEEE
Confidence            479999999999999999998889999999999999999877 6799999999999999999999998743  4689999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      +++..+......++..|+++|+.||++.++|..++.++.+
T Consensus        82 ~s~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~  121 (457)
T PRK09581         82 VTALDDPEDRVRGLEAGADDFLTKPINDVALFARVKSLTR  121 (457)
T ss_pred             EECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999987654

>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional

Probab=99.70  E-value=1.2e-15  Score=106.27  Aligned_cols=114  Identities=11%  Similarity=0.057  Sum_probs=95.5

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCe-EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHH-HHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEAT-REIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~-v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~-~~l~~~~~~~~iv  102 (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            4469999999999999999997 4455 447778888887642   49999999999999999997 5688888899999


Q ss_pred             EEeCCCCHHHHHHHHH--hCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQ--AGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~--~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++...+..  ..++.  .|+.+|+.|+.+.++|...|+.+.+|
T Consensus        86 vlt~~~~~~--~~~~~~~~Ga~G~l~K~~~~~~L~~aI~~v~~G  127 (216)
T PRK10100         86 LLNTPEDYP--YREIENWPHINGVFYAMEDQERVVNGLQGVLRG  127 (216)
T ss_pred             EEECCchhH--HHHHHHhcCCeEEEECCCCHHHHHHHHHHHHcC
Confidence            999987633  34444  59999999999999999999988875

>PRK10610 chemotaxis regulatory protein CheY; Provisional

Probab=99.69  E-value=8.6e-15  Score=91.77  Aligned_cols=119  Identities=32%  Similarity=0.439  Sum_probs=105.5

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCe-EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcC--CcceE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMG--IKIKI  101 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~-v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~--~~~~i  101 (145)
                      +++++++++++.....+...|+..|+. +..+.+..+++..+.. ..||++++|..+++.++.++++.++...  +..|+
T Consensus         5 ~~~il~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~di~l~d~~~~~~~~~~~~~~l~~~~~~~~~~~   83 (129)
T PRK10610          5 ELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQA-GGFGFVISDWNMPNMDGLELLKTIRADGAMSALPV   83 (129)
T ss_pred             cceEEEEcCCHHHHHHHHHHHHHcCCCeEEEeCCHHHHHHHhhc-cCCCEEEEcCCCCCCCHHHHHHHHHhCCCcCCCcE
Confidence            467899999999999999999988885 6688899999888876 5799999999999999999999998753  46788


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++++...+......++..|+++|+.||++..++...+++++++
T Consensus        84 i~~~~~~~~~~~~~~~~~g~~~~i~~p~~~~~l~~~l~~~~~~  126 (129)
T PRK10610         84 LMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIFEK  126 (129)
T ss_pred             EEEECCCCHHHHHHHHHhCCCeEEECCCCHHHHHHHHHHHHHH
Confidence            9898888888888999999999999999999999999887754

>PRK10651 transcriptional regulator NarL; Provisional

Probab=99.69  E-value=4.6e-15  Score=101.89  Aligned_cols=119  Identities=24%  Similarity=0.341  Sum_probs=106.6

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHc-CCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSL-GFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (145)
                      ..+|+++++++.....+...|... ++.+. .+.+..+++..+.. ..||++++|+.+++.+|.++++.++...+..|++
T Consensus         6 ~~~iliv~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~dlvl~d~~l~~~~~~~~~~~l~~~~~~~~vi   84 (216)
T PRK10651          6 PATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAES-LDPDLILLDLNMPGMNGLETLDKLREKSLSGRIV   84 (216)
T ss_pred             ceEEEEECCCHHHHHHHHHHHccCCCcEEEEEeCCHHHHHHHHHh-CCCCEEEEeCCCCCCcHHHHHHHHHHhCCCCcEE
Confidence            467999999999999999999764 56654 68899999998876 5799999999999999999999999877788999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++...+......++..|+++|+.||++.++|...+..++.+
T Consensus        85 ~l~~~~~~~~~~~~~~~g~~~~i~k~~~~~~l~~~i~~~~~~  126 (216)
T PRK10651         85 VFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAG  126 (216)
T ss_pred             EEeCCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHCC
Confidence            999998888899999999999999999999999999988754

>PRK10403 transcriptional regulator NarP; Provisional

Probab=99.69  E-value=5.4e-15  Score=101.41  Aligned_cols=118  Identities=25%  Similarity=0.350  Sum_probs=105.3

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHH-cCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKS-LGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~-~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (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            46799999999999999999975 477775 68899999988776 5799999999999999999999999887788999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      +++...+......+++.|+++|+.||++..+|...++.+..
T Consensus        85 ~l~~~~~~~~~~~~~~~g~~~~i~kp~~~~~l~~~i~~~~~  125 (215)
T PRK10403         85 ILTVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAK  125 (215)
T ss_pred             EEeCCCChHHHHHHHHcCCCeEEecCCCHHHHHHHHHHHhC
Confidence            99988888888899999999999999999999999987654

>PRK11475 DNA-binding transcriptional activator BglJ; Provisional

Probab=99.68  E-value=1.4e-15  Score=105.17  Aligned_cols=106  Identities=10%  Similarity=0.052  Sum_probs=90.4

Q ss_pred             HHHHHHHHHH---cCCeEEEEcCHHHHHHHHHcCCCccEEE---EecCCCCCCHHHHHHHHHhcCCcceEEEEeCCCCHH
Q 048318           38 RTIHSMALKS---LGFKVEVAENGKEAVDLFRSGAKFDIVF---IDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEA  111 (145)
Q Consensus        38 ~~~l~~~L~~---~g~~v~~~~~~~~al~~~~~~~~~dlvl---~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~  111 (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   35666789999999998876 5799998   677889999999999999989999999999887676


Q ss_pred             HHHHHH-HhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          112 EREAFM-QAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       112 ~~~~~~-~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ....++ +.|+++|+.||.+.++|...|+.++++
T Consensus        82 ~~~~~~~~~Ga~gyl~K~~~~~eL~~aI~~v~~G  115 (207)
T PRK11475         82 RLIGSLSPSPLDGVLSKASTLEILQQELFLSLNG  115 (207)
T ss_pred             HHHHHHHHcCCeEEEecCCCHHHHHHHHHHHHCC
Confidence            555554 799999999999999999999998875

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

Probab=99.68  E-value=4.2e-15  Score=104.45  Aligned_cols=114  Identities=23%  Similarity=0.275  Sum_probs=96.1

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcC-CeE-EEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLG-FKV-EVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g-~~v-~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (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            589999999999999999998877 443 478899999998876 579999999999999999999988643 2346777


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      +|+..  +....+++.|+.+|+.||++.++|...+.++.+
T Consensus        80 vt~~~--~~~~~a~~~~~~~yl~KP~~~~~l~~~l~~~~~  117 (238)
T PRK11697         80 VTAFD--EYAIKAFEEHAFDYLLKPIDPARLAKTLARLRQ  117 (238)
T ss_pred             EeccH--HHHHHHHhcCCcEEEECCCCHHHHHHHHHHHHH
Confidence            77654  456788999999999999999999999988754

>PRK13435 response regulator; Provisional

Probab=99.68  E-value=5.7e-15  Score=96.41  Aligned_cols=115  Identities=21%  Similarity=0.243  Sum_probs=98.8

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCC-CCCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMP-VMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~-~~~~~~~~~~l~~~~~~~~iv  102 (145)
                      +++|+++++++.....+...|+..|+.+. .+++..+++..+.. ..||++++|..++ +.++.++++.++.. +.+|++
T Consensus         5 ~~~iliid~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~dliivd~~~~~~~~~~~~~~~l~~~-~~~pii   82 (145)
T PRK13435          5 QLKVLIVEDEALIALELEKLVEEAGHEVVGIAMSSEQAIALGRR-RQPDVALVDVHLADGPTGVEVARRLSAD-GGVEVV   82 (145)
T ss_pred             cceEEEEcCcHHHHHHHHHHHHhcCCeEEEeeCCHHHHHHHhhh-cCCCEEEEeeecCCCCcHHHHHHHHHhC-CCCCEE
Confidence            46899999999999999999998899977 78999999988866 5799999999997 47899999998764 478999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++...+.   ..+...|+++|+.||++.++|...|++++.+
T Consensus        83 ~ls~~~~~---~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~~  121 (145)
T PRK13435         83 FMTGNPER---VPHDFAGALGVIAKPYSPRGVARALSYLSAR  121 (145)
T ss_pred             EEeCCHHH---HHHHhcCcceeEeCCCCHHHHHHHHHHHHhc
Confidence            88875432   4567899999999999999999999888754

>PRK13558 bacterio-opsin activator; Provisional

Probab=99.67  E-value=2e-15  Score=120.19  Aligned_cols=117  Identities=17%  Similarity=0.082  Sum_probs=104.3

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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            4689999999999999999998889999999999999998876 579999999999999999999999988888999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHH--HHHHHHHHHH
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVD--KILPLMEDLM  142 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~--~L~~~i~~~~  142 (145)
                      ++..+......++..|+++|+.||.+..  .+..++...+
T Consensus        86 t~~~~~~~~~~al~~Ga~dyl~k~~~~~~~~l~~~i~~~~  125 (665)
T PRK13558         86 PTAGDEAVARRAVDADAAAYVPAVSDDATAAIAERIESAV  125 (665)
T ss_pred             ECCCCHHHHHHHHhcCcceEEeccchhHHHHHHHHHHHhh
Confidence            9999999999999999999999997643  5556665444

>PRK15369 two component system sensor kinase SsrB; Provisional

Probab=99.67  E-value=1e-14  Score=99.46  Aligned_cols=119  Identities=22%  Similarity=0.245  Sum_probs=105.7

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHc-CCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSL-GFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (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            467999999999999999999875 46655 78899999888776 5799999999999999999999999877788999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++...+......++..|+++|+.||++..+|...+..+..+
T Consensus        82 ~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~  123 (211)
T PRK15369         82 VLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVG  123 (211)
T ss_pred             EEeCCCCHHHHHHHHHhCCCEEEeCCCCHHHHHHHHHHHHCC
Confidence            999999888899999999999999999999999999877653

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

Probab=99.67  E-value=6.3e-15  Score=102.08  Aligned_cols=116  Identities=15%  Similarity=0.169  Sum_probs=96.8

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcC--CeE-EEEcCHHHHHHHHHcCCCccEEEEecC--CCCCCHHHHHHHHHhcCCcceE
Q 048318           27 FALVVDDDCFIRTIHSMALKSLG--FKV-EVAENGKEAVDLFRSGAKFDIVFIDKE--MPVMNGIEATREIRSMGIKIKI  101 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g--~~v-~~~~~~~~al~~~~~~~~~dlvl~d~~--~~~~~~~~~~~~l~~~~~~~~i  101 (145)
                      .|+|+||++..+..++..|+..+  +.+ ..+.++++++..+.. ..||++++|+.  ++..+|.++++.+++..|.+++
T Consensus         2 ~~lIvDD~~~~~~gl~~~L~~~~~~~~vv~~~~~~~~~~~~~~~-~~pDlvLlDl~~~l~~~~g~~~i~~i~~~~p~~~i   80 (207)
T PRK15411          2 STIIMDLCSYTRLGLTGYLLSRGVKKREINDIETVDDLAIACDS-LRPSVVFINEDCFIHDASNSQRIKQIINQHPNTLF   80 (207)
T ss_pred             CEEEEcCCHHHHHHHHHHHHhCCCcceEEEecCCHHHHHHHHhc-cCCCEEEEeCcccCCCCChHHHHHHHHHHCCCCeE
Confidence            58999999999999999998655  344 478999999998876 57999999966  7777899999999998889999


Q ss_pred             EEEeCCCCHHHHHHHHHhCCce-eecCCCCHHHHHHHHHHHHhc
Q 048318          102 VGVTSLNSEAEREAFMQAGLDL-CHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~-~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++++..+..... ++..|+.. |+.|+.++++|...++.+..+
T Consensus        81 ivlt~~~~~~~~~-~~~~~~~~~~~~K~~~~~~L~~aI~~v~~g  123 (207)
T PRK15411         81 IVFMAIANIHFDE-YLLVRKNLLISSKSIKPESLDDLLGDILKK  123 (207)
T ss_pred             EEEECCCchhHHH-HHHHHhhceeeeccCCHHHHHHHHHHHHcC
Confidence            9999887765543 44445444 789999999999999988765

>PRK12555 chemotaxis-specific methylesterase; Provisional

Probab=99.66  E-value=5.8e-15  Score=109.10  Aligned_cols=115  Identities=28%  Similarity=0.315  Sum_probs=97.9

Q ss_pred             ceEEEEeCcHHHHHHHHHHHH-HcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALK-SLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~-~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      ++||++||++..+..++..|+ ..|+.+. .+.++.++++.+.. ..||+|++|+.+|+++|+++++.+++.. .+|+++
T Consensus         1 ~~VLvVdd~~~~~~~l~~~L~~~~~~~vv~~a~~~~eal~~l~~-~~pDlVllD~~mp~~~G~e~l~~l~~~~-~~pviv   78 (337)
T PRK12555          1 MRIGIVNDSPLAVEALRRALARDPDHEVVWVATDGAQAVERCAA-QPPDVILMDLEMPRMDGVEATRRIMAER-PCPILI   78 (337)
T ss_pred             CEEEEEeCCHHHHHHHHHHHhhCCCCEEEEEECCHHHHHHHHhc-cCCCEEEEcCCCCCCCHHHHHHHHHHHC-CCcEEE
Confidence            368999999999999999995 5688876 78999999999987 6799999999999999999999998754 478888


Q ss_pred             EeCCCC--HHHHHHHHHhCCceeecCCC---------CHHHHHHHHHHHH
Q 048318          104 VTSLNS--EAEREAFMQAGLDLCHTKPL---------SVDKILPLMEDLM  142 (145)
Q Consensus       104 l~~~~~--~~~~~~~~~~g~~~~l~kP~---------~~~~L~~~i~~~~  142 (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  45667889999999999999         5677777777654

>PRK00742 chemotaxis-specific methylesterase; Provisional

Probab=99.65  E-value=9.8e-15  Score=108.53  Aligned_cols=116  Identities=28%  Similarity=0.375  Sum_probs=98.1

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHc-CCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSL-GFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (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 78877 88999999998876 57999999999999999999999998766 8999


Q ss_pred             EEeCCC--CHHHHHHHHHhCCceeecCCCCH---------HHHHHHHHHHH
Q 048318          103 GVTSLN--SEAEREAFMQAGLDLCHTKPLSV---------DKILPLMEDLM  142 (145)
Q Consensus       103 ~l~~~~--~~~~~~~~~~~g~~~~l~kP~~~---------~~L~~~i~~~~  142 (145)
                      +++...  .......++..|+++|+.||++.         .++..+++.+.
T Consensus        81 vls~~~~~~~~~~~~al~~Ga~d~l~kP~~~~~~~~~~~~~~l~~~i~~~~  131 (354)
T PRK00742         81 MVSSLTERGAEITLRALELGAVDFVTKPFLGISLGMDEYKEELAEKVRAAA  131 (354)
T ss_pred             EEecCCCCCHHHHHHHHhCCCcEEEeCCcccccchHHHHHHHHHHHHHHHh
Confidence            998753  34567789999999999999953         45666655543

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

Probab=99.62  E-value=3.6e-14  Score=115.57  Aligned_cols=116  Identities=15%  Similarity=0.175  Sum_probs=106.2

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcC-CCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSG-AKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~-~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      +.+||++|+++..+..+...|+..||.+..+.++.+++..+... ..||+|++  .+++++|.++++.++...+.+|||+
T Consensus       697 ~~~ILvVddd~~~~~~l~~~L~~~G~~v~~~~s~~~al~~l~~~~~~~DlVll--~~~~~~g~~l~~~l~~~~~~ipIIv  774 (828)
T PRK13837        697 GETVLLVEPDDATLERYEEKLAALGYEPVGFSTLAAAIAWISKGPERFDLVLV--DDRLLDEEQAAAALHAAAPTLPIIL  774 (828)
T ss_pred             CCEEEEEcCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHhCCCCceEEEE--CCCCCCHHHHHHHHHhhCCCCCEEE
Confidence            45799999999999999999999999999999999999988652 24799999  6899999999999998888999999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      +++.........++..| ++|+.||++..+|...+.+.++
T Consensus       775 ls~~~~~~~~~~~~~~G-~d~L~KP~~~~~L~~~l~~~l~  813 (828)
T PRK13837        775 GGNSKTMALSPDLLASV-AEILAKPISSRTLAYALRTALA  813 (828)
T ss_pred             EeCCCchhhhhhHhhcc-CcEEeCCCCHHHHHHHHHHHHc
Confidence            99999888899999999 9999999999999999998875

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

Probab=99.60  E-value=2.5e-14  Score=95.85  Aligned_cols=118  Identities=31%  Similarity=0.403  Sum_probs=99.7

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (145)
                      ++.++|++++++..+..+...|...||.++ ++.++-++.+.... ..||+||+|..+|..+..+-. .+.+..+..|+|
T Consensus         4 ~~lrvlv~~d~~i~~~~i~~~l~eag~~~Vg~~~~~~~~~~~~~~-~~pDvVildie~p~rd~~e~~-~~~~~~~~~piv   81 (194)
T COG3707           4 MLLRVLVADDEALTRMDIREGLLEAGYQRVGEAADGLEAVEVCER-LQPDVVILDIEMPRRDIIEAL-LLASENVARPIV   81 (194)
T ss_pred             cccceeeccccccchhhHHHHHHHcCCeEeeeecccccchhHHHh-cCCCEEEEecCCCCccHHHHH-HHhhcCCCCCEE
Confidence            456899999999999999999999999976 88888888888877 789999999999988833332 233445567899


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      ++++.+++.....+..+|+.+|++||+++..+...+.-+.+
T Consensus        82 ~lt~~s~p~~i~~a~~~Gv~ayivkpi~~~rl~p~L~vA~s  122 (194)
T COG3707          82 ALTAYSDPALIEAAIEAGVMAYIVKPLDESRLLPILDVAVS  122 (194)
T ss_pred             EEEccCChHHHHHHHHcCCeEEEecCcchhhhhHHHHHHHH
Confidence            99999999999999999999999999999999888865543

>PRK13557 histidine kinase; Provisional

Probab=99.59  E-value=1.1e-13  Score=107.07  Aligned_cols=121  Identities=26%  Similarity=0.327  Sum_probs=109.3

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCC-CCHHHHHHHHHhcCCcceEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPV-MNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~-~~~~~~~~~l~~~~~~~~iv  102 (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            35689999999999999999999999999999999999998865235999999999997 89999999999887889999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++...+......++..|+.+|+.||++.++|...+++++.+
T Consensus       494 ~~~~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~~~  535 (540)
T PRK13557        494 LTTGYAEASIERTDAGGSEFDILNKPYRRAELARRVRMVLDG  535 (540)
T ss_pred             EEcCCCchhhhhhhccccCCceeeCCCCHHHHHHHHHHHhcC
Confidence            999988888888889999999999999999999999988754

>PRK09191 two-component response regulator; Provisional

Probab=99.59  E-value=1.3e-13  Score=98.10  Aligned_cols=116  Identities=19%  Similarity=0.272  Sum_probs=99.1

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCC-CCHHHHHHHHHhcCCcceE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPV-MNGIEATREIRSMGIKIKI  101 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~-~~~~~~~~~l~~~~~~~~i  101 (145)
                      ...+++++++++..+..+...|+..|+.+. .+.+..+++..+.. ..||+|++|+.+++ .+|.+.++.++... ++|+
T Consensus       136 ~~~~~liidd~~~~~~~l~~~L~~~~~~~~~~~~~~~~~l~~l~~-~~~dlvi~d~~~~~~~~g~e~l~~l~~~~-~~pi  213 (261)
T PRK09191        136 VATRVLIIEDEPIIAMDLEQLVESLGHRVTGIARTRAEAVALAKK-TRPGLILADIQLADGSSGIDAVNDILKTF-DVPV  213 (261)
T ss_pred             CCCeEEEEcCcHHHHHHHHHHHhcCCCEEEEEECCHHHHHHHHhc-cCCCEEEEecCCCCCCCHHHHHHHHHHhC-CCCE
Confidence            456799999999999999999998899887 78899999998876 67999999999995 78999999998766 8899


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      |++++..+....  ....|+.+|+.||++.++|...+.++..
T Consensus       214 i~ls~~~~~~~~--~~~~~~~~~l~kP~~~~~l~~~i~~~~~  253 (261)
T PRK09191        214 IFITAFPERLLT--GERPEPAFLITKPFQPDTVKAAISQALF  253 (261)
T ss_pred             EEEeCCCcHHHH--HHhcccCceEECCCCHHHHHHHHHHHHh
Confidence            999987665433  3446788999999999999999988653

>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=99.57  E-value=2.3e-13  Score=82.15  Aligned_cols=112  Identities=36%  Similarity=0.547  Sum_probs=99.8

Q ss_pred             EEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCCC
Q 048318           29 LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLN  108 (145)
Q Consensus        29 Lii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~  108 (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            478999999999999999889999899999999988876 5799999999999999999999998876778999888777


Q ss_pred             CHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318          109 SEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus       109 ~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      .......+...|+.+|+.||++..++...+.++
T Consensus        80 ~~~~~~~~~~~~~~~~i~~p~~~~~l~~~l~~~  112 (113)
T cd00156          80 DDEDAVEALKAGADDYLTKPFSPEELLARIRAL  112 (113)
T ss_pred             cHHHHHHHHHcChhhHccCCCCHHHHHHHHHhh
Confidence            777788889999999999999999999888754

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

Probab=99.54  E-value=5.2e-13  Score=97.72  Aligned_cols=104  Identities=34%  Similarity=0.478  Sum_probs=92.2

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcC-CeE-EEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLG-FKV-EVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g-~~v-~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (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            3689999999999999999999887 554 489999999999988 789999999999999999999999876 688999


Q ss_pred             EEeCCC--CHHHHHHHHHhCCceeecCCCC
Q 048318          103 GVTSLN--SEAEREAFMQAGLDLCHTKPLS  130 (145)
Q Consensus       103 ~l~~~~--~~~~~~~~~~~g~~~~l~kP~~  130 (145)
                      ++++..  ..+...++++.|+-||+.||..
T Consensus        79 mvsslt~~g~~~t~~al~~gAvD~i~kp~~  108 (350)
T COG2201          79 MVSSLTEEGAEATLEALELGAVDFIAKPSG  108 (350)
T ss_pred             EEeccccccHHHHHHHHhcCcceeecCCCc
Confidence            887764  3566888999999999999974

>PRK10693 response regulator of RpoS; Provisional

Probab=99.49  E-value=6.1e-13  Score=97.08  Aligned_cols=88  Identities=23%  Similarity=0.410  Sum_probs=79.5

Q ss_pred             EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCC-CHH
Q 048318           54 VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPL-SVD  132 (145)
Q Consensus        54 ~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~-~~~  132 (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            46788999998877 6799999999999999999999999887889999999999999999999999999999999 589


Q ss_pred             HHHHHHHHHH
Q 048318          133 KILPLMEDLM  142 (145)
Q Consensus       133 ~L~~~i~~~~  142 (145)
                      ++..++.+.+
T Consensus        81 ~L~~~i~~~l   90 (303)
T PRK10693         81 RLREMVFACL   90 (303)
T ss_pred             HHHHHHHHHh
Confidence            9988887655

>PRK15029 arginine decarboxylase; Provisional

Probab=99.47  E-value=9.5e-13  Score=105.20  Aligned_cols=115  Identities=11%  Similarity=0.047  Sum_probs=92.0

Q ss_pred             eEEEEeCcHH--------HHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHH----HHHHHHHh
Q 048318           27 FALVVDDDCF--------IRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGI----EATREIRS   94 (145)
Q Consensus        27 ~iLii~~~~~--------~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~----~~~~~l~~   94 (145)
                      +||||||+..        ..+.++..|+..||++.++.++++++..+.....||+||+|+.+|+++|.    ++++.+|+
T Consensus         2 kILIVDDD~~~~~~~~~~i~~~L~~~Le~~G~eV~~a~s~~dAl~~l~~~~~~DlVLLD~~LPd~dG~~~~~ell~~IR~   81 (755)
T PRK15029          2 KVLIVESEFLHQDTWVGNAVERLADALSQQNVTVIKSTSFDDGFAILSSNEAIDCLMFSYQMEHPDEHQNVRQLIGKLHE   81 (755)
T ss_pred             eEEEEeCCcccccchhHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhcCCCcEEEEECCCCCCccchhHHHHHHHHHh
Confidence            6999999996        69999999999999999999999999999652369999999999999997    89999998


Q ss_pred             cCCcceEEEEeCCCC--HHHHHHHHHhCCceeecCCCC-HHHHHHHHHHHH
Q 048318           95 MGIKIKIVGVTSLNS--EAEREAFMQAGLDLCHTKPLS-VDKILPLMEDLM  142 (145)
Q Consensus        95 ~~~~~~iv~l~~~~~--~~~~~~~~~~g~~~~l~kP~~-~~~L~~~i~~~~  142 (145)
                      ..+.+|||++|+..+  ...... ...-++.|+.+--+ .+.+..++....
T Consensus        82 ~~~~iPIIlLTar~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  131 (755)
T PRK15029         82 RQQNVPVFLLGDREKALAAMDRD-LLELVDEFAWILEDTADFIAGRAVAAM  131 (755)
T ss_pred             hCCCCCEEEEEcCCcccccCCHH-HHHhhheEEEecCCCHHHHHHHHHHHH
Confidence            778999999999885  333333 33457788887544 444444455443

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

Probab=99.25  E-value=2.1e-10  Score=81.33  Aligned_cols=114  Identities=32%  Similarity=0.399  Sum_probs=96.5

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHc-CCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSL-GFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (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            57899999999999999999843 23333 78899999999887 58999999999999999999999998777788888


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      +++..  +....+++..+-+|+.||++.+.+...+.+..
T Consensus        81 vt~~~--~~a~~afev~a~d~i~kp~~~~~l~~~l~~~~  117 (244)
T COG3279          81 VTAHD--EYAVAAFEVEALDYLLKPISEERLAKTLERLR  117 (244)
T ss_pred             EEehH--HHHHHHHhHHHHhhhcCcchHHHHHHHHHHHH
Confidence            88854  44556678889999999999999999998643

>PRK11107 hybrid sensory histidine kinase BarA; Provisional

Probab=98.86  E-value=1.1e-07  Score=78.43  Aligned_cols=113  Identities=17%  Similarity=0.214  Sum_probs=92.0

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHH-Hhc-CCcceE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREI-RSM-GIKIKI  101 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l-~~~-~~~~~i  101 (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            3568999999999999999999999999998888887    333 569999999999987766554444 332 223456


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      ++++...+......+.+.|+++|+.||++..++...+...
T Consensus       610 i~~~~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~  649 (919)
T PRK11107        610 ILALPCHEQVLAEQLKQDGADACLSKPLSHTRLLPALLEP  649 (919)
T ss_pred             EEEeCCcchhhHHHHhhCCCceEECCCCCHHHHHHHHHHh
Confidence            7777878888888899999999999999999999888754

>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=98.81  E-value=1e-07  Score=59.49  Aligned_cols=107  Identities=18%  Similarity=0.100  Sum_probs=80.0

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeC
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTS  106 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~  106 (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            5899999999999999999999999888775443 233333 45676666654333 56778888888889999999888


Q ss_pred             CCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318          107 LNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus       107 ~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      .......     ..+-+-+..|+++.+|...++++
T Consensus        78 ~~~~~~~-----~nvvg~Le~Pl~Y~qLt~~L~~c  107 (109)
T PF06490_consen   78 HDSPEEL-----PNVVGELEEPLNYPQLTDALHRC  107 (109)
T ss_pred             CCccccc-----cCeeEecCCCCCHHHHHHHHHHh
Confidence            7766111     11555578899999999999875

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).

>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=98.60  E-value=9.2e-07  Score=55.75  Aligned_cols=108  Identities=16%  Similarity=0.071  Sum_probs=85.1

Q ss_pred             HHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCC--CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHH
Q 048318           37 IRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPV--MNGIEATREIRSMGIKIKIVGVTSLNSEAERE  114 (145)
Q Consensus        37 ~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~--~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~  114 (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            4567788888899999999999999999987566889999996 21  24568899999999999999999877555555


Q ss_pred             HHHHhCCceeecCC-CCHHHHHHHHHHHHhcC
Q 048318          115 AFMQAGLDLCHTKP-LSVDKILPLMEDLMKNN  145 (145)
Q Consensus       115 ~~~~~g~~~~l~kP-~~~~~L~~~i~~~~~~~  145 (145)
                      ...-..+++|+... .+.+.+..+|.+..+++
T Consensus        84 ~~~l~~v~~~i~l~~~t~~fia~rI~~Aa~~Y  115 (115)
T PF03709_consen   84 AEVLGEVDGFIWLFEDTAEFIARRIEAAARRY  115 (115)
T ss_dssp             HHHHCCESEEEETTTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHhhccEEEEecCCCHHHHHHHHHHHHHhC
Confidence            55666788888774 56788888888877653

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.

>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain

Probab=98.40  E-value=3.9e-05  Score=48.80  Aligned_cols=107  Identities=16%  Similarity=0.128  Sum_probs=78.4

Q ss_pred             eCcHHHHHHHHHHHHHcCCeEEEE---cCHHHHHHHHHcCCCccEEEEecCCCCC--CHHHHHHHHHhcCCcceEEEEeC
Q 048318           32 DDDCFIRTIHSMALKSLGFKVEVA---ENGKEAVDLFRSGAKFDIVFIDKEMPVM--NGIEATREIRSMGIKIKIVGVTS  106 (145)
Q Consensus        32 ~~~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~~~~~~~~dlvl~d~~~~~~--~~~~~~~~l~~~~~~~~iv~l~~  106 (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            556666677788889999998853   357777787777 679999998776532  23567778887755334445666


Q ss_pred             CCCHHHHHHHHHhCCceeecCCCCHHHHHHHHH
Q 048318          107 LNSEAEREAFMQAGLDLCHTKPLSVDKILPLME  139 (145)
Q Consensus       107 ~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~  139 (145)
                      .........+.+.|++.|+..-.+.++....++
T Consensus        89 ~~~~~~~~~~~~~G~d~~~~~~~~~~~~~~~~~  121 (122)
T cd02071          89 IIPPEDYELLKEMGVAEIFGPGTSIEEIIDKIR  121 (122)
T ss_pred             CCCHHHHHHHHHCCCCEEECCCCCHHHHHHHHh
Confidence            566666788889999999988888888777654

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=98.39  E-value=7.9e-05  Score=48.38  Aligned_cols=118  Identities=14%  Similarity=0.126  Sum_probs=87.7

Q ss_pred             CceEEEE----eCcHHHHHHHHHHHHHcCCeEEEE---cCHHHHHHHHHcCCCccEEEEecCCCCC--CHHHHHHHHHhc
Q 048318           25 RLFALVV----DDDCFIRTIHSMALKSLGFKVEVA---ENGKEAVDLFRSGAKFDIVFIDKEMPVM--NGIEATREIRSM   95 (145)
Q Consensus        25 ~~~iLii----~~~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~~~~~~~~dlvl~d~~~~~~--~~~~~~~~l~~~   95 (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            3467777    777777788888899999998853   367888888877 679999999866542  345777888876


Q ss_pred             CC-cceEEEEeCCC------CHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318           96 GI-KIKIVGVTSLN------SEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus        96 ~~-~~~iv~l~~~~------~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      .+ +++++ +.+..      .......+.+.|++.++....+.+++...+++.+..
T Consensus        82 ~~~~~~i~-vGG~~~~~~~~~~~~~~~l~~~G~~~vf~~~~~~~~i~~~l~~~~~~  136 (137)
T PRK02261         82 GLGDILLY-VGGNLVVGKHDFEEVEKKFKEMGFDRVFPPGTDPEEAIDDLKKDLNQ  136 (137)
T ss_pred             CCCCCeEE-EECCCCCCccChHHHHHHHHHcCCCEEECcCCCHHHHHHHHHHHhcc
Confidence            44 66554 44432      334456788999999998888999999999887753

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

Probab=98.37  E-value=8.1e-07  Score=67.44  Aligned_cols=91  Identities=29%  Similarity=0.381  Sum_probs=77.8

Q ss_pred             CeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCC
Q 048318           50 FKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPL  129 (145)
Q Consensus        50 ~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~  129 (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            445568899999998887 789999999999999999999999975333  67778888888888999999999999999


Q ss_pred             CHHHHHHHHHHHHh
Q 048318          130 SVDKILPLMEDLMK  143 (145)
Q Consensus       130 ~~~~L~~~i~~~~~  143 (145)
                      ....+..+...+..
T Consensus        90 ~~~~~~~r~~~l~~  103 (435)
T COG3706          90 NDSQLFLRAKSLVR  103 (435)
T ss_pred             ChHHHHHhhhhhcc
Confidence            99999888876553

>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain

Probab=98.32  E-value=9.2e-05  Score=47.78  Aligned_cols=110  Identities=14%  Similarity=0.102  Sum_probs=79.7

Q ss_pred             eCcHHHHHHHHHHHHHcCCeEEE---EcCHHHHHHHHHcCCCccEEEEecCCCC-C-CHHHHHHHHHhcCCcceEEEEeC
Q 048318           32 DDDCFIRTIHSMALKSLGFKVEV---AENGKEAVDLFRSGAKFDIVFIDKEMPV-M-NGIEATREIRSMGIKIKIVGVTS  106 (145)
Q Consensus        32 ~~~~~~~~~l~~~L~~~g~~v~~---~~~~~~al~~~~~~~~~dlvl~d~~~~~-~-~~~~~~~~l~~~~~~~~iv~l~~  106 (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            56666778888899999999884   4578888888877 57999988765532 2 23456677777554333344565


Q ss_pred             CCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318          107 LNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus       107 ~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      ....+....+...|++.|+..-.+..+.+..+.+.+
T Consensus        92 ~~~~~~~~~l~~~Gvd~~~~~gt~~~~i~~~l~~~~  127 (132)
T TIGR00640        92 VIPPQDFDELKEMGVAEIFGPGTPIPESAIFLLKKL  127 (132)
T ss_pred             CCChHhHHHHHHCCCCEEECCCCCHHHHHHHHHHHH
Confidence            455566778999999999987788888888877654

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=98.25  E-value=2e-05  Score=40.49  Aligned_cols=53  Identities=36%  Similarity=0.611  Sum_probs=46.9

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCC
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEM   80 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~   80 (145)
                      +++++++++.....+...+...|+.+..+.+..++...+.. ..||++++|+.+
T Consensus         2 ~i~i~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~~~vi~~~~~   54 (55)
T smart00448        2 RILVVDDDPLLRELLKALLEREGYEVDEATDGEEALELLKE-EKPDLILLDIMM   54 (55)
T ss_pred             eEEEEcCCHHHHHHHHHHHhhcCcEEEEeCCHHHHHHHHHh-cCCCEEEEeccC
Confidence            58999999999999999999889998899999999888766 579999999764

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=97.96  E-value=0.00083  Score=43.40  Aligned_cols=111  Identities=13%  Similarity=0.117  Sum_probs=78.8

Q ss_pred             eCcHHHHHHHHHHHHHcCCeEEE---EcCHHHHHHHHHcCCCccEEEEecCCCCC--CHHHHHHHHHhcCCcceEEEEeC
Q 048318           32 DDDCFIRTIHSMALKSLGFKVEV---AENGKEAVDLFRSGAKFDIVFIDKEMPVM--NGIEATREIRSMGIKIKIVGVTS  106 (145)
Q Consensus        32 ~~~~~~~~~l~~~L~~~g~~v~~---~~~~~~al~~~~~~~~~dlvl~d~~~~~~--~~~~~~~~l~~~~~~~~iv~l~~  106 (145)
                      |-|..-...+..+|+..||+|..   ..+.++.++...+ ..+|+|-+..-+...  .-.++.+.+++....-+.+++..
T Consensus        12 D~HdiGk~iv~~~l~~~GfeVi~LG~~v~~e~~v~aa~~-~~adiVglS~l~~~~~~~~~~~~~~l~~~gl~~~~vivGG   90 (134)
T TIGR01501        12 DCHAVGNKILDHAFTNAGFNVVNLGVLSPQEEFIKAAIE-TKADAILVSSLYGHGEIDCKGLRQKCDEAGLEGILLYVGG   90 (134)
T ss_pred             ChhhHhHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHH-cCCCEEEEecccccCHHHHHHHHHHHHHCCCCCCEEEecC
Confidence            33444456778889999999883   5588888888877 679999998765432  23456777777655444455666


Q ss_pred             CC---CHH---HHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          107 LN---SEA---EREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       107 ~~---~~~---~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      ..   ..+   ....+.+.|++..+....+++++...+++.++
T Consensus        91 ~~vi~~~d~~~~~~~l~~~Gv~~vF~pgt~~~~iv~~l~~~~~  133 (134)
T TIGR01501        91 NLVVGKQDFPDVEKRFKEMGFDRVFAPGTPPEVVIADLKKDLN  133 (134)
T ss_pred             CcCcChhhhHHHHHHHHHcCCCEEECcCCCHHHHHHHHHHHhc
Confidence            31   122   24468899999999888889999999987764

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=97.85  E-value=0.00074  Score=42.55  Aligned_cols=93  Identities=18%  Similarity=0.215  Sum_probs=66.7

Q ss_pred             eCcHHHHHHHHHHHHHcCCeEEE---EcCHHHHHHHHHcCCCccEEEEecCCCC--CCHHHHHHHHHhcCC-cceEEEEe
Q 048318           32 DDDCFIRTIHSMALKSLGFKVEV---AENGKEAVDLFRSGAKFDIVFIDKEMPV--MNGIEATREIRSMGI-KIKIVGVT  105 (145)
Q Consensus        32 ~~~~~~~~~l~~~L~~~g~~v~~---~~~~~~al~~~~~~~~~dlvl~d~~~~~--~~~~~~~~~l~~~~~-~~~iv~l~  105 (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            55556667888889999999864   2356677787777 67999999887544  245678888888776 66655 55


Q ss_pred             CCCCHHHHHHHHHhCCceeec
Q 048318          106 SLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      +.........+...|+|.|+.
T Consensus        88 G~~~~~~~~~~~~~G~D~~~~  108 (119)
T cd02067          88 GAIVTRDFKFLKEIGVDAYFG  108 (119)
T ss_pred             CCCCChhHHHHHHcCCeEEEC
Confidence            554444445788899988864

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.

>PRK15399 lysine decarboxylase LdcC; Provisional

Probab=97.84  E-value=0.00038  Score=56.31  Aligned_cols=114  Identities=9%  Similarity=0.036  Sum_probs=78.4

Q ss_pred             eEEEEeCcH------HHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcce
Q 048318           27 FALVVDDDC------FIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIK  100 (145)
Q Consensus        27 ~iLii~~~~------~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~  100 (145)
                      ++++|+++.      .....|...|++.||.+..+.+..++...+........++++++..   ...+++.++++...+|
T Consensus         2 ~~~~i~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~P   78 (713)
T PRK15399          2 NIIAIMGPHGVFYKDEPIKELESALQAQGFQTIWPQNSVDLLKFIEHNPRICGVIFDWDEY---SLDLCSDINQLNEYLP   78 (713)
T ss_pred             cEEEEecccccccccHHHHHHHHHHHHCCcEEEEecCHHHHHHHHhcccceeEEEEecccc---hHHHHHHHHHhCCCCC
Confidence            567776663      2246677788889999999999999999887655688999997433   3568899999999999


Q ss_pred             EEEEeCCCCHHHHHHHHHhCCceeecCC-CCHHHHHHHHHHHHh
Q 048318          101 IVGVTSLNSEAEREAFMQAGLDLCHTKP-LSVDKILPLMEDLMK  143 (145)
Q Consensus       101 iv~l~~~~~~~~~~~~~~~g~~~~l~kP-~~~~~L~~~i~~~~~  143 (145)
                      |++++............-...+.|+..- .+.+....+|.+..+
T Consensus        79 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~~~~  122 (713)
T PRK15399         79 LYAFINTHSTMDVSVQDMRMALWFFEYALGAAEDIAIRIRQYTN  122 (713)
T ss_pred             EEEEcCccccccCChhHhhhcceeeeeccCCHHHHHHHHHHHHH
Confidence            9998776533333333333455665443 334555555655544

>PRK15400 lysine decarboxylase CadA; Provisional

Probab=97.74  E-value=0.00055  Score=55.44  Aligned_cols=114  Identities=13%  Similarity=0.075  Sum_probs=77.2

Q ss_pred             eEEEEeCcH------HHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcce
Q 048318           27 FALVVDDDC------FIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIK  100 (145)
Q Consensus        27 ~iLii~~~~------~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~  100 (145)
                      +|++|+++.      .....|...|++.||.|..+.+..+++..+........++++++.   ....+++.++.+...+|
T Consensus         2 ~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~P   78 (714)
T PRK15400          2 NVIAILNHMGVYFKEEPIRELHRALERLNFQIVYPNDRDDLLKLIENNARLCGVIFDWDK---YNLELCEEISKMNENLP   78 (714)
T ss_pred             cEEEEccccccccccHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHhcccceeEEEEecch---hhHHHHHHHHHhCCCCC
Confidence            466666552      235667778888999999999999999988765568899999743   23568999999999999


Q ss_pred             EEEEeCCCCHHHHHHHHHhCCceeecC-CCCHHHHHHHHHHHHh
Q 048318          101 IVGVTSLNSEAEREAFMQAGLDLCHTK-PLSVDKILPLMEDLMK  143 (145)
Q Consensus       101 iv~l~~~~~~~~~~~~~~~g~~~~l~k-P~~~~~L~~~i~~~~~  143 (145)
                      |++++.......+....-.-.+.|+.. -.+.+.+..+|.+..+
T Consensus        79 v~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~i~~~~~  122 (714)
T PRK15400         79 LYAFANTYSTLDVSLNDLRLQVSFFEYALGAADDIANKIKQTTD  122 (714)
T ss_pred             EEEEccccccccCChHHhhhccceeeeccCCHHHHHHHHHHHHH
Confidence            999887653333222233345555543 2345555555655544

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

Probab=97.61  E-value=0.0048  Score=39.53  Aligned_cols=105  Identities=15%  Similarity=0.162  Sum_probs=73.7

Q ss_pred             CcHHHHHHHHHHHHHcCCeEE---EEcCHHHHHHHHHcCCCccEEEEecCCCC-C-CHHHHHHHHHhcCC-cceEEEEeC
Q 048318           33 DDCFIRTIHSMALKSLGFKVE---VAENGKEAVDLFRSGAKFDIVFIDKEMPV-M-NGIEATREIRSMGI-KIKIVGVTS  106 (145)
Q Consensus        33 ~~~~~~~~l~~~L~~~g~~v~---~~~~~~~al~~~~~~~~~dlvl~d~~~~~-~-~~~~~~~~l~~~~~-~~~iv~l~~  106 (145)
                      -|..-...+..+|+..||+|.   ...+.++.++...+ ..+|+|.+..-+.. + ...++.+.+++... +++++ +..
T Consensus        11 ~HdiGkniv~~~L~~~GfeVidLG~~v~~e~~v~aa~~-~~adiVglS~L~t~~~~~~~~~~~~l~~~gl~~v~vi-vGG   88 (128)
T cd02072          11 CHAVGNKILDHAFTEAGFNVVNLGVLSPQEEFIDAAIE-TDADAILVSSLYGHGEIDCKGLREKCDEAGLKDILLY-VGG   88 (128)
T ss_pred             hhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHH-cCCCEEEEeccccCCHHHHHHHHHHHHHCCCCCCeEE-EEC
Confidence            344445677888999999988   34577888888877 57999999876543 2 23567778887654 55554 555


Q ss_pred             CC--C----HHHHHHHHHhCCceeecCCCCHHHHHHHHH
Q 048318          107 LN--S----EAEREAFMQAGLDLCHTKPLSVDKILPLME  139 (145)
Q Consensus       107 ~~--~----~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~  139 (145)
                      ..  .    ......+.+.|++.++....+++++...++
T Consensus        89 ~~~i~~~d~~~~~~~L~~~Gv~~vf~pgt~~~~i~~~l~  127 (128)
T cd02072          89 NLVVGKQDFEDVEKRFKEMGFDRVFAPGTPPEEAIADLK  127 (128)
T ss_pred             CCCCChhhhHHHHHHHHHcCCCEEECcCCCHHHHHHHHh
Confidence            42  1    223456889999999988788888877664

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.

>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=97.46  E-value=0.0051  Score=38.61  Aligned_cols=93  Identities=23%  Similarity=0.298  Sum_probs=64.2

Q ss_pred             CcHHHHHHHHHHHHHcCCeEEEE---cCHHHHHHHHHcCCCccEEEEecCC-CCC-CHHHHHHHHHhcCCcceEEEEeCC
Q 048318           33 DDCFIRTIHSMALKSLGFKVEVA---ENGKEAVDLFRSGAKFDIVFIDKEM-PVM-NGIEATREIRSMGIKIKIVGVTSL  107 (145)
Q Consensus        33 ~~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~~~~~~~~dlvl~d~~~-~~~-~~~~~~~~l~~~~~~~~iv~l~~~  107 (145)
                      -++.-...+..+|++.||++...   .+.++..+.+.. ..||+|.+...+ +.. ...++++.+++..|+++++ +++.
T Consensus        12 ~~~lGl~~la~~l~~~G~~v~~~d~~~~~~~l~~~~~~-~~pd~V~iS~~~~~~~~~~~~l~~~~k~~~p~~~iv-~GG~   89 (121)
T PF02310_consen   12 VHPLGLLYLAAYLRKAGHEVDILDANVPPEELVEALRA-ERPDVVGISVSMTPNLPEAKRLARAIKERNPNIPIV-VGGP   89 (121)
T ss_dssp             STSHHHHHHHHHHHHTTBEEEEEESSB-HHHHHHHHHH-TTCSEEEEEESSSTHHHHHHHHHHHHHTTCTTSEEE-EEES
T ss_pred             chhHHHHHHHHHHHHCCCeEEEECCCCCHHHHHHHHhc-CCCcEEEEEccCcCcHHHHHHHHHHHHhcCCCCEEE-EECC
Confidence            34566788899999999998855   245777777777 579999998843 332 4567778888888887776 4555


Q ss_pred             CCHHHHHHHHH--hCCceeecC
Q 048318          108 NSEAEREAFMQ--AGLDLCHTK  127 (145)
Q Consensus       108 ~~~~~~~~~~~--~g~~~~l~k  127 (145)
                      .-.......++  .|+|..+..
T Consensus        90 ~~t~~~~~~l~~~~~~D~vv~G  111 (121)
T PF02310_consen   90 HATADPEEILREYPGIDYVVRG  111 (121)
T ss_dssp             SSGHHHHHHHHHHHTSEEEEEE
T ss_pred             chhcChHHHhccCcCcceecCC
Confidence            54444455554  687777654

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 ....

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

Probab=97.42  E-value=0.013  Score=38.10  Aligned_cols=117  Identities=17%  Similarity=0.141  Sum_probs=81.0

Q ss_pred             CceEEEE----eCcHHHHHHHHHHHHHcCCeEE---EEcCHHHHHHHHHcCCCccEEEEecCCCC--CCHHHHHHHHHhc
Q 048318           25 RLFALVV----DDDCFIRTIHSMALKSLGFKVE---VAENGKEAVDLFRSGAKFDIVFIDKEMPV--MNGIEATREIRSM   95 (145)
Q Consensus        25 ~~~iLii----~~~~~~~~~l~~~L~~~g~~v~---~~~~~~~al~~~~~~~~~dlvl~d~~~~~--~~~~~~~~~l~~~   95 (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            4456554    7888888999999999999987   46789999888765 46888777642211  1233455666666


Q ss_pred             CCcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318           96 GIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus        96 ~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      ...--.+++...-.........+.|++.++.--....+.+..+...+
T Consensus        91 G~~~i~v~~GGvip~~d~~~l~~~G~~~if~pgt~~~~~~~~v~~~l  137 (143)
T COG2185          91 GVEDILVVVGGVIPPGDYQELKEMGVDRIFGPGTPIEEALSDLLTRL  137 (143)
T ss_pred             CCcceEEeecCccCchhHHHHHHhCcceeeCCCCCHHHHHHHHHHHH
Confidence            55433345677677777888889999999865566666665554443

>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins

Probab=97.19  E-value=0.024  Score=39.17  Aligned_cols=96  Identities=18%  Similarity=0.131  Sum_probs=69.0

Q ss_pred             ceEEEE----eCcHHHHHHHHHHHHHcCCeEEEE---cCHHHHHHHHHcCCCccEEEEecCCCCC--CHHHHHHHHHhcC
Q 048318           26 LFALVV----DDDCFIRTIHSMALKSLGFKVEVA---ENGKEAVDLFRSGAKFDIVFIDKEMPVM--NGIEATREIRSMG   96 (145)
Q Consensus        26 ~~iLii----~~~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~~~~~~~~dlvl~d~~~~~~--~~~~~~~~l~~~~   96 (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            467776    666666788888899999998742   356778888877 679999999876543  3456788888876


Q ss_pred             C--cceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           97 I--KIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        97 ~--~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      +  +++|++=+..-+..   -+...|+|.|-
T Consensus       162 ~~~~~~i~vGG~~~~~~---~~~~~GaD~~~  189 (201)
T cd02070         162 LRDKVKVMVGGAPVNQE---FADEIGADGYA  189 (201)
T ss_pred             CCcCCeEEEECCcCCHH---HHHHcCCcEEE
Confidence            6  67776544444443   45667999995

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.

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

Probab=97.11  E-value=0.0088  Score=37.60  Aligned_cols=109  Identities=14%  Similarity=0.186  Sum_probs=73.5

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHH-HHHhcCCcceEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATR-EIRSMGIKIKIVG  103 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~-~l~~~~~~~~iv~  103 (145)
                      ..+.+.||.|........+.|...+.+|+.-.+..+.    -. ..||.+++++-.+-.....+-. ++.+...-+-.|+
T Consensus        11 gk~LayiEpNstAA~~t~~iL~~tpleVtyr~t~~~l----p~-~hYD~~Ll~vavtfr~n~tm~~~~l~~Al~mtd~vi   85 (140)
T COG4999          11 GKRLAYIEPNSTAAQCTLDILSETPLEVTYRPTFSAL----PP-AHYDMMLLGVAVTFRENLTMQHERLAKALSMTDFVI   85 (140)
T ss_pred             cceeEEecCccHHHHHHHHHHhcCCceEEeccccccc----Ch-hhhceeeecccccccCCchHHHHHHHHHHhhhcceE
Confidence            3467899999999999999999999999876555432    12 4699999998665433332221 1111111222334


Q ss_pred             EeCCC-CHHHHHHHHHhCCceeecCCCCHHHHHHHH
Q 048318          104 VTSLN-SEAEREAFMQAGLDLCHTKPLSVDKILPLM  138 (145)
Q Consensus       104 l~~~~-~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i  138 (145)
                      ++-.+ .........+.|+-+++.||++...|+..+
T Consensus        86 lalPs~~qv~AeqLkQ~g~~~CllKPls~~rLlptl  121 (140)
T COG4999          86 LALPSHAQVNAEQLKQDGAGACLLKPLSSTRLLPTL  121 (140)
T ss_pred             EecCcHHHHhHHHHhhcchHhHhhCcchhhhhHHHH
Confidence            44443 444566778899999999999999888744

>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase

Probab=97.11  E-value=0.022  Score=39.81  Aligned_cols=99  Identities=15%  Similarity=0.100  Sum_probs=69.8

Q ss_pred             ceEEEE----eCcHHHHHHHHHHHHHcCCeEEEEc---CHHHHHHHHHcCCCccEEEEecCCCCC--CHHHHHHHHHhcC
Q 048318           26 LFALVV----DDDCFIRTIHSMALKSLGFKVEVAE---NGKEAVDLFRSGAKFDIVFIDKEMPVM--NGIEATREIRSMG   96 (145)
Q Consensus        26 ~~iLii----~~~~~~~~~l~~~L~~~g~~v~~~~---~~~~al~~~~~~~~~dlvl~d~~~~~~--~~~~~~~~l~~~~   96 (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            456666    6666666778888899999988533   57778888877 689999999877642  3456788888877


Q ss_pred             CcceEEEEeCCCCHHHHHH---HHHhCCceee
Q 048318           97 IKIKIVGVTSLNSEAEREA---FMQAGLDLCH  125 (145)
Q Consensus        97 ~~~~iv~l~~~~~~~~~~~---~~~~g~~~~l  125 (145)
                      ++++|++=+..-+......   +...|+|.|-
T Consensus       168 ~~~~i~vGG~~~~~~~~~~~~~~~~~gad~y~  199 (213)
T cd02069         168 IKIPLLIGGAATSRKHTAVKIAPEYDGPVVYV  199 (213)
T ss_pred             CCCeEEEEChhcCHHHHhhhhccccCCCceEe
Confidence            7777765554445544432   2346999884

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

>PRK09426 methylmalonyl-CoA mutase; Reviewed

Probab=97.01  E-value=0.041  Score=45.06  Aligned_cols=116  Identities=16%  Similarity=0.161  Sum_probs=80.7

Q ss_pred             CceEEEE----eCcHHHHHHHHHHHHHcCCeEEE---EcCHHHHHHHHHcCCCccEEEEecCCCCC--CHHHHHHHHHhc
Q 048318           25 RLFALVV----DDDCFIRTIHSMALKSLGFKVEV---AENGKEAVDLFRSGAKFDIVFIDKEMPVM--NGIEATREIRSM   95 (145)
Q Consensus        25 ~~~iLii----~~~~~~~~~l~~~L~~~g~~v~~---~~~~~~al~~~~~~~~~dlvl~d~~~~~~--~~~~~~~~l~~~   95 (145)
                      +.+|++.    +.|......+..+|+..||+|..   ..+.+++.+...+ ..+|+|.+...+...  ....+++.+++.
T Consensus       582 rpkV~LatlG~d~H~~ra~fv~~~l~~~GfeV~~~~~~~s~e~~v~aa~~-~~a~ivvlcs~d~~~~e~~~~l~~~Lk~~  660 (714)
T PRK09426        582 RPRILVAKMGQDGHDRGAKVIATAFADLGFDVDIGPLFQTPEEAARQAVE-NDVHVVGVSSLAAGHKTLVPALIEALKKL  660 (714)
T ss_pred             CceEEEEecCCcchhHhHHHHHHHHHhCCeeEecCCCCCCHHHHHHHHHH-cCCCEEEEeccchhhHHHHHHHHHHHHhc
Confidence            3456554    44566668888889999999973   3467888888776 578988876544332  345677888877


Q ss_pred             CC-cceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318           96 GI-KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus        96 ~~-~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      .. +++++ +++...+.....+...|+|.|+..-.+..+++..+.+.+
T Consensus       661 G~~~v~vl-~GG~~~~~~~~~l~~aGvD~~i~~g~d~~~~L~~l~~~l  707 (714)
T PRK09426        661 GREDIMVV-VGGVIPPQDYDFLYEAGVAAIFGPGTVIADAAIDLLELL  707 (714)
T ss_pred             CCCCcEEE-EeCCCChhhHHHHHhCCCCEEECCCCCHHHHHHHHHHHH
Confidence            54 34443 554423344466788999999988888888888887766

>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein

Probab=96.75  E-value=0.009  Score=44.14  Aligned_cols=84  Identities=20%  Similarity=0.215  Sum_probs=54.1

Q ss_pred             CCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE-eCCCCHHHHHHHHHhCCceeecC
Q 048318           49 GFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV-TSLNSEAEREAFMQAGLDLCHTK  127 (145)
Q Consensus        49 g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l-~~~~~~~~~~~~~~~g~~~~l~k  127 (145)
                      |..+..+.+..++-+. .  ..-.+|++|..+-    -..+....  .+...++++ ++..+......+++.|+.+|+.+
T Consensus         1 ~~~~~~~~~~~~~~~~-~--~~~~~v~~~~~~~----~~~~~~~~--p~~~~vv~v~~~~~~~~~~~~a~~~Ga~~~l~~   71 (322)
T TIGR03815         1 GVELDVAPDPEAARRA-W--ARAPLVLVDADMA----EACAAAGL--PRRRRVVLVGGGEPGGALWRAAAAVGAEHVAVL   71 (322)
T ss_pred             CCceEEccCchhhhhc-c--ccCCeEEECchhh----hHHHhccC--CCCCCEEEEeCCCCCHHHHHHHHHhChhheeeC
Confidence            4456666665554322 2  2367999986531    11111111  122334444 44567888999999999999999


Q ss_pred             CCCHHHHHHHHHHH
Q 048318          128 PLSVDKILPLMEDL  141 (145)
Q Consensus       128 P~~~~~L~~~i~~~  141 (145)
                      |.+..+|...+.++
T Consensus        72 P~~~~~l~~~l~~~   85 (322)
T TIGR03815        72 PEAEGWLVELLADL   85 (322)
T ss_pred             CCCHHHHHHHHHhh
Confidence            99999999999876

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.

>cd02068 radical_SAM_B12_BD B12 binding domain_like associated with radical SAM domain

Probab=96.69  E-value=0.058  Score=34.25  Aligned_cols=103  Identities=17%  Similarity=0.140  Sum_probs=61.8

Q ss_pred             HHHHHHHHHHHcCCeEEEE--cCHHHHHHHHHcCCCccEEEEecCCCCC-CHHHHHHHHHhcCCcceEEEEeCCCCHHHH
Q 048318           37 IRTIHSMALKSLGFKVEVA--ENGKEAVDLFRSGAKFDIVFIDKEMPVM-NGIEATREIRSMGIKIKIVGVTSLNSEAER  113 (145)
Q Consensus        37 ~~~~l~~~L~~~g~~v~~~--~~~~~al~~~~~~~~~dlvl~d~~~~~~-~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~  113 (145)
                      -...+..++++.|+.+...  ...++.++.+.....||+|.+....... ....+++.+|+..|++++++ .+.......
T Consensus         4 gl~~~aa~l~~~g~~v~~~~~~~~~~~~~~~~~~~~pdiv~~S~~~~~~~~~~~~~~~ik~~~p~~~iv~-GG~~~t~~p   82 (127)
T cd02068           4 GLAYLAAVLEDAGFIVAEHDVLSADDIVEDIKELLKPDVVGISLMTSAIYEALELAKIAKEVLPNVIVVV-GGPHATFFP   82 (127)
T ss_pred             hHHHHHHHHHHCCCeeeecCCCCHHHHHHHHHHhcCCCEEEEeeccccHHHHHHHHHHHHHHCCCCEEEE-CCcchhhCH
Confidence            3456777888888776632  3556666666542469999999754443 45678889999888877764 443322233


Q ss_pred             HH-HHHhCCceeecCCCCHHHHHHHHHHH
Q 048318          114 EA-FMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus       114 ~~-~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      .. ....++ ||++.--....+...++.+
T Consensus        83 ~~~~~~~~~-D~vv~GEgE~~~~~l~~~l  110 (127)
T cd02068          83 EEILEEPGV-DFVVIGEGEETFLKLLEEL  110 (127)
T ss_pred             HHHhcCCCC-CEEEECCcHHHHHHHHHHH
Confidence            33 233445 5655544444444444443

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.

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

Probab=96.66  E-value=0.015  Score=39.69  Aligned_cols=80  Identities=23%  Similarity=0.245  Sum_probs=53.7

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCC-CHHHHHHHHHhcCCcceEEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVM-NGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~-~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      ++||+||+...+-..|.++|+..|.++....+.......+.. ..||.|++.-.-..- +.-...+.+++....+||+=+
T Consensus         2 ~~IL~IDNyDSFtyNLv~yl~~lg~~v~V~rnd~~~~~~~~~-~~pd~iviSPGPG~P~d~G~~~~~i~~~~~~~PiLGV   80 (191)
T COG0512           2 MMILLIDNYDSFTYNLVQYLRELGAEVTVVRNDDISLELIEA-LKPDAIVISPGPGTPKDAGISLELIRRFAGRIPILGV   80 (191)
T ss_pred             ceEEEEECccchHHHHHHHHHHcCCceEEEECCccCHHHHhh-cCCCEEEEcCCCCChHHcchHHHHHHHhcCCCCEEEE
Confidence            579999999999999999999999888866655433444554 569999998653221 111233344443335777765


Q ss_pred             eC
Q 048318          105 TS  106 (145)
Q Consensus       105 ~~  106 (145)
                      +=
T Consensus        81 CL   82 (191)
T COG0512          81 CL   82 (191)
T ss_pred             Cc
Confidence            43

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

Probab=96.63  E-value=0.0065  Score=50.86  Aligned_cols=49  Identities=18%  Similarity=0.206  Sum_probs=41.9

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecC
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKE   79 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~   79 (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            45789999999999999999999999999988753      223 56999999988

>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family

Probab=96.47  E-value=0.093  Score=36.16  Aligned_cols=90  Identities=14%  Similarity=0.068  Sum_probs=61.1

Q ss_pred             eCcHHHHHHHHHHHHHcCCeEEEE---cCHHHHHHHHHcCCCccEEEEecCCCCC--CHHHHHHHHHhcC--CcceEEEE
Q 048318           32 DDDCFIRTIHSMALKSLGFKVEVA---ENGKEAVDLFRSGAKFDIVFIDKEMPVM--NGIEATREIRSMG--IKIKIVGV  104 (145)
Q Consensus        32 ~~~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~~~~~~~~dlvl~d~~~~~~--~~~~~~~~l~~~~--~~~~iv~l  104 (145)
                      |.|..-...+..+|+..||+|...   ...++.++.+.+ ..||+|.+...+...  .-.++++.+++..  +.++|++=
T Consensus        95 d~H~lG~~~v~~~l~~~G~~vi~LG~~vp~e~~v~~~~~-~~pd~v~lS~~~~~~~~~~~~~i~~l~~~~~~~~v~i~vG  173 (197)
T TIGR02370        95 DVHDIGKNIVVTMLRANGFDVIDLGRDVPIDTVVEKVKK-EKPLMLTGSALMTTTMYGQKDINDKLKEEGYRDSVKFMVG  173 (197)
T ss_pred             chhHHHHHHHHHHHHhCCcEEEECCCCCCHHHHHHHHHH-cCCCEEEEccccccCHHHHHHHHHHHHHcCCCCCCEEEEE
Confidence            344455567777888999998843   366778888877 689999999877543  3356778888763  34666543


Q ss_pred             eCCCCHHHHHHHHHhCCceee
Q 048318          105 TSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      +..-+..   -+...|+|.|-
T Consensus       174 G~~~~~~---~~~~~gad~~~  191 (197)
T TIGR02370       174 GAPVTQD---WADKIGADVYG  191 (197)
T ss_pred             ChhcCHH---HHHHhCCcEEe
Confidence            3334433   34577999984

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.

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

Probab=96.41  E-value=0.087  Score=37.88  Aligned_cols=100  Identities=12%  Similarity=0.085  Sum_probs=65.0

Q ss_pred             HHHHHHHHHHcCCe--EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceEEEEeCCCCHHHH
Q 048318           38 RTIHSMALKSLGFK--VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKIVGVTSLNSEAER  113 (145)
Q Consensus        38 ~~~l~~~L~~~g~~--v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~iv~l~~~~~~~~~  113 (145)
                      ...++..|+.....  ++.........+.+.. ..||.|++|.+....+-.++...++..  ..-.|+|=+ ...+...+
T Consensus         7 ~n~lk~~l~~g~~~~g~~~~~~sp~~~e~~a~-~G~D~v~iD~EHg~~~~~~~~~~i~a~~~~g~~~lVRv-p~~~~~~i   84 (256)
T PRK10558          7 PNKFKAALAAKQVQIGCWSALANPITTEVLGL-AGFDWLVLDGEHAPNDVSTFIPQLMALKGSASAPVVRV-PTNEPVII   84 (256)
T ss_pred             CHHHHHHHHcCCceEEEEEcCCCcHHHHHHHh-cCCCEEEEccccCCCCHHHHHHHHHHHhhcCCCcEEEC-CCCCHHHH
Confidence            34466677654322  2333344455666655 569999999999888877777776642  223455544 44577888


Q ss_pred             HHHHHhCCceeecCCC-CHHHHHHHHH
Q 048318          114 EAFMQAGLDLCHTKPL-SVDKILPLME  139 (145)
Q Consensus       114 ~~~~~~g~~~~l~kP~-~~~~L~~~i~  139 (145)
                      ..+++.|+++++..-+ +.++....++
T Consensus        85 ~r~LD~Ga~giivP~v~tae~a~~~v~  111 (256)
T PRK10558         85 KRLLDIGFYNFLIPFVETAEEARRAVA  111 (256)
T ss_pred             HHHhCCCCCeeeecCcCCHHHHHHHHH
Confidence            9999999999977544 4566655554

>PRK10128 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional

Probab=96.36  E-value=0.11  Score=37.66  Aligned_cols=98  Identities=7%  Similarity=0.078  Sum_probs=63.1

Q ss_pred             HHHHHHHHcCCe--EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceEEEEeCCCCHHHHHH
Q 048318           40 IHSMALKSLGFK--VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKIVGVTSLNSEAEREA  115 (145)
Q Consensus        40 ~l~~~L~~~g~~--v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~iv~l~~~~~~~~~~~  115 (145)
                      .++..|+.....  ++.........+.+.. ..||.|++|.+....+-.++...++..  ....|+|=+ ...+...+..
T Consensus         8 ~lk~~L~~G~~~~G~~~~~~sp~~~E~~a~-~GfD~v~iD~EHg~~~~~~l~~~i~a~~~~g~~~lVRv-p~~~~~~i~r   85 (267)
T PRK10128          8 PFKEGLRKGEVQIGLWLSSTTSYMAEIAAT-SGYDWLLIDGEHAPNTIQDLYHQLQAIAPYASQPVIRP-VEGSKPLIKQ   85 (267)
T ss_pred             HHHHHHHcCCceEEEEecCCCcHHHHHHHH-cCCCEEEEccccCCCCHHHHHHHHHHHHhcCCCeEEEC-CCCCHHHHHH
Confidence            356666553322  3333344455566655 469999999999888777777666642  223455544 4557788899


Q ss_pred             HHHhCCceeecCCCC-HHHHHHHHH
Q 048318          116 FMQAGLDLCHTKPLS-VDKILPLME  139 (145)
Q Consensus       116 ~~~~g~~~~l~kP~~-~~~L~~~i~  139 (145)
                      +++.|+++++..-+. .++....++
T Consensus        86 ~LD~GA~GIivP~V~saeeA~~~V~  110 (267)
T PRK10128         86 VLDIGAQTLLIPMVDTAEQARQVVS  110 (267)
T ss_pred             HhCCCCCeeEecCcCCHHHHHHHHH
Confidence            999999999876554 455554443

>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=96.32  E-value=0.23  Score=35.35  Aligned_cols=94  Identities=14%  Similarity=0.056  Sum_probs=63.2

Q ss_pred             HcCCeEE-E-EcCHHHHHHHHHcCCCccEEEE--ecCCC--CCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhC
Q 048318           47 SLGFKVE-V-AENGKEAVDLFRSGAKFDIVFI--DKEMP--VMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAG  120 (145)
Q Consensus        47 ~~g~~v~-~-~~~~~~al~~~~~~~~~dlvl~--d~~~~--~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g  120 (145)
                      +.||.+. . ..|...+-+...  ..+++|.-  ...=.  +....++++.+++. ..+|+|+=+.-.+.+....+++.|
T Consensus       121 ~~Gf~vlpyc~dd~~~ar~l~~--~G~~~vmPlg~pIGsg~Gi~~~~~I~~I~e~-~~vpVI~egGI~tpeda~~AmelG  197 (248)
T cd04728         121 KEGFTVLPYCTDDPVLAKRLED--AGCAAVMPLGSPIGSGQGLLNPYNLRIIIER-ADVPVIVDAGIGTPSDAAQAMELG  197 (248)
T ss_pred             HCCCEEEEEeCCCHHHHHHHHH--cCCCEeCCCCcCCCCCCCCCCHHHHHHHHHh-CCCcEEEeCCCCCHHHHHHHHHcC
Confidence            4599977 4 445665555544  46888832  11101  12236888888876 578988777788999999999999


Q ss_pred             Cceee-----cCCCCHHHHHHHHHHHHh
Q 048318          121 LDLCH-----TKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       121 ~~~~l-----~kP~~~~~L~~~i~~~~~  143 (145)
                      ++.++     .|.-++..+.......++
T Consensus       198 AdgVlV~SAIt~a~dP~~ma~af~~Av~  225 (248)
T cd04728         198 ADAVLLNTAIAKAKDPVAMARAFKLAVE  225 (248)
T ss_pred             CCEEEEChHhcCCCCHHHHHHHHHHHHH
Confidence            99996     444556666666655543

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).

>PRK00208 thiG thiazole synthase; Reviewed

Probab=96.28  E-value=0.25  Score=35.27  Aligned_cols=93  Identities=13%  Similarity=0.026  Sum_probs=63.1

Q ss_pred             HcCCeEE--EEcCHHHHHHHHHcCCCccEEEE--ecCCC--CCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhC
Q 048318           47 SLGFKVE--VAENGKEAVDLFRSGAKFDIVFI--DKEMP--VMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAG  120 (145)
Q Consensus        47 ~~g~~v~--~~~~~~~al~~~~~~~~~dlvl~--d~~~~--~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g  120 (145)
                      +.||.+.  +..|...+-+...  ..+++|.-  ...=.  +....++++.+++. ..+|+|+=+.-...+....+++.|
T Consensus       121 ~~Gf~vlpyc~~d~~~ak~l~~--~G~~~vmPlg~pIGsg~gi~~~~~i~~i~e~-~~vpVIveaGI~tpeda~~AmelG  197 (250)
T PRK00208        121 KEGFVVLPYCTDDPVLAKRLEE--AGCAAVMPLGAPIGSGLGLLNPYNLRIIIEQ-ADVPVIVDAGIGTPSDAAQAMELG  197 (250)
T ss_pred             HCCCEEEEEeCCCHHHHHHHHH--cCCCEeCCCCcCCCCCCCCCCHHHHHHHHHh-cCCeEEEeCCCCCHHHHHHHHHcC
Confidence            4599977  4446666655544  36888832  11001  12236788888876 578998888888999999999999


Q ss_pred             Cceee-----cCCCCHHHHHHHHHHHH
Q 048318          121 LDLCH-----TKPLSVDKILPLMEDLM  142 (145)
Q Consensus       121 ~~~~l-----~kP~~~~~L~~~i~~~~  142 (145)
                      +++++     .|.-++..+.......+
T Consensus       198 AdgVlV~SAItka~dP~~ma~af~~Av  224 (250)
T PRK00208        198 ADAVLLNTAIAVAGDPVAMARAFKLAV  224 (250)
T ss_pred             CCEEEEChHhhCCCCHHHHHHHHHHHH
Confidence            99996     45455666666665544

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

Probab=96.12  E-value=0.2  Score=35.80  Aligned_cols=98  Identities=12%  Similarity=0.103  Sum_probs=63.1

Q ss_pred             HHHHHHHcC--CeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc-C-CcceEEEEeCCCCHHHHHHH
Q 048318           41 HSMALKSLG--FKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM-G-IKIKIVGVTSLNSEAEREAF  116 (145)
Q Consensus        41 l~~~L~~~g--~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~-~-~~~~iv~l~~~~~~~~~~~~  116 (145)
                      ++..|++..  +-++.........+.+.. ..+|.|++|++....+..++...++.. . ...++|=+ ...+...+..+
T Consensus         3 lk~~l~~g~~~~g~~~~~~~p~~~e~~~~-~g~D~v~iDlEH~~~~~~~~~~~~~a~~~~g~~~~VRv-~~~~~~~i~~~   80 (249)
T TIGR02311         3 FKQALKEGQPQIGLWLGLADPYAAEICAG-AGFDWLLIDGEHAPNDVRTILSQLQALAPYPSSPVVRP-AIGDPVLIKQL   80 (249)
T ss_pred             HHHHHHCCCceEEEEEeCCCcHHHHHHHh-cCCCEEEEeccCCCCCHHHHHHHHHHHHhcCCCcEEEC-CCCCHHHHHHH
Confidence            445555433  223333344455666655 569999999998877777777776653 2 23455544 44455678999


Q ss_pred             HHhCCceeecC-CCCHHHHHHHHHH
Q 048318          117 MQAGLDLCHTK-PLSVDKILPLMED  140 (145)
Q Consensus       117 ~~~g~~~~l~k-P~~~~~L~~~i~~  140 (145)
                      ++.|+++++.. --+.++....++.
T Consensus        81 Ld~Ga~gIivP~v~s~e~a~~~v~~  105 (249)
T TIGR02311        81 LDIGAQTLLVPMIETAEQAEAAVAA  105 (249)
T ss_pred             hCCCCCEEEecCcCCHHHHHHHHHH
Confidence            99999999654 4567776666554

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.

>TIGR03239 GarL 2-dehydro-3-deoxyglucarate aldolase

Probab=96.07  E-value=0.19  Score=35.99  Aligned_cols=97  Identities=11%  Similarity=0.068  Sum_probs=63.0

Q ss_pred             HHHHHHHcCCe--EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceEEEEeCCCCHHHHHHH
Q 048318           41 HSMALKSLGFK--VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKIVGVTSLNSEAEREAF  116 (145)
Q Consensus        41 l~~~L~~~g~~--v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~iv~l~~~~~~~~~~~~  116 (145)
                      ++..|+.....  ++.........+.+.. ..||.|++|.+....+-.++...++..  ..-.|+|=+ ...+...+..+
T Consensus         3 lk~~l~~g~~~~G~~~~~~sp~~~e~~a~-~G~D~v~iD~EHg~~~~~~~~~~~~a~~~~g~~~~VRv-p~~~~~~i~r~   80 (249)
T TIGR03239         3 FRQDLLARETLIGCWSALGNPITTEVLGL-AGFDWLLLDGEHAPNDVLTFIPQLMALKGSASAPVVRP-PWNEPVIIKRL   80 (249)
T ss_pred             HHHHHHcCCceEEEEEcCCCcHHHHHHHh-cCCCEEEEecccCCCCHHHHHHHHHHHhhcCCCcEEEC-CCCCHHHHHHH
Confidence            44555543322  3333344455666665 569999999999888877777777653  223455544 44577888999


Q ss_pred             HHhCCceeecCCC-CHHHHHHHHH
Q 048318          117 MQAGLDLCHTKPL-SVDKILPLME  139 (145)
Q Consensus       117 ~~~g~~~~l~kP~-~~~~L~~~i~  139 (145)
                      ++.|+++++..-+ +.++....++
T Consensus        81 LD~Ga~gIivP~v~taeea~~~v~  104 (249)
T TIGR03239        81 LDIGFYNFLIPFVESAEEAERAVA  104 (249)
T ss_pred             hcCCCCEEEecCcCCHHHHHHHHH
Confidence            9999999987544 3555555553

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

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

Probab=95.88  E-value=0.37  Score=37.94  Aligned_cols=107  Identities=16%  Similarity=0.112  Sum_probs=66.7

Q ss_pred             cHHHHHHHHHHHHHcC-CeEEEEc------CHHHHHHHHHcCCCccEEEEecCCCCC-CHHHHHHHHHhcCCcceEEEEe
Q 048318           34 DCFIRTIHSMALKSLG-FKVEVAE------NGKEAVDLFRSGAKFDIVFIDKEMPVM-NGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        34 ~~~~~~~l~~~L~~~g-~~v~~~~------~~~~al~~~~~~~~~dlvl~d~~~~~~-~~~~~~~~l~~~~~~~~iv~l~  105 (145)
                      .|.-...+...|++.| ++|....      +.++..+.+.. ..||+|.+...-+.. ...++++.+|+..|+++|| ++
T Consensus        21 pPlgl~~lAa~L~~~G~~~V~iiD~~~~~~~~~~~~~~l~~-~~pdvVgis~~t~~~~~a~~~~~~~k~~~P~~~iV-~G   98 (497)
T TIGR02026        21 PPLWVAYIGGALLDAGYHDVTFLDAMTGPLTDEKLVERLRA-HCPDLVLITAITPAIYIACETLKFARERLPNAIIV-LG   98 (497)
T ss_pred             CCHHHHHHHHHHHhcCCcceEEecccccCCCHHHHHHHHHh-cCcCEEEEecCcccHHHHHHHHHHHHHHCCCCEEE-Ec
Confidence            4666788888898889 5776543      33444555655 579999997654433 3457788888888888776 45


Q ss_pred             CCCCHHHHHHHHH-hCCceeecCCCCHHHHHHHHHHHH
Q 048318          106 SLNSEAEREAFMQ-AGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus       106 ~~~~~~~~~~~~~-~g~~~~l~kP~~~~~L~~~i~~~~  142 (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            5443333344443 333456666555555555555543

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.

>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=95.78  E-value=0.23  Score=30.69  Aligned_cols=92  Identities=20%  Similarity=0.148  Sum_probs=60.6

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEc-CHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAE-NGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~-~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      ..+.++|.++...+.+.    ..|+.+.... +-.+.++...- ...+.+++.... +......+..+++..+..++++.
T Consensus        22 ~~vvvid~d~~~~~~~~----~~~~~~i~gd~~~~~~l~~a~i-~~a~~vv~~~~~-d~~n~~~~~~~r~~~~~~~ii~~   95 (116)
T PF02254_consen   22 IDVVVIDRDPERVEELR----EEGVEVIYGDATDPEVLERAGI-EKADAVVILTDD-DEENLLIALLARELNPDIRIIAR   95 (116)
T ss_dssp             SEEEEEESSHHHHHHHH----HTTSEEEES-TTSHHHHHHTTG-GCESEEEEESSS-HHHHHHHHHHHHHHTTTSEEEEE
T ss_pred             CEEEEEECCcHHHHHHH----hcccccccccchhhhHHhhcCc-cccCEEEEccCC-HHHHHHHHHHHHHHCCCCeEEEE
Confidence            46899999988865544    5567776554 33445555544 458888887642 23445666777887888888766


Q ss_pred             eCCCCHHHHHHHHHhCCceee
Q 048318          105 TSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      +.  +......+.+.|++..+
T Consensus        96 ~~--~~~~~~~l~~~g~d~vi  114 (116)
T PF02254_consen   96 VN--DPENAELLRQAGADHVI  114 (116)
T ss_dssp             ES--SHHHHHHHHHTT-SEEE
T ss_pred             EC--CHHHHHHHHHCCcCEEE
Confidence            65  55556677888998775

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 ....

>PRK10669 putative cation:proton antiport protein; Provisional

Probab=95.52  E-value=0.41  Score=38.21  Aligned_cols=107  Identities=12%  Similarity=0.083  Sum_probs=59.2

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEc-CHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAE-NGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~-~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      +..++++|.|+...+.++    +.|+.+.+.+ +.++.++...- .+.|.+++-..-.+ +....+...++..++.++++
T Consensus       440 g~~vvvId~d~~~~~~~~----~~g~~~i~GD~~~~~~L~~a~i-~~a~~viv~~~~~~-~~~~iv~~~~~~~~~~~iia  513 (558)
T PRK10669        440 GIPLVVIETSRTRVDELR----ERGIRAVLGNAANEEIMQLAHL-DCARWLLLTIPNGY-EAGEIVASAREKRPDIEIIA  513 (558)
T ss_pred             CCCEEEEECCHHHHHHHH----HCCCeEEEcCCCCHHHHHhcCc-cccCEEEEEcCChH-HHHHHHHHHHHHCCCCeEEE
Confidence            345566666665544443    2355555443 33344444433 35676766543221 22245556677778888887


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      -+.  +.+......+.|+|..+ .|  ..++.+.+.+.+
T Consensus       514 r~~--~~~~~~~l~~~Gad~vv-~p--~~~~a~~i~~~l  547 (558)
T PRK10669        514 RAH--YDDEVAYITERGANQVV-MG--EREIARTMLELL  547 (558)
T ss_pred             EEC--CHHHHHHHHHcCCCEEE-Ch--HHHHHHHHHHHh
Confidence            654  44555666789998776 34  355555555544

>PRK00043 thiE thiamine-phosphate pyrophosphorylase; Reviewed

Probab=95.33  E-value=0.57  Score=32.22  Aligned_cols=87  Identities=20%  Similarity=0.225  Sum_probs=60.0

Q ss_pred             EEcCHHHHHHHHHcCCCccEEEEecCCCCC--------CHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           54 VAENGKEAVDLFRSGAKFDIVFIDKEMPVM--------NGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        54 ~~~~~~~al~~~~~~~~~dlvl~d~~~~~~--------~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (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            45566777766543  58999887544432        358888998876655888876655 67778899999999986


Q ss_pred             c-----CCCCHHHHHHHHHHHHh
Q 048318          126 T-----KPLSVDKILPLMEDLMK  143 (145)
Q Consensus       126 ~-----kP~~~~~L~~~i~~~~~  143 (145)
                      .     +.-++.+....+...++
T Consensus       187 ~gs~i~~~~d~~~~~~~l~~~~~  209 (212)
T PRK00043        187 VVSAITGAEDPEAAARALLAAFR  209 (212)
T ss_pred             EeHHhhcCCCHHHHHHHHHHHHh
Confidence            3     44456666666655543

>PRK03659 glutathione-regulated potassium-efflux system protein KefB; Provisional

Probab=95.29  E-value=0.71  Score=37.32  Aligned_cols=93  Identities=15%  Similarity=0.195  Sum_probs=54.8

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEc-CHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAE-NGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~-~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      ..++++|.|+...+.++    +.|+.+...+ +-.+.++...- .+.+++++-.+.+ .+....+...|+.+|+.+|++-
T Consensus       424 ~~vvvID~d~~~v~~~~----~~g~~v~~GDat~~~~L~~agi-~~A~~vv~~~~d~-~~n~~i~~~~r~~~p~~~IiaR  497 (601)
T PRK03659        424 MRITVLERDISAVNLMR----KYGYKVYYGDATQLELLRAAGA-EKAEAIVITCNEP-EDTMKIVELCQQHFPHLHILAR  497 (601)
T ss_pred             CCEEEEECCHHHHHHHH----hCCCeEEEeeCCCHHHHHhcCC-ccCCEEEEEeCCH-HHHHHHHHHHHHHCCCCeEEEE
Confidence            34566666665544333    2455555443 33333443332 3466666654322 3345566777888888888765


Q ss_pred             eCCCCHHHHHHHHHhCCceeec
Q 048318          105 TSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      +.  +........+.|++..+.
T Consensus       498 a~--~~~~~~~L~~~Ga~~vv~  517 (601)
T PRK03659        498 AR--GRVEAHELLQAGVTQFSR  517 (601)
T ss_pred             eC--CHHHHHHHHhCCCCEEEc
Confidence            44  667778889999998863

>PRK08385 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=94.96  E-value=0.93  Score=33.07  Aligned_cols=95  Identities=17%  Similarity=0.216  Sum_probs=64.3

Q ss_pred             eEEEEeCcHHHHHHHHHHHHH---cC--CeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcC--Cc
Q 048318           27 FALVVDDDCFIRTIHSMALKS---LG--FKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMG--IK   98 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~---~g--~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~--~~   98 (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            478888886655 56666543   22  2233 78899999999875  589999983 43333444555565543  34


Q ss_pred             ceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           99 IKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        99 ~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      + .+..++.-+.+.+.+....|+|.+-.
T Consensus       232 ~-~leaSGGI~~~ni~~yA~tGvD~Is~  258 (278)
T PRK08385        232 V-KIEVSGGITPENIEEYAKLDVDVISL  258 (278)
T ss_pred             E-EEEEECCCCHHHHHHHHHcCCCEEEe
Confidence            3 45567778888999999999988753

>COG3836 HpcH 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]

Probab=94.95  E-value=0.84  Score=32.42  Aligned_cols=90  Identities=11%  Similarity=0.097  Sum_probs=61.9

Q ss_pred             HHHHHHHHcCCeEE-EEc-CHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceEEEEeCCCCHHHHHH
Q 048318           40 IHSMALKSLGFKVE-VAE-NGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKIVGVTSLNSEAEREA  115 (145)
Q Consensus        40 ~l~~~L~~~g~~v~-~~~-~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~iv~l~~~~~~~~~~~  115 (145)
                      .++..|......+- |.. ...-..+.+.. ..||.+++|.+.-..+...++.+++..  .+..|+|= ....+...+..
T Consensus         7 ~fK~~L~~g~~qiGlw~~l~~p~~~Ei~A~-aGfDwl~iD~EHapnd~~sl~~qL~a~~~~~~~pvVR-~p~g~~~~Ikq   84 (255)
T COG3836           7 SFKAALAAGRPQIGLWLSLPDPYMAEILAT-AGFDWLLIDGEHAPNDLQSLLHQLQAVAAYASPPVVR-PPVGDPVMIKQ   84 (255)
T ss_pred             hHHHHHhCCCceEEeeecCCcHHHHHHHHh-cCCCEEEecccccCccHHHHHHHHHHhhccCCCCeee-CCCCCHHHHHH
Confidence            35566654434443 333 33334556655 679999999999888999999999863  33456654 44456778999


Q ss_pred             HHHhCCceeecCCCCH
Q 048318          116 FMQAGLDLCHTKPLSV  131 (145)
Q Consensus       116 ~~~~g~~~~l~kP~~~  131 (145)
                      +++.|+..+|..=++.
T Consensus        85 ~LD~GAqtlliPmV~s  100 (255)
T COG3836          85 LLDIGAQTLLIPMVDT  100 (255)
T ss_pred             HHccccceeeeeccCC
Confidence            9999999998754543

>PRK05749 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed

Probab=94.94  E-value=1  Score=34.42  Aligned_cols=111  Identities=12%  Similarity=0.038  Sum_probs=63.2

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeE---------------EEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHH
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKV---------------EVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEAT   89 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v---------------~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~   89 (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            4566777887766567777777766542               22223344443333   25887775444333344455


Q ss_pred             HHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318           90 REIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus        90 ~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      +.+..   .+|+|+-....+.....+....  .+++..|-+.++|...+.++++
T Consensus       339 EAma~---G~PVI~g~~~~~~~e~~~~~~~--~g~~~~~~d~~~La~~l~~ll~  387 (425)
T PRK05749        339 EPAAF---GVPVISGPHTFNFKEIFERLLQ--AGAAIQVEDAEDLAKAVTYLLT  387 (425)
T ss_pred             HHHHh---CCCEEECCCccCHHHHHHHHHH--CCCeEEECCHHHHHHHHHHHhc
Confidence            55443   5677743222333343333321  2455568889999999988764

>PRK07428 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=94.89  E-value=0.35  Score=35.43  Aligned_cols=95  Identities=19%  Similarity=0.221  Sum_probs=62.6

Q ss_pred             eEEEEeCcHHHHHHHHHHHH----HcC--CeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcc
Q 048318           27 FALVVDDDCFIRTIHSMALK----SLG--FKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKI   99 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~----~~g--~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~   99 (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            57777777555544555443    234  3344 78899999998864  58999999 333222333445555445676


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceee
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      ++. .++.-+.+...+....|+|.+-
T Consensus       245 ~le-AsGGIt~~ni~~ya~tGvD~Is  269 (288)
T PRK07428        245 KIE-ASGNITLETIRAVAETGVDYIS  269 (288)
T ss_pred             EEE-EECCCCHHHHHHHHHcCCCEEE
Confidence            654 5666688888899999998874

>PF01729 QRPTase_C: Quinolinate phosphoribosyl transferase, C-terminal domain; InterPro: IPR002638 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2

Probab=94.76  E-value=0.27  Score=33.12  Aligned_cols=95  Identities=20%  Similarity=0.237  Sum_probs=62.4

Q ss_pred             eEEEEeCcHHHHHHHHHHHHH----cC--CeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcc
Q 048318           27 FALVVDDDCFIRTIHSMALKS----LG--FKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKI   99 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~----~g--~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~   99 (145)
                      .++|-+++-...-.+...++.    .+  ..+. .+.+.+++.+.+..  .+|.|.+|-- +..+--+.++.++...+.+
T Consensus        52 ~ili~~nHi~~~g~i~~av~~~~~~~~~~~~I~VEv~~~ee~~ea~~~--g~d~I~lD~~-~~~~~~~~v~~l~~~~~~v  128 (169)
T PF01729_consen   52 MILIKDNHIAFFGGIEEAVKAARQAAPEKKKIEVEVENLEEAEEALEA--GADIIMLDNM-SPEDLKEAVEELRELNPRV  128 (169)
T ss_dssp             SEEE-HHHHHHHSSHHHHHHHHHHHSTTTSEEEEEESSHHHHHHHHHT--T-SEEEEES--CHHHHHHHHHHHHHHTTTS
T ss_pred             cEEehHHHHHHhCCHHHHHHHHHHhCCCCceEEEEcCCHHHHHHHHHh--CCCEEEecCc-CHHHHHHHHHHHhhcCCcE
Confidence            477777777766545555442    22  2243 78899999998875  4999999953 2233445566666666664


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceee
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                       .+.+++.-+.+.+.+....|+|.+-
T Consensus       129 -~ie~SGGI~~~ni~~ya~~gvD~is  153 (169)
T PF01729_consen  129 -KIEASGGITLENIAEYAKTGVDVIS  153 (169)
T ss_dssp             -EEEEESSSSTTTHHHHHHTT-SEEE
T ss_pred             -EEEEECCCCHHHHHHHHhcCCCEEE
Confidence             4567888888889999999998774

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 ....

>PRK05458 guanosine 5'-monophosphate oxidoreductase; Provisional

Probab=94.75  E-value=0.98  Score=33.72  Aligned_cols=66  Identities=14%  Similarity=0.110  Sum_probs=47.9

Q ss_pred             HHHHHHHHcCCCccEEEEecCCCCCC-HHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           59 KEAVDLFRSGAKFDIVFIDKEMPVMN-GIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        59 ~~al~~~~~~~~~dlvl~d~~~~~~~-~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (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            34444444322469999999887544 5678999998887777664 344578888999999999975

>cd02065 B12-binding_like B12 binding domain (B12-BD)

Probab=94.74  E-value=0.36  Score=30.15  Aligned_cols=72  Identities=19%  Similarity=0.119  Sum_probs=51.4

Q ss_pred             eCcHHHHHHHHHHHHHcCCeEEEEc---CHHHHHHHHHcCCCccEEEEecCCCCC-CHHHHHHHHHhcCC-cceEEEE
Q 048318           32 DDDCFIRTIHSMALKSLGFKVEVAE---NGKEAVDLFRSGAKFDIVFIDKEMPVM-NGIEATREIRSMGI-KIKIVGV  104 (145)
Q Consensus        32 ~~~~~~~~~l~~~L~~~g~~v~~~~---~~~~al~~~~~~~~~dlvl~d~~~~~~-~~~~~~~~l~~~~~-~~~iv~l  104 (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            5666777888888999999988543   55666666666 679999998766543 34566667776666 7777643

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.

>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=94.68  E-value=0.53  Score=28.46  Aligned_cols=87  Identities=15%  Similarity=0.045  Sum_probs=53.6

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCeEEEE------cCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcce
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFKVEVA------ENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIK  100 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~v~~~------~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~  100 (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            47999998889999999999999998877      22222233222  247999886655443444444444332 2677


Q ss_pred             EEEEeCCCCHHHHHHHH
Q 048318          101 IVGVTSLNSEAEREAFM  117 (145)
Q Consensus       101 iv~l~~~~~~~~~~~~~  117 (145)
                      ++. +...+......++
T Consensus        78 ~~~-~~~~~~~~l~~~l   93 (97)
T PF10087_consen   78 IIY-SRSRGVSSLERAL   93 (97)
T ss_pred             EEE-ECCCCHHHHHHHH
Confidence            775 4434444444443

>TIGR01334 modD putative molybdenum utilization protein ModD

Probab=94.59  E-value=0.5  Score=34.40  Aligned_cols=95  Identities=14%  Similarity=0.121  Sum_probs=64.2

Q ss_pred             eEEEEeCcHHHHH---HHHHHHH---Hc--CCeE-EEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCC
Q 048318           27 FALVVDDDCFIRT---IHSMALK---SL--GFKV-EVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGI   97 (145)
Q Consensus        27 ~iLii~~~~~~~~---~l~~~L~---~~--g~~v-~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~   97 (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            4677777655543   3444433   22  2223 478899999999865  58999999 4554455555666654455


Q ss_pred             cceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           98 KIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        98 ~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      ++ .+..++.-+.+.+......|+|-+.
T Consensus       235 ~~-~leasGGI~~~ni~~ya~~GvD~is  261 (277)
T TIGR01334       235 IP-TLAAAGGINPENIADYIEAGIDLFI  261 (277)
T ss_pred             CE-EEEEECCCCHHHHHHHHhcCCCEEE
Confidence            54 4567888899999999999998764

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.

>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=94.56  E-value=0.63  Score=33.38  Aligned_cols=78  Identities=9%  Similarity=0.053  Sum_probs=55.2

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHc-CCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRS-GAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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 SICLLVSSPALAQSLRQWLPGDRYELVQVDSPEEFLEFLEQHREQIDCLVLEQSP---LLPPLFNQLYEQGILLPAVILG   78 (283)
T ss_dssp             EEEEE-S-HHHHHHHHHHT-STTEEEEEESSCHHHHHHHCCTTTT-SEEEEETTS---TTHHHHHHHHHCT----EEEES
T ss_pred             eEEEEeCCHHHHHHHHHHcccCceEEEEcCcHHHHHHHHHhchhccCEEEEecCC---CcHHHHHHHHHcCccccEEEEe
Confidence            35566677888889999998878999999999999999974 3469999999854   4566788888887788999887


Q ss_pred             CC
Q 048318          106 SL  107 (145)
Q Consensus       106 ~~  107 (145)
                      ..
T Consensus        79 ~~   80 (283)
T PF07688_consen   79 SS   80 (283)
T ss_dssp             --
T ss_pred             cC
Confidence            64

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.

>PRK07896 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=94.54  E-value=0.44  Score=34.92  Aligned_cols=96  Identities=15%  Similarity=0.187  Sum_probs=63.0

Q ss_pred             eEEEEeCcHHHHHHHHHHHHH----cC-C-eEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcce
Q 048318           27 FALVVDDDCFIRTIHSMALKS----LG-F-KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIK  100 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~----~g-~-~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~  100 (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            466767665444334444432    22 2 24478899999999865  58999999 554333444555555555554 


Q ss_pred             EEEEeCCCCHHHHHHHHHhCCceeec
Q 048318          101 IVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus       101 iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      .+..++.-+.+.+.+....|+|.+-.
T Consensus       248 ~ieaSGGI~~~ni~~yA~tGvD~Is~  273 (289)
T PRK07896        248 LLESSGGLTLDTAAAYAETGVDYLAV  273 (289)
T ss_pred             EEEEECCCCHHHHHHHHhcCCCEEEe
Confidence            45577788999999999999988753

>PRK03562 glutathione-regulated potassium-efflux system protein KefC; Provisional

Probab=94.41  E-value=0.84  Score=37.07  Aligned_cols=93  Identities=14%  Similarity=0.136  Sum_probs=57.2

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEc-CHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAE-NGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~-~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      +..+.++|.|+...+.+++    .|+.+.... +-.+.++...- .+.+++++-.+-+ ......+...|+.+|+.++++
T Consensus       423 g~~vvvID~d~~~v~~~~~----~g~~v~~GDat~~~~L~~agi-~~A~~vvv~~~d~-~~n~~i~~~ar~~~p~~~iia  496 (621)
T PRK03562        423 GVKMTVLDHDPDHIETLRK----FGMKVFYGDATRMDLLESAGA-AKAEVLINAIDDP-QTSLQLVELVKEHFPHLQIIA  496 (621)
T ss_pred             CCCEEEEECCHHHHHHHHh----cCCeEEEEeCCCHHHHHhcCC-CcCCEEEEEeCCH-HHHHHHHHHHHHhCCCCeEEE
Confidence            4456677777766555543    466665544 33334443332 3567777765322 234556677788888988876


Q ss_pred             EeCCCCHHHHHHHHHhCCceee
Q 048318          104 VTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      -+  .+........+.|++...
T Consensus       497 Ra--~d~~~~~~L~~~Gad~v~  516 (621)
T PRK03562        497 RA--RDVDHYIRLRQAGVEKPE  516 (621)
T ss_pred             EE--CCHHHHHHHHHCCCCEEe
Confidence            44  456667778889999774

>PRK01130 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional

Probab=93.99  E-value=1.4  Score=30.69  Aligned_cols=87  Identities=10%  Similarity=0.066  Sum_probs=58.4

Q ss_pred             HHHHHHHHHH-cCCeEE-EEcCHHHHHHHHHcCCCccEEEEecC-------CCCCCHHHHHHHHHhcCCcceEEEEeCCC
Q 048318           38 RTIHSMALKS-LGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKE-------MPVMNGIEATREIRSMGIKIKIVGVTSLN  108 (145)
Q Consensus        38 ~~~l~~~L~~-~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~-------~~~~~~~~~~~~l~~~~~~~~iv~l~~~~  108 (145)
                      ...+....++ .+..+. .+.+.+++......  .+|++.+...       .......+.++.+++.. .+|+++..+-.
T Consensus       107 ~~~~i~~~~~~~~i~vi~~v~t~ee~~~a~~~--G~d~i~~~~~g~t~~~~~~~~~~~~~i~~i~~~~-~iPvia~GGI~  183 (221)
T PRK01130        107 LAELVKRIKEYPGQLLMADCSTLEEGLAAQKL--GFDFIGTTLSGYTEETKKPEEPDFALLKELLKAV-GCPVIAEGRIN  183 (221)
T ss_pred             HHHHHHHHHhCCCCeEEEeCCCHHHHHHHHHc--CCCEEEcCCceeecCCCCCCCcCHHHHHHHHHhC-CCCEEEECCCC
Confidence            3344445555 566654 56678887655543  5898866421       11233577888888754 68988877777


Q ss_pred             CHHHHHHHHHhCCceeecC
Q 048318          109 SEAEREAFMQAGLDLCHTK  127 (145)
Q Consensus       109 ~~~~~~~~~~~g~~~~l~k  127 (145)
                      +.+....++..|++.++.-
T Consensus       184 t~~~~~~~l~~GadgV~iG  202 (221)
T PRK01130        184 TPEQAKKALELGAHAVVVG  202 (221)
T ss_pred             CHHHHHHHHHCCCCEEEEc
Confidence            8899999999999998643

>COG0157 NadC Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]

Probab=93.83  E-value=0.96  Score=32.86  Aligned_cols=95  Identities=17%  Similarity=0.230  Sum_probs=62.5

Q ss_pred             eEEEEeCcHHHHHHHHHHHHH----cCCe--EE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcc
Q 048318           27 FALVVDDDCFIRTIHSMALKS----LGFK--VE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKI   99 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~----~g~~--v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~   99 (145)
                      -|||=|+|-...-.++..++.    .+|.  +. .+.+.+|+.+.+..  .+|+|++| +|+...-.+..+.+ ... .-
T Consensus       160 avliKDNHia~~g~i~~Av~~aR~~~~~~~kIEVEvesle~~~eAl~a--gaDiImLD-Nm~~e~~~~av~~l-~~~-~~  234 (280)
T COG0157         160 AVLIKDNHIAAAGSITEAVRRARAAAPFTKKIEVEVESLEEAEEALEA--GADIIMLD-NMSPEELKEAVKLL-GLA-GR  234 (280)
T ss_pred             eEEehhhHHHHhccHHHHHHHHHHhCCCCceEEEEcCCHHHHHHHHHc--CCCEEEec-CCCHHHHHHHHHHh-ccC-Cc
Confidence            356666666666656666653    3553  34 78899999999875  59999999 34333333344443 122 23


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      .++-.++.-+.+.+......|+|-+-.
T Consensus       235 ~~lEaSGgIt~~ni~~yA~tGVD~IS~  261 (280)
T COG0157         235 ALLEASGGITLENIREYAETGVDVISV  261 (280)
T ss_pred             eEEEEeCCCCHHHHHHHhhcCCCEEEe
Confidence            455577778888899999999987743

>cd00452 KDPG_aldolase KDPG and KHG aldolase

Probab=93.80  E-value=1.4  Score=30.01  Aligned_cols=75  Identities=12%  Similarity=0.105  Sum_probs=54.7

Q ss_pred             cCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           48 LGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        48 ~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      .|..+. -+.+.+|+.+....  .+|.+-++-. +. .|.++++.++...+++|+++.++- +.+....+++.|++.+-.
T Consensus        96 ~~~~~i~gv~t~~e~~~A~~~--Gad~i~~~p~-~~-~g~~~~~~l~~~~~~~p~~a~GGI-~~~n~~~~~~~G~~~v~v  170 (190)
T cd00452          96 AGIPLLPGVATPTEIMQALEL--GADIVKLFPA-EA-VGPAYIKALKGPFPQVRFMPTGGV-SLDNAAEWLAAGVVAVGG  170 (190)
T ss_pred             cCCcEECCcCCHHHHHHHHHC--CCCEEEEcCC-cc-cCHHHHHHHHhhCCCCeEEEeCCC-CHHHHHHHHHCCCEEEEE
Confidence            344433 56688888887754  5899888532 22 388999999887777888876555 788899999999888754


Q ss_pred             C
Q 048318          127 K  127 (145)
Q Consensus       127 k  127 (145)
                      -
T Consensus       171 ~  171 (190)
T cd00452         171 G  171 (190)
T ss_pred             c
Confidence            3

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.

>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=93.77  E-value=0.96  Score=27.96  Aligned_cols=105  Identities=16%  Similarity=0.202  Sum_probs=58.2

Q ss_pred             eEEEEeCcHHHHHHHHHHHHH-cCCeEE-EEcCHHHHHH-HHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           27 FALVVDDDCFIRTIHSMALKS-LGFKVE-VAENGKEAVD-LFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~-~g~~v~-~~~~~~~al~-~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      +|.+|+-...-...+..+... .++.+. .+....+..+ .... .... .+-|       -   -+.+....++.-+|.
T Consensus         2 ~v~iiG~G~~g~~~~~~~~~~~~~~~v~~v~d~~~~~~~~~~~~-~~~~-~~~~-------~---~~ll~~~~~D~V~I~   69 (120)
T PF01408_consen    2 RVGIIGAGSIGRRHLRALLRSSPDFEVVAVCDPDPERAEAFAEK-YGIP-VYTD-------L---EELLADEDVDAVIIA   69 (120)
T ss_dssp             EEEEESTSHHHHHHHHHHHHTTTTEEEEEEECSSHHHHHHHHHH-TTSE-EESS-------H---HHHHHHTTESEEEEE
T ss_pred             EEEEECCcHHHHHHHHHHHhcCCCcEEEEEEeCCHHHHHHHHHH-hccc-chhH-------H---HHHHHhhcCCEEEEe
Confidence            566676666555555555554 356655 3333333222 2222 2223 2222       1   122222234544444


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCC--CHHHHHHHHHHHHh
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPL--SVDKILPLMEDLMK  143 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~--~~~~L~~~i~~~~~  143 (145)
                      .......+....+++.|..-++-||+  +.+++.+.++..-+
T Consensus        70 tp~~~h~~~~~~~l~~g~~v~~EKP~~~~~~~~~~l~~~a~~  111 (120)
T PF01408_consen   70 TPPSSHAEIAKKALEAGKHVLVEKPLALTLEEAEELVEAAKE  111 (120)
T ss_dssp             SSGGGHHHHHHHHHHTTSEEEEESSSSSSHHHHHHHHHHHHH
T ss_pred             cCCcchHHHHHHHHHcCCEEEEEcCCcCCHHHHHHHHHHHHH
Confidence            44445777788899999999999998  67777777765543

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 ....

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

Probab=93.73  E-value=1.6  Score=30.49  Aligned_cols=92  Identities=16%  Similarity=0.197  Sum_probs=57.1

Q ss_pred             HHHHHHcCCe-EEEEcCHHHHHHHHHc--CCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHH
Q 048318           42 SMALKSLGFK-VEVAENGKEAVDLFRS--GAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQ  118 (145)
Q Consensus        42 ~~~L~~~g~~-v~~~~~~~~al~~~~~--~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~  118 (145)
                      ...|.+.+.- +....+.+++++..+.  ....+++  ++.+....+.+.++.+++.++++ +|-...-.+......+.+
T Consensus         9 ~~~l~~~~~iaV~r~~~~~~a~~i~~al~~~Gi~~i--Eitl~~~~~~~~I~~l~~~~p~~-~IGAGTVl~~~~a~~a~~   85 (212)
T PRK05718          9 EEILRAGPVVPVIVINKLEDAVPLAKALVAGGLPVL--EVTLRTPAALEAIRLIAKEVPEA-LIGAGTVLNPEQLAQAIE   85 (212)
T ss_pred             HHHHHHCCEEEEEEcCCHHHHHHHHHHHHHcCCCEE--EEecCCccHHHHHHHHHHHCCCC-EEEEeeccCHHHHHHHHH
Confidence            3455555533 5577788887776542  1235544  44454557888999998877653 333444457788888999


Q ss_pred             hCCceeecCCCCHHHHHHH
Q 048318          119 AGLDLCHTKPLSVDKILPL  137 (145)
Q Consensus       119 ~g~~~~l~kP~~~~~L~~~  137 (145)
                      +|++.++..-++. +++..
T Consensus        86 aGA~FivsP~~~~-~vi~~  103 (212)
T PRK05718         86 AGAQFIVSPGLTP-PLLKA  103 (212)
T ss_pred             cCCCEEECCCCCH-HHHHH
Confidence            9998776544555 44443

>PF05690 ThiG: Thiazole biosynthesis protein ThiG; InterPro: IPR008867 This family consists of several bacterial thiazole biosynthesis protein G sequences

Probab=93.62  E-value=1.8  Score=30.73  Aligned_cols=97  Identities=15%  Similarity=0.093  Sum_probs=57.5

Q ss_pred             HHHHHHcCCeEEE-Ec-CHHHHHHHHHcCCCccEEEEecCCCCCC-----HHHHHHHHHhcCCcceEEEEeCCCCHHHHH
Q 048318           42 SMALKSLGFKVEV-AE-NGKEAVDLFRSGAKFDIVFIDKEMPVMN-----GIEATREIRSMGIKIKIVGVTSLNSEAERE  114 (145)
Q Consensus        42 ~~~L~~~g~~v~~-~~-~~~~al~~~~~~~~~dlvl~d~~~~~~~-----~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~  114 (145)
                      ...|.+.||.|.. ++ |.--|-++. + .....| +-+.-|=++     ....++.+++.. ++|+|+=++-...++..
T Consensus       116 ae~Lv~eGF~VlPY~~~D~v~akrL~-d-~Gcaav-MPlgsPIGSg~Gi~n~~~l~~i~~~~-~vPvIvDAGiG~pSdaa  191 (247)
T PF05690_consen  116 AEILVKEGFVVLPYCTDDPVLAKRLE-D-AGCAAV-MPLGSPIGSGRGIQNPYNLRIIIERA-DVPVIVDAGIGTPSDAA  191 (247)
T ss_dssp             HHHHHHTT-EEEEEE-S-HHHHHHHH-H-TT-SEB-EEBSSSTTT---SSTHHHHHHHHHHG-SSSBEEES---SHHHHH
T ss_pred             HHHHHHCCCEEeecCCCCHHHHHHHH-H-CCCCEE-EecccccccCcCCCCHHHHHHHHHhc-CCcEEEeCCCCCHHHHH
Confidence            3346678999983 33 333344433 3 334443 444444332     346778887655 88999888889999999


Q ss_pred             HHHHhCCceeec-----CCCCHHHHHHHHHHHH
Q 048318          115 AFMQAGLDLCHT-----KPLSVDKILPLMEDLM  142 (145)
Q Consensus       115 ~~~~~g~~~~l~-----kP~~~~~L~~~i~~~~  142 (145)
                      .+++.|+|+.+.     +--++-.+.+..+...
T Consensus       192 ~AMElG~daVLvNTAiA~A~dPv~MA~Af~~AV  224 (247)
T PF05690_consen  192 QAMELGADAVLVNTAIAKAKDPVAMARAFKLAV  224 (247)
T ss_dssp             HHHHTT-SEEEESHHHHTSSSHHHHHHHHHHHH
T ss_pred             HHHHcCCceeehhhHHhccCCHHHHHHHHHHHH
Confidence            999999999975     3555666666655443

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.

>PRK05848 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=93.62  E-value=0.88  Score=33.10  Aligned_cols=96  Identities=18%  Similarity=0.145  Sum_probs=60.4

Q ss_pred             eEEEEeCcHHHHHHHHHHHHH----cCC--eEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcc
Q 048318           27 FALVVDDDCFIRTIHSMALKS----LGF--KVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKI   99 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~----~g~--~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~   99 (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            467777775555555555542    343  233 78899999999875  589999873 21112222333333333454


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      . +..++.-+.+.+.+....|+|.+..
T Consensus       231 ~-ieAsGgIt~~ni~~ya~~GvD~Isv  256 (273)
T PRK05848        231 L-LEASGNITLENINAYAKSGVDAISS  256 (273)
T ss_pred             E-EEEECCCCHHHHHHHHHcCCCEEEe
Confidence            4 4456667999999999999998854

>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=93.38  E-value=0.4  Score=32.67  Aligned_cols=68  Identities=19%  Similarity=0.236  Sum_probs=44.3

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCe--EE-EEcCHHHHHHHHH-cCCCccEEEEecCCCCCCH-HHHHHHHHh
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFK--VE-VAENGKEAVDLFR-SGAKFDIVFIDKEMPVMNG-IEATREIRS   94 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~--v~-~~~~~~~al~~~~-~~~~~dlvl~d~~~~~~~~-~~~~~~l~~   94 (145)
                      +|..+|.++.....+++.++..+..  +. ...+...++.... ....||+|++|-=-..... .+++..+.+
T Consensus        67 ~v~fVE~~~~a~~~i~~N~~~l~~~~~~~v~~~d~~~~l~~~~~~~~~fDiIflDPPY~~~~~~~~~l~~l~~  139 (183)
T PF03602_consen   67 SVVFVEKNRKAIKIIKKNLEKLGLEDKIRVIKGDAFKFLLKLAKKGEKFDIIFLDPPYAKGLYYEELLELLAE  139 (183)
T ss_dssp             EEEEEES-HHHHHHHHHHHHHHT-GGGEEEEESSHHHHHHHHHHCTS-EEEEEE--STTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCHHHHHHHHHHHHHhCCCcceeeeccCHHHHHHhhcccCCCceEEEECCCcccchHHHHHHHHHHH
Confidence            6899999999999999999988743  33 5567777766552 2357999999942212222 557777764

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.

>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=93.36  E-value=1.9  Score=30.09  Aligned_cols=83  Identities=20%  Similarity=0.159  Sum_probs=48.1

Q ss_pred             cCHHHHHHHHHcCCCccEEEEecCCCC---------CCHHHHHHHHHh-cCCcceEEEEeCCCCHHHHHH---HHHhCCc
Q 048318           56 ENGKEAVDLFRSGAKFDIVFIDKEMPV---------MNGIEATREIRS-MGIKIKIVGVTSLNSEAEREA---FMQAGLD  122 (145)
Q Consensus        56 ~~~~~al~~~~~~~~~dlvl~d~~~~~---------~~~~~~~~~l~~-~~~~~~iv~l~~~~~~~~~~~---~~~~g~~  122 (145)
                      .+....++.... ..+|.|++|++...         .+-.+++..++. ......+++=....+.....+   ++..|++
T Consensus         8 ~~~~~~~~~a~~-~g~D~vilDlEd~~~~~~K~~ar~~~~~~~~~~~~~~~~~~~~~VRvn~~~~~~~~~Dl~~l~~g~~   86 (221)
T PF03328_consen    8 ANSPKMLEKAAA-SGADFVILDLEDGVPPDEKDEAREDLAEALRSIRAARAAGSEIIVRVNSLDSPHIERDLEALDAGAD   86 (221)
T ss_dssp             STSHHHHHHHHT-TCSSEEEEESSTTSSGGGHHHHHHHHHHHHHHHHHHTTSSSEEEEE-SSTTCHHHHHHHHHHHTTSS
T ss_pred             CCCHHHHHHHHh-cCCCEEEEeCcccCCcccchhhHHHHHHHHHhhcccccccccceecCCCCCcchhhhhhhhcccCCC
Confidence            345555666665 57999999998765         333445555554 222233443333344444555   8999999


Q ss_pred             eeecCCC-CHHHHHHHHH
Q 048318          123 LCHTKPL-SVDKILPLME  139 (145)
Q Consensus       123 ~~l~kP~-~~~~L~~~i~  139 (145)
                      +++..-+ +.+++...+.
T Consensus        87 gI~lP~ves~~~~~~~~~  104 (221)
T PF03328_consen   87 GIVLPKVESAEDARQAVA  104 (221)
T ss_dssp             EEEETT--SHHHHHHHHH
T ss_pred             eeeccccCcHHHHHHHHH
Confidence            9976544 4555555444

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 ....

>cd01573 modD_like ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport

Probab=93.33  E-value=1.6  Score=31.77  Aligned_cols=96  Identities=21%  Similarity=0.135  Sum_probs=60.0

Q ss_pred             eEEEEeCcHHHHHHH--HHHH---HH-cC--CeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCc
Q 048318           27 FALVVDDDCFIRTIH--SMAL---KS-LG--FKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIK   98 (145)
Q Consensus        27 ~iLii~~~~~~~~~l--~~~L---~~-~g--~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~   98 (145)
                      .||+-|+|-...-..  .+.+   ++ .+  ..-..+.+.+++.+....  ..|.|.+|--.| .+-.+..+.++...++
T Consensus       154 ~vlikdnH~~~~g~~~~~~av~~~R~~~~~~~IgVev~t~eea~~A~~~--gaD~I~ld~~~p-~~l~~~~~~~~~~~~~  230 (272)
T cd01573         154 TILVFAEHRAFLGGPEPLKALARLRATAPEKKIVVEVDSLEEALAAAEA--GADILQLDKFSP-EELAELVPKLRSLAPP  230 (272)
T ss_pred             ceEeehhHHHHhCCchHHHHHHHHHHhCCCCeEEEEcCCHHHHHHHHHc--CCCEEEECCCCH-HHHHHHHHHHhccCCC
Confidence            377777774433221  2222   22 22  223478899999888754  589999994433 2233455555555567


Q ss_pred             ceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           99 IKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        99 ~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      +|+++.. .-+.+...+..+.|+|.+..
T Consensus       231 i~i~AsG-GI~~~ni~~~~~~Gvd~I~v  257 (272)
T cd01573         231 VLLAAAG-GINIENAAAYAAAGADILVT  257 (272)
T ss_pred             ceEEEEC-CCCHHHHHHHHHcCCcEEEE
Confidence            8877544 55778888999999998853

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.

>TIGR02082 metH 5-methyltetrahydrofolate--homocysteine methyltransferase

Probab=93.18  E-value=5.5  Score=35.05  Aligned_cols=99  Identities=13%  Similarity=0.107  Sum_probs=68.0

Q ss_pred             ceEEEE----eCcHHHHHHHHHHHHHcCCeEEEE---cCHHHHHHHHHcCCCccEEEEecCCCC-C-CHHHHHHHHHhcC
Q 048318           26 LFALVV----DDDCFIRTIHSMALKSLGFKVEVA---ENGKEAVDLFRSGAKFDIVFIDKEMPV-M-NGIEATREIRSMG   96 (145)
Q Consensus        26 ~~iLii----~~~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~~~~~~~~dlvl~d~~~~~-~-~~~~~~~~l~~~~   96 (145)
                      -+|++.    |-|..=...+.-+|+..||+|.-.   ...++.++.+.+ ..||+|-+..-+.. + ...++++.+++.+
T Consensus       733 gkVvlaTV~GDvHDIGKnIV~~~L~~~GfeVIdLG~dVp~e~iv~aa~e-~~~diVgLS~Lmt~t~~~m~~vi~~L~~~g  811 (1178)
T TIGR02082       733 GKIVLATVKGDVHDIGKNIVGVVLSCNGYEVVDLGVMVPIEKILEAAKD-HNADVIGLSGLITPSLDEMKEVAEEMNRRG  811 (1178)
T ss_pred             CeEEEEecCCCccHHHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHHHH-hCCCEEEEcCcccccHHHHHHHHHHHHhcC
Confidence            356666    455555566666788899998843   256777888877 68999999876643 3 3457888998888


Q ss_pred             CcceEEEEeCCCCHHHHHHH---HHhCCceee
Q 048318           97 IKIKIVGVTSLNSEAEREAF---MQAGLDLCH  125 (145)
Q Consensus        97 ~~~~iv~l~~~~~~~~~~~~---~~~g~~~~l  125 (145)
                      +.+||++=++..+......-   ...|+|.|-
T Consensus       812 ~~v~v~vGGa~~s~~~~~~~i~~~~~gad~y~  843 (1178)
T TIGR02082       812 ITIPLLIGGAATSKTHTAVKIAPIYKGPVVYV  843 (1178)
T ss_pred             CCceEEEeccccchhHHHhhhhhhccCCeEEe
Confidence            88888866665566554321   123888884

S-methyltransferase (MetE, EC 2.1.1.14, the cobalamin-independent methionine synthase) and betaine-homocysteine methyltransferase.

>PRK06843 inosine 5-monophosphate dehydrogenase; Validated

Probab=93.03  E-value=0.85  Score=35.04  Aligned_cols=56  Identities=18%  Similarity=0.271  Sum_probs=45.3

Q ss_pred             CCccEEEEecCCCC-CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           69 AKFDIVFIDKEMPV-MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        69 ~~~dlvl~d~~~~~-~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      ...|+|.+|...+. ..-.++++.+++..|+++++ +..-.+.+....+.++|+|.+.
T Consensus       164 aGvDvI~iD~a~g~~~~~~~~v~~ik~~~p~~~vi-~g~V~T~e~a~~l~~aGaD~I~  220 (404)
T PRK06843        164 AHVDILVIDSAHGHSTRIIELVKKIKTKYPNLDLI-AGNIVTKEAALDLISVGADCLK  220 (404)
T ss_pred             cCCCEEEEECCCCCChhHHHHHHHHHhhCCCCcEE-EEecCCHHHHHHHHHcCCCEEE
Confidence            46999999998764 45568889999888887754 5677788889999999999975

>TIGR00693 thiE thiamine-phosphate pyrophosphorylase

Probab=92.94  E-value=2  Score=29.21  Aligned_cols=69  Identities=23%  Similarity=0.274  Sum_probs=48.3

Q ss_pred             EEcCHHHHHHHHHcCCCccEEEEecCCCC--------CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           54 VAENGKEAVDLFRSGAKFDIVFIDKEMPV--------MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        54 ~~~~~~~al~~~~~~~~~dlvl~d~~~~~--------~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (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 STHNLEELAEAEA--EGADYIGFGPIFPTPTKKDPAPPAGVELLREIAATSIDIPIVAIGGI-TLENAAEVLAAGADGVA  178 (196)
T ss_pred             eCCCHHHHHHHhH--cCCCEEEECCccCCCCCCCCCCCCCHHHHHHHHHhcCCCCEEEECCc-CHHHHHHHHHcCCCEEE
Confidence            5667777665443  36899988765442        2368888888765556888776555 57778888899998874

This model includes ThiE from Bacillus subtilis but excludes its paralog, the regulatory protein TenI, and neighbors of TenI.

>TIGR01305 GMP_reduct_1 guanosine monophosphate reductase, eukaryotic

Probab=92.94  E-value=1  Score=33.67  Aligned_cols=57  Identities=12%  Similarity=0.133  Sum_probs=44.0

Q ss_pred             CccEEEEecCCCCC-CHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecC
Q 048318           70 KFDIVFIDKEMPVM-NGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTK  127 (145)
Q Consensus        70 ~~dlvl~d~~~~~~-~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~k  127 (145)
                      .+|+|++|...... .-.+.++.+|+..|..+| +-..-.+.+....+..+|||.+.+-
T Consensus       121 ~~d~iviD~AhGhs~~~i~~ik~ir~~~p~~~v-iaGNV~T~e~a~~Li~aGAD~ikVg  178 (343)
T TIGR01305       121 QLKFICLDVANGYSEHFVEFVKLVREAFPEHTI-MAGNVVTGEMVEELILSGADIVKVG  178 (343)
T ss_pred             CCCEEEEECCCCcHHHHHHHHHHHHhhCCCCeE-EEecccCHHHHHHHHHcCCCEEEEc
Confidence            59999999876543 346788899987776544 4566788999999999999998643

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.

>PF01596 Methyltransf_3: O-methyltransferase; InterPro: IPR002935 Members of this family are O-methyltransferases

Probab=92.91  E-value=1.1  Score=31.07  Aligned_cols=68  Identities=19%  Similarity=0.236  Sum_probs=48.8

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCe--EE-EEcCHHHHHHHHHcC---CCccEEEEecCCCCCCHHHHHHHHHh
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFK--VE-VAENGKEAVDLFRSG---AKFDIVFIDKEMPVMNGIEATREIRS   94 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~--v~-~~~~~~~al~~~~~~---~~~dlvl~d~~~~~~~~~~~~~~l~~   94 (145)
                      .-+|.-+|-++...+..+..++..|+.  +. ...+..+.+..+...   ..||+||+|..-  .+-...++.+..
T Consensus        70 ~g~i~tiE~~~~~~~~A~~~~~~ag~~~~I~~~~gda~~~l~~l~~~~~~~~fD~VFiDa~K--~~y~~y~~~~~~  143 (205)
T PF01596_consen   70 DGKITTIEIDPERAEIARENFRKAGLDDRIEVIEGDALEVLPELANDGEEGQFDFVFIDADK--RNYLEYFEKALP  143 (205)
T ss_dssp             TSEEEEEESSHHHHHHHHHHHHHTTGGGGEEEEES-HHHHHHHHHHTTTTTSEEEEEEESTG--GGHHHHHHHHHH
T ss_pred             cceEEEecCcHHHHHHHHHHHHhcCCCCcEEEEEeccHhhHHHHHhccCCCceeEEEEcccc--cchhhHHHHHhh
Confidence            457999999999999999999988863  55 667888888776542   259999999853  234444544433

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 ....

>TIGR00566 trpG_papA glutamine amidotransferase of anthranilate synthase or aminodeoxychorismate synthase

Probab=92.88  E-value=0.75  Score=31.36  Aligned_cols=77  Identities=22%  Similarity=0.214  Sum_probs=47.1

Q ss_pred             EEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCC--CCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           28 ALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEM--PVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        28 iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~--~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            7999999999999999999999988766633222333433 458977774321  111121 133333322356777665


Q ss_pred             C
Q 048318          106 S  106 (145)
Q Consensus       106 ~  106 (145)
                      -
T Consensus        80 ~   80 (188)
T TIGR00566        80 L   80 (188)
T ss_pred             H
Confidence            4

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.

>cd04729 NanE N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate

Probab=92.78  E-value=2.3  Score=29.58  Aligned_cols=84  Identities=15%  Similarity=0.104  Sum_probs=56.5

Q ss_pred             HHHHHHHcC-CeEE-EEcCHHHHHHHHHcCCCccEEEEecC-C------CCCCHHHHHHHHHhcCCcceEEEEeCCCCHH
Q 048318           41 HSMALKSLG-FKVE-VAENGKEAVDLFRSGAKFDIVFIDKE-M------PVMNGIEATREIRSMGIKIKIVGVTSLNSEA  111 (145)
Q Consensus        41 l~~~L~~~g-~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~-~------~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~  111 (145)
                      +.+.+++.| ..+. .+.+.+++......  .+|.+.+... .      .....++.++.+++.. ++|+++.++-.+.+
T Consensus       114 ~i~~~~~~g~~~iiv~v~t~~ea~~a~~~--G~d~i~~~~~g~t~~~~~~~~~~~~~l~~i~~~~-~ipvia~GGI~~~~  190 (219)
T cd04729         114 LIKRIHEEYNCLLMADISTLEEALNAAKL--GFDIIGTTLSGYTEETAKTEDPDFELLKELRKAL-GIPVIAEGRINSPE  190 (219)
T ss_pred             HHHHHHHHhCCeEEEECCCHHHHHHHHHc--CCCEEEccCccccccccCCCCCCHHHHHHHHHhc-CCCEEEeCCCCCHH
Confidence            333444444 4443 56677887666554  5888765321 1      1234578888888754 68998877777889


Q ss_pred             HHHHHHHhCCceeecC
Q 048318          112 EREAFMQAGLDLCHTK  127 (145)
Q Consensus       112 ~~~~~~~~g~~~~l~k  127 (145)
                      ....++..|++.++.-
T Consensus       191 ~~~~~l~~GadgV~vG  206 (219)
T cd04729         191 QAAKALELGADAVVVG  206 (219)
T ss_pred             HHHHHHHCCCCEEEEc
Confidence            9999999999998653

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.

>PRK07649 para-aminobenzoate/anthranilate synthase glutamine amidotransferase component II; Validated

Probab=92.69  E-value=0.24  Score=34.05  Aligned_cols=51  Identities=20%  Similarity=0.184  Sum_probs=39.2

Q ss_pred             EEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecC
Q 048318           28 ALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKE   79 (145)
Q Consensus        28 iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~   79 (145)
                      ||+||++..+...+...|++.|+.+......+..++.+.. ..||.|++.-.
T Consensus         2 il~idn~dsft~nl~~~l~~~g~~v~v~~~~~~~~~~~~~-~~~d~iIlsgG   52 (195)
T PRK07649          2 ILMIDNYDSFTFNLVQFLGELGQELVVKRNDEVTISDIEN-MKPDFLMISPG   52 (195)
T ss_pred             EEEEeCCCccHHHHHHHHHHCCCcEEEEeCCCCCHHHHhh-CCCCEEEECCC
Confidence            7999999999999999999999998876655333344444 46898888643

>PRK05096 guanosine 5'-monophosphate oxidoreductase; Provisional

Probab=92.53  E-value=1  Score=33.73  Aligned_cols=55  Identities=13%  Similarity=0.143  Sum_probs=44.0

Q ss_pred             CCccEEEEecCCCCC-CHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCcee
Q 048318           69 AKFDIVFIDKEMPVM-NGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLC  124 (145)
Q Consensus        69 ~~~dlvl~d~~~~~~-~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~  124 (145)
                      ..+|+|++|...... .-.++++.+|+..|+++|| ..+-.+.+...++..+|||..
T Consensus       121 ~g~D~iviD~AhGhs~~~i~~ik~ik~~~P~~~vI-aGNV~T~e~a~~Li~aGAD~v  176 (346)
T PRK05096        121 PALNFICIDVANGYSEHFVQFVAKAREAWPDKTIC-AGNVVTGEMVEELILSGADIV  176 (346)
T ss_pred             CCCCEEEEECCCCcHHHHHHHHHHHHHhCCCCcEE-EecccCHHHHHHHHHcCCCEE
Confidence            368999999876433 3467889999888887754 577788889999999999986

>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins

Probab=92.28  E-value=2.4  Score=28.48  Aligned_cols=69  Identities=14%  Similarity=0.148  Sum_probs=47.8

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHc--CCeEEEE-------cCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSL--GFKVEVA-------ENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM   95 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~--g~~v~~~-------~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~   95 (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            578899999999999988888765  4554431       123334667766 5799999999887644  345566654


Q ss_pred             C
Q 048318           96 G   96 (145)
Q Consensus        96 ~   96 (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.

>PRK08007 para-aminobenzoate synthase component II; Provisional

Probab=92.25  E-value=0.57  Score=31.95  Aligned_cols=77  Identities=21%  Similarity=0.143  Sum_probs=48.5

Q ss_pred             EEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCC--CCHHHHHHHHHhcCCcceEEEEe
Q 048318           28 ALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPV--MNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        28 iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~--~~~~~~~~~l~~~~~~~~iv~l~  105 (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            7999999999999999999999888866654322333433 46898888653321  1221 122233222356776665


Q ss_pred             C
Q 048318          106 S  106 (145)
Q Consensus       106 ~  106 (145)
                      -
T Consensus        80 l   80 (187)
T PRK08007         80 L   80 (187)
T ss_pred             H
Confidence            3

>TIGR03151 enACPred_II putative enoyl-(acyl-carrier-protein) reductase II

Probab=92.24  E-value=3.6  Score=30.44  Aligned_cols=83  Identities=14%  Similarity=0.105  Sum_probs=59.4

Q ss_pred             HHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCC-----CCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHH
Q 048318           41 HSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEM-----PVMNGIEATREIRSMGIKIKIVGVTSLNSEAERE  114 (145)
Q Consensus        41 l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~-----~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~  114 (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            4445666687765 66788887666554  58998874321     1234688888888643 58998877788888899


Q ss_pred             HHHHhCCceeec
Q 048318          115 AFMQAGLDLCHT  126 (145)
Q Consensus       115 ~~~~~g~~~~l~  126 (145)
                      .++..|++.+..
T Consensus       178 ~al~~GA~gV~i  189 (307)
T TIGR03151       178 AAFALGAEAVQM  189 (307)
T ss_pred             HHHHcCCCEeec
Confidence            999999998864

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.

>PRK06559 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=92.22  E-value=2.2  Score=31.30  Aligned_cols=92  Identities=16%  Similarity=0.126  Sum_probs=61.9

Q ss_pred             eEEEEeCcHHHHHHHHHHHHH----cCC--eEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcc
Q 048318           27 FALVVDDDCFIRTIHSMALKS----LGF--KVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKI   99 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~----~g~--~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~   99 (145)
                      .|||-|+|-...-.+...++.    .++  .+. .+.+.+++.+.+..  .+|+|++| +|+..+--+..+.++.   . 
T Consensus       169 ~iLIkdNHi~~~g~i~~av~~~r~~~~~~~kIeVEv~tleea~~a~~a--gaDiImLD-nmspe~l~~av~~~~~---~-  241 (290)
T PRK06559        169 AIMLKDNHIAAVGSVQKAIAQARAYAPFVKMVEVEVESLAAAEEAAAA--GADIIMLD-NMSLEQIEQAITLIAG---R-  241 (290)
T ss_pred             eEEEcHHHHHhhccHHHHHHHHHHhCCCCCeEEEECCCHHHHHHHHHc--CCCEEEEC-CCCHHHHHHHHHHhcC---c-
Confidence            578888887666555555542    232  344 78899999999875  58999998 3332233333333332   2 


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceee
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      .++-.++.-+.+.+.+....|+|-+-
T Consensus       242 ~~leaSGGI~~~ni~~yA~tGVD~Is  267 (290)
T PRK06559        242 SRIECSGNIDMTTISRFRGLAIDYVS  267 (290)
T ss_pred             eEEEEECCCCHHHHHHHHhcCCCEEE
Confidence            35567778899999999999998774

>PRK05637 anthranilate synthase component II; Provisional

Probab=92.14  E-value=1.6  Score=30.31  Aligned_cols=79  Identities=15%  Similarity=0.106  Sum_probs=48.1

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCC-CHHHHHHHHHhcCCcceEEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVM-NGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~-~~~~~~~~l~~~~~~~~iv~l  104 (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            46999999999999999999999988876664322 233333 468988884322111 111223344332235677665


Q ss_pred             eC
Q 048318          105 TS  106 (145)
Q Consensus       105 ~~  106 (145)
                      +-
T Consensus        80 Cl   81 (208)
T PRK05637         80 CL   81 (208)
T ss_pred             cH
Confidence            43

>PLN02335 anthranilate synthase

Probab=92.14  E-value=1.1  Score=31.43  Aligned_cols=81  Identities=16%  Similarity=0.117  Sum_probs=49.5

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCC-CHHHHHHHHHhcCCcceEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVM-NGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~-~~~~~~~~l~~~~~~~~iv~  103 (145)
                      +.+||++|........+...|+..|+.+..+......++.+.. ..||.|++.-.-... +.-...+.++......|++-
T Consensus        18 ~~~ilviD~~dsft~~i~~~L~~~g~~~~v~~~~~~~~~~~~~-~~~d~iVisgGPg~p~d~~~~~~~~~~~~~~~PiLG   96 (222)
T PLN02335         18 NGPIIVIDNYDSFTYNLCQYMGELGCHFEVYRNDELTVEELKR-KNPRGVLISPGPGTPQDSGISLQTVLELGPLVPLFG   96 (222)
T ss_pred             cCcEEEEECCCCHHHHHHHHHHHCCCcEEEEECCCCCHHHHHh-cCCCEEEEcCCCCChhhccchHHHHHHhCCCCCEEE
Confidence            4578999988888999999999999888766542111232333 358888876432211 11123444444444678776


Q ss_pred             EeC
Q 048318          104 VTS  106 (145)
Q Consensus       104 l~~  106 (145)
                      ++-
T Consensus        97 ICl   99 (222)
T PLN02335         97 VCM   99 (222)
T ss_pred             ecH
Confidence            654

>PRK06774 para-aminobenzoate synthase component II; Provisional

Probab=92.06  E-value=0.34  Score=33.06  Aligned_cols=75  Identities=17%  Similarity=0.111  Sum_probs=48.1

Q ss_pred             EEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCC--CC--HHHHHHHHHhcCCcceEEE
Q 048318           28 ALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPV--MN--GIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        28 iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~--~~--~~~~~~~l~~~~~~~~iv~  103 (145)
                      ||+||+.......+...|+..|+.+..+.+..-.++.+.. ..||.|++.-.-.+  .+  ...+++.+   ....|++-
T Consensus         2 il~id~~dsf~~nl~~~l~~~~~~~~v~~~~~~~~~~~~~-~~~~~iilsgGP~~~~~~~~~~~~i~~~---~~~~PiLG   77 (191)
T PRK06774          2 LLLIDNYDSFTYNLYQYFCELGTEVMVKRNDELQLTDIEQ-LAPSHLVISPGPCTPNEAGISLAVIRHF---ADKLPILG   77 (191)
T ss_pred             EEEEECCCchHHHHHHHHHHCCCcEEEEeCCCCCHHHHHh-cCCCeEEEcCCCCChHhCCCchHHHHHh---cCCCCEEE
Confidence            7999999999999999999999988876644322333444 45898887643211  12  22333332   23567766


Q ss_pred             EeC
Q 048318          104 VTS  106 (145)
Q Consensus       104 l~~  106 (145)
                      ++-
T Consensus        78 IC~   80 (191)
T PRK06774         78 VCL   80 (191)
T ss_pred             ECH
Confidence            653

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

Probab=92.05  E-value=1  Score=31.11  Aligned_cols=59  Identities=20%  Similarity=0.281  Sum_probs=33.8

Q ss_pred             EEecCCCCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHH
Q 048318           75 FIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL  135 (145)
Q Consensus        75 l~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~  135 (145)
                      ++++.+...+..+.++.+++..+++ +|=...-.+.+....+.++|++..+. |...+++.
T Consensus        36 ~iEiT~~t~~a~~~I~~l~~~~p~~-~vGAGTV~~~e~a~~a~~aGA~FivS-P~~~~~v~   94 (196)
T PF01081_consen   36 AIEITLRTPNALEAIEALRKEFPDL-LVGAGTVLTAEQAEAAIAAGAQFIVS-PGFDPEVI   94 (196)
T ss_dssp             EEEEETTSTTHHHHHHHHHHHHTTS-EEEEES--SHHHHHHHHHHT-SEEEE-SS--HHHH
T ss_pred             EEEEecCCccHHHHHHHHHHHCCCC-eeEEEeccCHHHHHHHHHcCCCEEEC-CCCCHHHH
Confidence            4555555566777888777766653 23344445777788888888876655 43333333

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 ....

>TIGR00262 trpA tryptophan synthase, alpha subunit

Probab=91.98  E-value=1.1  Score=32.17  Aligned_cols=58  Identities=21%  Similarity=0.150  Sum_probs=36.0

Q ss_pred             CHHHHHHHHHhcCCcceEEEEeCCCC------HHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318           84 NGIEATREIRSMGIKIKIVGVTSLNS------EAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus        84 ~~~~~~~~l~~~~~~~~iv~l~~~~~------~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (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            34566666665445667666555443      56677778888888877655555555544433

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.

>PRK06543 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=91.90  E-value=3.8  Score=29.99  Aligned_cols=94  Identities=15%  Similarity=0.165  Sum_probs=61.5

Q ss_pred             ceEEEEeCcHHHH--H--HHHHHHH----HcCC--eE-EEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHh
Q 048318           26 LFALVVDDDCFIR--T--IHSMALK----SLGF--KV-EVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRS   94 (145)
Q Consensus        26 ~~iLii~~~~~~~--~--~l~~~L~----~~g~--~v-~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~   94 (145)
                      -.|||-|+|-...  -  .+...++    ..++  .+ +.+.+.+++.+.+..  .+|+|++| +|+..+-.+.++.++.
T Consensus       160 d~vLikdNHi~~~~~g~~~i~~av~~~r~~~~~~~kIeVEv~slee~~ea~~~--gaDiImLD-n~s~e~l~~av~~~~~  236 (281)
T PRK06543        160 DAVMAKDNHLAALAAQGLDLTEALRHVRAQLGHTTHVEVEVDRLDQIEPVLAA--GVDTIMLD-NFSLDDLREGVELVDG  236 (281)
T ss_pred             ceEEEeHHHHHHHhCCchHHHHHHHHHHHhCCCCCcEEEEeCCHHHHHHHHhc--CCCEEEEC-CCCHHHHHHHHHHhCC
Confidence            3578888886643  1  2444443    2343  34 489999999998865  58999998 3332233333343332


Q ss_pred             cCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           95 MGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        95 ~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                         . ..+-.++.-+.+.+.+....|+|-+-.
T Consensus       237 ---~-~~leaSGgI~~~ni~~yA~tGVD~Is~  264 (281)
T PRK06543        237 ---R-AIVEASGNVNLNTVGAIASTGVDVISV  264 (281)
T ss_pred             ---C-eEEEEECCCCHHHHHHHHhcCCCEEEe
Confidence               2 356678888999999999999987753

>TIGR00343 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1

Probab=91.85  E-value=3.9  Score=29.95  Aligned_cols=59  Identities=20%  Similarity=0.276  Sum_probs=44.8

Q ss_pred             CHHHHHHHHHhcCCcceEE--EEeCCCCHHHHHHHHHhCCceee-----cCCCCHHHHHHHHHHHHh
Q 048318           84 NGIEATREIRSMGIKIKIV--GVTSLNSEAEREAFMQAGLDLCH-----TKPLSVDKILPLMEDLMK  143 (145)
Q Consensus        84 ~~~~~~~~l~~~~~~~~iv--~l~~~~~~~~~~~~~~~g~~~~l-----~kP~~~~~L~~~i~~~~~  143 (145)
                      .++++++.+++.. .+|+|  ..+.-.+++....+++.|++.++     .|.-++.+....+...+.
T Consensus       184 ~~~elLkei~~~~-~iPVV~fAiGGI~TPedAa~~melGAdGVaVGSaI~ks~dP~~~akafv~ai~  249 (287)
T TIGR00343       184 VPVELLLEVLKLG-KLPVVNFAAGGVATPADAALMMQLGADGVFVGSGIFKSSNPEKLAKAIVEATT  249 (287)
T ss_pred             CCHHHHHHHHHhC-CCCEEEeccCCCCCHHHHHHHHHcCCCEEEEhHHhhcCCCHHHHHHHHHHHHH
Confidence            5788888888754 58888  55666699999999999999996     444467777777766554

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.

>COG2022 ThiG Uncharacterized enzyme of thiazole biosynthesis [Nucleotide transport and metabolism]

Probab=91.78  E-value=3.5  Score=29.33  Aligned_cols=96  Identities=10%  Similarity=0.045  Sum_probs=61.3

Q ss_pred             HHHHHHcCCeEEEEcCHHH-HHHHHHcCCCccEEEEecCCCCCC-----HHHHHHHHHhcCCcceEEEEeCCCCHHHHHH
Q 048318           42 SMALKSLGFKVEVAENGKE-AVDLFRSGAKFDIVFIDKEMPVMN-----GIEATREIRSMGIKIKIVGVTSLNSEAEREA  115 (145)
Q Consensus        42 ~~~L~~~g~~v~~~~~~~~-al~~~~~~~~~dlvl~d~~~~~~~-----~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~  115 (145)
                      ...|-+.||.|....+.+- .-+.+.+ .. -..++-|.-|=++     ....++.|++.. .+|+|+=++-...+....
T Consensus       123 ae~Lv~eGF~VlPY~~dD~v~arrLee-~G-caavMPl~aPIGSg~G~~n~~~l~iiie~a-~VPviVDAGiG~pSdAa~  199 (262)
T COG2022         123 AEQLVKEGFVVLPYTTDDPVLARRLEE-AG-CAAVMPLGAPIGSGLGLQNPYNLEIIIEEA-DVPVIVDAGIGTPSDAAQ  199 (262)
T ss_pred             HHHHHhCCCEEeeccCCCHHHHHHHHh-cC-ceEeccccccccCCcCcCCHHHHHHHHHhC-CCCEEEeCCCCChhHHHH
Confidence            3456678999984333332 2233333 23 3445555555333     346777777765 899998888899999999


Q ss_pred             HHHhCCceeecC-----CCCHHHHHHHHHH
Q 048318          116 FMQAGLDLCHTK-----PLSVDKILPLMED  140 (145)
Q Consensus       116 ~~~~g~~~~l~k-----P~~~~~L~~~i~~  140 (145)
                      +++.|+|..+..     --++-.+.+....
T Consensus       200 aMElG~DaVL~NTAiA~A~DPv~MA~Af~~  229 (262)
T COG2022         200 AMELGADAVLLNTAIARAKDPVAMARAFAL  229 (262)
T ss_pred             HHhcccceeehhhHhhccCChHHHHHHHHH
Confidence            999999999753     3344445444443

>TIGR01579 MiaB-like-C MiaB-like tRNA modifying enzyme

Probab=91.72  E-value=3.1  Score=32.00  Aligned_cols=95  Identities=17%  Similarity=0.077  Sum_probs=59.6

Q ss_pred             CcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCC----CCHHHHHHHHHhcCCcceEEEEeCCC
Q 048318           33 DDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPV----MNGIEATREIRSMGIKIKIVGVTSLN  108 (145)
Q Consensus        33 ~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~----~~~~~~~~~l~~~~~~~~iv~l~~~~  108 (145)
                      -|....+.+...|...||..+..           . ..+|+|+++.--..    ....+.++.+++..|..++|+ ++..
T Consensus         8 ~N~~ds~~~~~~l~~~g~~~~~~-----------~-~~aD~v~intctv~~~a~~~~~~~i~~~k~~~p~~~vvv-gGc~   74 (414)
T TIGR01579         8 VNQYESESLKNQLIQKGYEVVPD-----------E-DKADVYIINTCTVTAKADSKARRAIRRARRQNPTAKIIV-TGCY   74 (414)
T ss_pred             CCHHHHHHHHHHHHHCcCEECCC-----------c-ccCCEEEEeccccchHHHHHHHHHHHHHHhhCCCcEEEE-ECCc
Confidence            45667788888898889886531           1 35899999853322    236778888888777777664 4443


Q ss_pred             CHHHHHHHHHhCCceeecCCCCHHHHHHHHHH
Q 048318          109 SEAEREAFMQAGLDLCHTKPLSVDKILPLMED  140 (145)
Q Consensus       109 ~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~  140 (145)
                      ......+++.....|++..+-....+...+..
T Consensus        75 a~~~~ee~~~~~~vD~vv~~e~~~~~~~ll~~  106 (414)
T TIGR01579        75 AQSNPKELADLKDVDLVLGNKEKDKINKLLSL  106 (414)
T ss_pred             cccCHHHHhcCCCCcEEECCCCHHHHHHHHHH
Confidence            33333344455445566677666666655543

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.

>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=91.66  E-value=4  Score=29.80  Aligned_cols=87  Identities=17%  Similarity=0.192  Sum_probs=60.0

Q ss_pred             EEcCHHHHHHHHHcCCCccEEEEec------------------------------C-----CCCCCHHHHHHHHHhcCCc
Q 048318           54 VAENGKEAVDLFRSGAKFDIVFIDK------------------------------E-----MPVMNGIEATREIRSMGIK   98 (145)
Q Consensus        54 ~~~~~~~al~~~~~~~~~dlvl~d~------------------------------~-----~~~~~~~~~~~~l~~~~~~   98 (145)
                      =+++.+++++....  .+|+|=.=+                              .     -....++++++.+.+.. .
T Consensus       118 D~stleEal~a~~~--Gad~I~TTl~gyT~~~~~~~~~~~~i~~~i~~~~gyt~~t~~~~~~~~~~d~elLk~l~~~~-~  194 (283)
T cd04727         118 GARNLGEALRRISE--GAAMIRTKGEAGTGNVVEAVRHMRAVNGEIRKLQSMSEEELYAVAKEIQAPYELVKETAKLG-R  194 (283)
T ss_pred             cCCCHHHHHHHHHC--CCCEEEecCCCCCCcHHHHHHHHHHHHHHHHHHhCCCHHHHHhhhcccCCCHHHHHHHHHhc-C
Confidence            46788888888765  367664433                              0     01235788889888754 5


Q ss_pred             ceEE--EEeCCCCHHHHHHHHHhCCceeecC-----CCCHHHHHHHHHHHHh
Q 048318           99 IKIV--GVTSLNSEAEREAFMQAGLDLCHTK-----PLSVDKILPLMEDLMK  143 (145)
Q Consensus        99 ~~iv--~l~~~~~~~~~~~~~~~g~~~~l~k-----P~~~~~L~~~i~~~~~  143 (145)
                      +|+|  ..+.-.+++....+++.|++.+++-     .-++.+....+...+.
T Consensus       195 iPVV~iAeGGI~Tpena~~v~e~GAdgVaVGSAI~~a~dP~~~tk~f~~ai~  246 (283)
T cd04727         195 LPVVNFAAGGVATPADAALMMQLGADGVFVGSGIFKSENPEKRARAIVEAVT  246 (283)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHcCCCEEEEcHHhhcCCCHHHHHHHHHHHHH
Confidence            7887  6666679999999999999999643     3456666666665554

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.

>TIGR01303 IMP_DH_rel_1 IMP dehydrogenase family protein

Probab=91.65  E-value=1.9  Score=33.89  Aligned_cols=68  Identities=18%  Similarity=0.281  Sum_probs=51.0

Q ss_pred             cCHHHHHHHHHcCCCccEEEEecCCCCC-CHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           56 ENGKEAVDLFRSGAKFDIVFIDKEMPVM-NGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        56 ~~~~~al~~~~~~~~~dlvl~d~~~~~~-~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (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            344555555555 468999999977533 34678889998888888875 557788899999999998874

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.

>COG0742 N6-adenine-specific methylase [DNA replication, recombination, and repair]

Probab=91.62  E-value=1.2  Score=30.55  Aligned_cols=53  Identities=25%  Similarity=0.392  Sum_probs=39.6

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCC--eEE-EEcCHHHHHHHHHcCCCccEEEEec
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGF--KVE-VAENGKEAVDLFRSGAKFDIVFIDK   78 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~--~v~-~~~~~~~al~~~~~~~~~dlvl~d~   78 (145)
                      .+++++|.|......++..++..++  .+. ...+...+++.+....+||+|++|-
T Consensus        67 ~~~~~vE~~~~a~~~l~~N~~~l~~~~~~~~~~~da~~~L~~~~~~~~FDlVflDP  122 (187)
T COG0742          67 ARVVFVEKDRKAVKILKENLKALGLEGEARVLRNDALRALKQLGTREPFDLVFLDP  122 (187)
T ss_pred             ceEEEEecCHHHHHHHHHHHHHhCCccceEEEeecHHHHHHhcCCCCcccEEEeCC
Confidence            3689999999999999999998773  233 3445556666665533599999996

>PRK13111 trpA tryptophan synthase subunit alpha; Provisional

Probab=91.61  E-value=1.2  Score=32.19  Aligned_cols=58  Identities=26%  Similarity=0.170  Sum_probs=41.3

Q ss_pred             CHHHHHHHHHhcCCcceEEEEeCC------CCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318           84 NGIEATREIRSMGIKIKIVGVTSL------NSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus        84 ~~~~~~~~l~~~~~~~~iv~l~~~------~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (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            356777777755667888877733      3445688888999999998767677766665544

>PRK15320 transcriptional activator SprB; Provisional

Probab=91.55  E-value=2  Score=29.88  Aligned_cols=98  Identities=10%  Similarity=-0.086  Sum_probs=70.9

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHc--CCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           27 FALVVDDDCFIRTIHSMALKSL--GFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~--g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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            4678888888888899888875  6778888888888888875  4886665433333 334455667777888899999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecC
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTK  127 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~k  127 (145)
                      ++.--...+.-..-.|+-+|+.|
T Consensus        80 ~d~l~~~dr~vl~~~g~~~~~l~  102 (251)
T PRK15320         80 ADRLYYIDRCVLQYFGVMDYVLK  102 (251)
T ss_pred             ecceeehhhhhhhhhcchhHHHH
Confidence            98866655555566677777654

>COG4122 Predicted O-methyltransferase [General function prediction only]

Probab=91.42  E-value=3.7  Score=28.91  Aligned_cols=57  Identities=19%  Similarity=0.242  Sum_probs=41.1

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCe--EEEEc--CHHHHHHHHHcCCCccEEEEecCCCC
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFK--VEVAE--NGKEAVDLFRSGAKFDIVFIDKEMPV   82 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~--v~~~~--~~~~al~~~~~~~~~dlvl~d~~~~~   82 (145)
                      +-++.-+|-+++..+..+..+++.|+.  +....  +.-+.+..... ..||+||+|..-+.
T Consensus        84 ~g~l~tiE~~~e~~~~A~~n~~~ag~~~~i~~~~~gdal~~l~~~~~-~~fDliFIDadK~~  144 (219)
T COG4122          84 DGRLTTIERDEERAEIARENLAEAGVDDRIELLLGGDALDVLSRLLD-GSFDLVFIDADKAD  144 (219)
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHHcCCcceEEEEecCcHHHHHHhccC-CCccEEEEeCChhh
Confidence            447899999999999999999998855  44333  44444443212 57999999986543

>PLN02274 inosine-5'-monophosphate dehydrogenase

Probab=91.39  E-value=1.9  Score=34.26  Aligned_cols=66  Identities=18%  Similarity=0.268  Sum_probs=47.6

Q ss_pred             HHHHHHHHcCCCccEEEEecCCCC-CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           59 KEAVDLFRSGAKFDIVFIDKEMPV-MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        59 ~~al~~~~~~~~~dlvl~d~~~~~-~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~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~v  316 (505)
T PLN02274        250 KERLEHLVK-AGVDVVVLDSSQGDSIYQLEMIKYIKKTYPELDVI-GGNVVTMYQAQNLIQAGVDGLRV  316 (505)
T ss_pred             HHHHHHHHH-cCCCEEEEeCCCCCcHHHHHHHHHHHHhCCCCcEE-EecCCCHHHHHHHHHcCcCEEEE
Confidence            344444444 46999999985422 23458999999887777665 45667888899999999999853

>PRK00278 trpC indole-3-glycerol-phosphate synthase; Reviewed

Probab=91.30  E-value=4.2  Score=29.31  Aligned_cols=100  Identities=13%  Similarity=0.077  Sum_probs=65.0

Q ss_pred             HHHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEec-CCCC-CCHHHHHHHHHhcCC-cceEEEEeCCCCH
Q 048318           35 CFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDK-EMPV-MNGIEATREIRSMGI-KIKIVGVTSLNSE  110 (145)
Q Consensus        35 ~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~-~~~~-~~~~~~~~~l~~~~~-~~~iv~l~~~~~~  110 (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            4445555555566787755 78899888665543  578776652 1111 122555666655444 3588888888899


Q ss_pred             HHHHHHHHhCCceee-----cCCCCHHHHHH
Q 048318          111 AEREAFMQAGLDLCH-----TKPLSVDKILP  136 (145)
Q Consensus       111 ~~~~~~~~~g~~~~l-----~kP~~~~~L~~  136 (145)
                      +....+...|++.++     .|+-++.+...
T Consensus       224 ed~~~~~~~Gad~vlVGsaI~~~~dp~~~~~  254 (260)
T PRK00278        224 EDLKRLAKAGADAVLVGESLMRADDPGAALR  254 (260)
T ss_pred             HHHHHHHHcCCCEEEECHHHcCCCCHHHHHH
Confidence            999999999999986     44555544443

>TIGR00642 mmCoA_mut_beta methylmalonyl-CoA mutase, heterodimeric type, beta chain

Probab=91.29  E-value=5  Score=32.77  Aligned_cols=113  Identities=14%  Similarity=0.094  Sum_probs=73.4

Q ss_pred             CceEEEEeC-----cHHHHHHHHHHHHHcCCeEEE---EcCHHHHHHHHHcCCCccEEEEecCCCC--CCHHHHHHHHHh
Q 048318           25 RLFALVVDD-----DCFIRTIHSMALKSLGFKVEV---AENGKEAVDLFRSGAKFDIVFIDKEMPV--MNGIEATREIRS   94 (145)
Q Consensus        25 ~~~iLii~~-----~~~~~~~l~~~L~~~g~~v~~---~~~~~~al~~~~~~~~~dlvl~d~~~~~--~~~~~~~~~l~~   94 (145)
                      +.+|+++--     +........+.|...||++..   +.+.+++...... ..++++++--.-..  ..+.++++.+|.
T Consensus       494 rP~vfL~~lG~~a~~~aRa~Fa~nff~~gG~~~~~~~~~~~~~~~~~a~~~-sga~i~viCssD~~Y~~~a~~~~~al~~  572 (619)
T TIGR00642       494 RPKVFLLCLGTLADFGGREGFSSNVWHIAGIDTIQVEGGTTAEIVVEAFKK-AGAQVAVLCSSDKVYAQQGLEVAKALKA  572 (619)
T ss_pred             CCeEEEeCCCChHhhccHHHHHHhHHhcCceeeccCCCCCCHHHHHHHHHh-cCCCEEEEeCCCcchHHHHHHHHHHHHh
Confidence            445766643     334445666677777888763   4567777777665 45676665443222  246678888888


Q ss_pred             cCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318           95 MGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus        95 ~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      ....  .|++++....  ..++..+|+|+||.--++.-+.+..+.+.+
T Consensus       573 ag~~--~v~lAG~p~~--~~~~~~aGvd~fi~~g~d~~~~L~~~~~~~  616 (619)
T TIGR00642       573 AGAK--ALYLAGAFKE--FGDDAAEAIDGRLFMKMNVVDTLSSTLDIL  616 (619)
T ss_pred             CCCC--EEEEeCCCcc--hhhHHhcCCcceeEcCCcHHHHHHHHHHHh
Confidence            7654  4556666544  333788999999988888777776665543

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.

>PRK07807 inosine 5-monophosphate dehydrogenase; Validated

Probab=91.28  E-value=1.3  Score=34.89  Aligned_cols=67  Identities=18%  Similarity=0.291  Sum_probs=49.6

Q ss_pred             CHHHHHHHHHcCCCccEEEEecCCC-CCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           57 NGKEAVDLFRSGAKFDIVFIDKEMP-VMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        57 ~~~~al~~~~~~~~~dlvl~d~~~~-~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (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 4689999997654 445678899999988887765 4577788889999999999874

>PRK05670 anthranilate synthase component II; Provisional

Probab=91.10  E-value=1.2  Score=30.23  Aligned_cols=78  Identities=19%  Similarity=0.156  Sum_probs=45.8

Q ss_pred             EEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCC-CCCCHHHHHHHHHhcCCcceEEEEeC
Q 048318           28 ALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEM-PVMNGIEATREIRSMGIKIKIVGVTS  106 (145)
Q Consensus        28 iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~-~~~~~~~~~~~l~~~~~~~~iv~l~~  106 (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            8999999999999999999999888766543211222233 348988873111 00111112233333223567776654

>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=91.07  E-value=3.9  Score=28.59  Aligned_cols=93  Identities=17%  Similarity=0.111  Sum_probs=47.5

Q ss_pred             HHHHHcCCe-EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcce--EEEEeCCCCHHHHHHHHHh
Q 048318           43 MALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIK--IVGVTSLNSEAEREAFMQA  119 (145)
Q Consensus        43 ~~L~~~g~~-v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~--iv~l~~~~~~~~~~~~~~~  119 (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            344444422 4455566666554432001123344555555567777777776543211  2223333577777777788


Q ss_pred             CCceeecCCCCHHHHHH
Q 048318          120 GLDLCHTKPLSVDKILP  136 (145)
Q Consensus       120 g~~~~l~kP~~~~~L~~  136 (145)
                      |++.++ -|....++..
T Consensus        88 GA~Fiv-sP~~~~~v~~  103 (213)
T PRK06552         88 GAQFIV-SPSFNRETAK  103 (213)
T ss_pred             CCCEEE-CCCCCHHHHH
Confidence            876665 4544444443

>TIGR01182 eda Entner-Doudoroff aldolase

Probab=90.69  E-value=4.2  Score=28.28  Aligned_cols=43  Identities=14%  Similarity=0.152  Sum_probs=22.8

Q ss_pred             CCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           82 VMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        82 ~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      ..+..+.++.+++.++++. |=...-.+.+....+.++|++.++
T Consensus        43 t~~a~~~i~~l~~~~~~~~-vGAGTVl~~~~a~~a~~aGA~Fiv   85 (204)
T TIGR01182        43 TPVALDAIRLLRKEVPDAL-IGAGTVLNPEQLRQAVDAGAQFIV   85 (204)
T ss_pred             CccHHHHHHHHHHHCCCCE-EEEEeCCCHHHHHHHHHcCCCEEE
Confidence            3445666666665554421 222333456666666666665554

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

>PRK09490 metH B12-dependent methionine synthase; Provisional

Probab=90.68  E-value=10  Score=33.60  Aligned_cols=99  Identities=13%  Similarity=0.122  Sum_probs=67.1

Q ss_pred             ceEEEE----eCcHHHHHHHHHHHHHcCCeEEEEc---CHHHHHHHHHcCCCccEEEEecCCCC-C-CHHHHHHHHHhcC
Q 048318           26 LFALVV----DDDCFIRTIHSMALKSLGFKVEVAE---NGKEAVDLFRSGAKFDIVFIDKEMPV-M-NGIEATREIRSMG   96 (145)
Q Consensus        26 ~~iLii----~~~~~~~~~l~~~L~~~g~~v~~~~---~~~~al~~~~~~~~~dlvl~d~~~~~-~-~~~~~~~~l~~~~   96 (145)
                      -+|++.    |-|..=...+.-+|+..||+|...-   ..++.++.+.+ ..||+|.+..-+.. + ...++++.+++.+
T Consensus       752 gkvvlaTv~GDvHDIGkniV~~~L~~~GfeVIdLG~~vp~e~iv~aa~e-~~~diVgLS~L~t~s~~~m~~~i~~L~~~g  830 (1229)
T PRK09490        752 GKILMATVKGDVHDIGKNIVGVVLQCNNYEVIDLGVMVPAEKILETAKE-ENADIIGLSGLITPSLDEMVHVAKEMERQG  830 (1229)
T ss_pred             CeEEEEeCCCCcchHHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHHHH-hCCCEEEEcCcchhhHHHHHHHHHHHHhcC
Confidence            456666    5555556677777888999988432   56777887777 67999999876643 2 3467888998888


Q ss_pred             CcceEEEEeCCCCHHHHHHH---HHhCCceee
Q 048318           97 IKIKIVGVTSLNSEAEREAF---MQAGLDLCH  125 (145)
Q Consensus        97 ~~~~iv~l~~~~~~~~~~~~---~~~g~~~~l  125 (145)
                      +.+||++=++..+......-   .-.|++.|-
T Consensus       831 ~~v~v~vGGa~~s~~~ta~~i~~~y~gad~y~  862 (1229)
T PRK09490        831 FTIPLLIGGATTSKAHTAVKIAPNYSGPVVYV  862 (1229)
T ss_pred             CCCeEEEEeeccchhhhhhhhhhcccCCcEEe
Confidence            88888766655554432111   112888774

>TIGR01302 IMP_dehydrog inosine-5'-monophosphate dehydrogenase

Probab=90.57  E-value=2  Score=33.54  Aligned_cols=64  Identities=22%  Similarity=0.353  Sum_probs=48.0

Q ss_pred             HHHHHHHHcCCCccEEEEecCCCC-CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           59 KEAVDLFRSGAKFDIVFIDKEMPV-MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        59 ~~al~~~~~~~~~dlvl~d~~~~~-~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      +.+...+.  ...|+|.+|..... ....+.++.+++.++++|+++ ..-.+.+....+.++|+|.+-
T Consensus       227 ~r~~~L~~--aG~d~I~vd~a~g~~~~~~~~i~~i~~~~~~~~vi~-G~v~t~~~a~~l~~aGad~i~  291 (450)
T TIGR01302       227 ERAEALVK--AGVDVIVIDSSHGHSIYVIDSIKEIKKTYPDLDIIA-GNVATAEQAKALIDAGADGLR  291 (450)
T ss_pred             HHHHHHHH--hCCCEEEEECCCCcHhHHHHHHHHHHHhCCCCCEEE-EeCCCHHHHHHHHHhCCCEEE
Confidence            34443443  35899999986543 346778889988878888875 677788889999999999883

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.

>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=90.52  E-value=2.5  Score=29.03  Aligned_cols=70  Identities=20%  Similarity=0.142  Sum_probs=49.7

Q ss_pred             CCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCC--CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCcee
Q 048318           49 GFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPV--MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLC  124 (145)
Q Consensus        49 g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~--~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~  124 (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            4678888899999888875  4899999986622  55678889998865    456788889999999999998754

; GO: 0047465 N-acylglucosamine-6-phosphate 2-epimerase activity, 0006051 N-acetylmannosamine metabolic process; PDB: 1Y0E_B 3IGS_A 1YXY_A 3Q58_B.

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

Probab=90.46  E-value=4.4  Score=28.15  Aligned_cols=60  Identities=13%  Similarity=0.159  Sum_probs=29.7

Q ss_pred             EEecCCCCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHH
Q 048318           75 FIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL  135 (145)
Q Consensus        75 l~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~  135 (145)
                      ++.+.+...++.+.++.+++.++..-+|=...-.+.+....+..+|++..+. |....++.
T Consensus        38 ~iEvt~~~~~~~~~i~~l~~~~~~~~~iGaGTV~~~~~~~~a~~aGA~fivs-p~~~~~v~   97 (206)
T PRK09140         38 AIEIPLNSPDPFDSIAALVKALGDRALIGAGTVLSPEQVDRLADAGGRLIVT-PNTDPEVI   97 (206)
T ss_pred             EEEEeCCCccHHHHHHHHHHHcCCCcEEeEEecCCHHHHHHHHHcCCCEEEC-CCCCHHHH
Confidence            3444444445666666666544321122223334556666677777755544 43333333

>PRK06096 molybdenum transport protein ModD; Provisional

Probab=90.46  E-value=2.7  Score=30.81  Aligned_cols=96  Identities=18%  Similarity=0.171  Sum_probs=62.4

Q ss_pred             eEEEEeCcHHHHH---HHHHHHH----HcC-Ce-EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCC
Q 048318           27 FALVVDDDCFIRT---IHSMALK----SLG-FK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGI   97 (145)
Q Consensus        27 ~iLii~~~~~~~~---~l~~~L~----~~g-~~-v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~   97 (145)
                      .|||-|+|-...-   .+...++    ..+ .. .+.+.+.+++.+.+..  .+|+|++| +|+..+-.+..+.+++..+
T Consensus       159 ~vLikdNHi~~~g~~~~i~~av~~~r~~~~~~kIeVEv~tleqa~ea~~a--gaDiI~LD-n~~~e~l~~av~~~~~~~~  235 (284)
T PRK06096        159 TILLFANHRHFLHDPQDWSGAINQLRRHAPEKKIVVEADTPKEAIAALRA--QPDVLQLD-KFSPQQATEIAQIAPSLAP  235 (284)
T ss_pred             hhhhHHHHHHHhCCcccHHHHHHHHHHhCCCCCEEEECCCHHHHHHHHHc--CCCEEEEC-CCCHHHHHHHHHHhhccCC
Confidence            3566666654432   2333332    222 22 3478899999999875  48999998 5554444455555554444


Q ss_pred             cceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           98 KIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        98 ~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      .+ .+-.++.-+.+.+.+....|+|-+..
T Consensus       236 ~~-~leaSGGI~~~ni~~yA~tGvD~Is~  263 (284)
T PRK06096        236 HC-TLSLAGGINLNTLKNYADCGIRLFIT  263 (284)
T ss_pred             Ce-EEEEECCCCHHHHHHHHhcCCCEEEE
Confidence            44 45678888999999999999988753

>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=90.06  E-value=2.5  Score=31.94  Aligned_cols=67  Identities=15%  Similarity=0.226  Sum_probs=47.2

Q ss_pred             HHHHHHHHHcCCCccEEEEecCCCC-CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           58 GKEAVDLFRSGAKFDIVFIDKEMPV-MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        58 ~~~al~~~~~~~~~dlvl~d~~~~~-~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (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            3444555555 46899999976543 34567889999988888886 57777889999999999998864

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 ....

>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=90.06  E-value=4.3  Score=29.46  Aligned_cols=94  Identities=17%  Similarity=0.199  Sum_probs=58.8

Q ss_pred             eEEEEeCcHHHHHHHHHH---HHH-cC--CeE-EEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcc
Q 048318           27 FALVVDDDCFIRTIHSMA---LKS-LG--FKV-EVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKI   99 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~---L~~-~g--~~v-~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~   99 (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            577777775554333322   222 33  233 478899999988764  589999985433 1112233334333 466


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceee
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      |++ .++.-+.+........|+|.+-
T Consensus       229 ~i~-asGGIt~~ni~~~a~~Gad~Is  253 (269)
T cd01568         229 LLE-ASGGITLENIRAYAETGVDVIS  253 (269)
T ss_pred             EEE-EECCCCHHHHHHHHHcCCCEEE
Confidence            655 5666778888899999999884

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.

>cd00381 IMPDH IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase

Probab=90.00  E-value=3.4  Score=30.80  Aligned_cols=65  Identities=17%  Similarity=0.230  Sum_probs=46.0

Q ss_pred             HHHHHHHcCCCccEEEEecCCCCC-CHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           60 EAVDLFRSGAKFDIVFIDKEMPVM-NGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        60 ~al~~~~~~~~~dlvl~d~~~~~~-~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      +..+.+.+ ..+|+|.+|...... ...+.++.+++..|.+++++ ..-.+......+.++|+|.+..
T Consensus        97 ~~~~~l~e-agv~~I~vd~~~G~~~~~~~~i~~ik~~~p~v~Vi~-G~v~t~~~A~~l~~aGaD~I~v  162 (325)
T cd00381          97 ERAEALVE-AGVDVIVIDSAHGHSVYVIEMIKFIKKKYPNVDVIA-GNVVTAEAARDLIDAGADGVKV  162 (325)
T ss_pred             HHHHHHHh-cCCCEEEEECCCCCcHHHHHHHHHHHHHCCCceEEE-CCCCCHHHHHHHHhcCCCEEEE
Confidence            33444444 468999999755322 34678888888776677664 5667788889999999998864

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.

>PRK14329 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=89.91  E-value=3.7  Score=32.22  Aligned_cols=98  Identities=8%  Similarity=0.071  Sum_probs=59.5

Q ss_pred             EeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCC----CHHHHH---HHHHhcCCcceEEE
Q 048318           31 VDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVM----NGIEAT---REIRSMGIKIKIVG  103 (145)
Q Consensus        31 i~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~----~~~~~~---~~l~~~~~~~~iv~  103 (145)
                      +--|....+.+...|...||.++.           .. ...|+|+++.--...    .....+   +.+++..|..+||+
T Consensus        33 C~~N~~dse~~~~~l~~~G~~~~~-----------~~-~~ADiviiNTC~v~~~a~~k~~~~i~~~~~~k~~~p~~~ivv  100 (467)
T PRK14329         33 CQMNFADSEIVASILQMAGYNTTE-----------NL-EEADLVLVNTCSIRDNAEQKVRKRLEKFNALKKKNPKLIVGV  100 (467)
T ss_pred             CCCcHHHHHHHHHHHHHCcCEECC-----------Cc-ccCCEEEEeCcceechHHHHHHHHHHHHHHHHhhCCCcEEEE
Confidence            356778889999999999998764           12 347999998633221    223334   44455667766665


Q ss_pred             EeCCCCHHHHHHHHHh-CCceeecCCCCHHHHHHHHHHH
Q 048318          104 VTSLNSEAEREAFMQA-GLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~-g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      .+...+ ..-...+.. +.-|+++.+-....+...+..+
T Consensus       101 gGc~a~-~~~~~~l~~~~~vD~vv~~e~~~~i~~ll~~~  138 (467)
T PRK14329        101 LGCMAE-RLKDKLLEEEKIVDLVVGPDAYLDLPNLIAEV  138 (467)
T ss_pred             ECChhc-CcHHHHHhcCCCceEEECCCCHHHHHHHHHHH
Confidence            443333 223333443 4357777787777777766654

>PF02581 TMP-TENI: Thiamine monophosphate synthase/TENI; InterPro: IPR003733 Thiamine monophosphate synthase (TMP) (2

Probab=89.84  E-value=4.5  Score=27.27  Aligned_cols=70  Identities=20%  Similarity=0.237  Sum_probs=48.2

Q ss_pred             EEEEcCHHHHHHHHHcCCCccEEEEecCCCCC-------CHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCcee
Q 048318           52 VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVM-------NGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLC  124 (145)
Q Consensus        52 v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~-------~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~  124 (145)
                      -..+.+.+++.+....  .+|.+++..-.+..       -|++.++.+.+.. .+|++++.+-. .+....+.+.|++++
T Consensus        99 g~S~h~~~e~~~a~~~--g~dYv~~gpvf~T~sk~~~~~~g~~~l~~~~~~~-~~pv~AlGGI~-~~~i~~l~~~Ga~gv  174 (180)
T PF02581_consen   99 GASCHSLEEAREAEEL--GADYVFLGPVFPTSSKPGAPPLGLDGLREIARAS-PIPVYALGGIT-PENIPELREAGADGV  174 (180)
T ss_dssp             EEEESSHHHHHHHHHC--TTSEEEEETSS--SSSSS-TTCHHHHHHHHHHHT-SSCEEEESS---TTTHHHHHHTT-SEE
T ss_pred             EeecCcHHHHHHhhhc--CCCEEEECCccCCCCCccccccCHHHHHHHHHhC-CCCEEEEcCCC-HHHHHHHHHcCCCEE
Confidence            3478899986665543  58999999865543       3888888887654 48999887764 444667889999887


Q ss_pred             e
Q 048318          125 H  125 (145)
Q Consensus       125 l  125 (145)
                      -
T Consensus       175 A  175 (180)
T PF02581_consen  175 A  175 (180)
T ss_dssp             E
T ss_pred             E
Confidence            3

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 ....

>CHL00101 trpG anthranilate synthase component 2

Probab=89.70  E-value=1.7  Score=29.66  Aligned_cols=50  Identities=16%  Similarity=0.161  Sum_probs=36.7

Q ss_pred             EEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEec
Q 048318           28 ALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDK   78 (145)
Q Consensus        28 iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~   78 (145)
                      ||++|........+.+.|+..|+.+..+......+..+.. ..||.|++.-
T Consensus         2 iliid~~dsft~~l~~~l~~~g~~~~v~~~~~~~~~~~~~-~~~dgiiisg   51 (190)
T CHL00101          2 ILIIDNYDSFTYNLVQSLGELNSDVLVCRNDEIDLSKIKN-LNIRHIIISP   51 (190)
T ss_pred             EEEEECCCchHHHHHHHHHhcCCCEEEEECCCCCHHHHhh-CCCCEEEECC
Confidence            8999999999999999999999888876644322222333 3589888753

>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA)

Probab=89.69  E-value=2.8  Score=29.83  Aligned_cols=56  Identities=25%  Similarity=0.184  Sum_probs=34.6

Q ss_pred             HHHHHHHHHhcCCcceEEEEeCCCC------HHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318           85 GIEATREIRSMGIKIKIVGVTSLNS------EAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus        85 ~~~~~~~l~~~~~~~~iv~l~~~~~------~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (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            456666666543 567666555332      55677788888888877544555555554443

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.

>COG5012 Predicted cobalamin binding protein [General function prediction only]

Probab=89.16  E-value=2.9  Score=29.46  Aligned_cols=86  Identities=21%  Similarity=0.261  Sum_probs=58.9

Q ss_pred             HHHHHHHHHHcCCeEE-EEc--CHHHHHHHHHcCCCccEEEEecCCCC-CCH-HHHHHHHHhcCCcceEEEEeCCCCHHH
Q 048318           38 RTIHSMALKSLGFKVE-VAE--NGKEAVDLFRSGAKFDIVFIDKEMPV-MNG-IEATREIRSMGIKIKIVGVTSLNSEAE  112 (145)
Q Consensus        38 ~~~l~~~L~~~g~~v~-~~~--~~~~al~~~~~~~~~dlvl~d~~~~~-~~~-~~~~~~l~~~~~~~~iv~l~~~~~~~~  112 (145)
                      ...+..+|+..||++. ..+  ..++.++...+ .+||+|-...-|.. +.+ -++++++++....-|+++.......+ 
T Consensus       121 k~iV~~ml~~aGfevidLG~dvP~e~fve~a~e-~k~d~v~~SalMTttm~~~~~viE~L~eeGiRd~v~v~vGGApvt-  198 (227)
T COG5012         121 KNIVATMLEAAGFEVIDLGRDVPVEEFVEKAKE-LKPDLVSMSALMTTTMIGMKDVIELLKEEGIRDKVIVMVGGAPVT-  198 (227)
T ss_pred             HHHHHHHHHhCCcEEEecCCCCCHHHHHHHHHH-cCCcEEechHHHHHHHHHHHHHHHHHHHcCCccCeEEeecCcccc-
Confidence            3566677788899987 333  56778888877 67999999887753 333 46788888877666777664443221 


Q ss_pred             HHHHHHhCCceee
Q 048318          113 REAFMQAGLDLCH  125 (145)
Q Consensus       113 ~~~~~~~g~~~~l  125 (145)
                      ..-+-+-|+|.|-
T Consensus       199 q~~a~~iGAD~~~  211 (227)
T COG5012         199 QDWADKIGADAYA  211 (227)
T ss_pred             HHHHHHhCCCccC
Confidence            1234567999884

>PRK05567 inosine 5'-monophosphate dehydrogenase; Reviewed

Probab=89.14  E-value=3.3  Score=32.66  Aligned_cols=65  Identities=18%  Similarity=0.330  Sum_probs=48.2

Q ss_pred             HHHHHHHHcCCCccEEEEecCCCC-CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           59 KEAVDLFRSGAKFDIVFIDKEMPV-MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        59 ~~al~~~~~~~~~dlvl~d~~~~~-~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      .+..+.+.+ ...|++.+|..... ..-.+.++.+++..+++|+++ ..-.+.+....+.++|++.+-
T Consensus       230 ~e~a~~L~~-agvdvivvD~a~g~~~~vl~~i~~i~~~~p~~~vi~-g~v~t~e~a~~l~~aGad~i~  295 (486)
T PRK05567        230 EERAEALVE-AGVDVLVVDTAHGHSEGVLDRVREIKAKYPDVQIIA-GNVATAEAARALIEAGADAVK  295 (486)
T ss_pred             HHHHHHHHH-hCCCEEEEECCCCcchhHHHHHHHHHhhCCCCCEEE-eccCCHHHHHHHHHcCCCEEE
Confidence            344444444 46899999975332 345678888888777888774 788899999999999999884

>PRK04148 hypothetical protein; Provisional

Probab=88.68  E-value=1.2  Score=28.87  Aligned_cols=98  Identities=18%  Similarity=0.087  Sum_probs=58.7

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      +.+++.++--  ....+...|.+.|++|+...-.+++++.+.. ...+++.-|+.-|+.+-.+-...+.+..|.      
T Consensus        17 ~~kileIG~G--fG~~vA~~L~~~G~~ViaIDi~~~aV~~a~~-~~~~~v~dDlf~p~~~~y~~a~liysirpp------   87 (134)
T PRK04148         17 NKKIVELGIG--FYFKVAKKLKESGFDVIVIDINEKAVEKAKK-LGLNAFVDDLFNPNLEIYKNAKLIYSIRPP------   87 (134)
T ss_pred             CCEEEEEEec--CCHHHHHHHHHCCCEEEEEECCHHHHHHHHH-hCCeEEECcCCCCCHHHHhcCCEEEEeCCC------
Confidence            4568888777  3334555667789999988888888887776 457889988877764433222222221111      


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHH
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDK  133 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~  133 (145)
                       ..-......-|.+.|++-+ .+|++-+.
T Consensus        88 -~el~~~~~~la~~~~~~~~-i~~l~~e~  114 (134)
T PRK04148         88 -RDLQPFILELAKKINVPLI-IKPLSGEE  114 (134)
T ss_pred             -HHHHHHHHHHHHHcCCCEE-EEcCCCCC
Confidence             1112333444556677655 46776554

>COG0421 SpeE Spermidine synthase [Amino acid transport and metabolism]

Probab=88.48  E-value=6  Score=29.00  Aligned_cols=76  Identities=21%  Similarity=0.164  Sum_probs=53.5

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcC--C---eEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCC-----HHHHHHHHH
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLG--F---KVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMN-----GIEATREIR   93 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g--~---~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~-----~~~~~~~l~   93 (145)
                      -.+|.++|=|+...+..++.|-...  .   .+. ...|+.+.++....  .+|+||+|..-|.+.     ..++.+..+
T Consensus       100 ve~i~~VEID~~Vi~~ar~~l~~~~~~~~dpRv~i~i~Dg~~~v~~~~~--~fDvIi~D~tdp~gp~~~Lft~eFy~~~~  177 (282)
T COG0421         100 VERITMVEIDPAVIELARKYLPEPSGGADDPRVEIIIDDGVEFLRDCEE--KFDVIIVDSTDPVGPAEALFTEEFYEGCR  177 (282)
T ss_pred             cceEEEEEcCHHHHHHHHHhccCcccccCCCceEEEeccHHHHHHhCCC--cCCEEEEcCCCCCCcccccCCHHHHHHHH
Confidence            4578999999999999999986432  2   233 56677777765543  699999999888543     467888887


Q ss_pred             hcCCcceEE
Q 048318           94 SMGIKIKIV  102 (145)
Q Consensus        94 ~~~~~~~iv  102 (145)
                      +....--|+
T Consensus       178 ~~L~~~Gi~  186 (282)
T COG0421         178 RALKEDGIF  186 (282)
T ss_pred             HhcCCCcEE
Confidence            754333333

>PRK04302 triosephosphate isomerase; Provisional

Probab=88.47  E-value=6.7  Score=27.46  Aligned_cols=93  Identities=14%  Similarity=0.159  Sum_probs=56.0

Q ss_pred             HHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecC--CCC--------C-CHHHHHHHHHhcCCcceEEEEeCCCCHH
Q 048318           44 ALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKE--MPV--------M-NGIEATREIRSMGIKIKIVGVTSLNSEA  111 (145)
Q Consensus        44 ~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~--~~~--------~-~~~~~~~~l~~~~~~~~iv~l~~~~~~~  111 (145)
                      .....|..+. ++.+.+++.. +.. ..+|+|-+.-.  ...        . ...++++.+++...++|++.=.+-.+.+
T Consensus       109 ~a~~~Gl~~I~~v~~~~~~~~-~~~-~~~~~I~~~p~~~igt~~~~~~~~~~~i~~~~~~ir~~~~~~pvi~GggI~~~e  186 (223)
T PRK04302        109 RAKKLGLESVVCVNNPETSAA-AAA-LGPDYVAVEPPELIGTGIPVSKAKPEVVEDAVEAVKKVNPDVKVLCGAGISTGE  186 (223)
T ss_pred             HHHHCCCeEEEEcCCHHHHHH-Hhc-CCCCEEEEeCccccccCCCCCcCCHHHHHHHHHHHHhccCCCEEEEECCCCCHH
Confidence            3345687755 5666565554 444 45787765421  110        0 1234556677654568888766667888


Q ss_pred             HHHHHHHhCCceeec-----CCCCHHHHHHHH
Q 048318          112 EREAFMQAGLDLCHT-----KPLSVDKILPLM  138 (145)
Q Consensus       112 ~~~~~~~~g~~~~l~-----kP~~~~~L~~~i  138 (145)
                      ....+...|+|+++.     |.-++......+
T Consensus       187 ~~~~~~~~gadGvlVGsa~l~~~~~~~~~~~~  218 (223)
T PRK04302        187 DVKAALELGADGVLLASGVVKAKDPEAALRDL  218 (223)
T ss_pred             HHHHHHcCCCCEEEEehHHhCCcCHHHHHHHH
Confidence            888888999999974     444554444433

>PRK03958 tRNA 2'-O-methylase; Reviewed

Probab=88.41  E-value=6  Score=26.85  Aligned_cols=56  Identities=14%  Similarity=0.301  Sum_probs=46.9

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcC--CeEEEEcCHHHHHHHHHc-CCCccEEEEecCCCC
Q 048318           27 FALVVDDDCFIRTIHSMALKSLG--FKVEVAENGKEAVDLFRS-GAKFDIVFIDKEMPV   82 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g--~~v~~~~~~~~al~~~~~-~~~~dlvl~d~~~~~   82 (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            46899999999999999999886  888899999999998853 345888888887655

>TIGR03088 stp2 sugar transferase, PEP-CTERM/EpsH1 system associated

Probab=88.39  E-value=8.6  Score=28.58  Aligned_cols=107  Identities=13%  Similarity=0.214  Sum_probs=60.8

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCe--EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFK--VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~--v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (145)
                      +.+.+++++.+. ...++..++..|..  +......++....+..   .|++++- +..+.-+.-+++.+..   .+|+|
T Consensus       229 ~~~l~i~G~g~~-~~~~~~~~~~~~~~~~v~~~g~~~~~~~~~~~---adi~v~p-S~~Eg~~~~~lEAma~---G~Pvv  300 (374)
T TIGR03088       229 RLRLVIVGDGPA-RGACEQMVRAAGLAHLVWLPGERDDVPALMQA---LDLFVLP-SLAEGISNTILEAMAS---GLPVI  300 (374)
T ss_pred             ceEEEEecCCch-HHHHHHHHHHcCCcceEEEcCCcCCHHHHHHh---cCEEEec-cccccCchHHHHHHHc---CCCEE
Confidence            345666665543 34566666655533  3222223333333332   5766542 2223345556666553   56776


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      + ++...   ..+....|..+++..|-+.+++...+.++++
T Consensus       301 ~-s~~~g---~~e~i~~~~~g~~~~~~d~~~la~~i~~l~~  337 (374)
T TIGR03088       301 A-TAVGG---NPELVQHGVTGALVPPGDAVALARALQPYVS  337 (374)
T ss_pred             E-cCCCC---cHHHhcCCCceEEeCCCCHHHHHHHHHHHHh
Confidence            5 43332   2334556788899999999999999988764

Members of this family include a match to the pfam00534 Glycosyl transferases group 1 domain. Nearly all are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria. In particular, these transferases are found proximal to a particular variant of exosortase, EpsH1, which appears to travel with a conserved group of genes summarized by Genome Property GenProp0652. The nature of the sugar transferase reaction catalyzed by members of this clade is unknown and may conceivably be variable with respect to substrate by species, but we hypothesize a conserved substrate.

>PRK06106 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=88.30  E-value=8.2  Score=28.28  Aligned_cols=92  Identities=15%  Similarity=0.174  Sum_probs=58.8

Q ss_pred             eEEEEeCcHHHHHHHHHHHHH----cC--CeE-EEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcc
Q 048318           27 FALVVDDDCFIRTIHSMALKS----LG--FKV-EVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKI   99 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~----~g--~~v-~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~   99 (145)
                      .|||-|+|-...-.+...++.    .+  ..+ +.+.+.+|+.+.+..  .+|+|++|= |   +--++-+.+.......
T Consensus       166 ~vlikdNHi~~~G~i~~ai~~~r~~~~~~~kIeVEv~tleea~ea~~~--gaDiI~LDn-~---s~e~l~~av~~~~~~~  239 (281)
T PRK06106        166 AVLIKDNHIAIAGGVREAIRRARAGVGHLVKIEVEVDTLDQLEEALEL--GVDAVLLDN-M---TPDTLREAVAIVAGRA  239 (281)
T ss_pred             hhccCHHHHHHhCcHHHHHHHHHHhCCCCCcEEEEeCCHHHHHHHHHc--CCCEEEeCC-C---CHHHHHHHHHHhCCCc
Confidence            466666665554444444432    23  223 488899999999865  589999983 3   3333333333222233


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceee
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      + +..++.-+.+.+.+....|+|.+-
T Consensus       240 ~-leaSGGI~~~ni~~yA~tGVD~Is  264 (281)
T PRK06106        240 I-TEASGRITPETAPAIAASGVDLIS  264 (281)
T ss_pred             e-EEEECCCCHHHHHHHHhcCCCEEE
Confidence            3 567888899999999999998774

>cd05212 NAD_bind_m-THF_DH_Cyclohyd_like NAD(P) binding domain of methylene-tetrahydrofolate dehydrogenase and methylene-tetrahydrofolate dehydrogenase/cyclohydrolase

Probab=88.30  E-value=3.7  Score=26.75  Aligned_cols=54  Identities=17%  Similarity=0.105  Sum_probs=42.5

Q ss_pred             cCCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEc----CHHHHHHHHHcCCCccEEEEecCCCC
Q 048318           23 NLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAE----NGKEAVDLFRSGAKFDIVFIDKEMPV   82 (145)
Q Consensus        23 ~~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~----~~~~al~~~~~~~~~dlvl~d~~~~~   82 (145)
                      -.+.+|+++.......+-+..+|.+.|..+..+.    +.+++   ++   .-|+|+.-..-+.
T Consensus        26 ~~gk~v~VvGrs~~vG~pla~lL~~~gatV~~~~~~t~~l~~~---v~---~ADIVvsAtg~~~   83 (140)
T cd05212          26 LDGKKVLVVGRSGIVGAPLQCLLQRDGATVYSCDWKTIQLQSK---VH---DADVVVVGSPKPE   83 (140)
T ss_pred             CCCCEEEEECCCchHHHHHHHHHHHCCCEEEEeCCCCcCHHHH---Hh---hCCEEEEecCCCC
Confidence            3467899999999999999999999999999776    44433   32   3699999876553

NAD(P) binding domains of methylene-tetrahydrofolate dehydrogenase (m-THF DH) and m-THF DH/cyclohydrolase bifunctional enzymes (m-THF DH/cyclohydrolase). M-THF is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. In addition, most DHs also have an associated cyclohydrolase activity which catalyzes its hydrolysis to N10-formyltetrahydrofolate. m-THF DH is typically found as part of a multifunctional protein in eukaryotes. NADP-dependent m-THF DH in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional

>TIGR00736 nifR3_rel_arch TIM-barrel protein, putative

Probab=88.07  E-value=7.6  Score=27.59  Aligned_cols=65  Identities=15%  Similarity=0.192  Sum_probs=49.8

Q ss_pred             HHHHHHHcCCCccEEEEecCCCCC--CHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           60 EAVDLFRSGAKFDIVFIDKEMPVM--NGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        60 ~al~~~~~~~~~dlvl~d~~~~~~--~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (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            34444555 568999998655554  358899999886545899988888899999999999999874

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.

>PF04321 RmlD_sub_bind: RmlD substrate binding domain; InterPro: IPR005913 dTDP-4-dehydrorhamnose reductase (1

Probab=87.98  E-value=1.5  Score=31.89  Aligned_cols=54  Identities=20%  Similarity=0.286  Sum_probs=37.9

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEc-------CHHHHHHHHHcCCCccEEEEecCC
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAE-------NGKEAVDLFRSGAKFDIVFIDKEM   80 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~-------~~~~al~~~~~~~~~dlvl~d~~~   80 (145)
                      |+|||++.+......+...|...|+++....       +.++..+.+.. ..||+||-=..+
T Consensus         1 MriLI~GasG~lG~~l~~~l~~~~~~v~~~~r~~~dl~d~~~~~~~~~~-~~pd~Vin~aa~   61 (286)
T PF04321_consen    1 MRILITGASGFLGSALARALKERGYEVIATSRSDLDLTDPEAVAKLLEA-FKPDVVINCAAY   61 (286)
T ss_dssp             EEEEEETTTSHHHHHHHHHHTTTSEEEEEESTTCS-TTSHHHHHHHHHH-H--SEEEE----
T ss_pred             CEEEEECCCCHHHHHHHHHHhhCCCEEEEeCchhcCCCCHHHHHHHHHH-hCCCeEecccee
Confidence            6899999999999999999998888877542       45555556655 569988765543

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.

>PRK00811 spermidine synthase; Provisional

Probab=87.83  E-value=8.7  Score=28.01  Aligned_cols=68  Identities=21%  Similarity=0.209  Sum_probs=45.9

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcC------CeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCC-----HHHHHHHHH
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLG------FKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMN-----GIEATREIR   93 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g------~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~-----~~~~~~~l~   93 (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            478999999999999999886431      2343 55677665544 22 4699999998655432     245666666


Q ss_pred             hc
Q 048318           94 SM   95 (145)
Q Consensus        94 ~~   95 (145)
                      +.
T Consensus       179 ~~  180 (283)
T PRK00811        179 RA  180 (283)
T ss_pred             Hh
Confidence            53

>PF01729 QRPTase_C: Quinolinate phosphoribosyl transferase, C-terminal domain; InterPro: IPR002638 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2

Probab=87.82  E-value=4.1  Score=27.43  Aligned_cols=72  Identities=19%  Similarity=0.220  Sum_probs=50.2

Q ss_pred             CccEEEEecCCCC--CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318           70 KFDIVFIDKEMPV--MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus        70 ~~dlvl~d~~~~~--~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      .+|.+++..+.-.  .+-.+.++.+++..|..+.| ...-.+.++..++++.|+|.+..-.++++++...++.+.
T Consensus        49 l~d~ili~~nHi~~~g~i~~av~~~~~~~~~~~~I-~VEv~~~ee~~ea~~~g~d~I~lD~~~~~~~~~~v~~l~  122 (169)
T PF01729_consen   49 LSDMILIKDNHIAFFGGIEEAVKAARQAAPEKKKI-EVEVENLEEAEEALEAGADIIMLDNMSPEDLKEAVEELR  122 (169)
T ss_dssp             TTSSEEE-HHHHHHHSSHHHHHHHHHHHSTTTSEE-EEEESSHHHHHHHHHTT-SEEEEES-CHHHHHHHHHHHH
T ss_pred             CCCcEEehHHHHHHhCCHHHHHHHHHHhCCCCceE-EEEcCCHHHHHHHHHhCCCEEEecCcCHHHHHHHHHHHh
Confidence            4676776654322  34567888888877766432 334456788999999999999999999999999888654

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 ....

>PRK06895 putative anthranilate synthase component II; Provisional

Probab=87.82  E-value=1.4  Score=30.09  Aligned_cols=77  Identities=14%  Similarity=0.167  Sum_probs=45.6

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEec--CCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDK--EMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~--~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      ++||++|........+...|+..|+.+......+.-...+   ..+|.|++-=  ..++. -..+.+.++......|++-
T Consensus         2 ~~iliid~~dsf~~~i~~~l~~~g~~~~v~~~~~~~~~~l---~~~d~iIi~gGp~~~~~-~~~~~~~i~~~~~~~PiLG   77 (190)
T PRK06895          2 TKLLIINNHDSFTFNLVDLIRKLGVPMQVVNVEDLDLDEV---ENFSHILISPGPDVPRA-YPQLFAMLERYHQHKSILG   77 (190)
T ss_pred             cEEEEEeCCCchHHHHHHHHHHcCCcEEEEECCccChhHh---ccCCEEEECCCCCChHH-hhHHHHHHHHhcCCCCEEE
Confidence            5799999999999999999999998877665322112222   2378766432  11111 1123344443223567766


Q ss_pred             EeC
Q 048318          104 VTS  106 (145)
Q Consensus       104 l~~  106 (145)
                      ++-
T Consensus        78 ICl   80 (190)
T PRK06895         78 VCL   80 (190)
T ss_pred             EcH
Confidence            554

>CHL00162 thiG thiamin biosynthesis protein G; Validated

Probab=87.59  E-value=8.7  Score=27.76  Aligned_cols=98  Identities=14%  Similarity=0.087  Sum_probs=65.2

Q ss_pred             HHHHHHcCCeEEEEc--CHHHHHHHHHcCCCccEEEEecCCCCC-----CHHHHHHHHHhcCCcceEEEEeCCCCHHHHH
Q 048318           42 SMALKSLGFKVEVAE--NGKEAVDLFRSGAKFDIVFIDKEMPVM-----NGIEATREIRSMGIKIKIVGVTSLNSEAERE  114 (145)
Q Consensus        42 ~~~L~~~g~~v~~~~--~~~~al~~~~~~~~~dlvl~d~~~~~~-----~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~  114 (145)
                      .+.|-+.||.|....  |.--|.++. + .... .++-+.-|=+     .....++.|++. +++|+++=++-...+...
T Consensus       130 ae~Lv~eGF~VlPY~~~D~v~a~rLe-d-~Gc~-aVMPlgsPIGSg~Gl~n~~~l~~i~e~-~~vpVivdAGIgt~sDa~  205 (267)
T CHL00162        130 AEFLVKKGFTVLPYINADPMLAKHLE-D-IGCA-TVMPLGSPIGSGQGLQNLLNLQIIIEN-AKIPVIIDAGIGTPSEAS  205 (267)
T ss_pred             HHHHHHCCCEEeecCCCCHHHHHHHH-H-cCCe-EEeeccCcccCCCCCCCHHHHHHHHHc-CCCcEEEeCCcCCHHHHH
Confidence            334557899998433  343344433 3 3333 3444544432     234677888875 468999888889999999


Q ss_pred             HHHHhCCceee-----cCCCCHHHHHHHHHHHHh
Q 048318          115 AFMQAGLDLCH-----TKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       115 ~~~~~g~~~~l-----~kP~~~~~L~~~i~~~~~  143 (145)
                      .+++.|+|+.+     .|--++.++...++...+
T Consensus       206 ~AmElGaDgVL~nSaIakA~dP~~mA~a~~~AV~  239 (267)
T CHL00162        206 QAMELGASGVLLNTAVAQAKNPEQMAKAMKLAVQ  239 (267)
T ss_pred             HHHHcCCCEEeecceeecCCCHHHHHHHHHHHHH
Confidence            99999999985     466777888877766543

>PTZ00314 inosine-5'-monophosphate dehydrogenase; Provisional

Probab=87.53  E-value=5.1  Score=31.77  Aligned_cols=56  Identities=16%  Similarity=0.297  Sum_probs=43.0

Q ss_pred             CCccEEEEecCCCC-CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           69 AKFDIVFIDKEMPV-MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        69 ~~~dlvl~d~~~~~-~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      ...|+|.+|..... ...++.++.+++..++++|++ ..-.+.+....+.++|+|.+.
T Consensus       252 ag~d~i~id~a~G~s~~~~~~i~~ik~~~~~~~v~a-G~V~t~~~a~~~~~aGad~I~  308 (495)
T PTZ00314        252 AGVDVLVVDSSQGNSIYQIDMIKKLKSNYPHVDIIA-GNVVTADQAKNLIDAGADGLR  308 (495)
T ss_pred             CCCCEEEEecCCCCchHHHHHHHHHHhhCCCceEEE-CCcCCHHHHHHHHHcCCCEEE
Confidence            46899999985332 234688999998877777764 566788889999999999884

>PRK13125 trpA tryptophan synthase subunit alpha; Provisional

Probab=87.49  E-value=8.3  Score=27.43  Aligned_cols=99  Identities=12%  Similarity=-0.019  Sum_probs=58.4

Q ss_pred             ceEEEEeCc----HHHHHHHHHHHHHcCCeEEEE-c--CHHHHHHHHHcCCCccEEEEecCCCC------CCHHHHHHHH
Q 048318           26 LFALVVDDD----CFIRTIHSMALKSLGFKVEVA-E--NGKEAVDLFRSGAKFDIVFIDKEMPV------MNGIEATREI   92 (145)
Q Consensus        26 ~~iLii~~~----~~~~~~l~~~L~~~g~~v~~~-~--~~~~al~~~~~~~~~dlvl~d~~~~~------~~~~~~~~~l   92 (145)
                      ...+++.+-    ......+.+.+++.|..+..+ +  +..+.++.+.. ....++++.. .|+      .+..+.++++
T Consensus       102 adgvii~dlp~e~~~~~~~~~~~~~~~Gl~~~~~v~p~T~~e~l~~~~~-~~~~~l~msv-~~~~g~~~~~~~~~~i~~l  179 (244)
T PRK13125        102 ADGVLFPDLLIDYPDDLEKYVEIIKNKGLKPVFFTSPKFPDLLIHRLSK-LSPLFIYYGL-RPATGVPLPVSVERNIKRV  179 (244)
T ss_pred             CCEEEECCCCCCcHHHHHHHHHHHHHcCCCEEEEECCCCCHHHHHHHHH-hCCCEEEEEe-CCCCCCCchHHHHHHHHHH
Confidence            344555442    234556667778888775532 2  22444554444 3456776643 232      1224566777


Q ss_pred             HhcCCcceEEEEeCCC-CHHHHHHHHHhCCceeecC
Q 048318           93 RSMGIKIKIVGVTSLN-SEAEREAFMQAGLDLCHTK  127 (145)
Q Consensus        93 ~~~~~~~~iv~l~~~~-~~~~~~~~~~~g~~~~l~k  127 (145)
                      |+..+..|++ +...- +.+....+...|+|.++.-
T Consensus       180 r~~~~~~~i~-v~gGI~~~e~i~~~~~~gaD~vvvG  214 (244)
T PRK13125        180 RNLVGNKYLV-VGFGLDSPEDARDALSAGADGVVVG  214 (244)
T ss_pred             HHhcCCCCEE-EeCCcCCHHHHHHHHHcCCCEEEEC
Confidence            7655455654 55554 7788888889999999865

>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family

Probab=87.32  E-value=7.1  Score=26.47  Aligned_cols=70  Identities=17%  Similarity=0.081  Sum_probs=48.1

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHc--CCeEEEEc------CHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSL--GFKVEVAE------NGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM   95 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~--g~~v~~~~------~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~   95 (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            3468999999999999999998764  45544221      22334666766 67999999998886554  34555544


Q ss_pred             C
Q 048318           96 G   96 (145)
Q Consensus        96 ~   96 (145)
                      .
T Consensus       124 ~  124 (177)
T TIGR00696       124 K  124 (177)
T ss_pred             C
Confidence            3

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.

>PRK06015 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=87.31  E-value=7.8  Score=26.92  Aligned_cols=23  Identities=22%  Similarity=0.121  Sum_probs=10.9

Q ss_pred             EEeCcHHHHHHHHHHHHHcCCeE
Q 048318           30 VVDDDCFIRTIHSMALKSLGFKV   52 (145)
Q Consensus        30 ii~~~~~~~~~l~~~L~~~g~~v   52 (145)
                      +-.++++....+...|-+.|+.+
T Consensus        10 ir~~~~~~a~~ia~al~~gGi~~   32 (201)
T PRK06015         10 LLIDDVEHAVPLARALAAGGLPA   32 (201)
T ss_pred             EEcCCHHHHHHHHHHHHHCCCCE
Confidence            33444444444555554555443

>cd00564 TMP_TenI Thiamine monophosphate synthase (TMP synthase)/TenI

Probab=87.19  E-value=6.9  Score=26.18  Aligned_cols=69  Identities=22%  Similarity=0.272  Sum_probs=47.2

Q ss_pred             EEcCHHHHHHHHHcCCCccEEEEecCCCC--------CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           54 VAENGKEAVDLFRSGAKFDIVFIDKEMPV--------MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        54 ~~~~~~~al~~~~~~~~~dlvl~d~~~~~--------~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (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            34566666665543  5899998754432        3456788888764 46888876655 56778889999999875


Q ss_pred             c
Q 048318          126 T  126 (145)
Q Consensus       126 ~  126 (145)
                      .
T Consensus       177 ~  177 (196)
T cd00564         177 V  177 (196)
T ss_pred             E
Confidence            3

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.

>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional

Probab=87.02  E-value=16  Score=30.26  Aligned_cols=101  Identities=16%  Similarity=0.236  Sum_probs=69.2

Q ss_pred             HHHHHHHHHcCCeEEE--EcCHHHHHHHHHcCCCccEEEEecCCCC-----CCHHHHHHHHHhc--CCcceEEEEeCCCC
Q 048318           39 TIHSMALKSLGFKVEV--AENGKEAVDLFRSGAKFDIVFIDKEMPV-----MNGIEATREIRSM--GIKIKIVGVTSLNS  109 (145)
Q Consensus        39 ~~l~~~L~~~g~~v~~--~~~~~~al~~~~~~~~~dlvl~d~~~~~-----~~~~~~~~~l~~~--~~~~~iv~l~~~~~  109 (145)
                      ......|++.||.+..  +.++...+..+.. .+||.|=+|-.+-.     .....+++.+...  ..++.+| ...-.+
T Consensus       681 ~~~l~~l~~~G~~i~ld~fg~~~~~~~~l~~-l~~d~iKid~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~vi-a~gVe~  758 (799)
T PRK11359        681 FKRIQILRDMGVGLSVDDFGTGFSGLSRLVS-LPVTEIKIDKSFVDRCLTEKRILALLEAITSIGQSLNLTVV-AEGVET  758 (799)
T ss_pred             HHHHHHHHHCCCEEEEECCCCchhhHHHHhh-CCCCEEEECHHHHhhcccChhHHHHHHHHHHHHHHCCCeEE-EEcCCC
Confidence            3344467888999764  5577777777776 67999999975421     2234456655432  2345554 566678


Q ss_pred             HHHHHHHHHhCCce----eecCCCCHHHHHHHHHHH
Q 048318          110 EAEREAFMQAGLDL----CHTKPLSVDKILPLMEDL  141 (145)
Q Consensus       110 ~~~~~~~~~~g~~~----~l~kP~~~~~L~~~i~~~  141 (145)
                      .+....+.+.|++.    |+.||...+++...++..
T Consensus       759 ~~~~~~l~~~g~~~~QG~~~~~p~~~~~~~~~~~~~  794 (799)
T PRK11359        759 KEQFEMLRKIHCRVIQGYFFSRPLPAEEIPGWMSSV  794 (799)
T ss_pred             HHHHHHHHhcCCCEEeeCeecCCCCHHHHHHHHHhc
Confidence            88888888999863    478999999998877653

>PRK13566 anthranilate synthase; Provisional

Probab=87.02  E-value=4.3  Score=33.76  Aligned_cols=79  Identities=15%  Similarity=0.157  Sum_probs=50.1

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCC--C-CCCHHHHHHHHHhcCCcce
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEM--P-VMNGIEATREIRSMGIKIK  100 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~--~-~~~~~~~~~~l~~~~~~~~  100 (145)
                      .+++|++||........+.+.|+..|+.+..+..... .+.+.. ..||.||+--.-  + +....++++...+  ...|
T Consensus       525 ~g~~IlvID~~dsf~~~l~~~Lr~~G~~v~vv~~~~~-~~~~~~-~~~DgVVLsgGpgsp~d~~~~~lI~~a~~--~~iP  600 (720)
T PRK13566        525 EGKRVLLVDHEDSFVHTLANYFRQTGAEVTTVRYGFA-EEMLDR-VNPDLVVLSPGPGRPSDFDCKATIDAALA--RNLP  600 (720)
T ss_pred             CCCEEEEEECCCchHHHHHHHHHHCCCEEEEEECCCC-hhHhhh-cCCCEEEECCCCCChhhCCcHHHHHHHHH--CCCc
Confidence            4568999999988999999999999999886654422 122333 458998874221  1 1123344444333  2577


Q ss_pred             EEEEeC
Q 048318          101 IVGVTS  106 (145)
Q Consensus       101 iv~l~~  106 (145)
                      |+-++-
T Consensus       601 ILGICl  606 (720)
T PRK13566        601 IFGVCL  606 (720)
T ss_pred             EEEEeh
Confidence            776654

>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=86.96  E-value=7.2  Score=26.15  Aligned_cols=71  Identities=11%  Similarity=0.088  Sum_probs=49.5

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHc--CCeEEEEc-------CHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSL--GFKVEVAE-------NGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM   95 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~--g~~v~~~~-------~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~   95 (145)
                      +.+|.++...+...+.+...|+..  |..++-+.       +.++.++.+.. ..||+|++.+..|.+.  .++...+..
T Consensus        48 ~~~ifllG~~~~~~~~~~~~l~~~yP~l~ivg~~~g~f~~~~~~~i~~~I~~-~~pdiv~vglG~PkQE--~~~~~~~~~  124 (172)
T PF03808_consen   48 GKRIFLLGGSEEVLEKAAANLRRRYPGLRIVGYHHGYFDEEEEEAIINRINA-SGPDIVFVGLGAPKQE--RWIARHRQR  124 (172)
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHHHCCCeEEEEecCCCCChhhHHHHHHHHHH-cCCCEEEEECCCCHHH--HHHHHHHHH
Confidence            468899999999999888888765  55555222       34455666666 6799999999877533  456666665


Q ss_pred             CCc
Q 048318           96 GIK   98 (145)
Q Consensus        96 ~~~   98 (145)
                      .+.
T Consensus       125 l~~  127 (172)
T PF03808_consen  125 LPA  127 (172)
T ss_pred             CCC
Confidence            433

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

>COG0157 NadC Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]

Probab=86.88  E-value=5.6  Score=29.03  Aligned_cols=70  Identities=23%  Similarity=0.224  Sum_probs=54.2

Q ss_pred             ccEEEEecCCCCC--CHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318           71 FDIVFIDKEMPVM--NGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus        71 ~dlvl~d~~~~~~--~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      .|.+++-.+.-..  +--+.+++.|+..++.+.| =..-++.++..+|+.+|+|-++.-.++++++...++.+
T Consensus       158 sDavliKDNHia~~g~i~~Av~~aR~~~~~~~kI-EVEvesle~~~eAl~agaDiImLDNm~~e~~~~av~~l  229 (280)
T COG0157         158 SDAVLIKDNHIAAAGSITEAVRRARAAAPFTKKI-EVEVESLEEAEEALEAGADIIMLDNMSPEELKEAVKLL  229 (280)
T ss_pred             cceEEehhhHHHHhccHHHHHHHHHHhCCCCceE-EEEcCCHHHHHHHHHcCCCEEEecCCCHHHHHHHHHHh
Confidence            6778877655432  3456788888877776644 34556788899999999999999999999999998873

>PLN02591 tryptophan synthase

Probab=86.85  E-value=4.5  Score=29.07  Aligned_cols=61  Identities=20%  Similarity=0.173  Sum_probs=0.0

Q ss_pred             CHHHHHHHHHhcCCcceEEEEeCCCCHHH------HHHHHHhCCceeecCCCCHHHHHHHHHHHHhcC
Q 048318           84 NGIEATREIRSMGIKIKIVGVTSLNSEAE------REAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN  145 (145)
Q Consensus        84 ~~~~~~~~l~~~~~~~~iv~l~~~~~~~~------~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~~  145 (145)
                      +.+++++.+| ....+|+++++-...--.      ..++.++|+++++.-.+.+++......++-+.+
T Consensus        65 ~~~~~~~~~r-~~~~~p~ilm~Y~N~i~~~G~~~F~~~~~~aGv~GviipDLP~ee~~~~~~~~~~~g  131 (250)
T PLN02591         65 SVISMLKEVA-PQLSCPIVLFTYYNPILKRGIDKFMATIKEAGVHGLVVPDLPLEETEALRAEAAKNG  131 (250)
T ss_pred             HHHHHHHHHh-cCCCCCEEEEecccHHHHhHHHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHHcC

>PLN02889 oxo-acid-lyase/anthranilate synthase

Probab=86.83  E-value=7.4  Score=33.30  Aligned_cols=80  Identities=19%  Similarity=0.104  Sum_probs=48.0

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHc-CCeEEEEcCHHHHHHHHH----cCCCccEEEEecCCCCC--C-HH-HHHHHHHhc
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSL-GFKVEVAENGKEAVDLFR----SGAKFDIVFIDKEMPVM--N-GI-EATREIRSM   95 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~-g~~v~~~~~~~~al~~~~----~~~~~dlvl~d~~~~~~--~-~~-~~~~~l~~~   95 (145)
                      -++||+||+...+...|..+|+.. |..+.++.+.+-.++.+.    ....||.|++.-.-..-  . .. ...+.+.+.
T Consensus        81 ~~~iLlIDnyDSfTyNL~~~L~~~~g~~~~Vv~nd~~~~~~~~~~~~~~~~~d~IVlSPGPG~P~~~~d~Gi~~~~i~~~  160 (918)
T PLN02889         81 FVRTLLIDNYDSYTYNIYQELSIVNGVPPVVVRNDEWTWEEVYHYLYEEKAFDNIVISPGPGSPTCPADIGICLRLLLEC  160 (918)
T ss_pred             cceEEEEeCCCchHHHHHHHHHHhcCCCEEEEeCCCCCHHHHHhhhhcccCCCEEEECCCCCCccchHHHHHHHHHHHHh
Confidence            478999999999999999999987 877665443321122221    11368999987543211  1 11 123444432


Q ss_pred             CCcceEEEEe
Q 048318           96 GIKIKIVGVT  105 (145)
Q Consensus        96 ~~~~~iv~l~  105 (145)
                       ..+||+=++
T Consensus       161 -~~iPILGIC  169 (918)
T PLN02889        161 -RDIPILGVC  169 (918)
T ss_pred             -CCCcEEEEc
Confidence             347776654

>PRK09522 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional

Probab=86.80  E-value=2.7  Score=33.60  Aligned_cols=53  Identities=13%  Similarity=0.124  Sum_probs=38.9

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCH---HHHHHHHHcCCCccEEEEecC
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENG---KEAVDLFRSGAKFDIVFIDKE   79 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~---~~al~~~~~~~~~dlvl~d~~   79 (145)
                      ++||+||....+...+...|+..|+.+..+.+.   ...++.+.. ..|+.|++.-.
T Consensus         2 ~~iLiIDn~dsft~nl~~~lr~~g~~v~V~~~~~~~~~~~~~l~~-~~~~~IIlSpG   57 (531)
T PRK09522          2 ADILLLDNIDSFTYNLADQLRSNGHNVVIYRNHIPAQTLIERLAT-MSNPVLMLSPG   57 (531)
T ss_pred             CeEEEEeCCChHHHHHHHHHHHCCCCEEEEECCCCCccCHHHHHh-cCcCEEEEcCC
Confidence            479999999999999999999999887765542   222344443 45788888653

>PRK09016 quinolinate phosphoribosyltransferase; Validated

Probab=86.79  E-value=11  Score=27.93  Aligned_cols=93  Identities=15%  Similarity=0.147  Sum_probs=59.4

Q ss_pred             eEEEEeCcHHHHHHHHHHHHH----cC--CeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcce
Q 048318           27 FALVVDDDCFIRTIHSMALKS----LG--FKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIK  100 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~----~g--~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~  100 (145)
                      .|||-|+|-...-.+...++.    ..  ...+.+.+.+|+.+.+..  .+|+|++|= |+..+--+.++.+   ..++ 
T Consensus       181 ~iLikdNHi~~~G~i~~av~~~r~~~~~~kIeVEv~sleea~ea~~~--gaDiI~LDn-~s~e~~~~av~~~---~~~~-  253 (296)
T PRK09016        181 AFLIKENHIIASGSIRQAVEKAFWLHPDVPVEVEVENLDELDQALKA--GADIIMLDN-FTTEQMREAVKRT---NGRA-  253 (296)
T ss_pred             hhccCHHHHHHhCcHHHHHHHHHHhCCCCCEEEEeCCHHHHHHHHHc--CCCEEEeCC-CChHHHHHHHHhh---cCCe-
Confidence            467777775555445554432    22  223488899999999875  489999993 3322223333332   2233 


Q ss_pred             EEEEeCCCCHHHHHHHHHhCCceeec
Q 048318          101 IVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus       101 iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      .+..++.-+.+.+.+....|+|.+-.
T Consensus       254 ~ieaSGGI~~~ni~~yA~tGVD~Is~  279 (296)
T PRK09016        254 LLEVSGNVTLETLREFAETGVDFISV  279 (296)
T ss_pred             EEEEECCCCHHHHHHHHhcCCCEEEe
Confidence            45567778889999999999988754

>PLN02366 spermidine synthase

Probab=86.74  E-value=11  Score=27.99  Aligned_cols=69  Identities=13%  Similarity=0.124  Sum_probs=46.0

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHc-----CCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCC-----HHHHHHHHHh
Q 048318           26 LFALVVDDDCFIRTIHSMALKSL-----GFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMN-----GIEATREIRS   94 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~-----g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~-----~~~~~~~l~~   94 (145)
                      .+|.++|-|+...+..+..+...     +-.+. ...|+.+.++.... ..||+|++|..-|...     ..++++.+++
T Consensus       116 ~~V~~VEiD~~Vi~~ar~~f~~~~~~~~dpRv~vi~~Da~~~l~~~~~-~~yDvIi~D~~dp~~~~~~L~t~ef~~~~~~  194 (308)
T PLN02366        116 EQIDICEIDKMVIDVSKKFFPDLAVGFDDPRVNLHIGDGVEFLKNAPE-GTYDAIIVDSSDPVGPAQELFEKPFFESVAR  194 (308)
T ss_pred             CeEEEEECCHHHHHHHHHhhhhhccccCCCceEEEEChHHHHHhhccC-CCCCEEEEcCCCCCCchhhhhHHHHHHHHHH
Confidence            46889999999888888887542     12344 45566666654423 4699999998665433     2356777765


Q ss_pred             c
Q 048318           95 M   95 (145)
Q Consensus        95 ~   95 (145)
                      .
T Consensus       195 ~  195 (308)
T PLN02366        195 A  195 (308)
T ss_pred             h
Confidence            4

>cd01948 EAL EAL domain

Probab=86.73  E-value=6.1  Score=27.28  Aligned_cols=89  Identities=19%  Similarity=0.365  Sum_probs=56.6

Q ss_pred             HHHHHHHcCCeEEE--EcCHHHHHHHHHcCCCccEEEEecCCCC-----CCHHHHHHHHHhc--CCcceEEEEeCCCCHH
Q 048318           41 HSMALKSLGFKVEV--AENGKEAVDLFRSGAKFDIVFIDKEMPV-----MNGIEATREIRSM--GIKIKIVGVTSLNSEA  111 (145)
Q Consensus        41 l~~~L~~~g~~v~~--~~~~~~al~~~~~~~~~dlvl~d~~~~~-----~~~~~~~~~l~~~--~~~~~iv~l~~~~~~~  111 (145)
                      ....++..||.+..  +......++.+.. ..||.|=+|..+..     .....+++.+...  ..++++| .++-.+..
T Consensus       137 ~~~~l~~~G~~l~ld~~g~~~~~~~~l~~-~~~d~iKld~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~vi-a~gVe~~~  214 (240)
T cd01948         137 TLRRLRALGVRIALDDFGTGYSSLSYLKR-LPVDYLKIDRSFVRDIETDPEDRAIVRAIIALAHSLGLKVV-AEGVETEE  214 (240)
T ss_pred             HHHHHHHCCCeEEEeCCCCcHhhHHHHHh-CCCCEEEECHHHHHhHhcChhhHHHHHHHHHHHHHCCCeEE-EEecCCHH
Confidence            44456778988775  4456666667766 57999999965432     2234555555432  2345554 57778888


Q ss_pred             HHHHHHHhCCce----eecCCCCH
Q 048318          112 EREAFMQAGLDL----CHTKPLSV  131 (145)
Q Consensus       112 ~~~~~~~~g~~~----~l~kP~~~  131 (145)
                      ....+...|++.    |+.+|...
T Consensus       215 ~~~~~~~~gi~~~QG~~~~~p~~~  238 (240)
T cd01948         215 QLELLRELGCDYVQGYLFSRPLPA  238 (240)
T ss_pred             HHHHHHHcCCCeeeeceeccCCCC
Confidence            888889999843    35567654

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.

>PRK14331 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=86.32  E-value=7  Score=30.36  Aligned_cols=96  Identities=10%  Similarity=0.064  Sum_probs=52.5

Q ss_pred             CcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCC-CCC---CHHHHH---HHHHhcCCcceEEEEe
Q 048318           33 DDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEM-PVM---NGIEAT---REIRSMGIKIKIVGVT  105 (145)
Q Consensus        33 ~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~-~~~---~~~~~~---~~l~~~~~~~~iv~l~  105 (145)
                      -|....+.+...|...||..+.-           . ...|+++++.-- ...   ...+.+   +.+++..|.++|++.+
T Consensus        12 ~N~~ds~~~~~~l~~~G~~~~~~-----------~-~~aDviiiNTC~v~~~a~~k~~~~i~~~~~~k~~~p~~~ivv~G   79 (437)
T PRK14331         12 MNFNDSEKIKGILQTLGYEPADD-----------W-EEADLILVNTCTIREKPDQKVLSHLGEYKKIKEKNPNALIGVCG   79 (437)
T ss_pred             CcHHHHHHHHHHHHHCcCEECCC-----------c-ccCCEEEEeCcceecHHHHHHHHHHHHHHHHHHhCCCCEEEEEc
Confidence            46667788888888889876641           1 247999998522 222   233344   4455566777666544


Q ss_pred             CCCCHHHHHHHH-HhCCceeecCCCCHHHHHHHHHHH
Q 048318          106 SLNSEAEREAFM-QAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus       106 ~~~~~~~~~~~~-~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      ...+. .-.+.+ ....-|++..+-....+...+...
T Consensus        80 c~a~~-~~e~~~~~~p~vD~vv~~~~~~~i~~l~~~~  115 (437)
T PRK14331         80 CLAQR-AGYEIVQKAPFIDIVFGTFNIHHLPELLEQA  115 (437)
T ss_pred             chhcC-ChHHHHhcCCCCcEEECCCCHHHHHHHHHHH
Confidence            32221 111222 222335556676666666555543

>smart00052 EAL Putative diguanylate phosphodiesterase

Probab=86.00  E-value=9.2  Score=26.41  Aligned_cols=90  Identities=16%  Similarity=0.327  Sum_probs=56.3

Q ss_pred             HHHHHHHHcCCeEEE--EcCHHHHHHHHHcCCCccEEEEecCCCC-----CCHHHHHHHHHhc--CCcceEEEEeCCCCH
Q 048318           40 IHSMALKSLGFKVEV--AENGKEAVDLFRSGAKFDIVFIDKEMPV-----MNGIEATREIRSM--GIKIKIVGVTSLNSE  110 (145)
Q Consensus        40 ~l~~~L~~~g~~v~~--~~~~~~al~~~~~~~~~dlvl~d~~~~~-----~~~~~~~~~l~~~--~~~~~iv~l~~~~~~  110 (145)
                      .....|+..|+.+..  +..+...+..+.. .+||.|=+|..+..     .....+++.+...  ...+++| ..+-.+.
T Consensus       137 ~~i~~l~~~G~~ialddfg~~~~~~~~l~~-l~~d~iKld~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~vi-a~gVe~~  214 (241)
T smart00052      137 ATLQRLRELGVRIALDDFGTGYSSLSYLKR-LPVDLLKIDKSFVRDLQTDPEDEAIVQSIIELAQKLGLQVV-AEGVETP  214 (241)
T ss_pred             HHHHHHHHCCCEEEEeCCCCcHHHHHHHHh-CCCCeEEECHHHHhhhccChhHHHHHHHHHHHHHHCCCeEE-EecCCCH
Confidence            444566788988764  4455555666666 57999999975432     1233455555442  2244544 5666788


Q ss_pred             HHHHHHHHhCCce----eecCCCCH
Q 048318          111 AEREAFMQAGLDL----CHTKPLSV  131 (145)
Q Consensus       111 ~~~~~~~~~g~~~----~l~kP~~~  131 (145)
                      .....+...|++.    |+.||...
T Consensus       215 ~~~~~l~~~Gi~~~QG~~~~~p~~~  239 (241)
T smart00052      215 EQLDLLRSLGCDYGQGYLFSRPLPL  239 (241)
T ss_pred             HHHHHHHHcCCCEEeeceeccCCCC
Confidence            8888888888853    35667654

Putative diguanylate phosphodiesterase, present in a variety of bacteria.

>PLN02589 caffeoyl-CoA O-methyltransferase

Probab=85.77  E-value=11  Score=27.07  Aligned_cols=54  Identities=15%  Similarity=0.202  Sum_probs=41.7

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCe--EE-EEcCHHHHHHHHHc----CCCccEEEEecC
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFK--VE-VAENGKEAVDLFRS----GAKFDIVFIDKE   79 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~--v~-~~~~~~~al~~~~~----~~~~dlvl~d~~   79 (145)
                      -++.-+|-++......+..++..|+.  +. ...+..+.+..+..    ...||+||+|.+
T Consensus       105 g~v~tiE~~~~~~~~Ar~~~~~ag~~~~I~~~~G~a~e~L~~l~~~~~~~~~fD~iFiDad  165 (247)
T PLN02589        105 GKILAMDINRENYELGLPVIQKAGVAHKIDFREGPALPVLDQMIEDGKYHGTFDFIFVDAD  165 (247)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCCCceEEEeccHHHHHHHHHhccccCCcccEEEecCC
Confidence            46899999999999999999988843  44 55677777766542    137999999986

>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]

Probab=85.75  E-value=9.1  Score=26.43  Aligned_cols=52  Identities=12%  Similarity=0.091  Sum_probs=33.8

Q ss_pred             HHHHHHcCCCccEEEEecCCC-----CCCHHHHHHHHHhcCCcceEEEEeCCCCHHHH
Q 048318           61 AVDLFRSGAKFDIVFIDKEMP-----VMNGIEATREIRSMGIKIKIVGVTSLNSEAER  113 (145)
Q Consensus        61 al~~~~~~~~~dlvl~d~~~~-----~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~  113 (145)
                      |.+.+.+ ..||+|++|--..     =.+--++...++.++++.-+|+..........
T Consensus       114 a~~~l~~-~~ydlviLDEl~~al~~g~l~~eeV~~~l~~kP~~~~vIiTGr~ap~~li  170 (198)
T COG2109         114 AKEALAD-GKYDLVILDELNYALRYGLLPLEEVVALLKARPEHTHVIITGRGAPPELI  170 (198)
T ss_pred             HHHHHhC-CCCCEEEEehhhHHHHcCCCCHHHHHHHHhcCCCCcEEEEECCCCCHHHH
Confidence            3344445 4799999995322     24677888888888878888755544444443

>CHL00200 trpA tryptophan synthase alpha subunit; Provisional

Probab=85.70  E-value=4.9  Score=29.08  Aligned_cols=56  Identities=20%  Similarity=0.068  Sum_probs=35.8

Q ss_pred             CHHHHHHHHHhcCCcceEEEEeCC------CCHHHHHHHHHhCCceeecCCCCHHHHHHHHHH
Q 048318           84 NGIEATREIRSMGIKIKIVGVTSL------NSEAEREAFMQAGLDLCHTKPLSVDKILPLMED  140 (145)
Q Consensus        84 ~~~~~~~~l~~~~~~~~iv~l~~~------~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~  140 (145)
                      +.+++++.+|+. +.+|+++++-.      .-+....++.++|+++++..-+.+++.......
T Consensus        78 ~~~~~~~~~r~~-~~~p~vlm~Y~N~i~~~G~e~F~~~~~~aGvdgviipDLP~ee~~~~~~~  139 (263)
T CHL00200         78 KILSILSEVNGE-IKAPIVIFTYYNPVLHYGINKFIKKISQAGVKGLIIPDLPYEESDYLISV  139 (263)
T ss_pred             HHHHHHHHHhcC-CCCCEEEEecccHHHHhCHHHHHHHHHHcCCeEEEecCCCHHHHHHHHHH
Confidence            346667777643 56787766654      234557788888888888775555655544443

>PF14606 Lipase_GDSL_3: GDSL-like Lipase/Acylhydrolase family; PDB: 3SKV_B

Probab=85.58  E-value=2.4  Score=28.83  Aligned_cols=60  Identities=20%  Similarity=0.169  Sum_probs=34.4

Q ss_pred             HcCCeEEEE------cCHHHHHHHHHcCCCccEEEEecCCC-CC-----CHHHHHHHHHhcCCcceEEEEeCC
Q 048318           47 SLGFKVEVA------ENGKEAVDLFRSGAKFDIVFIDKEMP-VM-----NGIEATREIRSMGIKIKIVGVTSL  107 (145)
Q Consensus        47 ~~g~~v~~~------~~~~~al~~~~~~~~~dlvl~d~~~~-~~-----~~~~~~~~l~~~~~~~~iv~l~~~  107 (145)
                      ..|+++...      .-..+..+.+.+ .+.|++++|+... +.     ....+++.+|+.+|.+||++++..
T Consensus        31 ~l~~~~iNLGfsG~~~le~~~a~~ia~-~~a~~~~ld~~~N~~~~~~~~~~~~fv~~iR~~hP~tPIllv~~~  102 (178)
T PF14606_consen   31 RLGLDVINLGFSGNGKLEPEVADLIAE-IDADLIVLDCGPNMSPEEFRERLDGFVKTIREAHPDTPILLVSPI  102 (178)
T ss_dssp             HHT-EEEEEE-TCCCS--HHHHHHHHH-S--SEEEEEESHHCCTTTHHHHHHHHHHHHHTT-SSS-EEEEE--
T ss_pred             HcCCCeEeeeecCccccCHHHHHHHhc-CCCCEEEEEeecCCCHHHHHHHHHHHHHHHHHhCCCCCEEEEecC
Confidence            447776632      223344556666 5689999997431 21     234688999999999999998743

>PRK14974 cell division protein FtsY; Provisional

Probab=85.58  E-value=13  Score=27.92  Aligned_cols=101  Identities=16%  Similarity=0.134  Sum_probs=53.8

Q ss_pred             CceEEEEeCcH---HHHHHHHHHHHHcCCeEEEEcC---H----HHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHh
Q 048318           25 RLFALVVDDDC---FIRTIHSMALKSLGFKVEVAEN---G----KEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRS   94 (145)
Q Consensus        25 ~~~iLii~~~~---~~~~~l~~~L~~~g~~v~~~~~---~----~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~   94 (145)
                      +.+|+++..|.   ...+.++......|..+.....   .    .++++.... ..+|+||+|..=-.....+++..++.
T Consensus       168 g~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai~~~~~-~~~DvVLIDTaGr~~~~~~lm~eL~~  246 (336)
T PRK14974        168 GFSVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAIEHAKA-RGIDVVLIDTAGRMHTDANLMDELKK  246 (336)
T ss_pred             CCeEEEecCCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHHHHHHh-CCCCEEEEECCCccCCcHHHHHHHHH
Confidence            45788887773   4445666666667766553322   1    244444444 46899999974211123334444332


Q ss_pred             ----cCCcceEEEEeCCCCHHHHHHHH----HhCCceeec
Q 048318           95 ----MGIKIKIVGVTSLNSEAEREAFM----QAGLDLCHT  126 (145)
Q Consensus        95 ----~~~~~~iv~l~~~~~~~~~~~~~----~~g~~~~l~  126 (145)
                          ..|+..++++.+....+....+.    ..+.+.++.
T Consensus       247 i~~~~~pd~~iLVl~a~~g~d~~~~a~~f~~~~~~~giIl  286 (336)
T PRK14974        247 IVRVTKPDLVIFVGDALAGNDAVEQAREFNEAVGIDGVIL  286 (336)
T ss_pred             HHHhhCCceEEEeeccccchhHHHHHHHHHhcCCCCEEEE
Confidence                35665566665554433332222    246777754

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=85.42  E-value=16  Score=28.54  Aligned_cols=102  Identities=13%  Similarity=0.114  Sum_probs=54.9

Q ss_pred             CceEEEEeCcHHH---HHHHHHHHHHcCCeEEEEcCHHHHHHHH---HcCCCccEEEEecCCCCCCHHHHHHHH----Hh
Q 048318           25 RLFALVVDDDCFI---RTIHSMALKSLGFKVEVAENGKEAVDLF---RSGAKFDIVFIDKEMPVMNGIEATREI----RS   94 (145)
Q Consensus        25 ~~~iLii~~~~~~---~~~l~~~L~~~g~~v~~~~~~~~al~~~---~~~~~~dlvl~d~~~~~~~~~~~~~~l----~~   94 (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            4578888887653   4455555556788877777666655444   321258999999732212222333333    33


Q ss_pred             cCCcceEEEEeCCCCHHHHH----HHHHhCCceeec
Q 048318           95 MGIKIKIVGVTSLNSEAERE----AFMQAGLDLCHT  126 (145)
Q Consensus        95 ~~~~~~iv~l~~~~~~~~~~----~~~~~g~~~~l~  126 (145)
                      ..|+-.++++++........    .....+.+.++.
T Consensus       349 ~~PdevlLVLsATtk~~d~~~i~~~F~~~~idglI~  384 (436)
T PRK11889        349 VEPDYICLTLSASMKSKDMIEIITNFKDIHIDGIVF  384 (436)
T ss_pred             cCCCeEEEEECCccChHHHHHHHHHhcCCCCCEEEE
Confidence            34454455565543333322    222346777754

>KOG1562 consensus Spermidine synthase [Amino acid transport and metabolism]

Probab=85.37  E-value=7  Score=28.98  Aligned_cols=62  Identities=19%  Similarity=0.267  Sum_probs=47.6

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHc--CCe---EE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHH
Q 048318           27 FALVVDDDCFIRTIHSMALKSL--GFK---VE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEAT   89 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~--g~~---v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~   89 (145)
                      .|+++|-+....+.=+.++...  ||+   |. ...|+...++...+ +++|+|++|.+-|.+++..+.
T Consensus       147 ~i~~~eiD~~Vie~sk~y~p~la~gy~~~~v~l~iGDG~~fl~~~~~-~~~dVii~dssdpvgpa~~lf  214 (337)
T KOG1562|consen  147 NILLCEIDENVIESSKQYLPTLACGYEGKKVKLLIGDGFLFLEDLKE-NPFDVIITDSSDPVGPACALF  214 (337)
T ss_pred             ceeeehhhHHHHHHHHHHhHHHhcccCCCceEEEeccHHHHHHHhcc-CCceEEEEecCCccchHHHHH
Confidence            4688888888888888888754  554   33 55599988888866 689999999998888776543

>TIGR00007 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase

Probab=85.28  E-value=10  Score=26.43  Aligned_cols=68  Identities=13%  Similarity=0.169  Sum_probs=47.2

Q ss_pred             CHHHHHHHHHcCCCcc-EEEEecCCCC---CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           57 NGKEAVDLFRSGAKFD-IVFIDKEMPV---MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        57 ~~~~al~~~~~~~~~d-lvl~d~~~~~---~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      +..+..+.+.+ ...+ +++.|.+-.+   ...+++++.+++. .++|+++-++-.+.+....++..|+++++.
T Consensus       146 ~~~~~~~~~~~-~g~~~ii~~~~~~~g~~~g~~~~~i~~i~~~-~~ipvia~GGi~~~~di~~~~~~Gadgv~i  217 (230)
T TIGR00007       146 SLEELAKRLEE-LGLEGIIYTDISRDGTLSGPNFELTKELVKA-VNVPVIASGGVSSIDDLIALKKLGVYGVIV  217 (230)
T ss_pred             CHHHHHHHHHh-CCCCEEEEEeecCCCCcCCCCHHHHHHHHHh-CCCCEEEeCCCCCHHHHHHHHHCCCCEEEE
Confidence            33445555555 4567 6667764432   2236788888765 468888877778888888999999999864

Examples of this enzyme in Actinobacteria have been found to be bifunctional, also possessing phosphoribosylanthranilate isomerase activity ; the trusted cutoff here has now been raised to 275.0 to exclude the bifunctional group, now represented by model TIGR01919. HisA from Lactococcus lactis was reported to be inactive (MEDLINE:93322317).

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=85.23  E-value=16  Score=28.44  Aligned_cols=102  Identities=16%  Similarity=0.090  Sum_probs=55.6

Q ss_pred             CceEEEEeCcHHHH---HHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCC-CCCC--HHHHHHHH-H-hcC
Q 048318           25 RLFALVVDDDCFIR---TIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEM-PVMN--GIEATREI-R-SMG   96 (145)
Q Consensus        25 ~~~iLii~~~~~~~---~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~-~~~~--~~~~~~~l-~-~~~   96 (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            46788888887533   344444455677776666766666555543468999999631 1122  22233333 3 122


Q ss_pred             CcceEEEEeCCCCHHHHHHHH----HhCCceeec
Q 048318           97 IKIKIVGVTSLNSEAEREAFM----QAGLDLCHT  126 (145)
Q Consensus        97 ~~~~iv~l~~~~~~~~~~~~~----~~g~~~~l~  126 (145)
                      +.-..++++............    ..+.+.++.
T Consensus       331 ~~~~~LVl~a~~~~~~l~~~~~~f~~~~~~~vI~  364 (424)
T PRK05703        331 PIDVYLVLSATTKYEDLKDIYKHFSRLPLDGLIF  364 (424)
T ss_pred             CCeEEEEEECCCCHHHHHHHHHHhCCCCCCEEEE
Confidence            333456667666555544432    335555543

>PRK10537 voltage-gated potassium channel; Provisional

Probab=85.21  E-value=10  Score=29.20  Aligned_cols=95  Identities=12%  Similarity=0.018  Sum_probs=50.5

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCC--------------------CCCCH
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEM--------------------PVMNG   85 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~--------------------~~~~~   85 (145)
                      -+++|++-++.-....+. |.+.|+.++.......  +.... ..++++.-|...                    .+...
T Consensus       241 ~HvII~G~g~lg~~v~~~-L~~~g~~vvVId~d~~--~~~~~-~g~~vI~GD~td~e~L~~AgI~~A~aVI~~t~dD~~N  316 (393)
T PRK10537        241 DHFIICGHSPLAINTYLG-LRQRGQAVTVIVPLGL--EHRLP-DDADLIPGDSSDSAVLKKAGAARARAILALRDNDADN  316 (393)
T ss_pred             CeEEEECCChHHHHHHHH-HHHCCCCEEEEECchh--hhhcc-CCCcEEEeCCCCHHHHHhcCcccCCEEEEcCCChHHH
Confidence            457788877766665554 5556666553332111  11111 123333333211                    11122


Q ss_pred             HHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           86 IEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        86 ~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      ...+...|+..|+.++++.+.  +++......+.|+|..+.
T Consensus       317 l~ivL~ar~l~p~~kIIa~v~--~~~~~~~L~~~GaD~VIs  355 (393)
T PRK10537        317 AFVVLAAKEMSSDVKTVAAVN--DSKNLEKIKRVHPDMIFS  355 (393)
T ss_pred             HHHHHHHHHhCCCCcEEEEEC--CHHHHHHHHhcCCCEEEC
Confidence            334445677778888887665  345566778899988764

>PF10727 Rossmann-like: Rossmann-like domain; InterPro: IPR019665 This entry represents an NAD/NADP-binding domain with a core Rossmann-type fold, found in an uncharacterised protein family thought to be putative NADP oxidoreductase coenzyme F420-dependent proteins and/or NAD-dependent glycerol-3-phosphate dehydrogenase-like proteins

Probab=85.17  E-value=5.6  Score=25.46  Aligned_cols=100  Identities=15%  Similarity=0.080  Sum_probs=52.0

Q ss_pred             ccCCceEEEEeCcHHHHHHHHHHHHHcCCeEEE-EcCHHHHHHHHHc-------------CCCccEEEEecCCCCCCHHH
Q 048318           22 KNLRLFALVVDDDCFIRTIHSMALKSLGFKVEV-AENGKEAVDLFRS-------------GAKFDIVFIDKEMPVMNGIE   87 (145)
Q Consensus        22 ~~~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~-~~~~~~al~~~~~-------------~~~~dlvl~d~~~~~~~~~~   87 (145)
                      +..+++|-||..-. ....|...|.+.||.+.- .+...+..+.+..             -...|++|+-.  ||..-.+
T Consensus         7 ~~~~l~I~iIGaGr-VG~~La~aL~~ag~~v~~v~srs~~sa~~a~~~~~~~~~~~~~~~~~~aDlv~iav--pDdaI~~   83 (127)
T PF10727_consen    7 QAARLKIGIIGAGR-VGTALARALARAGHEVVGVYSRSPASAERAAAFIGAGAILDLEEILRDADLVFIAV--PDDAIAE   83 (127)
T ss_dssp             -----EEEEECTSC-CCCHHHHHHHHTTSEEEEESSCHH-HHHHHHC--TT-----TTGGGCC-SEEEE-S---CCHHHH
T ss_pred             CCCccEEEEECCCH-HHHHHHHHHHHCCCeEEEEEeCCcccccccccccccccccccccccccCCEEEEEe--chHHHHH
Confidence            44567787887743 445666777888999874 3433323222211             13478999854  5555667


Q ss_pred             HHHHHHhc---CCcceEEEEeCCCCHHHHHHHHHhCCcee
Q 048318           88 ATREIRSM---GIKIKIVGVTSLNSEAEREAFMQAGLDLC  124 (145)
Q Consensus        88 ~~~~l~~~---~~~~~iv~l~~~~~~~~~~~~~~~g~~~~  124 (145)
                      +++.|...   .+..-++-.+.....+....+.+.|+.-+
T Consensus        84 va~~La~~~~~~~g~iVvHtSGa~~~~vL~p~~~~Ga~~~  123 (127)
T PF10727_consen   84 VAEQLAQYGAWRPGQIVVHTSGALGSDVLAPARERGAIVA  123 (127)
T ss_dssp             HHHHHHCC--S-TT-EEEES-SS--GGGGHHHHHTT-EEE
T ss_pred             HHHHHHHhccCCCCcEEEECCCCChHHhhhhHHHCCCeEE
Confidence            88888764   33433344455556666777777777443

This Rossmann-fold domain consists of 3-layers alpha/beta/alpha, where the six beta strands are parallel in the order 321456.; PDB: 3DFU_A 3C24_A.

>PRK04180 pyridoxal biosynthesis lyase PdxS; Provisional

Probab=85.16  E-value=7.3  Score=28.63  Aligned_cols=61  Identities=18%  Similarity=0.270  Sum_probs=45.9

Q ss_pred             CCHHHHHHHHHhcCCcceEE--EEeCCCCHHHHHHHHHhCCceeec-----CCCCHHHHHHHHHHHHhc
Q 048318           83 MNGIEATREIRSMGIKIKIV--GVTSLNSEAEREAFMQAGLDLCHT-----KPLSVDKILPLMEDLMKN  144 (145)
Q Consensus        83 ~~~~~~~~~l~~~~~~~~iv--~l~~~~~~~~~~~~~~~g~~~~l~-----kP~~~~~L~~~i~~~~~~  144 (145)
                      ..++++++++++.. .+|+|  ..+.-.+++....+++.|++.+++     +.-++.+....+...+..
T Consensus       189 ~~~~elL~ei~~~~-~iPVV~~AeGGI~TPedaa~vme~GAdgVaVGSaI~ks~dP~~~akafv~ai~~  256 (293)
T PRK04180        189 QAPYELVKEVAELG-RLPVVNFAAGGIATPADAALMMQLGADGVFVGSGIFKSGDPEKRARAIVEATTH  256 (293)
T ss_pred             CCCHHHHHHHHHhC-CCCEEEEEeCCCCCHHHHHHHHHhCCCEEEEcHHhhcCCCHHHHHHHHHHHHHH
Confidence            35788888888754 57887  666667999999999999999963     444777777777666653

>PLN02871 UDP-sulfoquinovose:DAG sulfoquinovosyltransferase

Probab=85.07  E-value=16  Score=28.40  Aligned_cols=107  Identities=16%  Similarity=0.138  Sum_probs=58.1

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      +.+++++++.+. .+.++.+.+..+....-..+.++....+..   .|++++--. .+.-|.-+++.+..   .+|+|..
T Consensus       290 ~~~l~ivG~G~~-~~~l~~~~~~~~V~f~G~v~~~ev~~~~~~---aDv~V~pS~-~E~~g~~vlEAmA~---G~PVI~s  361 (465)
T PLN02871        290 GARLAFVGDGPY-REELEKMFAGTPTVFTGMLQGDELSQAYAS---GDVFVMPSE-SETLGFVVLEAMAS---GVPVVAA  361 (465)
T ss_pred             CcEEEEEeCChH-HHHHHHHhccCCeEEeccCCHHHHHHHHHH---CCEEEECCc-ccccCcHHHHHHHc---CCCEEEc
Confidence            455666665543 334444443322222112233455554433   477665322 22234445555443   5788743


Q ss_pred             eCCCCHHHHHHHHHh---CCceeecCCCCHHHHHHHHHHHHh
Q 048318          105 TSLNSEAEREAFMQA---GLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~---g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                       .....   .+....   |-.+++..|-+.+++...+.++++
T Consensus       362 -~~gg~---~eiv~~~~~~~~G~lv~~~d~~~la~~i~~ll~  399 (465)
T PLN02871        362 -RAGGI---PDIIPPDQEGKTGFLYTPGDVDDCVEKLETLLA  399 (465)
T ss_pred             -CCCCc---HhhhhcCCCCCceEEeCCCCHHHHHHHHHHHHh
Confidence             33222   233445   888999999999999999988775

>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=84.82  E-value=10  Score=26.03  Aligned_cols=100  Identities=18%  Similarity=0.167  Sum_probs=52.2

Q ss_pred             CceEEEEeCcH---HHHHHHHHHHHHcCCeEEEEcC---HH----HHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHh
Q 048318           25 RLFALVVDDDC---FIRTIHSMALKSLGFKVEVAEN---GK----EAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRS   94 (145)
Q Consensus        25 ~~~iLii~~~~---~~~~~l~~~L~~~g~~v~~~~~---~~----~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~   94 (145)
                      +.+|.++.-|.   ...+.|+.+-+..|..+..+.+   ..    ++++.... ..+|+||+|.-=-.....+.++++++
T Consensus        29 ~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~~-~~~D~vlIDT~Gr~~~d~~~~~el~~  107 (196)
T PF00448_consen   29 GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKFRK-KGYDLVLIDTAGRSPRDEELLEELKK  107 (196)
T ss_dssp             T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHHH-TTSSEEEEEE-SSSSTHHHHHHHHHH
T ss_pred             cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHhh-cCCCEEEEecCCcchhhHHHHHHHHH
Confidence            34454443332   3457777777888877776553   22    34444444 46999999973211222333333332


Q ss_pred             ----cCCcceEEEEeCCCCHHHHHHHH---H-hCCceee
Q 048318           95 ----MGIKIKIVGVTSLNSEAEREAFM---Q-AGLDLCH  125 (145)
Q Consensus        95 ----~~~~~~iv~l~~~~~~~~~~~~~---~-~g~~~~l  125 (145)
                          ..+.-.++++++....+....+.   + .+.+.++
T Consensus       108 ~~~~~~~~~~~LVlsa~~~~~~~~~~~~~~~~~~~~~lI  146 (196)
T PF00448_consen  108 LLEALNPDEVHLVLSATMGQEDLEQALAFYEAFGIDGLI  146 (196)
T ss_dssp             HHHHHSSSEEEEEEEGGGGGHHHHHHHHHHHHSSTCEEE
T ss_pred             HhhhcCCccceEEEecccChHHHHHHHHHhhcccCceEE
Confidence                34455566666665555433332   3 2566664

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 ....

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=84.62  E-value=9.6  Score=25.42  Aligned_cols=44  Identities=18%  Similarity=0.294  Sum_probs=30.1

Q ss_pred             CCccEEEEecCCCC-----CCHHHHHHHHHhcCCcceEEEEeCCCCHHHH
Q 048318           69 AKFDIVFIDKEMPV-----MNGIEATREIRSMGIKIKIVGVTSLNSEAER  113 (145)
Q Consensus        69 ~~~dlvl~d~~~~~-----~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~  113 (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            57999999964322     35668888888877777776 5555544443

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.

>PF01564 Spermine_synth: Spermine/spermidine synthase; InterPro: IPR001045 Synonym(s): Spermidine aminopropyltransferase A group of polyamine biosynthetic enzymes involved in the fifth (last) step in the biosynthesis of spermidine from arginine and methionine which includes; spermidine synthase (2

Probab=84.56  E-value=8.2  Score=27.57  Aligned_cols=77  Identities=13%  Similarity=0.094  Sum_probs=52.1

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcC-----CeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCH-----HHHHHHHHh
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLG-----FKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNG-----IEATREIRS   94 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g-----~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~-----~~~~~~l~~   94 (145)
                      .+|-++|=|+...+..+..+....     -.+. ...|+...++.... ..||+|++|..-|...+     .++.+.+++
T Consensus       101 ~~i~~VEiD~~Vv~~a~~~f~~~~~~~~d~r~~i~~~Dg~~~l~~~~~-~~yDvIi~D~~dp~~~~~~l~t~ef~~~~~~  179 (246)
T PF01564_consen  101 ESITVVEIDPEVVELARKYFPEFSEGLDDPRVRIIIGDGRKFLKETQE-EKYDVIIVDLTDPDGPAPNLFTREFYQLCKR  179 (246)
T ss_dssp             SEEEEEES-HHHHHHHHHHTHHHHTTGGSTTEEEEESTHHHHHHTSSS-T-EEEEEEESSSTTSCGGGGSSHHHHHHHHH
T ss_pred             ceEEEEecChHHHHHHHHhchhhccccCCCceEEEEhhhHHHHHhccC-CcccEEEEeCCCCCCCcccccCHHHHHHHHh
Confidence            468899999999999999886431     2343 77788887776544 26999999998776543     477777776


Q ss_pred             cCCcceEEE
Q 048318           95 MGIKIKIVG  103 (145)
Q Consensus        95 ~~~~~~iv~  103 (145)
                      ...+--+++
T Consensus       180 ~L~~~Gv~v  188 (246)
T PF01564_consen  180 RLKPDGVLV  188 (246)
T ss_dssp             HEEEEEEEE
T ss_pred             hcCCCcEEE
Confidence            433323443

5.1.16 from EC), spermine synthase (2.5.1.22 from EC) and putrescine N-methyltransferase (2.1.1.53 from EC) []. The Thermotoga maritima spermidine synthase monomer consists of two domains: an N-terminal domain composed of six beta-strands, and a Rossmann-like C- terminal domain []. The larger C-terminal catalytic core domain consists of a seven-stranded beta-sheet flanked by nine alpha helices. This domain resembles a topology observed in a number of nucleotide and dinucleotide-binding enzymes, and in S-adenosyl-L-methionine (AdoMet)- dependent methyltransferase (MTases) [].; GO: 0003824 catalytic activity; PDB: 2E5W_C 2ZSU_E 2O0L_B 2O05_B 2O06_B 2O07_B 3RW9_B 2PWP_A 2HTE_B 3RIE_B ....

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=84.55  E-value=15  Score=29.69  Aligned_cols=87  Identities=15%  Similarity=0.125  Sum_probs=45.4

Q ss_pred             ceEEEEeCcHHH---HHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCC-CCCH--HHHHHHHHhcCCcc
Q 048318           26 LFALVVDDDCFI---RTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMP-VMNG--IEATREIRSMGIKI   99 (145)
Q Consensus        26 ~~iLii~~~~~~---~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~-~~~~--~~~~~~l~~~~~~~   99 (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            467777766533   23444444445666776666666555554324589999997421 1121  12223344332334


Q ss_pred             eEEEEeCCCCHHH
Q 048318          100 KIVGVTSLNSEAE  112 (145)
Q Consensus       100 ~iv~l~~~~~~~~  112 (145)
                      .++++........
T Consensus       461 ~lLVLpAtss~~D  473 (559)
T PRK12727        461 SLLVLPANAHFSD  473 (559)
T ss_pred             cEEEEECCCChhH
Confidence            4556655554333

>cd04824 eu_ALAD_PBGS_cysteine_rich Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the biosynthesis of tetrapyrroles, such as heme, vitamin B12 and chlorophyll

Probab=84.54  E-value=6.6  Score=29.18  Aligned_cols=66  Identities=14%  Similarity=0.070  Sum_probs=49.1

Q ss_pred             EcCHHHHHHHHHc--CCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCce
Q 048318           55 AENGKEAVDLFRS--GAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDL  123 (145)
Q Consensus        55 ~~~~~~al~~~~~--~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~  123 (145)
                      ..+..+|++....  ...-|++++-   |.+.-+++++.++++.|++|+.+.--+.+-..+..+.+.|.-+
T Consensus       221 p~n~~eAlre~~~D~~EGAD~lMVK---Pal~YLDIi~~~k~~~~~~PvaaYqVSGEYaMikaAa~~G~iD  288 (320)
T cd04824         221 PGARGLALRAVERDVSEGADMIMVK---PGTPYLDIVREAKDKHPDLPLAVYHVSGEYAMLHAAAEAGAFD  288 (320)
T ss_pred             CcCHHHHHHHHHhhHHhCCCEEEEc---CCchHHHHHHHHHHhccCCCEEEEEccHHHHHHHHHHHcCCCc
Confidence            3456677766432  1358999996   4566899999999988899999987777777777777776544

This reaction involves the formation of a Schiff base link between the substrate and the enzyme. PBGSs are metalloenzymes, some of which have a second, allosteric metal binding site, beside the metal ion binding site in their active site. Although PBGS is a family of homologous enzymes, its metal ion utilization at catalytic site varies between zinc and magnesium and/or potassium. PBGS can be classified into two groups based on differences in their active site metal binding site. The eukaryotic PBGSs represented by this model, which contain a cysteine-rich zinc binding motif (DXCXCX(Y/F)X3G(H/Q)CG), require zinc for their activity, they

>COG1737 RpiR Transcriptional regulators [Transcription]

Probab=84.49  E-value=13  Score=27.00  Aligned_cols=87  Identities=11%  Similarity=0.128  Sum_probs=59.9

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCC--CHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVM--NGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~--~~~~~~~~l~~~~~~~~iv  102 (145)
                      ++-++-+.........+...|...|..+....+.......+.. ..++=+++-...++.  +..+.++..+++  .+|+|
T Consensus       132 rI~~~G~g~S~~vA~~~~~~l~~ig~~~~~~~d~~~~~~~~~~-~~~~Dv~i~iS~sG~t~e~i~~a~~ak~~--ga~vI  208 (281)
T COG1737         132 RIYFFGLGSSGLVASDLAYKLMRIGLNVVALSDTHGQLMQLAL-LTPGDVVIAISFSGYTREIVEAAELAKER--GAKVI  208 (281)
T ss_pred             eEEEEEechhHHHHHHHHHHHHHcCCceeEecchHHHHHHHHh-CCCCCEEEEEeCCCCcHHHHHHHHHHHHC--CCcEE
Confidence            3444556677778888999999999999988887777644444 456655555555543  345666676665  48999


Q ss_pred             EEeCCCCHHHHH
Q 048318          103 GVTSLNSEAERE  114 (145)
Q Consensus       103 ~l~~~~~~~~~~  114 (145)
                      .+|+........
T Consensus       209 aiT~~~~spla~  220 (281)
T COG1737         209 AITDSADSPLAK  220 (281)
T ss_pred             EEcCCCCCchhh
Confidence            999986665543

>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=84.43  E-value=11  Score=25.97  Aligned_cols=86  Identities=13%  Similarity=0.051  Sum_probs=56.7

Q ss_pred             HHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEec------CCCCCCHHHHHHHHHhcCCcceEEEEeCCCCH
Q 048318           38 RTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDK------EMPVMNGIEATREIRSMGIKIKIVGVTSLNSE  110 (145)
Q Consensus        38 ~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~------~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~  110 (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            4445555555553333 67899999988765  489875432      11234678999999875  6888877777899


Q ss_pred             HHHHHHHHhCCceeecC
Q 048318          111 AEREAFMQAGLDLCHTK  127 (145)
Q Consensus       111 ~~~~~~~~~g~~~~l~k  127 (145)
                      +...++++.|++..++-
T Consensus       157 e~a~~al~~GA~aVVVG  173 (192)
T PF04131_consen  157 EQAAKALELGAHAVVVG  173 (192)
T ss_dssp             HHHHHHHHTT-SEEEE-
T ss_pred             HHHHHHHhcCCeEEEEC
Confidence            99999999999999754

; GO: 0047465 N-acylglucosamine-6-phosphate 2-epimerase activity, 0006051 N-acetylmannosamine metabolic process; PDB: 1Y0E_B 3IGS_A 1YXY_A 3Q58_B.

>PRK08072 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=84.38  E-value=14  Score=27.06  Aligned_cols=92  Identities=16%  Similarity=0.172  Sum_probs=60.5

Q ss_pred             eEEEEeCcHHHHHHHHHHHH----HcC--CeE-EEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcC-Cc
Q 048318           27 FALVVDDDCFIRTIHSMALK----SLG--FKV-EVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMG-IK   98 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~----~~g--~~v-~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~-~~   98 (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            67888887666644555443    234  233 478899998888754  589999962     3456666665532 34


Q ss_pred             ceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           99 IKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        99 ~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      +|++ ..+.-+.+...+....|+|.+-.
T Consensus       233 i~i~-AiGGIt~~ni~~~a~~Gvd~IAv  259 (277)
T PRK08072        233 IVTE-ASGGITLENLPAYGGTGVDYISL  259 (277)
T ss_pred             ceEE-EECCCCHHHHHHHHHcCCCEEEE
Confidence            4443 45556788888999999998743

>PRK14098 glycogen synthase; Provisional

Probab=84.25  E-value=16  Score=28.84  Aligned_cols=111  Identities=5%  Similarity=-0.090  Sum_probs=57.8

Q ss_pred             CceEEEEeCcH-HHHHHHHHHHHHcCCeEEEE--cCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceE
Q 048318           25 RLFALVVDDDC-FIRTIHSMALKSLGFKVEVA--ENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKI  101 (145)
Q Consensus        25 ~~~iLii~~~~-~~~~~l~~~L~~~g~~v~~~--~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~i  101 (145)
                      +.+.+|+.+.+ .....++...+..+-.+...  -+..++-... .  ..|+.++-- ..+.-|...+..++.   .+|+
T Consensus       336 ~~~lvivG~G~~~~~~~l~~l~~~~~~~V~~~g~~~~~~~~~~~-a--~aDi~l~PS-~~E~~Gl~~lEAma~---G~pp  408 (489)
T PRK14098        336 DIQLVICGSGDKEYEKRFQDFAEEHPEQVSVQTEFTDAFFHLAI-A--GLDMLLMPG-KIESCGMLQMFAMSY---GTIP  408 (489)
T ss_pred             CcEEEEEeCCCHHHHHHHHHHHHHCCCCEEEEEecCHHHHHHHH-H--hCCEEEeCC-CCCCchHHHHHHHhC---CCCe
Confidence            45666766543 24456666555544233322  2333333333 2  258877642 233345655555554   3444


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      |+.....-.+...+....+..+++..|.+.+.|...+.+++
T Consensus       409 Vv~~~GGl~d~v~~~~~~~~~G~l~~~~d~~~la~ai~~~l  449 (489)
T PRK14098        409 VAYAGGGIVETIEEVSEDKGSGFIFHDYTPEALVAKLGEAL  449 (489)
T ss_pred             EEecCCCCceeeecCCCCCCceeEeCCCCHHHHHHHHHHHH
Confidence            44332222222222222367889999999999999988764

>KOG2550 consensus IMP dehydrogenase/GMP reductase [Nucleotide transport and metabolism]

Probab=84.17  E-value=6.3  Score=30.52  Aligned_cols=66  Identities=21%  Similarity=0.339  Sum_probs=48.0

Q ss_pred             CHHHHHHHHHcCCCccEEEEecCCCC-CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCcee
Q 048318           57 NGKEAVDLFRSGAKFDIVFIDKEMPV-MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLC  124 (145)
Q Consensus        57 ~~~~al~~~~~~~~~dlvl~d~~~~~-~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~  124 (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            44555666665 57999999976432 224678899999999887763 44456777888899999986

>PRK07896 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=84.15  E-value=4.6  Score=29.71  Aligned_cols=69  Identities=13%  Similarity=0.105  Sum_probs=50.8

Q ss_pred             ccEEEEecCCCC--CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318           71 FDIVFIDKEMPV--MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus        71 ~dlvl~d~~~~~--~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      +|.|++..+.-.  .+-.+.++..++..+..||.+-.  ++.++..++++.|+|-++.-.++++++...+..+
T Consensus       170 sd~ilIkdNHi~~~G~i~~ai~~~r~~~~~~kIeVEv--~tl~ea~eal~~gaDiI~LDnm~~e~vk~av~~~  240 (289)
T PRK07896        170 GDAALIKDNHVAAAGSVVAALRAVRAAAPDLPCEVEV--DSLEQLDEVLAEGAELVLLDNFPVWQTQEAVQRR  240 (289)
T ss_pred             cceeeecHHHHHHhCcHHHHHHHHHHhCCCCCEEEEc--CCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHH
Confidence            666666654322  23356777778777777776555  4666888999999999999999999999998753

>cd04726 KGPDC_HPS 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS)

Probab=84.01  E-value=11  Score=25.63  Aligned_cols=86  Identities=16%  Similarity=0.246  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHHcCCeEE----EEcCHHHHHHHHHcCCCccEEEEecCCC-----CCCHHHHHHHHHhcCCcceEEEEeCC
Q 048318           37 IRTIHSMALKSLGFKVE----VAENGKEAVDLFRSGAKFDIVFIDKEMP-----VMNGIEATREIRSMGIKIKIVGVTSL  107 (145)
Q Consensus        37 ~~~~l~~~L~~~g~~v~----~~~~~~~al~~~~~~~~~dlvl~d~~~~-----~~~~~~~~~~l~~~~~~~~iv~l~~~  107 (145)
                      ....+.+..++.|..+.    ...+..+..+.. . ...|.+.+...-.     ...+.+.++.+++. +++|+++..+-
T Consensus        91 ~~~~~i~~~~~~g~~~~v~~~~~~t~~e~~~~~-~-~~~d~v~~~~~~~~~~~~~~~~~~~i~~~~~~-~~~~i~~~GGI  167 (202)
T cd04726          91 TIKKAVKAAKKYGKEVQVDLIGVEDPEKRAKLL-K-LGVDIVILHRGIDAQAAGGWWPEDDLKKVKKL-LGVKVAVAGGI  167 (202)
T ss_pred             HHHHHHHHHHHcCCeEEEEEeCCCCHHHHHHHH-H-CCCCEEEEcCcccccccCCCCCHHHHHHHHhh-cCCCEEEECCc
Confidence            34555556666675543    445777777743 3 3589888753211     13456667777654 46788755444


Q ss_pred             CCHHHHHHHHHhCCceeec
Q 048318          108 NSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus       108 ~~~~~~~~~~~~g~~~~l~  126 (145)
                       +.+...++++.|++.++.
T Consensus       168 -~~~~i~~~~~~Gad~vvv  185 (202)
T cd04726         168 -TPDTLPEFKKAGADIVIV  185 (202)
T ss_pred             -CHHHHHHHHhcCCCEEEE
Confidence             578888999999998854

KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for L-ascorbate utilization in some eubacteria. HPS catalyzes the formation of D-arabino-3-hexulose-6-phosphate from D-ribulose 5-phosphate and formaldehyde in microorganisms that can use formaldehyde as a carbon source. Both catalyze reactions that involve the Mg2+-assisted formation and stabilization of 1,2-enediolate reaction intermediates.

>PLN02476 O-methyltransferase

Probab=83.83  E-value=15  Score=26.95  Aligned_cols=66  Identities=12%  Similarity=0.137  Sum_probs=46.1

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCe--EE-EEcCHHHHHHHHHc---CCCccEEEEecCCCCCCHHHHHHHHHh
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFK--VE-VAENGKEAVDLFRS---GAKFDIVFIDKEMPVMNGIEATREIRS   94 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~--v~-~~~~~~~al~~~~~---~~~~dlvl~d~~~~~~~~~~~~~~l~~   94 (145)
                      ++.-+|.++...+..+..++..|+.  +. ...+..+.+..+..   ...||+||+|..-  .+-.+.++.+..
T Consensus       145 ~V~TiE~d~e~~~~Ar~n~~~aGl~~~I~li~GdA~e~L~~l~~~~~~~~FD~VFIDa~K--~~Y~~y~e~~l~  216 (278)
T PLN02476        145 CLVACERDSNSLEVAKRYYELAGVSHKVNVKHGLAAESLKSMIQNGEGSSYDFAFVDADK--RMYQDYFELLLQ  216 (278)
T ss_pred             EEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEcCHHHHHHHHHhcccCCCCCEEEECCCH--HHHHHHHHHHHH
Confidence            5889999999999999999998875  44 55677777765531   1369999999852  223444444433

>PLN02716 nicotinate-nucleotide diphosphorylase (carboxylating)

Probab=83.80  E-value=16  Score=27.24  Aligned_cols=97  Identities=11%  Similarity=0.173  Sum_probs=59.4

Q ss_pred             eEEEEeCcHHHHHHHHHHHH-------HcCC--eEE-EEcCHHHHHHHHH------cCCCccEEEEecC-CCCC----CH
Q 048318           27 FALVVDDDCFIRTIHSMALK-------SLGF--KVE-VAENGKEAVDLFR------SGAKFDIVFIDKE-MPVM----NG   85 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~-------~~g~--~v~-~~~~~~~al~~~~------~~~~~dlvl~d~~-~~~~----~~   85 (145)
                      .|||-|+|-...-.+...++       ..++  .+. .+.+.+|+.+.+.      .  .+|+|++|=- .+..    +-
T Consensus       172 ~vLIKdNHi~~~G~i~~av~~~r~~~~~~~~~~kIeVEv~tleea~ea~~~~~~~~a--gaDiImLDnm~~~~~~~~~~~  249 (308)
T PLN02716        172 MVMIKDNHIAAAGGITNAVQSADKYLEEKGLSMKIEVETRTLEEVKEVLEYLSDTKT--SLTRVMLDNMVVPLENGDVDV  249 (308)
T ss_pred             eEEEcHhHHHhhCCHHHHHHHHHHhhhhcCCCeeEEEEECCHHHHHHHHHhcccccC--CCCEEEeCCCcccccccCCCH
Confidence            47777777655433333322       2333  233 7889999999987      4  4899999932 1111    33


Q ss_pred             HHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           86 IEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        86 ~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      -++-+.+.......+ +-.++.-+.+.+.+....|+|-+-.
T Consensus       250 e~l~~av~~~~~~~~-lEaSGGIt~~ni~~yA~tGVD~Is~  289 (308)
T PLN02716        250 SMLKEAVELINGRFE-TEASGNVTLDTVHKIGQTGVTYISS  289 (308)
T ss_pred             HHHHHHHHhhCCCce-EEEECCCCHHHHHHHHHcCCCEEEe
Confidence            333333332222333 5678888999999999999987743

>TIGR01306 GMP_reduct_2 guanosine monophosphate reductase, bacterial

Probab=83.73  E-value=11  Score=28.26  Aligned_cols=56  Identities=14%  Similarity=0.096  Sum_probs=42.3

Q ss_pred             ccEEEEecCCCC-CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecC
Q 048318           71 FDIVFIDKEMPV-MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTK  127 (145)
Q Consensus        71 ~dlvl~d~~~~~-~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~k  127 (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            699999986543 3456778888876644 5555666778999999999999998643

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.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=83.66  E-value=19  Score=28.13  Aligned_cols=100  Identities=10%  Similarity=0.050  Sum_probs=55.4

Q ss_pred             CceEEEEeCcHHHHH---HHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecC-CCCCCHHHHHHHHHh----c-
Q 048318           25 RLFALVVDDDCFIRT---IHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKE-MPVMNGIEATREIRS----M-   95 (145)
Q Consensus        25 ~~~iLii~~~~~~~~---~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~-~~~~~~~~~~~~l~~----~-   95 (145)
                      +.+|.+++-|.....   .++...+..|..+..+.+..++.+.+.. ..+|+|++|.. .+..+. +.++.+.+    . 
T Consensus       252 G~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~~~~~l~~~l~~-~~~D~VLIDTaGr~~rd~-~~l~eL~~~~~~~~  329 (432)
T PRK12724        252 GKSVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVKDIKKFKETLAR-DGSELILIDTAGYSHRNL-EQLERMQSFYSCFG  329 (432)
T ss_pred             CCeEEEecccchhhhHHHHHHHHHHhcCCCeeehHHHHHHHHHHHh-CCCCEEEEeCCCCCccCH-HHHHHHHHHHHhhc
Confidence            457888888774332   3333334456666666666677776665 57999999962 111122 22333322    1 


Q ss_pred             --CCcceEEEEeCCCCHHHHHHHHH----hCCceeec
Q 048318           96 --GIKIKIVGVTSLNSEAEREAFMQ----AGLDLCHT  126 (145)
Q Consensus        96 --~~~~~iv~l~~~~~~~~~~~~~~----~g~~~~l~  126 (145)
                        .+.-.++++++.........+.+    .|.+.++.
T Consensus       330 ~~~~~e~~LVLsAt~~~~~~~~~~~~f~~~~~~glIl  366 (432)
T PRK12724        330 EKDSVENLLVLSSTSSYHHTLTVLKAYESLNYRRILL  366 (432)
T ss_pred             CCCCCeEEEEEeCCCCHHHHHHHHHHhcCCCCCEEEE
Confidence              12345666777766655444443    45666643

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=83.63  E-value=15  Score=26.79  Aligned_cols=101  Identities=13%  Similarity=0.116  Sum_probs=52.6

Q ss_pred             ceEEEEeCcHH---HHHHHHHHHHHcCCeEEEEcCHHHH---HHHHHcCCCccEEEEecCCCCCCHHHHHHHHH----hc
Q 048318           26 LFALVVDDDCF---IRTIHSMALKSLGFKVEVAENGKEA---VDLFRSGAKFDIVFIDKEMPVMNGIEATREIR----SM   95 (145)
Q Consensus        26 ~~iLii~~~~~---~~~~l~~~L~~~g~~v~~~~~~~~a---l~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~----~~   95 (145)
                      .++.+++-|..   ....++...+..|+.+..+.+..+.   ++.+.....+|+||+|.-=......+.++.++    ..
T Consensus       104 ~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~D~ViIDt~Gr~~~~~~~l~el~~~~~~~  183 (270)
T PRK06731        104 KTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILIDTAGKNYRASETVEEMIETMGQV  183 (270)
T ss_pred             CeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcCCCCEEEEECCCCCcCCHHHHHHHHHHHhhh
Confidence            45666666554   4455566666678888776665443   33333323689999997422211223333333    23


Q ss_pred             CCcceEEEEeCCCCHHHHHHH----HHhCCceeec
Q 048318           96 GIKIKIVGVTSLNSEAEREAF----MQAGLDLCHT  126 (145)
Q Consensus        96 ~~~~~iv~l~~~~~~~~~~~~----~~~g~~~~l~  126 (145)
                      .|+-.++++++..........    ...+.+.++.
T Consensus       184 ~~~~~~LVl~a~~~~~d~~~~~~~f~~~~~~~~I~  218 (270)
T PRK06731        184 EPDYICLTLSASMKSKDMIEIITNFKDIHIDGIVF  218 (270)
T ss_pred             CCCeEEEEEcCccCHHHHHHHHHHhCCCCCCEEEE
Confidence            344445566655444333222    2345666643

>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=83.63  E-value=13  Score=26.24  Aligned_cols=79  Identities=10%  Similarity=0.003  Sum_probs=58.1

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCH-HHHHHHHHhcCCcceEEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNG-IEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~-~~~~~~l~~~~~~~~iv~l  104 (145)
                      -+|||-+...-+...+.+.|.+.|-.|..+..-++.+..... ..|++.=.-++..|.++ -++...+++.+|.+-+++=
T Consensus         6 nTiLITGG~sGIGl~lak~f~elgN~VIi~gR~e~~L~e~~~-~~p~~~t~v~Dv~d~~~~~~lvewLkk~~P~lNvliN   84 (245)
T COG3967           6 NTILITGGASGIGLALAKRFLELGNTVIICGRNEERLAEAKA-ENPEIHTEVCDVADRDSRRELVEWLKKEYPNLNVLIN   84 (245)
T ss_pred             cEEEEeCCcchhhHHHHHHHHHhCCEEEEecCcHHHHHHHHh-cCcchheeeecccchhhHHHHHHHHHhhCCchheeee
Confidence            368999998889999999999999899888877777777765 34665433333345544 4688899988998877654


Q ss_pred             e
Q 048318          105 T  105 (145)
Q Consensus       105 ~  105 (145)
                      .
T Consensus        85 N   85 (245)
T COG3967          85 N   85 (245)
T ss_pred             c
Confidence            3

>PRK14328 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=83.59  E-value=14  Score=28.72  Aligned_cols=99  Identities=9%  Similarity=0.020  Sum_probs=55.4

Q ss_pred             eCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCC-CCC---CHH---HHHHHHHhcCCcceEEEE
Q 048318           32 DDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEM-PVM---NGI---EATREIRSMGIKIKIVGV  104 (145)
Q Consensus        32 ~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~-~~~---~~~---~~~~~l~~~~~~~~iv~l  104 (145)
                      --|....+.+...|...||.++.-           . ...|+++++.=- ...   ...   ..++++++..+..+||+.
T Consensus        12 ~~N~~ds~~~~~~l~~~G~~~~~~-----------~-~~ADv~iiNTC~v~~~a~~k~~~~i~~~~~~~~~~~~~~vvv~   79 (439)
T PRK14328         12 QMNEEDSEKLAGMLKSMGYERTEN-----------R-EEADIIIFNTCCVRENAENKVFGNLGELKKLKEKNPNLIIGVC   79 (439)
T ss_pred             CCCHHHHHHHHHHHHHCcCEECCC-----------c-CcCCEEEEecccEechHHHHHHHHHHHHHHHHhhCCCCEEEEE
Confidence            456777888889998899887641           1 347999998522 221   223   223344444566666654


Q ss_pred             eCCCCHH-HHHHHH-HhCCceeecCCCCHHHHHHHHHHHH
Q 048318          105 TSLNSEA-EREAFM-QAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus       105 ~~~~~~~-~~~~~~-~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      +...... ...+.. ...-.+++..+-....+...+..+.
T Consensus        80 GC~a~~~~~~~~~~~~~~~vd~v~~~~~~~~i~~~~~~~~  119 (439)
T PRK14328         80 GCMMQQKGMAEKIKKKFPFVDIIFGTHNIHKFPEYLNRVK  119 (439)
T ss_pred             CchhcccccHHHHHhhCCCceEEECCCCHHHHHHHHHHHh
Confidence            4333220 122232 3333345567777777777666554

>PRK01372 ddl D-alanine--D-alanine ligase; Reviewed

Probab=83.57  E-value=5.5  Score=29.02  Aligned_cols=41  Identities=20%  Similarity=0.296  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEe
Q 048318           36 FIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFID   77 (145)
Q Consensus        36 ~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d   77 (145)
                      .....+.+.|++.|+++.......+.++.+.. ..+|+|+.-
T Consensus        23 ~s~~~i~~al~~~g~~v~~i~~~~~~~~~~~~-~~~D~v~~~   63 (304)
T PRK01372         23 NSGAAVLAALREAGYDAHPIDPGEDIAAQLKE-LGFDRVFNA   63 (304)
T ss_pred             HhHHHHHHHHHHCCCEEEEEecCcchHHHhcc-CCCCEEEEe
Confidence            35578888999999999887666666776665 579999964

>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated

Probab=83.48  E-value=6.6  Score=26.75  Aligned_cols=44  Identities=9%  Similarity=0.188  Sum_probs=30.3

Q ss_pred             CCccEEEEecCCCC-----CCHHHHHHHHHhcCCcceEEEEeCCCCHHHH
Q 048318           69 AKFDIVFIDKEMPV-----MNGIEATREIRSMGIKIKIVGVTSLNSEAER  113 (145)
Q Consensus        69 ~~~dlvl~d~~~~~-----~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~  113 (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            57999999964322     46778889888877777776 5655544443

>COG0621 MiaB 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]

Probab=83.48  E-value=10  Score=29.64  Aligned_cols=100  Identities=16%  Similarity=0.201  Sum_probs=62.3

Q ss_pred             eCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEec-CCC---CCCHHHHHHHHHhcCCcceEEEEeCC
Q 048318           32 DDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDK-EMP---VMNGIEATREIRSMGIKIKIVGVTSL  107 (145)
Q Consensus        32 ~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~-~~~---~~~~~~~~~~l~~~~~~~~iv~l~~~  107 (145)
                      --|....+.+...|...||. ..+.+          ....|++|++. ..-   +....+.+..+++..|+..|++.+..
T Consensus        13 ~~N~~DSe~m~~~L~~~G~~-~~~~~----------~~eADvviiNTC~V~~~a~~k~~~~i~~~~~~~p~~~iiVtGC~   81 (437)
T COG0621          13 QMNLYDSERMAGLLEAAGYE-ELVED----------PEEADVVIINTCAVREKAEQKVRSAIGELKKLKPDAKIIVTGCL   81 (437)
T ss_pred             CccHHHHHHHHHHHHHcCCc-cccCC----------cccCCEEEEecCeeeehHHHHHHHHHHHHHHhCCCCEEEEeCCc
Confidence            45667778888899888885 11111          12369999985 221   23445566666666677777665444


Q ss_pred             CCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          108 NSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       108 ~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      .... -.......-.+++.-|-+...+...|.+...
T Consensus        82 aq~~-~~i~~~~p~vd~v~G~~~~~~~~~~i~~~~~  116 (437)
T COG0621          82 AQAE-EEILERAPEVDIVLGPQNKERLPEAIEKALR  116 (437)
T ss_pred             cccC-HHHHhhCCCceEEECCccHHHHHHHHHHHhh
Confidence            4333 3333445545667789999998888887654

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=83.43  E-value=6.7  Score=27.03  Aligned_cols=50  Identities=14%  Similarity=0.187  Sum_probs=32.9

Q ss_pred             HHHHcCCCccEEEEecCCCC-----CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHH
Q 048318           63 DLFRSGAKFDIVFIDKEMPV-----MNGIEATREIRSMGIKIKIVGVTSLNSEAERE  114 (145)
Q Consensus        63 ~~~~~~~~~dlvl~d~~~~~-----~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~  114 (145)
                      +.+.+ ..||+|++|--+..     .+.-++++.|.++++.+-+| +|+...+....
T Consensus       109 ~~l~~-~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evV-lTGR~~p~~Li  163 (191)
T PRK05986        109 RMLAD-ESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVV-ITGRGAPRELI  163 (191)
T ss_pred             HHHhC-CCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEE-EECCCCCHHHH
Confidence            33444 57999999964432     35778889988777777776 56655444433

>PRK08857 para-aminobenzoate synthase component II; Provisional

Probab=83.40  E-value=5.2  Score=27.33  Aligned_cols=49  Identities=18%  Similarity=0.127  Sum_probs=35.4

Q ss_pred             EEEEeCcHHHHHHHHHHHHHcCCeEEEEcCH-HHHHHHHHcCCCccEEEEec
Q 048318           28 ALVVDDDCFIRTIHSMALKSLGFKVEVAENG-KEAVDLFRSGAKFDIVFIDK   78 (145)
Q Consensus        28 iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~-~~al~~~~~~~~~dlvl~d~   78 (145)
                      ||+||........+...|++.|+.+...... .+. ..+.. ..||.+++.-
T Consensus         2 il~id~~dsft~~~~~~l~~~g~~~~~~~~~~~~~-~~~~~-~~~~~iilsg   51 (193)
T PRK08857          2 LLMIDNYDSFTYNLYQYFCELGAQVKVVRNDEIDI-DGIEA-LNPTHLVISP   51 (193)
T ss_pred             EEEEECCCCcHHHHHHHHHHCCCcEEEEECCCCCH-HHHhh-CCCCEEEEeC
Confidence            8999999999999999999999888765533 222 22333 3578777654

>PRK14326 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=83.24  E-value=21  Score=28.38  Aligned_cols=98  Identities=9%  Similarity=0.081  Sum_probs=59.6

Q ss_pred             EeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCC----CHH---HHHHHHHhcCCcceEEE
Q 048318           31 VDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVM----NGI---EATREIRSMGIKIKIVG  103 (145)
Q Consensus        31 i~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~----~~~---~~~~~l~~~~~~~~iv~  103 (145)
                      +--|....+.+...|...||.++..           . ...|+++++.---..    ...   ..++.+++..+.++||+
T Consensus        23 C~~N~~dse~~~~~L~~~G~~~~~~-----------~-e~ADvvviNTCtv~~~A~~k~~~~i~~~~~~k~~~p~~~Vvv   90 (502)
T PRK14326         23 CQMNVHDSERLAGLLEAAGYVRAAE-----------G-QDADVVVFNTCAVRENADNRLYGNLGHLAPVKRANPGMQIAV   90 (502)
T ss_pred             CCCcHHHHHHHHHHHHHCCCEECCC-----------c-CCCCEEEEECCCeeehHHHHHHHHHHHHHHHHHhCCCCEEEE
Confidence            4567888899999999999887641           1 247999998532222    122   44455566667777665


Q ss_pred             EeCCCCHHHHHHHHH--hCCceeecCCCCHHHHHHHHHHHH
Q 048318          104 VTSLNSEAEREAFMQ--AGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus       104 l~~~~~~~~~~~~~~--~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                       ++........++++  .++| ++..+.....+...+.++.
T Consensus        91 -gGc~a~~~~ee~~~~~p~VD-~Vvg~~~~~~i~~ll~~~~  129 (502)
T PRK14326         91 -GGCLAQKDRDTILKRAPWVD-VVFGTHNIGSLPTLLERAR  129 (502)
T ss_pred             -ECcccccCHHHHHhhCCCCe-EEECCCCHHHHHHHHHHHh
Confidence             44333333344443  2455 6667777777766665543

>TIGR00089 RNA modification enzyme, MiaB family

Probab=82.95  E-value=15  Score=28.46  Aligned_cols=96  Identities=17%  Similarity=0.173  Sum_probs=56.1

Q ss_pred             CcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEe---cCCC-CCCHHHHHHHHHhcCCcceEEEEeCCC
Q 048318           33 DDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFID---KEMP-VMNGIEATREIRSMGIKIKIVGVTSLN  108 (145)
Q Consensus        33 ~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d---~~~~-~~~~~~~~~~l~~~~~~~~iv~l~~~~  108 (145)
                      -|....+.+...|...||.++..           . ..+|+|+++   ...+ .....+.++.+++..+..+.|++++..
T Consensus        11 ~N~~ds~~~~~~l~~~g~~~~~~-----------~-~~aD~v~intC~v~~~a~~~~~~~i~~~~~~~~~~~~vvvgGc~   78 (429)
T TIGR00089        11 MNEADSEIMAGLLKEAGYEVTDD-----------P-EEADVIIINTCAVREKAEQKVRSRLGELAKLKKKNAKIVVAGCL   78 (429)
T ss_pred             CcHHHHHHHHHHHHHCcCEECCC-----------c-ccCCEEEEecceeechHHHHHHHHHHHHHHhCcCCCEEEEECcc
Confidence            45667788888998889876631           1 358999997   2222 234567777777665544234455544


Q ss_pred             CHHHHHHHH-H-hCCceeecCCCCHHHHHHHHHHH
Q 048318          109 SEAEREAFM-Q-AGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus       109 ~~~~~~~~~-~-~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      ......+++ . .++|. +..+-....+...+...
T Consensus        79 a~~~~ee~~~~~~~vd~-vvg~~~~~~~~~~l~~~  112 (429)
T TIGR00089        79 AQREGEELLKRIPEVDI-VLGPQNKERIPEAIESA  112 (429)
T ss_pred             cccCHHHHHhhCCCCCE-EECCCCHHHHHHHHHHH
Confidence            333333333 2 35665 45666666666555543

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.

>COG2200 Rtn c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms]

Probab=82.69  E-value=15  Score=26.29  Aligned_cols=102  Identities=18%  Similarity=0.313  Sum_probs=68.2

Q ss_pred             HHHHHHHHHHHcCCeEE--EEcCHHHHHHHHHcCCCccEEEEecCCCC-----CCHHHHHHHHHhc--CCcceEEEEeCC
Q 048318           37 IRTIHSMALKSLGFKVE--VAENGKEAVDLFRSGAKFDIVFIDKEMPV-----MNGIEATREIRSM--GIKIKIVGVTSL  107 (145)
Q Consensus        37 ~~~~l~~~L~~~g~~v~--~~~~~~~al~~~~~~~~~dlvl~d~~~~~-----~~~~~~~~~l~~~--~~~~~iv~l~~~  107 (145)
                      ....+-..|+..|+.+.  =+.++-..+..+.. .+||.|=+|-.+-.     .....+++.+-..  ..++.+| .-.-
T Consensus       137 ~~~~~l~~L~~~G~~ialDDFGtG~ssl~~L~~-l~~d~iKID~~fi~~i~~~~~~~~iv~~iv~la~~l~~~vv-aEGV  214 (256)
T COG2200         137 TALALLRQLRELGVRIALDDFGTGYSSLSYLKR-LPPDILKIDRSFVRDLETDARDQAIVRAIVALAHKLGLTVV-AEGV  214 (256)
T ss_pred             HHHHHHHHHHHCCCeEEEECCCCCHHHHHHHhh-CCCCeEEECHHHHhhcccCcchHHHHHHHHHHHHHCCCEEE-Eeec
Confidence            34445556778898765  57788889999887 78999999975532     2334566665442  2244444 3444


Q ss_pred             CCHHHHHHHHHhCCce----eecCCCCHHHHHHHHHH
Q 048318          108 NSEAEREAFMQAGLDL----CHTKPLSVDKILPLMED  140 (145)
Q Consensus       108 ~~~~~~~~~~~~g~~~----~l~kP~~~~~L~~~i~~  140 (145)
                      .+.+....+.+.|++.    |+.||...+++...+..
T Consensus       215 Et~~ql~~L~~~G~~~~QGylf~~P~~~~~~~~~~~~  251 (256)
T COG2200         215 ETEEQLDLLRELGCDYLQGYLFSRPLPADALDALLSS  251 (256)
T ss_pred             CCHHHHHHHHHcCCCeEeeccccCCCCHHHHHHHHhh
Confidence            6677777888888773    36789988777766543

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=82.52  E-value=11  Score=25.45  Aligned_cols=45  Identities=11%  Similarity=0.180  Sum_probs=30.4

Q ss_pred             CCccEEEEecCCC-----CCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHH
Q 048318           69 AKFDIVFIDKEMP-----VMNGIEATREIRSMGIKIKIVGVTSLNSEAERE  114 (145)
Q Consensus        69 ~~~dlvl~d~~~~-----~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~  114 (145)
                      ..+|+|++|--+.     =.+.-++++.++++++.+-+| +|+..-+....
T Consensus        96 ~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evV-lTGR~~p~~l~  145 (173)
T TIGR00708        96 PELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVI-ITGRGCPQDLL  145 (173)
T ss_pred             CCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEE-EECCCCCHHHH
Confidence            5799999996332     135668888888877777776 56655444443

Alternate name: corrinoid adenosyltransferase.

>PRK06559 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=82.43  E-value=7.5  Score=28.63  Aligned_cols=69  Identities=16%  Similarity=0.158  Sum_probs=50.1

Q ss_pred             ccEEEEecCCCCC--CHHHHHHHHHhcCC-cceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318           71 FDIVFIDKEMPVM--NGIEATREIRSMGI-KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus        71 ~dlvl~d~~~~~~--~~~~~~~~l~~~~~-~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      +|.|++-.+.-..  +-.+.++..|+..+ ..+|.  ..-.+.++..+++++|+|-++.-.++++++...+..+
T Consensus       167 sD~iLIkdNHi~~~g~i~~av~~~r~~~~~~~kIe--VEv~tleea~~a~~agaDiImLDnmspe~l~~av~~~  238 (290)
T PRK06559        167 SDAIMLKDNHIAAVGSVQKAIAQARAYAPFVKMVE--VEVESLAAAEEAAAAGADIIMLDNMSLEQIEQAITLI  238 (290)
T ss_pred             cceEEEcHHHHHhhccHHHHHHHHHHhCCCCCeEE--EECCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence            6777776554322  23466777777665 34544  3446778899999999999999999999999998753

>PRK14333 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=82.40  E-value=15  Score=28.61  Aligned_cols=97  Identities=11%  Similarity=0.134  Sum_probs=56.1

Q ss_pred             EeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEec-CCCC---CCHHHHHHHH---HhcCCcceEEE
Q 048318           31 VDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDK-EMPV---MNGIEATREI---RSMGIKIKIVG  103 (145)
Q Consensus        31 i~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~-~~~~---~~~~~~~~~l---~~~~~~~~iv~  103 (145)
                      +--|....+.+...|...||.++..           . ...|+++++. ..-+   ....+.+.++   ++..|..+|++
T Consensus        16 C~~N~~ds~~~~~~l~~~G~~~~~~-----------~-~~ADiiiiNTC~v~~~a~~~~~~~i~~~~~~k~~~p~~~vvv   83 (448)
T PRK14333         16 CQMNKADSERMAGILEDMGYQWAED-----------E-LQADLVLYNTCTIRDNAEQKVYSYLGRQAKRKHKNPDLTLVV   83 (448)
T ss_pred             CCCcHHHHHHHHHHHHHCcCEECCC-----------c-ccCCEEEEEeeeeeehHHHHHHHHHHHHHHHHhcCCCCEEEE
Confidence            3567778889999999999887741           1 2369999884 2222   2233444333   34456666654


Q ss_pred             EeCCCCHHHHHHHHH--hCCceeecCCCCHHHHHHHHHHH
Q 048318          104 VTSLNSEAEREAFMQ--AGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus       104 l~~~~~~~~~~~~~~--~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                       ++..........++  .++ |++..+-....+...+..+
T Consensus        84 -~Gc~a~~~~~~~~~~~p~v-D~v~g~~~~~~~~~ll~~~  121 (448)
T PRK14333         84 -AGCVAQQEGESLLRRVPEL-DLVMGPQHANRLEDLLEQV  121 (448)
T ss_pred             -ECccCccCHHHHHhcCCCC-CEEECCCCHHHHHHHHHHH
Confidence             44333333344443  355 4455777766666665544

>PF00977 His_biosynth: Histidine biosynthesis protein; InterPro: IPR006062 Histidine is formed by several complex and distinct biochemical reactions catalysed by eight enzymes

Probab=82.38  E-value=15  Score=25.91  Aligned_cols=70  Identities=14%  Similarity=0.162  Sum_probs=48.7

Q ss_pred             cCHHHHHHHHHcCCCccEEEEecCCCC-C--CHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           56 ENGKEAVDLFRSGAKFDIVFIDKEMPV-M--NGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        56 ~~~~~al~~~~~~~~~dlvl~d~~~~~-~--~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      .+..+.++.+.+...-.+++.|+.-.+ +  ..+++++.+++.. +.|+++-..-.+.+....+.+.|+++.+.
T Consensus       147 ~~~~~~~~~~~~~g~~~ii~tdi~~dGt~~G~d~~~~~~l~~~~-~~~viasGGv~~~~Dl~~l~~~G~~gviv  219 (229)
T PF00977_consen  147 IDLEEFAKRLEELGAGEIILTDIDRDGTMQGPDLELLKQLAEAV-NIPVIASGGVRSLEDLRELKKAGIDGVIV  219 (229)
T ss_dssp             EEHHHHHHHHHHTT-SEEEEEETTTTTTSSS--HHHHHHHHHHH-SSEEEEESS--SHHHHHHHHHTTECEEEE
T ss_pred             cCHHHHHHHHHhcCCcEEEEeeccccCCcCCCCHHHHHHHHHHc-CCCEEEecCCCCHHHHHHHHHCCCcEEEE
Confidence            356777776665333458889986653 2  3467778887655 78999888888999999999999988864

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 ....

>PRK07455 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=82.30  E-value=13  Score=25.32  Aligned_cols=64  Identities=20%  Similarity=0.219  Sum_probs=47.5

Q ss_pred             EcCHHHHHHHHHcCCCccEEEEecCCCCC--CHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCcee
Q 048318           55 AENGKEAVDLFRSGAKFDIVFIDKEMPVM--NGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLC  124 (145)
Q Consensus        55 ~~~~~~al~~~~~~~~~dlvl~d~~~~~~--~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~  124 (145)
                      +.+..++.+....  .+|.+-+   .|..  -|.+.++.++...+++|++.+. .-+.+...++++.|++.+
T Consensus       112 ~~t~~e~~~A~~~--Gadyv~~---Fpt~~~~G~~~l~~~~~~~~~ipvvaiG-GI~~~n~~~~l~aGa~~v  177 (187)
T PRK07455        112 ALTPTEIVTAWQA--GASCVKV---FPVQAVGGADYIKSLQGPLGHIPLIPTG-GVTLENAQAFIQAGAIAV  177 (187)
T ss_pred             cCCHHHHHHHHHC--CCCEEEE---CcCCcccCHHHHHHHHhhCCCCcEEEeC-CCCHHHHHHHHHCCCeEE
Confidence            5677777766654  4787766   4543  3789999999877789987654 456777889999999876

>PF03060 NMO: Nitronate monooxygenase; InterPro: IPR004136 2-Nitropropane dioxygenase (1

Probab=82.12  E-value=19  Score=26.93  Aligned_cols=81  Identities=16%  Similarity=0.164  Sum_probs=53.2

Q ss_pred             HHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEec-CC----C-CC-CHHHHHHHHHhcCCcceEEEEeCCCCHHHH
Q 048318           42 SMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDK-EM----P-VM-NGIEATREIRSMGIKIKIVGVTSLNSEAER  113 (145)
Q Consensus        42 ~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~-~~----~-~~-~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~  113 (145)
                      ...+...|..+. .+.+.+++......  .+|.|++-= +-    . +. +.+.++..++... ++|+|+-..-.+...+
T Consensus       129 i~~l~~~gi~v~~~v~s~~~A~~a~~~--G~D~iv~qG~eAGGH~g~~~~~~~~L~~~v~~~~-~iPViaAGGI~dg~~i  205 (330)
T PF03060_consen  129 IERLHAAGIKVIPQVTSVREARKAAKA--GADAIVAQGPEAGGHRGFEVGSTFSLLPQVRDAV-DIPVIAAGGIADGRGI  205 (330)
T ss_dssp             HHHHHHTT-EEEEEESSHHHHHHHHHT--T-SEEEEE-TTSSEE---SSG-HHHHHHHHHHH--SS-EEEESS--SHHHH
T ss_pred             HHHHHHcCCccccccCCHHHHHHhhhc--CCCEEEEeccccCCCCCccccceeeHHHHHhhhc-CCcEEEecCcCCHHHH
Confidence            345667787766 88899999887765  489888762 11    1 12 2567777777644 5899887777888889


Q ss_pred             HHHHHhCCceee
Q 048318          114 EAFMQAGLDLCH  125 (145)
Q Consensus       114 ~~~~~~g~~~~l  125 (145)
                      ..++..||++..
T Consensus       206 aaal~lGA~gV~  217 (330)
T PF03060_consen  206 AAALALGADGVQ  217 (330)
T ss_dssp             HHHHHCT-SEEE
T ss_pred             HHHHHcCCCEee
Confidence            999999999986

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.

>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional

Probab=81.79  E-value=8.4  Score=27.56  Aligned_cols=62  Identities=16%  Similarity=0.057  Sum_probs=38.4

Q ss_pred             HcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCCC
Q 048318           66 RSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS  130 (145)
Q Consensus        66 ~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~  130 (145)
                      .. +.||++++--=.+...|-.-.+.+-+. ..+|.|++++....... ++++....+|+.-+.+
T Consensus        57 ~~-~~pDf~i~isPN~a~PGP~~ARE~l~~-~~iP~IvI~D~p~~K~~-d~l~~~g~GYIivk~D  118 (277)
T PRK00994         57 EE-WKPDFVIVISPNPAAPGPKKAREILKA-AGIPCIVIGDAPGKKVK-DAMEEQGLGYIIVKAD  118 (277)
T ss_pred             Hh-hCCCEEEEECCCCCCCCchHHHHHHHh-cCCCEEEEcCCCccchH-HHHHhcCCcEEEEecC
Confidence            44 679988876555556666555555432 25688889888777655 5555555556544443

>PRK06978 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=81.65  E-value=5.9  Score=29.20  Aligned_cols=69  Identities=10%  Similarity=0.088  Sum_probs=51.4

Q ss_pred             ccEEEEecCCCC--CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318           71 FDIVFIDKEMPV--MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus        71 ~dlvl~d~~~~~--~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      +|.|++-.+.-.  .+-.+.++.+++..+..+|.  ..-.+.++..+++++|+|-++.-.++++++...+..+
T Consensus       176 sD~vLIkdNHi~~~G~i~~av~~~r~~~~~~kIe--VEvetleea~eA~~aGaDiImLDnmspe~l~~av~~~  246 (294)
T PRK06978        176 YDGILIKENHIAAAGGVGAALDAAFALNAGVPVQ--IEVETLAQLETALAHGAQSVLLDNFTLDMMREAVRVT  246 (294)
T ss_pred             CceEEEeHHHHHHhCCHHHHHHHHHHhCCCCcEE--EEcCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHhh
Confidence            677777765532  23346778888765555543  4455788899999999999999999999999988754

>PF06283 ThuA: Trehalose utilisation; PDB: 4E5V_A 1T0B_A

Probab=81.64  E-value=11  Score=26.17  Aligned_cols=53  Identities=19%  Similarity=0.192  Sum_probs=33.8

Q ss_pred             eEEEEeCc---------HHHHHHHHHHHH-HcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCC
Q 048318           27 FALVVDDD---------CFIRTIHSMALK-SLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMP   81 (145)
Q Consensus        27 ~iLii~~~---------~~~~~~l~~~L~-~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~   81 (145)
                      |||++...         +.....++.+|+ ..||.|+...+....-....  ..+|+|++.....
T Consensus         1 kvLi~~g~~~~~~h~~~~~~~~~l~~ll~~~~~~~v~~~~~~~~~~~~~L--~~~Dvvv~~~~~~   63 (217)
T PF06283_consen    1 KVLIFSGGWSGYRHDSIPAAKKALAQLLEESEGFEVTVTEDPDDLTPENL--KGYDVVVFYNTGG   63 (217)
T ss_dssp             EEEEEES-SHHHCSHHHHHHHHHHHHHHHHTTCEEEEECCSGGCTSHHCH--CT-SEEEEE-SSC
T ss_pred             CEEEEeCCcCCccCccHHHHHHHHHHHhccCCCEEEEEEeCcccCChhHh--cCCCEEEEECCCC
Confidence            46777655         257788888888 67899998777443222112  3599999988764

>PRK07315 fructose-bisphosphate aldolase; Provisional

Probab=81.53  E-value=17  Score=26.86  Aligned_cols=68  Identities=9%  Similarity=0.034  Sum_probs=50.6

Q ss_pred             EcCHHHHHHHHHcCCCccEEEEec--C---CCC---CCHHHHHHHHHhcCCcceEEEEeCC-CCHHHHHHHHHhCCcee
Q 048318           55 AENGKEAVDLFRSGAKFDIVFIDK--E---MPV---MNGIEATREIRSMGIKIKIVGVTSL-NSEAEREAFMQAGLDLC  124 (145)
Q Consensus        55 ~~~~~~al~~~~~~~~~dlvl~d~--~---~~~---~~~~~~~~~l~~~~~~~~iv~l~~~-~~~~~~~~~~~~g~~~~  124 (145)
                      .++.+++.+...  ..+|.+-+..  .   .+.   .-+++.++.+++..+++|+|+..++ .+.+....+.+.|++.+
T Consensus       153 ~t~peea~~f~~--tgvD~LAv~iG~vHG~y~t~~k~l~~e~L~~i~~~~~~iPlVlhGGSGi~~e~~~~~i~~Gi~Ki  229 (293)
T PRK07315        153 LAPIEDAKAMVE--TGIDFLAAGIGNIHGPYPENWEGLDLDHLEKLTEAVPGFPIVLHGGSGIPDDQIQEAIKLGVAKV  229 (293)
T ss_pred             CCCHHHHHHHHH--cCCCEEeeccccccccCCCCCCcCCHHHHHHHHHhccCCCEEEECCCCCCHHHHHHHHHcCCCEE
Confidence            378899988884  3589888883  2   222   2468899999887656899888765 46677888999998876

>PLN02823 spermine synthase

Probab=81.44  E-value=20  Score=26.96  Aligned_cols=67  Identities=15%  Similarity=0.153  Sum_probs=44.9

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHc-----CCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCC--C-----HHHHHH-H
Q 048318           26 LFALVVDDDCFIRTIHSMALKSL-----GFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVM--N-----GIEATR-E   91 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~-----g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~--~-----~~~~~~-~   91 (145)
                      .+|.++|-|+...+..+..+...     +-.+. ...|+.+.++.. . ..||+|++|..-|..  .     ..++.+ .
T Consensus       128 ~~v~~VEiD~~vv~lar~~~~~~~~~~~dprv~v~~~Da~~~L~~~-~-~~yDvIi~D~~dp~~~~~~~~Lyt~eF~~~~  205 (336)
T PLN02823        128 EKVVMCDIDQEVVDFCRKHLTVNREAFCDKRLELIINDARAELEKR-D-EKFDVIIGDLADPVEGGPCYQLYTKSFYERI  205 (336)
T ss_pred             CeEEEEECCHHHHHHHHHhcccccccccCCceEEEEChhHHHHhhC-C-CCccEEEecCCCccccCcchhhccHHHHHHH
Confidence            46899999999999999888532     12344 556777766543 2 469999999754421  1     346666 5


Q ss_pred             HHh
Q 048318           92 IRS   94 (145)
Q Consensus        92 l~~   94 (145)
                      +++
T Consensus       206 ~~~  208 (336)
T PLN02823        206 VKP  208 (336)
T ss_pred             HHH
Confidence            554

>PRK10060 RNase II stability modulator; Provisional

Probab=81.40  E-value=29  Score=28.56  Aligned_cols=105  Identities=11%  Similarity=0.199  Sum_probs=70.4

Q ss_pred             HHHHHHHHHHHHcCCeEEE--EcCHHHHHHHHHcCCCccEEEEecCCC-----CCCHHHHHHHHHh--cCCcceEEEEeC
Q 048318           36 FIRTIHSMALKSLGFKVEV--AENGKEAVDLFRSGAKFDIVFIDKEMP-----VMNGIEATREIRS--MGIKIKIVGVTS  106 (145)
Q Consensus        36 ~~~~~l~~~L~~~g~~v~~--~~~~~~al~~~~~~~~~dlvl~d~~~~-----~~~~~~~~~~l~~--~~~~~~iv~l~~  106 (145)
                      .........|++.|+.+..  +.++...+..+.. .++|.|=+|-.+-     +.....+++.+-.  +...+++| ..+
T Consensus       541 ~~~~~~l~~L~~~G~~ialDdfGtg~ssl~~L~~-l~~d~iKiD~sfv~~i~~~~~~~~~v~~ii~~a~~lg~~vi-AeG  618 (663)
T PRK10060        541 ELALSVIQQFSQLGAQVHLDDFGTGYSSLSQLAR-FPIDAIKLDQSFVRDIHKQPVSQSLVRAIVAVAQALNLQVI-AEG  618 (663)
T ss_pred             HHHHHHHHHHHHCCCEEEEECCCCchhhHHHHHh-CCCCEEEECHHHHhccccCcchHHHHHHHHHHHHHCCCcEE-Eec
Confidence            3444455677888988774  6677888888877 6899999996432     2234455555543  22245554 455


Q ss_pred             CCCHHHHHHHHHhCCce----eecCCCCHHHHHHHHHHHH
Q 048318          107 LNSEAEREAFMQAGLDL----CHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus       107 ~~~~~~~~~~~~~g~~~----~l~kP~~~~~L~~~i~~~~  142 (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            56777777788888753    3678999999888776543

>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain

Probab=81.28  E-value=5.9  Score=26.09  Aligned_cols=84  Identities=19%  Similarity=0.217  Sum_probs=45.5

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEE---------------EEcCHHHHHHHHHc---CCCccEEEEec-CCCCCC
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVE---------------VAENGKEAVDLFRS---GAKFDIVFIDK-EMPVMN   84 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~---------------~~~~~~~al~~~~~---~~~~dlvl~d~-~~~~~~   84 (145)
                      ++.++||...-....+....+|+..++.+.               ..... -....+..   ...||+||+|- +..|-.
T Consensus        32 ~~~rvLvL~PTRvva~em~~aL~~~~~~~~t~~~~~~~~g~~~i~vMc~a-t~~~~~~~p~~~~~yd~II~DEcH~~Dp~  110 (148)
T PF07652_consen   32 RRLRVLVLAPTRVVAEEMYEALKGLPVRFHTNARMRTHFGSSIIDVMCHA-TYGHFLLNPCRLKNYDVIIMDECHFTDPT  110 (148)
T ss_dssp             TT--EEEEESSHHHHHHHHHHTTTSSEEEESTTSS----SSSSEEEEEHH-HHHHHHHTSSCTTS-SEEEECTTT--SHH
T ss_pred             ccCeEEEecccHHHHHHHHHHHhcCCcccCceeeeccccCCCcccccccH-HHHHHhcCcccccCccEEEEeccccCCHH
Confidence            567899999999999999999986653322               11111 12222221   24699999995 444433


Q ss_pred             HHHHHHHHHhc--CCcceEEEEeCCC
Q 048318           85 GIEATREIRSM--GIKIKIVGVTSLN  108 (145)
Q Consensus        85 ~~~~~~~l~~~--~~~~~iv~l~~~~  108 (145)
                      ..-+.-.++..  .....+|.+|+..
T Consensus       111 sIA~rg~l~~~~~~g~~~~i~mTATP  136 (148)
T PF07652_consen  111 SIAARGYLRELAESGEAKVIFMTATP  136 (148)
T ss_dssp             HHHHHHHHHHHHHTTS-EEEEEESS-
T ss_pred             HHhhheeHHHhhhccCeeEEEEeCCC
Confidence            33333344432  2235778887754

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 ....

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=81.22  E-value=22  Score=27.21  Aligned_cols=89  Identities=11%  Similarity=0.084  Sum_probs=49.5

Q ss_pred             ceEEEEeCcHH---HHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecC-CCCCCH--HHHHHHHHhc-CCc
Q 048318           26 LFALVVDDDCF---IRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKE-MPVMNG--IEATREIRSM-GIK   98 (145)
Q Consensus        26 ~~iLii~~~~~---~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~-~~~~~~--~~~~~~l~~~-~~~   98 (145)
                      .+|.++..|..   ..+.++.+-+..|..+..+.+..+....+.....+|+|++|.- ....+.  .+.+..+... .+.
T Consensus       168 ~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~~~DlVLIDTaG~~~~d~~l~e~La~L~~~~~~~  247 (374)
T PRK14722        168 SKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELRNKHMVLIDTIGMSQRDRTVSDQIAMLHGADTPV  247 (374)
T ss_pred             CeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhcCCCEEEEcCCCCCcccHHHHHHHHHHhccCCCC
Confidence            35667766654   3456666666678777777666555444443245899999963 222222  2333444332 223


Q ss_pred             ceEEEEeCCCCHHHHH
Q 048318           99 IKIVGVTSLNSEAERE  114 (145)
Q Consensus        99 ~~iv~l~~~~~~~~~~  114 (145)
                      -.++++++........
T Consensus       248 ~~lLVLsAts~~~~l~  263 (374)
T PRK14722        248 QRLLLLNATSHGDTLN  263 (374)
T ss_pred             eEEEEecCccChHHHH
Confidence            3466676666554433

>PF00290 Trp_syntA: Tryptophan synthase alpha chain; InterPro: IPR002028 Tryptophan synthase (4

Probab=81.20  E-value=6.4  Score=28.47  Aligned_cols=49  Identities=29%  Similarity=0.186  Sum_probs=33.6

Q ss_pred             CHHHHHHHHHhcCCcceEEEEeCCC------CHHHHHHHHHhCCceeecCCCCHH
Q 048318           84 NGIEATREIRSMGIKIKIVGVTSLN------SEAEREAFMQAGLDLCHTKPLSVD  132 (145)
Q Consensus        84 ~~~~~~~~l~~~~~~~~iv~l~~~~------~~~~~~~~~~~g~~~~l~kP~~~~  132 (145)
                      +.+++++.+|+..+.+|+++++-..      -+....++.++|+++++.--+.++
T Consensus        73 ~~~~~~~~ir~~~~~~pivlm~Y~N~i~~~G~e~F~~~~~~aGvdGlIipDLP~e  127 (259)
T PF00290_consen   73 KIFELVKEIRKKEPDIPIVLMTYYNPIFQYGIERFFKEAKEAGVDGLIIPDLPPE  127 (259)
T ss_dssp             HHHHHHHHHHHHCTSSEEEEEE-HHHHHHH-HHHHHHHHHHHTEEEEEETTSBGG
T ss_pred             HHHHHHHHHhccCCCCCEEEEeeccHHhccchHHHHHHHHHcCCCEEEEcCCChH
Confidence            3567778888666788999887642      334567778899999987634333

2.1.20 from EC) catalyzes the last step in the biosynthesis of tryptophan [, ]: L-serine + 1-(indol-3-yl)glycerol 3-phosphate = L-tryptophan + glyceraldehyde 3-phosphate + H2O It has two functional domains, each found in bacteria and plants on a separate subunit. In Escherichia coli, the 2 subunits, A and B, are encoded by the trpA and trpB genes respectively. The alpha chain is for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate and the beta chain IPR006653 from INTERPRO is for the synthesis of tryptophan from indole and serine. In fungi the two domains are fused together in a single multifunctional protein, in the order: (NH2-A-B-COOH) [, ]. The two domains of the Neurospora crassa polypeptide are linked by a connector of 54-amino acid residues that has less than 25% identity to the 45-residue connector of the Saccharomyces cerevisiae (Baker's yeast) polypeptide. Two acidic residues are believed to serve as proton donors/acceptors in the enzyme's catalytic mechanism.; GO: 0004834 tryptophan synthase activity, 0006568 tryptophan metabolic process; PDB: 1TJR_B 1RD5_B 1K8X_A 1QOQ_A 1KFE_A 1KFB_A 2CLO_A 1TTP_A 2RH9_A 1K7F_A ....

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=81.17  E-value=32  Score=29.02  Aligned_cols=101  Identities=11%  Similarity=0.034  Sum_probs=57.7

Q ss_pred             ceEEEEeCcHHH---HHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCC-CCCC--HHHHHHHHHh-cCCc
Q 048318           26 LFALVVDDDCFI---RTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEM-PVMN--GIEATREIRS-MGIK   98 (145)
Q Consensus        26 ~~iLii~~~~~~---~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~-~~~~--~~~~~~~l~~-~~~~   98 (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   4566666666787777777777776666553468999999731 2122  2333334332 3344


Q ss_pred             ceEEEEeCCCCHHHHH---HHHHh----CCceeec
Q 048318           99 IKIVGVTSLNSEAERE---AFMQA----GLDLCHT  126 (145)
Q Consensus        99 ~~iv~l~~~~~~~~~~---~~~~~----g~~~~l~  126 (145)
                      -.++++..........   ..++.    +.+.+|.
T Consensus       296 e~~LVLsAt~~~~~l~~i~~~f~~~~~~~i~glIl  330 (767)
T PRK14723        296 RRLLLLNAASHGDTLNEVVHAYRHGAGEDVDGCII  330 (767)
T ss_pred             eEEEEECCCCcHHHHHHHHHHHhhcccCCCCEEEE
Confidence            4566666655444333   33332    5666653

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=81.07  E-value=19  Score=26.20  Aligned_cols=102  Identities=17%  Similarity=0.172  Sum_probs=51.3

Q ss_pred             CCceEEEEeCcHH---HHHHHHHHHHHcCCeEEEEc---CHH----HHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHH
Q 048318           24 LRLFALVVDDDCF---IRTIHSMALKSLGFKVEVAE---NGK----EAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIR   93 (145)
Q Consensus        24 ~~~~iLii~~~~~---~~~~l~~~L~~~g~~v~~~~---~~~----~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~   93 (145)
                      .+.+|++++-|..   ..+.++...+..|..+....   +..    +++..... ..+|+||+|.-=-.......+.+++
T Consensus        99 ~g~~V~li~~D~~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~l~~~~~-~~~D~ViIDT~G~~~~d~~~~~el~  177 (272)
T TIGR00064        99 QGKSVLLAAGDTFRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDAIQKAKA-RNIDVVLIDTAGRLQNKVNLMDELK  177 (272)
T ss_pred             cCCEEEEEeCCCCCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHHHHHHH-CCCCEEEEeCCCCCcchHHHHHHHH
Confidence            3568899988753   23455555566675554332   221    23333333 4699999997421112223333222


Q ss_pred             h----c------CCcceEEEEeCCCCHHHHHHH---H-HhCCceeec
Q 048318           94 S----M------GIKIKIVGVTSLNSEAEREAF---M-QAGLDLCHT  126 (145)
Q Consensus        94 ~----~------~~~~~iv~l~~~~~~~~~~~~---~-~~g~~~~l~  126 (145)
                      .    .      .++-.++++......+....+   . ..+.+.++.
T Consensus       178 ~~~~~~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~f~~~~~~~g~Il  224 (272)
T TIGR00064       178 KIKRVIKKVDKDAPDEVLLVLDATTGQNALEQAKVFNEAVGLTGIIL  224 (272)
T ss_pred             HHHHHHhcccCCCCceEEEEEECCCCHHHHHHHHHHHhhCCCCEEEE
Confidence            2    1      245556666665544333332   2 245666643

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.

>PF10672 Methyltrans_SAM: S-adenosylmethionine-dependent methyltransferase; InterPro: IPR019614 Members of this entry are S-adenosylmethionine-dependent methyltransferases from gamma-proteobacterial species

Probab=80.84  E-value=12  Score=27.42  Aligned_cols=52  Identities=13%  Similarity=0.165  Sum_probs=36.3

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCe---E-EEEcCHHHHHHHHHcCCCccEEEEec
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFK---V-EVAENGKEAVDLFRSGAKFDIVFIDK   78 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~---v-~~~~~~~~al~~~~~~~~~dlvl~d~   78 (145)
                      .|.-+|-.....+..+..++-+|+.   + ....+.-+.+..+..+..||+|++|.
T Consensus       148 ~v~~VD~S~~al~~a~~N~~lNg~~~~~~~~~~~Dvf~~l~~~~~~~~fD~IIlDP  203 (286)
T PF10672_consen  148 EVVSVDSSKRALEWAKENAALNGLDLDRHRFIQGDVFKFLKRLKKGGRFDLIILDP  203 (286)
T ss_dssp             EEEEEES-HHHHHHHHHHHHHTT-CCTCEEEEES-HHHHHHHHHHTT-EEEEEE--
T ss_pred             EEEEEeCCHHHHHHHHHHHHHcCCCccceEEEecCHHHHHHHHhcCCCCCEEEECC
Confidence            4789999999999999998877754   2 36668877777665546899999995

The diversity in the roles of methylation is matched by the almost bewildering number of methyltransferase enzymes that catalyse the methylation reaction. Although several classes of methyltransferase enzymes are known, the great majority of methylation reactions are catalysed by the S-adenosylmethionine-dependent methyltransferases. SAM (S-adenosylmethionine, also known as AdoMet) is well known as the methyl donor for the majority of methyltransferases that modify DNA, RNA, histones and other proteins, dictating replicational, transcriptional and translational fidelity, mismatch repair, chromatin modelling, epigenetic modifications and imprinting [].; GO: 0008168 methyltransferase activity; PDB: 2IGT_B 1WXX_A 1WXW_D 2CWW_B 2AS0_B 3V8V_B 3V97_A 3C0K_A 2B78_A 3LDF_A.

>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]

Probab=80.66  E-value=10  Score=27.50  Aligned_cols=59  Identities=25%  Similarity=0.220  Sum_probs=0.0

Q ss_pred             HHHHHHHHhcCCcceEEEEeCCCC------HHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhcC
Q 048318           86 IEATREIRSMGIKIKIVGVTSLNS------EAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN  145 (145)
Q Consensus        86 ~~~~~~l~~~~~~~~iv~l~~~~~------~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~~  145 (145)
                      +++++.+|+....+|+++++-...      +.....+.+.|+++++. |.-+-+....+....+++
T Consensus        82 lel~~~~r~~~~~~Pivlm~Y~Npi~~~Gie~F~~~~~~~GvdGliv-pDLP~ee~~~~~~~~~~~  146 (265)
T COG0159          82 LELVEEIRAKGVKVPIVLMTYYNPIFNYGIEKFLRRAKEAGVDGLLV-PDLPPEESDELLKAAEKH  146 (265)
T ss_pred             HHHHHHHHhcCCCCCEEEEEeccHHHHhhHHHHHHHHHHcCCCEEEe-CCCChHHHHHHHHHHHHc

>PRK13143 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional

Probab=80.61  E-value=8.4  Score=26.48  Aligned_cols=44  Identities=18%  Similarity=0.206  Sum_probs=35.4

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFI   76 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~   76 (145)
                      ++|+|+|-.......+...|+..|+.+....+..+    +   ..+|.+++
T Consensus         1 ~~~~v~~~~~~~~~~~~~~l~~~G~~~~~~~~~~~----~---~~~d~iii   44 (200)
T PRK13143          1 MMIVIIDYGVGNLRSVSKALERAGAEVVITSDPEE----I---LDADGIVL   44 (200)
T ss_pred             CeEEEEECCCccHHHHHHHHHHCCCeEEEECCHHH----H---ccCCEEEE
Confidence            47899999999999999999999999887765432    2   24898888

>PRK14337 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=80.32  E-value=26  Score=27.39  Aligned_cols=96  Identities=8%  Similarity=-0.028  Sum_probs=54.5

Q ss_pred             eCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecC-CCC---CCHHHHHHHH---HhcCCcceEEEE
Q 048318           32 DDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKE-MPV---MNGIEATREI---RSMGIKIKIVGV  104 (145)
Q Consensus        32 ~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~-~~~---~~~~~~~~~l---~~~~~~~~iv~l  104 (145)
                      --|....+.+...|...||.++.            . ...|+++++.= .-.   ....+.+..+   ++..|..+||+.
T Consensus        14 ~~N~~dse~~~~~l~~~G~~~~~------------~-~~ADiiiiNTC~v~~~A~~~~~~~i~~~~~~k~~~p~~~ivv~   80 (446)
T PRK14337         14 QMNVNDSDWLARALVARGFTEAP------------E-EEARVFIVNTCSVRDKPEQKVYSLLGRIRHATKKNPDVFVAVG   80 (446)
T ss_pred             CCcHHHHHHHHHHHHHCCCEECC------------c-CCCCEEEEeccCeecHHHHHHHHHHHHHHHHHHhCCCCEEEEE
Confidence            45777788889999989987743            1 13699999852 222   2233443334   555667666654


Q ss_pred             eCCCCHHHHHHHH-HhCCceeecCCCCHHHHHHHHHHH
Q 048318          105 TSLNSEAEREAFM-QAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus       105 ~~~~~~~~~~~~~-~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      +..... ...+.+ ...--|++..+-....+...+..+
T Consensus        81 GC~a~~-~~~~~~~~~p~vd~vv~~~~~~~i~~l~~~~  117 (446)
T PRK14337         81 GCVAQQ-IGSGFFSRFPQVRLVFGTDGIAMAPQALERL  117 (446)
T ss_pred             CCcccc-ccHHHHhhCCCCcEEECCCCHHHHHHHHHHH
Confidence            443322 222222 333344556677776666655543

>TIGR03128 RuMP_HxlA 3-hexulose-6-phosphate synthase

Probab=80.31  E-value=16  Score=25.01  Aligned_cols=90  Identities=19%  Similarity=0.156  Sum_probs=0.0

Q ss_pred             EcCHHHHHHHHHcCCCccEEEEecC--CCCCCHHHHHHHHHhcCCcceEEEEeCCCCHH--HHHHHHHhCCceeecCCCC
Q 048318           55 AENGKEAVDLFRSGAKFDIVFIDKE--MPVMNGIEATREIRSMGIKIKIVGVTSLNSEA--EREAFMQAGLDLCHTKPLS  130 (145)
Q Consensus        55 ~~~~~~al~~~~~~~~~dlvl~d~~--~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~--~~~~~~~~g~~~~l~kP~~  130 (145)
                      +.+.+++++.... -...+-+++..  +....|.+.++.+++..+...+++=+-..+..  ....+...|++.+......
T Consensus         8 ~~~~~~a~~~~~~-l~~~v~~iev~~~l~~~~g~~~i~~l~~~~~~~~i~~d~k~~d~~~~~~~~~~~~Gad~i~vh~~~   86 (206)
T TIGR03128         8 LLDIEEALELAEK-VADYVDIIEIGTPLIKNEGIEAVKEMKEAFPDRKVLADLKTMDAGEYEAEQAFAAGADIVTVLGVA   86 (206)
T ss_pred             CCCHHHHHHHHHH-cccCeeEEEeCCHHHHHhCHHHHHHHHHHCCCCEEEEEEeeccchHHHHHHHHHcCCCEEEEeccC


Q ss_pred             HHHHHHHHHHHHhcC
Q 048318          131 VDKILPLMEDLMKNN  145 (145)
Q Consensus       131 ~~~L~~~i~~~~~~~  145 (145)
                      .......+-+..+++
T Consensus        87 ~~~~~~~~i~~~~~~  101 (206)
T TIGR03128        87 DDATIKGAVKAAKKH  101 (206)
T ss_pred             CHHHHHHHHHHHHHc

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=80.26  E-value=18  Score=25.54  Aligned_cols=67  Identities=10%  Similarity=0.113  Sum_probs=49.2

Q ss_pred             HHHHHHHHHcCCCccEEEEecCCCC---CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           58 GKEAVDLFRSGAKFDIVFIDKEMPV---MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        58 ~~~al~~~~~~~~~dlvl~d~~~~~---~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      ..+.++.+.. ..-.+++.|++-.+   ....++++.+.+. ..+|+++-+.-.+.+....++..|++..+.
T Consensus       148 ~~~~~~~~~~-~~~~li~~di~~~G~~~g~~~~~~~~i~~~-~~ipvi~~GGi~s~edi~~l~~~G~~~viv  217 (233)
T cd04723         148 PEELLRRLAK-WPEELIVLDIDRVGSGQGPDLELLERLAAR-ADIPVIAAGGVRSVEDLELLKKLGASGALV  217 (233)
T ss_pred             HHHHHHHHHH-hCCeEEEEEcCccccCCCcCHHHHHHHHHh-cCCCEEEeCCCCCHHHHHHHHHcCCCEEEE
Confidence            5666666665 42348889986543   2346777777764 478998888888999999999999998874

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

>PF02572 CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; InterPro: IPR003724 ATP:cob(I)alamin (or ATP:corrinoid) adenosyltransferases (2

Probab=80.16  E-value=14  Score=25.04  Aligned_cols=46  Identities=17%  Similarity=0.266  Sum_probs=26.4

Q ss_pred             CCccEEEEecCC-----CCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHH
Q 048318           69 AKFDIVFIDKEM-----PVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREA  115 (145)
Q Consensus        69 ~~~dlvl~d~~~-----~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~  115 (145)
                      ..||+|++|--+     .=.+.-++++.+..+++.+-+| +|....+....+
T Consensus        95 ~~~dlvILDEi~~a~~~gll~~~~v~~~l~~rp~~~evV-lTGR~~~~~l~e  145 (172)
T PF02572_consen   95 GEYDLVILDEINYAVDYGLLSEEEVLDLLENRPESLEVV-LTGRNAPEELIE  145 (172)
T ss_dssp             TT-SEEEEETHHHHHHTTSS-HHHHHHHHHTS-TT-EEE-EE-SS--HHHHH
T ss_pred             CCCCEEEEcchHHHhHCCCccHHHHHHHHHcCCCCeEEE-EECCCCCHHHHH
Confidence            479999999532     2246778888888777777776 566655544443

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.

>PF05582 Peptidase_U57: YabG peptidase U57; InterPro: IPR008764 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=80.14  E-value=21  Score=26.22  Aligned_cols=98  Identities=16%  Similarity=0.136  Sum_probs=58.2

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEE--EEcCHH---HHHHHHHcCCCccEEEEecCC---------CCC----CH
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVE--VAENGK---EAVDLFRSGAKFDIVFIDKEM---------PVM----NG   85 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~--~~~~~~---~al~~~~~~~~~dlvl~d~~~---------~~~----~~   85 (145)
                      ++=+||-+|.|+.........-++.|..+.  ++...+   ...+++.. ..||++++==+-         .+.    +.
T Consensus       104 ~PGkVLHlDGD~~YL~~Cl~~Ykql~i~a~G~~~~E~eqp~~i~~Ll~~-~~PDIlViTGHD~~~K~~~d~~dl~~YrnS  182 (287)
T PF05582_consen  104 RPGKVLHLDGDEEYLNKCLKVYKQLGIPAVGIHVPEKEQPEKIYRLLEE-YRPDILVITGHDGYLKNKKDYSDLNNYRNS  182 (287)
T ss_pred             CCCeEEEecCCHHHHHHHHHHHHHcCCceEEEEechHHhhHHHHHHHHH-cCCCEEEEeCchhhhcCCCChhhhhhhhcc
Confidence            344799999999999988888888886655  343333   34455555 689987763211         111    23


Q ss_pred             HHHHHHHH---hcCCcc-eEEEEeCCCCHHHHHHHHHhCCce
Q 048318           86 IEATREIR---SMGIKI-KIVGVTSLNSEAEREAFMQAGLDL  123 (145)
Q Consensus        86 ~~~~~~l~---~~~~~~-~iv~l~~~~~~~~~~~~~~~g~~~  123 (145)
                      -.|++..+   +..|+. -+|++++-+ .+.-+..+++||+.
T Consensus       183 kyFVeaV~~aR~~ep~~D~LVIfAGAC-QS~fEall~AGANF  223 (287)
T PF05582_consen  183 KYFVEAVKEARKYEPNLDDLVIFAGAC-QSHFEALLEAGANF  223 (287)
T ss_pred             HHHHHHHHHHHhcCCCcccEEEEcchh-HHHHHHHHHcCccc
Confidence            34444443   323322 334444443 44566788999864

Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belong to MEROPS peptidase family U57 (clan U-). The type example is the YabG protein of Bacillus subtilis. This is a protease involved in the synthesis and maturation of the spore coat proteins SpoIVA and YrbA of B. subtilis [].

>PLN02778 3,5-epimerase/4-reductase

Probab=80.07  E-value=13  Score=27.09  Aligned_cols=55  Identities=18%  Similarity=0.124  Sum_probs=39.1

Q ss_pred             cccCCceEEEEeCcHHHHHHHHHHHHHcCCeEEEE----cCHHHHHHHHHcCCCccEEEE
Q 048318           21 AKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVA----ENGKEAVDLFRSGAKFDIVFI   76 (145)
Q Consensus        21 ~~~~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~----~~~~~al~~~~~~~~~dlvl~   76 (145)
                      ...+.++|||.+....+-..+...|...|++|+..    .+.+.....+.. ..||.|+-
T Consensus         5 ~~~~~~kiLVtG~tGfiG~~l~~~L~~~g~~V~~~~~~~~~~~~v~~~l~~-~~~D~ViH   63 (298)
T PLN02778          5 AGSATLKFLIYGKTGWIGGLLGKLCQEQGIDFHYGSGRLENRASLEADIDA-VKPTHVFN   63 (298)
T ss_pred             CCCCCCeEEEECCCCHHHHHHHHHHHhCCCEEEEecCccCCHHHHHHHHHh-cCCCEEEE
Confidence            34456789999999999999999999899988632    233333333433 46899883

>PRK07114 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=80.02  E-value=18  Score=25.51  Aligned_cols=72  Identities=17%  Similarity=0.100  Sum_probs=33.8

Q ss_pred             EEEEcCHHHHHHHHHc--CCCccEEEEecCCCCCCHHHHHHHHHh----cCCcceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           52 VEVAENGKEAVDLFRS--GAKFDIVFIDKEMPVMNGIEATREIRS----MGIKIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        52 v~~~~~~~~al~~~~~--~~~~dlvl~d~~~~~~~~~~~~~~l~~----~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      +....+.+++++..+.  .....  .+++.+...+..+.++.+++    ..|++ +|=...-.+.+....+.++|++.++
T Consensus        20 Vvr~~~~~~a~~~~~al~~gGi~--~iEiT~~tp~a~~~i~~l~~~~~~~~p~~-~vGaGTVl~~e~a~~a~~aGA~FiV   96 (222)
T PRK07114         20 VFYHADVEVAKKVIKACYDGGAR--VFEFTNRGDFAHEVFAELVKYAAKELPGM-ILGVGSIVDAATAALYIQLGANFIV   96 (222)
T ss_pred             EEEcCCHHHHHHHHHHHHHCCCC--EEEEeCCCCcHHHHHHHHHHHHHhhCCCe-EEeeEeCcCHHHHHHHHHcCCCEEE
Confidence            4455555555554321  01222  34444444456666665542    12221 1222333466666667777776554


Q ss_pred             c
Q 048318          126 T  126 (145)
Q Consensus       126 ~  126 (145)
                      .
T Consensus        97 s   97 (222)
T PRK07114         97 T   97 (222)
T ss_pred             C
Confidence            3

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	145
2ayz_A	133	Solution Structure Of The E.Coli Rcsc C-Terminus (R		6e-14
2ayx_A	254	Solution Structure Of The E.Coli Rcsc C-Terminus (R		8e-14
3mm4_A	206	Crystal Structure Of The Receiver Domain Of The His		5e-11
3r0j_A	250	Structure Of Phop From Mycobacterium Tuberculosis L		9e-09
3a0u_A	116	Crystal Structure Of Response Regulator Protein Trr		9e-09
3a0r_B	116	Crystal Structure Of Histidine Kinase Thka (Tm1359)		5e-08
1ab5_A	125	Structure Of Chey Mutant F14n, V21t Length = 125		5e-08
2zwm_A	130	Crystal Structure Of Yycf Receiver Domain From Baci		6e-08
2pkx_A	121	E.Coli Response Regulator Phop Receiver Domain Leng		6e-08
3f6p_A	120	Crystal Structure Of Unphosphorelated Receiver Doma		7e-08
3tmy_A	120	Chey From Thermotoga Maritima (Mn-Iii) Length = 120		1e-07
1u0s_Y	118	Chemotaxis Kinase Chea P2 Domain In Complex With Re		1e-07
1ab6_A	125	Structure Of Chey Mutant F14n, V86t Length = 125		1e-07
3to5_A	134	High Resolution Structure Of Chey3 From Vibrio Chol		2e-07
3olx_A	129	Structural And Functional Effects Of Substitution A		2e-07
3f7n_A	128	Crystal Structure Of Chey Triple Mutant F14e, N59m,		2e-07
5chy_A	128	Structure Of Chemotaxis Protein Chey Length = 128		3e-07
3c97_A	140	Crystal Structure Of The Response Regulator Receive		4e-07
3olw_A	129	Structural And Functional Effects Of Substitution A		4e-07
3fft_A	128	Crystal Structure Of Chey Double Mutant F14e, E89r		4e-07
3oo0_A	129	Structure Of Apo Chey A113p Length = 129		4e-07
1udr_A	129	Chey Mutant With Lys 91 Replaced By Asp, Lys 92 Rep		4e-07
1d4z_A	128	Crystal Structure Of Chey-95iv, A Hyperactive Chey		4e-07
1eay_A	128	Chey-Binding (P2) Domain Of Chea In Complex With Ch		4e-07
1mih_A	129	A Role For Chey Glu 89 In Chez-Mediated Dephosphory		4e-07
3myy_A	128	Structure Of E. Coli Chey Mutant A113p Bound To Ber		4e-07
1cey_A	128	Assignments, Secondary Structure, Global Fold, And		4e-07
3ffx_A	128	Crystal Structure Of Chey Triple Mutant F14e, N59r,		4e-07
1djm_A	129	Solution Structure Of Bef3-Activated Chey From Esch		4e-07
1cye_A	129	Three Dimensional Structure Of Chemotactic Che Y Pr		4e-07
3ffw_A	128	Crystal Structure Of Chey Triple Mutant F14q, N59k,		5e-07
1mvo_A	136	Crystal Structure Of The Phop Receiver Domain From		6e-07
3gwg_A	129	Crystal Structure Of Chey Of Helicobacter Pylori Le		6e-07
3rvj_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		6e-07
3h1g_A	129	Crystal Structure Of Chey Mutant T84a Of Helicobact		7e-07
3fgz_A	128	Crystal Structure Of Chey Triple Mutant F14e, N59m,		8e-07
6chy_A	128	Structure Of Chemotaxis Protein Chey Length = 128		8e-07
1ymv_A	129	Signal Transduction Protein Chey Mutant With Phe 14		8e-07
4euk_A	153	Crystal Structure Length = 153		8e-07
3rvp_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		9e-07
3oly_A	129	Structural And Functional Effects Of Substitution A		1e-06
3olv_A	129	Structural And Functional Effects Of Substitution A		1e-06
1vlz_A	128	Uncoupled Phosphorylation And Activation In Bacteri		1e-06
3rvn_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		1e-06
3rvl_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		1e-06
1jbe_A	128	1.08 A Structure Of Apo-Chey Reveals Meta-Active Co		1e-06
1ymu_A	130	Signal Transduction Protein Chey Mutant With Met 17		1e-06
1nxo_A	120	Micarec Ph7.0 Length = 120		2e-06
1j56_A	124	Minimized Average Structure Of Beryllofluoride-Acti		2e-06
1krw_A	124	Solution Structure And Backbone Dynamics Of Beryllo		2e-06
2chy_A	128	Three-Dimensional Structure Of Chey, The Response R		2e-06
1dc7_A	124	Structure Of A Transiently Phosphorylated "switch"		2e-06
2fka_A	129	Crystal Structure Of Mg(2+) And Bef(3)(-)-Bound Che		2e-06
2che_A	128	Structure Of The Mg2+-Bound Form Of Chey And Mechan		2e-06
1ehc_A	128	Structure Of Signal Transduction Protein Chey Lengt		3e-06
4e7o_A	150	Crystal Structure Of Receiver Domain Of Putative Na		3e-06
1zdm_A	129	Crystal Structure Of Activated Chey Bound To Xe Len		3e-06
1c4w_A	128	1.9 A Structure Of A-Thiophosphonate Modified Chey		3e-06
1e6k_A	130	Two-Component Signal Transduction System D12a Mutan		3e-06
1e6m_A	128	Two-Component Signal Transduction System D57a Mutan		4e-06
1e6l_A	127	Two-Component Signal Transduction System D13a Mutan		4e-06
3h1f_A	129	Crystal Structure Of Chey Mutant D53a Of Helicobact		5e-06
2id9_A	128	1.85 A Structure Of T87iY106W PHOSPHONO-Chey Length		6e-06
2id7_A	128	1.75 A Structure Of T87i Phosphono-Chey Length = 12		9e-06
2jba_A	127	Phob Response Regulator Receiver Domain Constitutiv		1e-05
1nxt_A	120	Micarec Ph 4.0 Length = 120		1e-05
1dc8_A	124	Structure Of A Transiently Phosphorylated "switch"		1e-05
2oqr_A	230	The Structure Of The Response Regulator Regx3 From		2e-05
1kgs_A	225	Crystal Structure At 1.50 A Of An OmprPHOB HOMOLOG		2e-05
1s8n_A	205	Crystal Structure Of Rv1626 From Mycobacterium Tube		3e-05
2jvi_A	132	Nmr Solution Structure Of The Hyper-Sporulation Res		3e-05
3nhz_A	125	Structure Of N-Terminal Domain Of Mtra Length = 125		3e-05
1oxb_B	134	Complex Between Ypd1 And Sln1 Response Regulator Do		3e-05
3nnn_A	122	Bef3 Activated Drrd Receiver Domain Length = 122		3e-05
3kyj_B	145	Crystal Structure Of The P1 Domain Of Chea3 In Comp		3e-05
2jba_B	127	Phob Response Regulator Receiver Domain Constitutiv		3e-05
2r25_B	133	Complex Of Ypd1 And Sln1-R1 With Bound Mg2+ And Bef		3e-05
1zy2_A	150	Crystal Structure Of The Phosphorylated Receiver Do		3e-05
2jvj_A	132	Nmr Solution Structure Of The Hyper-Sporulation Res		3e-05
2jvk_A	132	Nmr Solution Structure Of The Hyper-Sporulation Res		4e-05
1srr_A	124	Crystal Structure Of A Phosphatase Resistant Mutant		5e-05
3q15_C	126	Crystal Structure Of Raph Complexed With Spo0f Leng		5e-05
3dge_C	122	Structure Of A Histidine Kinase-response Regulator		5e-05
1pux_A	124	Nmr Solution Structure Of Bef3-Activated Spo0f, 20		5e-05
1f51_E	119	A Transient Interaction Between Two Phosphorelay Pr		6e-05
3lte_A	132	Crystal Structure Of Response Regulator (Signal Rec		6e-05
1b00_A	127	Phob Receiver Domain From Escherichia Coli Length =		7e-05
1zes_A	125	Bef3- Activated Phob Receiver Domain Length = 125		8e-05
1ys6_A	233	Crystal Structure Of The Response Regulatory Protei		9e-05
3m6m_D	143	Crystal Structure Of Rpff Complexed With Rec Domain		9e-05
3eod_A	130	Crystal Structure Of N-Terminal Domain Of E. Coli R		9e-05
1hey_A	128	Investigating The Structural Determinants Of The P2		9e-05
3kyi_B	145	Crystal Structure Of The Phosphorylated P1 Domain O		1e-04
3eq2_A	394	Structure Of Hexagonal Crystal Form Of Pseudomonas		1e-04
3f7a_A	394	Structure Of Orthorhombic Crystal Form Of Pseudomon		1e-04
3cwo_X	237	A BetaALPHA-Barrel Built By The Combination Of Frag		3e-04
2lle_A	234	Computational Design Of An Eight-Stranded (BetaALPH		3e-04
1zh2_A	121	Crystal Structure Of The Calcium-Bound Receiver Dom		3e-04
2ftk_E	124	Berylloflouride Spo0f Complex With Spo0b Length = 1		3e-04
3gl9_A	122	The Structure Of A Histidine Kinase-Response Regula		4e-04
3t8y_A	164	Crystal Structure Of The Response Regulator Domain		4e-04
3cg4_A	142	Crystal Structure Of Response Regulator Receiver Do		4e-04
1m5t_A	124	Crystal Structure Of The Response Regulator Divk Le		5e-04

>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 = 72.8 bits (177), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 38/114 (33%), Positives = 68/114 (59%), Gaps = 1/114 (0%)
Query: 21  AKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEM 80
           + N  +  LVVDD    R + +  L SLG++ + A +G +A+++  S    DIV  D  M
Sbjct: 4   SDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVL-SKNHIDIVLSDVNM 62
Query: 81  PVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKI 134
           P M+G   T+ IR +G+ + ++GVT+     E++  +++G+D C +KP+++D I
Sbjct: 63  PNMDGYRLTQRIRQLGLTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVI 116

>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 = 72.4 bits (176), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 38/114 (33%), Positives = 68/114 (59%), Gaps = 1/114 (0%)
Query: 21  AKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEM 80
           + N  +  LVVDD    R + +  L SLG++ + A +G +A+++  S    DIV  D  M
Sbjct: 125 SDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVL-SKNHIDIVLSDVNM 183
Query: 81  PVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKI 134
           P M+G   T+ IR +G+ + ++GVT+     E++  +++G+D C +KP+++D I
Sbjct: 184 PNMDGYRLTQRIRQLGLTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVI 237

>pdb|3MM4|A Chain A, Crystal Structure Of The Receiver Domain Of The Histidine Kinase Cki1 From Arabidopsis Thaliana Length = 206

Iteration: 1
 Score = 63.2 bits (152), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 44/113 (38%), Positives = 63/113 (55%), Gaps = 20/113 (17%)
Query: 29  LVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGA------------KFDIVF 75
           LVVDD+   R + +  LK +G  +VE  ++GKEA+ L   G              FD +F
Sbjct: 65  LVVDDNFISRKVATGKLKKMGVSEVEQCDSGKEALRLVTEGLTQREEQGSVDKLPFDYIF 124
Query: 76  IDKEMPVMNGIEATREIR----SMGIKIKIVGVTSLN--SEAEREAFMQAGLD 122
           +D +MP M+G EATREIR    S G++  I+ V+  +  SE  RE  +QAG+D
Sbjct: 125 MDCQMPEMDGYEATREIRKVEKSYGVRTPIIAVSGHDPGSEEARET-IQAGMD 176

>pdb|3R0J|A Chain A, Structure Of Phop From Mycobacterium Tuberculosis Length = 250

Iteration: 1
 Score = 55.8 bits (133), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 39/138 (28%), Positives = 73/138 (52%), Gaps = 14/138 (10%)
Query: 6   GESSSKKAKIMENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLF 65
           GE+++ +A++             LVVDD+  I  + S++LK  GF+V  A NG +A+D  
Sbjct: 17  GENTTPEARV-------------LVVDDEANIVELLSVSLKFQGFEVYTATNGAQALDRA 63
Query: 66  RSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCH 125
           R   + D V +D   P  +G    R +R+ GI    + +T+ +S  ++ A +  G D   
Sbjct: 64  RE-TRPDAVILDVXXPGXDGFGVLRRLRADGIDAPALFLTARDSLQDKIAGLTLGGDDYV 122
Query: 126 TKPLSVDKILPLMEDLMK 143
           TKP S+++++  +  +++
Sbjct: 123 TKPFSLEEVVARLRVILR 140

>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 = 55.8 bits (133), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 32/80 (40%), Positives = 51/80 (63%), Gaps = 1/80 (1%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDD+  IR +    L+  G++++ AENG+EA+  F SG  +D+V +D EMP ++G+E 
Sbjct: 5   LVVDDEPNIRELLKEELQEEGYEIDTAENGEEALKKFFSG-NYDLVILDIEMPGISGLEV 63
Query: 89  TREIRSMGIKIKIVGVTSLN 108
             EIR      KI+ +T+ +
Sbjct: 64  AGEIRKKKKDAKIILLTAYS 83

>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 = 53.1 bits (126), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 31/80 (38%), Positives = 50/80 (62%), Gaps = 1/80 (1%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDD+  IR +    L+  G++++ AENG+EA+  F SG  +D+V +D E P ++G+E 
Sbjct: 5   LVVDDEPNIRELLKEELQEEGYEIDTAENGEEALKKFFSG-NYDLVILDIEXPGISGLEV 63
Query: 89  TREIRSMGIKIKIVGVTSLN 108
             EIR      KI+ +T+ +
Sbjct: 64  AGEIRKKKKDAKIILLTAYS 83

>pdb|1AB5|A Chain A, Structure Of Chey Mutant F14n, V21t Length = 125

Iteration: 1
 Score = 53.1 bits (126), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 39/106 (36%), Positives = 59/106 (55%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD+  +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 5   LVVDDNSTMRRITRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 63
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 64  LLKTIRADG-AMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 108

>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 = 34/107 (31%), Positives = 60/107 (56%), Gaps = 2/107 (1%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDD+  I  I    L+  G++V  A +G EAV++     + D++ +D  +P  +G+E 
Sbjct: 6   LVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMVEE-LQPDLILLDIMLPNKDGVEV 64
Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
            RE+R     + I+ +T+ +SE ++   ++ G D   TKP S  ++L
Sbjct: 65  CREVRK-KYDMPIIMLTAKDSEIDKVIGLEIGADDYVTKPFSTRELL 110

>pdb|2PKX|A Chain A, E.Coli Response Regulator Phop Receiver Domain Length = 121

Iteration: 1
 Score = 52.8 bits (125), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 32/117 (27%), Positives = 61/117 (52%), Gaps = 1/117 (0%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVV+D+  +R    + ++  G +V+ AE+ KEA D + +    DI  +D  +P  +G+  
Sbjct: 4   LVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEA-DYYLNEHIPDIAIVDLGLPDEDGLSL 62
Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN 145
            R  RS  + + I+ +T+  S  ++   + AG D   TKP  ++++    + L + N
Sbjct: 63  IRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVXARXQALXRRN 119

>pdb|3F6P|A Chain A, Crystal Structure Of Unphosphorelated Receiver Domain Of Yycf Length = 120

Iteration: 1
 Score = 52.8 bits (125), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 34/107 (31%), Positives = 60/107 (56%), Gaps = 2/107 (1%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDD+  I  I    L+  G++V  A +G EAV++     + D++ +D  +P  +G+E 
Sbjct: 6   LVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMVEE-LQPDLILLDIMLPNKDGVEV 64
Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
            RE+R     + I+ +T+ +SE ++   ++ G D   TKP S  ++L
Sbjct: 65  CREVRK-KYDMPIIMLTAKDSEIDKVIGLEIGADDYVTKPFSTRELL 110

>pdb|3TMY|A Chain A, Chey From Thermotoga Maritima (Mn-Iii) Length = 120

Iteration: 1
 Score = 52.0 bits (123), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 35/108 (32%), Positives = 59/108 (54%), Gaps = 2/108 (1%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           L+VDD  F+R +    +   G++V   A NG+EAV+ ++   K DIV +D  MP MNGI+
Sbjct: 6   LIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKE-LKPDIVTMDITMPEMNGID 64
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
           A +EI  +    KI+  +++  +A     ++AG      KP    +++
Sbjct: 65  AIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVV 112

>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 = 52.0 bits (123), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 35/108 (32%), Positives = 59/108 (54%), Gaps = 2/108 (1%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           L+VDD  F+R +    +   G++V   A NG+EAV+ ++   K DIV +D  MP MNGI+
Sbjct: 5   LIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKE-LKPDIVTMDITMPEMNGID 63
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
           A +EI  +    KI+  +++  +A     ++AG      KP    +++
Sbjct: 64  AIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVV 111

>pdb|1AB6|A Chain A, Structure Of Chey Mutant F14n, V86t Length = 125

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 39/106 (36%), Positives = 58/106 (54%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD+  +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 5   LVVDDNSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 63
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V    +EA++E   A  QAG      KP +
Sbjct: 64  LLKTIRADG-AMSALPVLMTTAEAKKENIIAAAQAGASGYVVKPFT 108

>pdb|3TO5|A Chain A, High Resolution Structure Of Chey3 From Vibrio Cholerae Length = 134

Iteration: 1
 Score = 51.6 bits (122), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 40/122 (32%), Positives = 67/122 (54%), Gaps = 8/122 (6%)
Query: 13  AKIMENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKF 71
           + +ME    KN+++  L+VDD   +R I    L+ LGF   + A++G  A+ + + G  F
Sbjct: 2   SHMMEAILNKNMKI--LIVDDFSTMRRIVKNLLRDLGFNNTQEADDGLTALPMLKKG-DF 58
Query: 72  DIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFM---QAGLDLCHTKP 128
           D V  D  MP M GI+  + IR+   ++K + V  + +EA+RE  +   QAG++    KP
Sbjct: 59  DFVVTDWNMPGMQGIDLLKNIRA-DEELKHLPVLMITAEAKREQIIEAAQAGVNGYIVKP 117
Query: 129 LS 130
            +
Sbjct: 118 FT 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 = 51.2 bits (121), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 40/106 (37%), Positives = 58/106 (54%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 67
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + SEA++E   A  QAG      KP +
Sbjct: 68  LLKTIRADG-AMSALPVLMVTSEAKKENIIAAAQAGASGYVVKPFT 112

>pdb|3F7N|A Chain A, Crystal Structure Of Chey Triple Mutant F14e, N59m, E89l Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 38/105 (36%), Positives = 57/105 (54%), Gaps = 4/105 (3%)
Query: 29  LVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD+  +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 8   LVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWMMPNMDGLE 66
Query: 88  ATREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
             + IR+ G    + ++ VT+L  +    A  QAG      KP +
Sbjct: 67  LLKTIRADGAMSALPVLMVTALAKKENIIAAAQAGASGYVVKPFT 111

>pdb|5CHY|A Chain A, Structure Of Chemotaxis Protein Chey Length = 128

Iteration: 1
 Score = 50.8 bits (120), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 39/106 (36%), Positives = 58/106 (54%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 67  LLKTIRADG-AMSALPVLMVTAEAKKENIIAAAQAGASGWVVKPFT 111

>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 = 50.4 bits (119), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 32/114 (28%), Positives = 63/114 (55%), Gaps = 9/114 (7%)
Query: 26  LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNG 85
           L  L+ +D+   R + + AL+     + V  NG +A+  +++  +FD++ +D +MPVM+G
Sbjct: 11  LSVLIAEDNDICRLVAAKALEKCTNDITVVTNGLQALQAYQN-RQFDVIIMDIQMPVMDG 69
Query: 86  IEATREIRSM-----GIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKI 134
           +EA  EIR+        +  I+ +T+   + +R     A LD   +KPL+ +++
Sbjct: 70  LEAVSEIRNYERTHNTKRASIIAITADTIDDDRPG---AELDEYVSKPLNPNQL 120

>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 = 50.4 bits (119), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 39/106 (36%), Positives = 58/106 (54%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 67
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 68  LLKTIRADG-AMSALPVLMVTTEAKKENIIAAAQAGASGYVVKPFT 112

>pdb|3FFT|A Chain A, Crystal Structure Of Chey Double Mutant F14e, E89r Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 50.4 bits (119), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 38/106 (35%), Positives = 58/106 (54%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD+  +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 8   LVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + + A++E   A  QAG      KP +
Sbjct: 67  LLKTIRADG-AMSALPVLMVTARAKKENIIAAAQAGASGYVVKPFT 111

>pdb|3OO0|A Chain A, Structure Of Apo Chey A113p Length = 129

Iteration: 1
 Score = 50.1 bits (118), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 39/106 (36%), Positives = 58/106 (54%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 67
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 68  LLKTIRADG-AMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 112

>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 = 50.1 bits (118), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 39/106 (36%), Positives = 57/106 (53%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 67
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA+ E   A  QAG      KP +
Sbjct: 68  LLKTIRADG-AMSALPVLMVTAEADAENIKALAQAGASGYVVKPFT 112

>pdb|1D4Z|A Chain A, Crystal Structure Of Chey-95iv, A Hyperactive Chey Mutant Length = 128

Iteration: 1
 Score = 50.1 bits (118), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 39/106 (36%), Positives = 58/106 (54%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 67  LLKTIRADG-AMSALPVLMVTAEAKKENVIAAAQAGASGYVVKPFT 111

>pdb|1EAY|A Chain A, Chey-Binding (P2) Domain Of Chea In Complex With Chey From Escherichia Coli Length = 128

Iteration: 1
 Score = 50.1 bits (118), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 39/106 (36%), Positives = 58/106 (54%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 67  LLKTIRADG-AMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 111

>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 = 50.1 bits (118), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 39/106 (36%), Positives = 58/106 (54%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWRMPNMDGLE 67
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 68  LLKTIRADG-AMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 112

>pdb|3MYY|A Chain A, Structure Of E. Coli Chey Mutant A113p Bound To Beryllium Fluoride Length = 128

Iteration: 1
 Score = 50.1 bits (118), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 39/106 (36%), Positives = 58/106 (54%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 67  LLKTIRADG-AMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 111

>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 = 50.1 bits (118), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 39/106 (36%), Positives = 58/106 (54%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 67  LLKTIRADG-AMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 111

>pdb|3FFX|A Chain A, Crystal Structure Of Chey Triple Mutant F14e, N59r, E89h Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 50.1 bits (118), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 38/106 (35%), Positives = 58/106 (54%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD+  +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 8   LVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWRMPNMDGLE 66
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + + A++E   A  QAG      KP +
Sbjct: 67  LLKTIRADG-AMSALPVLMVTAHAKKENIIAAAQAGASGYVVKPFT 111

>pdb|1DJM|A Chain A, Solution Structure Of Bef3-Activated Chey From Escherichia Coli Length = 129

Iteration: 1
 Score = 50.1 bits (118), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 39/106 (36%), Positives = 58/106 (54%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 67
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 68  LLKTIRADG-AMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 112

>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 = 50.1 bits (118), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 39/106 (36%), Positives = 58/106 (54%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 67
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 68  LLKTIRADG-AMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 112

>pdb|3FFW|A Chain A, Crystal Structure Of Chey Triple Mutant F14q, N59k, E89y Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 50.1 bits (118), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 37/105 (35%), Positives = 56/105 (53%), Gaps = 4/105 (3%)
Query: 29  LVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D +MP M+G+E
Sbjct: 8   LVVDDQSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWKMPNMDGLE 66
Query: 88  ATREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
             + IR+ G    + ++ VT+   +    A  QAG      KP +
Sbjct: 67  LLKTIRADGAMSALPVLMVTAYAKKENIIAAAQAGASGYVVKPFT 111

>pdb|1MVO|A Chain A, Crystal Structure Of The Phop Receiver Domain From Bacillus Subtilis Length = 136

Iteration: 1
 Score = 49.7 bits (117), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 31/102 (30%), Positives = 57/102 (55%), Gaps = 1/102 (0%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDD+  I T+    L+  G+ V  A +G+EA+    +  K D++ +D  +P ++GIE 
Sbjct: 7   LVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAET-EKPDLIVLDVMLPKLDGIEV 65
Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
            +++R   +   I+ +T+ + E ++   ++ G D   TKP S
Sbjct: 66  CKQLRQQKLMFPILMLTAKDEEFDKVLGLELGADDYMTKPFS 107

>pdb|3GWG|A Chain A, Crystal Structure Of Chey Of Helicobacter Pylori Length = 129

Iteration: 1
 Score = 49.7 bits (117), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 34/105 (32%), Positives = 57/105 (54%), Gaps = 3/105 (2%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    L  LG++ V  AE+G EA +   + A   ++  D  MP MNG++
Sbjct: 9   LVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANADTKVLITDWNMPEMNGLD 68
Query: 88  ATREIRSMG--IKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
             +++RS     +I I+ +T+   +AE    ++AG++    KP +
Sbjct: 69  LVKKVRSDSRFKEIPIIMITTEGGKAEVITALKAGVNNYIVKPFT 113

>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 = 49.7 bits (117), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 38/106 (35%), Positives = 59/106 (55%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D +MP M+G+E
Sbjct: 12  LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWDMPNMDGLE 70
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + ++A++E   A  QAG      KP +
Sbjct: 71  LLKTIRADG-AMSALPVLMVTAQAKKENIIAAAQAGASGYVVKPFT 115

>pdb|3H1G|A Chain A, Crystal Structure Of Chey Mutant T84a Of Helicobacter Pylori Length = 129

Iteration: 1
 Score = 49.7 bits (117), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 34/105 (32%), Positives = 57/105 (54%), Gaps = 3/105 (2%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    L  LG++ V  AE+G EA +   + A   ++  D  MP MNG++
Sbjct: 9   LVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANADTKVLITDWNMPEMNGLD 68
Query: 88  ATREIRSMG--IKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
             +++RS     +I I+ +T+   +AE    ++AG++    KP +
Sbjct: 69  LVKKVRSDSRFKEIPIIMITAEGGKAEVITALKAGVNNYIVKPFT 113

>pdb|3FGZ|A Chain A, Crystal Structure Of Chey Triple Mutant F14e, N59m, E89r Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 49.3 bits (116), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 38/106 (35%), Positives = 58/106 (54%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD+  +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 8   LVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWMMPNMDGLE 66
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + + A++E   A  QAG      KP +
Sbjct: 67  LLKTIRADG-AMSALPVLMVTARAKKENIIAAAQAGASGYVVKPFT 111

>pdb|6CHY|A Chain A, Structure Of Chemotaxis Protein Chey Length = 128

Iteration: 1
 Score = 49.3 bits (116), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 39/106 (36%), Positives = 58/106 (54%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 67  LLKTIRADG-AMSALPVLMVIAEAKKENIIAAAQAGASGWVVKPFT 111

>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 = 49.3 bits (116), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 39/106 (36%), Positives = 57/106 (53%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD    R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 9   LVVDDGGTGRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 67
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 68  LLKTIRADG-AMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 112

>pdb|4EUK|A Chain A, Crystal Structure Length = 153

Iteration: 1
 Score = 49.3 bits (116), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 28/66 (42%), Positives = 42/66 (63%), Gaps = 2/66 (3%)
Query: 29 LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
          LV D+   I    SM +K LG  +++A NG EA+    S + +D+V +D  MPV++G++A
Sbjct: 13 LVEDNKINIMVAKSM-MKQLGHTMDIANNGVEAITAINSSS-YDLVLMDVCMPVLDGLKA 70
Query: 89 TREIRS 94
          TR IRS
Sbjct: 71 TRLIRS 76

>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 = 48.9 bits (115), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 38/106 (35%), Positives = 59/106 (55%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D +MP M+G+E
Sbjct: 12  LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWDMPNMDGLE 70
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + ++A++E   A  QAG      KP +
Sbjct: 71  LLKTIRADG-AMSALPVLMVTAKAKKENIIAAAQAGASGYVVKPFT 115

>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 = 48.9 bits (115), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 39/106 (36%), Positives = 57/106 (53%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 67
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  +  EA++E   A  QAG      KP +
Sbjct: 68  LLKTIRADG-AMSALPVLMVTMEAKKENIIAAAQAGASGYVVKPFT 112

>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 = 48.9 bits (115), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 39/106 (36%), Positives = 57/106 (53%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 67
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  +  EA++E   A  QAG      KP +
Sbjct: 68  LLKTIRADG-AMSALPVLMVTVEAKKENIIAAAQAGASGYVVKPFT 112

>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 = 48.9 bits (115), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 39/106 (36%), Positives = 58/106 (54%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 67  LLKTIRADG-AMSALPVLMVIAEAKKENIIAAAQAGASGYVVKPFT 111

>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 = 48.9 bits (115), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 37/105 (35%), Positives = 56/105 (53%), Gaps = 4/105 (3%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D +MP M+G+E
Sbjct: 12  LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWDMPNMDGLE 70
Query: 88  ATREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
             + IR+ G    + ++ VT+   +    A  QAG      KP +
Sbjct: 71  LLKTIRADGAMSALPVLMVTAYAKKENIIAAAQAGASGYVVKPFT 115

>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 = 48.5 bits (114), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 38/106 (35%), Positives = 58/106 (54%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D +MP M+G+E
Sbjct: 12  LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWDMPNMDGLE 70
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + + A++E   A  QAG      KP +
Sbjct: 71  LLKTIRADG-AMSALPVLMVTARAKKENIIAAAQAGASGYVVKPFT 115

>pdb|1JBE|A Chain A, 1.08 A Structure Of Apo-Chey Reveals Meta-Active Conformation Length = 128

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 38/106 (35%), Positives = 57/106 (53%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+    +  + V  + +EA++E   A  QAG      KP +
Sbjct: 67  LLKTIRAX-XAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 111

>pdb|1YMU|A Chain A, Signal Transduction Protein Chey Mutant With Met 17 Replaced By Gly (M17g) Length = 130

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 39/106 (36%), Positives = 57/106 (53%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD    R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 10  LVVDDFSTGRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 68
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 69  LLKTIRADG-AMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 113

>pdb|1NXO|A Chain A, Micarec Ph7.0 Length = 120

Iteration: 1
 Score = 48.1 bits (113), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 31/102 (30%), Positives = 58/102 (56%), Gaps = 2/102 (1%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDD+  I  I    +   G++V  A NG+EA++ F +  + DI+ +D  +P ++G+E 
Sbjct: 5   LIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEA-EQPDIIILDLMLPEIDGLEV 63
Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
            + IR     + I+ +++ +SE ++   ++ G D   TKP S
Sbjct: 64  AKTIRKTS-SVPILMLSAKDSEFDKVIGLELGADDYVTKPFS 104

>pdb|1J56|A Chain A, Minimized Average Structure Of Beryllofluoride-Activated Ntrc Receiver Domain: Model Structure Incorporating Active Site Contacts Length = 124

Iteration: 1
 Score = 48.1 bits (113), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 33/116 (28%), Positives = 54/116 (46%), Gaps = 3/116 (2%)
Query: 25  RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMN 84
           R    VVDDD  IR +   AL   G      ENG E +    S    D++  D  MP M+
Sbjct: 3   RGIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTP-DVLLSDIRMPGMD 61
Query: 85  GIEATREIRSMGIKIKIVGVTSLNS-EAEREAFMQAGLDLCHTKPLSVDKILPLME 139
           G+   ++I+     + ++ +T+ +  +A   A+ Q   D    KP  +D+ + L+E
Sbjct: 62  GLALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYL-PKPFDIDEAVALVE 116

>pdb|1KRW|A Chain A, Solution Structure And Backbone Dynamics Of Beryllofluoride- Activated Ntrc Receiver Domain Length = 124

Iteration: 1
 Score = 48.1 bits (113), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 33/116 (28%), Positives = 54/116 (46%), Gaps = 3/116 (2%)
Query: 25  RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMN 84
           R    VVDDD  IR +   AL   G      ENG E +    S    D++  D  MP M+
Sbjct: 3   RGIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTP-DVLLSDIRMPGMD 61
Query: 85  GIEATREIRSMGIKIKIVGVTSLNS-EAEREAFMQAGLDLCHTKPLSVDKILPLME 139
           G+   ++I+     + ++ +T+ +  +A   A+ Q   D    KP  +D+ + L+E
Sbjct: 62  GLALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYL-PKPFDIDEAVALVE 116

>pdb|2CHY|A Chain A, Three-Dimensional Structure Of Chey, The Response Regulator Of Bacterial Chemotaxis Length = 128

Iteration: 1
 Score = 48.1 bits (113), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 38/106 (35%), Positives = 57/106 (53%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  F  +  D  MP M+G+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-FGFIICDWNMPNMDGLE 66
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+    +  + V  + +EA++E   A  QAG      KP +
Sbjct: 67  LLKTIRADS-AMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 111

>pdb|1DC7|A Chain A, Structure Of A Transiently Phosphorylated "switch" In Bacterial Signal Transduction Length = 124

Iteration: 1
 Score = 48.1 bits (113), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 33/116 (28%), Positives = 54/116 (46%), Gaps = 3/116 (2%)
Query: 25  RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMN 84
           R    VVDDD  IR +   AL   G      ENG E +    S    D++  D  MP M+
Sbjct: 3   RGIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTP-DVLLSDIRMPGMD 61
Query: 85  GIEATREIRSMGIKIKIVGVTSLNS-EAEREAFMQAGLDLCHTKPLSVDKILPLME 139
           G+   ++I+     + ++ +T+ +  +A   A+ Q   D    KP  +D+ + L+E
Sbjct: 62  GLALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYL-PKPFDIDEAVALVE 116

>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 = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 38/106 (35%), Positives = 57/106 (53%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  F  +  D  MP M+G+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-FGFIISDWNMPNMDGLE 67
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+    +  + V  + +EA++E   A  QAG      KP +
Sbjct: 68  LLKTIRA-DSAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 112

>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 = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 38/106 (35%), Positives = 57/106 (53%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  F  +  D  MP M+G+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-FGFIISDWNMPNMDGLE 66
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+    +  + V  + +EA++E   A  QAG      KP +
Sbjct: 67  LLKTIRADS-AMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 111

>pdb|1EHC|A Chain A, Structure Of Signal Transduction Protein Chey Length = 128

Iteration: 1
 Score = 47.4 bits (111), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 38/106 (35%), Positives = 57/106 (53%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVD    +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 8   LVVDKFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 67  LLKTIRADG-AMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 111

>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 = 47.4 bits (111), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 28/91 (30%), Positives = 48/91 (52%), Gaps = 1/91 (1%)
Query: 55  AENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAERE 114
           A+NG+EA+ L    +  DI  +D EMPV  G+E    IRS  ++ K+V VT+       E
Sbjct: 52  AKNGQEAIQLLEKES-VDIAILDVEMPVKTGLEVLEWIRSEKLETKVVVVTTFKRAGYFE 110
Query: 115 AFMQAGLDLCHTKPLSVDKILPLMEDLMKNN 145
             ++AG+D    K  S+  ++  +  +++  
Sbjct: 111 RAVKAGVDAYVLKERSIADLMQTLHTVLEGR 141

>pdb|1ZDM|A Chain A, Crystal Structure Of Activated Chey Bound To Xe Length = 129

Iteration: 1
 Score = 47.4 bits (111), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 38/106 (35%), Positives = 57/106 (53%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V     MP M+G+E
Sbjct: 9   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISXWNMPNMDGLE 67
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 68  LLKTIRADG-AMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 112

>pdb|1C4W|A Chain A, 1.9 A Structure Of A-Thiophosphonate Modified Chey D57c Length = 128

Iteration: 1
 Score = 47.4 bits (111), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 38/106 (35%), Positives = 57/106 (53%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V     MP M+G+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISXWNMPNMDGLE 66
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 67  LLKTIRADG-AMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 111

>pdb|1E6K|A Chain A, Two-Component Signal Transduction System D12a Mutant Of Chey Length = 130

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 38/106 (35%), Positives = 57/106 (53%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVV D   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 10  LVVADFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 68
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 69  LLKTIRADG-AMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 113

>pdb|1E6M|A Chain A, Two-Component Signal Transduction System D57a Mutant Of Chey Length = 128

Iteration: 1
 Score = 47.0 bits (110), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 38/106 (35%), Positives = 57/106 (53%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V     MP M+G+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISAWNMPNMDGLE 66
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 67  LLKTIRADG-AMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 111

>pdb|1E6L|A Chain A, Two-Component Signal Transduction System D13a Mutant Of Chey Length = 127

Iteration: 1
 Score = 47.0 bits (110), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 38/106 (35%), Positives = 57/106 (53%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVD    +R I    LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 7   LVVDAFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 65
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 66  LLKTIRADG-AMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 110

>pdb|3H1F|A Chain A, Crystal Structure Of Chey Mutant D53a Of Helicobacter Pylori Length = 129

Iteration: 1
 Score = 46.6 bits (109), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 33/105 (31%), Positives = 56/105 (53%), Gaps = 3/105 (2%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    L  LG++ V  AE+G EA +   + A   ++     MP MNG++
Sbjct: 9   LVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANADTKVLITAWNMPEMNGLD 68
Query: 88  ATREIRSMG--IKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
             +++RS     +I I+ +T+   +AE    ++AG++    KP +
Sbjct: 69  LVKKVRSDSRFKEIPIIMITTEGGKAEVITALKAGVNNYIVKPFT 113

>pdb|2ID9|A Chain A, 1.85 A Structure Of T87iY106W PHOSPHONO-Chey Length = 128

Iteration: 1
 Score = 46.2 bits (108), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 38/106 (35%), Positives = 57/106 (53%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V     MP M+G+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISXWNMPNMDGLE 66
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 67  LLKTIRADG-AMSALPVLMVIAEAKKENIIAAAQAGASGWVVKPFT 111

>pdb|2ID7|A Chain A, 1.75 A Structure Of T87i Phosphono-Chey Length = 128

Iteration: 1
 Score = 45.8 bits (107), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 38/106 (35%), Positives = 57/106 (53%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V     MP M+G+E
Sbjct: 8   LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGG-YGFVISXWNMPNMDGLE 66
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 67  LLKTIRADG-AMSALPVLMVIAEAKKENIIAAAQAGASGYVVKPFT 111

>pdb|2JBA|A Chain A, Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D53a And Y102c Length = 127

Iteration: 1
 Score = 45.4 bits (106), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 61/118 (51%), Gaps = 3/118 (2%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVV+D+  IR +    L+  GF+   AE+   AV+        D++ +   +P  +GI+ 
Sbjct: 6   LVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWP-DLILLAWMLPGGSGIQF 64
Query: 89  TREIR--SMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN 144
            + +R  SM   I +V +T+   E +R   ++ G D C TKP S  +++  ++ +M+ 
Sbjct: 65  IKHLRRESMTRDIPVVMLTARGEEEDRVRGLETGADDCITKPFSPKELVARIKAVMRR 122

>pdb|1NXT|A Chain A, Micarec Ph 4.0 Length = 120

Iteration: 1
 Score = 45.4 bits (106), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 30/102 (29%), Positives = 57/102 (55%), Gaps = 2/102 (1%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDD+  I  I    +   G++V  A NG+EA++ F +  + DI+ +   +P ++G+E 
Sbjct: 5   LIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEA-EQPDIIILXLMLPEIDGLEV 63
Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
            + IR     + I+ +++ +SE ++   ++ G D   TKP S
Sbjct: 64  AKTIRKTS-SVPILMLSAKDSEFDKVIGLELGADDYVTKPFS 104

>pdb|1DC8|A Chain A, Structure Of A Transiently Phosphorylated "switch" In Bacterial Signal Transduction Length = 124

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 32/116 (27%), Positives = 53/116 (45%), Gaps = 3/116 (2%)
Query: 25  RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMN 84
           R    VVDDD  IR +   AL   G      ENG E +    S    D++     MP M+
Sbjct: 3   RGIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTP-DVLLSXIRMPGMD 61
Query: 85  GIEATREIRSMGIKIKIVGVTSLNS-EAEREAFMQAGLDLCHTKPLSVDKILPLME 139
           G+   ++I+     + ++ +T+ +  +A   A+ Q   D    KP  +D+ + L+E
Sbjct: 62  GLALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYL-PKPFDIDEAVALVE 116

>pdb|2OQR|A Chain A, The Structure Of The Response Regulator Regx3 From Mycobacterium Tuberculosis Length = 230

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 31/118 (26%), Positives = 65/118 (55%), Gaps = 4/118 (3%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLF-RSGAKFDIVFIDKEMPVMNGIE 87
           L+V+D+  +    +  L+  GF+  V  +G  A+  F R+GA  DIV +D  +P M+G +
Sbjct: 8   LIVEDEESLADPLAFLLRKEGFEATVVTDGPAALAEFDRAGA--DIVLLDLMLPGMSGTD 65
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN 145
             +++R+    + ++ VT+ +SE ++   ++ G D   TKP S  +++  +  +++  
Sbjct: 66  VCKQLRARS-SVPVIMVTARDSEIDKVVGLELGADDYVTKPYSARELIARIRAVLRRG 122

>pdb|1KGS|A Chain A, Crystal Structure At 1.50 A Of An OmprPHOB HOMOLOG FROM THERMOTOGA Maritima Length = 225

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 32/121 (26%), Positives = 61/121 (50%), Gaps = 3/121 (2%)
Query: 23  NLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPV 82
           N+R+  LVV+D+  +  + + ALK   F V+V  +G+E          FD+V +D  +PV
Sbjct: 2   NVRV--LVVEDERDLADLITEALKKEXFTVDVCYDGEEGX-YXALNEPFDVVILDIXLPV 58
Query: 83  MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM 142
            +G E  +  R  G+   ++ +T+L+    R   +  G D    KP  + +++  +  L+
Sbjct: 59  HDGWEILKSXRESGVNTPVLXLTALSDVEYRVKGLNXGADDYLPKPFDLRELIARVRALI 118
Query: 143 K 143
           +
Sbjct: 119 R 119

>pdb|1S8N|A Chain A, Crystal Structure Of Rv1626 From Mycobacterium Tuberculosis Length = 205

Iteration: 1
 Score = 44.3 bits (103), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 37/112 (33%), Positives = 59/112 (52%), Gaps = 3/112 (2%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           L+ +D+  IR   +  L+  G++ V  A +G+EAV+L     K D+V +D +MP  +GI+
Sbjct: 17  LIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAELH-KPDLVIMDVKMPRRDGID 75
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLME 139
           A  EI S  I   IV +T+ +     E    AG      KP S+  ++P +E
Sbjct: 76  AASEIASKRIA-PIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIE 126

>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 = 44.3 bits (103), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 27/106 (25%), Positives = 55/106 (51%), Gaps = 1/106 (0%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDD   IR + +      G++   A NG +A+D+  +  + D+V +D ++P M+GIE 
Sbjct: 7   LIVDDQYGIRILLNEVFNKEGYQTFQAANGLQALDIV-TKERPDLVLLDMKIPGMDGIEI 65
Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKI 134
            + ++ +   I+++ +T+       +   + G      KP  +D+I
Sbjct: 66  LKRMKVIDENIRVIIMTAYGELDMIQESKELGALTAFAKPFDIDEI 111

>pdb|3NHZ|A Chain A, Structure Of N-Terminal Domain Of Mtra Length = 125

Iteration: 1
 Score = 44.3 bits (103), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 31/106 (29%), Positives = 54/106 (50%), Gaps = 2/106 (1%)
Query: 23  NLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPV 82
            +R   LVVDDD  +  + ++ L+  GF   V  +G +A+   R   + D+V +D  +P 
Sbjct: 3   TMRQRILVVDDDASLAEMLTIVLRGEGFDTAVIGDGTQALTAVRE-LRPDLVLLDLMLPG 61
Query: 83  MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKP 128
           MNGI+  R +R+    + IV +T+     +    +++G D    KP
Sbjct: 62  MNGIDVCRVLRADS-GVPIVMLTAKTDTVDVVLGLESGADDYIMKP 106

>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 = 44.3 bits (103), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 30/119 (25%), Positives = 67/119 (56%), Gaps = 6/119 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVD----LFRSGAKFDIVFIDKEMPVM 83
           LVV+D+   + +    L   G + +E+A +G+EA D    L   G  ++++F+D +MP +
Sbjct: 5   LVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGENYNMIFMDVQMPKV 64
Query: 84  NGIEATREI-RSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL 141
           +G+ +T+ I R +G    IV +T+   ++  +  +++G++   +KP+   K+  ++ + 
Sbjct: 65  DGLLSTKMIRRDLGYTSPIVALTAFADDSNIKECLESGMNGFLSKPIKRPKLKTILTEF 123

>pdb|3NNN|A Chain A, Bef3 Activated Drrd Receiver Domain Length = 122

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 32/121 (26%), Positives = 63/121 (52%), Gaps = 3/121 (2%)
Query: 23  NLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPV 82
           N+R+  LVV+D+  +  + + ALK   F V+V  +G+E +        FD+V +D  +PV
Sbjct: 2   NVRV--LVVEDERDLADLITEALKKEMFTVDVCYDGEEGM-YMALNEPFDVVILDIMLPV 58
Query: 83  MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM 142
            +G E  + +R  G+   ++ +T+L+    R   +  G D    KP  + +++  +  L+
Sbjct: 59  HDGWEILKSMRESGVNTPVLMLTALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRALI 118
Query: 143 K 143
           +
Sbjct: 119 R 119

>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 = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 25/67 (37%), Positives = 40/67 (59%), Gaps = 2/67 (2%)
Query: 29 LVVDDDCFIRTIHSMALKSLG-FKVEV-AENGKEAVDLFRSGAKFDIVFIDKEMPVMNGI 86
          ++VDD   +R   +  +K+L  FKV   A NG+EA+D   +    D++ +D EMPVM+G+
Sbjct: 17 MIVDDAAMMRLYIASFIKTLPDFKVVAQAANGQEALDKLAAQPNVDLILLDIEMPVMDGM 76
Query: 87 EATREIR 93
          E  R  +
Sbjct: 77 EFLRHAK 83

>pdb|2JBA|B Chain B, Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D53a And Y102c Length = 127

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 32/118 (27%), Positives = 61/118 (51%), Gaps = 3/118 (2%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVV+D+  IR +    L+  GF+   AE+   AV+        D++ +   +P  +GI+ 
Sbjct: 6   LVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWP-DLILLAWMLPGGSGIQF 64
Query: 89  TREIR--SMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN 144
            + ++  SM   I +V +T+   E +R   ++ G D C TKP S  +++  ++ +M+ 
Sbjct: 65  IKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDCITKPFSPKELVARIKAVMRR 122

>pdb|2R25|B Chain B, Complex Of Ypd1 And Sln1-R1 With Bound Mg2+ And Bef3- Length = 133

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 30/119 (25%), Positives = 67/119 (56%), Gaps = 6/119 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVD----LFRSGAKFDIVFIDKEMPVM 83
           LVV+D+   + +    L   G + +E+A +G+EA D    L   G  ++++F+D +MP +
Sbjct: 6   LVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGENYNMIFMDVQMPKV 65
Query: 84  NGIEATREI-RSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL 141
           +G+ +T+ I R +G    IV +T+   ++  +  +++G++   +KP+   K+  ++ + 
Sbjct: 66  DGLLSTKMIRRDLGYTSPIVALTAFADDSNIKECLESGMNGFLSKPIKRPKLKTILTEF 124

>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 = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 33/107 (30%), Positives = 54/107 (50%), Gaps = 3/107 (2%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LV++DD   R +    L   G KVE AE GKEA  L  S   F++V +   +P +NG+E 
Sbjct: 4   LVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLL-SEKHFNVVLLXLLLPDVNGLEI 62
Query: 89  TREIRSMGIKIKIVGVTSLNS-EAEREAFMQAGLDLCHTKPLSVDKI 134
            + I+    + +++ +T   + +   EA      D   TKP  +++I
Sbjct: 63  LKWIKERSPETEVIVITGHGTIKTAVEAMKMGAYDFL-TKPCMLEEI 108

>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 = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 27/106 (25%), Positives = 55/106 (51%), Gaps = 1/106 (0%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDD   IR + +      G++   A NG +A+D+  +  + D+V +D ++P M+GIE 
Sbjct: 7   LIVDDQYGIRILLNEVFNKEGYQTFQAANGLQALDIV-TKERPDLVLLDMKIPGMDGIEI 65
Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKI 134
            + ++ +   I+++ +T+       +   + G      KP  +D+I
Sbjct: 66  LKRMKVIDENIRVIIMTAYGELDMAQESKELGALTHFAKPFDIDEI 111

>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 = 43.5 bits (101), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 31/120 (25%), Positives = 60/120 (50%), Gaps = 8/120 (6%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDD   IR + +      G++   A NG +A+D+  +  + D+V +D ++P M+GIE 
Sbjct: 7   LIVDDQYGIRILLNEVFNKEGYQTFQAANGLQALDIV-TKERPDLVLLDMKIPGMDGIEI 65
Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKI-------LPLMEDL 141
            + ++ +   I+++ +T+       +   + G      KP  +D+I       LPL  +L
Sbjct: 66  AKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIRDAVKKYLPLKSNL 125

>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 = 43.5 bits (101), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 27/106 (25%), Positives = 55/106 (51%), Gaps = 1/106 (0%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDD   IR + +      G++   A NG +A+D+  +  + D+V +D ++P M+GIE 
Sbjct: 7   LIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIV-TKERPDLVLLDMKIPGMDGIEI 65
Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKI 134
            + ++ +   I+++ +T+       +   + G      KP  +D+I
Sbjct: 66  LKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEI 111

>pdb|3Q15|C Chain C, Crystal Structure Of Raph Complexed With Spo0f Length = 126

Iteration: 1
 Score = 43.1 bits (100), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 27/106 (25%), Positives = 55/106 (51%), Gaps = 1/106 (0%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDD   IR + +      G++   A NG +A+D+  +  + D+V +D ++P M+GIE 
Sbjct: 9   LIVDDQYGIRILLNEVFNKEGYQTFQAANGLQALDIV-TKERPDLVLLDMKIPGMDGIEI 67
Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKI 134
            + ++ +   I+++ +T+       +   + G      KP  +D+I
Sbjct: 68  LKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEI 113

>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 = 43.1 bits (100), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 31/105 (29%), Positives = 53/105 (50%), Gaps = 3/105 (2%)
Query: 28  ALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
            L+VDD   +R I S  LK  G++V  AENG+ A++   S    D++ +D  MPVM+G  
Sbjct: 5   VLLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKL-SEFTPDLIVLDIMMPVMDGFT 63
Query: 88  ATREI--RSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
             +++  +    +I ++ +T+   E +    +  G      KP S
Sbjct: 64  VLKKLQEKEEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKPFS 108

>pdb|1PUX|A Chain A, Nmr Solution Structure Of Bef3-Activated Spo0f, 20 Conformers Length = 124

Iteration: 1
 Score = 43.1 bits (100), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 27/106 (25%), Positives = 55/106 (51%), Gaps = 1/106 (0%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDD   IR + +      G++   A NG +A+D+  +  + D+V +D ++P M+GIE 
Sbjct: 7   LIVDDQYGIRILLNEVFNKEGYQTFQAANGLQALDIV-TKERPDLVLLDMKIPGMDGIEI 65
Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKI 134
            + ++ +   I+++ +T+       +   + G      KP  +D+I
Sbjct: 66  LKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEI 111

>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 = 43.1 bits (100), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 27/106 (25%), Positives = 55/106 (51%), Gaps = 1/106 (0%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDD   IR + +      G++   A NG +A+D+  +  + D+V +D ++P M+GIE 
Sbjct: 5   LIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIV-TKERPDLVLLDMKIPGMDGIEI 63
Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKI 134
            + ++ +   I+++ +T+       +   + G      KP  +D+I
Sbjct: 64  LKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEI 109

>pdb|3LTE|A Chain A, Crystal Structure Of Response Regulator (Signal Receiver Domain) From Bermanella Marisrubri Length = 132

Iteration: 1
 Score = 43.1 bits (100), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 59/121 (48%), Gaps = 14/121 (11%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFD-----IVFIDKEMPVM 83
           LVVDDD  +       LK   ++VE+A NG      F +G K       I+ +D  MP +
Sbjct: 10  LVVDDDQAMAAAIERVLKRDHWQVEIAHNG------FDAGIKLSTFEPAIMTLDLSMPKL 63
Query: 84  NGIEATREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL 141
           +G++  R +R   +  + KI+ V+ L+    ++A  + G D    KP   D +L  + DL
Sbjct: 64  DGLDVIRSLRQNKVANQPKILVVSGLDKAKLQQAVTE-GADDYLEKPFDNDALLDRIHDL 122
Query: 142 M 142
           +
Sbjct: 123 V 123

>pdb|1B00|A Chain A, Phob Receiver Domain From Escherichia Coli Length = 127

Iteration: 1
 Score = 42.7 bits (99), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 32/118 (27%), Positives = 61/118 (51%), Gaps = 3/118 (2%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVV+D+  IR +    L+  GF+   AE+   AV+        D++ +D  +P  +GI+ 
Sbjct: 6   LVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWP-DLILLDWMLPGGSGIQF 64
Query: 89  TREIR--SMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN 144
            + ++  SM   I +V +T+   E +R   ++ G D   TKP S  +++  ++ +M+ 
Sbjct: 65  IKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMRR 122

>pdb|1ZES|A Chain A, Bef3- Activated Phob Receiver Domain Length = 125

Iteration: 1
 Score = 42.7 bits (99), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 32/118 (27%), Positives = 61/118 (51%), Gaps = 3/118 (2%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVV+D+  IR +    L+  GF+   AE+   AV+        D++ +D  +P  +GI+ 
Sbjct: 6   LVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWP-DLILLDWMLPGGSGIQF 64
Query: 89  TREIR--SMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN 144
            + ++  SM   I +V +T+   E +R   ++ G D   TKP S  +++  ++ +M+ 
Sbjct: 65  IKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMRR 122

>pdb|1YS6|A Chain A, Crystal Structure Of The Response Regulatory Protein Prra From Mycobacterium Tuberculosis Length = 233

Iteration: 1
 Score = 42.4 bits (98), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 27/104 (25%), Positives = 55/104 (52%), Gaps = 5/104 (4%)
Query: 44  ALKSLGFKVEVAENGKEAVDLFRSGA--KFDIVFIDKEMPVMNGIEATREIRSMGIKIKI 101
            L+  GF+V  A +G EA    RS    + D + +D  MPV++G+     +R+M   + +
Sbjct: 26  GLRLSGFEVATAVDGAEA---LRSATENRPDAIVLDINMPVLDGVSVVTALRAMDNDVPV 82
Query: 102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN 145
             +++ +S  +R A ++AG D    KP  + +++  ++ L++  
Sbjct: 83  CVLSARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLRRR 126

>pdb|3M6M|D Chain D, Crystal Structure Of Rpff Complexed With Rec Domain Of Rpfc Length = 143

Iteration: 1
 Score = 42.4 bits (98), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 42/134 (31%), Positives = 61/134 (45%), Gaps = 9/134 (6%)
Query: 16  MENP----SAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKF 71
           M NP     A+   +  LV DD    R +    L+  G KV +  NG E V    +   +
Sbjct: 1   MSNPFLRHRARVRSMRMLVADDHEANRMVLQRLLEKAGHKV-LCVNGAEQVLDAMAEEDY 59
Query: 72  DIVFIDKEMPVMNGIEATREIRSM---GIKIKIVGVTSLNSEAER-EAFMQAGLDLCHTK 127
           D V +D  MP MNG++  +++R M   G++   V V S +   E   A  QAG      K
Sbjct: 60  DAVIVDLHMPGMNGLDMLKQLRVMQASGMRYTPVVVLSADVTPEAIRACEQAGARAFLAK 119
Query: 128 PLSVDKILPLMEDL 141
           P+   K+L  + DL
Sbjct: 120 PVVAAKLLDTLADL 133

>pdb|3EOD|A Chain A, Crystal Structure Of N-Terminal Domain Of E. Coli Rssb Length = 130

Iteration: 1
 Score = 42.4 bits (98), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 26/101 (25%), Positives = 54/101 (53%), Gaps = 1/101 (0%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V+D+   R++      SLG    +A +G +A++L   G   D++  D  MP MNG++ 
Sbjct: 11  LIVEDEQVFRSLLDSWFSSLGATTVLAADGVDALELL-GGFTPDLMICDIAMPRMNGLKL 69
Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPL 129
              IR+ G +  ++ +++  + A+    ++ G++    KP+
Sbjct: 70  LEHIRNRGDQTPVLVISATENMADIAKALRLGVEDVLLKPV 110

>pdb|1HEY|A Chain A, Investigating The Structural Determinants Of The P21-Like Triphosphate And Mg2+ Binding Site Length = 128

Iteration: 1
 Score = 42.4 bits (98), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 35/106 (33%), Positives = 56/106 (52%), Gaps = 6/106 (5%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVV +    ++     LK LGF  VE AE+G +A++  ++G  +  V  D  MP M+G+E
Sbjct: 8   LVVGNGGTGKSTVRNLLKELGFNNVEDAEDGVDALNKLQAGG-YGFVISDWNMPNMDGLE 66
Query: 88  ATREIRSMGIKIKIVGVTSLNSEAERE---AFMQAGLDLCHTKPLS 130
             + IR+ G  +  + V  + +EA++E   A  QAG      KP +
Sbjct: 67  LLKTIRADG-AMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFT 111

>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 = 42.4 bits (98), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 24/67 (35%), Positives = 40/67 (59%), Gaps = 2/67 (2%)
Query: 29 LVVDDDCFIRTIHSMALKSLG-FKVEV-AENGKEAVDLFRSGAKFDIVFIDKEMPVMNGI 86
          ++VDD   +R   +  +K+L  FKV   A NG+EA+D   +    D++ ++ EMPVM+G+
Sbjct: 17 MIVDDAAMMRLYIASFIKTLPDFKVVAQAANGQEALDKLAAQPNVDLILLNIEMPVMDGM 76
Query: 87 EATREIR 93
          E  R  +
Sbjct: 77 EFLRHAK 83

>pdb|3EQ2|A Chain A, Structure Of Hexagonal Crystal Form Of Pseudomonas Aeruginosa Rssb Length = 394

Iteration: 1
 Score = 42.0 bits (97), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 30/90 (33%), Positives = 45/90 (50%), Gaps = 6/90 (6%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L++DDD  +R   +  L+   FKV  A NG + + +F S  + D+V  D   P ++G+E 
Sbjct: 9   LIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIFES-EQPDLVICDLRXPQIDGLEL 67
Query: 89  TREIRSMGIKIKIV-----GVTSLNSEAER 113
            R IR    +  I+     GV S   EA R
Sbjct: 68  IRRIRQTASETPIIVLSGAGVXSDAVEALR 97

>pdb|3F7A|A Chain A, Structure Of Orthorhombic Crystal Form Of Pseudomonas Aeruginosa Rssb Length = 394

Iteration: 1
 Score = 42.0 bits (97), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 30/90 (33%), Positives = 45/90 (50%), Gaps = 6/90 (6%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L++DDD  +R   +  L+   FKV  A NG + + +F S  + D+V  D   P ++G+E 
Sbjct: 9   LIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIFES-EQPDLVICDLRXPQIDGLEL 67
Query: 89  TREIRSMGIKIKIV-----GVTSLNSEAER 113
            R IR    +  I+     GV S   EA R
Sbjct: 68  IRRIRQTASETPIIVLSGAGVMSDAVEALR 97

>pdb|3CWO|X Chain X, A BetaALPHA-Barrel Built By The Combination Of Fragments From Different Folds Length = 237

Iteration: 1
 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/60 (40%), Positives = 38/60 (63%), Gaps = 1/60 (1%)
Query: 52  VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEA 111
           V+ A NG+EAV+ ++   K DIV +D  MP MNGI+A +EI  +    KI+  +++  +A
Sbjct: 8   VDDATNGREAVEKYKE-LKPDIVTMDITMPEMNGIDAIKEIMKIDPNAKIIVCSAMGQQA 66

>pdb|2LLE|A Chain A, Computational Design Of An Eight-Stranded (BetaALPHA)-Barrel From Fragments Of Different Folds Length = 234

Iteration: 1
 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/60 (40%), Positives = 38/60 (63%), Gaps = 1/60 (1%)
Query: 52  VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEA 111
           V+ A NG+EAV+ ++   K DIV +D  MP MNGI+A +EI  +    KI+  +++  +A
Sbjct: 8   VDDATNGREAVEKYKE-LKPDIVTMDITMPEMNGIDAIKEIMKIDPNAKIIVCSAMGQQA 66

>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 = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 28/106 (26%), Positives = 58/106 (54%), Gaps = 2/106 (1%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V+D+  IR     AL+  G +V  AE  +  + L  +  K D++ +D  +P  +GIE 
Sbjct: 5   LIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGL-LEAATRKPDLIILDLGLPDGDGIEF 63
Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKI 134
            R++R     + ++ +++ + E+++ A + AG D   +KP  + ++
Sbjct: 64  IRDLRQWS-AVPVIVLSARSEESDKIAALDAGADDYLSKPFGIGEL 108

>pdb|2FTK|E Chain E, Berylloflouride Spo0f Complex With Spo0b Length = 124

Iteration: 1
 Score = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 26/106 (24%), Positives = 54/106 (50%), Gaps = 1/106 (0%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDD   IR + +      G++   A NG +A+D+  +  + D+V +  ++P M+GIE 
Sbjct: 7   LIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIV-TKERPDLVLLXMKIPGMDGIEI 65
Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKI 134
            + ++ +   I+++ +T+       +   + G      KP  +D+I
Sbjct: 66  LKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEI 111

>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 = 40.4 bits (93), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 30/105 (28%), Positives = 52/105 (49%), Gaps = 3/105 (2%)
Query: 28  ALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
            L+VDD   +R I S  LK  G++V  AENG+ A++   S    D++ +   MPVM+G  
Sbjct: 5   VLLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKL-SEFTPDLIVLXIMMPVMDGFT 63
Query: 88  ATREI--RSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
             +++  +    +I ++ +T+   E +    +  G      KP S
Sbjct: 64  VLKKLQEKEEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKPFS 108

>pdb|3T8Y|A Chain A, Crystal Structure Of The Response Regulator Domain Of Thermotoga Maritima Cheb Length = 164

Iteration: 1
 Score = 40.4 bits (93), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 35/109 (32%), Positives = 54/109 (49%), Gaps = 16/109 (14%)
Query: 29  LVVDDDCFIRTI------HSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPV 82
           LVVDD  F+R +          +K +GF  +  E  ++A++L     K D++ +D EMP 
Sbjct: 29  LVVDDSAFMRMVLKDIIDSQPDMKVVGFAKDGLEAVEKAIEL-----KPDVITMDIEMPN 83
Query: 83  MNGIEATREIRSMGIKIKIVGVTSLNSEAER---EAFMQAGLDLCHTKP 128
           +NGIEA + I       +++ V+SL  E      EA     +D   TKP
Sbjct: 84  LNGIEALKLIMKKA-PTRVIMVSSLTEEGAAITIEALRNGAVDFI-TKP 130

>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 = 40.4 bits (93), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 29/102 (28%), Positives = 48/102 (47%), Gaps = 3/102 (2%)
Query: 30  VVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEAT 89
           +VDDD  +R      L   GF +  A++G + +DL + G    +V +D   P  +G +  
Sbjct: 12  IVDDDAHVRIAVKTILSDAGFHIISADSGGQCIDLLKKGFS-GVVLLDIXXPGXDGWDTI 70
Query: 90  REI--RSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPL 129
           R I   S+   I IV +T+ N+   +   +Q  +    TKP 
Sbjct: 71  RAILDNSLEQGIAIVXLTAKNAPDAKXIGLQEYVVDYITKPF 112

>pdb|1M5T|A Chain A, Crystal Structure Of The Response Regulator Divk Length = 124

Iteration: 1
 Score = 40.0 bits (92), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 27/119 (22%), Positives = 62/119 (52%), Gaps = 4/119 (3%)
Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           +V D++  ++  H + L++ G++      G  A+ + R   K D++ +D ++P ++G+E 
Sbjct: 6   IVEDNELNMKLFHDL-LEAQGYETLQTREGLSALSIAREN-KPDLILMDIQLPEISGLEV 63
Query: 89  TREIRSMG--IKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN 145
           T+ ++       I +V VT+   + + E   + G +   +KP+SV   L  ++ L++  
Sbjct: 64  TKWLKEDDDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKPISVVHFLETIKRLLERQ 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	1e-28
3luf_A	259	Two-component system response regulator/ggdef doma	4e-27
3luf_A	259	Two-component system response regulator/ggdef doma	9e-18
1mb3_A	124	Cell division response regulator DIVK; signal tran	3e-26
3m6m_D	143	Sensory/regulatory protein RPFC; RPFF, REC, enoyl-	5e-26
3i42_A	127	Response regulator receiver domain protein (CHEY-	2e-25
1dcf_A	136	ETR1 protein; beta-alpha five sandwich, transferas	1e-23
3mm4_A	206	Histidine kinase homolog; receiver domain, CKI1, c	3e-23
3kht_A	144	Response regulator; PSI-II, 11023K, structural gen	1e-22
1jbe_A	128	Chemotaxis protein CHEY; signaling protein; 1.08A	3e-22
3c97_A	140	Signal transduction histidine kinase; structural g	5e-22
3ilh_A	146	Two component response regulator; NYSGXRC, PSI-II,	2e-21
2r25_B	133	Osmosensing histidine protein kinase SLN1; alpha5-	7e-21
3eq2_A	394	Probable two-component response regulator; adaptor	9e-21
3hdg_A	137	Uncharacterized protein; two-component sensor acti	3e-20
3h1g_A	129	Chemotaxis protein CHEY homolog; sulfate-bound CHE	3e-20
1tmy_A	120	CHEY protein, TMY; chemotaxis, phosphoryl transfer	3e-19
3eod_A	130	Protein HNR; response regulator, phosphoprotein, t	5e-19
1w25_A	459	Stalked-cell differentiation controlling protein;	5e-19
1w25_A	459	Stalked-cell differentiation controlling protein;	1e-10
3r0j_A	250	Possible two component system response transcript	8e-19
3snk_A	135	Response regulator CHEY-like protein; P-loop conta	9e-19
1p6q_A	129	CHEY2; chemotaxis, signal transduction, response r	9e-19
3crn_A	132	Response regulator receiver domain protein, CHEY-;	2e-18
3hzh_A	157	Chemotaxis response regulator (CHEY-3); phosphatas	3e-18
2qvg_A	143	Two component response regulator; NYSGXRC, PSI-2,	8e-18
3rqi_A	184	Response regulator protein; structural genomics, s	1e-17
2qxy_A	142	Response regulator; regulation of transcription, N	1e-17
3a10_A	116	Response regulator; phosphoacceptor, signaling pro	1e-17
2b4a_A	138	BH3024; flavodoxin-like fold, structural genomics,	4e-17
3grc_A	140	Sensor protein, kinase; protein structure initiati	4e-17
1srr_A	124	SPO0F, sporulation response regulatory protein; as	4e-17
2rdm_A	132	Response regulator receiver protein; structural ge	4e-17
1k66_A	149	Phytochrome response regulator RCPB; CHEY homologu	4e-17
3h5i_A	140	Response regulator/sensory box protein/ggdef domai	5e-17
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	9e-17
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	2e-16
3bre_A	358	Probable two-component response regulator; protein	4e-16
3lte_A	132	Response regulator; structural genomics, PSI, prot	6e-16
2gwr_A	238	DNA-binding response regulator MTRA; two-component	7e-16
2zay_A	147	Response regulator receiver protein; structural ge	1e-15
2oqr_A	230	Sensory transduction protein REGX3; response regul	2e-15
3eqz_A	135	Response regulator; structural genomics, unknown f	2e-15
2j48_A	119	Two-component sensor kinase; pseudo-receiver, circ	2e-15
1xhf_A	123	DYE resistance, aerobic respiration control protei	2e-15
3cfy_A	137	Putative LUXO repressor protein; structural genomi	2e-15
1mvo_A	136	PHOP response regulator; phosphate regulon, transc	2e-15
2qzj_A	136	Two-component response regulator; 11017X, PSI-II,	3e-15
3f6p_A	120	Transcriptional regulatory protein YYCF; unphospho	3e-15
2a9o_A	120	Response regulator; essential protein, YYCF/YYCG h	3e-15
3cg0_A	140	Response regulator receiver modulated diguanylate	3e-15
3cg4_A	142	Response regulator receiver domain protein (CHEY-;	4e-15
1zh2_A	121	KDP operon transcriptional regulatory protein KDPE	5e-15
3lua_A	140	Response regulator receiver protein; two-component	6e-15
3heb_A	152	Response regulator receiver domain protein (CHEY);	6e-15
3nhm_A	133	Response regulator; protein structure initiative I	6e-15
1i3c_A	149	Response regulator RCP1; phytochrome, signaling pr	6e-15
3gl9_A	122	Response regulator; beta-sheet, surrounded by alph	6e-15
3gt7_A	154	Sensor protein; structural genomics, signal receiv	6e-15
1zgz_A	122	Torcad operon transcriptional regulatory protein;	9e-15
3hdv_A	136	Response regulator; PSI-II, structural genomics, P	1e-14
3c3m_A	138	Response regulator receiver protein; structural ge	1e-14
1dc7_A	124	NTRC, nitrogen regulation protein; receiver domain	3e-14
4dad_A	146	Putative pilus assembly-related protein; response	3e-14
1ys7_A	233	Transcriptional regulatory protein PRRA; response	4e-14
3jte_A	143	Response regulator receiver protein; structural ge	5e-14
3cnb_A	143	DNA-binding response regulator, MERR family; signa	6e-14
3n53_A	140	Response regulator receiver modulated diguanylate;	6e-14
1yio_A	208	Response regulatory protein; transcription regulat	7e-14
3t6k_A	136	Response regulator receiver; flavodoxin-like, stru	8e-14
2jba_A	127	Phosphate regulon transcriptional regulatory PROT;	1e-13
3f6c_A	134	Positive transcription regulator EVGA; structural	1e-13
3cu5_A	141	Two component transcriptional regulator, ARAC FAM;	1e-13
1s8n_A	205	Putative antiterminator; RV1626, structural genomi	3e-13
1p2f_A	220	Response regulator; DRRB, OMPR/PHOB, transcription	4e-13
3b2n_A	133	Uncharacterized protein Q99UF4; structural genomic	5e-13
3n0r_A	286	Response regulator; sigma factor, receiver, two-co	5e-13
3eul_A	152	Possible nitrate/nitrite response transcriptional	7e-13
3kyj_B	145	CHEY6 protein, putative histidine protein kinase;	8e-13
3sy8_A	400	ROCR; TIM barrel phosphodiesterase-A, transcriptio	1e-12
1k68_A	140	Phytochrome response regulator RCPA; phosphorylate	1e-12
3klo_A	225	Transcriptional regulator VPST; REC domain, HTH do	1e-12
3q9s_A	249	DNA-binding response regulator; DNA binding protei	2e-12
4e7p_A	150	Response regulator; DNA binding, cytosol, transcri	2e-12
2rjn_A	154	Response regulator receiver:metal-dependent phosph	2e-12
1a2o_A	349	CHEB methylesterase; bacterial chemotaxis, adaptat	4e-12
3hv2_A	153	Response regulator/HD domain protein; PSI-2, NYSGX	4e-12
2gkg_A	127	Response regulator homolog; social motility, recei	4e-12
2qsj_A	154	DNA-binding response regulator, LUXR family; struc	5e-12
1kgs_A	225	DRRD, DNA binding response regulator D; DNA-bindin	6e-12
3cz5_A	153	Two-component response regulator, LUXR family; str	6e-12
3kcn_A	151	Adenylate cyclase homolog; SGX, PSI 2, structural	6e-12
2pl1_A	121	Transcriptional regulatory protein PHOP; CHEY-like	1e-11
1a04_A	215	Nitrate/nitrite response regulator protein NARL; s	2e-11
3c3w_A	225	Two component transcriptional regulatory protein;	2e-11
3t8y_A	164	CHEB, chemotaxis response regulator protein-glutam	2e-11
2qv0_A	143	Protein MRKE; structural genomics, transcription,	6e-11
1dz3_A	130	Stage 0 sporulation protein A; response regulator,	1e-10
1qkk_A	155	DCTD, C4-dicarboxylate transport transcriptional r	3e-10
1dbw_A	126	Transcriptional regulatory protein FIXJ; doubly wo	4e-10
2qr3_A	140	Two-component system response regulator; structura	7e-10
2jk1_A	139	HUPR, hydrogenase transcriptional regulatory prote	1e-09
2hqr_A	223	Putative transcriptional regulator; phosporylation	4e-09
2pln_A	137	HP1043, response regulator; signaling protein; 1.8	4e-08
1qo0_D	196	AMIR; binding protein, gene regulator, receptor; 2	4e-07
3kto_A	136	Response regulator receiver protein; PSI-II,struct	6e-07

>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 =  104 bits (261), Expect = 1e-28
 Identities = 35/115 (30%), Positives = 66/115 (57%), Gaps = 3/115 (2%)

Query: 19  PSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDK 78
               ++ +  LVVDD    R + +  L SLG++ + A +G +A+++       DIV  D 
Sbjct: 125 SDNDDMMI--LVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNH-IDIVLSDV 181

Query: 79  EMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDK 133
            MP M+G   T+ IR +G+ + ++GVT+     E++  +++G+D C +KP+++D 
Sbjct: 182 NMPNMDGYRLTQRIRQLGLTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDV 236

>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 =  100 bits (251), Expect = 4e-27
 Identities = 24/130 (18%), Positives = 55/130 (42%), Gaps = 2/130 (1%)

Query: 16  MENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVF 75
           + +    N ++  LVVDD    R      L+    +V  A + +EA+          +V 
Sbjct: 115 LVHRLYLNQQIEVLVVDDSRTSRHRTMAQLRKQLLQVHEASHAREALATLEQHPAIRLVL 174

Query: 76  IDKEMPVMNGIEATREIRSM--GIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDK 133
           +D  MP ++GI   R +R      ++ I+G++  +       +++ G +    +P   ++
Sbjct: 175 VDYYMPEIDGISLVRMLRERYSKQQLAIIGISVSDKRGLSARYLKQGANDFLNQPFEPEE 234

Query: 134 ILPLMEDLMK 143
           +   +   ++
Sbjct: 235 LQCRVSHNLE 244

>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 = 75.8 bits (187), Expect = 9e-18
 Identities = 27/118 (22%), Positives = 53/118 (44%), Gaps = 5/118 (4%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V+D   IR +   A+         A +  E       G ++ +  +D  +P     EA
Sbjct: 8   LIVEDSMTIRRMLIQAIAQQTGLEIDAFDTLEGARH-CQGDEYVVALVDLTLPDAPSGEA 66

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPL--SVDKILPLMEDLMKN 144
            + +   G+ + ++ +T+  SE +REA+++AG+     K    S+   + L+  L  N
Sbjct: 67  VKVLLERGLPV-VI-LTADISEDKREAWLEAGVLDYVMKDSRHSLQYAVGLVHRLYLN 122

>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 = 94.5 bits (236), Expect = 3e-26
 Identities = 27/117 (23%), Positives = 60/117 (51%), Gaps = 3/117 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V+D+     +    L++ G++      G  A+ + R   K D++ +D ++P ++G+E 
Sbjct: 5   LIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIAREN-KPDLILMDIQLPEISGLEV 63

Query: 89  TREIRSM--GIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
           T+ ++       I +V VT+   + + E   + G +   +KP+SV   L  ++ L++
Sbjct: 64  TKWLKEDDDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKPISVVHFLETIKRLLE 120

>3m6m_D Sensory/regulatory protein RPFC; RPFF, REC, enoyl-COA hydratase, lyase-transferase COMP; 2.50A {Xanthomonas campestris PV} Length = 143

 Score = 94.6 bits (236), Expect = 5e-26
 Identities = 32/128 (25%), Positives = 56/128 (43%), Gaps = 7/128 (5%)

Query: 19  PSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDK 78
              +++R+  LV DD    R +    L+  G KV      ++ +D       +D V +D 
Sbjct: 10  ARVRSMRM--LVADDHEANRMVLQRLLEKAGHKVLCVNGAEQVLDAMAEED-YDAVIVDL 66

Query: 79  EMPVMNGIEATREIRSM----GIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKI 134
            MP MNG++  +++R M         +V +++  +     A  QAG      KP+   K+
Sbjct: 67  HMPGMNGLDMLKQLRVMQASGMRYTPVVVLSADVTPEAIRACEQAGARAFLAKPVVAAKL 126

Query: 135 LPLMEDLM 142
           L  + DL 
Sbjct: 127 LDTLADLA 134

>3i42_A Response regulator receiver domain protein (CHEY- like); structural genomics, PSI-2, protein structure initiative; 2.15A {Methylobacillus flagellatus KT} Length = 127

 Score = 93.0 bits (232), Expect = 2e-25
 Identities = 24/116 (20%), Positives = 54/116 (46%), Gaps = 4/116 (3%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V+D           L+ LGF+ +   +G +A+    +   +D VFID  +P  +G+  
Sbjct: 7   LIVEDYQAAAETFKELLEMLGFQADYVMSGTDALHAMSTR-GYDAVFIDLNLPDTSGLAL 65

Query: 89  TREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM 142
            +++R++ +    K V V+   ++ +         D    KP+ +  + P+++ + 
Sbjct: 66  VKQLRALPMEKTSKFVAVSG-FAKNDLGKEACELFDFYLEKPIDIASLEPILQSIE 120

>1dcf_A ETR1 protein; beta-alpha five sandwich, transferase; 2.50A {Arabidopsis thaliana} SCOP: c.23.1.2 Length = 136

 Score = 88.7 bits (221), Expect = 1e-23
 Identities = 30/130 (23%), Positives = 59/130 (45%), Gaps = 9/130 (6%)

Query: 19  PSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDK 78
            +   L++  LV+D++   R +    L  LG +V    + +E + +     +  +VF+D 
Sbjct: 3   SNFTGLKV--LVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVSH--EHKVVFMDV 58

Query: 79  EMPVMNGIEATREIRSMGIK-----IKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDK 133
            MP +   +    I     K       +V ++    ++ +E  M  GLD    KP+S+D 
Sbjct: 59  CMPGVENYQIALRIHEKFTKQRHQRPLLVALSGNTDKSTKEKCMSFGLDGVLLKPVSLDN 118

Query: 134 ILPLMEDLMK 143
           I  ++ DL++
Sbjct: 119 IRDVLSDLLE 128

>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 = 89.4 bits (222), Expect = 3e-23
 Identities = 46/145 (31%), Positives = 74/145 (51%), Gaps = 20/145 (13%)

Query: 3   LGEGESSSKKAKIMENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEA 61
           +G  E   + +K  ++   +  R+  LVVDD+   R + +  LK +G  +VE  ++GKEA
Sbjct: 41  IGNPEDEQETSKPSDDEFLRGKRV--LVVDDNFISRKVATGKLKKMGVSEVEQCDSGKEA 98

Query: 62  VDLFRSGA------------KFDIVFIDKEMPVMNGIEATREIRSM----GIKIKIVGVT 105
           + L   G              FD +F+D +MP M+G EATREIR +    G++  I+ V+
Sbjct: 99  LRLVTEGLTQREEQGSVDKLPFDYIFMDCQMPEMDGYEATREIRKVEKSYGVRTPIIAVS 158

Query: 106 SLNSEAER-EAFMQAGLDLCHTKPL 129
             +  +E     +QAG+D    K L
Sbjct: 159 GHDPGSEEARETIQAGMDAFLDKSL 183

>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 = 86.1 bits (214), Expect = 1e-22
 Identities = 26/119 (21%), Positives = 48/119 (40%), Gaps = 7/119 (5%)

Query: 29  LVVDDDCFIRTIHSMALKSLGF--KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGI 86
           LVV+D+     +    L       ++E  +NG +A+   +   K+D++ +D  +P+ NG 
Sbjct: 9   LVVEDNPDDIALIRRVLDRKDIHCQLEFVDNGAKALYQVQQA-KYDLIILDIGLPIANGF 67

Query: 87  EATREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
           E    +R  G      IV +T   S+   +  M AG      K    + +      +  
Sbjct: 68  EVMSAVRKPGANQHTPIVILTDNVSDDRAKQCMAAGASSVVDKS--SNNVTDFYGRIYA 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 = 84.6 bits (210), Expect = 3e-22
 Identities = 38/127 (29%), Positives = 62/127 (48%), Gaps = 6/127 (4%)

Query: 20  SAKNLRLFALVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDK 78
           + K L+   LVVDD   +R I    LK LGF  VE AE+G +A++  ++G  +  V  D 
Sbjct: 1   ADKELKF--LVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG-GYGFVISDW 57

Query: 79  EMPVMNGIEATREIRS--MGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILP 136
            MP M+G+E  + IR+      + ++ VT+   +    A  QAG      KP +   +  
Sbjct: 58  NMPNMDGLELLKTIRAXXAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEE 117

Query: 137 LMEDLMK 143
            +  + +
Sbjct: 118 KLNKIFE 124

>3c97_A Signal transduction histidine kinase; structural genomics, signaling, PSI-2, protein structure initiative; 1.70A {Aspergillus oryzae RIB40} Length = 140

 Score = 84.2 bits (209), Expect = 5e-22
 Identities = 33/129 (25%), Positives = 69/129 (53%), Gaps = 9/129 (6%)

Query: 16  MENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVF 75
           M    ++ + L  L+ +D+   R + + AL+     + V  NG +A+  +++  +FD++ 
Sbjct: 1   MSLEPSQIMPLSVLIAEDNDICRLVAAKALEKCTNDITVVTNGLQALQAYQNR-QFDVII 59

Query: 76  IDKEMPVMNGIEATREIRSM-----GIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
           +D +MPVM+G+EA  EIR+        +  I+ +T+   + +R     A LD   +KPL+
Sbjct: 60  MDIQMPVMDGLEAVSEIRNYERTHNTKRASIIAITADTIDDDRPG---AELDEYVSKPLN 116

Query: 131 VDKILPLME 139
            +++  ++ 
Sbjct: 117 PNQLRDVVL 125

>3ilh_A Two component response regulator; NYSGXRC, PSI-II, protein S initiative, structural genomics; 2.59A {Cytophaga hutchinsonii} Length = 146

 Score = 83.2 bits (206), Expect = 2e-21
 Identities = 24/126 (19%), Positives = 54/126 (42%), Gaps = 11/126 (8%)

Query: 29  LVVDDDCFIRTIHSMALKSLGF--KVEVAENGKEAVDLFR----SGAKFDIVFIDKEMPV 82
           L++DDD  +  +++  ++      +++   +G  A++       +G    I+ ID  MP 
Sbjct: 13  LLIDDDDIVNFLNTTIIRMTHRVEEIQSVTSGNAAINKLNELYAAGRWPSIICIDINMPG 72

Query: 83  MNGIEATREIRS----MGIKIKIVGVTSLNSEAERE-AFMQAGLDLCHTKPLSVDKILPL 137
           +NG E     +     M  K  +  ++S     ++  A     +D   +KPL+ + +  L
Sbjct: 73  INGWELIDLFKQHFQPMKNKSIVCLLSSSLDPRDQAKAEASDWVDYYVSKPLTANALNNL 132

Query: 138 MEDLMK 143
              ++ 
Sbjct: 133 YNKVLN 138

>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 = 81.0 bits (201), Expect = 7e-21
 Identities = 29/117 (24%), Positives = 67/117 (57%), Gaps = 8/117 (6%)

Query: 23  NLRLFALVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFR----SGAKFDIVFID 77
           ++++  LVV+D+   + +    L   G + +E+A +G+EA D  +     G  ++++F+D
Sbjct: 2   SVKI--LVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGENYNMIFMD 59

Query: 78  KEMPVMNGIEATREIRS-MGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDK 133
            +MP ++G+ +T+ IR  +G    IV +T+   ++  +  +++G++   +KP+   K
Sbjct: 60  VQMPKVDGLLSTKMIRRDLGYTSPIVALTAFADDSNIKECLESGMNGFLSKPIKRPK 116

>3eq2_A Probable two-component response regulator; adaptor sigmas, signaling protein; 3.40A {Pseudomonas aeruginosa} PDB: 3f7a_A Length = 394

 Score = 85.7 bits (212), Expect = 9e-21
 Identities = 30/110 (27%), Positives = 52/110 (47%), Gaps = 1/110 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L++DDD  +R   +  L+   FKV  A NG + + +F S  + D+V  D  MP ++G+E 
Sbjct: 9   LIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIFES-EQPDLVICDLRMPQIDGLEL 67

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLM 138
            R IR    +  I+ ++     ++    ++ G      KPL    +L   
Sbjct: 68  IRRIRQTASETPIIVLSGAGVMSDAVEALRLGAADYLIKPLEDLAVLEHS 117

>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 = 3e-20
 Identities = 28/116 (24%), Positives = 57/116 (49%), Gaps = 3/116 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V+DD   R   S  + +   +V  A +G+E   LF      D++  D  MP + G+E 
Sbjct: 11  LIVEDDTDAREWLSTIISNHFPEVWSAGDGEEGERLFGLH-APDVIITDIRMPKLGGLEM 69

Query: 89  TREIRSMGIKIKIVGVTSLNS-EAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
              I++ G K  ++ +++ +  +   +A ++ G+ L   KP+   +++  +ED   
Sbjct: 70  LDRIKAGGAKPYVIVISAFSEMKYFIKA-IELGVHLFLPKPIEPGRLMETLEDFRH 124

>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 = 79.5 bits (197), Expect = 3e-20
 Identities = 34/110 (30%), Positives = 58/110 (52%), Gaps = 3/110 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LVVDD   +R I    L  LG++ V  AE+G EA +   + A   ++  D  MP MNG++
Sbjct: 9   LVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANADTKVLITDWNMPEMNGLD 68

Query: 88  ATREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
             +++RS     +I I+ +T+   +AE    ++AG++    KP +   + 
Sbjct: 69  LVKKVRSDSRFKEIPIIMITAEGGKAEVITALKAGVNNYIVKPFTPQVLK 118

>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 = 76.4 bits (189), Expect = 3e-19
 Identities = 36/116 (31%), Positives = 62/116 (53%), Gaps = 2/116 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKV-EVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           L+VDD  F+R +    +   G++V   A NG+EAV+ ++   K DIV +D  MP MNGI+
Sbjct: 6   LIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKE-LKPDIVTMDITMPEMNGID 64

Query: 88  ATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
           A +EI  +    KI+  +++  +A     ++AG      KP    +++  +  + K
Sbjct: 65  AIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKVSK 120

>3eod_A Protein HNR; response regulator, phosphoprotein, two-component regulatory system, signaling protein; 1.75A {Escherichia coli K12} Length = 130

 Score = 76.4 bits (189), Expect = 5e-19
 Identities = 25/102 (24%), Positives = 53/102 (51%), Gaps = 1/102 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V+D+   R++      SLG    +A +G +A++L       D++  D  MP MNG++ 
Sbjct: 11  LIVEDEQVFRSLLDSWFSSLGATTVLAADGVDALELLGGF-TPDLMICDIAMPRMNGLKL 69

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
              IR+ G +  ++ +++  + A+    ++ G++    KP+ 
Sbjct: 70  LEHIRNRGDQTPVLVISATENMADIAKALRLGVEDVLLKPVK 111

>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 = 81.0 bits (200), Expect = 5e-19
 Identities = 28/117 (23%), Positives = 53/117 (45%), Gaps = 3/117 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDD      +    L +  ++V  A +G  A+ +       DI+ +D  MP M+G   
Sbjct: 5   LVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARD-LPDIILLDVMMPGMDGFTV 63

Query: 89  TREIRSM--GIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
            R+++       I +V +T+L+   +R   +++G     TKP+    +   +  L +
Sbjct: 64  CRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPIDDVMLFARVRSLTR 120

>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 = 57.1 bits (138), Expect = 1e-10
 Identities = 17/106 (16%), Positives = 41/106 (38%), Gaps = 5/106 (4%)

Query: 27  FALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGI 86
             L+VDD+       +  L        V E+  E   +   G   D+V ++      +G+
Sbjct: 154 RVLIVDDNERQAQRVAAELGVEHR--PVIESDPEKAKISAGGP-VDLVIVNAAAKNFDGL 210

Query: 87  EATREIRSM--GIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
             T  +RS     ++ ++ +   +        ++ G++   ++P+ 
Sbjct: 211 RFTAALRSEERTRQLPVLAMVDPDDRGRMVKALEIGVNDILSRPID 256

>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 = 8e-19
 Identities = 38/115 (33%), Positives = 66/115 (57%), Gaps = 1/115 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDD+  I  + S++LK  GF+V  A NG +A+D  R   + D V +D  MP M+G   
Sbjct: 27  LVVDDEANIVELLSVSLKFQGFEVYTATNGAQALDRARET-RPDAVILDVXMPGMDGFGV 85

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
            R +R+ GI    + +T+ +S  ++ A +  G D   TKP S+++++  +  +++
Sbjct: 86  LRRLRADGIDAPALFLTARDSLQDKIAGLTLGGDDYVTKPFSLEEVVARLRVILR 140

>3snk_A Response regulator CHEY-like protein; P-loop containing nucleoside triphosphate hydrolases, struct genomics; 2.02A {Mesorhizobium loti} Length = 135

 Score = 75.8 bits (187), Expect = 9e-19
 Identities = 17/108 (15%), Positives = 38/108 (35%), Gaps = 2/108 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSL-GFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
            +   D   +   +  L +L  + V V+E             +  IV +D     + G  
Sbjct: 18  ALFSSDPNFKRDVATRLDALAIYDVRVSETDDFLKGPPAD-TRPGIVILDLGGGDLLGKP 76

Query: 88  ATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
              E R++   + ++ V+   +  +    ++        KPL   ++L
Sbjct: 77  GIVEARALWATVPLIAVSDELTSEQTRVLVRMNASDWLHKPLDGKELL 124

>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 = 75.6 bits (187), Expect = 9e-19
 Identities = 27/110 (24%), Positives = 51/110 (46%), Gaps = 4/110 (3%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           L+VDD    R +   AL+ LGFK +  A +G++ + +        +V  D  MP M+G+ 
Sbjct: 10  LIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIMAQN-PHHLVISDFNMPKMDGLG 68

Query: 88  ATREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
             + +R+     K   + +T+    A  +     G +    KP +++K+ 
Sbjct: 69  LLQAVRANPATKKAAFIILTAQGDRALVQKAAALGANNVLAKPFTIEKMK 118

>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 = 74.8 bits (184), Expect = 2e-18
 Identities = 27/107 (25%), Positives = 46/107 (42%), Gaps = 1/107 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDDD  I       L+  G++VE+A    E +    +   F++     ++P M G E 
Sbjct: 7   LIVDDDTAILDSTKQILEFEGYEVEIAATAGEGLAKIENE-FFNLALFXIKLPDMEGTEL 65

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
             +   +   +K + VT   S       + AG D    KP++   +L
Sbjct: 66  LEKAHKLRPGMKKIMVTGYASLENSVFSLNAGADAYIMKPVNPRDLL 112

>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 = 75.3 bits (185), Expect = 3e-18
 Identities = 30/117 (25%), Positives = 52/117 (44%), Gaps = 2/117 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKV-EVAENGKEAVDLFRS-GAKFDIVFIDKEMPVMNGI 86
           L+VDD  F     +    S GF + + A +G+EAV  +++     DIV +   MP M+GI
Sbjct: 40  LIVDDSVFTVKQLTQIFTSEGFNIIDTAADGEEAVIKYKNHYPNIDIVTLXITMPKMDGI 99

Query: 87  EATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
                I       +++ +++L  E   +  +  G      KPL   K+L  +  +  
Sbjct: 100 TCLSNIMEFDKNARVIMISALGKEQLVKDCLIKGAKTFIVKPLDRAKVLQRVMSVFV 156

>2qvg_A Two component response regulator; NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.50A {Legionella pneumophila subsp} Length = 143

 Score = 73.4 bits (181), Expect = 8e-18
 Identities = 27/124 (21%), Positives = 54/124 (43%), Gaps = 9/124 (7%)

Query: 29  LVVDDDCFIRTIHSMALKSLG--FKVEVAENGKEAVDLFR-----SGAKFDIVFIDKEMP 81
           L ++DD             +    K+E+A++G +A+D+       +     ++ +D  +P
Sbjct: 11  LYLEDDEVDIQSVERVFHKISSLIKIEIAKSGNQALDMLYGRNKENKIHPKLILLDINIP 70

Query: 82  VMNGIEATREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLME 139
            MNGIE  +E+R       I++  +T+  +  ++ AF    +     KPL   + + L  
Sbjct: 71  KMNGIEFLKELRDDSSFTDIEVFVLTAAYTSKDKLAFESLNIRGHLIKPLDYGEAIKLFW 130

Query: 140 DLMK 143
            L  
Sbjct: 131 ILQS 134

>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 = 74.2 bits (183), Expect = 1e-17
 Identities = 26/107 (24%), Positives = 48/107 (44%), Gaps = 1/107 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LV+DD+       +  L+  G+ V  A N  EA+ L  +  KF+ + +   +   +G+  
Sbjct: 11  LVIDDNEVFAGTLARGLERRGYAVRQAHNKDEALKLAGAE-KFEFITVXLHLGNDSGLSL 69

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
              +  +    +I+ +T   S A     ++ G D    KP +V+ IL
Sbjct: 70  IAPLCDLQPDARILVLTGYASIATAVQAVKDGADNYLAKPANVESIL 116

>2qxy_A Response regulator; regulation of transcription, NYSGXRC, protein structure initiative II (PSI II), structural genomics; 1.95A {Thermotoga maritima} Length = 142

 Score = 73.4 bits (181), Expect = 1e-17
 Identities = 28/107 (26%), Positives = 45/107 (42%), Gaps = 2/107 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           +VVD+          AL+  GF V  A+N +EA    R   K D+VF+D        +  
Sbjct: 8   MVVDESRITFLAVKNALEKDGFNVIWAKNEQEAFTFLRR-EKIDLVFVDV-FEGEESLNL 65

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
            R IR      K+  +++   +      ++AG      KP  +D +L
Sbjct: 66  IRRIREEFPDTKVAVLSAYVDKDLIINSVKAGAVDYILKPFRLDYLL 112

>3a10_A Response regulator; phosphoacceptor, signaling protein; HET: MSE PG4; 1.63A {Thermotoga maritima} PDB: 3a0r_B* 3a0u_A* Length = 116

 Score = 72.5 bits (179), Expect = 1e-17
 Identities = 32/85 (37%), Positives = 51/85 (60%), Gaps = 1/85 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDD+  IR +    L+  G++++ AENG+EA+  F SG  +D+V +D EMP ++G+E 
Sbjct: 5   LVVDDEPNIRELLKEELQEEGYEIDTAENGEEALKKFFSG-NYDLVILDIEMPGISGLEV 63

Query: 89  TREIRSMGIKIKIVGVTSLNSEAER 113
             EIR      KI+ +T+ +     
Sbjct: 64  AGEIRKKKKDAKIILLTAYSHYRSD 88

>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 = 71.8 bits (177), Expect = 4e-17
 Identities = 12/85 (14%), Positives = 33/85 (38%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
            +V+D+    T+    L  LG +V V  +G          +  D++ +  ++  ++    
Sbjct: 19  TLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHRSQLSTCDLLIVSDQLVDLSIFSL 78

Query: 89  TREIRSMGIKIKIVGVTSLNSEAER 113
              ++    +  ++ +T+   E   
Sbjct: 79  LDIVKEQTKQPSVLILTTGRHELIE 103

>3grc_A Sensor protein, kinase; protein structure initiative II(PSI II), NYSGXRC, 11025B, structural genomics; 2.21A {Polaromonas SP} Length = 140

 Score = 71.8 bits (177), Expect = 4e-17
 Identities = 21/107 (19%), Positives = 46/107 (42%), Gaps = 4/107 (3%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+ +DD  I  + ++ L+  GF  ++  +  +A++       +  + +D  +P  +G+  
Sbjct: 10  LICEDDPDIARLLNLMLEKGGFDSDMVHSAAQALEQVAR-RPYAAMTVDLNLPDQDGVSL 68

Query: 89  TREIRSMGI--KIKIVGVTSLNSEAERE-AFMQAGLDLCHTKPLSVD 132
            R +R       + IV V++   E E E       +     KP+  +
Sbjct: 69  IRALRRDSRTRDLAIVVVSANAREGELEFNSQPLAVSTWLEKPIDEN 115

>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 = 71.4 bits (176), Expect = 4e-17
 Identities = 27/107 (25%), Positives = 54/107 (50%), Gaps = 1/107 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDD   IR + +      G++   A NG +A+D+     + D+V +D ++P M+GIE 
Sbjct: 7   LIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTKE-RPDLVLLDMKIPGMDGIEI 65

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
            + ++ +   I+++ +T+       +   + G      KP  +D+I 
Sbjct: 66  LKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIR 112

>2rdm_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein struct initiative; HET: MSE; 1.76A {Sinorhizobium medicae} Length = 132

 Score = 71.5 bits (176), Expect = 4e-17
 Identities = 23/108 (21%), Positives = 45/108 (41%), Gaps = 3/108 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPV-MNGIE 87
           L+ DD+  +       L   GF V    +G +A+++ +SGA  D V  D       +G +
Sbjct: 9   LLADDEAILLLDFESTLTDAGFLVTAVSSGAKAIEMLKSGAAIDGVVTDIRFCQPPDGWQ 68

Query: 88  ATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
             R  R +   + IV ++   +       +   + L   KP +  +++
Sbjct: 69  VARVAREIDPNMPIVYISGHAALEWASNGVPDSIIL--EKPFTSAQLI 114

>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 = 71.9 bits (177), Expect = 4e-17
 Identities = 25/128 (19%), Positives = 53/128 (41%), Gaps = 13/128 (10%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEV--AENGKEAVDLFRSGAKF---------DIVFID 77
           LVV+D     +     L+  G    +     G +A+D       +          ++ +D
Sbjct: 10  LVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSYCNPDIAPRPAVILLD 69

Query: 78  KEMPVMNGIEATREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
             +P  +G E  +EI+   +  KI +V +T+ ++  + E      +     KPL +D++ 
Sbjct: 70  LNLPGTDGREVLQEIKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEIDRLT 129

Query: 136 PLMEDLMK 143
             ++  +K
Sbjct: 130 ETVQTFIK 137

>3h5i_A Response regulator/sensory box protein/ggdef domain protein; structural genomics, transcription, PSI-2; 1.90A {Carboxydothermus hydrogenoformans z-2901} Length = 140

 Score = 71.5 bits (176), Expect = 5e-17
 Identities = 24/103 (23%), Positives = 46/103 (44%), Gaps = 2/103 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMP-VMNGIE 87
           L+V+D  F     +  L   G+ VE+A  G+ AV+    G   D++ +D E+   M+G++
Sbjct: 9   LIVEDSKFQAKTIANILNKYGYTVEIALTGEAAVEKVSGGWYPDLILMDIELGEGMDGVQ 68

Query: 88  ATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
               I+ +  ++ +V +T+    A  E            K  +
Sbjct: 69  TALAIQQIS-ELPVVFLTAHTEPAVVEKIRSVTAYGYVMKSAT 110

>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 = 74.4 bits (184), Expect = 9e-17
 Identities = 35/120 (29%), Positives = 59/120 (49%), Gaps = 19/120 (15%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LV++DD   R +    L   G KVE AE GKEA  L      F++V +D  +P +NG+E 
Sbjct: 4   LVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLSEK-HFNVVLLDLLLPDVNGLEI 62

Query: 89  TREIRSMGIKIKIVGVT---SLNS--EAEREAFMQAG----LDLCHTKPLSVDKILPLME 139
            + I+    + +++ +T   ++ +  EA     M+ G    L    TKP  +++I   + 
Sbjct: 63  LKWIKERSPETEVIVITGHGTIKTAVEA-----MKMGAYDFL----TKPCMLEEIELTIN 113

>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 = 28/120 (23%), Positives = 55/120 (45%), Gaps = 19/120 (15%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDD+  I +  S  L+  G+  + A+  +EA    +    F ++ +D  MP  +G+  
Sbjct: 4   LVVDDEESITSSLSAILEEEGYHPDTAKTLREAEKKIKEL-FFPVIVLDVWMPDGDGVNF 62

Query: 89  TREIRSMGIKIKIVGVT---SLNS--EAEREAFMQAG----LDLCHTKPLSVDKILPLME 139
              I+       ++ +T   S+++  +A     ++ G    L     KP SV++ L  ++
Sbjct: 63  IDFIKENSPDSVVIVITGHGSVDTAVKA-----IKKGAYEFL----EKPFSVERFLLTIK 113

>3bre_A Probable two-component response regulator; protein-nucleotide complex, signaling protein; HET: C2E; 2.40A {Pseudomonas aeruginosa} PDB: 3i5a_A* Length = 358

 Score = 72.5 bits (178), Expect = 4e-16
 Identities = 22/105 (20%), Positives = 39/105 (37%), Gaps = 4/105 (3%)

Query: 29  LVVDDDCFIRTIHSMALKS-LGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           L+VDD   I      +L S  G       + ++AV +     K  ++  D  MP ++G+ 
Sbjct: 22  LLVDDQAMIGEAVRRSLASEAGIDFHFCSDPQQAVAVANQI-KPTVILQDLVMPGVDGLT 80

Query: 88  ATREIRSM--GIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
                R       I I+ +++      + A   AG +    K   
Sbjct: 81  LLAAYRGNPATRDIPIIVLSTKEEPTVKSAAFAAGANDYLVKLPD 125

>3lte_A Response regulator; structural genomics, PSI, protein structure initiative, NYSG YORK structural genomix research consortium, nysgxrc; 2.00A {Bermanella marisrubri} Length = 132

 Score = 68.3 bits (168), Expect = 6e-16
 Identities = 25/96 (26%), Positives = 44/96 (45%), Gaps = 6/96 (6%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDDD  +       LK   ++VE+A NG +A     +  +  I+ +D  MP ++G++ 
Sbjct: 10  LVVDDDQAMAAAIERVLKRDHWQVEIAHNGFDAGIKLSTF-EPAIMTLDLSMPKLDGLDV 68

Query: 89  TREIRSMGI-KIKIVGVTSLNSEAEREAFMQAGLDL 123
            R +R   +     + V S   +A+     Q  +  
Sbjct: 69  IRSLRQNKVANQPKILVVSGLDKAKL----QQAVTE 100

>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 = 70.6 bits (174), Expect = 7e-16
 Identities = 26/85 (30%), Positives = 45/85 (52%), Gaps = 2/85 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDDD  +  + ++ L+  GF   V  +G +A+   R   + D+V +D  +P MNGI+ 
Sbjct: 9   LVVDDDASLAEMLTIVLRGEGFDTAVIGDGTQALTAVREL-RPDLVLLDLMLPGMNGIDV 67

Query: 89  TREIRSMGIKIKIVGVTSLNSEAER 113
            R +R+    + IV +T+     + 
Sbjct: 68  CRVLRADS-GVPIVMLTAKTDTVDV 91

>2zay_A Response regulator receiver protein; structural genomics, NYSGXRC, target 11006U, protein structure initiative; 2.00A {Desulfuromonas acetoxidans} Length = 147

 Score = 68.0 bits (167), Expect = 1e-15
 Identities = 21/117 (17%), Positives = 43/117 (36%), Gaps = 5/117 (4%)

Query: 16  MENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVF 75
           M     K  R+  ++VD           AL   GF +    N  EAV +        ++ 
Sbjct: 1   MSLAEGKWWRI--MLVDTQLPALAASISALSQEGFDIIQCGNAIEAVPVAVK-THPHLII 57

Query: 76  IDKEMPVMNGIEATREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
            +  MP ++G++    ++       I ++ ++   +  E    +  G      KP++
Sbjct: 58  TEANMPKISGMDLFNSLKKNPQTASIPVIALSGRATAKEEAQLLDMGFIDFIAKPVN 114

>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 = 69.4 bits (171), Expect = 2e-15
 Identities = 22/85 (25%), Positives = 46/85 (54%), Gaps = 2/85 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V+D+  +    +  L+  GF+  V  +G  A+  F      DIV +D  +P M+G + 
Sbjct: 8   LIVEDEESLADPLAFLLRKEGFEATVVTDGPAALAEFDRA-GADIVLLDLMLPGMSGTDV 66

Query: 89  TREIRSMGIKIKIVGVTSLNSEAER 113
            +++R+    + ++ VT+ +SE ++
Sbjct: 67  CKQLRARS-SVPVIMVTARDSEIDK 90

>3eqz_A Response regulator; structural genomics, unknown function, PSI-2, protein struct initiative; 2.15A {Colwellia psychrerythraea} Length = 135

 Score = 67.3 bits (165), Expect = 2e-15
 Identities = 21/87 (24%), Positives = 35/87 (40%), Gaps = 2/87 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
            +VDDD     +    ++ +   VE A     A        K DI+ +D  MP M+GIE 
Sbjct: 7   FIVDDDTLTCNLLKTIVEPIFGNVE-AFQHPRAFLTLSLN-KQDIIILDLMMPDMDGIEV 64

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREA 115
            R +        ++ ++  +S     A
Sbjct: 65  IRHLAEHKSPASLILISGYDSGVLHSA 91

>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 = 17/102 (16%), Positives = 38/102 (37%), Gaps = 2/102 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+++++    T+    L + GFKV    +G  A+D      +  ++ +    P  + +  
Sbjct: 5   LLLEEEDEAATVVCEMLTAAGFKVIWLVDGSTALDQLDL-LQPIVILMAWPPPDQSCLLL 63

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
            + +R          +     E   +  + A      +KPL 
Sbjct: 64  LQHLREHQ-ADPHPPLVLFLGEPPVDPLLTAQASAILSKPLD 104

>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 = 66.7 bits (164), Expect = 2e-15
 Identities = 17/65 (26%), Positives = 31/65 (47%), Gaps = 1/65 (1%)

Query: 29 LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
          L+V+D+   R       ++ G+ V  A +G E   +       ++V +D  +P  NG+  
Sbjct: 7  LIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSEY-DINLVIMDINLPGKNGLLL 65

Query: 89 TREIR 93
           RE+R
Sbjct: 66 ARELR 70

>3cfy_A Putative LUXO repressor protein; structural genomics, unknown function, uncharacterized protein, signal receiver domain; 2.50A {Vibrio parahaemolyticus rimd 2210633} Length = 137

 Score = 67.2 bits (165), Expect = 2e-15
 Identities = 14/74 (18%), Positives = 34/74 (45%), Gaps = 1/74 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V+D   +  ++   +K   + +   E G++A+       K  ++ +D ++P M+G + 
Sbjct: 8   LLVEDSTSLAILYKQYVKDEPYDIFHVETGRDAIQFIERS-KPQLIILDLKLPDMSGEDV 66

Query: 89  TREIRSMGIKIKIV 102
              I    I   ++
Sbjct: 67  LDWINQNDIPTSVI 80

>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 = 67.2 bits (165), Expect = 2e-15
 Identities = 25/85 (29%), Positives = 49/85 (57%), Gaps = 1/85 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDD+  I T+    L+  G+ V  A +G+EA+    +  K D++ +D  +P ++GIE 
Sbjct: 7   LVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAETE-KPDLIVLDVMLPKLDGIEV 65

Query: 89  TREIRSMGIKIKIVGVTSLNSEAER 113
            +++R   +   I+ +T+ + E ++
Sbjct: 66  CKQLRQQKLMFPILMLTAKDEEFDK 90

>2qzj_A Two-component response regulator; 11017X, PSI-II, structural genomics; 2.89A {Clostridium difficile} Length = 136

 Score = 66.8 bits (164), Expect = 3e-15
 Identities = 16/65 (24%), Positives = 33/65 (50%), Gaps = 1/65 (1%)

Query: 29 LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
          L++D D          L+  G  +++A N +EA+    S  K+D++F++  +   +G   
Sbjct: 8  LIIDGDKDNCQKLKGFLEEKGISIDLAYNCEEAIGKIFSN-KYDLIFLEIILSDGDGWTL 66

Query: 89 TREIR 93
           ++IR
Sbjct: 67 CKKIR 71

>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 = 66.3 bits (163), Expect = 3e-15
 Identities = 23/65 (35%), Positives = 38/65 (58%), Gaps = 1/65 (1%)

Query: 29 LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
          LVVDD+  I  I    L+  G++V  A +G EAV++     + D++ +D  +P  +G+E 
Sbjct: 6  LVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMVEEL-QPDLILLDIMLPNKDGVEV 64

Query: 89 TREIR 93
           RE+R
Sbjct: 65 CREVR 69

>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 = 66.3 bits (163), Expect = 3e-15
 Identities = 22/65 (33%), Positives = 39/65 (60%), Gaps = 1/65 (1%)

Query: 29 LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
          L+VDD+  I  I    +   G++V  A NG+EA++ F +  + DI+ +D  +P ++G+E 
Sbjct: 5  LIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAE-QPDIIILDLMLPEIDGLEV 63

Query: 89 TREIR 93
           + IR
Sbjct: 64 AKTIR 68

>3cg0_A Response regulator receiver modulated diguanylate with PAS/PAC sensor; signal receiver domain, diguanylate cyclase; 2.15A {Desulfovibrio desulfuricans subsp} Length = 140

 Score = 66.8 bits (164), Expect = 3e-15
 Identities = 26/113 (23%), Positives = 50/113 (44%), Gaps = 4/113 (3%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKV-EVAENGKEAVDLFRSGAKFDIVFIDKEM-PVMNGI 86
           L+V+D         + L+SLG+ V  V +NG+EAV       + DI  +D  +   ++G+
Sbjct: 13  LIVEDGRLAAATLRIQLESLGYDVLGVFDNGEEAVRCAPD-LRPDIALVDIMLCGALDGV 71

Query: 87  EATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLME 139
           E    + +    + I+ +TS       +   +        KP++ D +   +E
Sbjct: 72  ETAARLAAGC-NLPIIFITSSQDVETFQRAKRVNPFGYLAKPVAADTLHRSIE 123

>3cg4_A Response regulator receiver domain protein (CHEY-; structural genomics, unknown function; HET: MSE; 1.61A {Methanospirillum hungatei jf-1} Length = 142

 Score = 66.4 bits (163), Expect = 4e-15
 Identities = 20/66 (30%), Positives = 33/66 (50%), Gaps = 1/66 (1%)

Query: 29 LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
          ++VDDD  +R      L   GF +  A++G + +DL +      +V +D  MP M+G + 
Sbjct: 11 MIVDDDAHVRIAVKTILSDAGFHIISADSGGQCIDLLKK-GFSGVVLLDIMMPGMDGWDT 69

Query: 89 TREIRS 94
           R I  
Sbjct: 70 IRAILD 75

>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 = 65.9 bits (162), Expect = 5e-15
 Identities = 27/104 (25%), Positives = 55/104 (52%), Gaps = 2/104 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V+D+  IR     AL+  G +V  AE  +  +    +  K D++ +D  +P  +GIE 
Sbjct: 5   LIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATR-KPDLIILDLGLPDGDGIEF 63

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVD 132
            R++R     + ++ +++ + E+++ A + AG D   +KP  + 
Sbjct: 64  IRDLRQWS-AVPVIVLSARSEESDKIAALDAGADDYLSKPFGIG 106

>3lua_A Response regulator receiver protein; two-component signal transduction system, histidine kinase, phosphorelay, receiver domain, nysgxrc; 2.40A {Clostridium thermocellum} Length = 140

 Score = 66.1 bits (162), Expect = 6e-15
 Identities = 20/106 (18%), Positives = 42/106 (39%), Gaps = 4/106 (3%)

Query: 29  LVVDDDCFIRTIHSMALKSLG-FKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPV-MNGI 86
           L++D   + R    +   ++G +     EN K+   +F+      ++ +D   PV   G+
Sbjct: 8   LLIDYFEYEREKTKIIFDNIGEYDFIEVENLKKFYSIFKDLDSITLIIMDIAFPVEKEGL 67

Query: 87  EATREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
           E    IR+        ++  T  ++   R A ++  +     KP  
Sbjct: 68  EVLSAIRNNSRTANTPVIIATKSDNPGYRHAALKFKVSDYILKPYP 113

>3heb_A Response regulator receiver domain protein (CHEY); NYSGXRC, PSI-II, respose regulator, structure initiative, structural genomics; 2.40A {Rhodospirillum rubrum} Length = 152

 Score = 66.6 bits (163), Expect = 6e-15
 Identities = 21/125 (16%), Positives = 52/125 (41%), Gaps = 12/125 (9%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEV--AENGKEAVDLFRSGAKF--------DIVFIDK 78
           ++++DD     +    ++  G   E+    +G  A++      K          +V +D 
Sbjct: 8   VMIEDDLGHARLIEKNIRRAGVNNEIIAFTDGTSALNYLFGDDKSGRVSAGRAQLVLLDL 67

Query: 79  EMPVMNGIEATREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILP 136
            +P M GI+  + ++      +  +V +T+ + + E +     G ++  TKP++ +    
Sbjct: 68  NLPDMTGIDILKLVKENPHTRRSPVVILTTTDDQREIQRCYDLGANVYITKPVNYENFAN 127

Query: 137 LMEDL 141
            +  L
Sbjct: 128 AIRQL 132

>3nhm_A Response regulator; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 2.19A {Myxococcus xanthus} Length = 133

 Score = 66.1 bits (162), Expect = 6e-15
 Identities = 22/106 (20%), Positives = 37/106 (34%), Gaps = 5/106 (4%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V++   +R    + L    F    A +G   +    +    D++  D  M  M+G   
Sbjct: 8   LIVENSWTMRETLRLLLSG-EFDCTTAADGASGLQQALA-HPPDVLISDVNMDGMDGYAL 65

Query: 89  TREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVD 132
               RS      I ++ V+      E  A  Q   D    KP+   
Sbjct: 66  CGHFRSEPTLKHIPVIFVSGYAPRTEGPAD-QPVPDAYLVKPVKPP 110

>1i3c_A Response regulator RCP1; phytochrome, signaling protein; 1.90A {Synechocystis SP} SCOP: c.23.1.1 PDB: 1jlk_A Length = 149

 Score = 66.2 bits (162), Expect = 6e-15
 Identities = 22/137 (16%), Positives = 60/137 (43%), Gaps = 12/137 (8%)

Query: 16  MENPSAKNLRLFALVVDDDCFIRTIHSMALKSLGF--KVEVAENGKEAVDLFRSGAKF-- 71
           M + S     +  L+V+D      +    LK+     ++ +  +G  A+   +   ++  
Sbjct: 1   MSDESNPPKVI--LLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFLQQQGEYEN 58

Query: 72  ----DIVFIDKEMPVMNGIEATREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCH 125
               +++ +D  +P  +G E   EI+      +I +V +T+ ++E +  A  +  ++   
Sbjct: 59  SPRPNLILLDLNLPKKDGREVLAEIKQNPDLKRIPVVVLTTSHNEDDVIASYELHVNCYL 118

Query: 126 TKPLSVDKILPLMEDLM 142
           TK  ++  +  +++ + 
Sbjct: 119 TKSRNLKDLFKMVQGIE 135

>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 = 65.5 bits (160), Expect = 6e-15
 Identities = 29/109 (26%), Positives = 53/109 (48%), Gaps = 3/109 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDD   +R I S  LK  G++V  AENG+ A++        D++ +   MPVM+G   
Sbjct: 6   LLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKLSE-FTPDLIVLXIMMPVMDGFTV 64

Query: 89  TREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
            ++++      +I ++ +T+   E +    +  G      KP S  + +
Sbjct: 65  LKKLQEKEEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKPFSPSQFI 113

>3gt7_A Sensor protein; structural genomics, signal receiver domain, kinase, PSI-2, protein structure initiative; 2.30A {Syntrophus aciditrophicus SB} Length = 154

 Score = 66.5 bits (163), Expect = 6e-15
 Identities = 26/105 (24%), Positives = 45/105 (42%), Gaps = 3/105 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V+D           L+  G++ E   NG+EAV       + D++  D  MP M+G   
Sbjct: 11  LIVEDSPTQAEHLKHILEETGYQTEHVRNGREAVRFLSL-TRPDLIISDVLMPEMDGYAL 69

Query: 89  TREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSV 131
            R ++       I ++ +T L+   +    ++ G D   TKP   
Sbjct: 70  CRWLKGQPDLRTIPVILLTILSDPRDVVRSLECGADDFITKPCKD 114

>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 = 65.2 bits (160), Expect = 9e-15
 Identities = 18/85 (21%), Positives = 39/85 (45%), Gaps = 2/85 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           ++V+D+   +          G+ V V  +G    ++ ++    D++ +D  +P  NG+  
Sbjct: 6   VIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIMQNQ-SVDLILLDINLPDENGLML 64

Query: 89  TREIRSMGIKIKIVGVTSLNSEAER 113
           TR +R     + I+ VT  +   +R
Sbjct: 65  TRALRERS-TVGIILVTGRSDRIDR 88

>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 = 65.3 bits (160), Expect = 1e-14
 Identities = 19/68 (27%), Positives = 30/68 (44%)

Query: 29 LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
          LVVDD+   R    + LKS G     A+  +EA        +  ++  D  M   +G++ 
Sbjct: 11 LVVDDNAVNREALILYLKSRGIDAVGADGAEEARLYLHYQKRIGLMITDLRMQPESGLDL 70

Query: 89 TREIRSMG 96
           R IR+  
Sbjct: 71 IRTIRASE 78

>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 = 65.3 bits (160), Expect = 1e-14
 Identities = 24/104 (23%), Positives = 46/104 (44%), Gaps = 3/104 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDD   I  +    L+  G++   A +G+E ++   +    D+V +D  M  M+G E 
Sbjct: 7   LVVDDSPMIVDVFVTMLERGGYRPITAFSGEECLEALNA-TPPDLVLLDIMMEPMDGWET 65

Query: 89  TREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLS 130
              I++      I ++ +T+     E      + ++    KP +
Sbjct: 66  LERIKTDPATRDIPVLMLTAKPLTPEEANEYGSYIEDYILKPTT 109

>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 = 64.1 bits (157), Expect = 3e-14
 Identities = 33/116 (28%), Positives = 53/116 (45%), Gaps = 11/116 (9%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
            VVDDD  IR +   AL   G      ENG E +    S    D++  D  MP M+G+  
Sbjct: 7   WVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASK-TPDVLLSDIRMPGMDGLAL 65

Query: 89  TREIRSMGIKIKIVGVTSLNS-EAEREAFMQAG----LDLCHTKPLSVDKILPLME 139
            ++I+     + ++ +T+ +  +A   A  Q G    L     KP  +D+ + L+E
Sbjct: 66  LKQIKQRHPMLPVIIMTAHSDLDAAVSA-YQQGAFDYL----PKPFDIDEAVALVE 116

>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 = 64.4 bits (157), Expect = 3e-14
 Identities = 25/132 (18%), Positives = 46/132 (34%), Gaps = 6/132 (4%)

Query: 14  KIMENPSAKNLRLFA----LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGA 69
           KI  +   +NL        LV  +D       +  +   G        G+ A  + R+  
Sbjct: 5   KIHHHHHHENLYFQGMINILVASEDASRLAHLARLVGDAGRYRVTRTVGRAAQIVQRTDG 64

Query: 70  K--FDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTK 127
              FDI+ ID        + A  ++  +   +  + VT+  S       M+AG+      
Sbjct: 65  LDAFDILMIDGAALDTAELAAIEKLSRLHPGLTCLLVTTDASSQTLLDAMRAGVRDVLRW 124

Query: 128 PLSVDKILPLME 139
           PL    +   ++
Sbjct: 125 PLEPRALDDALK 136

>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 = 66.0 bits (162), Expect = 4e-14
 Identities = 27/95 (28%), Positives = 48/95 (50%), Gaps = 5/95 (5%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDDD  +       L+  GF+V  A +G EA+       + D + +D  MPV++G+  
Sbjct: 11  LVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSATEN-RPDAIVLDINMPVLDGVSV 69

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDL 123
              +R+M   + +  +++ +S  +R     AGL+ 
Sbjct: 70  VTALRAMDNDVPVCVLSARSSVDDR----VAGLEA 100

>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 = 63.7 bits (156), Expect = 5e-14
 Identities = 21/78 (26%), Positives = 40/78 (51%), Gaps = 1/78 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRS-GAKFDIVFIDKEMPVMNGIE 87
           LV+DD+  I       L+  G +V  A +  E + +F       D+V  D +MP ++G++
Sbjct: 7   LVIDDESTILQNIKFLLEIDGNEVLTASSSTEGLRIFTENCNSIDVVITDMKMPKLSGMD 66

Query: 88  ATREIRSMGIKIKIVGVT 105
             REI+ +   + ++ +T
Sbjct: 67  ILREIKKITPHMAVIILT 84

>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 = 63.3 bits (155), Expect = 6e-14
 Identities = 27/108 (25%), Positives = 51/108 (47%), Gaps = 5/108 (4%)

Query: 29  LVVDDDCFIRTIHSMALKSL--GFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGI 86
           L+++DD     + +  L++L    K+++A N  +A DL  +  K D+V +D  M  M+G 
Sbjct: 12  LIIEDDKEFADMLTQFLENLFPYAKIKIAYNPFDAGDLLHT-VKPDVVMLDLMMVGMDGF 70

Query: 87  EATREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVD 132
                I+S      I ++ +T   ++      +  G + C  KPL+  
Sbjct: 71  SICHRIKSTPATANIIVIAMTGALTDDNVSRIVALGAETCFGKPLNFT 118

>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 = 63.3 bits (155), Expect = 6e-14
 Identities = 16/87 (18%), Positives = 35/87 (40%), Gaps = 4/87 (4%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L++D   F R      L S  + V  ++N KEA++        D+V +D ++   N    
Sbjct: 7   LIIDQQDFSRIELKNFLDS-EYLVIESKNEKEALEQIDH-HHPDLVILDMDIIGENSPNL 64

Query: 89  TREIRSMGI--KIKIVGVTSLNSEAER 113
             +++       + ++ + S   +   
Sbjct: 65  CLKLKRSKGLKNVPLILLFSSEHKEAI 91

>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 = 64.6 bits (158), Expect = 7e-14
 Identities = 30/107 (28%), Positives = 48/107 (44%), Gaps = 1/107 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
            VVDDD  +R      L+S GF+VE  +     ++  R   +   + +D  MP M+GIE 
Sbjct: 8   FVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHRRP-EQHGCLVLDMRMPGMSGIEL 66

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
             ++ ++   I IV +T+          M+AG      KP     +L
Sbjct: 67  QEQLTAISDGIPIVFITAHGDIPMTVRAMKAGAIEFLPKPFEEQALL 113

>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 = 62.9 bits (154), Expect = 8e-14
 Identities = 17/66 (25%), Positives = 33/66 (50%), Gaps = 1/66 (1%)

Query: 29 LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
          L+VDDD  +  +  + L+  G++V  A +G+EA+         D +  D  +P ++G   
Sbjct: 8  LIVDDDDTVAEMLELVLRGAGYEVRRAASGEEALQQIYK-NLPDALICDVLLPGIDGYTL 66

Query: 89 TREIRS 94
           + +R 
Sbjct: 67 CKRVRQ 72

>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 = 62.5 bits (153), Expect = 1e-13
 Identities = 32/105 (30%), Positives = 53/105 (50%), Gaps = 3/105 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVV+D+  IR +    L+  GF+   AE+   AV+        D++ +   +P  +GI+ 
Sbjct: 6   LVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNE-PWPDLILLAWMLPGGSGIQF 64

Query: 89  TREIR--SMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSV 131
            + +R  SM   I +V +T+   E +R   ++ G D C TKP S 
Sbjct: 65  IKHLRRESMTRDIPVVMLTARGEEEDRVRGLETGADDCITKPFSP 109

>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 = 62.5 bits (153), Expect = 1e-13
 Identities = 24/94 (25%), Positives = 40/94 (42%), Gaps = 4/94 (4%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAE--NGKEAVDLFRSGAKFDIVFIDKEMPVMNGI 86
           +++DD           L     ++ +AE   G  AV    +  K DIV ID ++P +NGI
Sbjct: 5   IIIDDHPLAIAAIRNLLIKNDIEI-LAELTEGGSAVQRVET-LKPDIVIIDVDIPGVNGI 62

Query: 87  EATREIRSMGIKIKIVGVTSLNSEAEREAFMQAG 120
           +    +R       I+ V++ N     +    AG
Sbjct: 63  QVLETLRKRQYSGIIIIVSAKNDHFYGKHCADAG 96

>3cu5_A Two component transcriptional regulator, ARAC FAM; structural genomics, protein structure initiative; 2.60A {Clostridium phytofermentans isdg} Length = 141

 Score = 62.6 bits (153), Expect = 1e-13
 Identities = 20/77 (25%), Positives = 38/77 (49%), Gaps = 4/77 (5%)

Query: 29  LVVDDDCFIRT--IHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNG 85
           L+VDD+   R   I ++  K+L F  ++ A++G  A+ +       +++  D  MP M+G
Sbjct: 6   LIVDDEKLTRDGLIANINWKALSFDQIDQADDGINAIQIALK-HPPNVLLTDVRMPRMDG 64

Query: 86  IEATREIRSMGIKIKIV 102
           IE    I  +     ++
Sbjct: 65  IELVDNILKLYPDCSVI 81

>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 = 63.2 bits (154), Expect = 3e-13
 Identities = 36/112 (32%), Positives = 59/112 (52%), Gaps = 3/112 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKV-EVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           L+ +D+  IR   +  L+  G+++   A +G+EAV+L     K D+V +D +MP  +GI+
Sbjct: 17  LIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAEL-HKPDLVIMDVKMPRRDGID 75

Query: 88  ATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLME 139
           A  EI S  I   IV +T+ +     E    AG      KP S+  ++P +E
Sbjct: 76  AASEIASKRI-APIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIE 126

>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 = 62.9 bits (154), Expect = 4e-13
 Identities = 22/85 (25%), Positives = 39/85 (45%), Gaps = 4/85 (4%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
            VVDDD  I    S  L+ LG  V+    G++ ++       F +V +D  +P  +G E 
Sbjct: 6   AVVDDDKNILKKVSEKLQQLGR-VKTFLTGEDFLNDEE---AFHVVVLDVMLPDYSGYEI 61

Query: 89  TREIRSMGIKIKIVGVTSLNSEAER 113
            R I+    +  ++ +T L+ +   
Sbjct: 62  CRMIKETRPETWVILLTLLSDDESV 86

>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 = 26/99 (26%), Positives = 46/99 (46%), Gaps = 13/99 (13%)

Query: 29  LVVDDDCFIRTIHSMALKSL-----GFKVEVAE--NGKEAVDLFRSGAKFDIVFIDKEMP 81
           ++ +D   +R     A+  L      F++ +A+  NG +A+ L       ++V +D EMP
Sbjct: 7   IIAEDQNMLR----QAMVQLIKLHGDFEI-LADTDNGLDAMKLIEE-YNPNVVILDIEMP 60

Query: 82  VMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAG 120
            M G+E   EIR   + IK++ VT+       E  +   
Sbjct: 61  GMTGLEVLAEIRKKHLNIKVIIVTTFKRPGYFEKAVVND 99

>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 = 63.6 bits (155), Expect = 5e-13
 Identities = 19/113 (16%), Positives = 45/113 (39%), Gaps = 6/113 (5%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKV-EVAENGKEAVDLFRSGAKFDIVFIDKEMP-VMNGI 86
           L+++D+  I       ++ LG  V ++A    EA++         +V  D ++    +GI
Sbjct: 164 LIIEDEPVIAADIEALVRELGHDVTDIAATRGEALEAVTR-RTPGLVLADIQLADGSSGI 222

Query: 87  EATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLME 139
           +A ++I      + ++ +T+           +       TKP   + +   + 
Sbjct: 223 DAVKDILGRMD-VPVIFITAFPERLLTG--ERPEPTFLITKPFQPETVKAAIG 272

>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 = 61.0 bits (149), Expect = 7e-13
 Identities = 24/93 (25%), Positives = 44/93 (47%), Gaps = 7/93 (7%)

Query: 16  MENPSAKNLRLFALVVDDDCFIRTIHSMALKSL-GFKVEVAE--NGKEAVDLFRSGAKFD 72
           M NP  + +R+  +V DD    R     AL       V V E  +G  A++L ++    D
Sbjct: 8   MSNPQPEKVRV--VVGDDHPLFREGVVRALSLSGSVNV-VGEADDGAAALELIKAHLP-D 63

Query: 73  IVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT 105
           +  +D  MP M+G +    +RS  +  +++ ++
Sbjct: 64  VALLDYRMPGMDGAQVAAAVRSYELPTRVLLIS 96

>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 = 8e-13
 Identities = 33/104 (31%), Positives = 53/104 (50%), Gaps = 5/104 (4%)

Query: 29  LVVDDDCFIRTIHSMALKSL-GFKV-EVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGI 86
           ++VDD   +R   +  +K+L  FKV   A NG+EA+D   +    D++ +D EMPVM+G+
Sbjct: 17  MIVDDAAMMRLYIASFIKTLPDFKVVAQAANGQEALDKLAAQPNVDLILLDIEMPVMDGM 76

Query: 87  EATREIRSMGIKIKIVGVTSLNSEAEREAF--MQAGLDLCHTKP 128
           E  R  +    + KI  ++S+       A    + G D    KP
Sbjct: 77  EFLRHAKLK-TRAKICMLSSVAVSGSPHAARARELGADGVVAKP 119

>3sy8_A ROCR; TIM barrel phosphodiesterase-A, transcription regulator; HET: EPE; 2.50A {Pseudomonas aeruginosa} Length = 400

 Score = 62.7 bits (153), Expect = 1e-12
 Identities = 26/104 (25%), Positives = 43/104 (41%), Gaps = 6/104 (5%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           LV++D+ F R +   ALK +    +  A +GKEAV +  S    DI   D +M  M+G+ 
Sbjct: 7   LVLEDEPFQRLVAVTALKKVVPGSILEAADGKEAVAILESCGHVDIAICDLQMSGMDGLA 66

Query: 88  ATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSV 131
             R     G    ++  +            QA + +     L+ 
Sbjct: 67  FLRHASLSGKVHSVILSS-----EVDPILRQATISMIECLGLNF 105

>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 = 59.9 bits (145), Expect = 1e-12
 Identities = 22/125 (17%), Positives = 55/125 (44%), Gaps = 10/125 (8%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEV--AENGKEAVDLFRSGAKF------DIVFIDKEM 80
            +V+D+     +   AL +     EV    +G EA+   R   ++      D++ +   +
Sbjct: 6   FLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEYANASRPDLILLXLNL 65

Query: 81  PVMNGIEATREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLM 138
           P  +G E   EI+S     +I +V +++  +E +        ++   TK  ++ ++  ++
Sbjct: 66  PKKDGREVLAEIKSDPTLKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQLFQIV 125

Query: 139 EDLMK 143
           + + +
Sbjct: 126 KGIEE 130

>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 = 61.5 bits (150), Expect = 1e-12
 Identities = 14/98 (14%), Positives = 29/98 (29%), Gaps = 5/98 (5%)

Query: 29  LVVDDDCFIRTIHSMALKS-LGFKVEVAE--NGKEAVDLFRSGAKFDIVFIDKEMPVMNG 85
            ++ D C    +   AL+S L   +E+          +   S     ++ ID      + 
Sbjct: 11  RMLSDVCMQSRLLKEALESKLPLALEITPFSELWLEENKPES-RSIQMLVIDYSRISDDV 69

Query: 86  IEATREIRSMGIK-IKIVGVTSLNSEAEREAFMQAGLD 122
           +      + +     K V +        +  F    L 
Sbjct: 70  LTDYSSFKHISCPDAKEVIINCPQDIEHKLLFKWNNLA 107

>3q9s_A DNA-binding response regulator; DNA binding protein; 2.40A {Deinococcus radiodurans} Length = 249

 Score = 61.8 bits (151), Expect = 2e-12
 Identities = 16/66 (24%), Positives = 32/66 (48%), Gaps = 1/66 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LV++DD  I  +  M L   G+ V+ A++    +   R     D++ +D  +P  +G + 
Sbjct: 41  LVIEDDHDIANVLRMDLTDAGYVVDHADSAMNGLIKARED-HPDLILLDLGLPDFDGGDV 99

Query: 89  TREIRS 94
            + +R 
Sbjct: 100 VQRLRK 105

>4e7p_A Response regulator; DNA binding, cytosol, transcription regulator; 1.89A {Streptococcus pneumoniae} PDB: 4e7o_A Length = 150

 Score = 59.9 bits (146), Expect = 2e-12
 Identities = 28/84 (33%), Positives = 40/84 (47%), Gaps = 13/84 (15%)

Query: 29  LVVDDDCFIRTIHSMALKSL-----GFKVEVAE--NGKEAVDLFRSGAKFDIVFIDKEMP 81
           LV +D   +R     A+  L       +  V +  NG+EA+ L       DI  +D EMP
Sbjct: 24  LVAEDQSMLRD----AMCQLLTLQPDVES-VLQAKNGQEAIQLLEK-ESVDIAILDVEMP 77

Query: 82  VMNGIEATREIRSMGIKIKIVGVT 105
           V  G+E    IRS  ++ K+V VT
Sbjct: 78  VKTGLEVLEWIRSEKLETKVVVVT 101

>2rjn_A Response regulator receiver:metal-dependent phosphohydrolase, HD subdomain; structural genomics, oceanospirillum SP. MED92; 2.10A {Neptuniibacter caesariensis} Length = 154

 Score = 59.9 bits (146), Expect = 2e-12
 Identities = 22/121 (18%), Positives = 46/121 (38%), Gaps = 8/121 (6%)

Query: 18  NPSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFID 77
           + + KN  +  ++VDD+  I       +K LG  +    +  +A++  +      +V  D
Sbjct: 2   SLNYKNYTV--MLVDDEQPILNSLKRLIKRLGCNIITFTSPLDALEALKGT-SVQLVISD 58

Query: 78  KEMPVMNGIEATREIRSMG---IKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKI 134
             MP M G     ++        ++ I G      +A  +A  +  +     KP   + +
Sbjct: 59  MRMPEMGGEVFLEQVAKSYPDIERVVISGYADA--QATIDAVNRGKISRFLLKPWEDEDV 116

Query: 135 L 135
            
Sbjct: 117 F 117

>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 = 61.0 bits (149), Expect = 4e-12
 Identities = 28/106 (26%), Positives = 52/106 (49%), Gaps = 10/106 (9%)

Query: 29  LVVDDDCFIRTIHSMALKSL-GFKV-EVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGI 86
           L VDD   +R I +  + S    ++   A +   A DL +     D++ +D EMP M+G+
Sbjct: 7   LSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIKK-FNPDVLTLDVEMPRMDGL 65

Query: 87  EATREIRSMGIK-IKIVGVTSLNSEAEREAF--MQAG-LDLCHTKP 128
           +   ++  M ++ + +V V+SL  +        ++ G +D   TKP
Sbjct: 66  DFLEKL--MRLRPMPVVMVSSLTGKGSEVTLRALELGAID-FVTKP 108

>3hv2_A Response regulator/HD domain protein; PSI-2, NYSGXRC, structural genomics, protein structure initiative; 1.50A {Pseudomonas fluorescens pf-5} Length = 153

 Score = 59.1 bits (144), Expect = 4e-12
 Identities = 16/65 (24%), Positives = 26/65 (40%), Gaps = 1/65 (1%)

Query: 29 LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
          L+VD    I       L  L + +  A +  +A+ L  S  + D+V     +P M+G   
Sbjct: 18 LLVDSQEVILQRLQQLLSPLPYTLHFARDATQALQLLASR-EVDLVISAAHLPQMDGPTL 76

Query: 89 TREIR 93
             I 
Sbjct: 77 LARIH 81

>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 = 58.3 bits (142), Expect = 4e-12
 Identities = 16/67 (23%), Positives = 32/67 (47%), Gaps = 2/67 (2%)

Query: 29 LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEM-PVMNGIE 87
          L+V+ D  +      AL+  GF V+   +GK +V+  R   + D+V +  ++    NG  
Sbjct: 9  LIVESDTALSATLRSALEGRGFTVDETTDGKGSVEQIRR-DRPDLVVLAVDLSAGQNGYL 67

Query: 88 ATREIRS 94
             +++ 
Sbjct: 68 ICGKLKK 74

>2qsj_A DNA-binding response regulator, LUXR family; structural genomics, PSI-2, protein structure initiative; 2.10A {Silicibacter pomeroyi dss-3} Length = 154

 Score = 58.7 bits (143), Expect = 5e-12
 Identities = 16/94 (17%), Positives = 34/94 (36%), Gaps = 2/94 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAE--NGKEAVDLFRSGAKFDIVFIDKEMPVMNGI 86
           L+VDD   IR      L+     + V       +A+    +    D++ +D  +P    I
Sbjct: 7   LIVDDHHLIRAGAKNLLEGAFSGMRVEGAETVSDALAFLEADNTVDLILLDVNLPDAEAI 66

Query: 87  EATREIRSMGIKIKIVGVTSLNSEAEREAFMQAG 120
           +    ++       +  ++         A ++AG
Sbjct: 67  DGLVRLKRFDPSNAVALISGETDHELIRAALEAG 100

>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 = 59.8 bits (146), Expect = 6e-12
 Identities = 27/95 (28%), Positives = 52/95 (54%), Gaps = 5/95 (5%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVV+D+  +  + + ALK   F V+V  +G+E + +  +   FD+V +D  +PV +G E 
Sbjct: 6   LVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMALNEP-FDVVILDIMLPVHDGWEI 64

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDL 123
            + +R  G+   ++ +T+L+    R      GL++
Sbjct: 65  LKSMRESGVNTPVLMLTALSDVEYRV----KGLNM 95

>3cz5_A Two-component response regulator, LUXR family; structural genomics, protein structure initiative; 2.70A {Aurantimonas SP} Length = 153

 Score = 58.7 bits (143), Expect = 6e-12
 Identities = 28/80 (35%), Positives = 41/80 (51%), Gaps = 5/80 (6%)

Query: 29  LVVDDDCFIRTIHSMALKSL-GFKVEVAE--NGKEAVDLFRSGAKFDIVFIDKEMPVMNG 85
           ++VDD   +R  +   ++   G+ V VAE  +  EA  L+R     DIV +D  +P   G
Sbjct: 9   MLVDDHPIVREGYRRLIERRPGYAV-VAEAADAGEAYRLYRETTP-DIVVMDLTLPGPGG 66

Query: 86  IEATREIRSMGIKIKIVGVT 105
           IEATR IR      +I+  T
Sbjct: 67  IEATRHIRQWDGAARILIFT 86

>3kcn_A Adenylate cyclase homolog; SGX, PSI 2, structural genomics, protein structure initiative; 2.45A {Rhodopirellula baltica} Length = 151

 Score = 58.4 bits (142), Expect = 6e-12
 Identities = 21/65 (32%), Positives = 32/65 (49%), Gaps = 1/65 (1%)

Query: 29 LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
          L+VDDD  +       L S  F+V   E+G EA+   +    F ++ +D  MP M G E 
Sbjct: 8  LLVDDDYSLLNTLKRNL-SFDFEVTTCESGPEALACIKKSDPFSVIMVDMRMPGMEGTEV 66

Query: 89 TREIR 93
           ++ R
Sbjct: 67 IQKAR 71

>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 = 57.1 bits (139), Expect = 1e-11
 Identities = 29/102 (28%), Positives = 51/102 (50%), Gaps = 5/102 (4%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVV+D+  +R    + ++  G +V+ AE+ KEA          DI  +D  +P  +G+  
Sbjct: 4   LVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHI-PDIAIVDLGLPDEDGLSL 62

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLD--LCHTKP 128
            R  RS  + + I+ +T+  S  ++   + AG D  +  TKP
Sbjct: 63  IRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYV--TKP 102

>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 = 58.6 bits (143), Expect = 2e-11
 Identities = 23/81 (28%), Positives = 40/81 (49%), Gaps = 5/81 (6%)

Query: 29  LVVDDDCFIRTIHSMALKSL-GFKVEVAE--NGKEAVDLFRSGAKFDIVFIDKEMPVMNG 85
           L++DD   +RT     +       V V E  NG++ ++L  S    D++ +D  MP MNG
Sbjct: 9   LLIDDHPMLRTGVKQLISMAPDITV-VGEASNGEQGIELAES-LDPDLILLDLNMPGMNG 66

Query: 86  IEATREIRSMGIKIKIVGVTS 106
           +E   ++R   +  +IV  + 
Sbjct: 67  LETLDKLREKSLSGRIVVFSV 87

>3c3w_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 2.20A {Mycobacterium tuberculosis} Length = 225

 Score = 58.3 bits (142), Expect = 2e-11
 Identities = 22/81 (27%), Positives = 38/81 (46%), Gaps = 5/81 (6%)

Query: 29  LVVDDDCFIRTIHSMALKSL-GFKVEVAE--NGKEAVDLFRSGAKFDIVFIDKEMPVMNG 85
            +VDD   +R      L +     V V E  +  EA+    + A+ D+  +D  +P  NG
Sbjct: 5   FLVDDHEVVRRGLVDLLGADPELDV-VGEAGSVAEAMARVPA-ARPDVAVLDVRLPDGNG 62

Query: 86  IEATREIRSMGIKIKIVGVTS 106
           IE  R++ S    ++ + +TS
Sbjct: 63  IELCRDLLSRMPDLRCLILTS 83

>3t8y_A CHEB, chemotaxis response regulator protein-glutamate methylesterase; CHEA, hydrolase; 1.90A {Thermotoga maritima} Length = 164

 Score = 57.3 bits (139), Expect = 2e-11
 Identities = 32/96 (33%), Positives = 49/96 (51%), Gaps = 6/96 (6%)

Query: 29  LVVDDDCFIRTIHSMALKSL-GFKV-EVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGI 86
           LVVDD  F+R +    + S    KV   A++G EAV+      K D++ +D EMP +NGI
Sbjct: 29  LVVDDSAFMRMVLKDIIDSQPDMKVVGFAKDGLEAVEKAIE-LKPDVITMDIEMPNLNGI 87

Query: 87  EATREIRSMGIKIKIVGVTSLNSEAEREAF--MQAG 120
           EA + I       +++ V+SL  E        ++ G
Sbjct: 88  EALKLIMKKA-PTRVIMVSSLTEEGAAITIEALRNG 122

>2qv0_A Protein MRKE; structural genomics, transcription, PSI-2, protein structure initiative; 2.40A {Klebsiella pneumoniae} Length = 143

 Score = 55.7 bits (135), Expect = 6e-11
 Identities = 16/80 (20%), Positives = 36/80 (45%), Gaps = 3/80 (3%)

Query: 28  ALVVDDDCFIRTIHSMALKSLGF--KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNG 85
            ++V+D+   +   S  + +      V   ++G + +   +   K D +F+D  +P ++G
Sbjct: 12  VIIVEDEFLAQQELSWLINTHSQMEIVGSFDDGLDVLKFLQH-NKVDAIFLDINIPSLDG 70

Query: 86  IEATREIRSMGIKIKIVGVT 105
           +   + I     K  IV +T
Sbjct: 71  VLLAQNISQFAHKPFIVFIT 90

>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 = 54.5 bits (132), Expect = 1e-10
 Identities = 17/81 (20%), Positives = 39/81 (48%), Gaps = 6/81 (7%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEV---AENGKEAVDLFRSGAKFDIVFIDKEMPVMNG 85
            + DD+  + ++    + S    +EV   A NG++ + +     + DI+ +D  MP ++G
Sbjct: 6   CIADDNRELVSLLDEYISSQP-DMEVIGTAYNGQDCLQMLEE-KRPDILLLDIIMPHLDG 63

Query: 86  IEATREIRS-MGIKIKIVGVT 105
           +     IR+    +  ++ +T
Sbjct: 64  LAVLERIRAGFEHQPNVIMLT 84

>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 = 54.1 bits (131), Expect = 3e-10
 Identities = 21/77 (27%), Positives = 36/77 (46%), Gaps = 1/77 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
            ++DDD  +R      L+  GF V    +  EA+    +     IV  D  MP M+G+  
Sbjct: 7   FLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSAD-FAGIVISDIRMPGMDGLAL 65

Query: 89  TREIRSMGIKIKIVGVT 105
            R+I ++   + ++ VT
Sbjct: 66  FRKILALDPDLPMILVT 82

>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 = 52.9 bits (128), Expect = 4e-10
 Identities = 18/77 (23%), Positives = 36/77 (46%), Gaps = 1/77 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
            +VDD+  +R   +  L   GF V++ ++ +  +          ++  D  MP M+G+E 
Sbjct: 7   HIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPDVR-NGVLVTDLRMPDMSGVEL 65

Query: 89  TREIRSMGIKIKIVGVT 105
            R +  + I I  + +T
Sbjct: 66  LRNLGDLKINIPSIVIT 82

>2qr3_A Two-component system response regulator; structural genomics, signal receiver, PSI-2, protein structu initiative; 1.80A {Bacteroides fragilis} Length = 140

 Score = 53.0 bits (128), Expect = 7e-10
 Identities = 14/71 (19%), Positives = 27/71 (38%), Gaps = 6/71 (8%)

Query: 29 LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPV-----M 83
          ++VDD+  + T   + LK+   KV    +      + R     ++V +D           
Sbjct: 7  IIVDDNKGVLTAVQLLLKNHFSKVITLSSPVSLSTVLREE-NPEVVLLDMNFTSGINNGN 65

Query: 84 NGIEATREIRS 94
           G+    EI+ 
Sbjct: 66 EGLFWLHEIKR 76

>2jk1_A HUPR, hydrogenase transcriptional regulatory protein HU; nucleotide-binding, transcription regulation; 2.10A {Rhodobacter capsulatus} PDB: 2vui_B 2vuh_B Length = 139

 Score = 52.1 bits (126), Expect = 1e-09
 Identities = 16/65 (24%), Positives = 30/65 (46%), Gaps = 2/65 (3%)

Query: 29 LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
          L+VDD+        +AL+   F V  A+  + A+ +        ++  D+ MP   G++ 
Sbjct: 5  LLVDDEPHSLAAMKLALED-DFDVLTAQGAEAAIAILEEEW-VQVIICDQRMPGRTGVDF 62

Query: 89 TREIR 93
            E+R
Sbjct: 63 LTEVR 67

>2hqr_A Putative transcriptional regulator; phosporylation-independent response regulator, H. pylori, SY dimer, signaling protein; NMR {Helicobacter pylori} Length = 223

 Score = 52.1 bits (126), Expect = 4e-09
 Identities = 13/95 (13%), Positives = 32/95 (33%), Gaps = 9/95 (9%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+++ +  +       L   GF  +V E+ ++   L      +D+V     +   N +  
Sbjct: 4   LLIEKNSVLGGEIEKGLNVKGFMADVTESLEDGEYLMDIRN-YDLVM----VSDKNALSF 58

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDL 123
              I+     I ++  +   +  E         + 
Sbjct: 59  VSRIKEKHSSIVVLVSSDNPTSEEE----VHAFEQ 89

>2pln_A HP1043, response regulator; signaling protein; 1.80A {Helicobacter pylori} PDB: 2hqo_A Length = 137

 Score = 47.9 bits (115), Expect = 4e-08
 Identities = 13/95 (13%), Positives = 32/95 (33%), Gaps = 9/95 (9%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+++ +  +       L   GF  +V E+ ++   L      +D+V     +   N +  
Sbjct: 22  LLIEKNSVLGGEIEKGLNVKGFMADVTESLEDGEYLMDIRN-YDLVM----VSDKNALSF 76

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDL 123
              I+     I ++  +   +  E         + 
Sbjct: 77  VSRIKEKHSSIVVLVSSDNPTSEEE----VHAFEQ 107

>1qo0_D AMIR; binding protein, gene regulator, receptor; 2.25A {Pseudomonas aeruginosa} SCOP: c.23.1.3 Length = 196

 Score = 46.2 bits (109), Expect = 4e-07
 Identities = 23/118 (19%), Positives = 43/118 (36%), Gaps = 7/118 (5%)

Query: 22  KNLR-LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEM 80
            +LR L  LV++    +     + L  +G  V       EA D        D+VF     
Sbjct: 8   GSLRELQVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAFD-----VPVDVVFTSIFQ 62

Query: 81  PVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLM 138
              +   A   + +   +  +V +    S A     ++       T+PL   ++LP++
Sbjct: 63  NRHHDEIA-ALLAAGTPRTTLVALVEYESPAVLSQIIELECHGVITQPLDAHRVLPVL 119

>3kto_A Response regulator receiver protein; PSI-II,structural genomics, protein structure initiative; 1.98A {Pseudoalteromonas atlantica T6C} Length = 136

 Score = 44.9 bits (107), Expect = 6e-07
 Identities = 12/79 (15%), Positives = 26/79 (32%), Gaps = 3/79 (3%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMP--VMNGI 86
            +VD     R   S  L  L   ++   + +  +    S      + I+  +     +GI
Sbjct: 10  YLVDHQKDARAALSKLLSPLDVTIQCFASAESFMRQQISDD-AIGMIIEAHLEDKKDSGI 68

Query: 87  EATREIRSMGIKIKIVGVT 105
           E    +   G  +  + + 
Sbjct: 69  ELLETLVKRGFHLPTIVMA 87

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	99.95
3f6p_A	120	Transcriptional regulatory protein YYCF; unphospho	99.94
3t6k_A	136	Response regulator receiver; flavodoxin-like, stru	99.94
3h1g_A	129	Chemotaxis protein CHEY homolog; sulfate-bound CHE	99.93
2lpm_A	123	Two-component response regulator; transcription re	99.93
1dbw_A	126	Transcriptional regulatory protein FIXJ; doubly wo	99.93
1srr_A	124	SPO0F, sporulation response regulatory protein; as	99.93
3eod_A	130	Protein HNR; response regulator, phosphoprotein, t	99.93
3rqi_A	184	Response regulator protein; structural genomics, s	99.93
3crn_A	132	Response regulator receiver domain protein, CHEY-;	99.93
3hdg_A	137	Uncharacterized protein; two-component sensor acti	99.93
3gt7_A	154	Sensor protein; structural genomics, signal receiv	99.93
4e7p_A	150	Response regulator; DNA binding, cytosol, transcri	99.93
3hv2_A	153	Response regulator/HD domain protein; PSI-2, NYSGX	99.93
2pl1_A	121	Transcriptional regulatory protein PHOP; CHEY-like	99.93
3hdv_A	136	Response regulator; PSI-II, structural genomics, P	99.93
1zgz_A	122	Torcad operon transcriptional regulatory protein;	99.92
1tmy_A	120	CHEY protein, TMY; chemotaxis, phosphoryl transfer	99.92
3jte_A	143	Response regulator receiver protein; structural ge	99.92
3hzh_A	157	Chemotaxis response regulator (CHEY-3); phosphatas	99.92
3m6m_D	143	Sensory/regulatory protein RPFC; RPFF, REC, enoyl-	99.92
3kto_A	136	Response regulator receiver protein; PSI-II,struct	99.92
2r25_B	133	Osmosensing histidine protein kinase SLN1; alpha5-	99.92
3r0j_A	250	Possible two component system response transcript	99.92
3f6c_A	134	Positive transcription regulator EVGA; structural	99.92
3snk_A	135	Response regulator CHEY-like protein; P-loop conta	99.92
3b2n_A	133	Uncharacterized protein Q99UF4; structural genomic	99.92
3cfy_A	137	Putative LUXO repressor protein; structural genomi	99.92
4dad_A	146	Putative pilus assembly-related protein; response	99.92
3i42_A	127	Response regulator receiver domain protein (CHEY-	99.92
1xhf_A	123	DYE resistance, aerobic respiration control protei	99.92
1jbe_A	128	Chemotaxis protein CHEY; signaling protein; 1.08A	99.92
3lua_A	140	Response regulator receiver protein; two-component	99.92
3grc_A	140	Sensor protein, kinase; protein structure initiati	99.92
3eul_A	152	Possible nitrate/nitrite response transcriptional	99.92
1mvo_A	136	PHOP response regulator; phosphate regulon, transc	99.92
2a9o_A	120	Response regulator; essential protein, YYCF/YYCG h	99.91
3kht_A	144	Response regulator; PSI-II, 11023K, structural gen	99.91
1dz3_A	130	Stage 0 sporulation protein A; response regulator,	99.91
1mb3_A	124	Cell division response regulator DIVK; signal tran	99.91
2qzj_A	136	Two-component response regulator; 11017X, PSI-II,	99.91
3heb_A	152	Response regulator receiver domain protein (CHEY);	99.91
3cnb_A	143	DNA-binding response regulator, MERR family; signa	99.91
2qxy_A	142	Response regulator; regulation of transcription, N	99.91
1p6q_A	129	CHEY2; chemotaxis, signal transduction, response r	99.91
3kcn_A	151	Adenylate cyclase homolog; SGX, PSI 2, structural	99.91
2jba_A	127	Phosphate regulon transcriptional regulatory PROT;	99.91
3ilh_A	146	Two component response regulator; NYSGXRC, PSI-II,	99.91
3lte_A	132	Response regulator; structural genomics, PSI, prot	99.91
3mm4_A	206	Histidine kinase homolog; receiver domain, CKI1, c	99.91
3nhm_A	133	Response regulator; protein structure initiative I	99.91
2qr3_A	140	Two-component system response regulator; structura	99.91
2zay_A	147	Response regulator receiver protein; structural ge	99.91
2rjn_A	154	Response regulator receiver:metal-dependent phosph	99.91
3q9s_A	249	DNA-binding response regulator; DNA binding protei	99.91
3cg0_A	140	Response regulator receiver modulated diguanylate	99.91
1kgs_A	225	DRRD, DNA binding response regulator D; DNA-bindin	99.91
1i3c_A	149	Response regulator RCP1; phytochrome, signaling pr	99.91
3luf_A	259	Two-component system response regulator/ggdef doma	99.91
3h5i_A	140	Response regulator/sensory box protein/ggdef domai	99.91
1zh2_A	121	KDP operon transcriptional regulatory protein KDPE	99.9
1k68_A	140	Phytochrome response regulator RCPA; phosphorylate	99.9
1a04_A	215	Nitrate/nitrite response regulator protein NARL; s	99.9
3cg4_A	142	Response regulator receiver domain protein (CHEY-;	99.9
2ayx_A	254	Sensor kinase protein RCSC; two independent struct	99.9
1k66_A	149	Phytochrome response regulator RCPB; CHEY homologu	99.9
3a10_A	116	Response regulator; phosphoacceptor, signaling pro	99.9
3cz5_A	153	Two-component response regulator, LUXR family; str	99.9
1yio_A	208	Response regulatory protein; transcription regulat	99.9
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	99.9
3cu5_A	141	Two component transcriptional regulator, ARAC FAM;	99.9
1qkk_A	155	DCTD, C4-dicarboxylate transport transcriptional r	99.9
3c3m_A	138	Response regulator receiver protein; structural ge	99.9
3n0r_A	286	Response regulator; sigma factor, receiver, two-co	99.9
2gkg_A	127	Response regulator homolog; social motility, recei	99.9
1s8n_A	205	Putative antiterminator; RV1626, structural genomi	99.9
1dcf_A	136	ETR1 protein; beta-alpha five sandwich, transferas	99.89
3n53_A	140	Response regulator receiver modulated diguanylate;	99.89
2oqr_A	230	Sensory transduction protein REGX3; response regul	99.89
2qsj_A	154	DNA-binding response regulator, LUXR family; struc	99.89
2jk1_A	139	HUPR, hydrogenase transcriptional regulatory prote	99.89
1ys7_A	233	Transcriptional regulatory protein PRRA; response	99.89
3eqz_A	135	Response regulator; structural genomics, unknown f	99.89
3eq2_A	394	Probable two-component response regulator; adaptor	99.89
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	99.88
2pln_A	137	HP1043, response regulator; signaling protein; 1.8	99.88
2qvg_A	143	Two component response regulator; NYSGXRC, PSI-2,	99.88
2rdm_A	132	Response regulator receiver protein; structural ge	99.88
2gwr_A	238	DNA-binding response regulator MTRA; two-component	99.88
1p2f_A	220	Response regulator; DRRB, OMPR/PHOB, transcription	99.88
3t8y_A	164	CHEB, chemotaxis response regulator protein-glutam	99.88
3c3w_A	225	Two component transcriptional regulatory protein;	99.88
2j48_A	119	Two-component sensor kinase; pseudo-receiver, circ	99.88
2qv0_A	143	Protein MRKE; structural genomics, transcription,	99.88
3c97_A	140	Signal transduction histidine kinase; structural g	99.87
1w25_A	459	Stalked-cell differentiation controlling protein;	99.87
3kyj_B	145	CHEY6 protein, putative histidine protein kinase;	99.87
3klo_A	225	Transcriptional regulator VPST; REC domain, HTH do	99.87
1dc7_A	124	NTRC, nitrogen regulation protein; receiver domain	99.85
2hqr_A	223	Putative transcriptional regulator; phosporylation	99.85
3sy8_A	400	ROCR; TIM barrel phosphodiesterase-A, transcriptio	99.85
2b4a_A	138	BH3024; flavodoxin-like fold, structural genomics,	99.85
3bre_A	358	Probable two-component response regulator; protein	99.85
1qo0_D	196	AMIR; binding protein, gene regulator, receptor; 2	99.84
1a2o_A	349	CHEB methylesterase; bacterial chemotaxis, adaptat	99.82
2vyc_A	755	Biodegradative arginine decarboxylase; pyridoxal p	99.81
3luf_A	259	Two-component system response regulator/ggdef doma	99.76
3cwo_X	237	Beta/alpha-barrel protein based on 1THF and 1TMY;	99.38
1w25_A	459	Stalked-cell differentiation controlling protein;	99.22
3q7r_A	121	Transcriptional regulatory protein; CHXR, receiver	98.43
3n75_A	715	LDC, lysine decarboxylase, inducible; pyridoxal-5'	98.4
2yxb_A	161	Coenzyme B12-dependent mutase; alpha/beta, structu	98.05
2ayx_A	254	Sensor kinase protein RCSC; two independent struct	97.87
1ccw_A	137	Protein (glutamate mutase); coenzyme B12, radical	97.54
3cwo_X	237	Beta/alpha-barrel protein based on 1THF and 1TMY;	96.95
3ezx_A	215	MMCP 1, monomethylamine corrinoid protein 1; N ter	96.77
2i2x_B	258	MTAC, methyltransferase 1; TIM barrel and helix bu	96.73
1req_A	727	Methylmalonyl-COA mutase; isomerase, intramolecula	96.67
2xij_A	762	Methylmalonyl-COA mutase, mitochondrial; isomerase	96.66
3q58_A	229	N-acetylmannosamine-6-phosphate 2-epimerase; TIM b	96.63
1y80_A	210	Predicted cobalamin binding protein; corrinoid, fa	96.47
3igs_A	232	N-acetylmannosamine-6-phosphate 2-epimerase 2; ene	96.36
1xrs_B	262	D-lysine 5,6-aminomutase beta subunit; TIM barrel,	96.3
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	96.23
1wv2_A	265	Thiazole moeity, thiazole biosynthesis protein THI	95.75
2htm_A	268	Thiazole biosynthesis protein THIG; thiamin biosyn	95.55
3o63_A	243	Probable thiamine-phosphate pyrophosphorylase; thi	95.31
3kp1_A	763	D-ornithine aminomutase E component; 5 aminomutase	95.25
3qja_A	272	IGPS, indole-3-glycerol phosphate synthase; struct	94.7
3qz6_A	261	HPCH/HPAI aldolase; structural genomics, PSI-biolo	94.5
3bul_A	579	Methionine synthase; transferase, reactivation con	94.49
2ekc_A	262	AQ_1548, tryptophan synthase alpha chain; structur	94.39
3f4w_A	211	Putative hexulose 6 phosphate synthase; humps, mal	94.33
3l9w_A	413	Glutathione-regulated potassium-efflux system Pro	93.84
2q5c_A	196	NTRC family transcriptional regulator; structural	93.66
1r8j_A	289	KAIA; circadian clock protein; 2.03A {Synechococcu	93.51
1qop_A	268	Tryptophan synthase alpha chain; lyase, carbon-oxy	93.11
3rht_A	259	(gatase1)-like protein; structural genomics, PSI-b	93.04
3fwz_A	140	Inner membrane protein YBAL; TRKA-N domain, E.coli	92.99
3tsm_A	272	IGPS, indole-3-glycerol phosphate synthase; struct	92.81
1yad_A	221	Regulatory protein TENI; TIM barrel, transcription	91.83
2v5j_A	287	2,4-dihydroxyhept-2-ENE-1,7-dioic acid aldolase; l	90.55
3tqv_A	287	Nicotinate-nucleotide pyrophosphorylase; glycosylt	90.55
2v82_A	212	2-dehydro-3-deoxy-6-phosphogalactonate aldolase; l	90.51
3inp_A	246	D-ribulose-phosphate 3-epimerase; IDP02542, isomer	90.24
1ujp_A	271	Tryptophan synthase alpha chain; riken structural	89.99
1req_B	637	Methylmalonyl-COA mutase; isomerase, intramolecula	89.99
4e38_A	232	Keto-hydroxyglutarate-aldolase/keto-deoxy-phospho	89.84
2gek_A	406	Phosphatidylinositol mannosyltransferase (PIMA); G	89.82
3s83_A	259	Ggdef family protein; structural genomics, PSI-bio	89.73
2lci_A	134	Protein OR36; structural genomics, northeast struc	89.72
3vnd_A	267	TSA, tryptophan synthase alpha chain; psychrophili	89.72
2vws_A	267	YFAU, 2-keto-3-deoxy sugar aldolase; lyase, escher	89.39
4fxs_A	496	Inosine-5'-monophosphate dehydrogenase; structural	89.32
3nav_A	271	Tryptophan synthase alpha chain; alpha subunit, st	89.05
2xci_A	374	KDO-transferase, 3-deoxy-D-manno-2-octulosonic aci	88.94
2l69_A	134	Rossmann 2X3 fold protein; structural genomics, no	88.74
4e5v_A	281	Putative THUA-like protein; THUA-like proteins, tr	88.61
4avf_A	490	Inosine-5'-monophosphate dehydrogenase; oxidoreduc	88.47
1geq_A	248	Tryptophan synthase alpha-subunit; hyperthermophIl	88.38
3dr5_A	221	Putative O-methyltransferase; Q8NRD3, CGL1119, PF0	88.32
1xi3_A	215	Thiamine phosphate pyrophosphorylase; structural g	88.26
4fo4_A	366	Inosine 5'-monophosphate dehydrogenase; structural	87.91
1qpo_A	284	Quinolinate acid phosphoribosyl transferase; type	87.67
3lab_A	217	Putative KDPG (2-keto-3-deoxy-6-phosphogluconate)	87.52
3l0g_A	300	Nicotinate-nucleotide pyrophosphorylase; ssgcid, N	87.48
1dxe_A	256	2-dehydro-3-deoxy-galactarate aldolase; class II a	87.43
3gnn_A	298	Nicotinate-nucleotide pyrophosphorylase; decode bi	87.4
3gnn_A	298	Nicotinate-nucleotide pyrophosphorylase; decode bi	87.08
3usb_A	511	Inosine-5'-monophosphate dehydrogenase; structural	86.96
1wa3_A	205	2-keto-3-deoxy-6-phosphogluconate aldolase; KDPG,	86.56
4af0_A	556	Inosine-5'-monophosphate dehydrogenase; oxidoreduc	86.5
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	86.41
3ceu_A	210	Thiamine phosphate pyrophosphorylase; TIM barrel-l	86.33
3r2g_A	361	Inosine 5'-monophosphate dehydrogenase; structural	86.29
3llv_A	141	Exopolyphosphatase-related protein; NAD(P)-binding	86.25
3paj_A	320	Nicotinate-nucleotide pyrophosphorylase, carboxyl;	85.8
1lnq_A	336	MTHK channels, potassium channel related protein;	85.54
3ajx_A	207	3-hexulose-6-phosphate synthase; HPS, OMPDC supraf	85.53
1vc4_A	254	Indole-3-glycerol phosphate synthase; lyase, trypt	85.51
3tfw_A	248	Putative O-methyltransferase; PSI-biology, nysgrc,	85.36
2ift_A	201	Putative methylase HI0767; NESG, Y767_haein, struc	85.28
1y0e_A	223	Putative N-acetylmannosamine-6-phosphate 2-epimer;	85.01
3l4e_A	206	Uncharacterized peptidase LMO0363; hypothetical pr	85.01
2tps_A	227	Protein (thiamin phosphate synthase); thiamin bios	84.75
3l0g_A	300	Nicotinate-nucleotide pyrophosphorylase; ssgcid, N	84.3
1qdl_B	195	Protein (anthranilate synthase (TRPG-SUBUNIT)); tr	84.27
1izc_A	339	Macrophomate synthase intermolecular diels-aldera;	84.22
1zh8_A	340	Oxidoreductase; TM0312, structural genomics, JO ce	84.07
3ged_A	247	Short-chain dehydrogenase/reductase SDR; SCOR, ros	84.05
3ezy_A	344	Dehydrogenase; structural genomics, unknown functi	83.74
2gjl_A	328	Hypothetical protein PA1024; 2-nitropropane dioxyg	83.68
1i1q_B	192	Anthranilate synthase component II; tryptophan bio	83.63
3paj_A	320	Nicotinate-nucleotide pyrophosphorylase, carboxyl;	83.54
3ec7_A	357	Putative dehydrogenase; alpha-beta, structural gen	83.48
3o07_A	291	Pyridoxine biosynthesis protein SNZ1; (beta/alpha)	83.4
2z6i_A	332	Trans-2-enoyl-ACP reductase II; fatty acid synthes	83.28
3vk5_A	286	MOEO5; TIM barrel, transferase; HET: FPQ; 1.39A {S	83.13
4gx0_A	565	TRKA domain protein; membrane protein, ION channel	83.0
3snr_A	362	Extracellular ligand-binding receptor; structural	83.0
1xm3_A	264	Thiazole biosynthesis protein THIG; structural gen	82.75
3sc6_A	287	DTDP-4-dehydrorhamnose reductase; RFBD, structural	82.33
1qpo_A	284	Quinolinate acid phosphoribosyl transferase; type	82.16
3tqv_A	287	Nicotinate-nucleotide pyrophosphorylase; glycosylt	82.05
3sz8_A	285	2-dehydro-3-deoxyphosphooctonate aldolase 2; ssgci	81.98
2fli_A	220	Ribulose-phosphate 3-epimerase; (beta/alpha)8-barr	81.73
1o4u_A	285	Type II quinolic acid phosphoribosyltransferase; s	81.57
1yxy_A	234	Putative N-acetylmannosamine-6-phosphate 2-epimer;	81.45
1h1y_A	228	D-ribulose-5-phosphate 3-epimerase; oxidative pent	81.39
3gjy_A	317	Spermidine synthase; APC62791, structural genomics	81.32
4hkt_A	331	Inositol 2-dehydrogenase; structural genomics, nys	81.0
3bo9_A	326	Putative nitroalkan dioxygenase; TM0800, structura	80.98
3rc1_A	350	Sugar 3-ketoreductase; sugar biosynthesis, TDP bin	80.75
2w6r_A	266	Imidazole glycerol phosphate synthase subunit HISF	80.73
2fpo_A	202	Methylase YHHF; structural genomics, putative meth	80.33
3kts_A	192	Glycerol uptake operon antiterminator regulatory;	80.14

>3to5_A CHEY homolog; alpha(5)beta(5), chemotaxis, FLIM, phosphorylation, motor AC signaling protein; 1.65A {Vibrio cholerae}

Probab=99.97  E-value=3.4e-30  Score=166.08  Aligned_cols=121  Identities=26%  Similarity=0.413  Sum_probs=112.1

Q ss_pred             cCCceEEEEeCcHHHHHHHHHHHHHcCCe-EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcc
Q 048318           23 NLRLFALVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKI   99 (145)
Q Consensus        23 ~~~~~iLii~~~~~~~~~l~~~L~~~g~~-v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~   99 (145)
                      +++++||||||++..+..++..|+..||. +..+.++.+|++.+.. ..||+|++|+.||+++|+++++.+|+.  .+++
T Consensus        10 ~k~~rILiVDD~~~~r~~l~~~L~~~G~~~v~~a~~g~~al~~~~~-~~~DlillD~~MP~mdG~el~~~ir~~~~~~~i   88 (134)
T 3to5_A           10 NKNMKILIVDDFSTMRRIVKNLLRDLGFNNTQEADDGLTALPMLKK-GDFDFVVTDWNMPGMQGIDLLKNIRADEELKHL   88 (134)
T ss_dssp             CTTCCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHH-HCCSEEEEESCCSSSCHHHHHHHHHHSTTTTTC
T ss_pred             CCCCEEEEEeCCHHHHHHHHHHHHHcCCcEEEEECCHHHHHHHHHh-CCCCEEEEcCCCCCCCHHHHHHHHHhCCCCCCC
Confidence            45678999999999999999999999997 6689999999999987 679999999999999999999999974  4689


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |||++|+..+.+....+++.|+++|+.||++.++|..+|++++++
T Consensus        89 pvI~lTa~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~l~R  133 (134)
T 3to5_A           89 PVLMITAEAKREQIIEAAQAGVNGYIVKPFTAATLKEKLDKIFER  133 (134)
T ss_dssp             CEEEEESSCCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHCC-
T ss_pred             eEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999999999998875

>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=99.95  E-value=9.1e-26  Score=142.57  Aligned_cols=118  Identities=25%  Similarity=0.410  Sum_probs=110.4

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~iv  102 (145)
                      +.+||++||++..+..++..|+..||.+..+.++.++++.+.. ..||++++|+.||+++|+++++.+++.  .+.+|+|
T Consensus         2 ~~~ILivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~al~~l~~-~~~dlvllD~~~p~~~g~~~~~~l~~~~~~~~~pii   80 (122)
T 3gl9_A            2 SKKVLLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKLSE-FTPDLIVLXIMMPVMDGFTVLKKLQEKEEWKRIPVI   80 (122)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHTT-BCCSEEEECSCCSSSCHHHHHHHHHTSTTTTTSCEE
T ss_pred             CceEEEEeCCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHHh-cCCCEEEEeccCCCCcHHHHHHHHHhcccccCCCEE
Confidence            3579999999999999999999999999999999999999987 679999999999999999999999875  3678999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      ++|+..+......+++.|+++|+.||++.++|..+++++++
T Consensus        81 ~~s~~~~~~~~~~~~~~Ga~~~l~KP~~~~~L~~~i~~~l~  121 (122)
T 3gl9_A           81 VLTAKGGEEDESLALSLGARKVMRKPFSPSQFIEEVKHLLN  121 (122)
T ss_dssp             EEESCCSHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHC
T ss_pred             EEecCCchHHHHHHHhcChhhhccCCCCHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999998875

>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=99.94  E-value=1.6e-25  Score=140.93  Aligned_cols=119  Identities=29%  Similarity=0.453  Sum_probs=111.1

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      +.+||++||++..+..++..|+..||.+..+.++.++++.+.. ..||++++|+.+|+++|.++++.+++.. ++|+|++
T Consensus         2 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~dlii~D~~~p~~~g~~~~~~lr~~~-~~~ii~~   79 (120)
T 3f6p_A            2 DKKILVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMVEE-LQPDLILLDIMLPNKDGVEVCREVRKKY-DMPIIML   79 (120)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHT-TCCSEEEEETTSTTTHHHHHHHHHHTTC-CSCEEEE
T ss_pred             CCeEEEEECCHHHHHHHHHHHHhCCEEEEEeCCHHHHHHHHhh-CCCCEEEEeCCCCCCCHHHHHHHHHhcC-CCCEEEE
Confidence            4579999999999999999999999999999999999999987 6799999999999999999999999754 7899999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhcC
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN  145 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~~  145 (145)
                      ++..+......+++.|+++|+.||++.++|..++++++++.
T Consensus        80 t~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~l~~~  120 (120)
T 3f6p_A           80 TAKDSEIDKVIGLEIGADDYVTKPFSTRELLARVKANLRRQ  120 (120)
T ss_dssp             EESSCHHHHHHHHHTTCCEEEEESCCHHHHHHHHHHHHTCC
T ss_pred             ECCCChHHHHHHHhCCcceeEcCCCCHHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999988763

>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=99.94  E-value=4.3e-25  Score=141.89  Aligned_cols=119  Identities=20%  Similarity=0.323  Sum_probs=111.4

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~iv  102 (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 679999999999999999999999974  4578999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        83 ~~t~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~l~~  124 (136)
T 3t6k_A           83 MLTAQGDISAKIAGFEAGANDYLAKPFEPQELVYRVKNILAR  124 (136)
T ss_dssp             EEECTTCHHHHHHHHHHTCSEEEETTCCHHHHHHHHHHHHHC
T ss_pred             EEecCCCHHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999999998865

>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=1.5e-24  Score=138.08  Aligned_cols=121  Identities=30%  Similarity=0.415  Sum_probs=110.3

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCe-EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKI  101 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~-v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~i  101 (145)
                      +++||++||++..+..++..|+..||. +..+.++.+++..+.....||+|++|+.||+++|+++++.+++.  .+.+|+
T Consensus         5 ~~~iLivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~a~~~~~~~~~~dlvi~D~~~p~~~g~~~~~~lr~~~~~~~~pi   84 (129)
T 3h1g_A            5 SMKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANADTKVLITDWNMPEMNGLDLVKKVRSDSRFKEIPI   84 (129)
T ss_dssp             -CCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHHCTTCCEEEECSCCSSSCHHHHHHHHHTSTTCTTCCE
T ss_pred             CcEEEEEeCCHHHHHHHHHHHHHcCCcEEEEeCCHHHHHHHHHhCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCCCeE
Confidence            467999999999999999999999996 88999999999988763469999999999999999999999974  368999


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhcC
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN  145 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~~  145 (145)
                      |++|+..+......+++.|+++|+.||++.++|..+++++++++
T Consensus        85 i~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~L~~~l~~~l~~~  128 (129)
T 3h1g_A           85 IMITAEGGKAEVITALKAGVNNYIVKPFTPQVLKEKLEVVLGTN  128 (129)
T ss_dssp             EEEESCCSHHHHHHHHHHTCCEEEESCCCHHHHHHHHHHHHCCC
T ss_pred             EEEeCCCChHHHHHHHHcCccEEEeCCCCHHHHHHHHHHHhccC
Confidence            99999999999999999999999999999999999999998753

>2lpm_A Two-component response regulator; transcription regulator; NMR {Sinorhizobium meliloti}

Probab=99.93  E-value=2.3e-27  Score=150.54  Aligned_cols=115  Identities=23%  Similarity=0.271  Sum_probs=102.6

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (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            467899999999999999999999999986 78999999999988 689999999999999999999999974  68999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++|+..+...   +.+.|+++|+.||++.++|..++.++.++
T Consensus        84 ~lTa~~~~~~---~~~~g~~~yl~KP~~~~~L~~~l~~~~~~  122 (123)
T 2lpm_A           84 FATGYGSKGL---DTRYSNIPLLTKPFLDSELEAVLVQISKE  122 (123)
T ss_dssp             CBCTTCTTSC---CSSSCSCSCBCSSSSHHHHHHHHSTTCSC
T ss_pred             EEecCccHHH---HHhCCCCcEEECCCCHHHHHHHHHHHHhh
Confidence            9998776543   34679999999999999999999887653

>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=4.8e-24  Score=134.98  Aligned_cols=119  Identities=21%  Similarity=0.288  Sum_probs=111.7

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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            3579999999999999999999999999999999999999877 579999999999999999999999988889999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++..+......+++.|+++|+.||++.++|...+++++++
T Consensus        82 s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~  121 (126)
T 1dbw_A           82 TGHGDVPMAVEAMKAGAVDFIEKPFEDTVIIEAIERASEH  121 (126)
T ss_dssp             ECTTCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHTT
T ss_pred             ECCCCHHHHHHHHHhCHHHheeCCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999998764

>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=99.93  E-value=2e-24  Score=136.24  Aligned_cols=119  Identities=23%  Similarity=0.366  Sum_probs=111.4

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      +.+||++||++..+..++..|+..||.+..+.++.+++..+.. ..||++++|+.+|+.+|.++++.+++..+.+|+|++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~~-~~~dlvl~D~~l~~~~g~~~~~~l~~~~~~~~ii~~   81 (124)
T 1srr_A            3 NEKILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTK-ERPDLVLLDMKIPGMDGIEILKRMKVIDENIRVIIM   81 (124)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHH-HCCSEEEEESCCTTCCHHHHHHHHHHHCTTCEEEEE
T ss_pred             CceEEEEeCCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHhc-cCCCEEEEecCCCCCCHHHHHHHHHHhCCCCCEEEE
Confidence            3579999999999999999999999999999999999999877 579999999999999999999999988889999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++..+......+++.|+++|+.||++.++|...+++++++
T Consensus        82 s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  121 (124)
T 1srr_A           82 TAYGELDMIQESKELGALTHFAKPFDIDEIRDAVKKYLPL  121 (124)
T ss_dssp             ESSCCHHHHHHHHHHTCCCEEESSCCHHHHHHHHHHHSCC
T ss_pred             EccCchHHHHHHHhcChHhhccCCCCHHHHHHHHHHHhcc
Confidence            9999999999999999999999999999999999988764

>3eod_A Protein HNR; response regulator, phosphoprotein, two-component regulatory system, signaling protein; 1.75A {Escherichia coli K12}

Probab=99.93  E-value=1.8e-24  Score=137.48  Aligned_cols=121  Identities=21%  Similarity=0.359  Sum_probs=106.1

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (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            35689999999999999999999999999999999999999977 67999999999999999999999999888999999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCC-CHHHHHHHHHHHHhcC
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPL-SVDKILPLMEDLMKNN  145 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~-~~~~L~~~i~~~~~~~  145 (145)
                      +++..+......+++.|+++|+.||+ +.++|...++++++++
T Consensus        85 ~t~~~~~~~~~~~~~~g~~~~l~KP~~~~~~l~~~i~~~l~~~  127 (130)
T 3eod_A           85 ISATENMADIAKALRLGVEDVLLKPVKDLNRLREMVFACLYPS  127 (130)
T ss_dssp             EECCCCHHHHHHHHHHCCSEEEESCC---CHHHHHHHHHHC--
T ss_pred             EEcCCCHHHHHHHHHcCCCEEEeCCCCcHHHHHHHHHHHhchh
Confidence            99999999999999999999999999 8999999999988753

>3rqi_A Response regulator protein; structural genomics, seattle structural genomics center for infectious disease, ssgcid; HET: PHD CIT; 1.70A {Burkholderia pseudomallei}

Probab=99.93  E-value=4.3e-25  Score=148.81  Aligned_cols=118  Identities=22%  Similarity=0.284  Sum_probs=111.6

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      +.+|||+||++..+..++..|+..||.|.++.++.+|++.+.. ..||+||+|+.||+++|+++++.+++..+.+|||++
T Consensus         7 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~dlvl~D~~lp~~~g~~~~~~l~~~~~~~~ii~l   85 (184)
T 3rqi_A            7 DKNFLVIDDNEVFAGTLARGLERRGYAVRQAHNKDEALKLAGA-EKFEFITVXLHLGNDSGLSLIAPLCDLQPDARILVL   85 (184)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHHTT-SCCSEEEECSEETTEESHHHHHHHHHHCTTCEEEEE
T ss_pred             CCeEEEEcCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhh-CCCCEEEEeccCCCccHHHHHHHHHhcCCCCCEEEE
Confidence            5689999999999999999999999999999999999999987 679999999999999999999999998889999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      |+..+......+++.|+++|+.||++.++|..+++++++
T Consensus        86 t~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~~~  124 (184)
T 3rqi_A           86 TGYASIATAVQAVKDGADNYLAKPANVESILAALQTNAS  124 (184)
T ss_dssp             ESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHTSTTHH
T ss_pred             eCCCCHHHHHHHHHhCHHHheeCCCCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999976654

>3crn_A Response regulator receiver domain protein, CHEY-; structural genomics, signal regulator receiver domain; HET: PHD; 1.58A {Methanospirillum hungatei jf-1}

Probab=99.93  E-value=4.5e-24  Score=136.32  Aligned_cols=119  Identities=23%  Similarity=0.314  Sum_probs=111.6

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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            3579999999999999999999999999999999999999987 579999999999999999999999988889999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        82 s~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~  121 (132)
T 3crn_A           82 TGYASLENSVFSLNAGADAYIMKPVNPRDLLEKIKEKLDE  121 (132)
T ss_dssp             ESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             eccccHHHHHHHHhccchhhccCCCCHHHHHHHHHHHHhc
Confidence            9999999999999999999999999999999999988764

>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=99.93  E-value=1.6e-24  Score=138.92  Aligned_cols=121  Identities=23%  Similarity=0.320  Sum_probs=113.2

Q ss_pred             cCCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           23 NLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        23 ~~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (145)
                      ..+++|||+|+++..+..++..|+..|+.+..+.+..++++.+.. ..||+||+|+.+++.+|+++++.+++..+.+|+|
T Consensus         5 ~~~~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~a~~~l~~-~~~dlvi~d~~l~~~~g~~~~~~l~~~~~~~~ii   83 (137)
T 3hdg_A            5 EVALKILIVEDDTDAREWLSTIISNHFPEVWSAGDGEEGERLFGL-HAPDVIITDIRMPKLGGLEMLDRIKAGGAKPYVI   83 (137)
T ss_dssp             --CCCEEEECSCHHHHHHHHHHHHTTCSCEEEESSHHHHHHHHHH-HCCSEEEECSSCSSSCHHHHHHHHHHTTCCCEEE
T ss_pred             ccccEEEEEeCCHHHHHHHHHHHHhcCcEEEEECCHHHHHHHHhc-cCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCcEE
Confidence            346789999999999999999999999999999999999999987 5799999999999999999999999988899999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        84 ~~s~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~  125 (137)
T 3hdg_A           84 VISAFSEMKYFIKAIELGVHLFLPKPIEPGRLMETLEDFRHI  125 (137)
T ss_dssp             ECCCCCCHHHHHHHHHHCCSEECCSSCCHHHHHHHHHHHHHH
T ss_pred             EEecCcChHHHHHHHhCCcceeEcCCCCHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999998864

>3gt7_A Sensor protein; structural genomics, signal receiver domain, kinase, PSI-2, protein structure initiative; 2.30A {Syntrophus aciditrophicus SB}

Probab=99.93  E-value=5.7e-24  Score=139.30  Aligned_cols=120  Identities=23%  Similarity=0.272  Sum_probs=112.1

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcC--CcceE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMG--IKIKI  101 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~--~~~~i  101 (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            45789999999999999999999999999999999999999987 6799999999999999999999999863  68999


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |++++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        85 i~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~~  127 (154)
T 3gt7_A           85 ILLTILSDPRDVVRSLECGADDFITKPCKDVVLASHVKRLLSG  127 (154)
T ss_dssp             EEEECCCSHHHHHHHHHHCCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EEEECCCChHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999998864

>4e7p_A Response regulator; DNA binding, cytosol, transcription regulator; 1.89A {Streptococcus pneumoniae} PDB: 4e7o_A

Probab=99.93  E-value=5.3e-24  Score=138.71  Aligned_cols=123  Identities=28%  Similarity=0.397  Sum_probs=113.2

Q ss_pred             ccCCceEEEEeCcHHHHHHHHHHHHHcC--CeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcc
Q 048318           22 KNLRLFALVVDDDCFIRTIHSMALKSLG--FKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKI   99 (145)
Q Consensus        22 ~~~~~~iLii~~~~~~~~~l~~~L~~~g--~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~   99 (145)
                      ...+++|||+|+++..+..++..|+..|  +.+..+.+..++++.+.. ..||+||+|+.+++.+|.++++.+++..+.+
T Consensus        17 ~~~m~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~-~~~dlii~D~~l~~~~g~~~~~~l~~~~~~~   95 (150)
T 4e7p_A           17 RGSHMKVLVAEDQSMLRDAMCQLLTLQPDVESVLQAKNGQEAIQLLEK-ESVDIAILDVEMPVKTGLEVLEWIRSEKLET   95 (150)
T ss_dssp             ---CEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHTT-SCCSEEEECSSCSSSCHHHHHHHHHHTTCSC
T ss_pred             CCCccEEEEEcCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHhhc-cCCCEEEEeCCCCCCcHHHHHHHHHHhCCCC
Confidence            3457799999999999999999999877  778899999999999987 6799999999999999999999999988899


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhcC
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN  145 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~~  145 (145)
                      |+|++++..+......+++.|+++|+.||++.++|..+|+++++++
T Consensus        96 ~ii~ls~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~~~  141 (150)
T 4e7p_A           96 KVVVVTTFKRAGYFERAVKAGVDAYVLKERSIADLMQTLHTVLEGR  141 (150)
T ss_dssp             EEEEEESCCCHHHHHHHHHTTCSEEEETTSCHHHHHHHHHHHHTTC
T ss_pred             eEEEEeCCCCHHHHHHHHHCCCcEEEecCCCHHHHHHHHHHHHcCC
Confidence            9999999999999999999999999999999999999999998753

>3hv2_A Response regulator/HD domain protein; PSI-2, NYSGXRC, structural genomics, protein structure initiative; 1.50A {Pseudomonas fluorescens pf-5}

Probab=99.93  E-value=7.7e-24  Score=138.36  Aligned_cols=120  Identities=18%  Similarity=0.210  Sum_probs=113.5

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (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            45789999999999999999999999999999999999999987 67999999999999999999999999888999999


Q ss_pred             EeCCCCHHHHHHHHHhC-CceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAG-LDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g-~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++..+......+++.| +++|+.||++.++|..+|++++++
T Consensus        92 ~s~~~~~~~~~~~~~~g~~~~~l~KP~~~~~l~~~i~~~l~~  133 (153)
T 3hv2_A           92 LTGDPDLKLIAKAINEGEIYRYLSKPWDDQELLLALRQALEH  133 (153)
T ss_dssp             ECCCCCHHHHHHHHHTTCCSEEECSSCCHHHHHHHHHHHHHH
T ss_pred             EECCCCHHHHHHHHhCCCcceEEeCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999 999999999999999999988764

>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=99.93  E-value=8.6e-24  Score=132.61  Aligned_cols=118  Identities=27%  Similarity=0.435  Sum_probs=110.9

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            368999999999999999999999999999999999999987 5799999999999999999999999887889999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|..++++++++
T Consensus        80 ~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~  118 (121)
T 2pl1_A           80 ARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRR  118 (121)
T ss_dssp             SCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHcCccceEECCCCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999988764

>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=99.93  E-value=6.7e-24  Score=135.85  Aligned_cols=121  Identities=26%  Similarity=0.322  Sum_probs=111.8

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc-CCcceEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM-GIKIKIV  102 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~-~~~~~iv  102 (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            357899999999999999999999999999999999999998873349999999999999999999999987 6889999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++++..+......+++.|+++|+.||++.++|..+|+++.++
T Consensus        86 ~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  127 (136)
T 3hdv_A           86 VVSGDTDVEEAVDVMHLGVVDFLLKPVDLGKLLELVNKELKI  127 (136)
T ss_dssp             EEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHC-
T ss_pred             EEeCCCChHHHHHHHhCCcceEEeCCCCHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999999998865

>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=99.92  E-value=1.4e-23  Score=131.94  Aligned_cols=118  Identities=21%  Similarity=0.368  Sum_probs=109.8

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      +.+||++|+++..+..++..|+..||.+..+.++.+++..+.. ..||++++|+.+|+.+|.++++.+++ .+.+|+|++
T Consensus         2 ~~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~-~~~dlvi~d~~l~~~~g~~~~~~l~~-~~~~~ii~~   79 (122)
T 1zgz_A            2 PHHIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIMQN-QSVDLILLDINLPDENGLMLTRALRE-RSTVGIILV   79 (122)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-SCCSEEEEESCCSSSCHHHHHHHHHT-TCCCEEEEE
T ss_pred             CcEEEEEECCHHHHHHHHHHHHHCCCeEEEecCHHHHHHHHhc-CCCCEEEEeCCCCCCChHHHHHHHHh-cCCCCEEEE
Confidence            3579999999999999999999999999999999999998887 57999999999999999999999998 678999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        80 s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~  119 (122)
T 1zgz_A           80 TGRSDRIDRIVGLEMGADDYVTKPLELRELVVRVKNLLWR  119 (122)
T ss_dssp             ESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             ECCCChhhHHHHHHhCHHHHccCCCCHHHHHHHHHHHHHH
Confidence            9999998899999999999999999999999999988764

>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=4.9e-24  Score=133.65  Aligned_cols=117  Identities=29%  Similarity=0.458  Sum_probs=108.9

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCe-EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~-v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      +++||++|+++..+..++..|+..||. +..+.++.++++.+.. ..||++++|+.+|+.+|.++++.+++..+.+|+|+
T Consensus         2 ~~~ilivdd~~~~~~~l~~~l~~~g~~vv~~~~~~~~a~~~~~~-~~~dlil~D~~l~~~~g~~~~~~l~~~~~~~~ii~   80 (120)
T 1tmy_A            2 GKRVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKE-LKPDIVTMDITMPEMNGIDAIKEIMKIDPNAKIIV   80 (120)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHH-HCCSEEEEECSCGGGCHHHHHHHHHHHCTTCCEEE
T ss_pred             CceEEEEcCcHHHHHHHHHHHhhcCcEEEEEECCHHHHHHHHHh-cCCCEEEEeCCCCCCcHHHHHHHHHhhCCCCeEEE
Confidence            467999999999999999999999999 4589999999999887 57999999999999999999999998888899999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      +++..+......+++.|+++|+.||++.++|...+++++
T Consensus        81 ~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~  119 (120)
T 1tmy_A           81 CSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKVS  119 (120)
T ss_dssp             EECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHC
T ss_pred             EeCCCCHHHHHHHHHhCcceeEeCCCCHHHHHHHHHHHh
Confidence            999999999999999999999999999999999998865

>3jte_A Response regulator receiver protein; structural genomics, nysgrc, response regulator receiver DOM target 11226E, PSI-2; 1.90A {Clostridium thermocellum atcc 27405}

Probab=99.92  E-value=1e-23  Score=136.05  Aligned_cols=120  Identities=21%  Similarity=0.301  Sum_probs=112.6

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHc-CCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRS-GAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (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 257999999999999999999999999888999999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        83 ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~~~  123 (143)
T 3jte_A           83 LTGHGDLDNAILAMKEGAFEYLRKPVTAQDLSIAINNAINR  123 (143)
T ss_dssp             EECTTCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EECCCCHHHHHHHHHhCcceeEeCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988764

>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=3.4e-24  Score=140.79  Aligned_cols=120  Identities=25%  Similarity=0.400  Sum_probs=113.1

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCC--CccEEEEecCCCCCCHHHHHHHHHhcCCcce
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGA--KFDIVFIDKEMPVMNGIEATREIRSMGIKIK  100 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~--~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~  100 (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            467899999999999999999999999998 99999999999987 5  6899999999999999999999999889999


Q ss_pred             EEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          101 IVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       101 iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (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

>3m6m_D Sensory/regulatory protein RPFC; RPFF, REC, enoyl-COA hydratase, lyase-transferase COMP; 2.50A {Xanthomonas campestris PV}

Probab=99.92  E-value=9.1e-24  Score=136.84  Aligned_cols=119  Identities=26%  Similarity=0.344  Sum_probs=106.4

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc----CCcc
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM----GIKI   99 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~----~~~~   99 (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            45789999999999999999999999999999999999999987 679999999999999999999999852    3568


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      |+|++++..+......+++.|+++|+.||++.++|...+.++..
T Consensus        92 pii~~s~~~~~~~~~~~~~~Ga~~~l~KP~~~~~L~~~l~~~~~  135 (143)
T 3m6m_D           92 PVVVLSADVTPEAIRACEQAGARAFLAKPVVAAKLLDTLADLAV  135 (143)
T ss_dssp             CEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHC-
T ss_pred             eEEEEeCCCCHHHHHHHHHcChhheeeCCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999988764

>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=1.4e-24  Score=139.30  Aligned_cols=119  Identities=14%  Similarity=0.123  Sum_probs=112.2

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCC--CCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPV--MNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~--~~~~~~~~~l~~~~~~~~iv  102 (145)
                      +.+|||+||++..+..++..|+..||.+..+.++.++++.+.. ..||+||+|+.+++  .+|+++++.+++..+.+|+|
T Consensus         6 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-~~~dlvi~D~~l~~~~~~g~~~~~~l~~~~~~~~ii   84 (136)
T 3kto_A            6 HPIIYLVDHQKDARAALSKLLSPLDVTIQCFASAESFMRQQIS-DDAIGMIIEAHLEDKKDSGIELLETLVKRGFHLPTI   84 (136)
T ss_dssp             -CEEEEECSCHHHHHHHHHHHTTSSSEEEEESSHHHHTTSCCC-TTEEEEEEETTGGGBTTHHHHHHHHHHHTTCCCCEE
T ss_pred             CCeEEEEcCCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHhc-cCCCEEEEeCcCCCCCccHHHHHHHHHhCCCCCCEE
Confidence            4689999999999999999999999999999999999998876 67999999999999  99999999999988899999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++++..+......+++.|+++|+.||++.++|..+|++++++
T Consensus        85 ~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~~~~  126 (136)
T 3kto_A           85 VMASSSDIPTAVRAMRASAADFIEKPFIEHVLVHDVQQIING  126 (136)
T ss_dssp             EEESSCCHHHHHHHHHTTCSEEEESSBCHHHHHHHHHHHHHH
T ss_pred             EEEcCCCHHHHHHHHHcChHHheeCCCCHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999999998864

>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=1.5e-23  Score=134.22  Aligned_cols=119  Identities=24%  Similarity=0.506  Sum_probs=107.5

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCe-EEEEcCHHHHHHHHHc----CCCccEEEEecCCCCCCHHHHHHHHHh-cCCc
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRS----GAKFDIVFIDKEMPVMNGIEATREIRS-MGIK   98 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~-v~~~~~~~~al~~~~~----~~~~dlvl~d~~~~~~~~~~~~~~l~~-~~~~   98 (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 7799999999998764    136999999999999999999999997 4567


Q ss_pred             ceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318           99 IKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus        99 ~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (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            899999999999999999999999999999999999999998765

>3r0j_A Possible two component system response transcript positive regulator PHOP; beta-alpha fold, winged helix-turn-helix; 2.50A {Mycobacterium tuberculosis}

Probab=99.92  E-value=7.9e-24  Score=148.85  Aligned_cols=120  Identities=32%  Similarity=0.434  Sum_probs=113.5

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (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            45789999999999999999999999999999999999999987 57999999999999999999999999888999999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++..+......+++.|+++|+.||++.++|..+|++++++
T Consensus       101 lt~~~~~~~~~~~~~~Ga~~yl~Kp~~~~~L~~~i~~~~~~  141 (250)
T 3r0j_A          101 LTARDSLQDKIAGLTLGGDDYVTKPFSLEEVVARLRVILRR  141 (250)
T ss_dssp             EECSTTHHHHHHHHTSTTCEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EECCCCHHHHHHHHHcCCcEEEeCCCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999988763

>3f6c_A Positive transcription regulator EVGA; structural genomics, PSI-2, protein structure initiative, PO transcription regulator EVGA; 1.45A {Escherichia coli k-12}

Probab=99.92  E-value=2.3e-24  Score=137.57  Aligned_cols=119  Identities=23%  Similarity=0.250  Sum_probs=109.5

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      ++||++|+++..+..++..|+..||.+. ++.++.++++.+.. ..||+|++|+.+++.+|.++++.+++..+.+|+|++
T Consensus         2 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~a~~~~~~-~~~dlii~d~~l~~~~g~~~~~~l~~~~~~~~ii~~   80 (134)
T 3f6c_A            2 LNAIIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVET-LKPDIVIIDVDIPGVNGIQVLETLRKRQYSGIIIIV   80 (134)
T ss_dssp             EEEEEECCCHHHHHHHHHHHHHTTEEEEEEESSSTTHHHHHHH-HCCSEEEEETTCSSSCHHHHHHHHHHTTCCSEEEEE
T ss_pred             eEEEEEcCCHHHHHHHHHHHhhCCcEEEEEcCCHHHHHHHHHh-cCCCEEEEecCCCCCChHHHHHHHHhcCCCCeEEEE
Confidence            6899999999999999999999999988 89999999999987 579999999999999999999999998889999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhcC
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN  145 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~~  145 (145)
                      ++..+......+++.|+++|+.||++.++|..+++++++++
T Consensus        81 s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~~  121 (134)
T 3f6c_A           81 SAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGY  121 (134)
T ss_dssp             ECC---CTHHHHHHTTCSEEEEGGGCTHHHHHHHHHHHTTC
T ss_pred             eCCCChHHHHHHHHhCCCEEEeCCCCHHHHHHHHHHHHCCC
Confidence            99998888999999999999999999999999999998763

>3snk_A Response regulator CHEY-like protein; P-loop containing nucleoside triphosphate hydrolases, struct genomics; 2.02A {Mesorhizobium loti}

Probab=99.92  E-value=4.4e-25  Score=141.43  Aligned_cols=120  Identities=15%  Similarity=0.126  Sum_probs=111.9

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcC-CeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLG-FKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g-~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (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            35689999999999999999999999 999999999999998876 6799999999999999999999999988899999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        92 ~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~L~~~i~~~~~~  133 (135)
T 3snk_A           92 AVSDELTSEQTRVLVRMNASDWLHKPLDGKELLNAVTFHDTG  133 (135)
T ss_dssp             EEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHTC--
T ss_pred             EEeCCCCHHHHHHHHHcCcHhhccCCCCHHHHHHHHHHHhcc
Confidence            999999999999999999999999999999999999998765

>3b2n_A Uncharacterized protein Q99UF4; structural genomics, PSI-2, protein structure initiative, NE SGX research center for structural genomics; 2.04A {Staphylococcus aureus}

Probab=99.92  E-value=1.5e-23  Score=134.01  Aligned_cols=119  Identities=23%  Similarity=0.333  Sum_probs=109.0

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcC--CeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLG--FKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g--~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (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            3579999999999999999999876  456689999999999877 5799999999999999999999999888899999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++++..+......+++.|+++|+.||++.++|...+++++++
T Consensus        82 ~ls~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~~  123 (133)
T 3b2n_A           82 IVTTFKRPGYFEKAVVNDVDAYVLKERSIEELVETINKVNNG  123 (133)
T ss_dssp             EEESCCCHHHHHHHHHTTCSEEEETTSCHHHHHHHHHHHHC-
T ss_pred             EEecCCCHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHcC
Confidence            999999999999999999999999999999999999988764

>3cfy_A Putative LUXO repressor protein; structural genomics, unknown function, uncharacterized protein, signal receiver domain; 2.50A {Vibrio parahaemolyticus rimd 2210633}

Probab=99.92  E-value=9.4e-24  Score=135.76  Aligned_cols=118  Identities=19%  Similarity=0.284  Sum_probs=110.7

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            479999999999999999999889999999999999999887 5799999999999999999999999888889999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|..++++++++
T Consensus        84 ~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~  122 (137)
T 3cfy_A           84 AHGSVDLAVNLIQKGAEDFLEKPINADRLKTSVALHLKR  122 (137)
T ss_dssp             SSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             ecCcHHHHHHHHHCCccEEEeCCCCHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999988754

>4dad_A Putative pilus assembly-related protein; response regulator receiver domain, CHEY-related protein, ST genomics; 2.50A {Burkholderia pseudomallei} PDB: 4dn6_A

Probab=99.92  E-value=4.1e-24  Score=138.49  Aligned_cols=123  Identities=16%  Similarity=0.125  Sum_probs=113.0

Q ss_pred             ccCCceEEEEeCcHHHHHHHHHHHHHcC-CeEEEEcCHHHHHHHHHcC-CCccEEEEecCCCCCCHHHHHHHHHhcCCcc
Q 048318           22 KNLRLFALVVDDDCFIRTIHSMALKSLG-FKVEVAENGKEAVDLFRSG-AKFDIVFIDKEMPVMNGIEATREIRSMGIKI   99 (145)
Q Consensus        22 ~~~~~~iLii~~~~~~~~~l~~~L~~~g-~~v~~~~~~~~al~~~~~~-~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~   99 (145)
                      ...+.+|||+|+++..+..++..|+..| |.+..+.+..+++..+... ..||+||+|+.+++++|+++++.+++..+.+
T Consensus        17 ~~~~~~ilivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~~~~~~~~~~~~~dlvi~D~~l~~~~g~~~~~~l~~~~~~~   96 (146)
T 4dad_A           17 FQGMINILVASEDASRLAHLARLVGDAGRYRVTRTVGRAAQIVQRTDGLDAFDILMIDGAALDTAELAAIEKLSRLHPGL   96 (146)
T ss_dssp             CGGGCEEEEECSCHHHHHHHHHHHHHHCSCEEEEECCCHHHHTTCHHHHTTCSEEEEECTTCCHHHHHHHHHHHHHCTTC
T ss_pred             cCCCCeEEEEeCCHHHHHHHHHHHhhCCCeEEEEeCCHHHHHHHHHhcCCCCCEEEEeCCCCCccHHHHHHHHHHhCCCC
Confidence            3456789999999999999999999998 9999999999888776542 4699999999999999999999999988899


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |+|++++..+......+++.|+++|+.||++.++|..+|++++++
T Consensus        97 ~ii~lt~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~~  141 (146)
T 4dad_A           97 TCLLVTTDASSQTLLDAMRAGVRDVLRWPLEPRALDDALKRAAAQ  141 (146)
T ss_dssp             EEEEEESCCCHHHHHHHHTTTEEEEEESSCCHHHHHHHHHHHHHT
T ss_pred             cEEEEeCCCCHHHHHHHHHhCCceeEcCCCCHHHHHHHHHHHHhh
Confidence            999999999999999999999999999999999999999999875

>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=99.92  E-value=5.7e-24  Score=134.68  Aligned_cols=118  Identities=21%  Similarity=0.376  Sum_probs=107.8

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~iv  102 (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 679999999999999999999999987  6789999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++++..+... ..++..|+++|+.||++.++|..+++...++
T Consensus        82 ~~s~~~~~~~-~~~~~~g~~~~l~KP~~~~~L~~~i~~~~~~  122 (127)
T 3i42_A           82 AVSGFAKNDL-GKEACELFDFYLEKPIDIASLEPILQSIEGH  122 (127)
T ss_dssp             EEECC-CTTC-CHHHHHHCSEEEESSCCHHHHHHHHHHHC--
T ss_pred             EEECCcchhH-HHHHHHhhHHheeCCCCHHHHHHHHHHhhcc
Confidence            9999888777 7889999999999999999999999987764

>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=99.92  E-value=4.3e-23  Score=129.85  Aligned_cols=117  Identities=21%  Similarity=0.359  Sum_probs=109.4

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (145)
                      .+||++|+++..+..++..|+..||.+..+.++.++++.+.. ..||++++|+.+|+.+|.++++.+++. +.+|+++++
T Consensus         4 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~~-~~~dlvi~D~~l~~~~g~~~~~~l~~~-~~~~ii~~s   81 (123)
T 1xhf_A            4 PHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSE-YDINLVIMDINLPGKNGLLLARELREQ-ANVALMFLT   81 (123)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHH-SCCSEEEECSSCSSSCHHHHHHHHHHH-CCCEEEEEE
T ss_pred             ceEEEEeCCHHHHHHHHHHHhhCCcEEEEeCCHHHHHHHHhc-CCCCEEEEcCCCCCCCHHHHHHHHHhC-CCCcEEEEE
Confidence            479999999999999999999899999999999999999987 579999999999999999999999987 688999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|..++++++++
T Consensus        82 ~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  120 (123)
T 1xhf_A           82 GRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLSR  120 (123)
T ss_dssp             SCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHHHH
Confidence            999998899999999999999999999999999988764

>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=99.92  E-value=3.6e-23  Score=131.04  Aligned_cols=119  Identities=30%  Similarity=0.412  Sum_probs=109.7

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCC-eEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHh--cCCcceE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRS--MGIKIKI  101 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~-~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~--~~~~~~i  101 (145)
                      +++||++|+++..+..++..|+..|| .+..+.++.++++.+.. ..||++++|+.+|+++|.++++.+++  ..+.+|+
T Consensus         4 ~~~ilivdd~~~~~~~l~~~l~~~~~~~v~~~~~~~~a~~~~~~-~~~dlvi~D~~l~~~~g~~l~~~l~~~~~~~~~~i   82 (128)
T 1jbe_A            4 ELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQA-GGYGFVISDWNMPNMDGLELLKTIRAXXAMSALPV   82 (128)
T ss_dssp             TCCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHTT-CCCCEEEEESCCSSSCHHHHHHHHHC--CCTTCCE
T ss_pred             ccEEEEECCCHHHHHHHHHHHHHcCCcEEEeeCCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHhhcccCCCcE
Confidence            46799999999999999999999999 68899999999999876 57999999999999999999999997  4567899


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |++++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        83 i~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~~~~  125 (128)
T 1jbe_A           83 LMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIFEK  125 (128)
T ss_dssp             EEEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EEEecCccHHHHHHHHHhCcCceeecCCCHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999988753

>3lua_A Response regulator receiver protein; two-component signal transduction system, histidine kinase, phosphorelay, receiver domain, nysgxrc; 2.40A {Clostridium thermocellum}

Probab=99.92  E-value=5.6e-24  Score=136.94  Aligned_cols=120  Identities=16%  Similarity=0.208  Sum_probs=112.4

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHH-cCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCC-CCCHHHHHHHHHh--cCCcce
Q 048318           25 RLFALVVDDDCFIRTIHSMALKS-LGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMP-VMNGIEATREIRS--MGIKIK  100 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~-~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~-~~~~~~~~~~l~~--~~~~~~  100 (145)
                      +.+|||+||++..+..++..|+. .||.+..+.++.++++.+.....||+||+|+.++ +.+|+++++.+++  ..+.+|
T Consensus         4 ~~~ilivdd~~~~~~~l~~~L~~~~~~~v~~~~~~~~a~~~l~~~~~~dlvi~D~~l~~~~~g~~~~~~l~~~~~~~~~~   83 (140)
T 3lua_A            4 DGTVLLIDYFEYEREKTKIIFDNIGEYDFIEVENLKKFYSIFKDLDSITLIIMDIAFPVEKEGLEVLSAIRNNSRTANTP   83 (140)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHHCCCEEEEECSHHHHHTTTTTCCCCSEEEECSCSSSHHHHHHHHHHHHHSGGGTTCC
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHhccCccEEEECCHHHHHHHHhcCCCCcEEEEeCCCCCCCcHHHHHHHHHhCcccCCCC
Confidence            56899999999999999999999 8999999999999999886524699999999999 9999999999998  778999


Q ss_pred             EEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          101 IVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       101 iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +|++++..+......+++.|+++|+.||++.++|..+|++++++
T Consensus        84 ii~ls~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  127 (140)
T 3lua_A           84 VIIATKSDNPGYRHAALKFKVSDYILKPYPTKRLENSVRSVLKI  127 (140)
T ss_dssp             EEEEESCCCHHHHHHHHHSCCSEEEESSCCTTHHHHHHHHHHCC
T ss_pred             EEEEeCCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999998875

>3grc_A Sensor protein, kinase; protein structure initiative II(PSI II), NYSGXRC, 11025B, structural genomics; 2.21A {Polaromonas SP}

Probab=99.92  E-value=7.1e-24  Score=136.34  Aligned_cols=119  Identities=19%  Similarity=0.307  Sum_probs=110.3

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHh--cCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRS--MGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~--~~~~~~iv  102 (145)
                      +.+|||+|+++..+..++..|+..||.+..+.++.++++.+.. ..||+||+|+.+++.+|+++++.+++  ..+.+|+|
T Consensus         6 ~~~iLivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~l~~-~~~dlvi~d~~l~~~~g~~~~~~l~~~~~~~~~~ii   84 (140)
T 3grc_A            6 RPRILICEDDPDIARLLNLMLEKGGFDSDMVHSAAQALEQVAR-RPYAAMTVDLNLPDQDGVSLIRALRRDSRTRDLAIV   84 (140)
T ss_dssp             CSEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHHHH-SCCSEEEECSCCSSSCHHHHHHHHHTSGGGTTCEEE
T ss_pred             CCCEEEEcCCHHHHHHHHHHHHHCCCeEEEECCHHHHHHHHHh-CCCCEEEEeCCCCCCCHHHHHHHHHhCcccCCCCEE
Confidence            4689999999999999999999999999999999999999987 67999999999999999999999998  56789999


Q ss_pred             EEeCCCCHHHHH-HHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAERE-AFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~-~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++++..+..... .+++.|+++|+.||++.++|..+|++++++
T Consensus        85 ~~s~~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~l~~  127 (140)
T 3grc_A           85 VVSANAREGELEFNSQPLAVSTWLEKPIDENLLILSLHRAIDN  127 (140)
T ss_dssp             EECTTHHHHHHHHCCTTTCCCEEECSSCCHHHHHHHHHHHHHH
T ss_pred             EEecCCChHHHHHHhhhcCCCEEEeCCCCHHHHHHHHHHHHHh
Confidence            999987777666 889999999999999999999999998875

>3eul_A Possible nitrate/nitrite response transcriptional regulatory protein NARL (DNA-binding...; central beta strand flanked by alpha helices; 1.90A {Mycobacterium tuberculosis}

Probab=99.92  E-value=3.9e-23  Score=134.78  Aligned_cols=123  Identities=22%  Similarity=0.263  Sum_probs=112.5

Q ss_pred             ccCCceEEEEeCcHHHHHHHHHHHHHcCCe--EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcc
Q 048318           22 KNLRLFALVVDDDCFIRTIHSMALKSLGFK--VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKI   99 (145)
Q Consensus        22 ~~~~~~iLii~~~~~~~~~l~~~L~~~g~~--v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~   99 (145)
                      ...+.+|||+|+++..+..++..|+..|+.  +..+.+..++++.+.. ..||+||+|+.+++.+|+++++.+++..+.+
T Consensus        12 ~~~~~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~~-~~~dlii~d~~l~~~~g~~~~~~l~~~~~~~   90 (152)
T 3eul_A           12 QPEKVRVVVGDDHPLFREGVVRALSLSGSVNVVGEADDGAAALELIKA-HLPDVALLDYRMPGMDGAQVAAAVRSYELPT   90 (152)
T ss_dssp             --CCEEEEEECSSHHHHHHHHHHHHHHSSEEEEEEESSHHHHHHHHHH-HCCSEEEEETTCSSSCHHHHHHHHHHTTCSC
T ss_pred             CCceEEEEEEcCCHHHHHHHHHHHhhCCCeEEEEEeCCHHHHHHHHHh-cCCCEEEEeCCCCCCCHHHHHHHHHhcCCCC
Confidence            345678999999999999999999998854  4589999999999987 5799999999999999999999999988899


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhcC
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN  145 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~~  145 (145)
                      |+|++++..+......+++.|+++|+.||++.++|..+++++++++
T Consensus        91 ~ii~~s~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~~~  136 (152)
T 3eul_A           91 RVLLISAHDEPAIVYQALQQGAAGFLLKDSTRTEIVKAVLDCAKGR  136 (152)
T ss_dssp             EEEEEESCCCHHHHHHHHHTTCSEEEETTCCHHHHHHHHHHHHHCC
T ss_pred             eEEEEEccCCHHHHHHHHHcCCCEEEecCCCHHHHHHHHHHHHcCC
Confidence            9999999999999999999999999999999999999999998753

>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=99.92  E-value=1.8e-23  Score=133.70  Aligned_cols=120  Identities=26%  Similarity=0.408  Sum_probs=110.9

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      ++.+|||+|+++..+..+...|+..||.+..+.++.+++..+.. ..||++++|+.+|+++|.++++.+++..+.+|+|+
T Consensus         2 m~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~-~~~dlvl~D~~l~~~~g~~~~~~l~~~~~~~~ii~   80 (136)
T 1mvo_A            2 MNKKILVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAET-EKPDLIVLDVMLPKLDGIEVCKQLRQQKLMFPILM   80 (136)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-HCCSEEEEESSCSSSCHHHHHHHHHHTTCCCCEEE
T ss_pred             CCCEEEEEECCHHHHHHHHHHHHHCCcEEEEecCHHHHHHHHhh-cCCCEEEEecCCCCCCHHHHHHHHHcCCCCCCEEE
Confidence            35689999999999999999999999999999999999998877 57999999999999999999999998878899999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++..+......+++.|+++|+.||++.++|...+++++++
T Consensus        81 ~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  121 (136)
T 1mvo_A           81 LTAKDEEFDKVLGLELGADDYMTKPFSPREVNARVKAILRR  121 (136)
T ss_dssp             EECTTCCCCHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHT
T ss_pred             EECCCCHHHHHHHHhCCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            99988887788899999999999999999999999988764

>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=99.91  E-value=4.3e-23  Score=129.09  Aligned_cols=117  Identities=27%  Similarity=0.443  Sum_probs=108.9

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            379999999999999999999999999999999999999877 579999999999999999999999974 678999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|..++++++++
T Consensus        80 ~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~~  118 (120)
T 2a9o_A           80 AKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLRR  118 (120)
T ss_dssp             SCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHC
T ss_pred             cCCchHHHHHHHhCCHhheEeCCCCHHHHHHHHHHHHcc
Confidence            999988889999999999999999999999999988765

>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=3.2e-23  Score=133.95  Aligned_cols=119  Identities=23%  Similarity=0.299  Sum_probs=111.5

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCe--EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHh--cCCcce
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFK--VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRS--MGIKIK  100 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~--v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~--~~~~~~  100 (145)
                      +.+|||+|+++..+..++..|+..|+.  +..+.++.++++.+.. ..||+||+|+.+++.+|+++++.+++  ..+.+|
T Consensus         5 ~~~ILivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~~-~~~dlii~D~~l~~~~g~~~~~~lr~~~~~~~~p   83 (144)
T 3kht_A            5 SKRVLVVEDNPDDIALIRRVLDRKDIHCQLEFVDNGAKALYQVQQ-AKYDLIILDIGLPIANGFEVMSAVRKPGANQHTP   83 (144)
T ss_dssp             CEEEEEECCCHHHHHHHHHHHHHTTCCEEEEEESSHHHHHHHHTT-CCCSEEEECTTCGGGCHHHHHHHHHSSSTTTTCC
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHhcCCCeeEEEECCHHHHHHHhhc-CCCCEEEEeCCCCCCCHHHHHHHHHhcccccCCC
Confidence            568999999999999999999999987  7899999999999987 67999999999999999999999998  567899


Q ss_pred             EEEEeCCCCHHHHHHHHHhCCceeecCCC-CHHHHHHHHHHHHhc
Q 048318          101 IVGVTSLNSEAEREAFMQAGLDLCHTKPL-SVDKILPLMEDLMKN  144 (145)
Q Consensus       101 iv~l~~~~~~~~~~~~~~~g~~~~l~kP~-~~~~L~~~i~~~~~~  144 (145)
                      +|++++..+......+++.|+++|+.||+ +.++|..+|++++++
T Consensus        84 ii~~s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~~l~~~i~~~l~~  128 (144)
T 3kht_A           84 IVILTDNVSDDRAKQCMAAGASSVVDKSSNNVTDFYGRIYAIFSY  128 (144)
T ss_dssp             EEEEETTCCHHHHHHHHHTTCSEEEECCTTSHHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCHHHHHHHHHcCCCEEEECCCCcHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999 999999999998864

>1dz3_A Stage 0 sporulation protein A; response regulator, domain swapping; 1.65A {Bacillus stearothermophilus} SCOP: c.23.1.1 PDB: 1qmp_A*

Probab=99.91  E-value=2.3e-23  Score=132.51  Aligned_cols=119  Identities=17%  Similarity=0.318  Sum_probs=109.0

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHc-CCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc-CCcceE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSL-GFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM-GIKIKI  101 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~-~~~~~i  101 (145)
                      +++||++||++..+..++..|+.. ||.+. .+.++.++++.+.. ..||++++|+.+|+++|+++++.+++. .+..|+
T Consensus         2 ~~~ilivdd~~~~~~~l~~~l~~~~~~~~~~~~~~~~~a~~~~~~-~~~dlvllD~~l~~~~g~~~~~~l~~~~~~~~~i   80 (130)
T 1dz3_A            2 SIKVCIADDNRELVSLLDEYISSQPDMEVIGTAYNGQDCLQMLEE-KRPDILLLDIIMPHLDGLAVLERIRAGFEHQPNV   80 (130)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHH-HCCSEEEEESCCSSSCHHHHHHHHHHHCSSCCEE
T ss_pred             ceEEEEEcCCHHHHHHHHHHHHhCCCceEEEEeCCHHHHHHHHhc-CCCCEEEEecCCCCCCHHHHHHHHHhcCCCCCcE
Confidence            468999999999999999999987 88876 89999999999877 579999999999999999999999985 567899


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |++++..+......+++.|+++|+.||++.++|...+++++++
T Consensus        81 i~ls~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~~~~  123 (130)
T 1dz3_A           81 IMLTAFGQEDVTKKAVELGASYFILKPFDMENLAHHIRQVYGK  123 (130)
T ss_dssp             EEEEETTCHHHHHHHHHTTCEEEEECSSCCTTHHHHHHHHHHC
T ss_pred             EEEecCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999999999998765

>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=2.8e-23  Score=130.76  Aligned_cols=118  Identities=23%  Similarity=0.409  Sum_probs=103.7

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKIVG  103 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~iv~  103 (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            479999999999999999999999999999999999998877 579999999999999999999999975  35789999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++..+......+++.|+++|+.||++.++|...+++++++
T Consensus        81 ~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  121 (124)
T 1mb3_A           81 VTAFAMKGDEERIREGGCEAYISKPISVVHFLETIKRLLER  121 (124)
T ss_dssp             EC------CHHHHHHHTCSEEECSSCCHHHHHHHHHHHHSC
T ss_pred             EECCCCHHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHHhc
Confidence            99988888888999999999999999999999999998765

>2qzj_A Two-component response regulator; 11017X, PSI-II, structural genomics; 2.89A {Clostridium difficile}

Probab=99.91  E-value=3.4e-23  Score=132.98  Aligned_cols=118  Identities=21%  Similarity=0.298  Sum_probs=109.8

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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 8899999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++..+......+++.|+++|+.||++.++|...+++++++
T Consensus        82 s~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~l~~~~~~  121 (136)
T 2qzj_A           82 TYINEDQSILNALNSGGDDYLIKPLNLEILYAKVKAILRR  121 (136)
T ss_dssp             ESCCCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EcCCCHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999888753

>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=6e-23  Score=133.88  Aligned_cols=120  Identities=18%  Similarity=0.321  Sum_probs=109.8

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCC--eEEEEcCHHHHHHHHH--------cCCCccEEEEecCCCCCCHHHHHHHHH
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGF--KVEVAENGKEAVDLFR--------SGAKFDIVFIDKEMPVMNGIEATREIR   93 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~--~v~~~~~~~~al~~~~--------~~~~~dlvl~d~~~~~~~~~~~~~~l~   93 (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  8999999999999985        235799999999999999999999999


Q ss_pred             h--cCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318           94 S--MGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus        94 ~--~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (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            8  5678999999999999999999999999999999999999999988764

>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=9.3e-23  Score=131.19  Aligned_cols=120  Identities=22%  Similarity=0.366  Sum_probs=111.3

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHH-cCCe-EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHh--cCCcc
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKS-LGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRS--MGIKI   99 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~-~g~~-v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~--~~~~~   99 (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            357899999999999999999999 8999 8899999999999987 57999999999999999999999998  56789


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |+|++++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        86 ~ii~~s~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~  130 (143)
T 3cnb_A           86 IVIAMTGALTDDNVSRIVALGAETCFGKPLNFTLLEKTIKQLVEQ  130 (143)
T ss_dssp             EEEEEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHT
T ss_pred             cEEEEeCCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999998865

>2qxy_A Response regulator; regulation of transcription, NYSGXRC, protein structure initiative II (PSI II), structural genomics; 1.95A {Thermotoga maritima}

Probab=99.91  E-value=4.8e-23  Score=132.74  Aligned_cols=119  Identities=24%  Similarity=0.288  Sum_probs=112.0

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (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 6799999999 999999999999999888999999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        81 ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~  121 (142)
T 2qxy_A           81 LSAYVDKDLIINSVKAGAVDYILKPFRLDYLLERVKKIISS  121 (142)
T ss_dssp             EESCCCHHHHHHHHHHTCSCEEESSCCHHHHHHHHHHHHHC
T ss_pred             EECCCCHHHHHHHHHCCcceeEeCCCCHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999998865

>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=3.6e-23  Score=131.20  Aligned_cols=119  Identities=23%  Similarity=0.396  Sum_probs=109.8

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCC-eEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKI  101 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~-~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~i  101 (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            46799999999999999999998899 78899999999999987 679999999999999999999999975  468899


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |++++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        85 i~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  127 (129)
T 1p6q_A           85 IILTAQGDRALVQKAAALGANNVLAKPFTIEKMKAAIEAVFGA  127 (129)
T ss_dssp             EECCSCCCHHHHHHHHHHTCSCEECCCSSHHHHHHHHHHHHHC
T ss_pred             EEEeCCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999988764

>3kcn_A Adenylate cyclase homolog; SGX, PSI 2, structural genomics, protein structure initiative; 2.45A {Rhodopirellula baltica}

Probab=99.91  E-value=7.9e-23  Score=133.27  Aligned_cols=120  Identities=23%  Similarity=0.301  Sum_probs=110.6

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (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 8999999999999999987334699999999999999999999999888999999


Q ss_pred             EeCCCCHHHHHHHHHhC-CceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAG-LDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g-~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++..+......++..| +++|+.||++.++|..+|.+++++
T Consensus        82 ~s~~~~~~~~~~~~~~g~~~~~l~KP~~~~~L~~~i~~~l~~  123 (151)
T 3kcn_A           82 LTGNQDLTTAMEAVNEGQVFRFLNKPCQMSDIKAAINAGIKQ  123 (151)
T ss_dssp             EECGGGHHHHHHHHHHTCCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EECCCCHHHHHHHHHcCCeeEEEcCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999 999999999999999999988764

>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=99.91  E-value=5.7e-24  Score=134.48  Aligned_cols=119  Identities=26%  Similarity=0.386  Sum_probs=110.1

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcC--CcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMG--IKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~--~~~~iv  102 (145)
                      +.+||++||++..+..++..|+..||.+..+.++.++++.+.. ..||++++|+.+|+.+|.++++.+++..  +.+|+|
T Consensus         2 ~~~ilivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~~~~-~~~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~~~ii   80 (127)
T 2jba_A            2 ARRILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNE-PWPDLILLAWMLPGGSGIQFIKHLRRESMTRDIPVV   80 (127)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHTTCSS-SCCSEEEEESEETTEEHHHHHHHHHTSTTTTTSCEE
T ss_pred             CcEEEEEcCCHHHHHHHHHHHHHCCceEEEeCCHHHHHHHHhc-cCCCEEEEecCCCCCCHHHHHHHHHhCcccCCCCEE
Confidence            4579999999999999999999999999999999999988876 5799999999999999999999999864  789999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        81 ~~s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~  122 (127)
T 2jba_A           81 MLTARGEEEDRVRGLETGADDCITKPFSPKELVARIKAVMRR  122 (127)
T ss_dssp             EEEETTHHHHHHTTCCCSCSEEEEESCCHHHHHHHHHHHHHC
T ss_pred             EEeCCCCHHHHHHHHhcCCCeEEeCCCCHHHHHHHHHHHHhc
Confidence            999998888888999999999999999999999999998865

>3ilh_A Two component response regulator; NYSGXRC, PSI-II, protein S initiative, structural genomics; 2.59A {Cytophaga hutchinsonii}

Probab=99.91  E-value=1.3e-22  Score=130.99  Aligned_cols=121  Identities=18%  Similarity=0.254  Sum_probs=111.4

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCC--eEEEEcCHHHHHHHHHcC----CCccEEEEecCCCCCCHHHHHHHHHh---
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGF--KVEVAENGKEAVDLFRSG----AKFDIVFIDKEMPVMNGIEATREIRS---   94 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~--~v~~~~~~~~al~~~~~~----~~~dlvl~d~~~~~~~~~~~~~~l~~---   94 (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  888999999999988751    36999999999999999999999998   


Q ss_pred             -cCCcceEEEEeCCCCHHHHHHHHHhC-CceeecCCCCHHHHHHHHHHHHhc
Q 048318           95 -MGIKIKIVGVTSLNSEAEREAFMQAG-LDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus        95 -~~~~~~iv~l~~~~~~~~~~~~~~~g-~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                       ..+.+|+|++++..+......++..| +++|+.||++.++|..+|++...+
T Consensus        88 ~~~~~~~ii~~t~~~~~~~~~~~~~~g~~~~~l~KP~~~~~L~~~i~~~~~~  139 (146)
T 3ilh_A           88 PMKNKSIVCLLSSSLDPRDQAKAEASDWVDYYVSKPLTANALNNLYNKVLNE  139 (146)
T ss_dssp             GGTTTCEEEEECSSCCHHHHHHHHHCSSCCEEECSSCCHHHHHHHHHHHHCC
T ss_pred             hccCCCeEEEEeCCCChHHHHHHHhcCCcceeeeCCCCHHHHHHHHHHHHHh
Confidence             56789999999999999999999999 999999999999999999988764

>3lte_A Response regulator; structural genomics, PSI, protein structure initiative, NYSG YORK structural genomix research consortium, nysgxrc; 2.00A {Bermanella marisrubri}

Probab=99.91  E-value=1.2e-22  Score=129.30  Aligned_cols=118  Identities=28%  Similarity=0.365  Sum_probs=104.1

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcC--CcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMG--IKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~--~~~~iv  102 (145)
                      +.+|||+|+++..+..++..|+..||.+.++.+..++++.+.. ..||+||+|+.+++.+|.++++.+++..  +..+|+
T Consensus         6 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-~~~dlii~d~~l~~~~g~~~~~~l~~~~~~~~~~ii   84 (132)
T 3lte_A            6 SKRILVVDDDQAMAAAIERVLKRDHWQVEIAHNGFDAGIKLST-FEPAIMTLDLSMPKLDGLDVIRSLRQNKVANQPKIL   84 (132)
T ss_dssp             -CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-TCCSEEEEESCBTTBCHHHHHHHHHTTTCSSCCEEE
T ss_pred             CccEEEEECCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHHh-cCCCEEEEecCCCCCCHHHHHHHHHhcCccCCCeEE
Confidence            5689999999999999999999999999999999999999987 6799999999999999999999999865  355666


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++..... ....+++.|+++|+.||++.++|..+|++...+
T Consensus        85 ~~~~~~~~-~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~  125 (132)
T 3lte_A           85 VVSGLDKA-KLQQAVTEGADDYLEKPFDNDALLDRIHDLVNE  125 (132)
T ss_dssp             EECCSCSH-HHHHHHHHTCCEEECSSCCHHHHHHHHHHHHC-
T ss_pred             EEeCCChH-HHHHHHHhChHHHhhCCCCHHHHHHHHHHHcCC
Confidence            55555555 788899999999999999999999999988764

>3mm4_A Histidine kinase homolog; receiver domain, CKI1, cytokinin signaling, ROS fold, CHEY-like, transferase; 2.00A {Arabidopsis thaliana} PDB: 3mmn_A

Probab=99.91  E-value=5.6e-23  Score=140.91  Aligned_cols=119  Identities=35%  Similarity=0.593  Sum_probs=106.9

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCC-eEEEEcCHHHHHHHHHcC------------CCccEEEEecCCCCCCHHHHHH
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGF-KVEVAENGKEAVDLFRSG------------AKFDIVFIDKEMPVMNGIEATR   90 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~-~v~~~~~~~~al~~~~~~------------~~~dlvl~d~~~~~~~~~~~~~   90 (145)
                      .+.+|||+||++..+..++.+|+..|| .+..+.++.+|++.+...            ..||+||+|+.||+++|+++++
T Consensus        60 ~~~~ILiVdDd~~~~~~l~~~L~~~g~~~v~~a~~~~eal~~l~~~~~~~~~~~~~~~~~~dlillD~~lp~~~G~el~~  139 (206)
T 3mm4_A           60 RGKRVLVVDDNFISRKVATGKLKKMGVSEVEQCDSGKEALRLVTEGLTQREEQGSVDKLPFDYIFMDCQMPEMDGYEATR  139 (206)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHHTTCSEEEEESSHHHHHHHHHHHHHHHHHHTCSSCCSCSEEEEESCCSSSCHHHHHH
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHcCCCeeeeeCCHHHHHHHHHhhcccccccccccCCCCCEEEEcCCCCCCCHHHHHH
Confidence            456899999999999999999999998 899999999999998752            2699999999999999999999


Q ss_pred             HHHhc----CCcceEEEEeCCC-CHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318           91 EIRSM----GIKIKIVGVTSLN-SEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus        91 ~l~~~----~~~~~iv~l~~~~-~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      .+++.    .+.+|||++++.. +......+++.|+++|+.||++  +|...|++++++
T Consensus       140 ~lr~~~~~~~~~~piI~ls~~~~~~~~~~~~~~~Ga~~~l~KP~~--~L~~~i~~~l~~  196 (206)
T 3mm4_A          140 EIRKVEKSYGVRTPIIAVSGHDPGSEEARETIQAGMDAFLDKSLN--QLANVIREIESK  196 (206)
T ss_dssp             HHHHHHHTTTCCCCEEEEESSCCCHHHHHHHHHHTCSEEEETTCT--THHHHHHHHC--
T ss_pred             HHHhhhhhcCCCCcEEEEECCCCcHHHHHHHHhCCCCEEEcCcHH--HHHHHHHHHHhh
Confidence            99974    5789999999987 7788889999999999999998  999999888764

>3nhm_A Response regulator; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 2.19A {Myxococcus xanthus}

Probab=99.91  E-value=3.1e-23  Score=132.17  Aligned_cols=117  Identities=19%  Similarity=0.226  Sum_probs=104.1

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~iv  102 (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 89999999999999999987 679999999999999999999999986  4589999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++++..+... ..++..|+++|+.||++.++|..++++++++
T Consensus        82 ~~s~~~~~~~-~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~~  122 (133)
T 3nhm_A           82 FVSGYAPRTE-GPADQPVPDAYLVKPVKPPVLIAQLHALLAR  122 (133)
T ss_dssp             EEESCCC------TTSCCCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EEeCCCcHhH-HHHhhcCCceEEeccCCHHHHHHHHHHHHhh
Confidence            9999887777 8899999999999999999999999999864

>2qr3_A Two-component system response regulator; structural genomics, signal receiver, PSI-2, protein structu initiative; 1.80A {Bacteroides fragilis}

Probab=99.91  E-value=6.5e-23  Score=131.59  Aligned_cols=119  Identities=18%  Similarity=0.124  Sum_probs=111.5

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCC-----CCCHHHHHHHHHhcCCcc
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMP-----VMNGIEATREIRSMGIKI   99 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~-----~~~~~~~~~~l~~~~~~~   99 (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            4689999999999999999999999999999999999999987 6799999999999     899999999999988899


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |+|++++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        82 ~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~~~  126 (140)
T 2qr3_A           82 PVVLFTAYADIDLAVRGIKEGASDFVVKPWDNQKLLETLLNAASQ  126 (140)
T ss_dssp             CEEEEEEGGGHHHHHHHHHTTCCEEEEESCCHHHHHHHHHHHHTC
T ss_pred             CEEEEECCCCHHHHHHHHHcCchheeeCCCCHHHHHHHHHHHHHh
Confidence            999999999988999999999999999999999999999998865

>2zay_A Response regulator receiver protein; structural genomics, NYSGXRC, target 11006U, protein structure initiative; 2.00A {Desulfuromonas acetoxidans}

Probab=99.91  E-value=5.3e-23  Score=133.26  Aligned_cols=120  Identities=16%  Similarity=0.252  Sum_probs=111.8

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHh--cCCcceE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRS--MGIKIKI  101 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~--~~~~~~i  101 (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            46789999999999999999999999999999999999999987 57999999999999999999999998  5678999


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |++++..+......+++.|+++|+.||++.++|..+|++++++
T Consensus        86 i~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~L~~~i~~~~~~  128 (147)
T 2zay_A           86 IALSGRATAKEEAQLLDMGFIDFIAKPVNAIRLSARIKRVLKL  128 (147)
T ss_dssp             EEEESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EEEeCCCCHHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999988753

>2rjn_A Response regulator receiver:metal-dependent phosphohydrolase, HD subdomain; structural genomics, oceanospirillum SP. MED92; 2.10A {Neptuniibacter caesariensis}

Probab=99.91  E-value=1.3e-22  Score=132.46  Aligned_cols=120  Identities=17%  Similarity=0.222  Sum_probs=111.9

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (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            45789999999999999999999999999999999999999987 57999999999999999999999999888999999


Q ss_pred             EeCCCCHHHHHHHHHhC-CceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAG-LDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g-~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++..+......++..| +++|+.||++.++|...+++++++
T Consensus        85 ls~~~~~~~~~~~~~~g~~~~~l~kP~~~~~L~~~i~~~~~~  126 (154)
T 2rjn_A           85 ISGYADAQATIDAVNRGKISRFLLKPWEDEDVFKVVEKGLQL  126 (154)
T ss_dssp             EECGGGHHHHHHHHHTTCCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EecCCCHHHHHHHHhccchheeeeCCCCHHHHHHHHHHHHHH
Confidence            99999888889999998 999999999999999999988753

>3q9s_A DNA-binding response regulator; DNA binding protein; 2.40A {Deinococcus radiodurans}

Probab=99.91  E-value=3.8e-23  Score=145.54  Aligned_cols=118  Identities=21%  Similarity=0.361  Sum_probs=111.6

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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 67999999999999999999999998 578999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++..+......+++.|+++|+.||++.++|..+|+.++++
T Consensus       115 t~~~~~~~~~~a~~~Ga~~yl~Kp~~~~~L~~~i~~~l~~  154 (249)
T 3q9s_A          115 TARDTVEEKVRLLGLGADDYLIKPFHPDELLARVKVQLRQ  154 (249)
T ss_dssp             ESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHCC
T ss_pred             ECCCCHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhh
Confidence            9999999999999999999999999999999999998865

>3cg0_A Response regulator receiver modulated diguanylate with PAS/PAC sensor; signal receiver domain, diguanylate cyclase; 2.15A {Desulfovibrio desulfuricans subsp}

Probab=99.91  E-value=1e-22  Score=130.65  Aligned_cols=119  Identities=22%  Similarity=0.262  Sum_probs=111.1

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCC-CCCHHHHHHHHHhcCCcceE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMP-VMNGIEATREIRSMGIKIKI  101 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~-~~~~~~~~~~l~~~~~~~~i  101 (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            467899999999999999999999999999 69999999999987 5799999999998 79999999999987 88999


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |++++..+......+++.|+++|+.||++.++|...+++++++
T Consensus        86 i~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~  128 (140)
T 3cg0_A           86 IFITSSQDVETFQRAKRVNPFGYLAKPVAADTLHRSIEMAIHK  128 (140)
T ss_dssp             EEEECCCCHHHHHHHHTTCCSEEEEESCCHHHHHHHHHHHHHH
T ss_pred             EEEecCCCHHHHHHHHhcCCCEEEeCCCCHHHHHHHHHHHHhc
Confidence            9999999999999999999999999999999999999998764

>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=99.91  E-value=4.8e-23  Score=142.23  Aligned_cols=119  Identities=25%  Similarity=0.418  Sum_probs=112.2

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      +++|||+||++..+..++..|+..||.+..+.++.+++..+.. ..||++++|+.+|+++|+++++.+++..+.+|+|++
T Consensus         2 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~-~~~dlvllD~~l~~~~g~~~~~~lr~~~~~~~ii~l   80 (225)
T 1kgs_A            2 NVRVLVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMALN-EPFDVVILDIMLPVHDGWEILKSMRESGVNTPVLML   80 (225)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-SCCSEEEEESCCSSSCHHHHHHHHHHTTCCCCEEEE
T ss_pred             CceEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEEEE
Confidence            5689999999999999999999999999999999999999887 679999999999999999999999998889999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++..+......+++.|+++|+.||++.++|..+++.++++
T Consensus        81 s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~  120 (225)
T 1kgs_A           81 TALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRALIRR  120 (225)
T ss_dssp             ESSCHHHHHHHTCCCCCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             eCCCCHHHHHHHHhCCccEEEeCCCCHHHHHHHHHHHHhh
Confidence            9999988899999999999999999999999999988764

>1i3c_A Response regulator RCP1; phytochrome, signaling protein; 1.90A {Synechocystis SP} SCOP: c.23.1.1 PDB: 1jlk_A

Probab=99.91  E-value=2e-22  Score=131.16  Aligned_cols=119  Identities=17%  Similarity=0.273  Sum_probs=108.0

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCC--eEEEEcCHHHHHHHHHcC------CCccEEEEecCCCCCCHHHHHHHHHhcC
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGF--KVEVAENGKEAVDLFRSG------AKFDIVFIDKEMPVMNGIEATREIRSMG   96 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~--~v~~~~~~~~al~~~~~~------~~~dlvl~d~~~~~~~~~~~~~~l~~~~   96 (145)
                      +++|||+||++..+..++..|+..|+  .+..+.++.++++.+...      ..||+||+|+.||+++|+++++.+++..
T Consensus         8 ~~~ILivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~~~~~~~~~~~dlillD~~lp~~~g~~l~~~l~~~~   87 (149)
T 1i3c_A            8 PKVILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFLQQQGEYENSPRPNLILLDLNLPKKDGREVLAEIKQNP   87 (149)
T ss_dssp             CEEEEEECCCHHHHHHHHHHHHSCCSCEEEEEECSHHHHHHHHTTCGGGTTCCCCSEEEECSCCSSSCHHHHHHHHHHCT
T ss_pred             CCeEEEEECCHHHHHHHHHHHHhcCCCccEEEeCCHHHHHHHHHhccccccCCCCCEEEEeCCCCCCcHHHHHHHHHhCc
Confidence            46899999999999999999998886  788999999999988641      3699999999999999999999999853


Q ss_pred             --CcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318           97 --IKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus        97 --~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                        +.+|+|++++..+......+++.|+++|+.||++.++|..+++++.+
T Consensus        88 ~~~~~piiils~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~  136 (149)
T 1i3c_A           88 DLKRIPVVVLTTSHNEDDVIASYELHVNCYLTKSRNLKDLFKMVQGIES  136 (149)
T ss_dssp             TTTTSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHH
T ss_pred             CcCCCeEEEEECCCChHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHH
Confidence              67899999999999999999999999999999999999999998765

>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=99.91  E-value=6.8e-23  Score=145.14  Aligned_cols=121  Identities=19%  Similarity=0.315  Sum_probs=110.8

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCC--cceE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGI--KIKI  101 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~--~~~i  101 (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            46789999999999999999999999999999999999999876334899999999999999999999998654  6899


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |++++..+......+++.|+++|+.||++.++|..++++++++
T Consensus       203 i~~s~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~~l~~  245 (259)
T 3luf_A          203 IGISVSDKRGLSARYLKQGANDFLNQPFEPEELQCRVSHNLEA  245 (259)
T ss_dssp             EEEECSSSSSHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EEEEccCCHHHHHHHHhcChhheEcCCCCHHHHHHHHHHHHHh
Confidence            9999999888899999999999999999999999999988753

>3h5i_A Response regulator/sensory box protein/ggdef domain protein; structural genomics, transcription, PSI-2; 1.90A {Carboxydothermus hydrogenoformans z-2901}

Probab=99.91  E-value=2.1e-23  Score=134.39  Aligned_cols=119  Identities=21%  Similarity=0.286  Sum_probs=108.9

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCC-CCHHHHHHHHHhcCCcceEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPV-MNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~-~~~~~~~~~l~~~~~~~~iv~  103 (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            4689999999999999999999999999999999999999875357999999999985 9999999999986 7899999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++..+......+++.|+++|+.||++.++|..+|++++++
T Consensus        84 ls~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~~  124 (140)
T 3h5i_A           84 LTAHTEPAVVEKIRSVTAYGYVMKSATEQVLITIVEMALRL  124 (140)
T ss_dssp             EESSSSCCCCGGGGGSCEEEEEETTCCHHHHHHHHHHHHHH
T ss_pred             EECCCCHHHHHHHHhCCCcEEEeCCCCHHHHHHHHHHHHHH
Confidence            99998887788899999999999999999999999988764

>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=99.90  E-value=9.9e-23  Score=127.60  Aligned_cols=117  Identities=23%  Similarity=0.342  Sum_probs=108.4

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            479999999999999999999999999999999999988876 57999999999999999999999995 5688999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|..++++++++
T Consensus        80 ~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~~  118 (121)
T 1zh2_A           80 ARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALRR  118 (121)
T ss_dssp             SCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHhcCCCeEEeCCcCHHHHHHHHHHHHHh
Confidence            999999899999999999999999999999999988764

>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=2.6e-22  Score=128.43  Aligned_cols=120  Identities=18%  Similarity=0.238  Sum_probs=110.6

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCC--eEEEEcCHHHHHHHHHcC------CCccEEEEecCCCCCCHHHHHHHHHhcC
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGF--KVEVAENGKEAVDLFRSG------AKFDIVFIDKEMPVMNGIEATREIRSMG   96 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~--~v~~~~~~~~al~~~~~~------~~~dlvl~d~~~~~~~~~~~~~~l~~~~   96 (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  889999999999998751      4699999999999999999999999876


Q ss_pred             --CcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318           97 --IKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus        97 --~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                        +.+|+|++++..+......+++.|+++|+.||++.++|...+++++++
T Consensus        82 ~~~~~pii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~  131 (140)
T 1k68_A           82 TLKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQLFQIVKGIEEF  131 (140)
T ss_dssp             TGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHH
T ss_pred             ccccccEEEEecCCcHHHHHHHHHhchhheecCCCCHHHHHHHHHHHHHH
Confidence              689999999999999999999999999999999999999999988764

>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=1.3e-22  Score=139.32  Aligned_cols=119  Identities=24%  Similarity=0.340  Sum_probs=110.9

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHc-CCeE-EEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSL-GFKV-EVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~-g~~v-~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (145)
                      +++|||+||++..+..++..|+.. ||.+ ..+.++.+++..+.. ..||+|++|+.||+++|+++++.+++..+.+|+|
T Consensus         5 ~~~ilivdd~~~~~~~l~~~L~~~~~~~vv~~~~~~~~al~~~~~-~~~dlvllD~~lp~~~g~~~~~~lr~~~~~~~ii   83 (215)
T 1a04_A            5 PATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAES-LDPDLILLDLNMPGMNGLETLDKLREKSLSGRIV   83 (215)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHTTCTTEEEEEEESSHHHHHHHHHH-HCCSEEEEETTSTTSCHHHHHHHHHHSCCCSEEE
T ss_pred             ceEEEEECCCHHHHHHHHHHHhcCCCcEEEEEeCCHHHHHHHHHh-cCCCEEEEeCCCCCCcHHHHHHHHHHhCCCCcEE
Confidence            468999999999999999999986 4887 589999999999887 5799999999999999999999999988899999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        84 ~ls~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~  125 (215)
T 1a04_A           84 VFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAG  125 (215)
T ss_dssp             EEECCCCHHHHHHHHHTTCSEEEETTCCHHHHHHHHHHHHHS
T ss_pred             EEECCCCHHHHHHHHHcCCcEEEeCCCCHHHHHHHHHHHHcC
Confidence            999999999999999999999999999999999999998865

>3cg4_A Response regulator receiver domain protein (CHEY-; structural genomics, unknown function; HET: MSE; 1.61A {Methanospirillum hungatei jf-1}

Probab=99.90  E-value=2.9e-23  Score=133.67  Aligned_cols=120  Identities=25%  Similarity=0.338  Sum_probs=111.4

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHh--cCCcceE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRS--MGIKIKI  101 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~--~~~~~~i  101 (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 67999999999999999999999998  6778999


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |++++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        85 i~~s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~  127 (142)
T 3cg4_A           85 VMLTAKNAPDAKMIGLQEYVVDYITKPFDNEDLIEKTTFFMGF  127 (142)
T ss_dssp             EEEECTTCCCCSSTTGGGGEEEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EEEECCCCHHHHHHHHhcCccEEEeCCCCHHHHHHHHHHHHHH
Confidence            9999988877788889999999999999999999999988753

>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=1.3e-22  Score=143.32  Aligned_cols=121  Identities=31%  Similarity=0.562  Sum_probs=113.1

Q ss_pred             cCCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           23 NLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        23 ~~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (145)
                      ..+++||++||++..+..++..|+..||.+..+.++.++++.+.. ..||+||+|+.||+++|+++++.+++..+.+|||
T Consensus       127 ~~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l~~-~~~dlvl~D~~mp~~~G~~l~~~ir~~~~~~piI  205 (254)
T 2ayx_A          127 NDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSK-NHIDIVLSDVNMPNMDGYRLTQRIRQLGLTLPVI  205 (254)
T ss_dssp             CCCCEEEEEESSHHHHHHHHHHHHHHTSEEEEECCSHHHHHHHHH-SCCSEEEEEESSCSSCCHHHHHHHHHHHCCSCEE
T ss_pred             CCCCEEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHh-CCCCEEEEcCCCCCCCHHHHHHHHHhcCCCCcEE
Confidence            346789999999999999999999999999999999999999987 5799999999999999999999999877789999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++|+..+......+++.|+++|+.||++.++|...+++++++
T Consensus       206 ~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~  247 (254)
T 2ayx_A          206 GVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTLTLYAER  247 (254)
T ss_dssp             EEESSTTSHHHHHHHHCCCEEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EEECCCCHHHHHHHHHcCCceEEECCCCHHHHHHHHHHHHHH
Confidence            999999889999999999999999999999999999887753

>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=99.90  E-value=3.2e-22  Score=129.34  Aligned_cols=121  Identities=21%  Similarity=0.279  Sum_probs=111.3

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCC--eEEEEcCHHHHHHHHHcC---------CCccEEEEecCCCCCCHHHHHHHH
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGF--KVEVAENGKEAVDLFRSG---------AKFDIVFIDKEMPVMNGIEATREI   92 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~--~v~~~~~~~~al~~~~~~---------~~~dlvl~d~~~~~~~~~~~~~~l   92 (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  899999999999998751         469999999999999999999999


Q ss_pred             HhcC--CcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318           93 RSMG--IKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus        93 ~~~~--~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++..  +.+|+|++++..+......+++.|+++|+.||++.++|...+++++++
T Consensus        85 ~~~~~~~~~~ii~~t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~  138 (149)
T 1k66_A           85 KQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEIDRLTETVQTFIKY  138 (149)
T ss_dssp             TTSTTGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHH
T ss_pred             HhCcccCCCeEEEEeCCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHHH
Confidence            9865  789999999999999999999999999999999999999999988764

>3a10_A Response regulator; phosphoacceptor, signaling protein; HET: MSE PG4; 1.63A {Thermotoga maritima} PDB: 3a0r_B* 3a0u_A*

Probab=99.90  E-value=6.3e-23  Score=127.85  Aligned_cols=114  Identities=31%  Similarity=0.451  Sum_probs=104.6

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            479999999999999999999999999999999999999987 5799999999999999999999999888889999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (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            876554  66788999999999999999999998865

>3cz5_A Two-component response regulator, LUXR family; structural genomics, protein structure initiative; 2.70A {Aurantimonas SP}

Probab=99.90  E-value=2.2e-22  Score=131.32  Aligned_cols=119  Identities=27%  Similarity=0.306  Sum_probs=111.8

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHH-cCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKS-LGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~-~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (145)
                      +++|||+|+++..+..++..|+. .||.+. .+.+..+++..+.. ..||+||+|+.+++.+|.++++.+++..+.+|+|
T Consensus         5 ~~~ILivdd~~~~~~~l~~~L~~~~~~~v~~~~~~~~~a~~~l~~-~~~dlii~D~~l~~~~g~~~~~~l~~~~~~~~ii   83 (153)
T 3cz5_A            5 TARIMLVDDHPIVREGYRRLIERRPGYAVVAEAADAGEAYRLYRE-TTPDIVVMDLTLPGPGGIEATRHIRQWDGAARIL   83 (153)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHTTSTTEEEEEEESSHHHHHHHHHT-TCCSEEEECSCCSSSCHHHHHHHHHHHCTTCCEE
T ss_pred             ccEEEEECCcHHHHHHHHHHHhhCCCcEEEEEeCCHHHHHHHHhc-CCCCEEEEecCCCCCCHHHHHHHHHHhCCCCeEE
Confidence            46899999999999999999998 799988 89999999999987 5799999999999999999999999988899999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        84 ~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~L~~~i~~~~~~  125 (153)
T 3cz5_A           84 IFTMHQGSAFALKAFEAGASGYVTKSSDPAELVQAIEAILAG  125 (153)
T ss_dssp             EEESCCSHHHHHHHHHTTCSEEEETTSCTTHHHHHHHHHTTT
T ss_pred             EEECCCCHHHHHHHHHCCCcEEEecCCCHHHHHHHHHHHHhC
Confidence            999999999999999999999999999999999999998765

>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=4.4e-23  Score=140.96  Aligned_cols=119  Identities=26%  Similarity=0.315  Sum_probs=110.8

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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            3579999999999999999999999999999999999998876 679999999999999999999999998889999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        83 s~~~~~~~~~~a~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~  122 (208)
T 1yio_A           83 TAHGDIPMTVRAMKAGAIEFLPKPFEEQALLDAIEQGLQL  122 (208)
T ss_dssp             ESCTTSCCCHHHHHTTEEEEEESSCCHHHHHHHHHHHHHH
T ss_pred             eCCCCHHHHHHHHHCCCcEEEeCCCCHHHHHHHHHHHHhh
Confidence            9998888888999999999999999999999999887753

>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=99.90  E-value=4.4e-23  Score=152.74  Aligned_cols=116  Identities=22%  Similarity=0.274  Sum_probs=111.0

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeC
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTS  106 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~  106 (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            69999999999999999999999999999999999999987 67999999999999999999999999888999999999


Q ss_pred             CCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          107 LNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       107 ~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (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            9999999999999999999999999999999998875

>3cu5_A Two component transcriptional regulator, ARAC FAM; structural genomics, protein structure initiative; 2.60A {Clostridium phytofermentans isdg}

Probab=99.90  E-value=5.5e-23  Score=132.74  Aligned_cols=118  Identities=19%  Similarity=0.270  Sum_probs=102.2

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHH--cCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKS--LGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKI  101 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~--~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~i  101 (145)
                      +.+|||+||++..+..++..|..  .||.+. .+.++.++++.+.. ..||++|+|+.+|+++|.++++.+++..+.+|+
T Consensus         2 ~~~ILivdd~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~al~~~~~-~~~dlvllD~~lp~~~g~~l~~~l~~~~~~~~i   80 (141)
T 3cu5_A            2 SLRILIVDDEKLTRDGLIANINWKALSFDQIDQADDGINAIQIALK-HPPNVLLTDVRMPRMDGIELVDNILKLYPDCSV   80 (141)
T ss_dssp             CCEEEEECSCHHHHHHHHHHCCGGGSCCSEEEEESSHHHHHHHHTT-SCCSEEEEESCCSSSCHHHHHHHHHHHCTTCEE
T ss_pred             cceEEEEeCCHHHHHHHHHHHHHccCCcEEeeecccHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhhCCCCcE
Confidence            45799999999999999999973  588877 89999999999876 579999999999999999999999988889999


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      |++++..+......+++.|+++|+.||++.++|...++++++
T Consensus        81 i~ls~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~  122 (141)
T 3cu5_A           81 IFMSGYSDKEYLKAAIKFRAIRYVEKPIDPSEIMDALKQSIQ  122 (141)
T ss_dssp             EEECCSTTTCCC------CCCEEECSSCCHHHHHHHHHHHHH
T ss_pred             EEEeCCCcHHHHHHHHhCCccEEEeCCCCHHHHHHHHHHHHH
Confidence            999998887778889999999999999999999999988775

>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=99.90  E-value=2.1e-22  Score=131.68  Aligned_cols=119  Identities=22%  Similarity=0.265  Sum_probs=111.0

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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            4679999999999999999999999999999999999998876 579999999999999999999999998889999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++..+......++..|+++|+.||++.++|...+++++++
T Consensus        82 s~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  121 (155)
T 1qkk_A           82 TGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEK  121 (155)
T ss_dssp             ECGGGHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHH
T ss_pred             ECCCChHHHHHHHhcCCCeEEeCCCCHHHHHHHHHHHHHH
Confidence            9999988999999999999999999999999999888754

>3c3m_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein struct initiative; HET: MSE; 1.70A {Methanoculleus marisnigri JR1}

Probab=99.90  E-value=3.1e-22  Score=128.63  Aligned_cols=118  Identities=21%  Similarity=0.286  Sum_probs=105.6

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKIVG  103 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~iv~  103 (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            579999999999999999999999999999999999999987 579999999999999999999999975  35789999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++..+..........|+++|+.||++.++|...+++++++
T Consensus        83 ls~~~~~~~~~~~~~~~~~~~l~KP~~~~~L~~~i~~~~~~  123 (138)
T 3c3m_A           83 LTAKPLTPEEANEYGSYIEDYILKPTTHHQLYEAIEHVLAR  123 (138)
T ss_dssp             EESSCCCHHHHHHTTTTCSEEEECCCHHHHHHHHHHHHHSC
T ss_pred             EECCCChHHHHHHhhcCHhheEeCCCCHHHHHHHHHHHHHH
Confidence            99887666555666777899999999999999999988754

>3n0r_A Response regulator; sigma factor, receiver, two-component SI transduction, signaling protein; HET: MSE GOL; 1.25A {Caulobacter vibrioides} PDB: 3t0y_A

Probab=99.90  E-value=1.5e-23  Score=150.55  Aligned_cols=116  Identities=16%  Similarity=0.223  Sum_probs=107.1

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCC-CCCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMP-VMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~-~~~~~~~~~~l~~~~~~~~iv  102 (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            45799999999999999999999999999 99999999999987 6799999999999 799999999999877 99999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++|+..+  ....++..|+++|+.||++.++|..+|.+++++
T Consensus       238 ~lT~~~~--~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~l~~  277 (286)
T 3n0r_A          238 FITAFPE--RLLTGERPEPTFLITKPFQPETVKAAIGQALFF  277 (286)
T ss_dssp             EEESCGG--GGCCSSSCCCSSEEESSCCHHHHHHHHHHHHHH
T ss_pred             EEeCCHH--HHHHHHhCCCcEEEeCCCCHHHHHHHHHHHHHh
Confidence            9999753  356688999999999999999999999998864

>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=99.90  E-value=1.8e-22  Score=127.23  Aligned_cols=118  Identities=20%  Similarity=0.272  Sum_probs=108.8

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCC-CCCHHHHHHHHHhc--CCcceE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMP-VMNGIEATREIRSM--GIKIKI  101 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~-~~~~~~~~~~l~~~--~~~~~i  101 (145)
                      +++||++|+++..+..++..|+..||.+..+.+..++++.+.. ..||++++|+.++ +.+|.++++.+++.  .+.+|+
T Consensus         5 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~-~~~dlvi~d~~~~~~~~g~~~~~~l~~~~~~~~~~i   83 (127)
T 2gkg_A            5 SKKILIVESDTALSATLRSALEGRGFTVDETTDGKGSVEQIRR-DRPDLVVLAVDLSAGQNGYLICGKLKKDDDLKNVPI   83 (127)
T ss_dssp             -CEEEEECSCHHHHHHHHHHHHHHTCEEEEECCHHHHHHHHHH-HCCSEEEEESBCGGGCBHHHHHHHHHHSTTTTTSCE
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHhcCceEEEecCHHHHHHHHHh-cCCCEEEEeCCCCCCCCHHHHHHHHhcCccccCCCE
Confidence            4589999999999999999999999999999999999999987 5799999999999 99999999999987  678999


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |++ +..+......+++.|+++|+.||++.++|..+++++++.
T Consensus        84 i~~-~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~  125 (127)
T 2gkg_A           84 VII-GNPDGFAQHRKLKAHADEYVAKPVDADQLVERAGALIGF  125 (127)
T ss_dssp             EEE-ECGGGHHHHHHSTTCCSEEEESSCCHHHHHHHHHHHHCC
T ss_pred             EEE-ecCCchhHHHHHHhCcchheeCCCCHHHHHHHHHHHHcC
Confidence            999 877888888999999999999999999999999998764

>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=99.90  E-value=1.3e-22  Score=138.56  Aligned_cols=120  Identities=30%  Similarity=0.424  Sum_probs=109.9

Q ss_pred             cCCceEEEEeCcHHHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceE
Q 048318           23 NLRLFALVVDDDCFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKI  101 (145)
Q Consensus        23 ~~~~~iLii~~~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~i  101 (145)
                      .++.+|||+||++..+..+...|+..||.+. .+.++.+++..+.. ..||+||+|+.+|+++|+++++.+++..+ .|+
T Consensus        11 ~m~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~al~~~~~-~~~dlvi~D~~~p~~~g~~~~~~l~~~~~-~pi   88 (205)
T 1s8n_A           11 AVPRRVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAEL-HKPDLVIMDVKMPRRDGIDAASEIASKRI-API   88 (205)
T ss_dssp             CCCCEEEEECSSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHH-HCCSEEEEESSCSSSCHHHHHHHHHHTTC-SCE
T ss_pred             CCCccEEEEECCHHHHHHHHHHHHHCCCEEEEEeCCHHHHHHHHhh-cCCCEEEEeCCCCCCChHHHHHHHHhcCC-CCE
Confidence            3456899999999999999999999999988 89999999999887 57999999999999999999999998665 499


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |++++..+......+++.|+++|+.||++.++|...+++++++
T Consensus        89 i~lt~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~  131 (205)
T 1s8n_A           89 VVLTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIELAVSR  131 (205)
T ss_dssp             EEEEEGGGHHHHHTTGGGSCEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHH
Confidence            9999999998899999999999999999999999999887753

>1dcf_A ETR1 protein; beta-alpha five sandwich, transferase; 2.50A {Arabidopsis thaliana} SCOP: c.23.1.2

Probab=99.89  E-value=5.7e-22  Score=126.90  Aligned_cols=118  Identities=25%  Similarity=0.374  Sum_probs=105.2

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCC-----cc
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGI-----KI   99 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~-----~~   99 (145)
                      +.+||++||++..+..++..|+..||.+..+.++.++++.+.. .. |++++|+.+|+++|.++++.+++..+     ..
T Consensus         7 ~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~-~~-dlvllD~~lp~~~g~~~~~~l~~~~~~~~~~~~   84 (136)
T 1dcf_A            7 GLKVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVSH-EH-KVVFMDVCMPGVENYQIALRIHEKFTKQRHQRP   84 (136)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHCCT-TC-SEEEEECCSSTTTTTHHHHHHHHHHC-CCSCCC
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHhc-cC-CEEEEeCCCCCCcHHHHHHHHHHhhhhccCCCc
Confidence            4689999999999999999999999999999999999998865 44 99999999999999999999984221     23


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++|++++..+......+++.|+++|+.||++.++|...+++++++
T Consensus        85 ~ii~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~l~~~~~~  129 (136)
T 1dcf_A           85 LLVALSGNTDKSTKEKCMSFGLDGVLLKPVSLDNIRDVLSDLLEP  129 (136)
T ss_dssp             EEEEEESCCSHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHSC
T ss_pred             eEEEEeCCCCHHHHHHHHHcCCCeEEECCCCHHHHHHHHHHHhch
Confidence            677899999998899999999999999999999999999998764

>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=99.89  E-value=3.4e-23  Score=133.25  Aligned_cols=118  Identities=19%  Similarity=0.212  Sum_probs=100.7

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcC--CcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMG--IKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~--~~~~iv  102 (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            468999999999999999999888 999999999999999987 5799999999999999999999999876  789999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        81 ~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  122 (140)
T 3n53_A           81 LLFSSEHKEAIVNGLHSGADDYLTKPFNRNDLLSRIEIHLRT  122 (140)
T ss_dssp             EEECC----CTTTTTTCCCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EEecCCCHHHHHHHHhcCCCeeeeCCCCHHHHHHHHHHHHhh
Confidence            999998888888899999999999999999999999998864

>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=99.89  E-value=3.6e-22  Score=138.37  Aligned_cols=119  Identities=24%  Similarity=0.421  Sum_probs=110.6

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      |+++|||+||++..+..++..|+..||.+..+.++.++++.+.. ..||++++|+.+|+++|+++++.+++. +.+|+|+
T Consensus         3 M~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~dlvllD~~l~~~~g~~~~~~l~~~-~~~~ii~   80 (230)
T 2oqr_A            3 MATSVLIVEDEESLADPLAFLLRKEGFEATVVTDGPAALAEFDR-AGADIVLLDLMLPGMSGTDVCKQLRAR-SSVPVIM   80 (230)
T ss_dssp             -CCEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHHHH-HCCSEEEEESSCSSSCHHHHHHHHHHH-CSCSEEE
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhc-cCCCEEEEECCCCCCCHHHHHHHHHcC-CCCCEEE
Confidence            35689999999999999999999999999999999999999877 579999999999999999999999985 6899999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        81 lt~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~  121 (230)
T 2oqr_A           81 VTARDSEIDKVVGLELGADDYVTKPYSARELIARIRAVLRR  121 (230)
T ss_dssp             EECCHHHHHHHHHHHHCCSCCCCSSCCHHHHHHHHHHHHTT
T ss_pred             EeCCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhh
Confidence            99998888899999999999999999999999999998865

>2qsj_A DNA-binding response regulator, LUXR family; structural genomics, PSI-2, protein structure initiative; 2.10A {Silicibacter pomeroyi dss-3}

Probab=99.89  E-value=5.1e-22  Score=129.60  Aligned_cols=120  Identities=18%  Similarity=0.249  Sum_probs=100.3

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHc-CC-eEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSL-GF-KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~-g~-~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (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 5779999999999987624699999999999999999999999988899999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        83 ~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~L~~~l~~~~~~  124 (154)
T 2qsj_A           83 LISGETDHELIRAALEAGADGFIPKSADPQVLIHAVSLILEG  124 (154)
T ss_dssp             EC-----CHHHHHHHHTTCCBBCCTTSCHHHHHHHHHHHHTT
T ss_pred             EEeCCCCHHHHHHHHHccCCEEEeCCCCHHHHHHHHHHHHcC
Confidence            999998888899999999999999999999999999998865

>2jk1_A HUPR, hydrogenase transcriptional regulatory protein HU; nucleotide-binding, transcription regulation; 2.10A {Rhodobacter capsulatus} PDB: 2vui_B 2vuh_B

Probab=99.89  E-value=1.1e-21  Score=126.05  Aligned_cols=115  Identities=21%  Similarity=0.301  Sum_probs=104.8

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeC
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTS  106 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~  106 (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            6999999999999999999875 999999999999999887 57999999999999999999999998888899999999


Q ss_pred             CCCHHHHHHHHHh-CCceeecCCCCHHHHHHHHHHHHh
Q 048318          107 LNSEAEREAFMQA-GLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       107 ~~~~~~~~~~~~~-g~~~~l~kP~~~~~L~~~i~~~~~  143 (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            8887777778775 599999999999999999988765

>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=99.89  E-value=1.6e-22  Score=140.23  Aligned_cols=119  Identities=26%  Similarity=0.408  Sum_probs=111.4

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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            4689999999999999999999999999999999999999887 579999999999999999999999988889999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        86 t~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~~  125 (233)
T 1ys7_A           86 SARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLRR  125 (233)
T ss_dssp             ECCCTTTCCCTTTTTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EcCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhh
Confidence            9998888888899999999999999999999999988764

>3eqz_A Response regulator; structural genomics, unknown function, PSI-2, protein struct initiative; 2.15A {Colwellia psychrerythraea} SCOP: c.23.1.0

Probab=99.89  E-value=1.3e-22  Score=129.40  Aligned_cols=118  Identities=19%  Similarity=0.236  Sum_probs=107.9

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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            4689999999999999999999888899999999999988766 5 9999999999999999999999998889999999


Q ss_pred             eCCCCH-----HHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSE-----AEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~-----~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++..+.     .....+...|+++|+.||++.++|...++++.++
T Consensus        81 s~~~~~~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~l~~~~~~  125 (135)
T 3eqz_A           81 SGYDSGVLHSAETLALSCGLNVINTFTKPINTEVLTCFLTSLSNR  125 (135)
T ss_dssp             ESSCHHHHHHHHHHHHHTTCEEEEEEESSCCHHHHHHHHHHHSCC
T ss_pred             EeccchhHHHHHHHHHHcCCCcceeeCCCCCHHHHHHHHHHHHhh
Confidence            988875     5666788999999999999999999999998765

>3eq2_A Probable two-component response regulator; adaptor sigmas, signaling protein; 3.40A {Pseudomonas aeruginosa} PDB: 3f7a_A

Probab=99.89  E-value=2.7e-22  Score=149.44  Aligned_cols=119  Identities=24%  Similarity=0.362  Sum_probs=107.8

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      .+.+|||+||++..+..++..|+..||.|..+.++.+|++.+.. ..||+||+|+.||+++|+++++.+++..+++|+|+
T Consensus         4 ~~~~iLivdD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~-~~~dlvllD~~mp~~~G~~~~~~lr~~~~~~pii~   82 (394)
T 3eq2_A            4 VSATLLIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIFES-EQPDLVICDLRMPQIDGLELIRRIRQTASETPIIV   82 (394)
T ss_dssp             CEEEEEEECSCHHHHHHHHHHHHHTTEEEEECSSHHHHHHHHHH-SCCSEEEECCCSSSSCTHHHHHHHHHTTCCCCEEE
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHhh-CCCCEEEEcCCCCCCCHHHHHHHHHhhCCCCcEEE
Confidence            35689999999999999999999999999999999999999987 67999999999999999999999999888999999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCC-CHHHHHHHHHHHHh
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPL-SVDKILPLMEDLMK  143 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~-~~~~L~~~i~~~~~  143 (145)
                      +|+..+......+++.|+++|+.||+ +.++|...+.++++
T Consensus        83 lt~~~~~~~~~~a~~~ga~~yl~KP~~~~~~l~~~i~~~~~  123 (394)
T 3eq2_A           83 LSGAGVMSDAVEALRLGAADYLIKPLEDLAVLEHSVRRALD  123 (394)
T ss_dssp             C---CHHHHHHHHHHHTCSEECCSSCSCTHHHHHHHHHHHH
T ss_pred             EEcCCCHHHHHHHHhcChhhEEECCCChHHHHHHHHHHHHh
Confidence            99999999999999999999999999 68888888877664

>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=99.88  E-value=9e-22  Score=146.61  Aligned_cols=117  Identities=27%  Similarity=0.388  Sum_probs=110.9

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            369999999999999999999999999999999999999987 6799999999999999999999999988899999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      +..+......+++.|+++|+.||++.++|...++++++
T Consensus        80 ~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~  117 (387)
T 1ny5_A           80 GHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAIE  117 (387)
T ss_dssp             ETTCHHHHHHHHTTTCCEEEEESCCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHhcCceEEecCCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999988764

>2pln_A HP1043, response regulator; signaling protein; 1.80A {Helicobacter pylori} PDB: 2hqo_A

Probab=99.88  E-value=2.8e-21  Score=123.77  Aligned_cols=117  Identities=16%  Similarity=0.247  Sum_probs=108.0

Q ss_pred             ccCCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCC-cce
Q 048318           22 KNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGI-KIK  100 (145)
Q Consensus        22 ~~~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~-~~~  100 (145)
                      ...+.+|||+|+++..+..++..|+..||.+..+.+..+++..+.. ..||++|    +++.+|+++++.+++. + .+|
T Consensus        15 ~~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~-~~~dlvi----~~~~~g~~~~~~l~~~-~~~~~   88 (137)
T 2pln_A           15 PRGSMRVLLIEKNSVLGGEIEKGLNVKGFMADVTESLEDGEYLMDI-RNYDLVM----VSDKNALSFVSRIKEK-HSSIV   88 (137)
T ss_dssp             CTTCSEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHHH-SCCSEEE----ECSTTHHHHHHHHHHH-STTSE
T ss_pred             CCCCCeEEEEeCCHHHHHHHHHHHHHcCcEEEEeCCHHHHHHHHHc-CCCCEEE----EcCccHHHHHHHHHhc-CCCcc
Confidence            3456789999999999999999999999999999999999999987 6799999    7889999999999988 7 899


Q ss_pred             EEEEeCCCCHHHHHHHHHhCCceeecCCC-CHHHHHHHHHHHHhc
Q 048318          101 IVGVTSLNSEAEREAFMQAGLDLCHTKPL-SVDKILPLMEDLMKN  144 (145)
Q Consensus       101 iv~l~~~~~~~~~~~~~~~g~~~~l~kP~-~~~~L~~~i~~~~~~  144 (145)
                      +|++++..+......+++.|+++|+.||+ +.++|...+++++++
T Consensus        89 ii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~~l~~~i~~~~~~  133 (137)
T 2pln_A           89 VLVSSDNPTSEEEVHAFEQGADDYIAKPYRSIKALVARIEARLRF  133 (137)
T ss_dssp             EEEEESSCCHHHHHHHHHTTCSEEEESSCSCHHHHHHHHHHHTC-
T ss_pred             EEEEeCCCCHHHHHHHHHcCCceeeeCCCCCHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999 999999999988764

>2qvg_A Two component response regulator; NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.50A {Legionella pneumophila subsp}

Probab=99.88  E-value=2.6e-21  Score=124.56  Aligned_cols=119  Identities=23%  Similarity=0.344  Sum_probs=108.3

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCC--eEEEEcCHHHHHHHHHc-----CCCccEEEEecCCCCCCHHHHHHHHHhcC-
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGF--KVEVAENGKEAVDLFRS-----GAKFDIVFIDKEMPVMNGIEATREIRSMG-   96 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~--~v~~~~~~~~al~~~~~-----~~~~dlvl~d~~~~~~~~~~~~~~l~~~~-   96 (145)
                      +++|||+|+++..+..++..|+..|+  .+..+.+..+++..+..     ...||+||+|+.+++.+|+++++.+++.. 
T Consensus         7 ~~~ILivdd~~~~~~~l~~~L~~~g~~~~v~~~~~~~~a~~~l~~~~~~~~~~~dlii~D~~l~~~~g~~~~~~l~~~~~   86 (143)
T 2qvg_A            7 KVDILYLEDDEVDIQSVERVFHKISSLIKIEIAKSGNQALDMLYGRNKENKIHPKLILLDINIPKMNGIEFLKELRDDSS   86 (143)
T ss_dssp             CCSEEEECCCHHHHHHHHHHHHHHCTTCCEEEESSHHHHHHHHHTCTTCCCCCCSEEEEETTCTTSCHHHHHHHHTTSGG
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHHhCCCceEEEECCHHHHHHHHHhcccccCCCCCEEEEecCCCCCCHHHHHHHHHcCcc
Confidence            46799999999999999999999998  89999999999999874     14699999999999999999999999865 


Q ss_pred             -CcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318           97 -IKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus        97 -~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                       +.+|+|++++..+......+++.|+++|+.||++.++|..++.....
T Consensus        87 ~~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~~~~~~~  134 (143)
T 2qvg_A           87 FTDIEVFVLTAAYTSKDKLAFESLNIRGHLIKPLDYGEAIKLFWILQS  134 (143)
T ss_dssp             GTTCEEEEEESCCCHHHHHHHTTTTCCEEEESSCCHHHHHHHHHHHHH
T ss_pred             ccCCcEEEEeCCCCHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHHH
Confidence             78999999999999999999999999999999999999999766543

>2rdm_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein struct initiative; HET: MSE; 1.76A {Sinorhizobium medicae}

Probab=99.88  E-value=2.5e-21  Score=122.97  Aligned_cols=117  Identities=18%  Similarity=0.294  Sum_probs=106.2

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCC-CccEEEEecCCCC-CCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGA-KFDIVFIDKEMPV-MNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~-~~dlvl~d~~~~~-~~~~~~~~~l~~~~~~~~iv  102 (145)
                      +++|||+|+++..+..++..|+..||.+..+.++.++++.+.. . .||++|+|+.+++ .+|+++++.+++..+.+|+|
T Consensus         5 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-~~~~dlvi~d~~l~~~~~g~~~~~~l~~~~~~~~ii   83 (132)
T 2rdm_A            5 AVTILLADDEAILLLDFESTLTDAGFLVTAVSSGAKAIEMLKS-GAAIDGVVTDIRFCQPPDGWQVARVAREIDPNMPIV   83 (132)
T ss_dssp             SCEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHT-TCCCCEEEEESCCSSSSCHHHHHHHHHHHCTTCCEE
T ss_pred             CceEEEEcCcHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHc-CCCCCEEEEeeeCCCCCCHHHHHHHHHhcCCCCCEE
Confidence            4689999999999999999999999999999999999999987 5 7999999999997 99999999999988899999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++++..+......++..|  +|+.||++.++|..++++++++
T Consensus        84 ~~s~~~~~~~~~~~~~~~--~~l~kP~~~~~l~~~i~~~~~~  123 (132)
T 2rdm_A           84 YISGHAALEWASNGVPDS--IILEKPFTSAQLITAVSQLLNA  123 (132)
T ss_dssp             EEESSCCTTHHHHSCTTC--EEEESSCCHHHHHHHHHHHHHT
T ss_pred             EEeCCccHHHHHhhcCCc--ceEeCCCCHHHHHHHHHHHHhc
Confidence            999988777766666655  7999999999999999998865

>2gwr_A DNA-binding response regulator MTRA; two-component regulatory system, transcription regulation, phosphorylation, OMPR family; 2.10A {Mycobacterium tuberculosis} PDB: 3nhz_A

Probab=99.88  E-value=5.1e-22  Score=138.59  Aligned_cols=119  Identities=26%  Similarity=0.427  Sum_probs=110.3

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      ++++|||+||++..+..++..|+..||.+..+.++.++++.+.. ..||+||+|+.+|+++|+++++.+++.. .+|+|+
T Consensus         4 m~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~-~~~dlvilD~~l~~~~g~~~~~~lr~~~-~~~ii~   81 (238)
T 2gwr_A            4 MRQRILVVDDDASLAEMLTIVLRGEGFDTAVIGDGTQALTAVRE-LRPDLVLLDLMLPGMNGIDVCRVLRADS-GVPIVM   81 (238)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHHHTTCEEEEECCGGGHHHHHHH-HCCSEEEEESSCSSSCHHHHHHHHHTTC-CCCEEE
T ss_pred             ccCeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHh-CCCCEEEEeCCCCCCCHHHHHHHHHhCC-CCcEEE
Confidence            34689999999999999999999999999999999999999877 5799999999999999999999999864 899999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++..+......+++.|+++|+.||++.++|..+|++++++
T Consensus        82 lt~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~  122 (238)
T 2gwr_A           82 LTAKTDTVDVVLGLESGADDYIMKPFKPKELVARVRARLRR  122 (238)
T ss_dssp             EEETTCCSCHHHHHHTTCCEEEEESCCHHHHHHHHHHHCCC
T ss_pred             EeCCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHhh
Confidence            99998888888999999999999999999999999988765

>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=99.88  E-value=1.6e-21  Score=134.30  Aligned_cols=116  Identities=25%  Similarity=0.302  Sum_probs=108.5

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      +++|||+||++..+..++..|+..| .+..+.++.++++.+   ..||++++|+.+|+++|+++++.+++..+.+|+|++
T Consensus         2 m~~ilivdd~~~~~~~l~~~L~~~~-~v~~~~~~~~al~~~---~~~dlvllD~~lp~~~g~~~~~~lr~~~~~~~ii~l   77 (220)
T 1p2f_A            2 MWKIAVVDDDKNILKKVSEKLQQLG-RVKTFLTGEDFLNDE---EAFHVVVLDVMLPDYSGYEICRMIKETRPETWVILL   77 (220)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHTTTE-EEEEESSHHHHHHCC---SCCSEEEEESBCSSSBHHHHHHHHHHHCTTSEEEEE
T ss_pred             CceEEEEeCCHHHHHHHHHHHHhCC-CEEEECCHHHHHHhc---CCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCcEEEE
Confidence            4689999999999999999999888 888999999999876   359999999999999999999999998889999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        78 t~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~~  117 (220)
T 1p2f_A           78 TLLSDDESVLKGFEAGADDYVTKPFNPEILLARVKRFLER  117 (220)
T ss_dssp             ESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EcCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            9999999999999999999999999999999999998865

>3t8y_A CHEB, chemotaxis response regulator protein-glutamate methylesterase; CHEA, hydrolase; 1.90A {Thermotoga maritima}

Probab=99.88  E-value=2.2e-21  Score=128.29  Aligned_cols=120  Identities=31%  Similarity=0.379  Sum_probs=103.9

Q ss_pred             cCCceEEEEeCcHHHHHHHHHHHHHcC-CeE-EEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcce
Q 048318           23 NLRLFALVVDDDCFIRTIHSMALKSLG-FKV-EVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIK  100 (145)
Q Consensus        23 ~~~~~iLii~~~~~~~~~l~~~L~~~g-~~v-~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~  100 (145)
                      ..+++|||+||++..+..++..|+..| +.+ ..+.++.++++.+.. ..||+||+|+.+++.+|+++++.+++..+ +|
T Consensus        23 ~~~~~ILivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~-~~~dlvilD~~l~~~~g~~l~~~lr~~~~-~~  100 (164)
T 3t8y_A           23 DRVIRVLVVDDSAFMRMVLKDIIDSQPDMKVVGFAKDGLEAVEKAIE-LKPDVITMDIEMPNLNGIEALKLIMKKAP-TR  100 (164)
T ss_dssp             -CCEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHH-HCCSEEEECSSCSSSCHHHHHHHHHHHSC-CE
T ss_pred             cCccEEEEEcCCHHHHHHHHHHHhcCCCeEEEEecCCHHHHHHHhcc-CCCCEEEEeCCCCCCCHHHHHHHHHhcCC-ce
Confidence            346789999999999999999999874 444 489999999999987 57999999999999999999999998777 89


Q ss_pred             EEEEeCCCCHH--HHHHHHHhCCceeecCCCC---------HHHHHHHHHHHHhc
Q 048318          101 IVGVTSLNSEA--EREAFMQAGLDLCHTKPLS---------VDKILPLMEDLMKN  144 (145)
Q Consensus       101 iv~l~~~~~~~--~~~~~~~~g~~~~l~kP~~---------~~~L~~~i~~~~~~  144 (145)
                      +|++++..+..  ....+++.|+++|+.||++         .+++..++++++.+
T Consensus       101 ii~~s~~~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~r~~~~~l~~~i~~~~~~  155 (164)
T 3t8y_A          101 VIMVSSLTEEGAAITIEALRNGAVDFITKPHGSISLTFRQVAPELLEKIRQAMNV  155 (164)
T ss_dssp             EEEEESSCCTTCHHHHHHHHTTCCEEEECSSSSSCGGGGGGHHHHHHHHHHHTTS
T ss_pred             EEEEecCCccchHHHHHHHHcCcCEEEeCCCCHHHHHHHhhhHHHHHHHHHHhCC
Confidence            99998866543  6778999999999999999         68888888887764

>3c3w_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 2.20A {Mycobacterium tuberculosis}

Probab=99.88  E-value=2e-22  Score=139.72  Aligned_cols=118  Identities=22%  Similarity=0.190  Sum_probs=110.0

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcC-CeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLG-FKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g-~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (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            579999999999999999999876 8855 79999999999887 57999999999999999999999999888999999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++..+......+++.|+++|+.||++.++|..++++++++
T Consensus        81 lt~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~  121 (225)
T 3c3w_A           81 LTSYTSDEAMLDAILAGASGYVVKDIKGMELARAVKDVGAG  121 (225)
T ss_dssp             GGGSSSHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999988764

>2j48_A Two-component sensor kinase; pseudo-receiver, circadian clock, transferase, response regulator, histidine protein kinase; NMR {Synechococcus elongatus}

Probab=99.88  E-value=1.3e-21  Score=121.55  Aligned_cols=115  Identities=17%  Similarity=0.164  Sum_probs=105.5

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcC--CcceEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMG--IKIKIVG  103 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~--~~~~iv~  103 (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 5799999999999999999999999865  7899999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++..+..   .++..|+++|+.||++.++|...+++++++
T Consensus        81 ~~~~~~~~---~~~~~g~~~~l~kp~~~~~l~~~l~~~~~~  118 (119)
T 2j48_A           81 FLGEPPVD---PLLTAQASAILSKPLDPQLLLTTLQGLCPP  118 (119)
T ss_dssp             EESSCCSS---HHHHHHCSEECSSCSTTHHHHHHHHTTCCC
T ss_pred             EeCCCCch---hhhhcCHHHhccCCCCHHHHHHHHHHHhcC
Confidence            99887665   789999999999999999999999987765

>2qv0_A Protein MRKE; structural genomics, transcription, PSI-2, protein structure initiative; 2.40A {Klebsiella pneumoniae}

Probab=99.88  E-value=7.1e-21  Score=122.61  Aligned_cols=118  Identities=16%  Similarity=0.306  Sum_probs=103.9

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHc-CCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSL-GFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKI  101 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~i  101 (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            3578999999999999999999986 88854 89999999999987 579999999999999999999999987777888


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |++++..+  ....+++.|+++|+.||++.++|...+++++++
T Consensus        87 i~~s~~~~--~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  127 (143)
T 2qv0_A           87 VFITAWKE--HAVEAFELEAFDYILKPYQESRIINMLQKLTTA  127 (143)
T ss_dssp             EEEESCCT--THHHHHHTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EEEeCCHH--HHHHHHhCCcceEEeCCCCHHHHHHHHHHHHHH
Confidence            88888743  467789999999999999999999999988753

>3c97_A Signal transduction histidine kinase; structural genomics, signaling, PSI-2, protein structure initiative; 1.70A {Aspergillus oryzae RIB40}

Probab=99.87  E-value=1.1e-21  Score=126.25  Aligned_cols=117  Identities=27%  Similarity=0.479  Sum_probs=101.7

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc-----CCc
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM-----GIK   98 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~-----~~~   98 (145)
                      ++.+|||+||++..+..++..|+..|+.+..+.++.++++.+.. ..||++|+|+.+|+.+|.++++.+++.     .+.
T Consensus         9 ~~~~iLivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~al~~l~~-~~~dlvllD~~lp~~~g~~~~~~l~~~~~~~~~~~   87 (140)
T 3c97_A            9 MPLSVLIAEDNDICRLVAAKALEKCTNDITVVTNGLQALQAYQN-RQFDVIIMDIQMPVMDGLEAVSEIRNYERTHNTKR   87 (140)
T ss_dssp             -CCEEEEECCCHHHHHHHHHHHTTTCSEEEEESSHHHHHHHHHH-SCCSEEEECTTCCSSCHHHHHHHHHHHHHHHTCCC
T ss_pred             CCceEEEEcCCHHHHHHHHHHHHHcCCceEEECCHHHHHHHHhc-CCCCEEEEeCCCCCCcHHHHHHHHHhhhhhcCCCc
Confidence            34689999999999999999999889999999999999999987 579999999999999999999999863     467


Q ss_pred             ceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318           99 IKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus        99 ~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +|++++++........   ..|+++|+.||++.++|..++++++++
T Consensus        88 ~~ii~~s~~~~~~~~~---~~g~~~~l~KP~~~~~L~~~i~~~~~~  130 (140)
T 3c97_A           88 ASIIAITADTIDDDRP---GAELDEYVSKPLNPNQLRDVVLTCHSE  130 (140)
T ss_dssp             CCCEEEESSCCSCCCC---CSSCSEEEESSCCHHHHHHHHHHHHC-
T ss_pred             eEEEEEeCccchhHHH---hCChhheEeCCCCHHHHHHHHHHHhCC
Confidence            8899888765443322   789999999999999999999988764

>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=99.87  E-value=3.9e-21  Score=145.46  Aligned_cols=117  Identities=24%  Similarity=0.302  Sum_probs=109.2

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKIVG  103 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~iv~  103 (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 579999999999999999999999974  35789999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      +|+..+......+++.|+++|+.||++.++|..+++++++
T Consensus        81 lt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~l~~~i~~~~~  120 (459)
T 1w25_A           81 ITALDGRGDRIQGLESGASDFLTKPIDDVMLFARVRSLTR  120 (459)
T ss_dssp             EECSSCHHHHHHHHHHTCCEEEESSCCHHHHHHHHHHHHH
T ss_pred             EECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999988764

>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=2.2e-21  Score=125.47  Aligned_cols=119  Identities=29%  Similarity=0.420  Sum_probs=100.6

Q ss_pred             ccCCceEEEEeCcHHHHHHHHHHHHHc-CCeEE-EEcCHHHHHHHHHcCC-CccEEEEecCCCCCCHHHHHHHHHhcCCc
Q 048318           22 KNLRLFALVVDDDCFIRTIHSMALKSL-GFKVE-VAENGKEAVDLFRSGA-KFDIVFIDKEMPVMNGIEATREIRSMGIK   98 (145)
Q Consensus        22 ~~~~~~iLii~~~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~~~~~~-~~dlvl~d~~~~~~~~~~~~~~l~~~~~~   98 (145)
                      ...+.+||++||++..+..++..|+.. ||.+. .+.++.++++.+.. . .||+||+|+.|++++|+++++.+++..+ 
T Consensus        10 ~~~~~~vlivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~-~~~~dlvilD~~l~~~~g~~~~~~lr~~~~-   87 (145)
T 3kyj_B           10 HGSPYNVMIVDDAAMMRLYIASFIKTLPDFKVVAQAANGQEALDKLAA-QPNVDLILLDIEMPVMDGMEFLRHAKLKTR-   87 (145)
T ss_dssp             -CCSEEEEEECSCHHHHHHHHHHHTTCTTEEEEEEESSHHHHHHHHHH-CTTCCEEEECTTSCCCTTCHHHHHHHHHCC-
T ss_pred             CCCCCeEEEEcCCHHHHHHHHHHHHhCCCceEEEEECCHHHHHHHHhc-CCCCCEEEEeCCCCCCCHHHHHHHHHhcCC-
Confidence            345678999999999999999999987 88865 89999999999987 5 7999999999999999999999998765 


Q ss_pred             ceEEEEeC--CCCHHHHHHHHHhCCceeecCCCC----------HHHHHHHHHHHH
Q 048318           99 IKIVGVTS--LNSEAEREAFMQAGLDLCHTKPLS----------VDKILPLMEDLM  142 (145)
Q Consensus        99 ~~iv~l~~--~~~~~~~~~~~~~g~~~~l~kP~~----------~~~L~~~i~~~~  142 (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            78888887  555666788999999999999999          455666665554

>3klo_A Transcriptional regulator VPST; REC domain, HTH domain, DNA-binding, transcription regulation; HET: C2E TAR; 2.80A {Vibrio cholerae} PDB: 3kln_A*

Probab=99.87  E-value=3.1e-22  Score=138.62  Aligned_cols=120  Identities=14%  Similarity=0.095  Sum_probs=105.6

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHH-cCCeEE-EEcCHHHHHHH-HHcCCCccEEEEecCCCCCCHHHHHHHHHh-cCCcc
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKS-LGFKVE-VAENGKEAVDL-FRSGAKFDIVFIDKEMPVMNGIEATREIRS-MGIKI   99 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~-~g~~v~-~~~~~~~al~~-~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~-~~~~~   99 (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            357899999999999999999985 588886 44566666553 454 57999999999999999999999998 78899


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (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            999999998888888999999999999999999999999998865

>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=99.85  E-value=3.7e-23  Score=129.95  Aligned_cols=118  Identities=25%  Similarity=0.345  Sum_probs=108.7

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (145)
                      .+||++|+++..+..++..|+..||.+..+.++.+++..+.. ..||++++|+.+++.+|.++++.+++..+.+|+|+++
T Consensus         4 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~-~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~ii~~s   82 (124)
T 1dc7_A            4 GIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALAS-KTPDVLLSDIRMPGMDGLALLKQIKQRHPMLPVIIMT   82 (124)
T ss_dssp             CCCEEECSSSSHHHHHHHHHTTTTCCCEECCCTTHHHHHSSS-CCCSCEEECSCSSHHHHCSTHHHHHHHCTTSCCCCBC
T ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCcEEEEeCCHHHHHHHHhc-CCCCEEEEeeecCCCCHHHHHHHHHhhCCCCCEEEEe
Confidence            468999999999999999999899999999999999998876 5799999999999999999999999888889999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|...+++++++
T Consensus        83 ~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~  121 (124)
T 1dc7_A           83 AHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAISH  121 (124)
T ss_dssp             CSTTSTTTTSSCTTCCCCCBCSSCCHHHHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHhcCcceEeeCCCCHHHHHHHHHHHHHh
Confidence            988877788889999999999999999999999998765

>2hqr_A Putative transcriptional regulator; phosporylation-independent response regulator, H. pylori, SY dimer, signaling protein; NMR {Helicobacter pylori}

Probab=99.85  E-value=2.9e-20  Score=128.23  Aligned_cols=113  Identities=17%  Similarity=0.270  Sum_probs=106.2

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCC-cceEEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGI-KIKIVGV  104 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~-~~~iv~l  104 (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            368999999999999999999999999999999999999987 6799999    8999999999999988 6 8999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCC-CHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPL-SVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~-~~~~L~~~i~~~~~~  144 (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 999999999998765

>3sy8_A ROCR; TIM barrel phosphodiesterase-A, transcription regulator; HET: EPE; 2.50A {Pseudomonas aeruginosa}

Probab=99.85  E-value=1.1e-20  Score=141.17  Aligned_cols=120  Identities=24%  Similarity=0.289  Sum_probs=106.5

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHH-cCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKS-LGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~-~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (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            46899999999999999999998 57889999999999999875226999999999999999999999998888888887


Q ss_pred             EeCCCCH-----HHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSE-----AEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~-----~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +++..+.     .....++..|+++|+.||++.++|...+.+++++
T Consensus        83 ~s~~~~~~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~i~~~~~~  128 (400)
T 3sy8_A           83 SSEVDPILRQATISMIECLGLNFLGDLGKPFSLERITALLTRYNAR  128 (400)
T ss_dssp             SCCCCGGGHHHHHHHHHTTTCEEEEECCSSCCHHHHHHHHHHHHHH
T ss_pred             EcCchHHHHHHHHHHHHHcCCeeccCcCCCcCHHHHHHHHHHHHHh
Confidence            7777766     5677888999999999999999999999988753

>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=6.2e-21  Score=122.29  Aligned_cols=119  Identities=12%  Similarity=0.103  Sum_probs=102.0

Q ss_pred             ccCCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceE
Q 048318           22 KNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKI  101 (145)
Q Consensus        22 ~~~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~i  101 (145)
                      .+.+.+||++|+++..+..++..|+..||.+..+.++.++++.+.....||++++|+.+++.+|.++++.+++..+.+|+
T Consensus        12 ~~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~~dlvilD~~l~~~~g~~~~~~l~~~~~~~~i   91 (138)
T 2b4a_A           12 HMQPFRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHRSQLSTCDLLIVSDQLVDLSIFSLLDIVKEQTKQPSV   91 (138)
T ss_dssp             --CCCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHTGGGGGSCSEEEEETTCTTSCHHHHHHHHTTSSSCCEE
T ss_pred             CCCCCeEEEECCCHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHHhCCCCCEEEEeCCCCCCCHHHHHHHHHhhCCCCCE
Confidence            34467899999999999999999999999999999999999988651369999999999999999999999998788999


Q ss_pred             EEEe-CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          102 VGVT-SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       102 v~l~-~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |+++ +..+... ..++   +++|+.||++.++|...+++++++
T Consensus        92 i~ls~~~~~~~~-~~~~---~~~~l~KP~~~~~L~~~i~~~~~~  131 (138)
T 2b4a_A           92 LILTTGRHELIE-SSEH---NLSYLQKPFAISELRAAIDYHKPS  131 (138)
T ss_dssp             EEEESCC--CCC-CSSS---CEEEEESSCCHHHHHHHHHHTCCC
T ss_pred             EEEECCCCCHHH-HHHH---HHheeeCCCCHHHHHHHHHHHHHh
Confidence            9999 7665544 4444   999999999999999999988754

>3bre_A Probable two-component response regulator; protein-nucleotide complex, signaling protein; HET: C2E; 2.40A {Pseudomonas aeruginosa} PDB: 3i5a_A*

Probab=99.85  E-value=1.4e-20  Score=138.13  Aligned_cols=117  Identities=18%  Similarity=0.235  Sum_probs=106.9

Q ss_pred             CceEEEEeCcHHHHHHHHHHHH-HcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceE
Q 048318           25 RLFALVVDDDCFIRTIHSMALK-SLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKI  101 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~-~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~i  101 (145)
                      ..+|||+||++..+..++..|. ..||.+..+.++.+|++.+.. ..||+||+|+.||+++|+++++.+++.  .+.+|+
T Consensus        18 ~~~ilivdD~~~~~~~l~~~l~~~~~~~v~~~~~~~~al~~~~~-~~~dlvl~D~~mp~~~G~~~~~~l~~~~~~~~~~i   96 (358)
T 3bre_A           18 AVMVLLVDDQAMIGEAVRRSLASEAGIDFHFCSDPQQAVAVANQ-IKPTVILQDLVMPGVDGLTLLAAYRGNPATRDIPI   96 (358)
T ss_dssp             CEEEEEECSCTTHHHHHHTTSSSCTTEEEEEECCHHHHHHHHHH-HCCSEEEEESBCSSSBHHHHHHHHTTSTTTTTSCE
T ss_pred             CceEEEEECCHHHHHHHHHHHHhccCcEEEEeCCHHHHHHHHHh-CCCCEEEEeCCCCCCCHHHHHHHHhcCcccCCCcE
Confidence            4569999999999999999996 468999999999999999987 579999999999999999999999975  457999


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      |++|+..+......+++.|+++|+.||++.++|..+++...
T Consensus        97 i~~s~~~~~~~~~~a~~~Ga~~~l~Kp~~~~~l~~~v~~~~  137 (358)
T 3bre_A           97 IVLSTKEEPTVKSAAFAAGANDYLVKLPDAIELVARIRYHS  137 (358)
T ss_dssp             EEEESSCCHHHHHHHHHTTCSEEEESCCCHHHHHHHHHHHH
T ss_pred             EEEeCCCCHHHHHHHHhcChheEeeccCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999987653

>1qo0_D AMIR; binding protein, gene regulator, receptor; 2.25A {Pseudomonas aeruginosa} SCOP: c.23.1.3

Probab=99.84  E-value=1.8e-20  Score=127.00  Aligned_cols=113  Identities=17%  Similarity=0.185  Sum_probs=101.4

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      +.+|||+||++..+..+...|+..||.+..+.++.+++    . ..||+||+|+.||+++|. +++.++...+.+|+|++
T Consensus        12 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al----~-~~~dlvl~D~~mp~~~g~-l~~~~~~~~~~~~ii~l   85 (196)
T 1qo0_D           12 ELQVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAF----D-VPVDVVFTSIFQNRHHDE-IAALLAAGTPRTTLVAL   85 (196)
T ss_dssp             GCEEEEESCTTHHHHHHHHHHHHHTCEEEEECSCCSSC----S-SCCSEEEEECCSSTHHHH-HHHHHHHSCTTCEEEEE
T ss_pred             CCeEEEEcCChhHHHHHHHHHHHcCCeEEEecCchhhC----C-CCCCEEEEeCCCCccchH-HHHHHhccCCCCCEEEE
Confidence            46899999999999999999999999999887777655    3 469999999999999998 88888876578999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      |+..+......+++.|+++|+.||++.++|...++.+++
T Consensus        86 t~~~~~~~~~~a~~~ga~~~l~KP~~~~~L~~~l~~~~~  124 (196)
T 1qo0_D           86 VEYESPAVLSQIIELECHGVITQPLDAHRVLPVLVSARR  124 (196)
T ss_dssp             ECCCSHHHHHHHHHHTCSEEEESSCCGGGHHHHHHHHHH
T ss_pred             EcCCChHHHHHHHHcCCCeeEecCcCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999987764

>1a2o_A CHEB methylesterase; bacterial chemotaxis, adaptation, serine hydrolase; 2.40A {Salmonella typhimurium} SCOP: c.23.1.1 c.40.1.1

Probab=99.82  E-value=5.3e-19  Score=130.06  Aligned_cols=118  Identities=24%  Similarity=0.307  Sum_probs=104.2

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHc-CCe-EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSL-GFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~-g~~-v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (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 898 4599999999999987 57999999999999999999999998776 9999


Q ss_pred             EEeCCCCH--HHHHHHHHhCCceeecCCCCH---------HHHHHHHHHHHhc
Q 048318          103 GVTSLNSE--AEREAFMQAGLDLCHTKPLSV---------DKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~--~~~~~~~~~g~~~~l~kP~~~---------~~L~~~i~~~~~~  144 (145)
                      ++++..+.  .....+++.|+++|+.||++.         ++|...++.+.+.
T Consensus        81 vlS~~~~~~~~~~~~al~~Ga~d~l~KP~~~~~~~l~~~~~~L~~~I~~~~~~  133 (349)
T 1a2o_A           81 MVSSLTGKGSEVTLRALELGAIDFVTKPQLGIREGMLAYSEMIAEKVRTAARA  133 (349)
T ss_dssp             EEECCTHHHHHHHHHHHHHTCCEEEECSSSSCSSCHHHHHHHHHHHHHHHHHC
T ss_pred             EEECCCcccHHHHHHHHhCCceEEEECCCCccchhHHHHHHHHHHHHHHHHhh
Confidence            99988765  447889999999999999984         8888888877653

>2vyc_A Biodegradative arginine decarboxylase; pyridoxal phosphate, PLP-dependent E lyase, acid resistance; HET: LLP; 2.4A {Escherichia coli}

Probab=99.81  E-value=8.1e-20  Score=145.78  Aligned_cols=119  Identities=11%  Similarity=0.030  Sum_probs=108.6

Q ss_pred             ceEEEEeCcH-HH-------HHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCC----CCHHHHHHHHH
Q 048318           26 LFALVVDDDC-FI-------RTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPV----MNGIEATREIR   93 (145)
Q Consensus        26 ~~iLii~~~~-~~-------~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~----~~~~~~~~~l~   93 (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            3799999999 88       999999999999999999999999999987334999999999999    99999999999


Q ss_pred             hcCCcceEEEEeCCCC-HHHHHHHHHhCCceeecCCCCHHH-HHHHHHHHHhc
Q 048318           94 SMGIKIKIVGVTSLNS-EAEREAFMQAGLDLCHTKPLSVDK-ILPLMEDLMKN  144 (145)
Q Consensus        94 ~~~~~~~iv~l~~~~~-~~~~~~~~~~g~~~~l~kP~~~~~-L~~~i~~~~~~  144 (145)
                      +..+.+||+++|+..+ .......+..|+|+|+.||++..+ |.++|++++++
T Consensus        81 ~~~~~iPIi~lTa~~~~~~d~~~~l~~gaddyi~kpf~~~efl~~ri~a~~rr  133 (755)
T 2vyc_A           81 ERQQNVPVFLLGDREKALAAMDRDLLELVDEFAWILEDTADFIAGRAVAAMTR  133 (755)
T ss_dssp             HHSTTCCEEEEECHHHHHHTCSHHHHHHCSEEEETTTSCHHHHHHHHHHHHHH
T ss_pred             HhCCCCCEEEEecCCcchhhccHhHhhcCCceEeCCCCCHHHHHHHHHHHHHH
Confidence            9888999999999776 667778899999999999999999 99999988865

>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=99.76  E-value=2.7e-18  Score=121.46  Aligned_cols=103  Identities=21%  Similarity=0.275  Sum_probs=86.8

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHH-cCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKS-LGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~-~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      +.+|||+||++..+..+...|.. .||.+..+ ++.+++..+.. ..||+|++|+.||+++|+++++.+++.  .+|+|+
T Consensus         4 ~~~ILiVdD~~~~~~~l~~~L~~~~~~~v~~~-~~~~~~~~~~~-~~~dlvllD~~mP~~~G~~~~~~lr~~--~~pvi~   79 (259)
T 3luf_A            4 KQKILIVEDSMTIRRMLIQAIAQQTGLEIDAF-DTLEGARHCQG-DEYVVALVDLTLPDAPSGEAVKVLLER--GLPVVI   79 (259)
T ss_dssp             CCEEEEECCCHHHHHHHHHHHHHHHCCEEEEE-SSTGGGTTCCT-TTEEEEEEESCBTTBTTSHHHHHHHHT--TCCEEE
T ss_pred             CCeEEEEECCHHHHHHHHHHHHhcCCeEEEEe-ChHHHHHHhhc-CCCcEEEEeCCCCCCCHHHHHHHHHhC--CCCEEE
Confidence            35799999999999999999976 47777654 44455554444 579999999999999999999999974  589999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCH
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSV  131 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~  131 (145)
                      +|+..+......+++.||++|+.||...
T Consensus        80 lt~~~~~~~~~~a~~~Ga~dyl~Kp~~~  107 (259)
T 3luf_A           80 LTADISEDKREAWLEAGVLDYVMKDSRH  107 (259)
T ss_dssp             EECC-CHHHHHHHHHTTCCEEEECSSHH
T ss_pred             EEccCCHHHHHHHHHCCCcEEEeCCchh
Confidence            9999999999999999999999999754

>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=99.38  E-value=4.1e-13  Score=92.76  Aligned_cols=93  Identities=28%  Similarity=0.402  Sum_probs=78.2

Q ss_pred             CeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecCC-
Q 048318           50 FKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKP-  128 (145)
Q Consensus        50 ~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP-  128 (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            455668889999998877 579999999999999999999999987666666666666668888999999999999998 


Q ss_pred             -CCHHHHHHHHHHHHh
Q 048318          129 -LSVDKILPLMEDLMK  143 (145)
Q Consensus       129 -~~~~~L~~~i~~~~~  143 (145)
                       ++..++...+.+.+.
T Consensus        85 ~~~~~~l~~~i~~~~~  100 (237)
T 3cwo_X           85 AVENPSLITQIAQTFG  100 (237)
T ss_dssp             HHHCTHHHHHHHHHHT
T ss_pred             ccChHHHHHHHHHHhC
Confidence             777888888877654

>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=99.22  E-value=8.4e-10  Score=83.33  Aligned_cols=116  Identities=12%  Similarity=0.189  Sum_probs=96.7

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~iv  102 (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            45799999999888888777754 456677778887753 334 469999999999999999999999863  3468999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      +++..........++..|+++|+.||++..++..++..+.+
T Consensus       229 ~lt~~~~~~~~~~~l~~Ga~d~~~kp~~~~~l~~~v~~~~~  269 (459)
T 1w25_A          229 AMVDPDDRGRMVKALEIGVNDILSRPIDPQELSARVKTQIQ  269 (459)
T ss_dssp             EEECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHH
T ss_pred             EEcCCCchHHHHHHHhccccccccCCCCHHHHHHHHHHHHH
Confidence            99999999888999999999999999999999888876553

>3q7r_A Transcriptional regulatory protein; CHXR, receiver domain, transcription factor, OMPR, chlamydia transcription; 1.60A {Chlamydia trachomatis} PDB: 3q7s_A* 3q7t_A

Probab=98.43  E-value=3.4e-06  Score=50.23  Aligned_cols=105  Identities=11%  Similarity=0.118  Sum_probs=83.4

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHh--cCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRS--MGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~--~~~~~~iv  102 (145)
                      +..||++..|....-.+++.+....|.++......+       ...-|+|+|++.+-..+       +.+  ..+..-+|
T Consensus        12 ~~~iL~VtEd~~ls~QlKel~~~~eY~~~is~~~~~-------e~~AdlIfCEYlLLPe~-------ifS~k~~~~~dli   77 (121)
T 3q7r_A           12 PKHVLLVSEHWDLFFQTKELLNPEEYRCTIGQQYKQ-------ELSADLVVCEYSLLPRE-------IRSPKSLEGSFVL   77 (121)
T ss_dssp             CEEEEEECSCHHHHHHHHHHSCTTTEEEEEESSCCC-------CTTEEEEEEEGGGSCTT-------CCCCTTCCSCEEE
T ss_pred             CcEEEEEecCchhhHHHHHhcCCcceeEEeccccCC-------cccceeEEEeeecChHH-------hcCCCCCCcccEE
Confidence            457899999999999999999878899998765442       24579999998764322       111  23355677


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++-+.-+++...+.++.|++ |+.+|+++.-+-+.|+.-+++
T Consensus        78 VLfD~F~EEa~v~vLd~Ga~-yLlrPIT~kvldAvIraFLrq  118 (121)
T 3q7r_A           78 VLLDFFDEETSVDLLDRGFW-YLIRPITPRILKSAISLFLSQ  118 (121)
T ss_dssp             EEESSCCHHHHHHHHHTTCE-EEESCCCHHHHHHHHHHHHHH
T ss_pred             EEehhhchHHHHHHHhCCce-eEeccCcHHHHHHHHHHHHhc
Confidence            88888899999999999999 999999999999999888764

>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=98.40  E-value=3.9e-07  Score=72.50  Aligned_cols=104  Identities=14%  Similarity=0.112  Sum_probs=80.1

Q ss_pred             HHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHH
Q 048318           37 IRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAF  116 (145)
Q Consensus        37 ~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~  116 (145)
                      ....|...|+..||+|..+.+.++++..+.++...++|++||.++   +.++++.++++++.+||+++++..+.......
T Consensus        18 ~i~~L~~~Le~~g~~V~~a~s~~Da~~~i~~~~~i~avIld~d~~---~~~ll~~Ir~~~~~iPVFl~~~~~~~~~~~~~   94 (715)
T 3n75_A           18 PIRELHRALERLNFQIVYPNDRDDLLKLIENNARLCGVIFDWDKY---NLELCEEISKMNENLPLYAFANTYSTLDVSLN   94 (715)
T ss_dssp             HHHHHHHHHHHTTCEEECCSSHHHHHHHHHHCTTEEEEEEEHHHH---HHHHHHHHHHHCTTCEEEEECCTTCCCCGGGT
T ss_pred             HHHHHHHHHHHCCcEEEEeCCHHHHHHHHHhCCCceEEEEecccc---HHHHHHHHHHhCCCCCEEEEecCCcccccchh
Confidence            445667888899999999999999999998755589999999874   68899999999999999999887543222111


Q ss_pred             HHhCCceeecCCC-CHHHHHHHHHHHHh
Q 048318          117 MQAGLDLCHTKPL-SVDKILPLMEDLMK  143 (145)
Q Consensus       117 ~~~g~~~~l~kP~-~~~~L~~~i~~~~~  143 (145)
                      ...++++|+.+.. +.+.+..+|.+..+
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~  122 (715)
T 3n75_A           95 DLRLQISFFEYALGAAEDIANKIKQTTD  122 (715)
T ss_dssp             TSCCEEEEECCCTTCHHHHHHHHHHHHH
T ss_pred             hhhccCeEEEeCCCCHHHHHHHHHHHHH
Confidence            2357888888764 56666677766554

>2yxb_A Coenzyme B12-dependent mutase; alpha/beta, structural genomics, NPPSFA, national project on structural and functional analyses; 1.80A {Aeropyrum pernix}

Probab=98.05  E-value=0.00028  Score=46.14  Aligned_cols=117  Identities=16%  Similarity=0.169  Sum_probs=82.4

Q ss_pred             CceEEEE----eCcHHHHHHHHHHHHHcCCeEEE---EcCHHHHHHHHHcCCCccEEEEecCCCC-C-CHHHHHHHHHhc
Q 048318           25 RLFALVV----DDDCFIRTIHSMALKSLGFKVEV---AENGKEAVDLFRSGAKFDIVFIDKEMPV-M-NGIEATREIRSM   95 (145)
Q Consensus        25 ~~~iLii----~~~~~~~~~l~~~L~~~g~~v~~---~~~~~~al~~~~~~~~~dlvl~d~~~~~-~-~~~~~~~~l~~~   95 (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            4467777    77778888999999999999984   3477888888887 67999999876543 1 234677778776


Q ss_pred             CC-cceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318           96 GI-KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus        96 ~~-~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      .+ +++|+ +++.........+...|+|.++..--+..+....+..+++
T Consensus        97 g~~~i~v~-vGG~~~~~~~~~l~~~G~d~v~~~~~~~~~~~~~~~~~~~  144 (161)
T 2yxb_A           97 GADDIPVV-LGGTIPIPDLEPLRSLGIREIFLPGTSLGEIIEKVRKLAE  144 (161)
T ss_dssp             TCTTSCEE-EEECCCHHHHHHHHHTTCCEEECTTCCHHHHHHHHHHHHH
T ss_pred             CCCCCEEE-EeCCCchhcHHHHHHCCCcEEECCCCCHHHHHHHHHHHHH
Confidence            53 67765 5555555555567789999866544455666666665553

>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=97.87  E-value=3.6e-05  Score=53.72  Aligned_cols=95  Identities=8%  Similarity=0.011  Sum_probs=67.7

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      .+.+||++++++..+..+...|+..|+.+..+.+.       .. ..+|++++|+.++...+.            ..++.
T Consensus        10 ~~~~vlvv~d~~~~~~~l~~~L~~~g~~v~~~~~~-------~~-~~~~~ii~d~~~~~~~~~------------~~~i~   69 (254)
T 2ayx_A           10 SGKRCWLAVRNASLCQFLETSLQRSGIVVTTYEGQ-------EP-TPEDVLITDEVVSKKWQG------------RAVVT   69 (254)
T ss_dssp             TTEEEEEECCCHHHHHHHHHHHTTTTEEEEECSSC-------CC-CTTCEEEEESSCSCCCCS------------SEEEE
T ss_pred             CCCEEEEEcCCHHHHHHHHHHHHHCCCEEEEecCC-------CC-CcCcEEEEcCCCcccccc------------ceEEE
Confidence            46789999999999999999999999999877641       22 469999999998865331            12444


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      ++......    ....+...++.+|+...++...+.+++
T Consensus        70 ~~~~~~~~----~~~~~~~~~~~~~~~~~~l~~~l~~~~  104 (254)
T 2ayx_A           70 FCRRHIGI----PLEKAPGEWVHSVAAPHELPALLARIY  104 (254)
T ss_dssp             ECSSCCCS----CCTTSTTEEEECSSCCSHHHHHHHHHH
T ss_pred             EecccCCC----cccccCCceeccccchHHHHHHHHHHh
Confidence            44432110    012344577888998888888887665

>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=97.54  E-value=0.0048  Score=39.05  Aligned_cols=110  Identities=13%  Similarity=0.082  Sum_probs=76.3

Q ss_pred             eCcHHHHHHHHHHHHHcCCeEE---EEcCHHHHHHHHHcCCCccEEEEecCCCCC--CHHHHHHHHHhcCC-cceEEEEe
Q 048318           32 DDDCFIRTIHSMALKSLGFKVE---VAENGKEAVDLFRSGAKFDIVFIDKEMPVM--NGIEATREIRSMGI-KIKIVGVT  105 (145)
Q Consensus        32 ~~~~~~~~~l~~~L~~~g~~v~---~~~~~~~al~~~~~~~~~dlvl~d~~~~~~--~~~~~~~~l~~~~~-~~~iv~l~  105 (145)
                      |-|..-...+..+|+..||+|.   ...+.++.++.+.+ ..+|+|.+...+...  ...++++.+++... ++++++=.
T Consensus        14 d~HdiG~~~v~~~l~~~G~~Vi~lG~~~p~e~~v~~a~~-~~~d~v~lS~~~~~~~~~~~~~i~~l~~~g~~~i~v~vGG   92 (137)
T 1ccw_A           14 DCHAVGNKILDHAFTNAGFNVVNIGVLSPQELFIKAAIE-TKADAILVSSLYGQGEIDCKGLRQKCDEAGLEGILLYVGG   92 (137)
T ss_dssp             CCCCHHHHHHHHHHHHTTCEEEEEEEEECHHHHHHHHHH-HTCSEEEEEECSSTHHHHHTTHHHHHHHTTCTTCEEEEEE
T ss_pred             chhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHh-cCCCEEEEEecCcCcHHHHHHHHHHHHhcCCCCCEEEEEC
Confidence            4555666778888999999988   45688888888887 579999998876432  13356777877554 56765433


Q ss_pred             CC----CCHH-HHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318          106 SL----NSEA-EREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus       106 ~~----~~~~-~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      ..    .+.. ....+.+.|++.|+..-.+..+....+...+
T Consensus        93 ~~~~~~~~~~~~~~~~~~~G~d~~~~~g~~~~~~~~~l~~~~  134 (137)
T 1ccw_A           93 NIVVGKQHWPDVEKRFKDMGYDRVYAPGTPPEVGIADLKKDL  134 (137)
T ss_dssp             SCSSSSCCHHHHHHHHHHTTCSEECCTTCCHHHHHHHHHHHH
T ss_pred             CCcCchHhhhhhHHHHHHCCCCEEECCCCCHHHHHHHHHHHh
Confidence            32    1222 2455789999999866677788887776654

>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=96.95  E-value=0.014  Score=39.46  Aligned_cols=82  Identities=13%  Similarity=0.118  Sum_probs=60.3

Q ss_pred             CHHHHHHHHHcCCCccEEEEec-CCCCCCH--HHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceee------cC
Q 048318           57 NGKEAVDLFRSGAKFDIVFIDK-EMPVMNG--IEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCH------TK  127 (145)
Q Consensus        57 ~~~~al~~~~~~~~~dlvl~d~-~~~~~~~--~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l------~k  127 (145)
                      +..+.++.+.....+++++.+. ..+.++|  .+.+++++... +.|+|++++....+...++++.|+++++      .+
T Consensus       131 ~~~~~i~~~~~~~~~~vli~~~~~~g~~~g~~~~~i~~~~~~~-~~Pvia~~g~~~~~~~~~~~~~G~~~~~vg~a~~~~  209 (237)
T 3cwo_X          131 LLRDWVVEVEKRGAGEILLTSIDRDGTKSGYDTEMIRFVRPLT-TLPIIASGGAGKMEHFLEAFLAGADAALAASVFHFR  209 (237)
T ss_dssp             EHHHHHHHHHHHTCSEEEEEETTTTTCCSCCCHHHHHHHGGGC-CSCEEEESCCCSHHHHHHHHHHTCSEEEESHHHHTT
T ss_pred             CHHHHHHHHhhcCCCeEEEEecCCCCccccccHHHHHHHHHhc-CCCEEecCCCCCHHHHHHHHHcCcHHHhhhHHHHcC
Confidence            4556666555423456888886 4444555  55666766543 7899999999999999999999999984      78


Q ss_pred             CCCHHHHHHHHH
Q 048318          128 PLSVDKILPLME  139 (145)
Q Consensus       128 P~~~~~L~~~i~  139 (145)
                      |+++.++...+.
T Consensus       210 ~~~~~~~~~~l~  221 (237)
T 3cwo_X          210 EIDVRELKEYLK  221 (237)
T ss_dssp             SSCHHHHHHHHH
T ss_pred             CCCHHHHHHHHH
Confidence            999999887664

>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=96.77  E-value=0.033  Score=37.94  Aligned_cols=97  Identities=14%  Similarity=0.075  Sum_probs=69.3

Q ss_pred             CceEEEE----eCcHHHHHHHHHHHHHcCCeEEEE---cCHHHHHHHHHcCCCccEEEE--ecCCCC-CC-HHHHHHHHH
Q 048318           25 RLFALVV----DDDCFIRTIHSMALKSLGFKVEVA---ENGKEAVDLFRSGAKFDIVFI--DKEMPV-MN-GIEATREIR   93 (145)
Q Consensus        25 ~~~iLii----~~~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~~~~~~~~dlvl~--d~~~~~-~~-~~~~~~~l~   93 (145)
                      +.+|++.    |-|..-...+..+|+..||+|...   ...++.++.+.+ ..||+|.+  ...+.. .. -.++++.++
T Consensus        92 ~~~vll~~v~gd~HdiG~~iv~~~l~~~G~~Vi~LG~~vp~e~iv~~~~~-~~~d~v~l~~S~l~~~~~~~~~~~i~~l~  170 (215)
T 3ezx_A           92 AGLAITFVAEGDIHDIGHRLVTTMLGANGFQIVDLGVDVLNENVVEEAAK-HKGEKVLLVGSALMTTSMLGQKDLMDRLN  170 (215)
T ss_dssp             CCEEEEEECTTCCCCHHHHHHHHHHHHTSCEEEECCSSCCHHHHHHHHHH-TTTSCEEEEEECSSHHHHTHHHHHHHHHH
T ss_pred             CCeEEEEeCCCChhHHHHHHHHHHHHHCCCeEEEcCCCCCHHHHHHHHHH-cCCCEEEEEchhcccCcHHHHHHHHHHHH
Confidence            3467776    566677788888899999998743   367778888887 67999999  776542 22 456778888


Q ss_pred             hcCC--cceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           94 SMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        94 ~~~~--~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      +...  ++|+++=+..-+.+.   +...|+|.|-
T Consensus       171 ~~~~~~~v~v~vGG~~~~~~~---a~~iGad~~~  201 (215)
T 3ezx_A          171 EEKLRDSVKCMFGGAPVSDKW---IEEIGADATA  201 (215)
T ss_dssp             HTTCGGGSEEEEESSSCCHHH---HHHHTCCBCC
T ss_pred             HcCCCCCCEEEEECCCCCHHH---HHHhCCeEEE
Confidence            8765  678776555556543   4567999984

>2i2x_B MTAC, methyltransferase 1; TIM barrel and helix bundle (MTAB), rossman fold and helix B (MTAC); HET: B13; 2.50A {Methanosarcina barkeri}

Probab=96.73  E-value=0.062  Score=37.56  Aligned_cols=111  Identities=14%  Similarity=0.076  Sum_probs=75.5

Q ss_pred             CceEEEE----eCcHHHHHHHHHHHHHcCCeEEE---EcCHHHHHHHHHcCCCccEEEEecCCCC-CC-HHHHHHHHHhc
Q 048318           25 RLFALVV----DDDCFIRTIHSMALKSLGFKVEV---AENGKEAVDLFRSGAKFDIVFIDKEMPV-MN-GIEATREIRSM   95 (145)
Q Consensus        25 ~~~iLii----~~~~~~~~~l~~~L~~~g~~v~~---~~~~~~al~~~~~~~~~dlvl~d~~~~~-~~-~~~~~~~l~~~   95 (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            3467777    56667778888889999999863   3467777787776 57999999987653 33 34678888887


Q ss_pred             CCcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318           96 GIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus        96 ~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      .+.+|+++=+...+...   +...|+|.|-.   +..+....+.+++
T Consensus       202 ~~~~~v~vGG~~~~~~~---~~~igad~~~~---da~~av~~~~~l~  242 (258)
T 2i2x_B          202 GIKIPFACGGGAVNQDF---VSQFALGVYGE---EAADAPKIADAII  242 (258)
T ss_dssp             TCCCCEEEESTTCCHHH---HHTSTTEEECS---STTHHHHHHHHHH
T ss_pred             CCCCcEEEECccCCHHH---HHHcCCeEEEC---CHHHHHHHHHHHH
Confidence            77788776554455443   23678888853   3344445554444

>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=96.67  E-value=0.027  Score=45.01  Aligned_cols=117  Identities=17%  Similarity=0.145  Sum_probs=80.5

Q ss_pred             CceEEEE----eCcHHHHHHHHHHHHHcCCeEEEE---cCHHHHHHHHHcCCCccEEEEecCCCC-C-CHHHHHHHHHhc
Q 048318           25 RLFALVV----DDDCFIRTIHSMALKSLGFKVEVA---ENGKEAVDLFRSGAKFDIVFIDKEMPV-M-NGIEATREIRSM   95 (145)
Q Consensus        25 ~~~iLii----~~~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~~~~~~~~dlvl~d~~~~~-~-~~~~~~~~l~~~   95 (145)
                      +.+|++.    |.|..-...+..+|+..||+|...   .+.++.++...+ ..+|+|.+...+.. + ...++++.+++.
T Consensus       596 r~kVvlatvg~D~HdiG~~iVa~~l~~~GfeVi~lG~~v~~eeiv~aA~e-~~adiVglSsl~~~~~~~~~~vi~~L~~~  674 (727)
T 1req_A          596 RPRILLAKMGQDGHDRGQKVIATAYADLGFDVDVGPLFQTPEETARQAVE-ADVHVVGVSSLAGGHLTLVPALRKELDKL  674 (727)
T ss_dssp             CCEEEEECBTTCCCCHHHHHHHHHHHHHTCEEEECCTTBCHHHHHHHHHH-TTCSEEEEEECSSCHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEeCCcchhHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHHH-cCCCEEEEeeecHhHHHHHHHHHHHHHhc
Confidence            4567776    556666677888899999999853   367888888877 67999988875542 2 345677888876


Q ss_pred             CC-cceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318           96 GI-KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus        96 ~~-~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      .. +++| ++++-.-......+.+.|+|.|+..-.+..++...+...++
T Consensus       675 G~~~i~V-ivGG~~p~~d~~~l~~~GaD~~f~~gt~~~e~a~~l~~~l~  722 (727)
T 1req_A          675 GRPDILI-TVGGVIPEQDFDELRKDGAVEIYTPGTVIPESAISLVKKLR  722 (727)
T ss_dssp             TCTTSEE-EEEESCCGGGHHHHHHTTEEEEECTTCCHHHHHHHHHHHHH
T ss_pred             CCCCCEE-EEcCCCccccHHHHHhCCCCEEEcCCccHHHHHHHHHHHHH
Confidence            65 5444 45542222234556889999998755677777777765553

>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=96.66  E-value=0.036  Score=44.48  Aligned_cols=116  Identities=17%  Similarity=0.153  Sum_probs=79.6

Q ss_pred             CceEEEE----eCcHHHHHHHHHHHHHcCCeEEEE---cCHHHHHHHHHcCCCccEEEEecCCCC-C-CHHHHHHHHHhc
Q 048318           25 RLFALVV----DDDCFIRTIHSMALKSLGFKVEVA---ENGKEAVDLFRSGAKFDIVFIDKEMPV-M-NGIEATREIRSM   95 (145)
Q Consensus        25 ~~~iLii----~~~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~~~~~~~~dlvl~d~~~~~-~-~~~~~~~~l~~~   95 (145)
                      +.+|++.    |.|..-...+..+|+..||+|...   .+.++.++...+ ..+|+|.+...+.. + ...++++.+++.
T Consensus       604 r~kVvlatvg~D~HdiG~~iVa~~l~~~GfeVi~lG~~v~~eeiv~aA~e-~~adiVglSsl~~~~~~~~~~vi~~Lr~~  682 (762)
T 2xij_A          604 RPRLLVAKMGQDGHDRGAKVIATGFADLGFDVDIGPLFQTPREVAQQAVD-ADVHAVGVSTLAAGHKTLVPELIKELNSL  682 (762)
T ss_dssp             CCEEEEECCSSCCCCHHHHHHHHHHHHTTCEEEECCTTCCHHHHHHHHHH-TTCSEEEEEECSSCHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEecCcchhhHHHHHHHHHHHhCCeEEeeCCCCCCHHHHHHHHHH-cCCCEEEEeeecHHHHHHHHHHHHHHHhc
Confidence            4567776    455566677888899999999853   467888888877 57999988865532 1 245677888876


Q ss_pred             CC-cceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318           96 GI-KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus        96 ~~-~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      .. ++++ ++++-........+...|+|.|+..-.+..+....+...+
T Consensus       683 G~~dv~V-ivGG~~P~~d~~~l~~~GaD~~f~pgtd~~e~~~~i~~~l  729 (762)
T 2xij_A          683 GRPDILV-MCGGVIPPQDYEFLFEVGVSNVFGPGTRIPKAAVQVLDDI  729 (762)
T ss_dssp             TCTTSEE-EEEESCCGGGHHHHHHHTCCEEECTTCCHHHHHHHHHHHH
T ss_pred             CCCCCEE-EEeCCCCcccHHHHHhCCCCEEeCCCCCHHHHHHHHHHHH
Confidence            65 5544 4554222223445688999999875567777777776655

>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=96.63  E-value=0.051  Score=37.37  Aligned_cols=90  Identities=8%  Similarity=0.044  Sum_probs=65.6

Q ss_pred             cHHHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecC------CCCCCHHHHHHHHHhcCCcceEEEEeC
Q 048318           34 DCFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKE------MPVMNGIEATREIRSMGIKIKIVGVTS  106 (145)
Q Consensus        34 ~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~------~~~~~~~~~~~~l~~~~~~~~iv~l~~  106 (145)
                      ++.....+...+++.|..+. .+.+.+++......  ..|.|.+...      .....++++++.+++.  ++|+|.-++
T Consensus       114 ~p~~l~~~i~~~~~~g~~v~~~v~t~eea~~a~~~--Gad~Ig~~~~g~t~~~~~~~~~~~li~~l~~~--~ipvIA~GG  189 (229)
T 3q58_A          114 RPVDIDSLLTRIRLHGLLAMADCSTVNEGISCHQK--GIEFIGTTLSGYTGPITPVEPDLAMVTQLSHA--GCRVIAEGR  189 (229)
T ss_dssp             CSSCHHHHHHHHHHTTCEEEEECSSHHHHHHHHHT--TCSEEECTTTTSSSSCCCSSCCHHHHHHHHTT--TCCEEEESS
T ss_pred             ChHHHHHHHHHHHHCCCEEEEecCCHHHHHHHHhC--CCCEEEecCccCCCCCcCCCCCHHHHHHHHHc--CCCEEEECC
Confidence            34444555555666687765 77888888877654  5898865322      1234578889998875  789998888


Q ss_pred             CCCHHHHHHHHHhCCceeecC
Q 048318          107 LNSEAEREAFMQAGLDLCHTK  127 (145)
Q Consensus       107 ~~~~~~~~~~~~~g~~~~l~k  127 (145)
                      -.+.+....++..|+++++.-
T Consensus       190 I~t~~d~~~~~~~GadgV~VG  210 (229)
T 3q58_A          190 YNTPALAANAIEHGAWAVTVG  210 (229)
T ss_dssp             CCSHHHHHHHHHTTCSEEEEC
T ss_pred             CCCHHHHHHHHHcCCCEEEEc
Confidence            888999999999999999754

>1y80_A Predicted cobalamin binding protein; corrinoid, factor IIIM, methyl transferase, structural genomics, PSI, protein structure initiative; HET: B1M; 1.70A {Moorella thermoacetica}

Probab=96.47  E-value=0.1  Score=35.14  Aligned_cols=110  Identities=18%  Similarity=0.084  Sum_probs=73.7

Q ss_pred             CceEEEE----eCcHHHHHHHHHHHHHcCCeEEEE---cCHHHHHHHHHcCCCccEEEEecCCCC-C-CHHHHHHHHHhc
Q 048318           25 RLFALVV----DDDCFIRTIHSMALKSLGFKVEVA---ENGKEAVDLFRSGAKFDIVFIDKEMPV-M-NGIEATREIRSM   95 (145)
Q Consensus        25 ~~~iLii----~~~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~~~~~~~~dlvl~d~~~~~-~-~~~~~~~~l~~~   95 (145)
                      +.+|++.    |-|..-...+..+|+..||+|...   ...++.++.+.+ ..||+|.+...+.. . .-.++++.+++.
T Consensus        88 ~~~vll~~~~gd~H~iG~~~va~~l~~~G~~v~~LG~~vp~~~l~~~~~~-~~~d~v~lS~~~~~~~~~~~~~i~~l~~~  166 (210)
T 1y80_A           88 VGKIVLGTVKGDLHDIGKNLVAMMLESGGFTVYNLGVDIEPGKFVEAVKK-YQPDIVGMSALLTTTMMNMKSTIDALIAA  166 (210)
T ss_dssp             CCEEEEEEBTTCCCCHHHHHHHHHHHHTTCEEEECCSSBCHHHHHHHHHH-HCCSEEEEECCSGGGTHHHHHHHHHHHHT
T ss_pred             CCEEEEEeCCCcccHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHH-cCCCEEEEeccccccHHHHHHHHHHHHhc
Confidence            3367777    667777788899999999998853   356777777776 57999999886653 2 234677788875


Q ss_pred             C--CcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318           96 G--IKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus        96 ~--~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      .  +++|+++=....+...   +...|+|.|.   -+..+.....+++
T Consensus       167 ~~~~~~~v~vGG~~~~~~~---~~~~gad~~~---~da~~av~~~~~l  208 (210)
T 1y80_A          167 GLRDRVKVIVGGAPLSQDF---ADEIGADGYA---PDAASATELCRQL  208 (210)
T ss_dssp             TCGGGCEEEEESTTCCHHH---HHHHTCSEEC---SSHHHHHHHHHHH
T ss_pred             CCCCCCeEEEECCCCCHHH---HHHcCCeEEE---CCHHHHHHHHHHH
Confidence            4  3578776555555443   3567999884   3444444444443

>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=96.36  E-value=0.095  Score=36.05  Aligned_cols=89  Identities=9%  Similarity=0.009  Sum_probs=64.6

Q ss_pred             HHHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecC-C-----CCCCHHHHHHHHHhcCCcceEEEEeCC
Q 048318           35 CFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKE-M-----PVMNGIEATREIRSMGIKIKIVGVTSL  107 (145)
Q Consensus        35 ~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~-~-----~~~~~~~~~~~l~~~~~~~~iv~l~~~  107 (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            4444555555666687765 67788888777654  5898865322 1     234578889998875  7899888877


Q ss_pred             CCHHHHHHHHHhCCceeecC
Q 048318          108 NSEAEREAFMQAGLDLCHTK  127 (145)
Q Consensus       108 ~~~~~~~~~~~~g~~~~l~k  127 (145)
                      .+.+....++..|+++++.-
T Consensus       191 ~t~~d~~~~~~~GadgV~VG  210 (232)
T 3igs_A          191 NSPALAAEAIRYGAWAVTVG  210 (232)
T ss_dssp             CSHHHHHHHHHTTCSEEEEC
T ss_pred             CCHHHHHHHHHcCCCEEEEe
Confidence            88999999999999999743

>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=96.30  E-value=0.094  Score=36.81  Aligned_cols=114  Identities=6%  Similarity=0.029  Sum_probs=74.7

Q ss_pred             CceEEEE----eCcHHHHHHHHHH--------HHHc-CCeEEE---EcCHHHHHHHHHcCCCccEEEEecCCCCC----C
Q 048318           25 RLFALVV----DDDCFIRTIHSMA--------LKSL-GFKVEV---AENGKEAVDLFRSGAKFDIVFIDKEMPVM----N   84 (145)
Q Consensus        25 ~~~iLii----~~~~~~~~~l~~~--------L~~~-g~~v~~---~~~~~~al~~~~~~~~~dlvl~d~~~~~~----~   84 (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            3456555    4455555556666        8899 999874   3478888888887 679999999877642    1


Q ss_pred             -HHHHHHHHHhcCC--cceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318           85 -GIEATREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus        85 -~~~~~~~l~~~~~--~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                       -.++++.+++...  .+++++=....+..   .+.+.|+|.|+.--....++...+...+
T Consensus       199 ~~~~~i~~L~~~g~~~~i~vivGG~~~~~~---~a~~iGad~~~~da~~~~~~a~~l~~~~  256 (262)
T 1xrs_B          199 NMTHLIELLEAEGLRDRFVLLCGGPRINNE---IAKELGYDAGFGPGRFADDVATFAVKTL  256 (262)
T ss_dssp             HHHHHHHHHHHTTCGGGSEEEEECTTCCHH---HHHTTTCSEEECTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCCCEEEEECCcCCHH---HHHHcCCeEEECCchHHHHHHHHHHHHH
Confidence             2346777776543  36665433333433   3667899999765566666666665443

>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=96.23  E-value=0.095  Score=38.43  Aligned_cols=106  Identities=10%  Similarity=0.119  Sum_probs=73.8

Q ss_pred             ccCCceEEEEeCcHHHHHHHHHHHHHc---CCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCc
Q 048318           22 KNLRLFALVVDDDCFIRTIHSMALKSL---GFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIK   98 (145)
Q Consensus        22 ~~~~~~iLii~~~~~~~~~l~~~L~~~---g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~   98 (145)
                      ..+++++.|+|.|....+.|.+++...   .|.+..+++.+.+.+...+ ..+|++++|-.+... .       ......
T Consensus        18 ~~~~i~l~i~d~d~~Y~~~l~~y~~~~~~~~~~v~~ft~~e~~~~~~~~-~~~dilli~e~~~~~-~-------~~~~~~   88 (373)
T 3fkq_A           18 QGMKIKVALLDKDKEYLDRLTGVFNTKYADKLEVYSFTDEKNAIESVKE-YRIDVLIAEEDFNID-K-------SEFKRN   88 (373)
T ss_dssp             --CCEEEEEECSCHHHHHHHHHHHHHHTTTTEEEEEESCHHHHHHHHHH-HTCSEEEEETTCCCC-G-------GGGCSS
T ss_pred             cCceEEEEEEeCCHHHHHHHHHHHhhccCCceEEEEECCHHHHHHHHhc-CCCCEEEEcchhhhh-h-------hhhccc
Confidence            346789999999999999999999753   5889999999999999887 579999999877542 1       112223


Q ss_pred             ceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318           99 IKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus        99 ~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      .++++++.....+      ...-...+.|--+.+++...+...+
T Consensus        89 ~~v~~l~~~~~~~------~~~~~~~i~kyq~~~~i~~ei~~~~  126 (373)
T 3fkq_A           89 CGLAYFTGTPGIE------LIKDEIAICKYQRVDVIFKQILGVY  126 (373)
T ss_dssp             CEEEEEESCTTCC------EETTEEEEETTSCHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCC------cCCCCceeeccCCHHHHHHHHHHHH
Confidence            4555565543221      0112235678777888887776554

>1wv2_A Thiazole moeity, thiazole biosynthesis protein THIG; structural genomics, protein structure initiative, PSI; 2.90A {Pseudomonas aeruginosa} SCOP: c.1.31.1

Probab=95.75  E-value=0.31  Score=34.14  Aligned_cols=99  Identities=13%  Similarity=0.044  Sum_probs=67.2

Q ss_pred             HHHHHHHHcCCeEE--EEcCHHHHHHHHHcCCCccEEEEecCCC-----CCCHHHHHHHHHhcCCcceEEEEeCCCCHHH
Q 048318           40 IHSMALKSLGFKVE--VAENGKEAVDLFRSGAKFDIVFIDKEMP-----VMNGIEATREIRSMGIKIKIVGVTSLNSEAE  112 (145)
Q Consensus        40 ~l~~~L~~~g~~v~--~~~~~~~al~~~~~~~~~dlvl~d~~~~-----~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~  112 (145)
                      ...+.|.+.||.+.  +..+...+.+...  ..+++|+ .+..+     +...+++++.+++. ..+|+|+=+.-.+.+.
T Consensus       126 ~aa~~L~~~Gf~Vlpy~~dd~~~akrl~~--~G~~aVm-Plg~pIGsG~Gi~~~~lI~~I~e~-~~vPVI~eGGI~TPsD  201 (265)
T 1wv2_A          126 KAAEQLVKDGFDVMVYTSDDPIIARQLAE--IGCIAVM-PLAGLIGSGLGICNPYNLRIILEE-AKVPVLVDAGVGTASD  201 (265)
T ss_dssp             HHHHHHHTTTCEEEEEECSCHHHHHHHHH--SCCSEEE-ECSSSTTCCCCCSCHHHHHHHHHH-CSSCBEEESCCCSHHH
T ss_pred             HHHHHHHHCCCEEEEEeCCCHHHHHHHHH--hCCCEEE-eCCccCCCCCCcCCHHHHHHHHhc-CCCCEEEeCCCCCHHH
Confidence            33445556799977  5556666665554  4588884 33322     12357889999884 5789887667789999


Q ss_pred             HHHHHHhCCceeec-----CCCCHHHHHHHHHHHH
Q 048318          113 REAFMQAGLDLCHT-----KPLSVDKILPLMEDLM  142 (145)
Q Consensus       113 ~~~~~~~g~~~~l~-----kP~~~~~L~~~i~~~~  142 (145)
                      ...+++.|++++++     |.-++..+...+...+
T Consensus       202 Aa~AmeLGAdgVlVgSAI~~a~dP~~ma~af~~Av  236 (265)
T 1wv2_A          202 AAIAMELGCEAVLMNTAIAHAKDPVMMAEAMKHAI  236 (265)
T ss_dssp             HHHHHHHTCSEEEESHHHHTSSSHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCEEEEChHHhCCCCHHHHHHHHHHHH
Confidence            99999999999864     4444666666655443

>2htm_A Thiazole biosynthesis protein THIG; thiamin biosynthesis, THIG, thermus thermophilus HB8, structural genomics, NPPSFA; 2.30A {Thermus thermophilus}

Probab=95.55  E-value=0.18  Score=35.35  Aligned_cols=96  Identities=14%  Similarity=0.045  Sum_probs=64.5

Q ss_pred             HHHHcCCeEE--EEcCHHHHHHHHHcCCCccEEEEecCCCC-----CCHHHHHHHHHhcCCc-ceEEEEeCCCCHHHHHH
Q 048318           44 ALKSLGFKVE--VAENGKEAVDLFRSGAKFDIVFIDKEMPV-----MNGIEATREIRSMGIK-IKIVGVTSLNSEAEREA  115 (145)
Q Consensus        44 ~L~~~g~~v~--~~~~~~~al~~~~~~~~~dlvl~d~~~~~-----~~~~~~~~~l~~~~~~-~~iv~l~~~~~~~~~~~  115 (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 RLIEEDFLVLPYMGPDLVLAKRLAA--LGTATV-MPLAAPIGSGWGVRTRALLELFAREKASLPPVVVDAGLGLPSHAAE  195 (268)
T ss_dssp             HHHHTTCEECCEECSCHHHHHHHHH--HTCSCB-EEBSSSTTTCCCSTTHHHHHHHHHTTTTSSCBEEESCCCSHHHHHH
T ss_pred             HHHHCCCEEeeccCCCHHHHHHHHh--cCCCEE-EecCccCcCCcccCCHHHHHHHHHhcCCCCeEEEeCCCCCHHHHHH
Confidence            3446799977  4456655544443  357877 5544321     2236678888884556 89987777789999999


Q ss_pred             HHHhCCceee-----cCCCCHHHHHHHHHHHH
Q 048318          116 FMQAGLDLCH-----TKPLSVDKILPLMEDLM  142 (145)
Q Consensus       116 ~~~~g~~~~l-----~kP~~~~~L~~~i~~~~  142 (145)
                      +++.|+++.+     .|.-++..+...+...+
T Consensus       196 AmeLGAdgVlVgSAI~~a~dP~~ma~af~~Av  227 (268)
T 2htm_A          196 VMELGLDAVLVNTAIAEAQDPPAMAEAFRLAV  227 (268)
T ss_dssp             HHHTTCCEEEESHHHHTSSSHHHHHHHHHHHH
T ss_pred             HHHcCCCEEEEChHHhCCCCHHHHHHHHHHHH
Confidence            9999999986     45455666666665544

>3o63_A Probable thiamine-phosphate pyrophosphorylase; thiamin biosynthesis, TIM barrel, transferase; 2.35A {Mycobacterium tuberculosis}

Probab=95.31  E-value=0.33  Score=33.61  Aligned_cols=87  Identities=10%  Similarity=0.104  Sum_probs=62.8

Q ss_pred             EEcCHHHHHHHHHcCCCccEEEEecCCCC-------CCHHHHHHHHHhcC-CcceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           54 VAENGKEAVDLFRSGAKFDIVFIDKEMPV-------MNGIEATREIRSMG-IKIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        54 ~~~~~~~al~~~~~~~~~dlvl~d~~~~~-------~~~~~~~~~l~~~~-~~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (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            67888888776654  5899999764443       23678888887653 47899988776 56668889999999985


Q ss_pred             -----cCCCCHHHHHHHHHHHHh
Q 048318          126 -----TKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       126 -----~kP~~~~~L~~~i~~~~~  143 (145)
                           .+.-++.+..+.+...++
T Consensus       218 v~sai~~a~dp~~a~~~l~~~~~  240 (243)
T 3o63_A          218 VVRAITSADDPRAAAEQLRSALT  240 (243)
T ss_dssp             ESHHHHTCSSHHHHHHHHHHHHH
T ss_pred             EeHHHhCCCCHHHHHHHHHHHHH
Confidence                 355667777777766654

>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=95.25  E-value=0.19  Score=39.74  Aligned_cols=114  Identities=12%  Similarity=0.070  Sum_probs=75.2

Q ss_pred             CCceEEEEe---CcHHHHHH-H----HHHHHHcCCeEEE---EcCHHHHHHHHHcCCCccEEEEecCCCC----CCH-HH
Q 048318           24 LRLFALVVD---DDCFIRTI-H----SMALKSLGFKVEV---AENGKEAVDLFRSGAKFDIVFIDKEMPV----MNG-IE   87 (145)
Q Consensus        24 ~~~~iLii~---~~~~~~~~-l----~~~L~~~g~~v~~---~~~~~~al~~~~~~~~~dlvl~d~~~~~----~~~-~~   87 (145)
                      .+.+|++.-   |-...-.. +    ..+|+..||+|..   ..+.++.++.+.+ ..+|+|.+..-+..    +.. .+
T Consensus       601 ~kGKVVIATVgGD~HDIGKklVaNIVa~~LE~aGFEVIDLGvdVPpEeIVeAA~E-edADVVGLSsLLTt~dihL~~Mke  679 (763)
T 3kp1_A          601 TPLKIVAATVGEDEHSVGLREVIDIKHGGIEKYGVEVHYLGTSVPVEKLVDAAIE-LKADAILASTIISHDDIHYKNMKR  679 (763)
T ss_dssp             SCCEEEEEEBTTCCCCHHHHHTTSTTTTCGGGGTCEEEECCSSBCHHHHHHHHHH-TTCSEEEEECCCCGGGHHHHHHHH
T ss_pred             cCCEEEEEeCCCChhhhhhHHHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHHHH-cCCCEEEEeccccCchhhHHHHHH
Confidence            355777772   33333332 2    4578899999873   3478888988887 67999999987765    222 35


Q ss_pred             HHHHHHhcCCc--ceEEEEeCC-CCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318           88 ATREIRSMGIK--IKIVGVTSL-NSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus        88 ~~~~l~~~~~~--~~iv~l~~~-~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      +++.+++....  ++|+ +++. .+.+.   +...|+|.|+.......++...+...+
T Consensus       680 vIelLrE~GlrDkIkVI-VGGa~~tqd~---AkeIGADa~f~DATeAVeVA~~Ll~~l  733 (763)
T 3kp1_A          680 IHELAVEKGIRDKIMIG-CGGTQVTPEV---AVKQGVDAGFGRGSKGIHVATFLVKKR  733 (763)
T ss_dssp             HHHHHHHTTCTTTSEEE-EECTTCCHHH---HHTTTCSEEECTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCCEEE-EECCCCCHHH---HHHcCCcEEECCcchHHHHHHHHHHHH
Confidence            77778876553  5555 4444 44432   458999999876677777666665443

>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=94.70  E-value=0.73  Score=32.43  Aligned_cols=103  Identities=11%  Similarity=0.013  Sum_probs=68.4

Q ss_pred             HHHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCC--CCHHHHHHHHHhcCC-cceEEEEeCCCCH
Q 048318           35 CFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPV--MNGIEATREIRSMGI-KIKIVGVTSLNSE  110 (145)
Q Consensus        35 ~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~--~~~~~~~~~l~~~~~-~~~iv~l~~~~~~  110 (145)
                      +.....+.......|..+. .+.+.+++......  ..|+|-+.-....  ..+++.+..+....+ ++|+|.-++-.+.
T Consensus       148 ~~~l~~l~~~a~~lGl~~lvev~t~ee~~~A~~~--Gad~IGv~~r~l~~~~~dl~~~~~l~~~v~~~~pvVaegGI~t~  225 (272)
T 3qja_A          148 QSVLVSMLDRTESLGMTALVEVHTEQEADRALKA--GAKVIGVNARDLMTLDVDRDCFARIAPGLPSSVIRIAESGVRGT  225 (272)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHH--TCSEEEEESBCTTTCCBCTTHHHHHGGGSCTTSEEEEESCCCSH
T ss_pred             HHHHHHHHHHHHHCCCcEEEEcCCHHHHHHHHHC--CCCEEEECCCcccccccCHHHHHHHHHhCcccCEEEEECCCCCH
Confidence            3344445555566788765 77888887766654  4788877632111  123566677766544 6888887777889


Q ss_pred             HHHHHHHHhCCceeecC-----CCCHHHHHHHHH
Q 048318          111 AEREAFMQAGLDLCHTK-----PLSVDKILPLME  139 (145)
Q Consensus       111 ~~~~~~~~~g~~~~l~k-----P~~~~~L~~~i~  139 (145)
                      +....+...|++++++-     .-++.+....+.
T Consensus       226 edv~~l~~~GadgvlVGsal~~a~dp~~~~~~l~  259 (272)
T 3qja_A          226 ADLLAYAGAGADAVLVGEGLVTSGDPRAAVADLV  259 (272)
T ss_dssp             HHHHHHHHTTCSEEEECHHHHTCSCHHHHHHHHH
T ss_pred             HHHHHHHHcCCCEEEEcHHHhCCCCHHHHHHHHH
Confidence            99999999999999753     345555555443

>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=94.50  E-value=0.75  Score=32.12  Aligned_cols=99  Identities=11%  Similarity=0.037  Sum_probs=60.1

Q ss_pred             HHHHHHHcCCe--EEEEc-CHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceEEEEeCCCCHHHHHH
Q 048318           41 HSMALKSLGFK--VEVAE-NGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKIVGVTSLNSEAEREA  115 (145)
Q Consensus        41 l~~~L~~~g~~--v~~~~-~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~iv~l~~~~~~~~~~~  115 (145)
                      ++..|......  ++... +....++.+.. ..+|.|++|++..-.+...+...++..  ....++|=+. ..+...+..
T Consensus         6 ~k~~l~~g~~~~g~~~~~~~~p~~~e~a~~-~g~D~vilDlEhav~~~~k~~~~l~a~~~~~~~~~VRVn-~~~~~di~~   83 (261)
T 3qz6_A            6 LKKKLSAGKSVVGTMLNLVYNPDIVRIYAE-AGLDYFIVDCEHAAYTFREINHLVSVAKNAGVSVLVRIP-QVDRAHVQR   83 (261)
T ss_dssp             HHHHHHTTCCEEEEEESSCCCTTHHHHHHH-TTCSEEEEESSSSCCCHHHHHHHHHHHHHHTCEEEEECS-SCCHHHHHH
T ss_pred             HHHHHHCCCCEEEEEEecCCCHHHHHHHhc-CCcCEEEEeccCCCCCHHHHHHHHHHHhhcCCeEEEEeC-CCCHHHHHH
Confidence            44555543322  33333 44555666655 569999999988766666555555542  1223444444 445568889


Q ss_pred             HHHhCCceeec-CCCCHHHHHHHHHHH
Q 048318          116 FMQAGLDLCHT-KPLSVDKILPLMEDL  141 (145)
Q Consensus       116 ~~~~g~~~~l~-kP~~~~~L~~~i~~~  141 (145)
                      ++..|++.++. |--+.+++...+..+
T Consensus        84 ~ld~G~~gI~lP~v~saed~~~~~~~~  110 (261)
T 3qz6_A           84 LLDIGAEGFMIPGVQSAETMRETVRLA  110 (261)
T ss_dssp             HHHHTCCEEEETTCCSHHHHHHHHHHH
T ss_pred             HHhcCCCEEEECCcCCHHHHHHHHHHh
Confidence            99999998854 344567776665543

>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=94.49  E-value=0.84  Score=35.66  Aligned_cols=114  Identities=10%  Similarity=0.151  Sum_probs=73.4

Q ss_pred             CceEEEE----eCcHHHHHHHHHHHHHcCCeEEEE---cCHHHHHHHHHcCCCccEEEEecCCCC-C-CHHHHHHHHHhc
Q 048318           25 RLFALVV----DDDCFIRTIHSMALKSLGFKVEVA---ENGKEAVDLFRSGAKFDIVFIDKEMPV-M-NGIEATREIRSM   95 (145)
Q Consensus        25 ~~~iLii----~~~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~~~~~~~~dlvl~d~~~~~-~-~~~~~~~~l~~~   95 (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            3467777    556666778888889999998743   467778888876 57999999886642 1 233577788877


Q ss_pred             CCcceEEEEeCCCCHHHHHHHH---HhCCceeecCCCCHHHHHHHHHHHH
Q 048318           96 GIKIKIVGVTSLNSEAEREAFM---QAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus        96 ~~~~~iv~l~~~~~~~~~~~~~---~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      .+++||++=+...+.......+   -.|+|.|-   -+..+-.....+++
T Consensus       177 g~~i~ViVGGa~~~~~~a~~~i~p~~~GAD~ya---~DA~~Av~~a~~l~  223 (579)
T 3bul_A          177 GFTIPLLIGGATTSKAHTAVKIEQNYSGPTVYV---QNASRTVGVVAALL  223 (579)
T ss_dssp             TCCSCEEEESTTCCHHHHHHHTGGGCSSCEEEC---CSHHHHHHHHHHHT
T ss_pred             CCCCeEEEEccccchhhhhhhhhhcccCCeEEE---CCHHHHHHHHHHHh
Confidence            7788887655555555432111   12888884   33344444444433

>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=94.39  E-value=0.31  Score=34.02  Aligned_cols=57  Identities=18%  Similarity=0.067  Sum_probs=39.5

Q ss_pred             HHHHHHHHHhcCCcceEEEEeCCC------CHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318           85 GIEATREIRSMGIKIKIVGVTSLN------SEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus        85 ~~~~~~~l~~~~~~~~iv~l~~~~------~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (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            346678888776578998874332      135567788999999998777777766555443

>3f4w_A Putative hexulose 6 phosphate synthase; humps, malonate, lyase; 1.65A {Salmonella typhimurium} SCOP: c.1.2.0

Probab=94.33  E-value=0.65  Score=30.92  Aligned_cols=115  Identities=15%  Similarity=0.079  Sum_probs=69.2

Q ss_pred             eEEEEeCcH--HHHHHHHHHHHHcCCeEEE----EcCHHHHHHHHHcCCCccEEEEecCCC----CCCHHHHHHHHHhcC
Q 048318           27 FALVVDDDC--FIRTIHSMALKSLGFKVEV----AENGKEAVDLFRSGAKFDIVFIDKEMP----VMNGIEATREIRSMG   96 (145)
Q Consensus        27 ~iLii~~~~--~~~~~l~~~L~~~g~~v~~----~~~~~~al~~~~~~~~~dlvl~d~~~~----~~~~~~~~~~l~~~~   96 (145)
                      ..+++...+  .....+.+..++.|..+..    ..+..+.++.+.+ ...|.|-++....    ...+.+.++.+++..
T Consensus        79 d~v~v~~~~~~~~~~~~~~~~~~~g~~~~v~~~~~~t~~~~~~~~~~-~g~d~i~v~~g~~g~~~~~~~~~~i~~l~~~~  157 (211)
T 3f4w_A           79 DYVTVLGVTDVLTIQSCIRAAKEAGKQVVVDMICVDDLPARVRLLEE-AGADMLAVHTGTDQQAAGRKPIDDLITMLKVR  157 (211)
T ss_dssp             SEEEEETTSCHHHHHHHHHHHHHHTCEEEEECTTCSSHHHHHHHHHH-HTCCEEEEECCHHHHHTTCCSHHHHHHHHHHC
T ss_pred             CEEEEeCCCChhHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHH-cCCCEEEEcCCCcccccCCCCHHHHHHHHHHc
Confidence            345555443  3335566666777866553    2344343444433 3478877653211    113577888888765


Q ss_pred             CcceEEEEeCCCCHHHHHHHHHhCCceee-----cCCCCHHHHHHHHHHHHh
Q 048318           97 IKIKIVGVTSLNSEAEREAFMQAGLDLCH-----TKPLSVDKILPLMEDLMK  143 (145)
Q Consensus        97 ~~~~iv~l~~~~~~~~~~~~~~~g~~~~l-----~kP~~~~~L~~~i~~~~~  143 (145)
                      +++|+++-.+- +.+....+.+.|++.++     .+.-++.+....+.+.++
T Consensus       158 ~~~~i~~~gGI-~~~~~~~~~~~Gad~vvvGsai~~~~d~~~~~~~l~~~~~  208 (211)
T 3f4w_A          158 RKARIAVAGGI-SSQTVKDYALLGPDVVIVGSAITHAADPAGEARKISQVLL  208 (211)
T ss_dssp             SSCEEEEESSC-CTTTHHHHHTTCCSEEEECHHHHTCSSHHHHHHHHHHHHH
T ss_pred             CCCcEEEECCC-CHHHHHHHHHcCCCEEEECHHHcCCCCHHHHHHHHHHHHh
Confidence            67888765444 47778888999999885     455667666666665554

>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=93.84  E-value=1.3  Score=33.09  Aligned_cols=94  Identities=14%  Similarity=0.127  Sum_probs=60.5

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEc-CHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAE-NGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~-~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      +..|+++|.++...+.++    ..|+.+.... +-.+.++...- ...|+|++-..- +.....++...++.+++++||+
T Consensus        27 g~~vvvId~d~~~v~~~~----~~g~~vi~GDat~~~~L~~agi-~~A~~viv~~~~-~~~n~~i~~~ar~~~p~~~Iia  100 (413)
T 3l9w_A           27 GVKMVVLDHDPDHIETLR----KFGMKVFYGDATRMDLLESAGA-AKAEVLINAIDD-PQTNLQLTEMVKEHFPHLQIIA  100 (413)
T ss_dssp             TCCEEEEECCHHHHHHHH----HTTCCCEESCTTCHHHHHHTTT-TTCSEEEECCSS-HHHHHHHHHHHHHHCTTCEEEE
T ss_pred             CCCEEEEECCHHHHHHHH----hCCCeEEEcCCCCHHHHHhcCC-CccCEEEECCCC-hHHHHHHHHHHHHhCCCCeEEE
Confidence            456788888877765544    4566665443 33344554432 357888886532 2234556677788888888877


Q ss_pred             EeCCCCHHHHHHHHHhCCceeec
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      -+.  +........+.|++.++.
T Consensus       101 ra~--~~~~~~~L~~~Gad~Vi~  121 (413)
T 3l9w_A          101 RAR--DVDHYIRLRQAGVEKPER  121 (413)
T ss_dssp             EES--SHHHHHHHHHTTCSSCEE
T ss_pred             EEC--CHHHHHHHHHCCCCEEEC
Confidence            665  566677788999998763

>2q5c_A NTRC family transcriptional regulator; structural genomics, protein structure initiative; HET: SO4 GOL; 1.49A {Clostridium acetobutylicum atcc 824}

Probab=93.66  E-value=0.99  Score=30.05  Aligned_cols=118  Identities=13%  Similarity=0.146  Sum_probs=69.7

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHc-CCCccEEEEec----------CCC----CCCHHH
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRS-GAKFDIVFIDK----------EMP----VMNGIE   87 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~-~~~~dlvl~d~----------~~~----~~~~~~   87 (145)
                      ++.+|+++-..+...+..+......+.++. ...+.++++..... ...+|+++.-=          +.|    ..+++|
T Consensus         3 ~~~~I~~iapy~~l~~~~~~i~~e~~~~i~i~~~~l~~~v~~a~~~~~~~dVIISRGgta~~lr~~~~iPVV~I~~s~~D   82 (196)
T 2q5c_A            3 LSLKIALISQNENLLNLFPKLALEKNFIPITKTASLTRASKIAFGLQDEVDAIISRGATSDYIKKSVSIPSISIKVTRFD   82 (196)
T ss_dssp             CCCEEEEEESCHHHHHHHHHHHHHHTCEEEEEECCHHHHHHHHHHHTTTCSEEEEEHHHHHHHHTTCSSCEEEECCCHHH
T ss_pred             CCCcEEEEEccHHHHHHHHHHHhhhCCceEEEECCHHHHHHHHHHhcCCCeEEEECChHHHHHHHhCCCCEEEEcCCHhH
Confidence            456889999999999988888887776765 55678877776543 35688887321          111    246777


Q ss_pred             HHHHHHh---cCCcceEEEEeCCC-CHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318           88 ATREIRS---MGIKIKIVGVTSLN-SEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus        88 ~~~~l~~---~~~~~~iv~l~~~~-~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      +++.+..   ....+-+|-+.+.. .-......+.....-|  ...+.+++...++++.+
T Consensus        83 il~al~~a~~~~~kIavvg~~~~~~~~~~~~~ll~~~i~~~--~~~~~~e~~~~i~~l~~  140 (196)
T 2q5c_A           83 TMRAVYNAKRFGNELALIAYKHSIVDKHEIEAMLGVKIKEF--LFSSEDEITTLISKVKT  140 (196)
T ss_dssp             HHHHHHHHGGGCSEEEEEEESSCSSCHHHHHHHHTCEEEEE--EECSGGGHHHHHHHHHH
T ss_pred             HHHHHHHHHhhCCcEEEEeCcchhhHHHHHHHHhCCceEEE--EeCCHHHHHHHHHHHHH
Confidence            7776654   23333333333322 2233444443333333  34556777777776654

>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=93.51  E-value=1.3  Score=31.03  Aligned_cols=81  Identities=11%  Similarity=0.121  Sum_probs=65.4

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHc-CCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRS-GAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      ...|-+.-.++.....+...|...-|.+..+.+.++.++.+.. +...|++++...  +..-..+...+.+.+--.|+|+
T Consensus         9 ~LsI~~~~~s~~l~~~~~~~L~~dRY~l~~~~s~~~f~~~le~~~e~iDcLvle~~--~~~~~~~~~~L~~~g~lLP~vi   86 (289)
T 1r8j_A            9 QIAICIWVESTAILQDCQRALSADRYQLQVCESGEMLLEYAQTHRDQIDCLILVAA--NPSFRAVVQQLCFEGVVVPAIV   86 (289)
T ss_dssp             CEEEEEECCCHHHHHHHHHHTCSTTEEEEEECSHHHHHHHHHHSTTSCSEEEEETT--STTHHHHHHHHHHTTCCCCEEE
T ss_pred             ceeEEEEeCCHHHHHHHHHhcccCceEEEEcCcHHHHHHHHHhccccCCEEEEEeC--CCccHHHHHHHHHcCccccEEE
Confidence            4677788899999999999998778999999999998888854 346999999872  1236678888888888889998


Q ss_pred             EeCC
Q 048318          104 VTSL  107 (145)
Q Consensus       104 l~~~  107 (145)
                      +...
T Consensus        87 l~~~   90 (289)
T 1r8j_A           87 VGDR   90 (289)
T ss_dssp             ESCC
T ss_pred             eccC
Confidence            8664

>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=93.11  E-value=0.7  Score=32.28  Aligned_cols=56  Identities=20%  Similarity=0.121  Sum_probs=38.3

Q ss_pred             HHHHHHHHHhcCCcceEEEEeCC------CCHHHHHHHHHhCCceeecCCCCHHHHHHHHHH
Q 048318           85 GIEATREIRSMGIKIKIVGVTSL------NSEAEREAFMQAGLDLCHTKPLSVDKILPLMED  140 (145)
Q Consensus        85 ~~~~~~~l~~~~~~~~iv~l~~~------~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~  140 (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            34667888876567888876522      125667888999999998876666665555443

>3rht_A (gatase1)-like protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, unknown function; HET: MSE; 1.83A {Planctomyces limnophilus}

Probab=93.04  E-value=0.092  Score=36.81  Aligned_cols=79  Identities=13%  Similarity=0.074  Sum_probs=47.0

Q ss_pred             CceEEEEeCc--HHHHHHHHHHHHHcCCeEEEEcCHHH--HHHHHHcCCCccEEEEecCCC-CC--CHHHHHHHHHhcCC
Q 048318           25 RLFALVVDDD--CFIRTIHSMALKSLGFKVEVAENGKE--AVDLFRSGAKFDIVFIDKEMP-VM--NGIEATREIRSMGI   97 (145)
Q Consensus        25 ~~~iLii~~~--~~~~~~l~~~L~~~g~~v~~~~~~~~--al~~~~~~~~~dlvl~d~~~~-~~--~~~~~~~~l~~~~~   97 (145)
                      +.+||||+++  +.....+...|+..||.|......+-  -...+.   .||+||++.... ..  +..+.++..-+.  
T Consensus         4 m~~vLiV~g~~~~~~a~~l~~aL~~~g~~V~~i~~~~~~~~~~~L~---~yDvIIl~d~~~~~l~~~~~~~L~~yV~~--   78 (259)
T 3rht_A            4 MTRVLYCGDTSLETAAGYLAGLMTSWQWEFDYIPSHVGLDVGELLA---KQDLVILSDYPAERMTAQAIDQLVTMVKA--   78 (259)
T ss_dssp             --CEEEEESSCTTTTHHHHHHHHHHTTCCCEEECTTSCBCSSHHHH---TCSEEEEESCCGGGBCHHHHHHHHHHHHT--
T ss_pred             CceEEEECCCCchhHHHHHHHHHHhCCceEEEecccccccChhHHh---cCCEEEEcCCccccCCHHHHHHHHHHHHh--
Confidence            4579999988  66888999999999999987654321  112332   499999873221 12  223344333333  


Q ss_pred             cceEEEEeCCC
Q 048318           98 KIKIVGVTSLN  108 (145)
Q Consensus        98 ~~~iv~l~~~~  108 (145)
                      .--+|++....
T Consensus        79 GGgLi~~gG~~   89 (259)
T 3rht_A           79 GCGLVMLGGWE   89 (259)
T ss_dssp             TCEEEEECSTT
T ss_pred             CCeEEEecCcc
Confidence            34566665543

>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=92.99  E-value=0.97  Score=27.99  Aligned_cols=106  Identities=12%  Similarity=0.087  Sum_probs=59.0

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEc-CHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAE-NGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~-~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      +..|.++|.++...+.++    ..|+.+.... +..+.++...- ...|++++-..-. ......+..+++..+..++++
T Consensus        30 g~~v~vid~~~~~~~~~~----~~g~~~i~gd~~~~~~l~~a~i-~~ad~vi~~~~~~-~~n~~~~~~a~~~~~~~~iia  103 (140)
T 3fwz_A           30 DIPLVVIETSRTRVDELR----ERGVRAVLGNAANEEIMQLAHL-ECAKWLILTIPNG-YEAGEIVASARAKNPDIEIIA  103 (140)
T ss_dssp             TCCEEEEESCHHHHHHHH----HTTCEEEESCTTSHHHHHHTTG-GGCSEEEECCSCH-HHHHHHHHHHHHHCSSSEEEE
T ss_pred             CCCEEEEECCHHHHHHHH----HcCCCEEECCCCCHHHHHhcCc-ccCCEEEEECCCh-HHHHHHHHHHHHHCCCCeEEE
Confidence            345677777776655443    3466554433 23334443322 2468887754321 122335566677777888776


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      .+.  +......+.+.|++..+. |  ..+....+.+.
T Consensus       104 r~~--~~~~~~~l~~~G~d~vi~-p--~~~~a~~i~~~  136 (140)
T 3fwz_A          104 RAH--YDDEVAYITERGANQVVM-G--EREIARTMLEL  136 (140)
T ss_dssp             EES--SHHHHHHHHHTTCSEEEE-H--HHHHHHHHHHH
T ss_pred             EEC--CHHHHHHHHHCCCCEEEC-c--hHHHHHHHHHH
Confidence            554  555667778899988763 3  23444444443

>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=92.81  E-value=1.8  Score=30.51  Aligned_cols=100  Identities=8%  Similarity=0.118  Sum_probs=65.9

Q ss_pred             HHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEec-CCCCC-CHHHHHHHHHhc-CCcceEEEEeCCCCHHH
Q 048318           37 IRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDK-EMPVM-NGIEATREIRSM-GIKIKIVGVTSLNSEAE  112 (145)
Q Consensus        37 ~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~-~~~~~-~~~~~~~~l~~~-~~~~~iv~l~~~~~~~~  112 (145)
                      ....+.......|..+. .+.+.+++.+.+.  ..+|+|=++- ++... -.++....+... ..+.++|.-++-.+.+.
T Consensus       157 ~l~~l~~~a~~lGl~~lvevh~~eEl~~A~~--~ga~iIGinnr~l~t~~~dl~~~~~L~~~ip~~~~vIaesGI~t~ed  234 (272)
T 3tsm_A          157 LAKELEDTAFALGMDALIEVHDEAEMERALK--LSSRLLGVNNRNLRSFEVNLAVSERLAKMAPSDRLLVGESGIFTHED  234 (272)
T ss_dssp             HHHHHHHHHHHTTCEEEEEECSHHHHHHHTT--SCCSEEEEECBCTTTCCBCTHHHHHHHHHSCTTSEEEEESSCCSHHH
T ss_pred             HHHHHHHHHHHcCCeEEEEeCCHHHHHHHHh--cCCCEEEECCCCCccCCCChHHHHHHHHhCCCCCcEEEECCCCCHHH
Confidence            34445555566798865 8889999876664  3588876663 22211 124445555443 33678888888889999


Q ss_pred             HHHHHHhCCceeec-----CCCCHHHHHHHH
Q 048318          113 REAFMQAGLDLCHT-----KPLSVDKILPLM  138 (145)
Q Consensus       113 ~~~~~~~g~~~~l~-----kP~~~~~L~~~i  138 (145)
                      +..+.+.|++++++     ++-++.+-.+.+
T Consensus       235 v~~l~~~Ga~gvLVG~almr~~d~~~~~~~l  265 (272)
T 3tsm_A          235 CLRLEKSGIGTFLIGESLMRQHDVAAATRAL  265 (272)
T ss_dssp             HHHHHTTTCCEEEECHHHHTSSCHHHHHHHH
T ss_pred             HHHHHHcCCCEEEEcHHHcCCcCHHHHHHHH
Confidence            99999999999974     566655544433

>1yad_A Regulatory protein TENI; TIM barrel, transcription; 2.10A {Bacillus subtilis} PDB: 3qh2_A*

Probab=91.83  E-value=2  Score=28.83  Aligned_cols=73  Identities=16%  Similarity=0.215  Sum_probs=50.4

Q ss_pred             CCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCC-------CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhC
Q 048318           49 GFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPV-------MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAG  120 (145)
Q Consensus        49 g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~-------~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g  120 (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            54433 56788887766654  4899999764332       13577788877644 6788877666 777888899999


Q ss_pred             Cceee
Q 048318          121 LDLCH  125 (145)
Q Consensus       121 ~~~~l  125 (145)
                      ++.+.
T Consensus       186 a~gv~  190 (221)
T 1yad_A          186 ADGIA  190 (221)
T ss_dssp             CSEEE
T ss_pred             CCEEE
Confidence            99874

>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=90.55  E-value=3.4  Score=29.22  Aligned_cols=99  Identities=16%  Similarity=0.137  Sum_probs=59.9

Q ss_pred             HHHHHHHcCCe--EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc-CCcceEEEEeCCCCHHHHHHHH
Q 048318           41 HSMALKSLGFK--VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM-GIKIKIVGVTSLNSEAEREAFM  117 (145)
Q Consensus        41 l~~~L~~~g~~--v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~-~~~~~iv~l~~~~~~~~~~~~~  117 (145)
                      ++..|+.....  ++.-.+..+.++.+.. ..+|.+++|++....+..++...++.. ....++++=+...+...+..++
T Consensus        30 ~k~~l~~G~~~~gl~~~~~~p~~~e~a~~-~GaD~v~lDlEh~~~~~~~~~~~l~a~~~~~~~~~VRv~~~d~~di~~~l  108 (287)
T 2v5j_A           30 FKAALKAGRPQIGLWLGLSSSYSAELLAG-AGFDWLLIDGEHAPNNVQTVLTQLQAIAPYPSQPVVRPSWNDPVQIKQLL  108 (287)
T ss_dssp             HHHHHHTTCCEEEEEECSCCHHHHHHHHT-SCCSEEEEESSSSSCCHHHHHHHHHHHTTSSSEEEEECSSSCHHHHHHHH
T ss_pred             HHHHHHCCCcEEEEEEECCCHHHHHHHHh-CCCCEEEEeCCCccchHHHHHHHHHHHHhcCCCEEEEECCCCHHHHHHHH
Confidence            45555543213  3333344455566655 579999999987655555555555432 2244555545566677888999


Q ss_pred             HhCCceeec-CCCCHHHHHHHHHH
Q 048318          118 QAGLDLCHT-KPLSVDKILPLMED  140 (145)
Q Consensus       118 ~~g~~~~l~-kP~~~~~L~~~i~~  140 (145)
                      +.|++.++. |--+.+++...++.
T Consensus       109 d~ga~~ImlP~V~saeea~~~~~~  132 (287)
T 2v5j_A          109 DVGTQTLLVPMVQNADEAREAVRA  132 (287)
T ss_dssp             HTTCCEEEESCCCSHHHHHHHHHH
T ss_pred             hCCCCEEEeCCCCCHHHHHHHHHH
Confidence            999998754 34456776665543

>3tqv_A Nicotinate-nucleotide pyrophosphorylase; glycosyltransferase, transferase; 2.62A {Francisella tularensis subsp}

Probab=90.55  E-value=1.5  Score=31.19  Aligned_cols=69  Identities=13%  Similarity=0.041  Sum_probs=50.2

Q ss_pred             ccEEEEecCCCC--CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318           71 FDIVFIDKEMPV--MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus        71 ~dlvl~d~~~~~--~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      +|.+++-.+.-.  ++-.+.++..++..|..||.+-+.  +.++..+++.+|+|-+....++++++...++.+
T Consensus       169 ~d~vlikdNHi~~~G~i~~Av~~ar~~~~~~~IeVEv~--tl~ea~eAl~aGaD~I~LDn~~~~~l~~av~~~  239 (287)
T 3tqv_A          169 FDAYLIKENHIRSAGGIAKAVTKAKKLDSNKVVEVEVT--NLDELNQAIAAKADIVMLDNFSGEDIDIAVSIA  239 (287)
T ss_dssp             SSSEEECTTTC----CHHHHHHHHHHHCTTSCEEEEES--SHHHHHHHHHTTCSEEEEESCCHHHHHHHHHHH
T ss_pred             ccEEEEeHHHHHHhCCHHHHHHHHHhhCCCCcEEEEeC--CHHHHHHHHHcCCCEEEEcCCCHHHHHHHHHhh
Confidence            567777544332  233466777777777788877554  457788999999999999999999988888754

>2v82_A 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; lyase, kdpgal; HET: KDP; 2.1A {Escherichia coli} PDB: 2v81_A*

Probab=90.51  E-value=1.8  Score=28.78  Aligned_cols=80  Identities=13%  Similarity=0.104  Sum_probs=52.9

Q ss_pred             HHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCC-cceEEEEeCCCCHHHHHHHHHhC
Q 048318           43 MALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGI-KIKIVGVTSLNSEAEREAFMQAG  120 (145)
Q Consensus        43 ~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~-~~~iv~l~~~~~~~~~~~~~~~g  120 (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            34445565533 46788888766543  589888621  11235778888877554 58888776665 66777888999


Q ss_pred             CceeecC
Q 048318          121 LDLCHTK  127 (145)
Q Consensus       121 ~~~~l~k  127 (145)
                      ++.+..-
T Consensus       170 a~gv~vG  176 (212)
T 2v82_A          170 CAGAGLG  176 (212)
T ss_dssp             CSEEEEC
T ss_pred             CCEEEEC
Confidence            9998643

>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=90.24  E-value=2.2  Score=29.55  Aligned_cols=84  Identities=19%  Similarity=0.177  Sum_probs=54.1

Q ss_pred             CHHHHHHHHHcCCCccEEEEecC---C-CCC-CHHHHHHHHHhcCCcceEEE-EeCCCCHHHHHHHHHhCCceeecCCCC
Q 048318           57 NGKEAVDLFRSGAKFDIVFIDKE---M-PVM-NGIEATREIRSMGIKIKIVG-VTSLNSEAEREAFMQAGLDLCHTKPLS  130 (145)
Q Consensus        57 ~~~~al~~~~~~~~~dlvl~d~~---~-~~~-~~~~~~~~l~~~~~~~~iv~-l~~~~~~~~~~~~~~~g~~~~l~kP~~  130 (145)
                      +..+.++.+.+ ...|.+=+|.-   . |.. -|..+++.+|+..++.|+.+ +--.........+.++|+|.+-.....
T Consensus        41 ~L~~~i~~l~~-~G~d~lHvDVmDg~FVpnit~G~~~v~~lr~~~p~~~ldvHLmv~~p~~~i~~~~~aGAd~itvH~Ea  119 (246)
T 3inp_A           41 RLGDDVKAVLA-AGADNIHFDVMDNHYVPNLTFGPMVLKALRDYGITAGMDVHLMVKPVDALIESFAKAGATSIVFHPEA  119 (246)
T ss_dssp             GHHHHHHHHHH-TTCCCEEEEEEBSSSSSCBCCCHHHHHHHHHHTCCSCEEEEEECSSCHHHHHHHHHHTCSEEEECGGG
T ss_pred             hHHHHHHHHHH-cCCCEEEEEecCCCcCcchhcCHHHHHHHHHhCCCCeEEEEEeeCCHHHHHHHHHHcCCCEEEEcccc
Confidence            45666777765 45677766652   1 333 37899999998765666655 433444567888899999988776544


Q ss_pred             HHHHHHHHHHH
Q 048318          131 VDKILPLMEDL  141 (145)
Q Consensus       131 ~~~L~~~i~~~  141 (145)
                      ...+.+.++.+
T Consensus       120 ~~~~~~~i~~i  130 (246)
T 3inp_A          120 SEHIDRSLQLI  130 (246)
T ss_dssp             CSCHHHHHHHH
T ss_pred             chhHHHHHHHH
Confidence            44555555544

>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=89.99  E-value=1.3  Score=31.04  Aligned_cols=75  Identities=23%  Similarity=0.162  Sum_probs=48.2

Q ss_pred             HHHHHcCCCccEEEEecCCCCC----------------------CHHHHHHHHHhcCCcceEEEEeCC------CCHHHH
Q 048318           62 VDLFRSGAKFDIVFIDKEMPVM----------------------NGIEATREIRSMGIKIKIVGVTSL------NSEAER  113 (145)
Q Consensus        62 l~~~~~~~~~dlvl~d~~~~~~----------------------~~~~~~~~l~~~~~~~~iv~l~~~------~~~~~~  113 (145)
                      ++.+.+ . .|+|.++.-.++.                      +.++.++.+|+. .++|+++++-.      ......
T Consensus        36 ~~~l~~-~-aD~IElG~PfsdP~adGp~Iq~a~~~Al~~G~~~~~~~~~v~~ir~~-~~~Pii~m~y~n~v~~~g~~~f~  112 (271)
T 1ujp_A           36 VEEVLP-Y-ADLLEIGLPYSDPLGDGPVIQRASELALRKGMSVQGALELVREVRAL-TEKPLFLMTYLNPVLAWGPERFF  112 (271)
T ss_dssp             HHHHGG-G-CSSEEEECCCCC----CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH-CCSCEEEECCHHHHHHHCHHHHH
T ss_pred             HHHHHh-c-CCEEEECCCCCCcccccHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc-CCCCEEEEecCcHHHHhhHHHHH
Confidence            334445 5 8998888655431                      135677888876 67899987422      224556


Q ss_pred             HHHHHhCCceeecCCCCHHHHHHHHH
Q 048318          114 EAFMQAGLDLCHTKPLSVDKILPLME  139 (145)
Q Consensus       114 ~~~~~~g~~~~l~kP~~~~~L~~~i~  139 (145)
                      ..+..+|+++++.--+..++....+.
T Consensus       113 ~~~~~aG~dGviv~Dl~~ee~~~~~~  138 (271)
T 1ujp_A          113 GLFKQAGATGVILPDLPPDEDPGLVR  138 (271)
T ss_dssp             HHHHHHTCCEEECTTCCGGGCHHHHH
T ss_pred             HHHHHcCCCEEEecCCCHHHHHHHHH
Confidence            77889999999876555555544443

>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=89.99  E-value=0.76  Score=36.33  Aligned_cols=101  Identities=13%  Similarity=0.104  Sum_probs=63.9

Q ss_pred             HHHHHHHHHHHHcCCeEEEE---cCHHHHHHHHHcCCCccEEEEecCCCC-C-CHHHHHHHHHhcCCcceEEEEeCCC-C
Q 048318           36 FIRTIHSMALKSLGFKVEVA---ENGKEAVDLFRSGAKFDIVFIDKEMPV-M-NGIEATREIRSMGIKIKIVGVTSLN-S  109 (145)
Q Consensus        36 ~~~~~l~~~L~~~g~~v~~~---~~~~~al~~~~~~~~~dlvl~d~~~~~-~-~~~~~~~~l~~~~~~~~iv~l~~~~-~  109 (145)
                      .-...+..+|+..||+|...   .+ ++..+...+ ..+|+|.+...+.. + ..-++++.+++... ..| ++++.. +
T Consensus       525 ~ga~~va~~l~~aGfeVi~~g~~~t-ee~v~aa~e-~~adiv~lSsl~~~~~~~~~~v~~~Lk~aG~-~~V-~vgG~P~~  600 (637)
T 1req_B          525 GREGFSSPVWHIAGIDTPQVEGGTT-AEIVEAFKK-SGAQVADLCSSAKVYAQQGLEVAKALKAAGA-KAL-YLSGAFKE  600 (637)
T ss_dssp             HHHHHHHHHHHHTTCBCCEEECCCH-HHHHHHHHH-HTCSEEEEECCHHHHHHHHHHHHHHHHHTTC-SEE-EEESCGGG
T ss_pred             hhHHHHHHHHHhCCeeEEeCCCCCC-HHHHHHHHh-cCCCEEEEecccHHHHHHHHHHHHHHHhCCC-CeE-EEeCCCCc
Confidence            34467777889999998743   34 777777766 46898887653321 1 23467777887665 344 455542 2


Q ss_pred             H-HHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318          110 E-AEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus       110 ~-~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      . +....+.+ |+|+|+.--.+..+++..+..-
T Consensus       601 d~~~~~~~~~-G~D~~~~~g~~~~~~l~~l~~~  632 (637)
T 1req_B          601 FGDDAAEAEK-LIDGRLFMGMDVVDTLSSTLDI  632 (637)
T ss_dssp             GGGGHHHHHH-HCCCEECTTCCHHHHHHHHHHH
T ss_pred             cchhhHHHHh-ccceEecCCcCHHHHHHHHHHH
Confidence            1 11345556 9999987777777777666543

>4e38_A Keto-hydroxyglutarate-aldolase/keto-deoxy-phospho aldolase; lyase; 1.64A {Vibrionales bacterium swat-3}

Probab=89.84  E-value=3.5  Score=28.29  Aligned_cols=94  Identities=17%  Similarity=0.158  Sum_probs=58.5

Q ss_pred             HHHHHHHcCCe-EEEEcCHHHHHHHHHc--CCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHH
Q 048318           41 HSMALKSLGFK-VEVAENGKEAVDLFRS--GAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFM  117 (145)
Q Consensus        41 l~~~L~~~g~~-v~~~~~~~~al~~~~~--~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~  117 (145)
                      +...+...+.- |....+.+++......  .....++=+.+  ...++.+.++.+++..+.. ++-...-.+.+....+.
T Consensus        27 ~~~~l~~~~vv~Vir~~~~~~a~~~a~al~~gGi~~iEvt~--~t~~a~e~I~~l~~~~~~~-~iGaGTVlt~~~a~~Ai  103 (232)
T 4e38_A           27 INNQLKALKVIPVIAIDNAEDIIPLGKVLAENGLPAAEITF--RSDAAVEAIRLLRQAQPEM-LIGAGTILNGEQALAAK  103 (232)
T ss_dssp             HHHHHHHHCEEEEECCSSGGGHHHHHHHHHHTTCCEEEEET--TSTTHHHHHHHHHHHCTTC-EEEEECCCSHHHHHHHH
T ss_pred             HHHHHHhCCEEEEEEcCCHHHHHHHHHHHHHCCCCEEEEeC--CCCCHHHHHHHHHHhCCCC-EEeECCcCCHHHHHHHH
Confidence            34455555633 5566677777665432  13455555544  4557889999998876653 44444556788899999


Q ss_pred             HhCCceeecCCCCHHHHHHHH
Q 048318          118 QAGLDLCHTKPLSVDKILPLM  138 (145)
Q Consensus       118 ~~g~~~~l~kP~~~~~L~~~i  138 (145)
                      .+|++.++. |-...++....
T Consensus       104 ~AGA~fIvs-P~~~~~vi~~~  123 (232)
T 4e38_A          104 EAGATFVVS-PGFNPNTVRAC  123 (232)
T ss_dssp             HHTCSEEEC-SSCCHHHHHHH
T ss_pred             HcCCCEEEe-CCCCHHHHHHH
Confidence            999987764 54444454443

>2gek_A Phosphatidylinositol mannosyltransferase (PIMA); GT4 glycosyltransferase, rossmann fold, complex; HET: GDP; 2.40A {Mycobacterium smegmatis} PDB: 2gej_A*

Probab=89.82  E-value=4.2  Score=29.16  Aligned_cols=107  Identities=11%  Similarity=0.029  Sum_probs=62.9

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEE--EcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEV--AENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~--~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (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            455666666555  4555554432112222  2233444444443   577776522133445566666654   46766


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      + +..   ....+....|..+++..|-+.+++...|.++++
T Consensus       312 ~-~~~---~~~~e~i~~~~~g~~~~~~d~~~l~~~i~~l~~  348 (406)
T 2gek_A          312 A-SDL---DAFRRVLADGDAGRLVPVDDADGMAAALIGILE  348 (406)
T ss_dssp             E-CCC---HHHHHHHTTTTSSEECCTTCHHHHHHHHHHHHH
T ss_pred             E-ecC---CcHHHHhcCCCceEEeCCCCHHHHHHHHHHHHc
Confidence            4 332   345566777888999999999999999988875

>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=89.73  E-value=2.8  Score=28.70  Aligned_cols=101  Identities=14%  Similarity=0.221  Sum_probs=64.3

Q ss_pred             HHHHHHHHHcCCeEEE--EcCHHHHHHHHHcCCCccEEEEecCCC-----CCCHHHHHHHHHh--cCCcceEEEEeCCCC
Q 048318           39 TIHSMALKSLGFKVEV--AENGKEAVDLFRSGAKFDIVFIDKEMP-----VMNGIEATREIRS--MGIKIKIVGVTSLNS  109 (145)
Q Consensus        39 ~~l~~~L~~~g~~v~~--~~~~~~al~~~~~~~~~dlvl~d~~~~-----~~~~~~~~~~l~~--~~~~~~iv~l~~~~~  109 (145)
                      ...-..|+..|+.+..  +.++...+..+.. .+||.|=+|-.+-     +.....+++.+..  +...+++| ..+-.+
T Consensus       142 ~~~l~~l~~~G~~ialDdfG~g~ssl~~L~~-l~~d~iKiD~~~v~~~~~~~~~~~~~~~i~~~a~~~g~~vi-aeGVEt  219 (259)
T 3s83_A          142 AVILKTLRDAGAGLALDDFGTGFSSLSYLTR-LPFDTLKIDRYFVRTMGNNAGSAKIVRSVVKLGQDLDLEVV-AEGVEN  219 (259)
T ss_dssp             HHHHHHHHHHTCEEEEECC---CHHHHHHHH-SCCCEEEECHHHHHHTTTCHHHHHHHHHHHHHHHHTTCEEE-ECCCCS
T ss_pred             HHHHHHHHHCCCEEEEECCCCCchhHHHHHh-CCCCEEEECHHHHhhhhcCchHHHHHHHHHHHHHHCCCeEE-EEeCCC
Confidence            3344567788988764  4466667777777 6899999996432     1223344554443  12244554 456677


Q ss_pred             HHHHHHHHHhCCcee----ecCCCCHHHHHHHHHHH
Q 048318          110 EAEREAFMQAGLDLC----HTKPLSVDKILPLMEDL  141 (145)
Q Consensus       110 ~~~~~~~~~~g~~~~----l~kP~~~~~L~~~i~~~  141 (145)
                      .+....+.+.|++.+    +.||...+++...+...
T Consensus       220 ~~~~~~l~~lG~~~~QG~~~~~p~~~~~~~~~l~~~  255 (259)
T 3s83_A          220 AEMAHALQSLGCDYGQGFGYAPALSPQEAEVYLNEA  255 (259)
T ss_dssp             HHHHHHHHHHTCCEECBTTTBCCBCHHHHHHHHHHS
T ss_pred             HHHHHHHHhcCCCEeecCcccCCCCHHHHHHHHHHh
Confidence            888888888886543    66899999998877653

>2lci_A Protein OR36; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, de novo protein; NMR {Artificial gene}

Probab=89.72  E-value=1.9  Score=25.18  Aligned_cols=49  Identities=16%  Similarity=0.209  Sum_probs=33.7

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCeEEE-Ec--C---HHHHHHHHHcCCCccEEEE
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFKVEV-AE--N---GKEAVDLFRSGAKFDIVFI   76 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~v~~-~~--~---~~~al~~~~~~~~~dlvl~   76 (145)
                      +|||+.++......+-.+++..||.|+. ..  +   .++.-+.+.+ ..|.+-=+
T Consensus        53 kiliisndkqllkemlelisklgykvflllqdqdeneleefkrkies-qgyevrkv  107 (134)
T 2lci_A           53 KILIISNDKQLLKEMLELISKLGYKVFLLLQDQDENELEEFKRKIES-QGYEVRKV  107 (134)
T ss_dssp             CEEEEESCHHHHHHHHHHHHHHTCCEEEEEECSCHHHHHHHHHHHHT-TTCEEEEE
T ss_pred             eEEEEcCcHHHHHHHHHHHHHhCceeEEEeecCchhHHHHHHHHHHh-CCeeeeec
Confidence            6899999998888888888889998873 22  2   2334445555 55665443

>3vnd_A TSA, tryptophan synthase alpha chain; psychrophilic enzyme, cold adaptation; HET: PE8; 2.60A {Shewanella frigidimarina}

Probab=89.72  E-value=0.62  Score=32.71  Aligned_cols=54  Identities=15%  Similarity=0.150  Sum_probs=37.8

Q ss_pred             HHHHHHHHhcCCcceEEEEeCCC------CHHHHHHHHHhCCceeecCCCCHHHHHHHHH
Q 048318           86 IEATREIRSMGIKIKIVGVTSLN------SEAEREAFMQAGLDLCHTKPLSVDKILPLME  139 (145)
Q Consensus        86 ~~~~~~l~~~~~~~~iv~l~~~~------~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~  139 (145)
                      +++++.+|+....+|+++++-..      -+....++.++|+|.++.-...+++....+.
T Consensus        83 ~~~v~~ir~~~~~~Pivlm~Y~npv~~~g~e~f~~~~~~aGvdgvii~Dlp~ee~~~~~~  142 (267)
T 3vnd_A           83 FDIITKVRAQHPDMPIGLLLYANLVFANGIDEFYTKAQAAGVDSVLIADVPVEESAPFSK  142 (267)
T ss_dssp             HHHHHHHHHHCTTCCEEEEECHHHHHHHCHHHHHHHHHHHTCCEEEETTSCGGGCHHHHH
T ss_pred             HHHHHHHHhcCCCCCEEEEecCcHHHHhhHHHHHHHHHHcCCCEEEeCCCCHhhHHHHHH
Confidence            67777777765678988876432      2556888899999998876565665544443

>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=89.39  E-value=4.1  Score=28.41  Aligned_cols=99  Identities=8%  Similarity=0.038  Sum_probs=59.1

Q ss_pred             HHHHHHHcC--CeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc-CCcceEEEEeCCCCHHHHHHHH
Q 048318           41 HSMALKSLG--FKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM-GIKIKIVGVTSLNSEAEREAFM  117 (145)
Q Consensus        41 l~~~L~~~g--~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~-~~~~~iv~l~~~~~~~~~~~~~  117 (145)
                      ++..|+...  +.++......+.++.+.. ..+|.+++|++..-.+..++...++.. ....++++=+...+...+..++
T Consensus         9 ~k~~l~~g~~~~g~~~~~~~p~~~e~a~~-~GaD~v~lDlE~~~~~~~~~~~~~~a~~~~~~~~~VRv~~~~~~~i~~~l   87 (267)
T 2vws_A            9 FKERLRKGEVQIGLWLSSTTAYMAEIAAT-SGYDWLLIDGEHAPNTIQDLYHQLQAVAPYASQPVIRPVEGSKPLIKQVL   87 (267)
T ss_dssp             HHHHHHTTCCEEEEEECSCCHHHHHHHHT-TCCSEEEEETTTSCCCHHHHHHHHHHHTTSSSEEEEECSSCCHHHHHHHH
T ss_pred             HHHHHHCCCCEEEEEEeCCCHHHHHHHHh-CCCCEEEEcCCCCCCCHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHH
Confidence            445554322  233333344555566655 579999999977655555555555432 1234444444566778888999


Q ss_pred             HhCCceeec-CCCCHHHHHHHHHH
Q 048318          118 QAGLDLCHT-KPLSVDKILPLMED  140 (145)
Q Consensus       118 ~~g~~~~l~-kP~~~~~L~~~i~~  140 (145)
                      +.|++.++. |--+.+++...++.
T Consensus        88 ~~g~~~I~~P~V~s~ee~~~~~~~  111 (267)
T 2vws_A           88 DIGAQTLLIPMVDTAEQARQVVSA  111 (267)
T ss_dssp             HTTCCEEEECCCCSHHHHHHHHHH
T ss_pred             HhCCCEEEeCCCCCHHHHHHHHHH
Confidence            999998754 34456776655544

>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=89.32  E-value=1.6  Score=33.42  Aligned_cols=66  Identities=21%  Similarity=0.351  Sum_probs=48.0

Q ss_pred             HHHHHHHHcCCCccEEEEecCCCCCC-HHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           59 KEAVDLFRSGAKFDIVFIDKEMPVMN-GIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        59 ~~al~~~~~~~~~dlvl~d~~~~~~~-~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      .+..+.+.+ ..+|+|.+|...+... -.+.++.+++..++.|+++ ..-.+.+....+.++|+|.+.+
T Consensus       233 ~~~a~~l~~-aG~d~I~id~a~g~~~~~~~~i~~ir~~~p~~~Vi~-g~v~t~e~a~~l~~aGaD~I~V  299 (496)
T 4fxs_A          233 EERVKALVE-AGVDVLLIDSSHGHSEGVLQRIRETRAAYPHLEIIG-GNVATAEGARALIEAGVSAVKV  299 (496)
T ss_dssp             HHHHHHHHH-TTCSEEEEECSCTTSHHHHHHHHHHHHHCTTCCEEE-EEECSHHHHHHHHHHTCSEEEE
T ss_pred             HHHHHHHHh-ccCceEEeccccccchHHHHHHHHHHHHCCCceEEE-cccCcHHHHHHHHHhCCCEEEE
Confidence            333344444 3699999998766443 4578899988877888765 4456778889999999999975

>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=89.05  E-value=0.94  Score=31.87  Aligned_cols=54  Identities=15%  Similarity=0.135  Sum_probs=37.5

Q ss_pred             HHHHHHHHHhcCCcceEEEEeCC------CCHHHHHHHHHhCCceeecCCCCHHHHHHHH
Q 048318           85 GIEATREIRSMGIKIKIVGVTSL------NSEAEREAFMQAGLDLCHTKPLSVDKILPLM  138 (145)
Q Consensus        85 ~~~~~~~l~~~~~~~~iv~l~~~------~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i  138 (145)
                      .+++++.+|+..+.+|+++++-.      .-.....++.++|+|+++.--+.+++.....
T Consensus        84 ~~~~v~~~r~~~~~~Pivlm~Y~n~v~~~g~~~f~~~~~~aGvdGvIipDlp~ee~~~~~  143 (271)
T 3nav_A           84 CFELIAQIRARNPETPIGLLMYANLVYARGIDDFYQRCQKAGVDSVLIADVPTNESQPFV  143 (271)
T ss_dssp             HHHHHHHHHHHCTTSCEEEEECHHHHHHTCHHHHHHHHHHHTCCEEEETTSCGGGCHHHH
T ss_pred             HHHHHHHHHhcCCCCCEEEEecCcHHHHHhHHHHHHHHHHCCCCEEEECCCCHHHHHHHH
Confidence            45677788876678899987632      3355688889999999887655555544333

>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=88.94  E-value=2.9  Score=30.34  Aligned_cols=110  Identities=13%  Similarity=0.144  Sum_probs=59.6

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCe----------EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHh
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFK----------VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRS   94 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~----------v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~   94 (145)
                      +.+.+|+.+.+.....+++.+++.|..          +......++....+.   ..|++++--...+.-|..+++.+. 
T Consensus       225 ~~~lvivG~g~~~~~~l~~~~~~~gl~~~~~~~~~~~v~~~~~~~dl~~~y~---~aDv~vl~ss~~e~gg~~~lEAmA-  300 (374)
T 2xci_A          225 SLKLILVPRHIENAKIFEKKARDFGFKTSFFENLEGDVILVDRFGILKELYP---VGKIAIVGGTFVNIGGHNLLEPTC-  300 (374)
T ss_dssp             TCEEEEEESSGGGHHHHHHHHHHTTCCEEETTCCCSSEEECCSSSCHHHHGG---GEEEEEECSSSSSSCCCCCHHHHT-
T ss_pred             CcEEEEECCCHHHHHHHHHHHHHCCCceEEecCCCCcEEEECCHHHHHHHHH---hCCEEEECCcccCCCCcCHHHHHH-
Confidence            456777887776656677777766643          222222233333332   368877743332222333444433 


Q ss_pred             cCCcceEEEEeCCCCHHH-HHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318           95 MGIKIKIVGVTSLNSEAE-REAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus        95 ~~~~~~iv~l~~~~~~~~-~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                        ..+|+|.-+...+... .......|   ++..+-+.++|...+.++++
T Consensus       301 --~G~PVI~~~~~~~~~e~~~~~~~~G---~l~~~~d~~~La~ai~~ll~  345 (374)
T 2xci_A          301 --WGIPVIYGPYTHKVNDLKEFLEKEG---AGFEVKNETELVTKLTELLS  345 (374)
T ss_dssp             --TTCCEEECSCCTTSHHHHHHHHHTT---CEEECCSHHHHHHHHHHHHH
T ss_pred             --hCCCEEECCCccChHHHHHHHHHCC---CEEEeCCHHHHHHHHHHHHh
Confidence              3678874222233233 32223333   55566789999999988875

>2l69_A Rossmann 2X3 fold protein; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Artificial gene}

Probab=88.74  E-value=2.4  Score=24.82  Aligned_cols=82  Identities=18%  Similarity=0.207  Sum_probs=50.4

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHc-CCCccEEEEecCCCCCC-HHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRS-GAKFDIVFIDKEMPVMN-GIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-~~~~dlvl~d~~~~~~~-~~~~~~~l~~~~~~~~iv  102 (145)
                      ++-|++...+.+...-.+..+++.||.+..+.+..+.-..+.+ -.+|+.-++-.-..+.. .-..++..++.+..+-||
T Consensus         2 nivivvfstdeetlrkfkdiikkngfkvrtvrspqelkdsieelvkkynativvvvvddkewaekairfvkslgaqvlii   81 (134)
T 2l69_A            2 NIVIVVFSTDEETLRKFKDIIKKNGFKVRTVRSPQELKDSIEELVKKYNATIVVVVVDDKEWAEKAIRFVKSLGAQVLII   81 (134)
T ss_dssp             CEEEEECCCCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHHHHHTTCCCCEEEEEECSSHHHHHHHHHHHHHHCCCCEEE
T ss_pred             cEEEEEEeCCHHHHHHHHHHHHhcCceEEEecCHHHHHHHHHHHHHHhCCeEEEEEEccHHHHHHHHHHHHhcCCeEEEE
Confidence            4456777888888889999999999999999998887666543 12344222222211211 123445555666566555


Q ss_pred             EEeC
Q 048318          103 GVTS  106 (145)
Q Consensus       103 ~l~~  106 (145)
                      +.-.
T Consensus        82 iydq   85 (134)
T 2l69_A           82 IYDQ   85 (134)
T ss_dssp             EECS
T ss_pred             EEeC
Confidence            5443

>4e5v_A Putative THUA-like protein; THUA-like proteins, trehalose utilisation, structural genomi center for structural genomics, JCSG; 1.75A {Parabacteroides merdae}

Probab=88.61  E-value=0.78  Score=32.43  Aligned_cols=58  Identities=14%  Similarity=0.179  Sum_probs=39.2

Q ss_pred             CCceEEEEeC-----cHHHHHHHHHHHHHcC-CeEEEEcCHH-----HHHHHHHcCCCccEEEEecCCCCC
Q 048318           24 LRLFALVVDD-----DCFIRTIHSMALKSLG-FKVEVAENGK-----EAVDLFRSGAKFDIVFIDKEMPVM   83 (145)
Q Consensus        24 ~~~~iLii~~-----~~~~~~~l~~~L~~~g-~~v~~~~~~~-----~al~~~~~~~~~dlvl~d~~~~~~   83 (145)
                      ++++|||+..     -+.....+..+|++.| |.|....+..     +.+.. .- ..+|+|+++......
T Consensus         3 ~~~kvLiv~G~~~H~~~~~~~~l~~~l~~~g~f~V~~~~d~~~~~d~~~f~~-~L-~~~D~vV~~~~~~~l   71 (281)
T 4e5v_A            3 KPIKTLLITGQNNHNWQVSHVVLKQILENSGRFDVDFVISPEQGKDMSGFVL-DF-SPYQLVVLDYNGDSW   71 (281)
T ss_dssp             CCEEEEEEESCCSSCHHHHHHHHHHHHHHTTSEEEEEEECCCTTSCCTTCCC-CC-TTCSEEEECCCSSCC
T ss_pred             CceEEEEEcCCCCCChHHHHHHHHHHHHhcCCEEEEEEeCCccccchhHHhh-hh-hcCCEEEEeCCCCcC
Confidence            4678899866     3666788999999888 9999876641     22211 11 359999988754433

>4avf_A Inosine-5'-monophosphate dehydrogenase; oxidoreductase; 2.23A {Pseudomonas aeruginosa}

Probab=88.47  E-value=2.5  Score=32.23  Aligned_cols=68  Identities=21%  Similarity=0.305  Sum_probs=49.0

Q ss_pred             CHHHHHHHHHcCCCccEEEEecCCCCC-CHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           57 NGKEAVDLFRSGAKFDIVFIDKEMPVM-NGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        57 ~~~~al~~~~~~~~~dlvl~d~~~~~~-~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      +..+..+.+.+ ..+|+|.+|...+.. .-.+.++.+++..+++|+++ ..-.+.+....+.++|+|.+.+
T Consensus       229 ~~~~~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          229 DTGERVAALVA-AGVDVVVVDTAHGHSKGVIERVRWVKQTFPDVQVIG-GNIATAEAAKALAEAGADAVKV  297 (490)
T ss_dssp             THHHHHHHHHH-TTCSEEEEECSCCSBHHHHHHHHHHHHHCTTSEEEE-EEECSHHHHHHHHHTTCSEEEE
T ss_pred             chHHHHHHHhh-cccceEEecccCCcchhHHHHHHHHHHHCCCceEEE-eeeCcHHHHHHHHHcCCCEEEE
Confidence            33444444444 469999999876543 23578888888777777765 4456778889999999999975

>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=88.38  E-value=2.9  Score=28.44  Aligned_cols=49  Identities=20%  Similarity=0.092  Sum_probs=33.1

Q ss_pred             HHHHHHHHHhcCCcceEEEEeCCCC------HHHHHHHHHhCCceeecCCCCHHHH
Q 048318           85 GIEATREIRSMGIKIKIVGVTSLNS------EAEREAFMQAGLDLCHTKPLSVDKI  134 (145)
Q Consensus        85 ~~~~~~~l~~~~~~~~iv~l~~~~~------~~~~~~~~~~g~~~~l~kP~~~~~L  134 (145)
                      +.+.++.+++.. +.|+.+++....      ......+...|++.++.-....++.
T Consensus        68 ~~~~i~~i~~~~-~~pv~~~~~~~~~~~~~~~~~~~~~~~~Gad~v~~~~~~~~~~  122 (248)
T 1geq_A           68 AFWIVKEFRRHS-STPIVLMTYYNPIYRAGVRNFLAEAKASGVDGILVVDLPVFHA  122 (248)
T ss_dssp             HHHHHHHHHTTC-CCCEEEEECHHHHHHHCHHHHHHHHHHHTCCEEEETTCCGGGH
T ss_pred             HHHHHHHHHhhC-CCCEEEEeccchhhhcCHHHHHHHHHHCCCCEEEECCCChhhH
Confidence            367778887753 568777663222      4677888899999998765444443

>3dr5_A Putative O-methyltransferase; Q8NRD3, CGL1119, PF01596, CGR117, NESG, structural genomics, PSI-2, protein structure initiative; 2.25A {Corynebacterium glutamicum}

Probab=88.32  E-value=3.5  Score=27.68  Aligned_cols=67  Identities=7%  Similarity=0.091  Sum_probs=47.1

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCe---EE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHh
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFK---VE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRS   94 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~---v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~   94 (145)
                      ..+|..+|-++...+..+..++..|+.   +. ...+..+.+..+.. ..||+|++|....  +-.++++.+..
T Consensus        81 ~~~v~~vD~~~~~~~~a~~~~~~~g~~~~~i~~~~gda~~~l~~~~~-~~fD~V~~d~~~~--~~~~~l~~~~~  151 (221)
T 3dr5_A           81 NTTLTCIDPESEHQRQAKALFREAGYSPSRVRFLLSRPLDVMSRLAN-DSYQLVFGQVSPM--DLKALVDAAWP  151 (221)
T ss_dssp             TSEEEEECSCHHHHHHHHHHHHHTTCCGGGEEEECSCHHHHGGGSCT-TCEEEEEECCCTT--THHHHHHHHHH
T ss_pred             CCEEEEEECCHHHHHHHHHHHHHcCCCcCcEEEEEcCHHHHHHHhcC-CCcCeEEEcCcHH--HHHHHHHHHHH
Confidence            357899999999999999999987764   55 45566665543323 4799999997543  33446665554

>1xi3_A Thiamine phosphate pyrophosphorylase; structural genomics, southeast collaboratory for structural genomics, hyperthermophIle; 1.70A {Pyrococcus furiosus} SCOP: c.1.3.1

Probab=88.26  E-value=4  Score=26.92  Aligned_cols=84  Identities=19%  Similarity=0.241  Sum_probs=53.6

Q ss_pred             EEcCHHHHHHHHHcCCCccEEEEecCCCC-------CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceee-
Q 048318           54 VAENGKEAVDLFRSGAKFDIVFIDKEMPV-------MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCH-  125 (145)
Q Consensus        54 ~~~~~~~al~~~~~~~~~dlvl~d~~~~~-------~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l-  125 (145)
                      .+.+..++......  .+|.++++...+.       ..+++.++.+++.. ++|+++..+-. .+....+...|++.+. 
T Consensus       114 ~~~t~~e~~~~~~~--g~d~i~~~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~pvia~GGI~-~~nv~~~~~~Ga~gv~v  189 (215)
T 1xi3_A          114 SVYSLEEALEAEKK--GADYLGAGSVFPTKTKEDARVIGLEGLRKIVESV-KIPVVAIGGIN-KDNAREVLKTGVDGIAV  189 (215)
T ss_dssp             EESSHHHHHHHHHH--TCSEEEEECSSCC----CCCCCHHHHHHHHHHHC-SSCEEEESSCC-TTTHHHHHTTTCSEEEE
T ss_pred             ecCCHHHHHHHHhc--CCCEEEEcCCccCCCCCCCCCcCHHHHHHHHHhC-CCCEEEECCcC-HHHHHHHHHcCCCEEEE
Confidence            46677776655443  5899998753332       34788888887654 67887765555 6667778889999884 


Q ss_pred             ----cCCCCHHHHHHHHHHH
Q 048318          126 ----TKPLSVDKILPLMEDL  141 (145)
Q Consensus       126 ----~kP~~~~~L~~~i~~~  141 (145)
                          .+.-++.+..+.+.+.
T Consensus       190 gs~i~~~~d~~~~~~~~~~~  209 (215)
T 1xi3_A          190 ISAVMGAEDVRKATEELRKI  209 (215)
T ss_dssp             SHHHHTSSSHHHHHHHHHHH
T ss_pred             hHHHhCCCCHHHHHHHHHHH
Confidence                3333454444444433

>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=87.91  E-value=2.6  Score=30.95  Aligned_cols=67  Identities=21%  Similarity=0.346  Sum_probs=46.3

Q ss_pred             HHHHHHHHHcCCCccEEEEecCCCCC-CHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           58 GKEAVDLFRSGAKFDIVFIDKEMPVM-NGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        58 ~~~al~~~~~~~~~dlvl~d~~~~~~-~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      ..+.++.+.+ ..+|+|.+|...... .-.+.++.+++..+++++++ ..-.+.+....+.++|+|.+.+
T Consensus       109 ~~~~~~~lie-aGvd~I~idta~G~~~~~~~~I~~ik~~~p~v~Vi~-G~v~t~e~A~~a~~aGAD~I~v  176 (366)
T 4fo4_A          109 NEERVKALVE-AGVDVLLIDSSHGHSEGVLQRIRETRAAYPHLEIIG-GNVATAEGARALIEAGVSAVKV  176 (366)
T ss_dssp             CHHHHHHHHH-TTCSEEEEECSCTTSHHHHHHHHHHHHHCTTCEEEE-EEECSHHHHHHHHHHTCSEEEE
T ss_pred             HHHHHHHHHh-CCCCEEEEeCCCCCCHHHHHHHHHHHHhcCCCceEe-eeeCCHHHHHHHHHcCCCEEEE
Confidence            3455555555 469999998653222 23467788888777777764 3345778888899999999876

>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=87.67  E-value=5.4  Score=28.20  Aligned_cols=70  Identities=11%  Similarity=0.142  Sum_probs=48.5

Q ss_pred             EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           52 VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        52 v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      ...+.+.+++.+.+..  ..|+|++|- ++..+-.+..+.++...+++++ ..++.-+.+.+.+....|+|.+.
T Consensus       198 ~Vev~t~eea~eal~a--GaD~I~LDn-~~~~~~~~~v~~l~~~~~~v~i-eaSGGIt~~~i~~~a~tGVD~is  267 (284)
T 1qpo_A          198 EVEVDSLEQLDAVLPE--KPELILLDN-FAVWQTQTAVQRRDSRAPTVML-ESSGGLSLQTAATYAETGVDYLA  267 (284)
T ss_dssp             EEEESSHHHHHHHGGG--CCSEEEEET-CCHHHHHHHHHHHHHHCTTCEE-EEESSCCTTTHHHHHHTTCSEEE
T ss_pred             EEEeCCHHHHHHHHHc--CCCEEEECC-CCHHHHHHHHHHhhccCCCeEE-EEECCCCHHHHHHHHhcCCCEEE
Confidence            3377789999888875  489999996 3222233455555554445554 46777778888889999998875

>3l0g_A Nicotinate-nucleotide pyrophosphorylase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ALS collaborative crystallography; 2.05A {Ehrlichia chaffeensis}

Probab=87.48  E-value=2.7  Score=30.06  Aligned_cols=69  Identities=14%  Similarity=0.062  Sum_probs=51.2

Q ss_pred             ccEEEEecCCC--CCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318           71 FDIVFIDKEMP--VMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus        71 ~dlvl~d~~~~--~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (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            57777754321  1233466777787777788887665  457888999999999999999999999888764

>1dxe_A 2-dehydro-3-deoxy-galactarate aldolase; class II aldolase; 1.8A {Escherichia coli} SCOP: c.1.12.5 PDB: 1dxf_A

Probab=87.43  E-value=5.5  Score=27.53  Aligned_cols=99  Identities=12%  Similarity=0.029  Sum_probs=59.2

Q ss_pred             HHHHHHHcC--CeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc-CCcceEEEEeCCCCHHHHHHHH
Q 048318           41 HSMALKSLG--FKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM-GIKIKIVGVTSLNSEAEREAFM  117 (145)
Q Consensus        41 l~~~L~~~g--~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~-~~~~~iv~l~~~~~~~~~~~~~  117 (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            455554432  233333345555566655 579999999977644444444444432 2244555556666777888999


Q ss_pred             HhCCceeec-CCCCHHHHHHHHHH
Q 048318          118 QAGLDLCHT-KPLSVDKILPLMED  140 (145)
Q Consensus       118 ~~g~~~~l~-kP~~~~~L~~~i~~  140 (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            999998754 34567777555443

>3gnn_A Nicotinate-nucleotide pyrophosphorylase; decode biostructures, ssgcid, niaid, SBRI, UWPPG, glycosyltransferase, transferase, structural genomics; 2.25A {Burkholderia pseudomallei}

Probab=87.40  E-value=4.5  Score=28.84  Aligned_cols=65  Identities=12%  Similarity=0.027  Sum_probs=45.4

Q ss_pred             EEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCcee
Q 048318           53 EVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLC  124 (145)
Q Consensus        53 ~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~  124 (145)
                      +.+.+.+++.+.+..  ..|+|.+|-    ++-.++-+..+...+++++ ..++.-+.+.+.+....|+|.+
T Consensus       214 VEvdtlde~~eAl~a--GaD~I~LDn----~~~~~l~~av~~i~~~v~i-eaSGGI~~~~i~~~a~tGVD~i  278 (298)
T 3gnn_A          214 IEVETLDQLRTALAH--GARSVLLDN----FTLDMMRDAVRVTEGRAVL-EVSGGVNFDTVRAIAETGVDRI  278 (298)
T ss_dssp             EEESSHHHHHHHHHT--TCEEEEEES----CCHHHHHHHHHHHTTSEEE-EEESSCSTTTHHHHHHTTCSEE
T ss_pred             EEeCCHHHHHHHHHc--CCCEEEECC----CCHHHHHHHHHHhCCCCeE-EEEcCCCHHHHHHHHHcCCCEE
Confidence            478899998888875  489999984    3333443344434445555 4677777778888889999777

>3gnn_A Nicotinate-nucleotide pyrophosphorylase; decode biostructures, ssgcid, niaid, SBRI, UWPPG, glycosyltransferase, transferase, structural genomics; 2.25A {Burkholderia pseudomallei}

Probab=87.08  E-value=2.3  Score=30.33  Aligned_cols=69  Identities=7%  Similarity=0.003  Sum_probs=42.5

Q ss_pred             ccEEEEecCCCC--CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318           71 FDIVFIDKEMPV--MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus        71 ~dlvl~d~~~~~--~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      +|.+++-.+.-.  .+-.+.++..++..|..||.+-...  .++..+++.+|+|.+..-.++++++...++.+
T Consensus       180 ~d~vlikdNHi~~~G~i~~Av~~~r~~~p~~~ieVEvdt--lde~~eAl~aGaD~I~LDn~~~~~l~~av~~i  250 (298)
T 3gnn_A          180 YAGILIKENHIAAAGGVGEALDAAFALNAEVPVQIEVET--LDQLRTALAHGARSVLLDNFTLDMMRDAVRVT  250 (298)
T ss_dssp             ---------------CHHHHHHHHHHHC--CCCEEEESS--HHHHHHHHHTTCEEEEEESCCHHHHHHHHHHH
T ss_pred             CcEEEEeHHHHHHcCCHHHHHHHHHHhCCCCCEEEEeCC--HHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence            566666443322  2344667778877777787776654  45688899999999999999999999888765

>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=86.96  E-value=3.5  Score=31.63  Aligned_cols=66  Identities=18%  Similarity=0.367  Sum_probs=48.0

Q ss_pred             HHHHHHHHcCCCccEEEEecCCCCCCH-HHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           59 KEAVDLFRSGAKFDIVFIDKEMPVMNG-IEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        59 ~~al~~~~~~~~~dlvl~d~~~~~~~~-~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (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            344444445 46999999987665443 578889988877777774 4455778889999999998864

>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=86.56  E-value=3.1  Score=27.41  Aligned_cols=80  Identities=14%  Similarity=0.160  Sum_probs=45.9

Q ss_pred             EEcCHHHHHHHH---HcCCCccEEEEecCCCCCCHHHHHHHHHhcCC-cceEEEEeCCCCHHHHHHHHHhCCceeecCCC
Q 048318           54 VAENGKEAVDLF---RSGAKFDIVFIDKEMPVMNGIEATREIRSMGI-KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPL  129 (145)
Q Consensus        54 ~~~~~~~al~~~---~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~-~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~  129 (145)
                      ...+.+++.+.+   .. ...+++-+....  ..+.+.++.+|+..+ +. ++-++.-.+......+.+.|+|.+ .-|.
T Consensus        17 ~~~~~~~~~~~~~~~~~-~G~~~iev~~~~--~~~~~~i~~ir~~~~~~~-~ig~~~v~~~~~~~~a~~~Gad~i-v~~~   91 (205)
T 1wa3_A           17 RANSVEEAKEKALAVFE-GGVHLIEITFTV--PDADTVIKELSFLKEKGA-IIGAGTVTSVEQCRKAVESGAEFI-VSPH   91 (205)
T ss_dssp             CCSSHHHHHHHHHHHHH-TTCCEEEEETTS--TTHHHHHHHTHHHHHTTC-EEEEESCCSHHHHHHHHHHTCSEE-ECSS
T ss_pred             ecCCHHHHHHHHHHHHH-CCCCEEEEeCCC--hhHHHHHHHHHHHCCCCc-EEEecccCCHHHHHHHHHcCCCEE-EcCC
Confidence            344555544433   23 346666555443  356677888877533 33 333434456777888899999888 5565


Q ss_pred             CHHHHHHHH
Q 048318          130 SVDKILPLM  138 (145)
Q Consensus       130 ~~~~L~~~i  138 (145)
                      ...++....
T Consensus        92 ~~~~~~~~~  100 (205)
T 1wa3_A           92 LDEEISQFC  100 (205)
T ss_dssp             CCHHHHHHH
T ss_pred             CCHHHHHHH
Confidence            544444433

>4af0_A Inosine-5'-monophosphate dehydrogenase; oxidoreductase, GTP biosynthesis, drug resistance; HET: MOA IMP; 2.20A {Cryptococcus neoformans} PDB: 4af0_B*

Probab=86.50  E-value=2.9  Score=32.40  Aligned_cols=62  Identities=21%  Similarity=0.282  Sum_probs=47.3

Q ss_pred             HHHHHcCCCccEEEEecCCCCC-CHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           62 VDLFRSGAKFDIVFIDKEMPVM-NGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        62 l~~~~~~~~~dlvl~d~~~~~~-~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      ...+.+ ...|++++|...... .-.+.++.+++..|+++|| ...-.+.+....+.++|||.+-
T Consensus       286 ~~aLv~-AGvD~iviD~ahGhs~~v~~~i~~ik~~~p~~~vi-aGNVaT~e~a~~Li~aGAD~vk  348 (556)
T 4af0_A          286 LKLLAE-AGLDVVVLDSSQGNSVYQIEFIKWIKQTYPKIDVI-AGNVVTREQAAQLIAAGADGLR  348 (556)
T ss_dssp             HHHHHH-TTCCEEEECCSCCCSHHHHHHHHHHHHHCTTSEEE-EEEECSHHHHHHHHHHTCSEEE
T ss_pred             HHHHHh-cCCcEEEEeccccccHHHHHHHHHHHhhCCcceEE-eccccCHHHHHHHHHcCCCEEe
Confidence            333444 468999999876443 3478889999988888876 5677788888999999999874

>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=86.41  E-value=3.4  Score=27.57  Aligned_cols=44  Identities=11%  Similarity=0.080  Sum_probs=29.7

Q ss_pred             CCccEEEEecCC-----CCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHH
Q 048318           69 AKFDIVFIDKEM-----PVMNGIEATREIRSMGIKIKIVGVTSLNSEAER  113 (145)
Q Consensus        69 ~~~dlvl~d~~~-----~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~  113 (145)
                      ..||+||+|--.     .-.+.-++++.+..++...-+|+ |+...+...
T Consensus       119 ~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIl-TGr~ap~~l  167 (196)
T 1g5t_A          119 PLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVII-TGRGCHRDI  167 (196)
T ss_dssp             TTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEE-ECSSCCHHH
T ss_pred             CCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEE-ECCCCcHHH
Confidence            469999999632     23466778888888777777765 555444443

>3ceu_A Thiamine phosphate pyrophosphorylase; TIM barrel-like protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacteroides thetaiotaomicron vpi-5482}

Probab=86.33  E-value=2.1  Score=28.63  Aligned_cols=67  Identities=18%  Similarity=0.206  Sum_probs=46.3

Q ss_pred             EEcCHHHHHHHHHcCCCccEEEEecCCCCC--------CHHHHHHHHHhcC-CcceEEEEeCCCCHHHHHHHHHhCCcee
Q 048318           54 VAENGKEAVDLFRSGAKFDIVFIDKEMPVM--------NGIEATREIRSMG-IKIKIVGVTSLNSEAEREAFMQAGLDLC  124 (145)
Q Consensus        54 ~~~~~~~al~~~~~~~~~dlvl~d~~~~~~--------~~~~~~~~l~~~~-~~~~iv~l~~~~~~~~~~~~~~~g~~~~  124 (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            567888876553 3  47999887654322        2677888887653 578998876665 556778889999887

>3r2g_A Inosine 5'-monophosphate dehydrogenase; structural genomics, PSI-biology, NEW YORK structural genomi research consortium, nysgrc; 1.94A {Legionella pneumophila subsp}

Probab=86.29  E-value=3.2  Score=30.42  Aligned_cols=67  Identities=13%  Similarity=0.141  Sum_probs=0.0

Q ss_pred             HHHHHHHHHcCCCccEEEEecCCCCCCH-HHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           58 GKEAVDLFRSGAKFDIVFIDKEMPVMNG-IEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        58 ~~~al~~~~~~~~~dlvl~d~~~~~~~~-~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      ..+.++.+.+ ..+|+|.+|........ ++.++.+++..+.+|++ ...-.+.+....+.+.|+|.+.+
T Consensus       101 ~~e~~~~a~~-aGvdvI~id~a~G~~~~~~e~I~~ir~~~~~~~Vi-~G~V~T~e~A~~a~~aGaD~I~V  168 (361)
T 3r2g_A          101 ELQRAEALRD-AGADFFCVDVAHAHAKYVGKTLKSLRQLLGSRCIM-AGNVATYAGADYLASCGADIIKA  168 (361)
T ss_dssp             HHHHHHHHHH-TTCCEEEEECSCCSSHHHHHHHHHHHHHHTTCEEE-EEEECSHHHHHHHHHTTCSEEEE
T ss_pred             HHHHHHHHHH-cCCCEEEEeCCCCCcHhHHHHHHHHHHhcCCCeEE-EcCcCCHHHHHHHHHcCCCEEEE

>3llv_A Exopolyphosphatase-related protein; NAD(P)-binding, rossmann, PSI, M structural genomics; 1.70A {Archaeoglobus fulgidus}

Probab=86.25  E-value=4.1  Score=24.87  Aligned_cols=53  Identities=19%  Similarity=0.237  Sum_probs=28.8

Q ss_pred             CccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           70 KFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        70 ~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      ..|++++-.. .+......+...++.. ...+++.+...  .....+...|++..+.
T Consensus        70 ~~d~vi~~~~-~~~~n~~~~~~a~~~~-~~~iia~~~~~--~~~~~l~~~G~~~vi~  122 (141)
T 3llv_A           70 GVSAVLITGS-DDEFNLKILKALRSVS-DVYAIVRVSSP--KKKEEFEEAGANLVVL  122 (141)
T ss_dssp             TCSEEEECCS-CHHHHHHHHHHHHHHC-CCCEEEEESCG--GGHHHHHHTTCSEEEE
T ss_pred             cCCEEEEecC-CHHHHHHHHHHHHHhC-CceEEEEEcCh--hHHHHHHHcCCCEEEC
Confidence            4677776543 1112233445556555 55666555433  3345567888876653

>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=85.80  E-value=3.2  Score=29.92  Aligned_cols=55  Identities=16%  Similarity=0.067  Sum_probs=43.3

Q ss_pred             HHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318           85 GIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus        85 ~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      -.+.++..++..|..||.+.+..  .+...+++..|+|.+....++++++...++.+
T Consensus       218 i~~Av~~ar~~~p~~kIeVEVdt--ldea~eAl~aGaD~I~LDn~~~~~l~~av~~l  272 (320)
T 3paj_A          218 IRQAISTAKQLNPGKPVEVETET--LAELEEAISAGADIIMLDNFSLEMMREAVKIN  272 (320)
T ss_dssp             HHHHHHHHHHHSTTSCEEEEESS--HHHHHHHHHTTCSEEEEESCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCeEEEEECC--HHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence            34667777877777788776664  46678899999999998899999998887653

>1lnq_A MTHK channels, potassium channel related protein; rossman fold, helix bundle, membrane protein; 3.30A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: c.2.1.9 d.286.1.1 f.14.1.1 PDB: 3rbz_A

Probab=85.54  E-value=6.3  Score=28.05  Aligned_cols=89  Identities=15%  Similarity=0.141  Sum_probs=49.1

Q ss_pred             EEEEeCcHHHHHHHHHHHHHcCCeEEEEc-CHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeC
Q 048318           28 ALVVDDDCFIRTIHSMALKSLGFKVEVAE-NGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTS  106 (145)
Q Consensus        28 iLii~~~~~~~~~l~~~L~~~g~~v~~~~-~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~  106 (145)
                      +.++|.++...+ ++    ..|+.+.... +..+.++...- ...|.+++-..- +......+...++.+++.++++-+.
T Consensus       140 v~vid~~~~~~~-~~----~~~~~~i~gd~~~~~~L~~a~i-~~a~~vi~~~~~-d~~n~~~~~~ar~~~~~~~iiar~~  212 (336)
T 1lnq_A          140 FVLAEDENVRKK-VL----RSGANFVHGDPTRVSDLEKANV-RGARAVIVDLES-DSETIHCILGIRKIDESVRIIAEAE  212 (336)
T ss_dssp             EEEESCGGGHHH-HH----HTTCEEEESCTTSHHHHHHTCS-TTEEEEEECCSS-HHHHHHHHHHHHTTCTTSEEEEECS
T ss_pred             EEEEeCChhhhh-HH----hCCcEEEEeCCCCHHHHHhcCh-hhccEEEEcCCc-cHHHHHHHHHHHHHCCCCeEEEEEC
Confidence            666777766554 33    3456555443 22334443322 347777775421 1223344556677777777776655


Q ss_pred             CCCHHHHHHHHHhCCceee
Q 048318          107 LNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus       107 ~~~~~~~~~~~~~g~~~~l  125 (145)
                      ..+  ......+.|++..+
T Consensus       213 ~~~--~~~~l~~~G~d~vi  229 (336)
T 1lnq_A          213 RYE--NIEQLRMAGADQVI  229 (336)
T ss_dssp             SGG--GHHHHHHTTCSEEE
T ss_pred             CHH--HHHHHHHcCCCEEE
Confidence            433  34455678998775

>3ajx_A 3-hexulose-6-phosphate synthase; HPS, OMPDC suprafamily, LYA; 1.60A {Mycobacterium gastri}

Probab=85.53  E-value=0.88  Score=30.17  Aligned_cols=46  Identities=17%  Similarity=0.185  Sum_probs=23.7

Q ss_pred             HHHHHHHHHhcCCcceEEE--EeCCCCHHHHHHHHHhCCceeecCCCC
Q 048318           85 GIEATREIRSMGIKIKIVG--VTSLNSEAEREAFMQAGLDLCHTKPLS  130 (145)
Q Consensus        85 ~~~~~~~l~~~~~~~~iv~--l~~~~~~~~~~~~~~~g~~~~l~kP~~  130 (145)
                      |.++++.+++..++.|+++  ....-.......+.+.|+|.+...+..
T Consensus        40 g~~~i~~l~~~~~~~~i~~~l~~~di~~~~~~~a~~~Gad~v~vh~~~   87 (207)
T 3ajx_A           40 GLSVITAVKKAHPDKIVFADMKTMDAGELEADIAFKAGADLVTVLGSA   87 (207)
T ss_dssp             CTHHHHHHHHHSTTSEEEEEEEECSCHHHHHHHHHHTTCSEEEEETTS
T ss_pred             CHHHHHHHHHhCCCCeEEEEEEecCccHHHHHHHHhCCCCEEEEeccC
Confidence            4456666666544555553  222112333566667777766555443

>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=85.51  E-value=3  Score=28.92  Aligned_cols=85  Identities=12%  Similarity=0.118  Sum_probs=53.9

Q ss_pred             HHHHHHHH---HcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCC-CC-CCHHHHHHHHHhcCC----cceEEEEeCCC
Q 048318           39 TIHSMALK---SLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEM-PV-MNGIEATREIRSMGI----KIKIVGVTSLN  108 (145)
Q Consensus        39 ~~l~~~L~---~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~-~~-~~~~~~~~~l~~~~~----~~~iv~l~~~~  108 (145)
                      ..++.++.   ..|..+. .+.+.+++...+..  .+|++=++... .+ ...++....+....+    ++|+|..++-.
T Consensus       141 ~~l~~l~~~a~~lGl~~lvev~~~~E~~~a~~~--gad~IGvn~~~l~~~~~dl~~~~~L~~~i~~~~~~~~vIAegGI~  218 (254)
T 1vc4_A          141 ELTGAYLEEARRLGLEALVEVHTERELEIALEA--GAEVLGINNRDLATLHINLETAPRLGRLARKRGFGGVLVAESGYS  218 (254)
T ss_dssp             GGHHHHHHHHHHHTCEEEEEECSHHHHHHHHHH--TCSEEEEESBCTTTCCBCTTHHHHHHHHHHHTTCCSEEEEESCCC
T ss_pred             HHHHHHHHHHHHCCCeEEEEECCHHHHHHHHHc--CCCEEEEccccCcCCCCCHHHHHHHHHhCccccCCCeEEEEcCCC
Confidence            45555554   5688865 77888887766654  35776554322 11 122344444443222    57888877777


Q ss_pred             CHHHHHHHHHhCCceeec
Q 048318          109 SEAEREAFMQAGLDLCHT  126 (145)
Q Consensus       109 ~~~~~~~~~~~g~~~~l~  126 (145)
                      +.+....+.. |++.+++
T Consensus       219 s~~dv~~l~~-Ga~gvlV  235 (254)
T 1vc4_A          219 RKEELKALEG-LFDAVLI  235 (254)
T ss_dssp             SHHHHHTTTT-TCSEEEE
T ss_pred             CHHHHHHHHc-CCCEEEE
Confidence            8999999999 9999974

>3tfw_A Putative O-methyltransferase; PSI-biology, nysgrc, structural genomics, NEW YORK structura genomics research consortium; 1.88A {Klebsiella pneumoniae subsp}

Probab=85.36  E-value=6.7  Score=26.59  Aligned_cols=78  Identities=15%  Similarity=0.146  Sum_probs=51.5

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCe--EE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc-CCcce
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFK--VE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM-GIKIK  100 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~--v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~-~~~~~  100 (145)
                      ..+|..+|-++...+..+..++..|+.  +. ...+..+.+........||+|++|...  .+-..+++.+... .|.- 
T Consensus        88 ~~~v~~vD~s~~~~~~a~~~~~~~g~~~~v~~~~~d~~~~l~~~~~~~~fD~V~~d~~~--~~~~~~l~~~~~~LkpGG-  164 (248)
T 3tfw_A           88 DGQLLTLEADAHHAQVARENLQLAGVDQRVTLREGPALQSLESLGECPAFDLIFIDADK--PNNPHYLRWALRYSRPGT-  164 (248)
T ss_dssp             TCEEEEEECCHHHHHHHHHHHHHTTCTTTEEEEESCHHHHHHTCCSCCCCSEEEECSCG--GGHHHHHHHHHHTCCTTC-
T ss_pred             CCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEcCHHHHHHhcCCCCCeEEEEECCch--HHHHHHHHHHHHhcCCCe-
Confidence            457899999999999999999887754  44 566777655544322379999998742  2334566666543 3443 


Q ss_pred             EEEEe
Q 048318          101 IVGVT  105 (145)
Q Consensus       101 iv~l~  105 (145)
                      ++++.
T Consensus       165 ~lv~~  169 (248)
T 3tfw_A          165 LIIGD  169 (248)
T ss_dssp             EEEEE
T ss_pred             EEEEe
Confidence            44443

>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=85.28  E-value=3.7  Score=26.93  Aligned_cols=68  Identities=15%  Similarity=0.170  Sum_probs=45.7

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCC---eEE-EEcCHHHHHHHHHcCCC-ccEEEEecCCCCCCHHHHHHHHHh
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGF---KVE-VAENGKEAVDLFRSGAK-FDIVFIDKEMPVMNGIEATREIRS   94 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~---~v~-~~~~~~~al~~~~~~~~-~dlvl~d~~~~~~~~~~~~~~l~~   94 (145)
                      .+|.-+|-++...+..+..++..|+   .+. ...+..+.+..... .. ||+|++|.-....+..++++.+.+
T Consensus        77 ~~v~gvD~s~~~l~~a~~~~~~~~~~~~~v~~~~~d~~~~~~~~~~-~~~fD~I~~~~~~~~~~~~~~l~~~~~  149 (201)
T 2ift_A           77 KKVTFLELDKTVANQLKKNLQTLKCSSEQAEVINQSSLDFLKQPQN-QPHFDVVFLDPPFHFNLAEQAISLLCE  149 (201)
T ss_dssp             SEEEEECSCHHHHHHHHHHHHHTTCCTTTEEEECSCHHHHTTSCCS-SCCEEEEEECCCSSSCHHHHHHHHHHH
T ss_pred             CEEEEEECCHHHHHHHHHHHHHhCCCccceEEEECCHHHHHHhhcc-CCCCCEEEECCCCCCccHHHHHHHHHh
Confidence            3689999999999999999888775   454 44566554322112 46 999999865433334556777643

>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=85.01  E-value=6.5  Score=26.15  Aligned_cols=76  Identities=12%  Similarity=0.104  Sum_probs=51.7

Q ss_pred             CCeEE-EEcCHHHHHHHHHcCCCccEEEEecC-C----C----CCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHH
Q 048318           49 GFKVE-VAENGKEAVDLFRSGAKFDIVFIDKE-M----P----VMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQ  118 (145)
Q Consensus        49 g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~-~----~----~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~  118 (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            65554 66678887765543  4788765431 1    1    122456777777653 689988777778999999999


Q ss_pred             hCCceeecC
Q 048318          119 AGLDLCHTK  127 (145)
Q Consensus       119 ~g~~~~l~k  127 (145)
                      .|++.++.-
T Consensus       196 ~Gad~v~vG  204 (223)
T 1y0e_A          196 LGVHCSVVG  204 (223)
T ss_dssp             TTCSEEEEC
T ss_pred             cCCCEEEEC
Confidence            999988643

>3l4e_A Uncharacterized peptidase LMO0363; hypothetical protein LMO0363, csgid, similar to peptidase E, hydrolase, protease, serine protease; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=85.01  E-value=6.6  Score=26.22  Aligned_cols=63  Identities=22%  Similarity=0.222  Sum_probs=46.6

Q ss_pred             CceEEEEe------CcHHHHHHHHHHHHHcCCeEEEE----cCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHh
Q 048318           25 RLFALVVD------DDCFIRTIHSMALKSLGFKVEVA----ENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRS   94 (145)
Q Consensus        25 ~~~iLii~------~~~~~~~~l~~~L~~~g~~v~~~----~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~   94 (145)
                      ..+|++|.      +........++.|+..|+++...    .+.++..+.+.+   .|.|++    |+++...+.+.+++
T Consensus        27 ~~~i~~Ip~As~~~~~~~~~~s~~~a~~~lG~~v~~~~i~~~~~~~~~~~l~~---ad~I~l----~GG~~~~l~~~L~~   99 (206)
T 3l4e_A           27 GKTVTFIPTASTVEEVTFYVEAGKKALESLGLLVEELDIATESLGEITTKLRK---NDFIYV----TGGNTFFLLQELKR   99 (206)
T ss_dssp             TCEEEEECGGGGGCSCCHHHHHHHHHHHHTTCEEEECCTTTSCHHHHHHHHHH---SSEEEE----CCSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCCCHHHHHHHHHHHHHHcCCeEEEEEecCCChHHHHHHHHh---CCEEEE----CCCCHHHHHHHHHH
Confidence            35788886      33357788899999999998877    477777777765   588887    56777777766664

>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=84.75  E-value=6.8  Score=26.09  Aligned_cols=69  Identities=25%  Similarity=0.318  Sum_probs=45.1

Q ss_pred             EEcCHHHHHHHHHcCCCccEEEEecCCC--------CCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           54 VAENGKEAVDLFRSGAKFDIVFIDKEMP--------VMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        54 ~~~~~~~al~~~~~~~~~dlvl~d~~~~--------~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (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            35677776554443  589998743222        123678888888754347888766555 6666678888998874

>3l0g_A Nicotinate-nucleotide pyrophosphorylase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ALS collaborative crystallography; 2.05A {Ehrlichia chaffeensis}

Probab=84.30  E-value=8.1  Score=27.59  Aligned_cols=91  Identities=13%  Similarity=0.171  Sum_probs=55.0

Q ss_pred             EEEEeCcHHHHHHHHHHH---HHc-C-CeE-EEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceE
Q 048318           28 ALVVDDDCFIRTIHSMAL---KSL-G-FKV-EVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKI  101 (145)
Q Consensus        28 iLii~~~~~~~~~l~~~L---~~~-g-~~v-~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~i  101 (145)
                      |||-|+|-...-.+...+   +.. . ..+ +.+.+.+|+.+.+..  ..|+|++|- +   +..++-+..+.....+ .
T Consensus       181 vLIKdNHi~~~G~i~~Av~~ar~~~p~~kIeVEv~tl~e~~eAl~a--GaDiImLDn-~---s~~~l~~av~~~~~~v-~  253 (300)
T 3l0g_A          181 VLIKDNHIASCGSITLAIQRLRKNLKNEYIAIECDNISQVEESLSN--NVDMILLDN-M---SISEIKKAVDIVNGKS-V  253 (300)
T ss_dssp             EEECHHHHHHHSCHHHHHHHHHHHSSSCCEEEEESSHHHHHHHHHT--TCSEEEEES-C---CHHHHHHHHHHHTTSS-E
T ss_pred             EEEcHhHHHHhCCHHHHHHHHHHhCCCCCEEEEECCHHHHHHHHHc--CCCEEEECC-C---CHHHHHHHHHhhcCce-E
Confidence            566666644332233332   222 2 233 378899999998876  489999983 3   3333333333222344 4


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceee
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      +..++.-+.+.+.+....|+|.+-
T Consensus       254 leaSGGIt~~~i~~~A~tGVD~Is  277 (300)
T 3l0g_A          254 LEVSGCVNIRNVRNIALTGVDYIS  277 (300)
T ss_dssp             EEEESSCCTTTHHHHHTTTCSEEE
T ss_pred             EEEECCCCHHHHHHHHHcCCCEEE
Confidence            456777788888888899998764

>1qdl_B Protein (anthranilate synthase (TRPG-SUBUNIT)); tryptophan biosynthesis, glutamine amidotransferase, allosteric interaction, lyase; 2.50A {Sulfolobus solfataricus} SCOP: c.23.16.1

Probab=84.27  E-value=0.81  Score=30.22  Aligned_cols=48  Identities=17%  Similarity=0.101  Sum_probs=33.5

Q ss_pred             EEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEE
Q 048318           28 ALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFI   76 (145)
Q Consensus        28 iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~   76 (145)
                      |+|+|........+.+.|+..|+.+..+...+..++.+.. ..+|.+++
T Consensus         4 i~iid~~~s~~~~~~~~l~~~G~~~~v~~~~~~~~~~~~~-~~~dglil   51 (195)
T 1qdl_B            4 TLIIDNYDSFVYNIAQIVGELGSYPIVIRNDEISIKGIER-IDPDRLII   51 (195)
T ss_dssp             EEEEECSCSSHHHHHHHHHHTTCEEEEEETTTSCHHHHHH-HCCSEEEE
T ss_pred             EEEEECCCchHHHHHHHHHhCCCEEEEEeCCCCCHHHHhh-CCCCEEEE
Confidence            8999988777778888999999888766654212223332 24898888

>1izc_A Macrophomate synthase intermolecular diels-aldera; TIM-barrel, pyruvate Mg(II) complex, lyase; 1.70A {Macrophoma commelinae} SCOP: c.1.12.5

Probab=84.22  E-value=9.9  Score=27.56  Aligned_cols=89  Identities=16%  Similarity=0.195  Sum_probs=54.4

Q ss_pred             EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcC--C--cceEEEEeCCCCHHHHHHHHHhCCceeec-
Q 048318           52 VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMG--I--KIKIVGVTSLNSEAEREAFMQAGLDLCHT-  126 (145)
Q Consensus        52 v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~--~--~~~iv~l~~~~~~~~~~~~~~~g~~~~l~-  126 (145)
                      ++......+.++.+.. ..+|.|++|++..-.+..++.+.++...  .  ..++++=+...+...+..+++.|++.++. 
T Consensus        46 ~~l~i~~p~~~e~a~~-~GaD~vilDlEha~~~~e~~~~~l~a~~~~~~~~~~~~VRv~~~~~~di~~~LdaGa~gImlP  124 (339)
T 1izc_A           46 VAHGIPSTFVTKVLAA-TKPDFVWIDVEHGMFNRLELHDAIHAAQHHSEGRSLVIVRVPKHDEVSLSTALDAGAAGIVIP  124 (339)
T ss_dssp             EEECSCCHHHHHHHHH-TCCSEEEEETTTSCCCHHHHHHHHHHHHHHTTTCSEEEEECCTTCHHHHHHHHHHTCSEEEET
T ss_pred             EEEECCCHHHHHHHHh-CCCCEEEEECCCCCCcHHHHHHHHHHhhhcCCCCCeEEEEeCCCCHHHHHHHHhCCCCEEEeC
Confidence            3433344445555555 4699999999775555545555454321  1  14455545556677889999999998654 


Q ss_pred             CCCCHHHHHHHHHHH
Q 048318          127 KPLSVDKILPLMEDL  141 (145)
Q Consensus       127 kP~~~~~L~~~i~~~  141 (145)
                      |--+.+++...+..+
T Consensus       125 ~V~saee~~~~~~~~  139 (339)
T 1izc_A          125 HVETVEEVREFVKEM  139 (339)
T ss_dssp             TCCCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHh
Confidence            345577776665543

>1zh8_A Oxidoreductase; TM0312, structural genomics, JO center for structural genomics, JCSG, protein structure INI PSI; HET: MSE NAP; 2.50A {Thermotoga maritima} SCOP: c.2.1.3 d.81.1.5

Probab=84.07  E-value=9.3  Score=27.29  Aligned_cols=106  Identities=19%  Similarity=0.138  Sum_probs=54.6

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHc--CCeEE-EEcCHHHHHHHHHcCCCccE--EEEecCCCCCCHHHHHHHHHhcCCc
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSL--GFKVE-VAENGKEAVDLFRSGAKFDI--VFIDKEMPVMNGIEATREIRSMGIK   98 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~--g~~v~-~~~~~~~al~~~~~~~~~dl--vl~d~~~~~~~~~~~~~~l~~~~~~   98 (145)
                      ++++|.||.--..........+...  +++++ .+....+..+.+.+  .+.+  +.-       +-.+   .+.....+
T Consensus        17 ~~irvgiIG~G~~~g~~~~~~l~~~~~~~~lvav~d~~~~~~~~~a~--~~~~~~~~~-------~~~~---ll~~~~vD   84 (340)
T 1zh8_A           17 RKIRLGIVGCGIAARELHLPALKNLSHLFEITAVTSRTRSHAEEFAK--MVGNPAVFD-------SYEE---LLESGLVD   84 (340)
T ss_dssp             CCEEEEEECCSHHHHHTHHHHHHTTTTTEEEEEEECSSHHHHHHHHH--HHSSCEEES-------CHHH---HHHSSCCS
T ss_pred             CceeEEEEecCHHHHHHHHHHHHhCCCceEEEEEEcCCHHHHHHHHH--HhCCCcccC-------CHHH---HhcCCCCC
Confidence            4678888888743333333344443  56765 44433333333322  1221  111       1112   22222234


Q ss_pred             ceEEEEeCCCCHHHHHHHHHhCCceeecCCC--CHHHHHHHHHHH
Q 048318           99 IKIVGVTSLNSEAEREAFMQAGLDLCHTKPL--SVDKILPLMEDL  141 (145)
Q Consensus        99 ~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~--~~~~L~~~i~~~  141 (145)
                      +-+|........+....++++|..=|+-||+  +.++..+.++.+
T Consensus        85 ~V~i~tp~~~H~~~~~~al~aGkhVl~EKPla~~~~ea~~l~~~a  129 (340)
T 1zh8_A           85 AVDLTLPVELNLPFIEKALRKGVHVICEKPISTDVETGKKVVELS  129 (340)
T ss_dssp             EEEECCCGGGHHHHHHHHHHTTCEEEEESSSSSSHHHHHHHHHHH
T ss_pred             EEEEeCCchHHHHHHHHHHHCCCcEEEeCCCCCCHHHHHHHHHHH
Confidence            4333333334567788889999888888996  566665555443

>3ged_A Short-chain dehydrogenase/reductase SDR; SCOR, rossmann fold, oxidoreductase; 1.70A {Clostridium thermocellum atcc 27405} PDB: 3geg_A*

Probab=84.05  E-value=8.3  Score=26.53  Aligned_cols=79  Identities=9%  Similarity=0.032  Sum_probs=51.3

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHH-HHHHHHHhcCCcceEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGI-EATREIRSMGIKIKIV  102 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~-~~~~~l~~~~~~~~iv  102 (145)
                      |+.+|||-....-+-..+...|.+.|+.|..+...++.+..+.. ...++..+-.++.+.+.. .+++.+.+....+-++
T Consensus         1 MnK~vlVTGas~GIG~aia~~la~~Ga~V~~~~~~~~~~~~~~~-~~~~~~~~~~Dv~~~~~v~~~v~~~~~~~g~iDiL   79 (247)
T 3ged_A            1 MNRGVIVTGGGHGIGKQICLDFLEAGDKVCFIDIDEKRSADFAK-ERPNLFYFHGDVADPLTLKKFVEYAMEKLQRIDVL   79 (247)
T ss_dssp             -CCEEEEESTTSHHHHHHHHHHHHTTCEEEEEESCHHHHHHHHT-TCTTEEEEECCTTSHHHHHHHHHHHHHHHSCCCEE
T ss_pred             CCCEEEEecCCCHHHHHHHHHHHHCCCEEEEEeCCHHHHHHHHH-hcCCEEEEEecCCCHHHHHHHHHHHHHHcCCCCEE
Confidence            34678888889999999999999999998855544444554544 346777766666654443 4555555543344444


Q ss_pred             E
Q 048318          103 G  103 (145)
Q Consensus       103 ~  103 (145)
                      +
T Consensus        80 V   80 (247)
T 3ged_A           80 V   80 (247)
T ss_dssp             E
T ss_pred             E
Confidence            4

>3ezy_A Dehydrogenase; structural genomics, unknown function, PSI-2, protein structure initiative; 2.04A {Thermotoga maritima}

Probab=83.74  E-value=6.6  Score=28.04  Aligned_cols=16  Identities=25%  Similarity=0.162  Sum_probs=7.1

Q ss_pred             HHHHHHhCCceeecCC
Q 048318          113 REAFMQAGLDLCHTKP  128 (145)
Q Consensus       113 ~~~~~~~g~~~~l~kP  128 (145)
                      ...++++|..-++-||
T Consensus        81 ~~~al~~gk~v~~EKP   96 (344)
T 3ezy_A           81 VIACAKAKKHVFCEKP   96 (344)
T ss_dssp             HHHHHHTTCEEEEESC
T ss_pred             HHHHHhcCCeEEEECC
Confidence            3344444444444444

>2gjl_A Hypothetical protein PA1024; 2-nitropropane dioxygenase, 2-nitropropane, FMN, oxidoreduct; HET: FMN; 2.00A {Pseudomonas aeruginosa PAO1} PDB: 2gjn_A*

Probab=83.68  E-value=9.8  Score=27.12  Aligned_cols=80  Identities=18%  Similarity=0.120  Sum_probs=55.0

Q ss_pred             HHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCC----C---CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHH
Q 048318           43 MALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMP----V---MNGIEATREIRSMGIKIKIVGVTSLNSEAERE  114 (145)
Q Consensus        43 ~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~----~---~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~  114 (145)
                      ..++..|..+. .+.+.+++......  ..|.++++-.-.    +   ...+++++.+++.. ++|+++-.+-.+.....
T Consensus       112 ~~l~~~gi~vi~~v~t~~~a~~~~~~--GaD~i~v~g~~~GG~~G~~~~~~~~~l~~v~~~~-~iPviaaGGI~~~~~v~  188 (328)
T 2gjl_A          112 AEFRRHGVKVIHKCTAVRHALKAERL--GVDAVSIDGFECAGHPGEDDIPGLVLLPAAANRL-RVPIIASGGFADGRGLV  188 (328)
T ss_dssp             HHHHHTTCEEEEEESSHHHHHHHHHT--TCSEEEEECTTCSBCCCSSCCCHHHHHHHHHTTC-CSCEEEESSCCSHHHHH
T ss_pred             HHHHHcCCCEEeeCCCHHHHHHHHHc--CCCEEEEECCCCCcCCCCccccHHHHHHHHHHhc-CCCEEEECCCCCHHHHH
Confidence            34445566655 56777777766554  589888853111    1   25678888887643 68988777777888888


Q ss_pred             HHHHhCCceee
Q 048318          115 AFMQAGLDLCH  125 (145)
Q Consensus       115 ~~~~~g~~~~l  125 (145)
                      .++..|++.+.
T Consensus       189 ~al~~GAdgV~  199 (328)
T 2gjl_A          189 AALALGADAIN  199 (328)
T ss_dssp             HHHHHTCSEEE
T ss_pred             HHHHcCCCEEE
Confidence            88999999875

>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=83.63  E-value=4.4  Score=26.49  Aligned_cols=51  Identities=14%  Similarity=0.070  Sum_probs=33.7

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCH---HHHHHHHHcCCCccEEEEe
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFKVEVAENG---KEAVDLFRSGAKFDIVFID   77 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~---~~al~~~~~~~~~dlvl~d   77 (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            68999977777788888999999888766644   4443433321234555553

>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=83.54  E-value=10  Score=27.29  Aligned_cols=92  Identities=11%  Similarity=0.025  Sum_probs=57.2

Q ss_pred             eEEEEeCcHHHHHHHHHHHH----HcCCe--EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcce
Q 048318           27 FALVVDDDCFIRTIHSMALK----SLGFK--VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIK  100 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~----~~g~~--v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~  100 (145)
                      .+++-|++-...-.+...++    ..++.  ...+.+.+++.+.+..  ..|+|.+|-    ++..++-+..+...++++
T Consensus       204 ~vlikdnHi~~~G~i~~Av~~ar~~~p~~kIeVEVdtldea~eAl~a--GaD~I~LDn----~~~~~l~~av~~l~~~v~  277 (320)
T 3paj_A          204 AYLIKENHIIACGGIRQAISTAKQLNPGKPVEVETETLAELEEAISA--GADIIMLDN----FSLEMMREAVKINAGRAA  277 (320)
T ss_dssp             CEEECHHHHHHHTSHHHHHHHHHHHSTTSCEEEEESSHHHHHHHHHT--TCSEEEEES----CCHHHHHHHHHHHTTSSE
T ss_pred             hhccHHHHHHHhCCHHHHHHHHHHhCCCCeEEEEECCHHHHHHHHHc--CCCEEEECC----CCHHHHHHHHHHhCCCCe
Confidence            46776666443322333332    23332  3488899999888875  489999985    233333232233334555


Q ss_pred             EEEEeCCCCHHHHHHHHHhCCceee
Q 048318          101 IVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus       101 iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      + ..++.-+.+.+.+....|+|.+-
T Consensus       278 i-eaSGGIt~~~I~~~a~tGVD~is  301 (320)
T 3paj_A          278 L-ENSGNITLDNLKECAETGVDYIS  301 (320)
T ss_dssp             E-EEESSCCHHHHHHHHTTTCSEEE
T ss_pred             E-EEECCCCHHHHHHHHHcCCCEEE
Confidence            5 46777888889999999998774

>3ec7_A Putative dehydrogenase; alpha-beta, structural genomics, PSI-2, protein structure in midwest center for structural genomics, MCSG; HET: MSE NAD EPE; 2.15A {Salmonella typhimurium}

Probab=83.48  E-value=8  Score=27.89  Aligned_cols=108  Identities=13%  Similarity=0.055  Sum_probs=56.7

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHH-cCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKS-LGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKI  101 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~-~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~i  101 (145)
                      ++++|.||.--..-...+..+... .+++++ .+....+..+.+........-..+      +-.+   .+.....++-+
T Consensus        22 ~~~rvgiIG~G~~g~~~~~~l~~~~~~~~lvav~d~~~~~~~~~a~~~g~~~~~~~------~~~~---ll~~~~~D~V~   92 (357)
T 3ec7_A           22 MTLKAGIVGIGMIGSDHLRRLANTVSGVEVVAVCDIVAGRAQAALDKYAIEAKDYN------DYHD---LINDKDVEVVI   92 (357)
T ss_dssp             CCEEEEEECCSHHHHHHHHHHHHTCTTEEEEEEECSSTTHHHHHHHHHTCCCEEES------SHHH---HHHCTTCCEEE
T ss_pred             CeeeEEEECCcHHHHHHHHHHHhhCCCcEEEEEEeCCHHHHHHHHHHhCCCCeeeC------CHHH---HhcCCCCCEEE
Confidence            467899999887666666555523 477776 343222222322221111111111      1122   22222234444


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCC--CHHHHHHHHHH
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPL--SVDKILPLMED  140 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~--~~~~L~~~i~~  140 (145)
                      |........+....++++|..-++-||+  +.++..+.++.
T Consensus        93 i~tp~~~h~~~~~~al~aGk~Vl~EKPla~~~~e~~~l~~~  133 (357)
T 3ec7_A           93 ITASNEAHADVAVAALNANKYVFCEKPLAVTAADCQRVIEA  133 (357)
T ss_dssp             ECSCGGGHHHHHHHHHHTTCEEEEESSSCSSHHHHHHHHHH
T ss_pred             EcCCcHHHHHHHHHHHHCCCCEEeecCccCCHHHHHHHHHH
Confidence            4334445666788888999888888996  45565555443

>3o07_A Pyridoxine biosynthesis protein SNZ1; (beta/alpha)8-barrel, pyridoxal 5-phosphate synthase, PLP G3 SNO1, biosynthetic protein; HET: 1GP; 1.80A {Saccharomyces cerevisiae} PDB: 3o06_A 3o05_A* 3fem_A

Probab=83.40  E-value=4.2  Score=28.80  Aligned_cols=60  Identities=13%  Similarity=0.174  Sum_probs=44.4

Q ss_pred             CHHHHHHHHHhcCCcceEEEE--eCCCCHHHHHHHHHhCCceeec-----CCCCHHHHHHHHHHHHhc
Q 048318           84 NGIEATREIRSMGIKIKIVGV--TSLNSEAEREAFMQAGLDLCHT-----KPLSVDKILPLMEDLMKN  144 (145)
Q Consensus        84 ~~~~~~~~l~~~~~~~~iv~l--~~~~~~~~~~~~~~~g~~~~l~-----kP~~~~~L~~~i~~~~~~  144 (145)
                      ..+++++++++. ..+|+|++  ++-.+.+....+++.|+|++++     +--++......+...++.
T Consensus       185 ad~elI~~Ike~-~~IPVV~IAnGGI~TpedA~~~le~GaDGVmVGrAI~~s~DP~~~Akafv~Av~~  251 (291)
T 3o07_A          185 VPVSLLKDVLEK-GKLPVVNFAAGGVATPADAALLMQLGCDGVFVGSGIFKSSNPVRLATAVVEATTH  251 (291)
T ss_dssp             SCHHHHHHHHHH-TSCSSCEEBCSSCCSHHHHHHHHHTTCSCEEECGGGGGSSCHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHc-cCCCEEEecCCCCCCHHHHHHHHHhCCCEEEEchHHhCCCCHHHHHHHHHHHHHh
Confidence            457888888876 47888877  3335788999999999999963     445577777777766643

>2z6i_A Trans-2-enoyl-ACP reductase II; fatty acid synthesis, antibiotics, oxidoreductase, flavoprotein; HET: FMN; 1.70A {Streptococcus pneumoniae} PDB: 2z6j_A*

Probab=83.28  E-value=10  Score=27.11  Aligned_cols=78  Identities=13%  Similarity=0.124  Sum_probs=53.6

Q ss_pred             HHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCC-----CCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHH
Q 048318           45 LKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEM-----PVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQ  118 (145)
Q Consensus        45 L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~-----~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~  118 (145)
                      ++..|+.+. .+.+.+++.....  ...|.++++-.-     .....+++++.+++.. ++|+++...-.+......++.
T Consensus       106 l~~~g~~v~~~v~~~~~a~~~~~--~GaD~i~v~g~~~GG~~g~~~~~~ll~~i~~~~-~iPViaaGGI~~~~~~~~al~  182 (332)
T 2z6i_A          106 FHEAGIIVIPVVPSVALAKRMEK--IGADAVIAEGMEAGGHIGKLTTMTLVRQVATAI-SIPVIAAGGIADGEGAAAGFM  182 (332)
T ss_dssp             HHHTTCEEEEEESSHHHHHHHHH--TTCSCEEEECTTSSEECCSSCHHHHHHHHHHHC-SSCEEEESSCCSHHHHHHHHH
T ss_pred             HHHcCCeEEEEeCCHHHHHHHHH--cCCCEEEEECCCCCCCCCCccHHHHHHHHHHhc-CCCEEEECCCCCHHHHHHHHH
Confidence            344566655 5667776655444  358988885321     1235678888887643 689988777777888999999


Q ss_pred             hCCceee
Q 048318          119 AGLDLCH  125 (145)
Q Consensus       119 ~g~~~~l  125 (145)
                      .|++.+.
T Consensus       183 ~GAdgV~  189 (332)
T 2z6i_A          183 LGAEAVQ  189 (332)
T ss_dssp             TTCSEEE
T ss_pred             cCCCEEE
Confidence            9998874

>3vk5_A MOEO5; TIM barrel, transferase; HET: FPQ; 1.39A {Streptomyces ghanaensis} PDB: 3vka_A* 3vkb_A* 3vkc_A* 3vkd_A*

Probab=83.13  E-value=7.1  Score=27.68  Aligned_cols=57  Identities=14%  Similarity=0.131  Sum_probs=44.9

Q ss_pred             CccEEEEecCCCCCCHHHHHHHHHhcCC-cceEEEEeCCCCHHHHHHHHHhCCceeecC
Q 048318           70 KFDIVFIDKEMPVMNGIEATREIRSMGI-KIKIVGVTSLNSEAEREAFMQAGLDLCHTK  127 (145)
Q Consensus        70 ~~dlvl~d~~~~~~~~~~~~~~l~~~~~-~~~iv~l~~~~~~~~~~~~~~~g~~~~l~k  127 (145)
                      ..++|.+|..- .....++++++++... .+|+++=..-.+.+.+..++..|||.+++-
T Consensus       199 G~~lV~LD~~~-~~v~~e~V~~I~~~~~~~iPV~vGGGIrs~Eda~~ll~aGAD~VVVG  256 (286)
T 3vk5_A          199 GFHMVYLYSRN-EHVPPEVVRHFRKGLGPDQVLFVSGNVRSGRQVTEYLDSGADYVGFA  256 (286)
T ss_dssp             TCSEEEEECSS-SCCCHHHHHHHHHHSCTTCEEEEESSCCSHHHHHHHHHTTCSEEEES
T ss_pred             CCCEEEEcCCC-CcCCHHHHHHHHHhcCCCCCEEEEeCCCCHHHHHHHHHcCCCEEEEC
Confidence            46899999754 3345689999988653 688887667789999999999999999765

>4gx0_A TRKA domain protein; membrane protein, ION channel, ADP binding, NAD binding, MEM transport protein; HET: MAL GLC; 2.60A {Geobacter sulfurreducens} PDB: 4gx1_A* 4gx2_A* 4gx5_A 4gvl_A*

Probab=83.00  E-value=5.2  Score=30.76  Aligned_cols=90  Identities=18%  Similarity=0.175  Sum_probs=46.1

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHc-CCeEEEEc-CHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           27 FALVVDDDCFIRTIHSMALKSL-GFKVEVAE-NGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~-g~~v~~~~-~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      .++++|.++...+.+.    .. |+.+.... +..+.++.+.- ...+.+++ . ..+......+...++.. ..++++-
T Consensus       152 ~vvvid~~~~~~~~~~----~~~~~~~i~Gd~~~~~~L~~a~i-~~a~~vi~-t-~~D~~n~~~~~~ar~~~-~~~iiar  223 (565)
T 4gx0_A          152 LFVVVTDNYDQALHLE----EQEGFKVVYGSPTDAHVLAGLRV-AAARSIIA-N-LSDPDNANLCLTVRSLC-QTPIIAV  223 (565)
T ss_dssp             CEEEEESCHHHHHHHH----HSCSSEEEESCTTCHHHHHHTTG-GGCSEEEE-C-SCHHHHHHHHHHHHTTC-CCCEEEE
T ss_pred             CEEEEECCHHHHHHHH----HhcCCeEEEeCCCCHHHHHhcCc-ccCCEEEE-e-CCcHHHHHHHHHHHHhc-CceEEEE
Confidence            4555555554433322    22 44444333 23333444332 34677776 2 22222334444556666 7787766


Q ss_pred             eCCCCHHHHHHHHHhCCceeec
Q 048318          105 TSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      +..  ..........|++..+.
T Consensus       224 ~~~--~~~~~~l~~~Gad~vi~  243 (565)
T 4gx0_A          224 VKE--PVHGELLRLAGANQVVP  243 (565)
T ss_dssp             CSS--GGGHHHHHHHTCSEEEC
T ss_pred             ECC--HHHHHHHHHcCCCEEEC
Confidence            543  34445567889987754

>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=82.75  E-value=9.8  Score=26.39  Aligned_cols=75  Identities=15%  Similarity=0.062  Sum_probs=49.8

Q ss_pred             CCeEE--EEcCHHHHHHHHHcCCCccEEEE-ecCC---CCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCc
Q 048318           49 GFKVE--VAENGKEAVDLFRSGAKFDIVFI-DKEM---PVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLD  122 (145)
Q Consensus        49 g~~v~--~~~~~~~al~~~~~~~~~dlvl~-d~~~---~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~  122 (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            76655  45566666555443  3576633 1101   112357788888874 47899887777788999999999999


Q ss_pred             eeec
Q 048318          123 LCHT  126 (145)
Q Consensus       123 ~~l~  126 (145)
                      .+++
T Consensus       203 gViV  206 (264)
T 1xm3_A          203 GVLL  206 (264)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            9864

>3sc6_A DTDP-4-dehydrorhamnose reductase; RFBD, structural genomics, infectious diseases, bacillus anthracis STR. AMES, rhamnose biosynthetic pathway; HET: NAP; 2.65A {Bacillus anthracis} SCOP: c.2.1.0

Probab=82.33  E-value=7.3  Score=26.66  Aligned_cols=56  Identities=5%  Similarity=0.063  Sum_probs=39.4

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEc-------CHHHHHHHHHcCCCccEEEEecCC
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAE-------NGKEAVDLFRSGAKFDIVFIDKEM   80 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~-------~~~~al~~~~~~~~~dlvl~d~~~   80 (145)
                      |+++|||......+...+...|.+.|++|....       +.+...+.+.. ..+|+|+--...
T Consensus         4 M~m~ilVtGatG~iG~~l~~~L~~~g~~V~~~~r~~~D~~d~~~~~~~~~~-~~~d~vi~~a~~   66 (287)
T 3sc6_A            4 MKERVIITGANGQLGKQLQEELNPEEYDIYPFDKKLLDITNISQVQQVVQE-IRPHIIIHCAAY   66 (287)
T ss_dssp             -CEEEEEESTTSHHHHHHHHHSCTTTEEEEEECTTTSCTTCHHHHHHHHHH-HCCSEEEECCCC
T ss_pred             ceeEEEEECCCCHHHHHHHHHHHhCCCEEEEecccccCCCCHHHHHHHHHh-cCCCEEEECCcc
Confidence            345899999999999999999988899988653       33433344443 258998865543

>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=82.16  E-value=5.3  Score=28.25  Aligned_cols=55  Identities=13%  Similarity=0.094  Sum_probs=43.0

Q ss_pred             HHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318           86 IEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus        86 ~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      .+.++..++..+..+|.+-..  +.+...++++.|+|-++...++++++...++.+-
T Consensus       182 ~~av~~ar~~~~~~~I~Vev~--t~eea~eal~aGaD~I~LDn~~~~~~~~~v~~l~  236 (284)
T 1qpo_A          182 VDALRAVRNAAPDLPCEVEVD--SLEQLDAVLPEKPELILLDNFAVWQTQTAVQRRD  236 (284)
T ss_dssp             HHHHHHHHHHCTTSCEEEEES--SHHHHHHHGGGCCSEEEEETCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCCEEEEeC--CHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHhh
Confidence            456777777766667776555  5688899999999998888999999888887653

>3tqv_A Nicotinate-nucleotide pyrophosphorylase; glycosyltransferase, transferase; 2.62A {Francisella tularensis subsp}

Probab=82.05  E-value=11  Score=26.65  Aligned_cols=91  Identities=21%  Similarity=0.196  Sum_probs=53.1

Q ss_pred             EEEEeCcHHHHHHHHHHH---HHcC--CeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceE
Q 048318           28 ALVVDDDCFIRTIHSMAL---KSLG--FKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKI  101 (145)
Q Consensus        28 iLii~~~~~~~~~l~~~L---~~~g--~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~i  101 (145)
                      |||-|+|-...-.+...+   +..+  ..+. .+.+.+|+.+.+..  ..|+|.+|- +   +-.++-+..+....++++
T Consensus       172 vlikdNHi~~~G~i~~Av~~ar~~~~~~~IeVEv~tl~ea~eAl~a--GaD~I~LDn-~---~~~~l~~av~~~~~~v~i  245 (287)
T 3tqv_A          172 YLIKENHIRSAGGIAKAVTKAKKLDSNKVVEVEVTNLDELNQAIAA--KADIVMLDN-F---SGEDIDIAVSIARGKVAL  245 (287)
T ss_dssp             EEECTTTC----CHHHHHHHHHHHCTTSCEEEEESSHHHHHHHHHT--TCSEEEEES-C---CHHHHHHHHHHHTTTCEE
T ss_pred             EEEeHHHHHHhCCHHHHHHHHHhhCCCCcEEEEeCCHHHHHHHHHc--CCCEEEEcC-C---CHHHHHHHHHhhcCCceE
Confidence            566666543332233322   2222  2333 78899999988875  489999985 2   222322222322335544


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceee
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                       ..++.-+.+.+.+....|+|.+-
T Consensus       246 -eaSGGIt~~~i~~~a~tGVD~Is  268 (287)
T 3tqv_A          246 -EVSGNIDRNSIVAIAKTGVDFIS  268 (287)
T ss_dssp             -EEESSCCTTTHHHHHTTTCSEEE
T ss_pred             -EEECCCCHHHHHHHHHcCCCEEE
Confidence             46777777788888899998774

>3sz8_A 2-dehydro-3-deoxyphosphooctonate aldolase 2; ssgcid, structural genomics, seattle structural genomics CEN infectious disease; 2.05A {Burkholderia pseudomallei} PDB: 3tmq_A* 3und_A*

Probab=81.98  E-value=11  Score=26.74  Aligned_cols=69  Identities=9%  Similarity=-0.029  Sum_probs=42.4

Q ss_pred             CHHHHHHHHHcCCCccEEEEecCC--CCCC---HHHHHHHHHhcCCcceEEEEeCCC------------C-----HHHHH
Q 048318           57 NGKEAVDLFRSGAKFDIVFIDKEM--PVMN---GIEATREIRSMGIKIKIVGVTSLN------------S-----EAERE  114 (145)
Q Consensus        57 ~~~~al~~~~~~~~~dlvl~d~~~--~~~~---~~~~~~~l~~~~~~~~iv~l~~~~------------~-----~~~~~  114 (145)
                      +...+++.+......+++++....  +..+   .+..+..+++..+..||++-++..            .     .....
T Consensus       149 ei~~ave~i~~~Gn~~i~L~erg~~y~~~~~~vdl~~i~~lk~~~~~~pV~~D~sHs~q~p~~~~~~s~G~r~~v~~~a~  228 (285)
T 3sz8_A          149 QLKHVVSKCGEVGNDRVMLCERGSSFGYDNLVVDMLGFRQMAETTGGCPVIFDVTHSLQCRDPLGDASGGRRRQVLDLAR  228 (285)
T ss_dssp             GTHHHHHHHHHTTCCCEEEEECCEECSSSCEECCTTHHHHHHHHTTSCCEEEETTTTCC---------------HHHHHH
T ss_pred             HHHHHHHHHHHcCCCcEEEEeCCCCCCCCcCccCHHHHHHHHHhCCCCCEEEeCCCccccCCCcCCCCCCchhhHHHHHH
Confidence            345677777654467899987543  2111   234455566665568887644443            2     45667


Q ss_pred             HHHHhCCceee
Q 048318          115 AFMQAGLDLCH  125 (145)
Q Consensus       115 ~~~~~g~~~~l  125 (145)
                      .|...||++++
T Consensus       229 AAvA~GA~gl~  239 (285)
T 3sz8_A          229 AGIAVGIAGLF  239 (285)
T ss_dssp             HHHHHCCSEEE
T ss_pred             HHHHhCCCEEE
Confidence            88899999754

>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=81.73  E-value=7.1  Score=25.86  Aligned_cols=72  Identities=14%  Similarity=0.110  Sum_probs=42.6

Q ss_pred             CccEEEEecCCCCCC-------HHHHHHHHHhcC----CcceEEEEeCCCCHHHHHHHHHhCCceee-----cCCCCHHH
Q 048318           70 KFDIVFIDKEMPVMN-------GIEATREIRSMG----IKIKIVGVTSLNSEAEREAFMQAGLDLCH-----TKPLSVDK  133 (145)
Q Consensus        70 ~~dlvl~d~~~~~~~-------~~~~~~~l~~~~----~~~~iv~l~~~~~~~~~~~~~~~g~~~~l-----~kP~~~~~  133 (145)
                      ..|.|+++...++.+       +.+-++.+++..    .+.|+++ +..-+.+...++.+.|++.++     .+..++.+
T Consensus       131 ~~d~vl~~~~~~g~~g~~~~~~~~~~i~~~~~~~~~~~~~~~i~v-~GGI~~~~~~~~~~~Gad~vvvGsai~~~~d~~~  209 (220)
T 2fli_A          131 LVDQVLIMTVNPGFGGQAFIPECLEKVATVAKWRDEKGLSFDIEV-DGGVDNKTIRACYEAGANVFVAGSYLFKASDLVS  209 (220)
T ss_dssp             TCSEEEEESSCTTCSSCCCCGGGHHHHHHHHHHHHHTTCCCEEEE-ESSCCTTTHHHHHHHTCCEEEESHHHHTSSCHHH
T ss_pred             hCCEEEEEEECCCCcccccCHHHHHHHHHHHHHHHhcCCCceEEE-ECcCCHHHHHHHHHcCCCEEEEChHHhCCCCHHH
Confidence            368887765444322       234455555432    2567765 444445666678888999885     34556666


Q ss_pred             HHHHHHHHH
Q 048318          134 ILPLMEDLM  142 (145)
Q Consensus       134 L~~~i~~~~  142 (145)
                      -.+.+.+.+
T Consensus       210 a~~~~~~~~  218 (220)
T 2fli_A          210 QVQTLRTAL  218 (220)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            666665543

>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=81.57  E-value=9.4  Score=27.00  Aligned_cols=69  Identities=17%  Similarity=0.135  Sum_probs=46.6

Q ss_pred             ccEEEEecCCCC--CCHHHHHHHHHhcCCc-ceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318           71 FDIVFIDKEMPV--MNGIEATREIRSMGIK-IKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus        71 ~dlvl~d~~~~~--~~~~~~~~~l~~~~~~-~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      +|.+++-.+.-.  .+-...++..|+..+. .+|.+-+.  +.+...++++.|+|.+...+++++++...++.+
T Consensus       163 ~d~vlikdnHi~~~G~i~~av~~ar~~~~~~~~I~VEV~--tleea~eA~~aGaD~I~LDn~~~e~l~~av~~l  234 (285)
T 1o4u_A          163 SGCVMIKDNHLKMYGSAERAVQEVRKIIPFTTKIEVEVE--NLEDALRAVEAGADIVMLDNLSPEEVKDISRRI  234 (285)
T ss_dssp             --CEEECHHHHHHHSSHHHHHHHHHTTSCTTSCEEEEES--SHHHHHHHHHTTCSEEEEESCCHHHHHHHHHHH
T ss_pred             cccEEEchhHHhhcCCHHHHHHHHHHhCCCCceEEEEeC--CHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence            455555422111  2335567777776655 56665443  578889999999999989999999998887765

>1yxy_A Putative N-acetylmannosamine-6-phosphate 2-epimer; structural genomics, epimerase, PSI, structure initiative; 1.60A {Streptococcus pyogenes} SCOP: c.1.2.5

Probab=81.45  E-value=9.8  Score=25.53  Aligned_cols=89  Identities=9%  Similarity=0.011  Sum_probs=57.2

Q ss_pred             CCeEE-EEcCHHHHHHHHHcCCCccEE---EEecCCC----CCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhC
Q 048318           49 GFKVE-VAENGKEAVDLFRSGAKFDIV---FIDKEMP----VMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAG  120 (145)
Q Consensus        49 g~~v~-~~~~~~~al~~~~~~~~~dlv---l~d~~~~----~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g  120 (145)
                      +..+. .+.+.+++......  ..|.|   +....-.    ....++.++.+++.  ++|+++.++-.+.+....++..|
T Consensus       133 ~~~v~~~~~t~~ea~~a~~~--Gad~i~~~v~g~~~~~~~~~~~~~~~i~~~~~~--~ipvia~GGI~s~~~~~~~~~~G  208 (234)
T 1yxy_A          133 NQLLMADISTFDEGLVAHQA--GIDFVGTTLSGYTPYSRQEAGPDVALIEALCKA--GIAVIAEGKIHSPEEAKKINDLG  208 (234)
T ss_dssp             TCEEEEECSSHHHHHHHHHT--TCSEEECTTTTSSTTSCCSSSCCHHHHHHHHHT--TCCEEEESCCCSHHHHHHHHTTC
T ss_pred             CCeEEEeCCCHHHHHHHHHc--CCCEEeeeccccCCCCcCCCCCCHHHHHHHHhC--CCCEEEECCCCCHHHHHHHHHCC
Confidence            55544 56788887766654  47887   3333211    12346778888765  78998877777799999999999


Q ss_pred             CceeecCC--CCHHHHHHHHHHH
Q 048318          121 LDLCHTKP--LSVDKILPLMEDL  141 (145)
Q Consensus       121 ~~~~l~kP--~~~~~L~~~i~~~  141 (145)
                      ++.++.--  +.+.+....+.+.
T Consensus       209 ad~v~vGsal~~p~~~~~~l~~~  231 (234)
T 1yxy_A          209 VAGIVVGGAITRPKEIAERFIEA  231 (234)
T ss_dssp             CSEEEECHHHHCHHHHHHHHHHH
T ss_pred             CCEEEEchHHhChHHHHHHHHHH
Confidence            99886431  1144444444443

>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=81.39  E-value=9.9  Score=25.56  Aligned_cols=97  Identities=13%  Similarity=0.115  Sum_probs=56.6

Q ss_pred             HHHHcCCeEE-EE--cCHHHHHHHHHcCC--CccEEEEecCCCCC-------CHHHHHHHHHhcCCcceEEEEeCCCCHH
Q 048318           44 ALKSLGFKVE-VA--ENGKEAVDLFRSGA--KFDIVFIDKEMPVM-------NGIEATREIRSMGIKIKIVGVTSLNSEA  111 (145)
Q Consensus        44 ~L~~~g~~v~-~~--~~~~~al~~~~~~~--~~dlvl~d~~~~~~-------~~~~~~~~l~~~~~~~~iv~l~~~~~~~  111 (145)
                      .++..|..+. .+  .+..+.++.+.. .  ..|.++++...|+.       .+++.++++++..++.|+++-. .-+.+
T Consensus       108 ~i~~~g~~igv~~~p~t~~e~~~~~~~-~~~~~d~vl~~sv~pg~~g~~~~~~~l~~i~~~~~~~~~~pi~v~G-GI~~~  185 (228)
T 1h1y_A          108 SIKAKGMRPGVSLRPGTPVEEVFPLVE-AENPVELVLVMTVEPGFGGQKFMPEMMEKVRALRKKYPSLDIEVDG-GLGPS  185 (228)
T ss_dssp             HHHHTTCEEEEEECTTSCGGGGHHHHH-SSSCCSEEEEESSCTTCSSCCCCGGGHHHHHHHHHHCTTSEEEEES-SCSTT
T ss_pred             HHHHcCCCEEEEEeCCCCHHHHHHHHh-cCCCCCEEEEEeecCCCCcccCCHHHHHHHHHHHHhcCCCCEEEEC-CcCHH
Confidence            3444555544 33  233344444433 2  47999887665542       3466677777765577876544 44446


Q ss_pred             HHHHHHHhCCceeec-----CCCCHHHHHHHHHHHH
Q 048318          112 EREAFMQAGLDLCHT-----KPLSVDKILPLMEDLM  142 (145)
Q Consensus       112 ~~~~~~~~g~~~~l~-----kP~~~~~L~~~i~~~~  142 (145)
                      ....+...|+|.++.     +.-++.+-.+.+++.+
T Consensus       186 ni~~~~~aGaD~vvvGsai~~~~d~~~~~~~l~~~~  221 (228)
T 1h1y_A          186 TIDVAASAGANCIVAGSSIFGAAEPGEVISALRKSV  221 (228)
T ss_dssp             THHHHHHHTCCEEEESHHHHTSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCEEEECHHHHCCCCHHHHHHHHHHHH
Confidence            677788889999863     3335666665555544

>3gjy_A Spermidine synthase; APC62791, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.47A {Corynebacterium glutamicum atcc 13032}

Probab=81.32  E-value=7.2  Score=28.02  Aligned_cols=70  Identities=13%  Similarity=0.103  Sum_probs=47.4

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHc-CCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCC-----CHHHHHHHHHhc
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSL-GFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVM-----NGIEATREIRSM   95 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~-----~~~~~~~~l~~~   95 (145)
                      ..+|..+|-++...+..++.+... +-.+. ...++.+.+..... ..||+|++|...+..     ...++++.+++.
T Consensus       113 ~~~v~~VEidp~vi~~Ar~~~~~~~~~rv~v~~~Da~~~l~~~~~-~~fDvIi~D~~~~~~~~~~L~t~efl~~~~r~  189 (317)
T 3gjy_A          113 QSRNTVVELDAELARLSREWFDIPRAPRVKIRVDDARMVAESFTP-ASRDVIIRDVFAGAITPQNFTTVEFFEHCHRG  189 (317)
T ss_dssp             TCEEEEEESCHHHHHHHHHHSCCCCTTTEEEEESCHHHHHHTCCT-TCEEEEEECCSTTSCCCGGGSBHHHHHHHHHH
T ss_pred             CcEEEEEECCHHHHHHHHHhccccCCCceEEEECcHHHHHhhccC-CCCCEEEECCCCccccchhhhHHHHHHHHHHh
Confidence            457899999999999998887532 22344 56777776654323 469999999755432     125777777653

>4hkt_A Inositol 2-dehydrogenase; structural genomics, nysgrc, PSI-biology, NEW YORK structura genomics research consortium, oxidoreductase; HET: MSE; 2.00A {Sinorhizobium meliloti}

Probab=81.00  E-value=12  Score=26.41  Aligned_cols=31  Identities=19%  Similarity=0.377  Sum_probs=17.0

Q ss_pred             CCHHHHHHHHHhCCceeecCCC--CHHHHHHHH
Q 048318          108 NSEAEREAFMQAGLDLCHTKPL--SVDKILPLM  138 (145)
Q Consensus       108 ~~~~~~~~~~~~g~~~~l~kP~--~~~~L~~~i  138 (145)
                      ........++++|..-++-||+  +.++..+.+
T Consensus        75 ~h~~~~~~al~~gk~v~~EKP~~~~~~~~~~l~  107 (331)
T 4hkt_A           75 THADLIERFARAGKAIFCEKPIDLDAERVRACL  107 (331)
T ss_dssp             GHHHHHHHHHHTTCEEEECSCSCSSHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCcEEEecCCCCCHHHHHHHH
Confidence            3445566666667666666763  344444433

>3bo9_A Putative nitroalkan dioxygenase; TM0800, structural genomics center for structural genomics, JCSG, protein structure INI PSI-2; HET: MSE 2PE; 2.71A {Thermotoga maritima MSB8}

Probab=80.98  E-value=13  Score=26.60  Aligned_cols=80  Identities=16%  Similarity=0.128  Sum_probs=55.7

Q ss_pred             HHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCC-----CCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHH
Q 048318           43 MALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMP-----VMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAF  116 (145)
Q Consensus        43 ~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~-----~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~  116 (145)
                      ..++..|..+. .+.+.+++......  ..|.|+++-.-.     ....++++..+++.. ++|+++-++-.+......+
T Consensus       118 ~~l~~~g~~v~~~v~s~~~a~~a~~~--GaD~i~v~g~~~GG~~G~~~~~~ll~~i~~~~-~iPviaaGGI~~~~dv~~a  194 (326)
T 3bo9_A          118 RELKENGTKVIPVVASDSLARMVERA--GADAVIAEGMESGGHIGEVTTFVLVNKVSRSV-NIPVIAAGGIADGRGMAAA  194 (326)
T ss_dssp             HHHHHTTCEEEEEESSHHHHHHHHHT--TCSCEEEECTTSSEECCSSCHHHHHHHHHHHC-SSCEEEESSCCSHHHHHHH
T ss_pred             HHHHHcCCcEEEEcCCHHHHHHHHHc--CCCEEEEECCCCCccCCCccHHHHHHHHHHHc-CCCEEEECCCCCHHHHHHH
Confidence            34445566655 56777777665543  589888853211     235678888887643 6888877777778889999


Q ss_pred             HHhCCceee
Q 048318          117 MQAGLDLCH  125 (145)
Q Consensus       117 ~~~g~~~~l  125 (145)
                      +..|++.+.
T Consensus       195 l~~GA~gV~  203 (326)
T 3bo9_A          195 FALGAEAVQ  203 (326)
T ss_dssp             HHHTCSEEE
T ss_pred             HHhCCCEEE
Confidence            999999875

>3rc1_A Sugar 3-ketoreductase; sugar biosynthesis, TDP binding, NADP binding binding protein; HET: TLO NAP; 1.71A {Actinomadura kijaniata} PDB: 3rbv_A* 3rc2_A* 3rcb_A* 3rc7_A* 3rc9_A*

Probab=80.75  E-value=13  Score=26.74  Aligned_cols=105  Identities=13%  Similarity=0.015  Sum_probs=54.3

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHc-CCeEE-EEc-CHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcce
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSL-GFKVE-VAE-NGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIK  100 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~-g~~v~-~~~-~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~  100 (145)
                      ++++|.||.--..-...+...|... +++++ .+. +.+.+-.....   +.+-..+      +-.+   .+.....++-
T Consensus        26 ~~~rigiIG~G~~g~~~~~~~l~~~~~~~l~av~d~~~~~~~~~a~~---~g~~~~~------~~~~---ll~~~~~D~V   93 (350)
T 3rc1_A           26 NPIRVGVIGCADIAWRRALPALEAEPLTEVTAIASRRWDRAKRFTER---FGGEPVE------GYPA---LLERDDVDAV   93 (350)
T ss_dssp             CCEEEEEESCCHHHHHTHHHHHHHCTTEEEEEEEESSHHHHHHHHHH---HCSEEEE------SHHH---HHTCTTCSEE
T ss_pred             CceEEEEEcCcHHHHHHHHHHHHhCCCeEEEEEEcCCHHHHHHHHHH---cCCCCcC------CHHH---HhcCCCCCEE
Confidence            3578999998876663344444444 77776 443 33333333322   2221111      1111   2222223443


Q ss_pred             EEEEeCCCCHHHHHHHHHhCCceeecCCCC--HHHHHHHHHH
Q 048318          101 IVGVTSLNSEAEREAFMQAGLDLCHTKPLS--VDKILPLMED  140 (145)
Q Consensus       101 iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~--~~~L~~~i~~  140 (145)
                      +|........+....++++|..-++-||+.  .++..+.++.
T Consensus        94 ~i~tp~~~h~~~~~~al~aGk~Vl~EKP~a~~~~ea~~l~~~  135 (350)
T 3rc1_A           94 YVPLPAVLHAEWIDRALRAGKHVLAEKPLTTDRPQAERLFAV  135 (350)
T ss_dssp             EECCCGGGHHHHHHHHHHTTCEEEEESSSCSSHHHHHHHHHH
T ss_pred             EECCCcHHHHHHHHHHHHCCCcEEEeCCCCCCHHHHHHHHHH
Confidence            333333345666778888888888888864  4555554443

>2w6r_A Imidazole glycerol phosphate synthase subunit HISF; lyase, fusion protein, cobalamin, precorrin, novel fold, VIT; 2.10A {Thermotoga maritima}

Probab=80.73  E-value=11  Score=25.74  Aligned_cols=78  Identities=10%  Similarity=0.069  Sum_probs=45.5

Q ss_pred             HHHHHHHHHcCCCccEEEE-ecCC---CCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecC------
Q 048318           58 GKEAVDLFRSGAKFDIVFI-DKEM---PVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTK------  127 (145)
Q Consensus        58 ~~~al~~~~~~~~~dlvl~-d~~~---~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~k------  127 (145)
                      ..+..+.+.. ...+.|++ +..-   .....+++++.+++.. ++|+++-++-.+.+....++..|+++++.-      
T Consensus       158 ~~e~~~~~~~-~G~~~i~~t~~~~~g~~~g~~~~~i~~l~~~~-~ipvia~GGI~~~ed~~~~~~~Gadgv~vgsal~~~  235 (266)
T 2w6r_A          158 LRDWVVEVEK-RGAGEILLTSIDRDGTKSGYDTEMIRFVRPLT-TLPIIASGGAGKMEHFLEAFLAGADAALAASVFHFR  235 (266)
T ss_dssp             HHHHHHHHHH-TTCSEEEEEETTTTTTCSCCCHHHHHHHGGGC-CSCEEEESCCCSHHHHHHHHHHTCSEEEESTTTC--
T ss_pred             HHHHHHHHHH-cCCCEEEEEeecCCCCcCCCCHHHHHHHHHHc-CCCEEEeCCCCCHHHHHHHHHcCCHHHHccHHHHcC
Confidence            4455454544 45776665 2221   1122478888888753 789998888888888888899999987533      


Q ss_pred             CCCHHHHHHH
Q 048318          128 PLSVDKILPL  137 (145)
Q Consensus       128 P~~~~~L~~~  137 (145)
                      |.+..++...
T Consensus       236 ~~~~~~~~~~  245 (266)
T 2w6r_A          236 EIDMRELKEY  245 (266)
T ss_dssp             ----------
T ss_pred             CCCHHHHHHH
Confidence            5455555443

>2fpo_A Methylase YHHF; structural genomics, putative methyltransferase, PSI, protei structure initiative; HET: MSE; 2.05A {Escherichia coli} SCOP: c.66.1.46

Probab=80.33  E-value=9.8  Score=24.82  Aligned_cols=66  Identities=18%  Similarity=0.139  Sum_probs=45.8

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCC-eEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHh
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGF-KVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRS   94 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~-~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~   94 (145)
                      +|.-+|-++...+..+..++..|+ .+. ...+..+.+..  ....||+|++|.-.......++++.+.+
T Consensus        79 ~V~~vD~s~~~l~~a~~~~~~~~~~~v~~~~~D~~~~~~~--~~~~fD~V~~~~p~~~~~~~~~l~~l~~  146 (202)
T 2fpo_A           79 GATLIEMDRAVSQQLIKNLATLKAGNARVVNSNAMSFLAQ--KGTPHNIVFVDPPFRRGLLEETINLLED  146 (202)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCCSEEEECSCHHHHHSS--CCCCEEEEEECCSSSTTTHHHHHHHHHH
T ss_pred             EEEEEECCHHHHHHHHHHHHHcCCCcEEEEECCHHHHHhh--cCCCCCEEEECCCCCCCcHHHHHHHHHh
Confidence            789999999999999999988775 444 44566554322  1246999999865333445567777765

>3kts_A Glycerol uptake operon antiterminator regulatory; structural genomics, PSI-2, protein structur initiative; HET: UNL; 2.75A {Listeria monocytogenes str}

Probab=80.14  E-value=3.7  Score=27.36  Aligned_cols=61  Identities=13%  Similarity=0.214  Sum_probs=44.1

Q ss_pred             HHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           60 EAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        60 ~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      .+++.+.+ ..||++  + -||+.- ..+++.+++.. .+|+|+=+--.+.+.+..++++||+..-.
T Consensus       118 ~~~~~i~~-~~PD~i--E-iLPGi~-p~iI~~i~~~~-~~PiIaGGlI~~~edv~~al~aGA~aVsT  178 (192)
T 3kts_A          118 KGVALIQK-VQPDCI--E-LLPGII-PEQVQKMTQKL-HIPVIAGGLIETSEQVNQVIASGAIAVTT  178 (192)
T ss_dssp             HHHHHHHH-HCCSEE--E-EECTTC-HHHHHHHHHHH-CCCEEEESSCCSHHHHHHHHTTTEEEEEE
T ss_pred             HHHHHHhh-cCCCEE--E-ECCchh-HHHHHHHHHhc-CCCEEEECCcCCHHHHHHHHHcCCeEEEe
Confidence            35666665 579977  2 246543 37888888753 67888655557999999999999998754

---

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	8e-21
d1u0sy_	118	c.23.1.1 (Y:) CheY protein {Thermotoga maritima [T	4e-20
d1dz3a_	123	c.23.1.1 (A:) Sporulation response regulator Spo0A	9e-20
d1dcfa_	134	c.23.1.2 (A:) Receiver domain of the ethylene rece	1e-19
d1zesa1	121	c.23.1.1 (A:3-123) PhoB receiver domain {Escherich	2e-19
d2r25b1	128	c.23.1.1 (B:1087-1214) Response regulator Sin1 {Ba	4e-19
d1a04a2	138	c.23.1.1 (A:5-142) Nitrate/nitrite response regula	7e-19
d2b4aa1	118	c.23.1.1 (A:2-119) Hypothetical protein BH3024 {Ba	2e-18
d1jbea_	128	c.23.1.1 (A:) CheY protein {Escherichia coli [TaxI	4e-18
d1mb3a_	123	c.23.1.1 (A:) Cell division response regulator Div	4e-18
d2a9pa1	117	c.23.1.1 (A:2-118) DNA-binding response regulator	1e-17
d1dbwa_	123	c.23.1.1 (A:) Transcriptional regulatory protein F	2e-17
d1qkka_	140	c.23.1.1 (A:) Transcriptional regulatory protein D	2e-17
d1ys7a2	121	c.23.1.1 (A:7-127) Transcriptional regulatory prot	3e-17
d1s8na_	190	c.23.1.1 (A:) Probable two-component system transc	4e-17
d2pl1a1	119	c.23.1.1 (A:1-119) PhoP receiver domain {Escherich	5e-17
d1i3ca_	144	c.23.1.1 (A:) Response regulator for cyanobacteria	1e-16
d1zgza1	120	c.23.1.1 (A:2-121) TorCAD operon transcriptional r	2e-16
d1xhfa1	121	c.23.1.1 (A:2-122) Aerobic respiration control pro	2e-16
d1krwa_	123	c.23.1.1 (A:) NTRC receiver domain {Salmonella typ	2e-16
d1a2oa1	140	c.23.1.1 (A:1-140) Methylesterase CheB, N-terminal	3e-16
d1yioa2	128	c.23.1.1 (A:3-130) Response regulatory protein Sty	3e-16
d1kgsa2	122	c.23.1.1 (A:2-123) PhoB receiver domain {Thermotog	4e-16
d2ayxa1	133	c.23.1.1 (A:817-949) Sensor kinase protein RcsC, C	6e-16
d1mvoa_	121	c.23.1.1 (A:) PhoP receiver domain {Bacillus subti	9e-16
d1ny5a1	137	c.23.1.1 (A:1-137) Transcriptional activator sigm5	1e-15
d1zh2a1	119	c.23.1.1 (A:2-120) Transcriptional regulatory prot	2e-15
d1k68a_	140	c.23.1.1 (A:) Response regulator for cyanobacteria	2e-15
d1k66a_	149	c.23.1.1 (A:) Response regulator for cyanobacteria	2e-13
d1p6qa_	129	c.23.1.1 (A:) CheY protein {Sinorhizobium meliloti	2e-13
d1p2fa2	120	c.23.1.1 (A:1-120) Response regulator DrrB {Thermo	9e-13
d1qo0d_	189	c.23.1.3 (D:) Positive regulator of the amidase op	1e-11
d1w25a1	139	c.23.1.1 (A:2-140) Response regulator PleD, receiv	4e-11
d1w25a2	153	c.23.1.1 (A:141-293) Response regulator PleD, rece	8e-11

>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 = 79.6 bits (196), Expect = 8e-21
 Identities = 27/115 (23%), Positives = 57/115 (49%), Gaps = 1/115 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDD   IR + +      G++   A NG +A+D+     + D+V +D ++P M+GIE 
Sbjct: 5   LIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTKE-RPDLVLLDMKIPGMDGIEI 63

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
            + ++ +   I+++ +T+       +   + G      KP  +D+I   ++  + 
Sbjct: 64  LKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIRDAVKKYLP 118

>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 = 77.7 bits (191), Expect = 4e-20
 Identities = 34/108 (31%), Positives = 58/108 (53%), Gaps = 2/108 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           L+VDD  F+R +    +   G++    A NG+EAV+ ++   K DIV +D  MP MNGI+
Sbjct: 5   LIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKEL-KPDIVTMDITMPEMNGID 63

Query: 88  ATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
           A +EI  +    KI+  +++  +A     ++AG      KP    +++
Sbjct: 64  AIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVV 111

>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 = 77.2 bits (190), Expect = 9e-20
 Identities = 19/110 (17%), Positives = 47/110 (42%), Gaps = 4/110 (3%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFK--VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGI 86
            + DD+  + ++    + S      +  A NG++ + +     + DI+ +D  MP ++G+
Sbjct: 5   CIADDNRELVSLLDEYISSQPDMEVIGTAYNGQDCLQMLEEK-RPDILLLDIIMPHLDGL 63

Query: 87  EATREIRSMGIK-IKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
                IR+       ++ +T+   E   +  ++ G      KP  ++ + 
Sbjct: 64  AVLERIRAGFEHQPNVIMLTAFGQEDVTKKAVELGASYFILKPFDMENLA 113

>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 = 76.9 bits (189), Expect = 1e-19
 Identities = 28/120 (23%), Positives = 55/120 (45%), Gaps = 7/120 (5%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LV+D++   R +    L  LG +V    + +E + +     +  +VF+D  MP +   + 
Sbjct: 11  LVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVSH--EHKVVFMDVCMPGVENYQI 68

Query: 89  TREIRSM-----GIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
              I          +  +V ++    ++ +E  M  GLD    KP+S+D I  ++ DL++
Sbjct: 69  ALRIHEKFTKQRHQRPLLVALSGNTDKSTKEKCMSFGLDGVLLKPVSLDNIRDVLSDLLE 128

>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 = 76.1 bits (187), Expect = 2e-19
 Identities = 30/117 (25%), Positives = 60/117 (51%), Gaps = 3/117 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVV+D+  IR +    L+  GF+   AE+   AV+        D++ +D  +P  +GI+ 
Sbjct: 4   LVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEP-WPDLILLDWMLPGGSGIQF 62

Query: 89  TREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
            + ++   +   I +V +T+   E +R   ++ G D   TKP S  +++  ++ +M+
Sbjct: 63  IKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMR 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 = 75.4 bits (185), Expect = 4e-19
 Identities = 29/120 (24%), Positives = 67/120 (55%), Gaps = 6/120 (5%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFR----SGAKFDIVFIDKEMPVM 83
           LVV+D+   + +    L   G + +E+A +G+EA D  +     G  ++++F+D +MP +
Sbjct: 5   LVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGENYNMIFMDVQMPKV 64

Query: 84  NGIEATREIRS-MGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM 142
           +G+ +T+ IR  +G    IV +T+   ++  +  +++G++   +KP+   K+  ++ +  
Sbjct: 65  DGLLSTKMIRRDLGYTSPIVALTAFADDSNIKECLESGMNGFLSKPIKRPKLKTILTEFC 124

>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 = 75.3 bits (185), Expect = 7e-19
 Identities = 28/109 (25%), Positives = 51/109 (46%), Gaps = 3/109 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLG--FKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGI 86
           L++DD   +RT     +        V  A NG++ ++L  S    D++ +D  MP MNG+
Sbjct: 6   LLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESL-DPDLILLDLNMPGMNGL 64

Query: 87  EATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
           E   ++R   +  +IV  +  N E +    ++ G D    K +  + +L
Sbjct: 65  ETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLL 113

>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 = 73.8 bits (181), Expect = 2e-18
 Identities = 15/107 (14%), Positives = 41/107 (38%), Gaps = 3/107 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
            +V+D+    T+    L  LG +V V  +G          +  D++ +  ++  ++    
Sbjct: 6   TLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHRSQLSTCDLLIVSDQLVDLSIFSL 65

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
              ++    +  ++ +T+   E       +  L     KP ++ ++ 
Sbjct: 66  LDIVKEQTKQPSVLILTTGRHELIES--SEHNLSYL-QKPFAISELR 109

>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 = 72.7 bits (178), Expect = 4e-18
 Identities = 27/117 (23%), Positives = 60/117 (51%), Gaps = 3/117 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V+D+     +    L++ G++      G  A+ + R   K D++ +D ++P ++G+E 
Sbjct: 5   LIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIAREN-KPDLILMDIQLPEISGLEV 63

Query: 89  TREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
           T+ ++       I +V VT+   + + E   + G +   +KP+SV   L  ++ L++
Sbjct: 64  TKWLKEDDDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKPISVVHFLETIKRLLE 120

>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 = 71.2 bits (174), Expect = 1e-17
 Identities = 32/115 (27%), Positives = 65/115 (56%), Gaps = 2/115 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDD+  I  I    +   G++V  A NG+EA++ F +  + DI+ +D  +P ++G+E 
Sbjct: 4   LIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAE-QPDIIILDLMLPEIDGLEV 62

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
            + IR     + I+ +++ +SE ++   ++ G D   TKP S  ++   ++ L++
Sbjct: 63  AKTIRKTS-SVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLR 116

>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 = 25/116 (21%), Positives = 49/116 (42%), Gaps = 1/116 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
            +VDD+  +R   +  L   GF V++ ++ +  +       +  ++  D  MP M+G+E 
Sbjct: 7   HIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPDV-RNGVLVTDLRMPDMSGVEL 65

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN 144
            R +  + I I  + +T           M+AG      KP     I+  +E   ++
Sbjct: 66  LRNLGDLKINIPSIVITGHGDVPMAVEAMKAGAVDFIEKPFEDTVIIEAIERASEH 121

>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 = 71.2 bits (174), Expect = 2e-17
 Identities = 26/116 (22%), Positives = 47/116 (40%), Gaps = 1/116 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
            ++DDD  +R      L+  GF V    +  EA+    +     IV  D  MP M+G+  
Sbjct: 4   FLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSAD-FAGIVISDIRMPGMDGLAL 62

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN 144
            R+I ++   + ++ VT           +Q G      KP + D+++       + 
Sbjct: 63  FRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEK 118

>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 = 31/115 (26%), Positives = 61/115 (53%), Gaps = 1/115 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDDD  +       L+  GF+V  A +G EA+       + D + +D  MPV++G+  
Sbjct: 5   LVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSATEN-RPDAIVLDINMPVLDGVSV 63

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
              +R+M   + +  +++ +S  +R A ++AG D    KP  + +++  ++ L++
Sbjct: 64  VTALRAMDNDVPVCVLSARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLR 118

>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 = 71.8 bits (175), Expect = 4e-17
 Identities = 35/108 (32%), Positives = 56/108 (51%), Gaps = 3/108 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           L+ +D+  IR   +  L+  G++ V  A +G+EAV+L     K D+V +D +MP  +GI+
Sbjct: 7   LIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAEL-HKPDLVIMDVKMPRRDGID 65

Query: 88  ATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
           A  EI S  I   IV +T+ +     E    AG      KP S+  ++
Sbjct: 66  AASEIASKRI-APIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDLI 112

>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 = 69.8 bits (170), Expect = 5e-17
 Identities = 33/117 (28%), Positives = 61/117 (52%), Gaps = 1/117 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVV+D+  +R    + ++  G +V+ AE+ KEA          DI  +D  +P  +G+  
Sbjct: 4   LVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEH-IPDIAIVDLGLPDEDGLSL 62

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN 145
            R  RS  + + I+ +T+  S  ++   + AG D   TKP  +++++  M+ LM+ N
Sbjct: 63  IRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRRN 119

>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 = 69.3 bits (169), Expect = 1e-16
 Identities = 21/123 (17%), Positives = 54/123 (43%), Gaps = 10/123 (8%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEV--AENGKEAVDLFRSGA------KFDIVFIDKEM 80
           L+V+D      +    LK+     E+    +G  A+   +         + +++ +D  +
Sbjct: 7   LLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFLQQQGEYENSPRPNLILLDLNL 66

Query: 81  PVMNGIEATREIRSMG--IKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLM 138
           P  +G E   EI+      +I +V +T+ ++E +  A  +  ++   TK  ++  +  ++
Sbjct: 67  PKKDGREVLAEIKQNPDLKRIPVVVLTTSHNEDDVIASYELHVNCYLTKSRNLKDLFKMV 126

Query: 139 EDL 141
           + +
Sbjct: 127 QGI 129

>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 = 68.5 bits (167), Expect = 2e-16
 Identities = 25/115 (21%), Positives = 56/115 (48%), Gaps = 2/115 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           ++V+D+   +          G+ V V  +G    ++ ++    D++ +D  +P  NG+  
Sbjct: 5   VIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIMQNQ-SVDLILLDINLPDENGLML 63

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
           TR +R     + I+ VT  +   +R   ++ G D   TKPL + +++  +++L+ 
Sbjct: 64  TRALR-ERSTVGIILVTGRSDRIDRIVGLEMGADDYVTKPLELRELVVRVKNLLW 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 = 25/115 (21%), Positives = 54/115 (46%), Gaps = 2/115 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V+D+   R       ++ G+ V  A +G E   +       ++V +D  +P  NG+  
Sbjct: 6   LIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSEY-DINLVIMDINLPGKNGLLL 64

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
            RE+R     + ++ +T  ++E ++   ++ G D   TKP +  ++     +L+ 
Sbjct: 65  ARELREQA-NVALMFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLS 118

>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 = 68.6 bits (167), Expect = 2e-16
 Identities = 30/116 (25%), Positives = 52/116 (44%), Gaps = 1/116 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
            VVDDD  IR +   AL   G      ENG E +    S    D++  D  MP M+G+  
Sbjct: 7   WVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASK-TPDVLLSDIRMPGMDGLAL 65

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN 144
            ++I+     + ++ +T+ +      +  Q G      KP  +D+ + L+E  + +
Sbjct: 66  LKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAISH 121

>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 = 68.4 bits (167), Expect = 3e-16
 Identities = 27/111 (24%), Positives = 47/111 (42%), Gaps = 6/111 (5%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEV--AENGKEAVDLFRSGAKFDIVFIDKEMPVMNGI 86
           L VDD   +R I +  + S      V  A +   A DL +     D++ +D EMP M+G+
Sbjct: 7   LSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIKKF-NPDVLTLDVEMPRMDGL 65

Query: 87  EATREIRSMG--IKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
           +   ++  +     + +  +T   SE    A ++ G     TKP    +  
Sbjct: 66  DFLEKLMRLRPMPVVMVSSLTGKGSEVTLRA-LELGAIDFVTKPQLGIREG 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 = 67.8 bits (165), Expect = 3e-16
 Identities = 32/117 (27%), Positives = 53/117 (45%), Gaps = 1/117 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
            VVDDD  +R      L+S GF+VE  +     ++  R   +   + +D  MP M+GIE 
Sbjct: 6   FVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHRRPE-QHGCLVLDMRMPGMSGIEL 64

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN 145
             ++ ++   I IV +T+          M+AG      KP     +L  +E  ++ N
Sbjct: 65  QEQLTAISDGIPIVFITAHGDIPMTVRAMKAGAIEFLPKPFEEQALLDAIEQGLQLN 121

>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 = 67.8 bits (165), Expect = 4e-16
 Identities = 30/115 (26%), Positives = 61/115 (53%), Gaps = 1/115 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVV+D+  +  + + ALK   F V+V  +G+E + +  +   FD+V +D  +PV +G E 
Sbjct: 5   LVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMALNE-PFDVVILDIMLPVHDGWEI 63

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
            + +R  G+   ++ +T+L+    R   +  G D    KP  + +++  +  L++
Sbjct: 64  LKSMRESGVNTPVLMLTALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRALIR 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 = 67.4 bits (164), Expect = 6e-16
 Identities = 36/115 (31%), Positives = 66/115 (57%), Gaps = 1/115 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDD    R + +  L SLG++ + A +G +A+++       DIV  D  MP M+G   
Sbjct: 12  LVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKN-HIDIVLSDVNMPNMDGYRL 70

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
           T+ IR +G+ + ++GVT+     E++  +++G+D C +KP+++D I   +    +
Sbjct: 71  TQRIRQLGLTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTLTLYAE 125

>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 = 66.6 bits (162), Expect = 9e-16
 Identities = 31/115 (26%), Positives = 64/115 (55%), Gaps = 1/115 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDD+  I T+    L+  G+ V  A +G+EA+    +  K D++ +D  +P ++GIE 
Sbjct: 6   LVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAETE-KPDLIVLDVMLPKLDGIEV 64

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
            +++R   +   I+ +T+ + E ++   ++ G D   TKP S  ++   ++ +++
Sbjct: 65  CKQLRQQKLMFPILMLTAKDEEFDKVLGLELGADDYMTKPFSPREVNARVKAILR 119

>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 = 66.6 bits (162), Expect = 1e-15
 Identities = 32/116 (27%), Positives = 57/116 (49%), Gaps = 1/116 (0%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LV++DD   R +    L   G KVE AE GKEA  L      F++V +D  +P +NG+E 
Sbjct: 4   LVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLSEK-HFNVVLLDLLLPDVNGLEI 62

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN 144
            + I+    + +++ +T   +       M+ G     TKP  +++I   +   +++
Sbjct: 63  LKWIKERSPETEVIVITGHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAIEH 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 = 65.5 bits (159), Expect = 2e-15
 Identities = 27/115 (23%), Positives = 60/115 (52%), Gaps = 2/115 (1%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+V+D+  IR     AL+  G +V  AE  +  +    +  K D++ +D  +P  +GIE 
Sbjct: 4   LIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATR-KPDLIILDLGLPDGDGIEF 62

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
            R++R     + ++ +++ + E+++ A + AG D   +KP  + ++   +   ++
Sbjct: 63  IRDLRQW-SAVPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALR 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 = 65.9 bits (160), Expect = 2e-15
 Identities = 23/125 (18%), Positives = 55/125 (44%), Gaps = 10/125 (8%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEV--AENGKEAVDLFRSGA------KFDIVFIDKEM 80
            +V+D+     +   AL +     EV    +G EA+   R         + D++ +D  +
Sbjct: 6   FLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEYANASRPDLILLDLNL 65

Query: 81  PVMNGIEATREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLM 138
           P  +G E   EI+S     +I +V +++  +E +        ++   TK  ++ ++  ++
Sbjct: 66  PKKDGREVLAEIKSDPTLKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQLFQIV 125

Query: 139 EDLMK 143
           + + +
Sbjct: 126 KGIEE 130

>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 = 61.4 bits (148), Expect = 2e-13
 Identities = 25/128 (19%), Positives = 53/128 (41%), Gaps = 13/128 (10%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEV--AENGKEAVDLFRSGA---------KFDIVFID 77
           LVV+D     +     L+  G    +     G +A+D               +  ++ +D
Sbjct: 10  LVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSYCNPDIAPRPAVILLD 69

Query: 78  KEMPVMNGIEATREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKIL 135
             +P  +G E  +EI+   +  KI +V +T+ ++  + E      +     KPL +D++ 
Sbjct: 70  LNLPGTDGREVLQEIKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEIDRLT 129

Query: 136 PLMEDLMK 143
             ++  +K
Sbjct: 130 ETVQTFIK 137

>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 = 60.8 bits (147), Expect = 2e-13
 Identities = 28/116 (24%), Positives = 54/116 (46%), Gaps = 4/116 (3%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIE 87
           L+VDD    R +   AL+ LGFK +  A +G++ + +        +V  D  MP M+G+ 
Sbjct: 10  LIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIMAQN-PHHLVISDFNMPKMDGLG 68

Query: 88  ATREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL 141
             + +R+     K   + +T+    A  +     G +    KP +++K+   +E +
Sbjct: 69  LLQAVRANPATKKAAFIILTAQGDRALVQKAAALGANNVLAKPFTIEKMKAAIEAV 124

>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 = 58.9 bits (142), Expect = 9e-13
 Identities = 29/115 (25%), Positives = 54/115 (46%), Gaps = 4/115 (3%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
            VVDDD  I    S  L+ LG  V+    G++ ++       F +V +D  +P  +G E 
Sbjct: 6   AVVDDDKNILKKVSEKLQQLGR-VKTFLTGEDFLNDEE---AFHVVVLDVMLPDYSGYEI 61

Query: 89  TREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
            R I+    +  ++ +T L+ +       +AG D   TKP + + +L  ++  ++
Sbjct: 62  CRMIKETRPETWVILLTLLSDDESVLKGFEAGADDYVTKPFNPEILLARVKRFLE 116

>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 = 57.3 bits (137), Expect = 1e-11
 Identities = 22/127 (17%), Positives = 44/127 (34%), Gaps = 8/127 (6%)

Query: 19  PSAKNLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDK 78
            S + L++  LV++    +     + L  +G  V       EA D        D+VF   
Sbjct: 7   GSLRELQV--LVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAFD-----VPVDVVFTSI 59

Query: 79  EMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLM 138
                +   A         +  +V +    S A     ++       T+PL   ++LP++
Sbjct: 60  FQNRHHDEIAALLAAG-TPRTTLVALVEYESPAVLSQIIELECHGVITQPLDAHRVLPVL 118

Query: 139 EDLMKNN 145
               + +
Sbjct: 119 VSARRIS 125

>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 = 54.9 bits (131), Expect = 4e-11
 Identities = 28/117 (23%), Positives = 53/117 (45%), Gaps = 3/117 (2%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           LVVDD      +    L +  ++V  A +G  A+ +       DI+ +D  MP M+G   
Sbjct: 5   LVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARD-LPDIILLDVMMPGMDGFTV 63

Query: 89  TREIRSMGI--KIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
            R+++       I +V +T+L+   +R   +++G     TKP+    +   +  L +
Sbjct: 64  CRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPIDDVMLFARVRSLTR 120

>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 = 54.3 bits (130), Expect = 8e-11
 Identities = 17/117 (14%), Positives = 47/117 (40%), Gaps = 5/117 (4%)

Query: 29  LVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEA 88
           L+VDD+       +  L        V E+  E   +   G   D+V ++      +G+  
Sbjct: 17  LIVDDNERQAQRVAAELGVEHR--PVIESDPEKAKISAGG-PVDLVIVNAAAKNFDGLRF 73

Query: 89  TREIRSMG--IKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK 143
           T  +RS     ++ ++ +   +        ++ G++   ++P+   ++   ++  ++
Sbjct: 74  TAALRSEERTRQLPVLAMVDPDDRGRMVKALEIGVNDILSRPIDPQELSARVKTQIQ 130

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	99.98
d1dbwa_	123	Transcriptional regulatory protein FixJ, receiver	99.97
d1mvoa_	121	PhoP receiver domain {Bacillus subtilis [TaxId: 14	99.97
d1kgsa2	122	PhoB receiver domain {Thermotoga maritima [TaxId:	99.97
d1peya_	119	Sporulation response regulator Spo0F {Bacillus sub	99.97
d1ys7a2	121	Transcriptional regulatory protein PrrA, N-termina	99.97
d2a9pa1	117	DNA-binding response regulator MicA, N-terminal do	99.97
d1krwa_	123	NTRC receiver domain {Salmonella typhimurium [TaxI	99.97
d1ny5a1	137	Transcriptional activator sigm54 (NtrC1), N-termin	99.97
d1zesa1	121	PhoB receiver domain {Escherichia coli [TaxId: 562	99.97
d1zh2a1	119	Transcriptional regulatory protein KdpE, N-termina	99.97
d1xhfa1	121	Aerobic respiration control protein ArcA, N-termin	99.97
d1u0sy_	118	CheY protein {Thermotoga maritima [TaxId: 2336]}	99.97
d2ayxa1	133	Sensor kinase protein RcsC, C-terminal domain {Esc	99.97
d1qkka_	140	Transcriptional regulatory protein DctD, receiver	99.96
d1zgza1	120	TorCAD operon transcriptional regulator TorD, N-te	99.96
d1mb3a_	123	Cell division response regulator DivK {Caulobacter	99.96
d1p2fa2	120	Response regulator DrrB {Thermotoga maritima [TaxI	99.96
d1jbea_	128	CheY protein {Escherichia coli [TaxId: 562]}	99.96
d1p6qa_	129	CheY protein {Sinorhizobium meliloti, CheY2 [TaxId	99.96
d1a04a2	138	Nitrate/nitrite response regulator (NarL), receive	99.96
d1yioa2	128	Response regulatory protein StyR, N-terminal domai	99.96
d1w25a1	139	Response regulator PleD, receiver domain {Caulobac	99.96
d2r25b1	128	Response regulator Sin1 {Baker's yeast (Saccharomy	99.96
d1s8na_	190	Probable two-component system transcriptional regu	99.95
d1dz3a_	123	Sporulation response regulator Spo0A {Bacillus ste	99.95
d1dcfa_	134	Receiver domain of the ethylene receptor {Thale cr	99.95
d1i3ca_	144	Response regulator for cyanobacterial phytochrome	99.95
d1k66a_	149	Response regulator for cyanobacterial phytochrome	99.95
d1w25a2	153	Response regulator PleD, receiver domain {Caulobac	99.95
d1k68a_	140	Response regulator for cyanobacterial phytochrome	99.94
d2b4aa1	118	Hypothetical protein BH3024 {Bacillus halodurans [	99.94
d1a2oa1	140	Methylesterase CheB, N-terminal domain {Salmonella	99.92
d1qo0d_	189	Positive regulator of the amidase operon AmiR {Pse	99.89
d1ccwa_	137	Glutamate mutase, small subunit {Clostridium cochl	98.01
d7reqa2	168	Methylmalonyl-CoA mutase alpha subunit, C-terminal	97.7
d1xrsb1	160	D-lysine 5,6-aminomutase beta subunit KamE, C-term	96.78
d7reqb2	163	Methylmalonyl-CoA mutase beta subunit, C-terminal	96.73
d1dxea_	253	2-dehydro-3-deoxy-galactarate aldolase {Escherichi	96.49
d3bula2	156	Methionine synthase, C-terminal domain {Escherichi	96.4
d1qpoa1	169	Quinolinic acid phosphoribosyltransferase (Nicotin	95.55
d1izca_	299	Macrophomate synthase {Macrophoma commelinae [TaxI	95.49
d1id1a_	153	Rck domain from putative potassium channel Kch {Es	95.33
d1r8ja2	135	N-terminal domain of the circadian clock protein K	94.85
d1o4ua1	170	Quinolinic acid phosphoribosyltransferase (Nicotin	94.06
d1xm3a_	251	Thiazole biosynthesis protein ThiG {Bacillus subti	93.49
d2fy8a1	129	Potassium channel-related protein MthK {Archaeon M	93.18
d1xi3a_	206	Thiamin phosphate synthase {Archaeon (Pyrococcus f	92.93
d1qapa1	167	Quinolinic acid phosphoribosyltransferase (Nicotin	92.08
d1wa3a1	202	KDPG aldolase {Thermotoga maritima [TaxId: 2336]}	91.93
d1vhca_	212	Hypothetical protein HI0047 {Haemophilus influenza	91.61
d1mxsa_	216	KDPG aldolase {Pseudomonas putida [TaxId: 303]}	91.55
d1i7qb_	192	Anthranilate synthase GAT subunit, TrpG {Serratia	91.37
d1eepa_	388	Inosine monophosphate dehydrogenase (IMPDH) {Lyme	91.21
d2tpsa_	226	Thiamin phosphate synthase {Bacillus subtilis [Tax	90.94
d1wbha1	213	KDPG aldolase {Escherichia coli [TaxId: 562]}	90.75
d1susa1	227	Caffeoyl-CoA O-methyltransferase {Alfalfa (Medicag	89.67
d1a53a_	247	Indole-3-glycerophosphate synthase, IPGS {Archaeon	89.47
d1wl8a1	188	GMP synthase subunit A, GuaAA {Archaeon Pyrococcus	89.46
d1xeaa1	167	Putative oxidoreductase VCA1048 {Vibrio cholerae [	89.05
d2ifta1	183	Putative methylase HI0767 {Haemophilus influenzae	88.92
d1zfja1	365	Inosine monophosphate dehydrogenase (IMPDH) {Strep	88.26
d1vrda1	330	Inosine monophosphate dehydrogenase (IMPDH) {Therm	88.2
d1vl0a_	281	DTDP-4-dehydrorhamnose reductase RfbD {Clostridium	88.16
d1ws6a1	171	Methyltransferase TTHA0928 {Thermus thermophilus [	87.66
d1gtea2	312	Dihydropyrimidine dehydrogenase, domain 4 {Pig (Su	86.38
d2fpoa1	183	Methylase YhhF {Escherichia coli [TaxId: 562]}	86.0
d1lssa_	132	Ktn Mja218 {Archaeon Methanococcus jannaschii [Tax	85.98
d1qapa1	167	Quinolinic acid phosphoribosyltransferase (Nicotin	85.56
d1wv2a_	243	Thiazole biosynthesis protein ThiG {Pseudomonas ae	84.92
d2hmva1	134	Ktn bsu222 {Bacillus subtilis [TaxId: 1423]}	84.84
d2esra1	152	Putative methyltransferase SPy1538 {Streptococcus	84.73
d2qy9a2	211	GTPase domain of the signal recognition particle r	84.02
d1zh8a1	181	Hypothetical protein TM0312 {Thermotoga maritima [	83.82
d1qdlb_	195	Anthranilate synthase GAT subunit, TrpG {Archaeon	83.53
d1rzua_	477	Glycogen synthase 1, GlgA {Agrobacterium tumefacie	82.89
d1qpoa1	169	Quinolinic acid phosphoribosyltransferase (Nicotin	82.73
d1qopa_	267	Trp synthase alpha-subunit {Salmonella typhimurium	82.66
d1vpxa_	218	Decameric fructose-6-phosphate aldolase/transaldol	82.58
d1w0ma_	226	Triosephosphate isomerase {Thermoproteus tenax [Ta	81.9
d1wx0a1	211	Decameric fructose-6-phosphate aldolase/transaldol	81.81
d1u6ka1	282	F420-dependent methylenetetrahydromethanopterin de	80.9
d2fhpa1	182	Putative methylase EF2452 {Enterococcus faecalis [	80.51
d1jr1a1	378	Inosine monophosphate dehydrogenase (IMPDH) {Chine	80.18

>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=99.98  E-value=2.8e-31  Score=166.58  Aligned_cols=118  Identities=27%  Similarity=0.435  Sum_probs=114.0

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            579999999999999999999999999999999999999998 6899999999999999999999999988899999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|..+++++++|
T Consensus        80 ~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~v~~~lrR  118 (119)
T d2pl1a1          80 ARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRR  118 (119)
T ss_dssp             SCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            999999999999999999999999999999999999976

>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=2.6e-30  Score=162.99  Aligned_cols=119  Identities=21%  Similarity=0.288  Sum_probs=114.4

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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            4689999999999999999999999999999999999999988 689999999999999999999999998899999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |+..+......+++.|+++|+.||++.++|..++++++++
T Consensus        82 t~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~a~e~  121 (123)
T d1dbwa_          82 TGHGDVPMAVEAMKAGAVDFIEKPFEDTVIIEAIERASEH  121 (123)
T ss_dssp             ECTTCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHTT
T ss_pred             EeeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999998875

>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=7.5e-31  Score=165.07  Aligned_cols=121  Identities=26%  Similarity=0.407  Sum_probs=114.4

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      |+.+|||+||++..+..++..|+..||+|.++.++.+|++.+.. ..||+|++|+.||+++|+++++.++...+..|||+
T Consensus         1 M~krILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~-~~~dlillD~~mp~~~G~~~~~~~r~~~~~~~ii~   79 (121)
T d1mvoa_           1 MNKKILVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAET-EKPDLIVLDVMLPKLDGIEVCKQLRQQKLMFPILM   79 (121)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-HCCSEEEEESSCSSSCHHHHHHHHHHTTCCCCEEE
T ss_pred             CCCCEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhc-ccccEEEecccccCCCCchhhhhhhccCCCCEEEE
Confidence            35689999999999999999999999999999999999999987 67999999999999999999999999888899999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhcC
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN  145 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~~  145 (145)
                      +++..+......+++.|+++|+.||++.++|..+|+++++|.
T Consensus        80 lt~~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~lrR~  121 (121)
T d1mvoa_          80 LTAKDEEFDKVLGLELGADDYMTKPFSPREVNARVKAILRRS  121 (121)
T ss_dssp             EECTTCCCCHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHTC
T ss_pred             EEeeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHccC
Confidence            999988888899999999999999999999999999999874

>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=8.2e-31  Score=165.11  Aligned_cols=119  Identities=25%  Similarity=0.418  Sum_probs=114.4

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      ++|||||||++..+..++..|+..||.|.++.++++|++.+.. ..||+|++|+.||+++|+++++.+|+..+.+|+|++
T Consensus         1 nirILiVdDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~-~~~dlillD~~mp~~~g~~~~~~lr~~~~~~piI~l   79 (122)
T d1kgsa2           1 NVRVLVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMALN-EPFDVVILDIMLPVHDGWEILKSMRESGVNTPVLML   79 (122)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-SCCSEEEEESCCSSSCHHHHHHHHHHTTCCCCEEEE
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCEEEEEcchHHHHHHHHh-hCccccccccccccchhHHHHHHHHhcCCCCcEEEE
Confidence            4789999999999999999999999999999999999999988 689999999999999999999999998889999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |+..+......+++.|+++|+.||++.++|..+|++++++
T Consensus        80 t~~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~l~r  119 (122)
T d1kgsa2          80 TALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRALIRR  119 (122)
T ss_dssp             ESSCHHHHHHHTCCCCCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHcCCceeecCCCCHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999876

>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-30  Score=162.06  Aligned_cols=118  Identities=23%  Similarity=0.378  Sum_probs=112.5

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      +.||||+||++..+..++..|+..||.+..+.++.+|++.+.+ ..||+|++|+.||+++|+++++++|+..+++|+|++
T Consensus         1 NkrILvVDD~~~~~~~l~~~L~~~g~~v~~a~~g~eal~~~~~-~~~dlillD~~mP~~~G~el~~~lr~~~~~~pvi~l   79 (119)
T d1peya_           1 NEKILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTK-ERPDLVLLDMKIPGMDGIEILKRMKVIDENIRVIIM   79 (119)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-HCCSEEEEESCCTTCCHHHHHHHHHHHCTTCEEEEE
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHHh-CCCCEEEEeccCCCCCHHHHHHHHHHhCCCCcEEEE
Confidence            3589999999999999999999999999999999999999987 679999999999999999999999998889999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      |+..+......+++.|+++|+.||++.++|..++++++.
T Consensus        80 t~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~v~~~L~  118 (119)
T d1peya_          80 TAYGELDMIQESKELGALTHFAKPFDIDEIRDAVKKYLP  118 (119)
T ss_dssp             ESSCCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHSC
T ss_pred             ecCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHCC
Confidence            999999999999999999999999999999999998763

>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=5.2e-31  Score=165.75  Aligned_cols=118  Identities=26%  Similarity=0.420  Sum_probs=113.4

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeC
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTS  106 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~  106 (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            79999999999999999999999999999999999999988 68999999999999999999999999888999999999


Q ss_pred             CCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhcC
Q 048318          107 LNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN  145 (145)
Q Consensus       107 ~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~~  145 (145)
                      ..+......+++.|+++|+.||++.++|..+|+++++++
T Consensus        82 ~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~rr  120 (121)
T d1ys7a2          82 RSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLRRR  120 (121)
T ss_dssp             CCTTTCCCTTTTTTCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             eCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHcC
Confidence            999999999999999999999999999999999998763

>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=99.97  E-value=1.1e-29  Score=158.81  Aligned_cols=117  Identities=27%  Similarity=0.443  Sum_probs=111.2

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (145)
                      .||||+||++..+..++..|+..||+|..+.++++|++.+.+ ..||+|++|+.||+++|+++++.+++. +++|+|++|
T Consensus         1 KrILiVdDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~~~-~~~dlillD~~mp~~~G~~~~~~i~~~-~~~pvI~lt   78 (117)
T d2a9pa1           1 KKILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEA-EQPDIIILDLMLPEIDGLEVAKTIRKT-SSVPILMLS   78 (117)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-HCCSEEEECSSCSSSCHHHHHHHHHTT-CCCCEEEEE
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHh-cCCCEEEeccccCCCCccHHHHHHHhC-CCCCEEEEe
Confidence            369999999999999999999999999999999999999988 689999999999999999999999875 578999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|..+|+++++|
T Consensus        79 ~~~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~lrR  117 (117)
T d2a9pa1          79 AKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLRR  117 (117)
T ss_dssp             SCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHC
T ss_pred             cCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHhCC
Confidence            999999999999999999999999999999999999875

>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=99.97  E-value=3.2e-30  Score=162.58  Aligned_cols=118  Identities=25%  Similarity=0.345  Sum_probs=113.6

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            469999999999999999999999999999999999999987 6899999999999999999999999988999999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +..+.+....+++.|+++|+.||++.++|..++++++++
T Consensus        83 ~~~~~~~~~~a~~~Ga~dyl~KP~~~~eL~~~i~~~l~~  121 (123)
T d1krwa_          83 AHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAISH  121 (123)
T ss_dssp             CCSCHHHHHHHHHHTEEEECSSCCHHHHHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHcCCCeEEeCcCCHHHHHHHHHHHHHc
Confidence            999999999999999999999999999999999999875

>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=99.97  E-value=9.6e-30  Score=163.15  Aligned_cols=118  Identities=27%  Similarity=0.388  Sum_probs=112.9

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            479999999999999999999999999999999999999988 6899999999999999999999999988999999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|..++++++++
T Consensus        80 ~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~~  118 (137)
T d1ny5a1          80 GHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAIEH  118 (137)
T ss_dssp             ETTCHHHHHHHHTTTCCEEEEESCCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999988753

>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=99.97  E-value=1.9e-29  Score=158.60  Aligned_cols=118  Identities=25%  Similarity=0.362  Sum_probs=111.7

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKIVG  103 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~iv~  103 (145)
                      .+||||||++..+..+...|+..||.+..+.++++|++.+.+ ..||++++|+.||+++|+++++.+|+.  .+++|+|+
T Consensus         1 KkILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~-~~~dlil~D~~mp~~~G~~l~~~lr~~~~~~~~pvi~   79 (121)
T d1zesa1           1 RRILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNE-PWPDLILLDWMLPGGSGIQFIKHLKRESMTRDIPVVM   79 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHSSS-SCCSEEEECSSCTTSCHHHHHHHHHHSTTTTTSCEEE
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEECChHHHHHHHHc-cCCCEEEeecCCCCCCHHHHHHHHHhCccCCCCeEEE
Confidence            379999999999999999999999999999999999999987 689999999999999999999999974  45799999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +|+..+......+++.|+++|+.||++.++|..+++++++|
T Consensus        80 lt~~~~~~~~~~~~~~G~~d~l~KP~~~~~L~~~v~~~lrR  120 (121)
T d1zesa1          80 LTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMRR  120 (121)
T ss_dssp             EESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHT
T ss_pred             EECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999876

>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=99.97  E-value=9e-30  Score=159.64  Aligned_cols=116  Identities=23%  Similarity=0.358  Sum_probs=110.7

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeC
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTS  106 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~  106 (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 679999999999999999999999975 4679999999


Q ss_pred             CCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          107 LNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ..+......+++.|+++|+.||++.++|..+|+++++|
T Consensus        80 ~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~lrr  117 (119)
T d1zh2a1          80 RSEESDKIAALDAGADDYLSKPFGIGELQARLRVALRR  117 (119)
T ss_dssp             CCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999876

>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=99.97  E-value=6.1e-29  Score=156.22  Aligned_cols=117  Identities=21%  Similarity=0.359  Sum_probs=111.7

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            379999999999999999999999999999999999999988 689999999999999999999999885 589999999


Q ss_pred             CCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          106 SLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +..+......+++.|+++|+.||++.++|..+|+++++|
T Consensus        81 ~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~v~~~l~R  119 (121)
T d1xhfa1          81 GRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLSR  119 (121)
T ss_dssp             SCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999999876

>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=99.97  E-value=3e-29  Score=157.01  Aligned_cols=115  Identities=30%  Similarity=0.485  Sum_probs=109.8

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (145)
                      .+|||+||++..+..++..|+..||.|. .+.++.+|++.+.+ ..||+|++|+.||+++|+++++++++..+++|+|++
T Consensus         2 krILivDD~~~~~~~l~~~L~~~g~~v~~~a~~~~~al~~~~~-~~~dliilD~~mp~~~G~e~~~~ir~~~~~~pvi~l   80 (118)
T d1u0sy_           2 KRVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKE-LKPDIVTMDITMPEMNGIDAIKEIMKIDPNAKIIVC   80 (118)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHH-HCCSEEEEECSCGGGCHHHHHHHHHHHCTTCCEEEE
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHcCCceEEEECCHHHHHHHHHh-ccCCEEEEecCCCCCCHHHHHHHHHHhCCCCcEEEE
Confidence            5799999999999999999999999987 68999999999987 679999999999999999999999998899999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      |+..+.....++++.|+++|+.||++.++|..+++++
T Consensus        81 s~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~l~~v  117 (118)
T d1u0sy_          81 SAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKV  117 (118)
T ss_dssp             ECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHH
T ss_pred             EccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence            9999999999999999999999999999999999876

>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=99.97  E-value=2.1e-29  Score=160.82  Aligned_cols=121  Identities=31%  Similarity=0.562  Sum_probs=114.4

Q ss_pred             cCCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           23 NLRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        23 ~~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (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            346789999999999999999999999999999999999999988 6899999999999999999999999988889999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++|+..+......+++.|+++|+.||++.++|..++.+++++
T Consensus        85 ~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~r  126 (133)
T d2ayxa1          85 GVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTLTLYAER  126 (133)
T ss_dssp             EEESSTTSHHHHHHHHCCCEEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EEeccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999887753

>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=2.6e-29  Score=161.66  Aligned_cols=117  Identities=22%  Similarity=0.278  Sum_probs=112.3

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeC
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTS  106 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~  106 (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 68999999999999999999999999889999999999


Q ss_pred             CCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          107 LNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ..+......+++.||++|+.||++.++|..++++++++
T Consensus        81 ~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~~~~  118 (140)
T d1qkka_          81 HGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEK  118 (140)
T ss_dssp             GGGHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHcCCCEeecCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999988754

>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=1.3e-28  Score=154.45  Aligned_cols=118  Identities=21%  Similarity=0.366  Sum_probs=111.1

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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            3589999999999999999999999999999999999999988 689999999999999999999988864 57899999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |+..+......+++.|+++|+.||++.++|..+|+++++|
T Consensus        79 t~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~lrR  118 (120)
T d1zgza1          79 TGRSDRIDRIVGLEMGADDYVTKPLELRELVVRVKNLLWR  118 (120)
T ss_dssp             ESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EccCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            9999999999999999999999999999999999999875

>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=4.5e-29  Score=157.28  Aligned_cols=119  Identities=23%  Similarity=0.420  Sum_probs=106.3

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcC--CcceEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMG--IKIKIVG  103 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~--~~~~iv~  103 (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            479999999999999999999999999999999999999987 6799999999999999999999999754  5789999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhcC
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN  145 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~~  145 (145)
                      +|+..+......+++.|+++|+.||++.++|..+++++++++
T Consensus        81 lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~l~r~  122 (123)
T d1mb3a_          81 VTAFAMKGDEERIREGGCEAYISKPISVVHFLETIKRLLERQ  122 (123)
T ss_dssp             EC------CHHHHHHHTCSEEECSSCCHHHHHHHHHHHHSCC
T ss_pred             EEEecCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHhCC
Confidence            999988888899999999999999999999999999998764

>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=99.96  E-value=9.8e-29  Score=155.06  Aligned_cols=118  Identities=25%  Similarity=0.312  Sum_probs=108.9

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      ++.+||||||++..++.++..|+..|+ +.++.++.+++.  .. ..||+||+|+.||+++|+++++.+|+..+.+|+|+
T Consensus         1 mM~kILiVDDd~~~~~~l~~~L~~~g~-v~~~~~~~~al~--~~-~~~dlillD~~mP~~~G~~~~~~lr~~~~~~~ii~   76 (120)
T d1p2fa2           1 MMWKIAVVDDDKNILKKVSEKLQQLGR-VKTFLTGEDFLN--DE-EAFHVVVLDVMLPDYSGYEICRMIKETRPETWVIL   76 (120)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHHTTTEE-EEEESSHHHHHH--CC-SCCSEEEEESBCSSSBHHHHHHHHHHHCTTSEEEE
T ss_pred             CCCEEEEEECCHHHHHHHHHHHHhCCE-EEEECCHHHHHh--cC-CCCCEEEEeCcccccchhHHHHHHhhcCCCCcEEE
Confidence            356899999999999999999998885 788999999876  23 56999999999999999999999999889999999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhcC
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN  145 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~~  145 (145)
                      +|+..+......+++.|+++|+.||++.++|..+++++++++
T Consensus        77 it~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~r~  118 (120)
T d1p2fa2          77 LTLLSDDESVLKGFEAGADDYVTKPFNPEILLARVKRFLERE  118 (120)
T ss_dssp             EESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHHC
T ss_pred             EecCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHc
Confidence            999999999999999999999999999999999999998763

>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=1.7e-28  Score=155.72  Aligned_cols=120  Identities=23%  Similarity=0.390  Sum_probs=111.5

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCe-EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcce
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIK  100 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~-v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~  100 (145)
                      .+++|||+||++..+..++..|+..||. +..+.++++|++.+.+ .+||+||+|++||+++|+++++.+|+.  ..++|
T Consensus         5 ~~~kILiVDD~~~~~~~l~~~L~~~g~~~v~~a~~~~~al~~l~~-~~~dlii~D~~mP~~~G~el~~~lr~~~~~~~~p   83 (129)
T d1p6qa_           5 EKIKVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIMAQ-NPHHLVISDFNMPKMDGLGLLQAVRANPATKKAA   83 (129)
T ss_dssp             SCCCEEEECSSHHHHHHHHHHHHTTTCSCEECCSSHHHHHHHHHT-SCCSEEEECSSSCSSCHHHHHHHHTTCTTSTTCE
T ss_pred             CCCEEEEEECCHHHHHHHHHHHHHCCCeEEEEECCHHHHHHHHHh-CCCCeEEeeeecCCCChHHHHHHHHhCcccCCCe
Confidence            3578999999999999999999999995 7788999999999988 689999999999999999999999974  45799


Q ss_pred             EEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          101 IVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       101 iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +|++|+..+......+++.|+++|+.||++.++|..+|++++++
T Consensus        84 ii~lt~~~~~~~~~~a~~~G~~~~l~KP~~~~~L~~~i~~vl~~  127 (129)
T d1p6qa_          84 FIILTAQGDRALVQKAAALGANNVLAKPFTIEKMKAAIEAVFGA  127 (129)
T ss_dssp             EEECCSCCCHHHHHHHHHHTCSCEECCCSSHHHHHHHHHHHHHC
T ss_pred             EEEEEecCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999864

>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=3.1e-28  Score=156.25  Aligned_cols=120  Identities=23%  Similarity=0.321  Sum_probs=111.8

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcC--CeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLG--FKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g--~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (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            5789999999999999999998776  446689999999999987 6799999999999999999999999999999999


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhcC
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN  145 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~~  145 (145)
                      ++|...+......+++.|+++|+.||++.++|..+|+++++++
T Consensus        81 vlt~~~~~~~~~~a~~~Ga~~yl~Kp~~~~~L~~~i~~v~~g~  123 (138)
T d1a04a2          81 VFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGE  123 (138)
T ss_dssp             EEECCCCHHHHHHHHHTTCSEEEETTCCHHHHHHHHHHHHHSC
T ss_pred             EEEEECCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHCCC
Confidence            9999999999999999999999999999999999999998753

>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=1.2e-28  Score=156.29  Aligned_cols=117  Identities=26%  Similarity=0.320  Sum_probs=111.7

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeC
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTS  106 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~  106 (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            79999999999999999999999999999999999999977 68999999999999999999999999989999999999


Q ss_pred             CCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          107 LNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       107 ~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ..+......+++.|+++|+.||++.++|..+++++++.
T Consensus        83 ~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~~  120 (128)
T d1yioa2          83 HGDIPMTVRAMKAGAIEFLPKPFEEQALLDAIEQGLQL  120 (128)
T ss_dssp             CTTSCCCHHHHHTTEEEEEESSCCHHHHHHHHHHHHHH
T ss_pred             ECCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHH
Confidence            99888899999999999999999999999999988763

>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=99.96  E-value=3.8e-28  Score=155.98  Aligned_cols=118  Identities=24%  Similarity=0.291  Sum_probs=110.9

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceEEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKIVG  103 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~iv~  103 (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            479999999999999999999999999999999999999988 679999999999999999999999974  45889999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +|+..+......+++.|+++|+.||++..+|..+|+.++++
T Consensus        81 lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~lr~  121 (139)
T d1w25a1          81 ITALDGRGDRIQGLESGASDFLTKPIDDVMLFARVRSLTRF  121 (139)
T ss_dssp             EECSSCHHHHHHHHHHTCCEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EEcCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999887753

>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=99.96  E-value=1e-27  Score=151.94  Aligned_cols=119  Identities=24%  Similarity=0.490  Sum_probs=109.0

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCe-EEEEcCHHHHHHHHHc----CCCccEEEEecCCCCCCHHHHHHHHHhc-CCcc
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFK-VEVAENGKEAVDLFRS----GAKFDIVFIDKEMPVMNGIEATREIRSM-GIKI   99 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~-v~~~~~~~~al~~~~~----~~~~dlvl~d~~~~~~~~~~~~~~l~~~-~~~~   99 (145)
                      +||||+||++..+..++.+|+..||. |..+.++++|++.+..    ..+||+||+|++||+++|+++++++|+. .+.+
T Consensus         2 irVLvVDD~~~~~~~l~~~L~~~g~~~v~~a~~g~eAl~~l~~~~~~~~~~dlillD~~mP~~dG~el~~~ir~~~~~~~   81 (128)
T d2r25b1           2 VKILVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGENYNMIFMDVQMPKVDGLLSTKMIRRDLGYTS   81 (128)
T ss_dssp             SCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHHHHHHTCCCSEEEECSCCSSSCHHHHHHHHHHHSCCCS
T ss_pred             eEEEEEeCCHHHHHHHHHHHHHcCCeEEEEEcChHHHHHHHHhhhhccCCCCEEEEEeCCCCCCHHHHHHHHHHccCCCC
Confidence            68999999999999999999999996 7799999999988742    3579999999999999999999999863 5578


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |||++|+..+......+++.|+++|+.||++.++|...+++++..
T Consensus        82 piI~lT~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~  126 (128)
T d2r25b1          82 PIVALTAFADDSNIKECLESGMNGFLSKPIKRPKLKTILTEFCAA  126 (128)
T ss_dssp             CEEEEESCCSHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHCTT
T ss_pred             eEEEEECCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999988764

>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=3.6e-28  Score=163.58  Aligned_cols=118  Identities=30%  Similarity=0.406  Sum_probs=110.4

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      +.+||||||++..+..++..|+..||+++ .+.++.+|++.+.. ..||+|++|+.||+++|+++++.+++. +++||++
T Consensus         3 p~kILiVDD~~~~r~~l~~~L~~~g~~vv~~a~~g~eal~~~~~-~~pDlvllDi~mP~~dG~e~~~~ir~~-~~~pIi~   80 (190)
T d1s8na_           3 PRRVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAEL-HKPDLVIMDVKMPRRDGIDAASEIASK-RIAPIVV   80 (190)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHH-HCCSEEEEESSCSSSCHHHHHHHHHHT-TCSCEEE
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHhc-CCCCEEEEeccccCcchHHHHHHHHhc-CCCCEEE
Confidence            57899999999999999999999999976 79999999999988 689999999999999999999999986 4689999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      +|+..+.+....++++||++|+.||+++++|..++..++.+
T Consensus        81 lTa~~~~~~~~~al~~Ga~~yl~KP~~~~~L~~~i~~~~~~  121 (190)
T d1s8na_          81 LTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIELAVSR  121 (190)
T ss_dssp             EEEGGGHHHHHTTGGGSCEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             EeCCCCHHHHHHHHHcCCCEeccCCCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999877653

>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=9.9e-28  Score=151.03  Aligned_cols=118  Identities=16%  Similarity=0.304  Sum_probs=107.6

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcC-Ce-EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCc-ceEE
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLG-FK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIK-IKIV  102 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g-~~-v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~-~~iv  102 (145)
                      ++|||+||++..+..++..|+..| +. |..+.++.+|++.+.+ ..||+||+|+.||+++|+++++.+|+..+. .||+
T Consensus         2 irILivDD~~~~~~~l~~~L~~~~~~~~v~~a~~g~~al~~~~~-~~~dlillD~~mP~~dG~e~~~~ir~~~~~~~~ii   80 (123)
T d1dz3a_           2 IKVCIADDNRELVSLLDEYISSQPDMEVIGTAYNGQDCLQMLEE-KRPDILLLDIIMPHLDGLAVLERIRAGFEHQPNVI   80 (123)
T ss_dssp             EEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHH-HCCSEEEEESCCSSSCHHHHHHHHHHHCSSCCEEE
T ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHh-cCCCEEEEcCCCCCCCHHHHHHHHHhcCCCCCeEE
Confidence            689999999999999999998775 45 4478999999999987 679999999999999999999999986554 5788


Q ss_pred             EEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          103 GVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       103 ~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      ++|+..+......+++.|+++|+.||++.++|..+|++++++
T Consensus        81 ~~t~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~v~~k  122 (123)
T d1dz3a_          81 MLTAFGQEDVTKKAVELGASYFILKPFDMENLAHHIRQVYGK  122 (123)
T ss_dssp             EEEETTCHHHHHHHHHTTCEEEEECSSCCTTHHHHHHHHHHC
T ss_pred             EEECcCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            999999999999999999999999999999999999999876

>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=4e-27  Score=150.28  Aligned_cols=119  Identities=24%  Similarity=0.378  Sum_probs=109.3

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc-----CCcc
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM-----GIKI   99 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~-----~~~~   99 (145)
                      +++|||+||++..+..++.+|+..||++..+.++.+|++.+.  ..||+||+|++||+++|+++++++|+.     .+.+
T Consensus         7 g~rILvVDD~~~~~~~l~~~L~~~G~~v~~a~~g~eal~~l~--~~~dlillD~~mP~~dG~el~~~ir~~~~~~~~~~~   84 (134)
T d1dcfa_           7 GLKVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVS--HEHKVVFMDVCMPGVENYQIALRIHEKFTKQRHQRP   84 (134)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHCC--TTCSEEEEECCSSTTTTTHHHHHHHHHHC-CCSCCC
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHhh--cCCCeEEEEeccCCCchHHHHHHHHHhcccccCCCC
Confidence            578999999999999999999999999999999999999774  469999999999999999999999852     3457


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhcC
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKNN  145 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~~  145 (145)
                      |||++|+..+......+++.|+++|+.||++.++|...+.++++.+
T Consensus        85 ~ii~lT~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~l~~r  130 (134)
T d1dcfa_          85 LLVALSGNTDKSTKEKCMSFGLDGVLLKPVSLDNIRDVLSDLLEPR  130 (134)
T ss_dssp             EEEEEESCCSHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHSCC
T ss_pred             eEEEEeCCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHhhhh
Confidence            8999999999999999999999999999999999999999988753

>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=99.95  E-value=8.7e-27  Score=150.39  Aligned_cols=120  Identities=17%  Similarity=0.262  Sum_probs=108.3

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcC--CeEEEEcCHHHHHHHHHcC------CCccEEEEecCCCCCCHHHHHHHHHhc
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLG--FKVEVAENGKEAVDLFRSG------AKFDIVFIDKEMPVMNGIEATREIRSM   95 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g--~~v~~~~~~~~al~~~~~~------~~~dlvl~d~~~~~~~~~~~~~~l~~~   95 (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            45689999999999999999998766  5788999999999998641      259999999999999999999999974


Q ss_pred             C--CcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318           96 G--IKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus        96 ~--~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (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  47899999999999999999999999999999999999999988764

>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=99.95  E-value=9.3e-27  Score=151.04  Aligned_cols=121  Identities=21%  Similarity=0.279  Sum_probs=109.9

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCC--eEEEEcCHHHHHHHHHcC---------CCccEEEEecCCCCCCHHHHHHHH
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGF--KVEVAENGKEAVDLFRSG---------AKFDIVFIDKEMPVMNGIEATREI   92 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~--~v~~~~~~~~al~~~~~~---------~~~dlvl~d~~~~~~~~~~~~~~l   92 (145)
                      ...+||||||++..+..++.+|+..||  .+..+.++.+|++.+.+.         ..||+||+|++||+++|+++++.+
T Consensus         5 ~~~~ILiVDD~~~~~~~l~~~L~~~g~~~~v~~a~~g~eAl~~l~~~~~~~~~~~~~~pdlillD~~mP~~~G~el~~~i   84 (149)
T d1k66a_           5 ATQPLLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSYCNPDIAPRPAVILLDLNLPGTDGREVLQEI   84 (149)
T ss_dssp             TTSCEEEECCCHHHHHHHHHHHHHTTBCSCEEEECSHHHHHHHHHTCCSSSCGGGCCCCSEEEECSCCSSSCHHHHHHHH
T ss_pred             CCCcEEEEECCHHHHHHHHHHHHHcCCceEEEEECChHHHHHHHHhhccccccccccCCCeEEccccccCCCcHHHHHHH
Confidence            345699999999999999999999987  688999999999998641         259999999999999999999999


Q ss_pred             HhcC--CcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318           93 RSMG--IKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus        93 ~~~~--~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |+..  .++|||++|+..+......+++.|+++|+.||++.++|..+++++++.
T Consensus        85 r~~~~~~~ipiI~lT~~~~~~~~~~~~~~Ga~~~l~KP~~~~~L~~~i~~~l~~  138 (149)
T d1k66a_          85 KQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEIDRLTETVQTFIKY  138 (149)
T ss_dssp             TTSTTGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHH
T ss_pred             HhccccCCCeEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHH
Confidence            9743  488999999999999999999999999999999999999999988763

>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=99.95  E-value=1.7e-26  Score=150.38  Aligned_cols=118  Identities=14%  Similarity=0.204  Sum_probs=105.6

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc--CCcceE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM--GIKIKI  101 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~--~~~~~i  101 (145)
                      ++.+|||+||++..+..+...|+..||.+.  .++.++...... .+||+||+|+.||+++|+++++.+|+.  .+++||
T Consensus        12 ~~~rILiVDD~~~~~~~l~~~L~~~g~~v~--~~~~~~~~~~~~-~~~DlillD~~mP~~dG~el~~~ir~~~~~~~iPi   88 (153)
T d1w25a2          12 LGGRVLIVDDNERQAQRVAAELGVEHRPVI--ESDPEKAKISAG-GPVDLVIVNAAAKNFDGLRFTAALRSEERTRQLPV   88 (153)
T ss_dssp             CSCEEEEECSCHHHHHHHHHHHTTTSEEEE--ECCHHHHHHHHH-SSCSEEEEETTCSSSCHHHHHHHHHTSGGGTTCCE
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHHCCCEEE--EccHHHHHHHhc-CCCCEEEEECccccccchHHHHHHHhcccccccee
Confidence            467899999999999999999999998874  355677777766 679999999999999999999999864  458999


Q ss_pred             EEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318          102 VGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       102 v~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      |++|+..+......+++.|+++|+.||++.++|..+|+..+++
T Consensus        89 I~lt~~~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~l~~  131 (153)
T d1w25a2          89 LAMVDPDDRGRMVKALEIGVNDILSRPIDPQELSARVKTQIQR  131 (153)
T ss_dssp             EEEECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHH
T ss_pred             EEeecCCCHHHHHHHHhcCcceEEECCCCHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999888754

>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=5.2e-26  Score=146.05  Aligned_cols=118  Identities=19%  Similarity=0.264  Sum_probs=107.2

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcC--CeEEEEcCHHHHHHHHHc------CCCccEEEEecCCCCCCHHHHHHHHHhcC-
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLG--FKVEVAENGKEAVDLFRS------GAKFDIVFIDKEMPVMNGIEATREIRSMG-   96 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g--~~v~~~~~~~~al~~~~~------~~~~dlvl~d~~~~~~~~~~~~~~l~~~~-   96 (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            479999999999999999999866  689999999999998853      13599999999999999999999999753 


Q ss_pred             -CcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318           97 -IKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus        97 -~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (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             37899999999999999999999999999999999999999988764

>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=5.2e-27  Score=146.61  Aligned_cols=114  Identities=13%  Similarity=0.144  Sum_probs=99.7

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGV  104 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l  104 (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            57899999999999999999999999999999999999877543469999999999999999999999998889999999


Q ss_pred             eCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318          105 TSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus       105 ~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      |+..+.  ...+...|+ +|+.||++.++|..+|++.
T Consensus        82 t~~~~~--~~~~~~~~~-dyl~KP~~~~eL~~~i~~~  115 (118)
T d2b4aa1          82 TTGRHE--LIESSEHNL-SYLQKPFAISELRAAIDYH  115 (118)
T ss_dssp             ESCC----CCCCSSSCE-EEEESSCCHHHHHHHHHHT
T ss_pred             ECCccH--HHHHhhcCC-CEEECCCCHHHHHHHHHHH
Confidence            986543  234555666 8999999999999999863

>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=99.92  E-value=2.7e-24  Score=137.95  Aligned_cols=105  Identities=22%  Similarity=0.241  Sum_probs=91.2

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcC--CeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLG--FKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIV  102 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g--~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv  102 (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            4789999999999999999999888  446689999999999987 6799999999999999999999999987776676


Q ss_pred             EEeCCC-CHHHHHHHHHhCCceeecCCCC
Q 048318          103 GVTSLN-SEAEREAFMQAGLDLCHTKPLS  130 (145)
Q Consensus       103 ~l~~~~-~~~~~~~~~~~g~~~~l~kP~~  130 (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            666553 3346778999999999999964

>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=99.89  E-value=4.5e-23  Score=138.10  Aligned_cols=114  Identities=18%  Similarity=0.193  Sum_probs=101.9

Q ss_pred             CCceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           24 LRLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        24 ~~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      ++++|||+||++..+..+...|+..||+|..+.++.+++.     ..||+||+|+.||+++|..+. .++...|.+|||+
T Consensus        10 ~~~~iLvvdd~~~~~~~l~~~L~~~G~~v~~~~~~~~al~-----~~~Dlvl~D~~mp~~~~~~~~-~~~~~~p~~pvI~   83 (189)
T d1qo0d_          10 RELQVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAFD-----VPVDVVFTSIFQNRHHDEIAA-LLAAGTPRTTLVA   83 (189)
T ss_dssp             GGCEEEEESCTTHHHHHHHHHHHHHTCEEEEECSCCSSCS-----SCCSEEEEECCSSTHHHHHHH-HHHHSCTTCEEEE
T ss_pred             cCCEEEEEeCCHHHHHHHHHHHHHcCCcceecCCHHHhcc-----CCCCEEEEcCCCCCcHHHHHH-HHHHcCCCCCEEE
Confidence            4679999999999999999999999999999999998872     469999999999987666554 5566678999999


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      +|+..+......+++.|+++|+.||++.++|...++.++.
T Consensus        84 lta~~~~~~~~~al~~Ga~~yL~KP~~~~~L~~~i~~~~~  123 (189)
T d1qo0d_          84 LVEYESPAVLSQIIELECHGVITQPLDAHRVLPVLVSARR  123 (189)
T ss_dssp             EECCCSHHHHHHHHHHTCSEEEESSCCGGGHHHHHHHHHH
T ss_pred             EeccchHHHHHHHHHcCCcEEEEecchhhHHHHHHhhccc
Confidence            9999999999999999999999999999999999987654

>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=98.01  E-value=0.00017  Score=44.35  Aligned_cols=116  Identities=12%  Similarity=0.029  Sum_probs=83.7

Q ss_pred             ceEEEE----eCcHHHHHHHHHHHHHcCCeEE---EEcCHHHHHHHHHcCCCccEEEEecCCCCCC--HHHHHHHHHhcC
Q 048318           26 LFALVV----DDDCFIRTIHSMALKSLGFKVE---VAENGKEAVDLFRSGAKFDIVFIDKEMPVMN--GIEATREIRSMG   96 (145)
Q Consensus        26 ~~iLii----~~~~~~~~~l~~~L~~~g~~v~---~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~--~~~~~~~l~~~~   96 (145)
                      .+|++.    |-|..-...+..+|+..||+|.   .....++.++.+.+ ..||+|.+...+....  ..++++.+++..
T Consensus         4 ~kVvi~~~~gD~H~lG~~mva~~l~~~G~~V~~LG~~~p~e~iv~a~~~-~~~d~v~lS~~~~~~~~~~~~~~~~l~~~~   82 (137)
T d1ccwa_           4 KTIVLGVIGSDCHAVGNKILDHAFTNAGFNVVNIGVLSPQELFIKAAIE-TKADAILVSSLYGQGEIDCKGLRQKCDEAG   82 (137)
T ss_dssp             CEEEEEEETTCCCCHHHHHHHHHHHHTTCEEEEEEEEECHHHHHHHHHH-HTCSEEEEEECSSTHHHHHTTHHHHHHHTT
T ss_pred             CEEEEEecCCChhHHHHHHHHHHHHHCCCeEEecccccCHHHHHHHHHh-cCCCEEEEeeccccchHHHHHHHHHHHHhc
Confidence            355552    5666677888899999999988   34578888888887 5799999998876532  234566777654


Q ss_pred             -CcceEEEEeCCC------CHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318           97 -IKIKIVGVTSLN------SEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus        97 -~~~~iv~l~~~~------~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                       .++|+++ .+..      .........+.|++.++....+++++...+++-++
T Consensus        83 ~~~i~iiv-GG~~~~~~~~~~~~~~~l~~~Gv~~if~~~t~~~~~~~~l~~~l~  135 (137)
T d1ccwa_          83 LEGILLYV-GGNIVVGKQHWPDVEKRFKDMGYDRVYAPGTPPEVGIADLKKDLN  135 (137)
T ss_dssp             CTTCEEEE-EESCSSSSCCHHHHHHHHHHTTCSEECCTTCCHHHHHHHHHHHHT
T ss_pred             cCCCEEEE-eCCcCCCccccHHHHHHHHHcCCCEEECCCCCHHHHHHHHHHHhC
Confidence             4677664 4332      24455666788999998888889999999987664

>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=97.70  E-value=0.00038  Score=44.23  Aligned_cols=107  Identities=19%  Similarity=0.146  Sum_probs=73.8

Q ss_pred             CceEEEE----eCcHHHHHHHHHHHHHcCCeEEE---EcCHHHHHHHHHcCCCccEEEEecCCCCC--CHHHHHHHHHhc
Q 048318           25 RLFALVV----DDDCFIRTIHSMALKSLGFKVEV---AENGKEAVDLFRSGAKFDIVFIDKEMPVM--NGIEATREIRSM   95 (145)
Q Consensus        25 ~~~iLii----~~~~~~~~~l~~~L~~~g~~v~~---~~~~~~al~~~~~~~~~dlvl~d~~~~~~--~~~~~~~~l~~~   95 (145)
                      +.+|++.    |-|..-...+...|+..||+|..   ..+.++..+...+ ..+|+|.+...+...  .--++++.+++.
T Consensus        37 ~pkVlla~~g~D~Hd~G~~~va~~l~~~G~eVi~lg~~~~~e~iv~aa~~-~~advI~iSs~~~~~~~~~~~l~~~L~~~  115 (168)
T d7reqa2          37 RPRILLAKMGQDGHDRGQKVIATAYADLGFDVDVGPLFQTPEETARQAVE-ADVHVVGVSSLAGGHLTLVPALRKELDKL  115 (168)
T ss_dssp             CCEEEEECBTTCCCCHHHHHHHHHHHHTTCEEEECCTTBCHHHHHHHHHH-HTCSEEEEEECSSCHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEeCCccHHHHHHHHHHHHHHhCCcceecCCCcCcHHHHHHHHHc-cCCCEEEEecCcccchHHHHHHHHHHHhc
Confidence            4567776    55677778889999999999985   3488888888877 579999998655431  234566777776


Q ss_pred             C-CcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHH
Q 048318           96 G-IKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDK  133 (145)
Q Consensus        96 ~-~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~  133 (145)
                      . .+++| ++...-.......+.+.|+++++..-.+..+
T Consensus       116 g~~~v~V-ivGG~ip~~d~~~l~~~Gv~~iF~pgt~~~e  153 (168)
T d7reqa2         116 GRPDILI-TVGGVIPEQDFDELRKDGAVEIYTPGTVIPE  153 (168)
T ss_dssp             TCTTSEE-EEEESCCGGGHHHHHHHTEEEEECTTCCHHH
T ss_pred             CCCCeEE-EEeCCCCHHHHHHHHhCCCCEEECcCCCHHH
Confidence            4 45555 4565444455567789999997654344434

>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=96.78  E-value=0.0045  Score=38.78  Aligned_cols=109  Identities=7%  Similarity=0.030  Sum_probs=75.3

Q ss_pred             eCcHHHHHHHHHHHHHcC---------CeEEE---EcCHHHHHHHHHcCCCccEEEEecCCCCCCH-----HHHHHHHHh
Q 048318           32 DDDCFIRTIHSMALKSLG---------FKVEV---AENGKEAVDLFRSGAKFDIVFIDKEMPVMNG-----IEATREIRS   94 (145)
Q Consensus        32 ~~~~~~~~~l~~~L~~~g---------~~v~~---~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~-----~~~~~~l~~   94 (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            455555677777888888         78773   4488888888887 67999999988765322     356677777


Q ss_pred             cCCc-ceEEEEeCCC-CHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHhc
Q 048318           95 MGIK-IKIVGVTSLN-SEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus        95 ~~~~-~~iv~l~~~~-~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  144 (145)
                      .... .+.|++.... +..   .+.+.|+|.|+..-.+..++...+...++.
T Consensus       109 ~g~~d~v~vivGG~~~~~~---~a~~~GaD~~f~~g~~a~~~a~~l~~~l~~  157 (160)
T d1xrsb1         109 EGLRDRFVLLCGGPRINNE---IAKELGYDAGFGPGRFADDVATFAVKTLND  157 (160)
T ss_dssp             TTCGGGSEEEEECTTCCHH---HHHTTTCSEEECTTCCHHHHHHHHHHHHHH
T ss_pred             cCCCCceEEEEcCCCCCHH---HHHHcCCCEEcCCCCCHHHHHHHHHHHHHH
Confidence            6553 2333455543 333   356789999987767788888888766643

>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=96.73  E-value=0.0021  Score=40.50  Aligned_cols=115  Identities=13%  Similarity=0.087  Sum_probs=74.3

Q ss_pred             ceEEEE--eC---cHHHHHHHHHHHHHcCCeEEE--EcCHHHHHHHHHcCCCccEEEEecCCCCC--CHHHHHHHHHhcC
Q 048318           26 LFALVV--DD---DCFIRTIHSMALKSLGFKVEV--AENGKEAVDLFRSGAKFDIVFIDKEMPVM--NGIEATREIRSMG   96 (145)
Q Consensus        26 ~~iLii--~~---~~~~~~~l~~~L~~~g~~v~~--~~~~~~al~~~~~~~~~dlvl~d~~~~~~--~~~~~~~~l~~~~   96 (145)
                      .+|+++  ++   +........++|...||++..  .-+.+++.+.... ...|++.+.-....-  -.-++++.+++..
T Consensus        36 P~v~la~lG~~a~h~ara~f~~n~f~~gGfev~~~~~~~~~e~v~aa~~-~~a~vvvicssd~~y~~~~~~~~~aLk~ag  114 (163)
T d7reqb2          36 PKVFLACLGTRRDFGGREGFSSPVWHIAGIDTPQVEGGTTAEIVEAFKK-SGAQVADLCSSAKVYAQQGLEVAKALKAAG  114 (163)
T ss_dssp             CBCEEEECSCHHHHHHHHHHHHHHHHHTTCBCCEEESCCHHHHHHHHHH-HTCSEEEEECCHHHHHHHHHHHHHHHHHTT
T ss_pred             CeEEEEcCCChhhhhhHHHHHHHHHHccCeeeccCCCCCcHHHHHHHHh-CCCCEEEEecCccchHHHHHHHHHHHHhcc
Confidence            345554  33   344557788889999998763  2366677666665 468877765443221  2346888888877


Q ss_pred             CcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318           97 IKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus        97 ~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      ....+ ++...........+.+.|+|+|+.--.+.-+.+..+.+.+
T Consensus       115 ~~~~v-laGg~~~~~d~~~l~~aGVd~~i~~G~d~~~~l~~l~~~l  159 (163)
T d7reqb2         115 AKALY-LSGAFKEFGDDAAEAEKLIDGRLFMGMDVVDTLSSTLDIL  159 (163)
T ss_dssp             CSEEE-EESCGGGGGGGHHHHHHHCCEEECTTCCHHHHHHHHHHHT
T ss_pred             cceeE-EEecCCCcccHHHHHhCCCCeEecCCCcHHHHHHHHHHHh
Confidence            66543 3444444445566788999999987787777777666543

>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=96.49  E-value=0.053  Score=36.22  Aligned_cols=98  Identities=12%  Similarity=0.047  Sum_probs=65.6

Q ss_pred             HHHHHHHcCCe--EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc-CCcceEEEEeCCCCHHHHHHHH
Q 048318           41 HSMALKSLGFK--VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM-GIKIKIVGVTSLNSEAEREAFM  117 (145)
Q Consensus        41 l~~~L~~~g~~--v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~-~~~~~iv~l~~~~~~~~~~~~~  117 (145)
                      ++..|++....  ++.........+.+.. ..||.|++|.+....+--++...++.. ...++.++=....+...+..++
T Consensus         7 lk~~l~~g~~~~G~~~~~~~p~~~ei~a~-~G~Dfv~iD~EHg~~~~~~~~~~i~a~~~~g~~~~VRvp~~~~~~i~~~L   85 (253)
T d1dxea_           7 FKAALAAKQVQIGCWSALSNPISTEVLGL-AGFDWLVLDGEHAPNDISTFIPQLMALKGSASAPVVRVPTNEPVIIKRLL   85 (253)
T ss_dssp             HHHHHHTTCCEEEEEECSCSHHHHHHHTT-SCCSEEEEESSSSSCCHHHHHHHHHHTTTCSSEEEEECSSSCHHHHHHHH
T ss_pred             HHHHHHCCCCEEEEEecCCCHHHHHHHHc-CCCCEEEEecccCCCChhHHHHHHHHHhccCCCceecCCCCCHHHHHHHH
Confidence            45566543322  3333445555666665 579999999999888877777777753 2234444445567889999999


Q ss_pred             HhCCceeecCCCC-HHHHHHHHH
Q 048318          118 QAGLDLCHTKPLS-VDKILPLME  139 (145)
Q Consensus       118 ~~g~~~~l~kP~~-~~~L~~~i~  139 (145)
                      +.|+++++.--++ .++....++
T Consensus        86 D~Ga~GIivP~v~s~eea~~~v~  108 (253)
T d1dxea_          86 DIGFYNFLIPFVETKEEAELAVA  108 (253)
T ss_dssp             HTTCCEEEESCCCSHHHHHHHHH
T ss_pred             hcCccEEEecccCCHHHHHHHHH
Confidence            9999999876554 555555554

>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=96.40  E-value=0.038  Score=34.19  Aligned_cols=106  Identities=10%  Similarity=0.168  Sum_probs=69.7

Q ss_pred             eCcHHHHHHHHHHHHHcCCeEEE---EcCHHHHHHHHHcCCCccEEEEecCCCC-CC-HHHHHHHHHhcCCcceEEEEeC
Q 048318           32 DDDCFIRTIHSMALKSLGFKVEV---AENGKEAVDLFRSGAKFDIVFIDKEMPV-MN-GIEATREIRSMGIKIKIVGVTS  106 (145)
Q Consensus        32 ~~~~~~~~~l~~~L~~~g~~v~~---~~~~~~al~~~~~~~~~dlvl~d~~~~~-~~-~~~~~~~l~~~~~~~~iv~l~~  106 (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            55666667888889999999885   3478888888887 67999999988764 22 3467778888777888876555


Q ss_pred             CCCHHHHHHHH---HhCCceeecCCCCHHHHHHHHHHH
Q 048318          107 LNSEAEREAFM---QAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus       107 ~~~~~~~~~~~---~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      .-+......-.   -.|++.|-   -+..+......++
T Consensus        96 ~~~~~~~~~~~~~~y~gad~ya---~DA~~av~~a~~L  130 (156)
T d3bula2          96 TTSKAHTAVKIEQNYSGPTVYV---QNASRTVGVVAAL  130 (156)
T ss_dssp             TCCHHHHHHHTGGGCSSCEEEC---CSHHHHHHHHHHH
T ss_pred             cccchHHHhhhccccccceeec---cCHHHHHHHHHHH
Confidence            55554433211   13666553   2344444444443

>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=95.55  E-value=0.03  Score=35.19  Aligned_cols=96  Identities=14%  Similarity=0.138  Sum_probs=66.5

Q ss_pred             ceEEEEeCcHHHHHHHHHHHH---HcC--Ce-EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcc
Q 048318           26 LFALVVDDDCFIRTIHSMALK---SLG--FK-VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKI   99 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~---~~g--~~-v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~   99 (145)
                      -.+||-|+|-.....+...++   ...  .. .+.+.+.+++.+.+..  .+|+|++| +++..+--+.++.++...+.+
T Consensus        51 d~ilikdNHi~~~g~i~~~i~~~k~~~~~~~I~VEv~s~~q~~~a~~~--~~diImLD-N~sp~~~k~~v~~~~~~~~~i  127 (169)
T d1qpoa1          51 DAALIKDNHVAAAGSVVDALRAVRNAAPDLPCEVEVDSLEQLDAVLPE--KPELILLD-NFAVWQTQTAVQRRDSRAPTV  127 (169)
T ss_dssp             SSEEECHHHHHHHSSHHHHHHHHHHHCTTSCEEEEESSHHHHHHHGGG--CCSEEEEE-TCCHHHHHHHHHHHHHHCTTC
T ss_pred             ceEEeehhHHhHhcchhhhhhhhhhhcCCCceEEEeccHHHhhhhhhc--CCcEEEec-CcChHhHHHHHHHhhccCCee
Confidence            357888888776665555554   222  23 4488999999998876  48999999 444334445666666666554


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCceee
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                       ++-.++.-+.+.+.+....|+|-+-
T Consensus       128 -~lEaSGgI~~~ni~~ya~~GvD~IS  152 (169)
T d1qpoa1         128 -MLESSGGLSLQTAATYAETGVDYLA  152 (169)
T ss_dssp             -EEEEESSCCTTTHHHHHHTTCSEEE
T ss_pred             -EEEEeCCCCHHHHHHHHHcCCCEEE
Confidence             4456777788888999999998773

>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=95.49  E-value=0.2  Score=34.09  Aligned_cols=103  Identities=17%  Similarity=0.206  Sum_probs=66.0

Q ss_pred             HHHHHHHHHHHcCCe---EEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHH---hcC--CcceEEEEeCCC
Q 048318           37 IRTIHSMALKSLGFK---VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIR---SMG--IKIKIVGVTSLN  108 (145)
Q Consensus        37 ~~~~l~~~L~~~g~~---v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~---~~~--~~~~iv~l~~~~  108 (145)
                      .+..|++.+...+-.   +++.-......+.+.. ..||.|++|++....+-.++...++   ...  ...|+|= ....
T Consensus        27 ~r~~l~~~~~~~~~~~~G~~~~~~s~~~~e~~a~-~g~D~v~iD~EHg~~~~~~~~~~i~a~~~~~~~~~~~iVR-vp~~  104 (299)
T d1izca_          27 LRQALKDAMADPSKTLMGVAHGIPSTFVTKVLAA-TKPDFVWIDVEHGMFNRLELHDAIHAAQHHSEGRSLVIVR-VPKH  104 (299)
T ss_dssp             HHHHHHHHHHCGGGCEEEEEECSCCHHHHHHHHH-TCCSEEEEETTTSCCCHHHHHHHHHHHHHHTTTCSEEEEE-CCTT
T ss_pred             HHHHHHHHhhccCCceeeeeccCCCHHHHHHHHc-CCCCEEEEcCCCCCCCHHHHHHHHHHHHHhCCCCCCeEEe-CCCC
Confidence            677788777653322   3333344445566665 5799999999987777555544443   222  2334544 4556


Q ss_pred             CHHHHHHHHHhCCceeecCCCC-HHHHHHHHHHH
Q 048318          109 SEAEREAFMQAGLDLCHTKPLS-VDKILPLMEDL  141 (145)
Q Consensus       109 ~~~~~~~~~~~g~~~~l~kP~~-~~~L~~~i~~~  141 (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            7888999999999999875444 56666666543

>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=95.33  E-value=0.099  Score=31.65  Aligned_cols=98  Identities=8%  Similarity=-0.078  Sum_probs=60.2

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEc-CHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAE-NGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~-~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      +..+.+++.++.........+...|+.+.... +-.+.++...- ...+.+++-..- +......+..+++..+..++++
T Consensus        26 ~~~v~vId~d~~~~~~~~~~~~~~~~~vi~Gd~~d~~~L~~a~i-~~a~~vi~~~~~-d~~n~~~~~~~r~~~~~~~iia  103 (153)
T d1id1a_          26 GQNVTVISNLPEDDIKQLEQRLGDNADVIPGDSNDSSVLKKAGI-DRCRAILALSDN-DADNAFVVLSAKDMSSDVKTVL  103 (153)
T ss_dssp             TCCEEEEECCCHHHHHHHHHHHCTTCEEEESCTTSHHHHHHHTT-TTCSEEEECSSC-HHHHHHHHHHHHHHTSSSCEEE
T ss_pred             CCCEEEEeccchhHHHHHHHhhcCCcEEEEccCcchHHHHHhcc-ccCCEEEEcccc-HHHHHHHHHHHHHhCCCCceEE
Confidence            44577888887655544445555677777654 33445555544 357888875432 2223444556677778888887


Q ss_pred             EeCCCCHHHHHHHHHhCCceeec
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      .+..  ......+.+.|++.++.
T Consensus       104 ~~~~--~~~~~~l~~~Gad~vi~  124 (153)
T d1id1a_         104 AVSD--SKNLNKIKMVHPDIILS  124 (153)
T ss_dssp             ECSS--GGGHHHHHTTCCSEEEC
T ss_pred             EEcC--HHHHHHHHHCCCCEEEC
Confidence            6654  44455567889987753

>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=94.85  E-value=0.19  Score=30.13  Aligned_cols=115  Identities=13%  Similarity=0.144  Sum_probs=77.7

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcC-CCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSG-AKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~-~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      ...|-+.-.++.....++..|...-|.+..+.+.++.++.+... ...|++++--.  +.+-..+...+.+.+--.|.|+
T Consensus         4 ~LtI~l~l~s~~L~q~~~q~L~~dRY~l~~~~s~~ef~~~le~~~e~iDcLVl~~~--~~~l~~l~~qL~~~GlLlPaVi   81 (135)
T d1r8ja2           4 QIAICIWVESTAILQDCQRALSADRYQLQVCESGEMLLEYAQTHRDQIDCLILVAA--NPSFRAVVQQLCFEGVVVPAIV   81 (135)
T ss_dssp             CEEEEEECCCHHHHHHHHHHTCSTTEEEEEECSHHHHHHHHHHSTTSCSEEEEETT--STTHHHHHHHHHHTTCCCCEEE
T ss_pred             eEEEEEEeCCHHHHHHHHHhcCCCceEEEEcCCHHHHHHHHHhCcccCCEEEEEec--CCccHHHHHHHHhcCccccEEE
Confidence            34677778889999999999987779999999999999998753 45999876322  2344566788888877789988


Q ss_pred             EeCCCCHHHHHHHHHhCCceee-----cCCCCHHHHHHHHHHHHhc
Q 048318          104 VTSLNSEAEREAFMQAGLDLCH-----TKPLSVDKILPLMEDLMKN  144 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l-----~kP~~~~~L~~~i~~~~~~  144 (145)
                      +.+........   ..|-..|.     .++-..++|-..|.+++.+
T Consensus        82 v~~~~~~~~~~---~~~~~~YH~aEv~l~~~qL~ql~~~ID~AIsr  124 (135)
T d1r8ja2          82 VGDRDSEDPDE---PAKEQLYHSAELHLGIHQLEQLPYQVDAALAE  124 (135)
T ss_dssp             ESCCC---------CCSSCSSBTTCEEECTTCGGGHHHHHHHHHHH
T ss_pred             EecCCCCCCCC---CCCceeeeeeeEEcCHHHHHHHHHHHHHHHHH
Confidence            86554332211   12322332     3344457888888777653

>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=94.06  E-value=0.035  Score=34.90  Aligned_cols=94  Identities=16%  Similarity=0.213  Sum_probs=64.2

Q ss_pred             eEEEEeCcHHHHHHHHHHHHH----cCC---eEEEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcc
Q 048318           27 FALVVDDDCFIRTIHSMALKS----LGF---KVEVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKI   99 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~----~g~---~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~   99 (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            577877777766555555543    222   34488999999998875  58999999 444334445566777766665


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCcee
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLC  124 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~  124 (145)
                      .+ -.++.-+.+.+.+....|+|-+
T Consensus       127 ~l-EaSGGI~~~ni~~~a~~GVD~I  150 (170)
T d1o4ua1         127 IV-EVSGGITEENVSLYDFETVDVI  150 (170)
T ss_dssp             EE-EEEECCCTTTGGGGCCTTCCEE
T ss_pred             EE-EEECCCCHHHHHHHHHcCCCEE
Confidence            44 4677777777778888898864

>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=93.49  E-value=0.56  Score=30.80  Aligned_cols=98  Identities=16%  Similarity=0.029  Sum_probs=63.9

Q ss_pred             HHHHHHHcCCeEE-EEc-CHHHHHHHHHcCCCccEEEEecCCCCC-----CHHHHHHHHHhcCCcceEEEEeCCCCHHHH
Q 048318           41 HSMALKSLGFKVE-VAE-NGKEAVDLFRSGAKFDIVFIDKEMPVM-----NGIEATREIRSMGIKIKIVGVTSLNSEAER  113 (145)
Q Consensus        41 l~~~L~~~g~~v~-~~~-~~~~al~~~~~~~~~dlvl~d~~~~~~-----~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~  113 (145)
                      ..+.|-+.||.|. .++ |..-|.++-.-  .... ++-|.-|=+     .....++.|++. .++|+|+=++-...++.
T Consensus       117 Aae~Lv~eGF~VlpY~~~D~v~ak~Le~~--Gc~a-vMPlgsPIGSg~Gl~n~~~l~~i~~~-~~vPvIvDAGIG~pSdA  192 (251)
T d1xm3a_         117 ASEQLLEEGFIVLPYTSDDVVLARKLEEL--GVHA-IMPGASPIGSGQGILNPLNLSFIIEQ-AKVPVIVDAGIGSPKDA  192 (251)
T ss_dssp             HHHHHHHTTCCEEEEECSCHHHHHHHHHH--TCSC-BEECSSSTTCCCCCSCHHHHHHHHHH-CSSCBEEESCCCSHHHH
T ss_pred             HHHHHHhCCcEEEEecCCCHHHHHHHHHc--CChh-HHHhhhhhhcCCCcCChHHHHHHHhc-CCccEEEecCCCCHHHH
Confidence            3344557899988 333 44444444433  3333 334444422     335677888876 58999988888999999


Q ss_pred             HHHHHhCCceeec-----CCCCHHHHHHHHHHHH
Q 048318          114 EAFMQAGLDLCHT-----KPLSVDKILPLMEDLM  142 (145)
Q Consensus       114 ~~~~~~g~~~~l~-----kP~~~~~L~~~i~~~~  142 (145)
                      ..+++.|+|+++.     +--++-.+.+.++...
T Consensus       193 a~AMElG~daVLvNTAIA~a~dPv~MA~A~~~Av  226 (251)
T d1xm3a_         193 AYAMELGADGVLLNTAVSGADDPVKMARAMKLAV  226 (251)
T ss_dssp             HHHHHTTCSEEEESHHHHTSSSHHHHHHHHHHHH
T ss_pred             HHHHHccCCEEEechhhhcCCCHHHHHHHHHHHH
Confidence            9999999999975     3455666666655443

>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=93.18  E-value=0.36  Score=28.11  Aligned_cols=91  Identities=15%  Similarity=0.123  Sum_probs=58.5

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCeEEEEc-CHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEe
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFKVEVAE-NGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVT  105 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~v~~~~-~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~  105 (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            367788888776544    45688877554 34556666544 357777775421 233445566777888888888766


Q ss_pred             CCCCHHHHHHHHHhCCceee
Q 048318          106 SLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus       106 ~~~~~~~~~~~~~~g~~~~l  125 (145)
                      ..  ........+.|++..+
T Consensus        97 ~~--~~~~~~l~~~G~d~vi  114 (129)
T d2fy8a1          97 ER--YENIEQLRMAGADQVI  114 (129)
T ss_dssp             SS--GGGHHHHHHHHCSEEE
T ss_pred             cC--HHHHHHHHHCCCCEEE
Confidence            54  4445567788999875

>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=92.93  E-value=0.64  Score=29.50  Aligned_cols=88  Identities=17%  Similarity=0.202  Sum_probs=64.2

Q ss_pred             EEEEcCHHHHHHHHHcCCCccEEEEecCCCCC-------CHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCcee
Q 048318           52 VEVAENGKEAVDLFRSGAKFDIVFIDKEMPVM-------NGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLC  124 (145)
Q Consensus        52 v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~-------~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~  124 (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            3477788887776654  58999999755431       3788888887654 6899988875 4445778899999998


Q ss_pred             -----ecCCCCHHHHHHHHHHHHh
Q 048318          125 -----HTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       125 -----l~kP~~~~~L~~~i~~~~~  143 (145)
                           +...-++.+....++++++
T Consensus       179 Avis~I~~~~dp~~~~~~l~~~~~  202 (206)
T d1xi3a_         179 AVISAVMGAEDVRKATEELRKIVE  202 (206)
T ss_dssp             EESHHHHTSSSHHHHHHHHHHHHH
T ss_pred             EEhHHHHCCCCHHHHHHHHHHHHH
Confidence                 6666677777777777664

>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=92.08  E-value=0.76  Score=28.39  Aligned_cols=92  Identities=17%  Similarity=0.244  Sum_probs=62.7

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHH---c--CCeE-EEEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcc
Q 048318           26 LFALVVDDDCFIRTIHSMALKS---L--GFKV-EVAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKI   99 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~---~--g~~v-~~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~   99 (145)
                      -.|||-|+|-.....+...++.   .  ...+ +.+.+.+++.+.+..  .+|+|++|=    ++--++.+.++...+.+
T Consensus        51 d~iLIkdNHi~~~~~~~~~~~~~~~~~~~~~IeVEv~~~~~~~~a~~~--g~diImLDN----~~pe~~~~av~~i~~~~  124 (167)
T d1qapa1          51 DAFLIKENHIIASGSVRQAVEKAFWLHPDVPVEVEVENLDELDDALKA--GADIIMLDN----FNTDQMREAVKRVNGQA  124 (167)
T ss_dssp             SCEEECHHHHHHHSSHHHHHHHHHHHSTTSCEEEEESSHHHHHHHHHT--TCSEEEESS----CCHHHHHHHHHTTCTTC
T ss_pred             ceeEechhhHhhhhhhhhhhHHHhhcCCCceEEEecCcHHHHHHHHhc--CCcEEEecC----CCHHHHHHHHHhcCCce
Confidence            3578877776555444444432   1  3444 489999999988865  589999982    34445555555555555


Q ss_pred             eEEEEeCCCCHHHHHHHHHhCCcee
Q 048318          100 KIVGVTSLNSEAEREAFMQAGLDLC  124 (145)
Q Consensus       100 ~iv~l~~~~~~~~~~~~~~~g~~~~  124 (145)
                      .+ -.++.-+.+.+.+....|+|-+
T Consensus       125 ~l-EaSGgI~~~ni~~ya~~GVD~I  148 (167)
T d1qapa1         125 RL-EVSGNVTAETLREFAETGVDFI  148 (167)
T ss_dssp             CE-EECCCSCHHHHHHHHHTTCSEE
T ss_pred             EE-EEeCCCCHHHHHHHHHcCCCEE
Confidence            44 4678889999999999999865

>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=91.93  E-value=0.45  Score=30.39  Aligned_cols=43  Identities=14%  Similarity=0.225  Sum_probs=20.8

Q ss_pred             CCCHHHHHHHHHhc-CCcceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           82 VMNGIEATREIRSM-GIKIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        82 ~~~~~~~~~~l~~~-~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      ..+.++.++.++.. .+++ +|=...-.+.+....+.++|++.++
T Consensus        44 ~p~a~~~i~~l~~~~~~~~-~vGaGTV~~~~~~~~a~~aGa~fiv   87 (202)
T d1wa3a1          44 VPDADTVIKELSFLKEKGA-IIGAGTVTSVEQCRKAVESGAEFIV   87 (202)
T ss_dssp             STTHHHHHHHTHHHHHTTC-EEEEESCCSHHHHHHHHHHTCSEEE
T ss_pred             CccHHHHHHHHHHhcCCCc-EEEecccccHHHHHHHHhhcccEEe
Confidence            34455555555432 2232 2223344455556666666665554

>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=91.61  E-value=0.79  Score=29.46  Aligned_cols=89  Identities=16%  Similarity=0.179  Sum_probs=49.4

Q ss_pred             HHHHHcCCe-EEEEcCHHHHHHHH---HcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHH
Q 048318           43 MALKSLGFK-VEVAENGKEAVDLF---RSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQ  118 (145)
Q Consensus        43 ~~L~~~g~~-v~~~~~~~~al~~~---~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~  118 (145)
                      +.|++.+.- +....+.+++....   .+ ....  .+++.+-....++.++.+++.++++ +|=.+.-.+.+....+.+
T Consensus         9 ~~l~~~~iipvlr~~~~~~~~~~~~al~~-~Gi~--~iEitl~~~~a~~~I~~l~~~~p~~-~vGaGTV~~~~~~~~a~~   84 (212)
T d1vhca_           9 EKLRELKIVPVIALDNADDILPLADTLAK-NGLS--VAEITFRSEAAADAIRLLRANRPDF-LIAAGTVLTAEQVVLAKS   84 (212)
T ss_dssp             HHHHHHCEEEEECCSSGGGHHHHHHHHHH-TTCC--EEEEETTSTTHHHHHHHHHHHCTTC-EEEEESCCSHHHHHHHHH
T ss_pred             HHHHHCCEEEEEeCCCHHHHHHHHHHHHH-CCCC--EEEEeCCChhHHHHHHHHHhcCCCc-eEeeeecccHHHHHHHHh
Confidence            334444432 33455555554433   23 2233  3444444556778888887766663 334555567778888888


Q ss_pred             hCCceeecCCCCHHHHHH
Q 048318          119 AGLDLCHTKPLSVDKILP  136 (145)
Q Consensus       119 ~g~~~~l~kP~~~~~L~~  136 (145)
                      +|++.++. |...+++..
T Consensus        85 aGa~FivS-P~~~~~v~~  101 (212)
T d1vhca_          85 SGADFVVT-PGLNPKIVK  101 (212)
T ss_dssp             HTCSEEEC-SSCCHHHHH
T ss_pred             hCCcEEEC-CCCCHHHHH
Confidence            88876654 443334433

>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=91.55  E-value=0.73  Score=29.72  Aligned_cols=95  Identities=14%  Similarity=0.161  Sum_probs=54.9

Q ss_pred             HHHHHHHHHHcCCe-EEEEcCHHHHHHHHH---cCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHH
Q 048318           38 RTIHSMALKSLGFK-VEVAENGKEAVDLFR---SGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAER  113 (145)
Q Consensus        38 ~~~l~~~L~~~g~~-v~~~~~~~~al~~~~---~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~  113 (145)
                      ...+...|+....- +....+.++++...+   + ..+.+  +++.+...+.++.++.+++.+|++ .|=.+.-.+.+..
T Consensus         7 ~~~i~~~l~~~~iipvl~~~~~~~a~~~~~al~~-~Gi~~--iEitl~~p~a~~~i~~l~~~~p~~-~vGaGTV~~~~~~   82 (216)
T d1mxsa_           7 AARIDAICEKARILPVITIAREEDILPLADALAA-GGIRT--LEVTLRSQHGLKAIQVLREQRPEL-CVGAGTVLDRSMF   82 (216)
T ss_dssp             HHHHHHHHHHHSEEEEECCSCGGGHHHHHHHHHH-TTCCE--EEEESSSTHHHHHHHHHHHHCTTS-EEEEECCCSHHHH
T ss_pred             HHHHHHHHHhCCEEEEEECCCHHHHHHHHHHHHH-CCCCE--EEEeCCChhHHHHHHHHHHhCCCc-ceeeeeeecHHHH
Confidence            44455555554433 445555665555432   3 23443  344444456778888888777764 3345556678888


Q ss_pred             HHHHHhCCceeecCCCCHHHHHHH
Q 048318          114 EAFMQAGLDLCHTKPLSVDKILPL  137 (145)
Q Consensus       114 ~~~~~~g~~~~l~kP~~~~~L~~~  137 (145)
                      ..+.++|++.++ -|....++...
T Consensus        83 ~~a~~aGa~Fiv-sP~~~~~v~~~  105 (216)
T d1mxsa_          83 AAVEAAGAQFVV-TPGITEDILEA  105 (216)
T ss_dssp             HHHHHHTCSSEE-CSSCCHHHHHH
T ss_pred             HHHHhCCCCEEE-CCCCcHHHHHH
Confidence            888888885554 45555555443

>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=91.37  E-value=0.47  Score=29.79  Aligned_cols=51  Identities=10%  Similarity=0.130  Sum_probs=37.6

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCeEEEEc---CHHHHHHHHHcCCCccEEEEec
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFKVEVAE---NGKEAVDLFRSGAKFDIVFIDK   78 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~v~~~~---~~~~al~~~~~~~~~dlvl~d~   78 (145)
                      +||+||....+...+..+|+..|+.+....   ..+...+.+.. ..+|.|++.-
T Consensus         2 niliiD~~DSFt~ni~~~l~~lG~~~~v~~~~~~~~~~~~~l~~-~~~~~iils~   55 (192)
T d1i7qb_           2 DILLLDNVDSFTYNLVDQLRASGHQVVIYRNQIGAEVIIERLQH-MEQPVLMLSP   55 (192)
T ss_dssp             EEEEEECSCSSHHHHHHHHHHTTCEEEEEETTSCHHHHHHHHHH-CSSEEEEECC
T ss_pred             cEEEEECCCcHHHHHHHHHHHCCCeEEEEeCCCcccccHHHHHh-cCCCeEEecC
Confidence            689999877677778888999999987664   34444555655 5689998853

>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=91.21  E-value=0.48  Score=33.34  Aligned_cols=66  Identities=18%  Similarity=0.245  Sum_probs=49.7

Q ss_pred             HHHHHHHHcCCCccEEEEecCCCCC-CHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           59 KEAVDLFRSGAKFDIVFIDKEMPVM-NGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        59 ~~al~~~~~~~~~dlvl~d~~~~~~-~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      .+-...+.+ ...|++++|...... .-.++++.++...+++||| ..+-.+.+....++++|||.+.+
T Consensus       153 ~~ra~~L~~-aG~D~ivID~AhG~s~~~~~~i~~ik~~~~~v~vI-aGNV~T~e~a~~L~~~GaD~VkV  219 (388)
T d1eepa_         153 IERVEELVK-AHVDILVIDSAHGHSTRIIELIKKIKTKYPNLDLI-AGNIVTKEAALDLISVGADCLKV  219 (388)
T ss_dssp             HHHHHHHHH-TTCSEEEECCSCCSSHHHHHHHHHHHHHCTTCEEE-EEEECSHHHHHHHHTTTCSEEEE
T ss_pred             HHHHHHHHh-hccceeeeeccccchHHHHHHHHHHHHHCCCCcee-eccccCHHHHHHHHhcCCCeeee
Confidence            333344444 468999999866443 3568888998888888875 67778899999999999998853

>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=90.94  E-value=1.2  Score=28.61  Aligned_cols=88  Identities=19%  Similarity=0.249  Sum_probs=61.5

Q ss_pred             EEEcCHHHHHHHHHcCCCccEEEEecCCCC--------CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCcee
Q 048318           53 EVAENGKEAVDLFRSGAKFDIVFIDKEMPV--------MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLC  124 (145)
Q Consensus        53 ~~~~~~~~al~~~~~~~~~dlvl~d~~~~~--------~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~  124 (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            367788888776654  4899999864332        2467888888766668899988776 4445778889999887


Q ss_pred             -----ecCCCCHHHHHHHHHHHHh
Q 048318          125 -----HTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       125 -----l~kP~~~~~L~~~i~~~~~  143 (145)
                           +.+--++.+....+.+.++
T Consensus       197 Avis~I~~a~dp~~~~~~~~~~~~  220 (226)
T d2tpsa_         197 SMISAISQAEDPESAARKFREEIQ  220 (226)
T ss_dssp             EESHHHHTSSCHHHHHHHHHHHHH
T ss_pred             EEhHHhhcCCCHHHHHHHHHHHHH
Confidence                 3444567666666665554

>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=90.75  E-value=0.8  Score=29.45  Aligned_cols=41  Identities=20%  Similarity=0.247  Sum_probs=19.6

Q ss_pred             CHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceee
Q 048318           84 NGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus        84 ~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      ..++.++.+++.++++ +|=.+.-.+.+....+.++|++..+
T Consensus        52 ~a~~~I~~l~~~~p~~-~vGaGTV~~~~~~~~a~~aGa~Fiv   92 (213)
T d1wbha1          52 CAVDAIRAIAKEVPEA-IVGAGTVLNPQQLAEVTEAGAQFAI   92 (213)
T ss_dssp             THHHHHHHHHHHCTTS-EEEEESCCSHHHHHHHHHHTCSCEE
T ss_pred             hHHHHHHHHHHHCCCC-eeeccccccHHHHHHHHHCCCcEEE
Confidence            3455555555544443 2233334455555555555554443

>d1susa1 c.66.1.1 (A:21-247) Caffeoyl-CoA O-methyltransferase {Alfalfa (Medicago sativa) [TaxId: 3879]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: COMT-like
domain: Caffeoyl-CoA O-methyltransferase
species: Alfalfa (Medicago sativa) [TaxId: 3879]

Probab=89.67  E-value=1.7  Score=28.08  Aligned_cols=68  Identities=13%  Similarity=0.168  Sum_probs=50.1

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCe--EE-EEcCHHHHHHHHHc----CCCccEEEEecCCCCCCHHHHHHHHHh
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFK--VE-VAENGKEAVDLFRS----GAKFDIVFIDKEMPVMNGIEATREIRS   94 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~--v~-~~~~~~~al~~~~~----~~~~dlvl~d~~~~~~~~~~~~~~l~~   94 (145)
                      +-++..+|.++......+..++..|+.  +. ...+..+.+..+..    ...||+|++|..-.  .-.+.++.+..
T Consensus        84 ~g~v~tie~~~~~~~~A~~~~~~~g~~~~i~~~~g~a~~~L~~l~~~~~~~~~fD~iFiDa~k~--~y~~~~e~~~~  158 (227)
T d1susa1          84 DGKILAMDINKENYELGLPVIKKAGVDHKIDFREGPALPVLDEMIKDEKNHGSYDFIFVDADKD--NYLNYHKRLID  158 (227)
T ss_dssp             TCEEEEEESCCHHHHHHHHHHHHTTCGGGEEEEESCHHHHHHHHHHCGGGTTCBSEEEECSCST--THHHHHHHHHH
T ss_pred             CcEEEEEeccchhHHHHHHHHHHhccccceeeeehHHHHHHHHHHhccccCCceeEEEeccchh--hhHHHHHHHHh
Confidence            347899999999999999999988864  54 67788888877632    13699999997643  34455555443

>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=89.47  E-value=1.8  Score=28.34  Aligned_cols=90  Identities=11%  Similarity=0.071  Sum_probs=61.7

Q ss_pred             HHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEec-CCCC--CCHHHHHHHHHhcCCcceEEEEeCCCCHH
Q 048318           36 FIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDK-EMPV--MNGIEATREIRSMGIKIKIVGVTSLNSEA  111 (145)
Q Consensus        36 ~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~-~~~~--~~~~~~~~~l~~~~~~~~iv~l~~~~~~~  111 (145)
                      .....+...-...|.++. .+.+.+++.+.+..  ..++|-++- ++..  .+--...+.....+.+..+|.-++-.+.+
T Consensus       139 ~~l~~l~~~a~~lgl~~LvEvh~~~El~~a~~~--~a~iIGINnRnL~t~~vd~~~~~~L~~~ip~~~~~IaESGI~t~~  216 (247)
T d1a53a_         139 RELESLLEYARSYGMEPLIEINDENDLDIALRI--GARFIGINSRDLETLEINKENQRKLISMIPSNVVKVAESGISERN  216 (247)
T ss_dssp             HHHHHHHHHHHTTTCCCEEEECSHHHHHHHHHT--TCSEEEEESBCTTTCCBCHHHHHHHHHHSCTTSEEEEESCCCCHH
T ss_pred             HHHHHHHHHHHHHhhhHHhhcCCHHHHHHHHhC--CCCeEeeeccChhhhhhhhhHHHHHHhhCCCCCeEEEecCCCCHH
Confidence            344555555557787754 89999998887765  367776653 3322  34444444444455577777778888999


Q ss_pred             HHHHHHHhCCceeecC
Q 048318          112 EREAFMQAGLDLCHTK  127 (145)
Q Consensus       112 ~~~~~~~~g~~~~l~k  127 (145)
                      ........|+++++..
T Consensus       217 dv~~l~~~G~davLIG  232 (247)
T d1a53a_         217 EIEELRKLGVNAFLIG  232 (247)
T ss_dssp             HHHHHHHTTCCEEEEC
T ss_pred             HHHHHHHCCCCEEEEC
Confidence            9999999999999854

>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=89.46  E-value=0.72  Score=28.50  Aligned_cols=76  Identities=11%  Similarity=0.155  Sum_probs=45.2

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEecCCCC---CCHHHHHHHHHhcCCcceEEE
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDKEMPV---MNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~~~~~---~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      .|+|+|........+.++|+..|+.+........ ++.+.. ..+|.|++.-....   .+....++.+.+  ...|++-
T Consensus         2 mI~iiD~g~~~~~~i~~~L~~~G~~~~v~~~~~~-~~~~~~-~~~~gvilsgg~~~~~~~~~~~~i~~~~~--~~~PiLG   77 (188)
T d1wl8a1           2 MIVIMDNGGQYVHRIWRTLRYLGVETKIIPNTTP-LEEIKA-MNPKGIIFSGGPSLENTGNCEKVLEHYDE--FNVPILG   77 (188)
T ss_dssp             EEEEEECSCTTHHHHHHHHHHTTCEEEEEETTCC-HHHHHH-TCCSEEEECCCSCTTCCTTHHHHHHTGGG--TCSCEEE
T ss_pred             EEEEEECCCcHHHHHHHHHHHCCCeEEEEeCCCC-HHHHhh-hccceeeeccCcccccccccccccccccc--cccceee
Confidence            4899998877777888999999999887654332 233333 35777766532211   122333333322  3578776


Q ss_pred             EeC
Q 048318          104 VTS  106 (145)
Q Consensus       104 l~~  106 (145)
                      ++-
T Consensus        78 ICl   80 (188)
T d1wl8a1          78 ICL   80 (188)
T ss_dssp             ETH
T ss_pred             hhh
Confidence            653

>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=89.05  E-value=1.4  Score=26.60  Aligned_cols=32  Identities=22%  Similarity=0.291  Sum_probs=19.4

Q ss_pred             CCHHHHHHHHHhCCceeecCCCC--HHHHHHHHH
Q 048318          108 NSEAEREAFMQAGLDLCHTKPLS--VDKILPLME  139 (145)
Q Consensus       108 ~~~~~~~~~~~~g~~~~l~kP~~--~~~L~~~i~  139 (145)
                      ...+....+++.|..-|+-||+.  .++..+.++
T Consensus        74 ~H~~~~~~al~~gk~V~~EKP~~~~~~e~~~l~~  107 (167)
T d1xeaa1          74 VHSTLAAFFLHLGIPTFVDKPLAASAQECENLYE  107 (167)
T ss_dssp             GHHHHHHHHHHTTCCEEEESCSCSSHHHHHHHHH
T ss_pred             ccccccccccccccccccCCCCcCCHHHHHHHHH
Confidence            45555667777777777777753  355544443

>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=88.92  E-value=0.37  Score=30.04  Aligned_cols=69  Identities=14%  Similarity=0.164  Sum_probs=45.8

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCe---EE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFK---VE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM   95 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~---v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~   95 (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            6899999999999999999877532   33 455655555433332469999999522222345666777653

>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=88.26  E-value=0.92  Score=31.63  Aligned_cols=65  Identities=18%  Similarity=0.235  Sum_probs=48.2

Q ss_pred             HHHHHHHcCCCccEEEEecCCCCC-CHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           60 EAVDLFRSGAKFDIVFIDKEMPVM-NGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        60 ~al~~~~~~~~~dlvl~d~~~~~~-~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      +-...+.+ ...|++++|...... ...+.++.+++..++.++| ...-.+.+....+.++|||.+.+
T Consensus       110 er~~~l~~-agvd~ivID~A~G~s~~~~~~i~~ik~~~~~~~iI-aGNV~T~e~a~~L~~aGaD~VkV  175 (365)
T d1zfja1         110 ERAEALFE-AGADAIVIDTAHGHSAGVLRKIAEIRAHFPNRTLI-AGNIATAEGARALYDAGVDVVKV  175 (365)
T ss_dssp             HHHHHHHH-HTCSEEEECCSCTTCHHHHHHHHHHHHHCSSSCEE-EEEECSHHHHHHHHHTTCSEEEE
T ss_pred             HHHHHHHH-cCCCEEEEECCcccccchhHHHHHHHhhCCCccee-ecccccHHHHHHHHhcCCceEEe
Confidence            33333434 358999999765443 3467888888888888876 57778889999999999998753

>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=88.20  E-value=1.3  Score=30.30  Aligned_cols=67  Identities=22%  Similarity=0.273  Sum_probs=48.2

Q ss_pred             HHHHHHHHHcCCCccEEEEecCCCCC-CHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           58 GKEAVDLFRSGAKFDIVFIDKEMPVM-NGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        58 ~~~al~~~~~~~~~dlvl~d~~~~~~-~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      ..+-++.+.+ ...|++++|...... .-.+.++.++...+++++| ...-.+.+....+.++|||...+
T Consensus        99 ~~e~~~~li~-agvd~ivId~A~G~~~~~~~~ik~ik~~~~~~~vi-aGnV~t~~~a~~l~~~GaD~v~V  166 (330)
T d1vrda1          99 TMERVEKLVK-AGVDVIVIDTAHGHSRRVIETLEMIKADYPDLPVV-AGNVATPEGTEALIKAGADAVKV  166 (330)
T ss_dssp             HHHHHHHHHH-TTCSEEEECCSCCSSHHHHHHHHHHHHHCTTSCEE-EEEECSHHHHHHHHHTTCSEEEE
T ss_pred             HHHHHHHHHH-CCCCEEEEecCCCCchhHHHHHHHHHHhCCCCCEE-eechhHHHHHHHHHHcCCCEEee
Confidence            3444444444 468999999866543 3457888888888888776 56666788888899999998754

>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=88.16  E-value=0.52  Score=30.64  Aligned_cols=53  Identities=15%  Similarity=0.088  Sum_probs=40.2

Q ss_pred             ceEEEEeCcHHHHHHHHHHHHHcCCeEEEE-------cCHHHHHHHHHcCCCccEEEEecC
Q 048318           26 LFALVVDDDCFIRTIHSMALKSLGFKVEVA-------ENGKEAVDLFRSGAKFDIVFIDKE   79 (145)
Q Consensus        26 ~~iLii~~~~~~~~~l~~~L~~~g~~v~~~-------~~~~~al~~~~~~~~~dlvl~d~~   79 (145)
                      |+|||.+....+...|...|...||+|...       .+..+.-+.+.. ..||+|+--..
T Consensus         2 MKIlItGasGfiG~~l~~~L~~~g~~Vi~~~r~~~D~~d~~~~~~~l~~-~~~d~vih~a~   61 (281)
T d1vl0a_           2 MKILITGANGQLGREIQKQLKGKNVEVIPTDVQDLDITNVLAVNKFFNE-KKPNVVINCAA   61 (281)
T ss_dssp             EEEEEESTTSHHHHHHHHHHTTSSEEEEEECTTTCCTTCHHHHHHHHHH-HCCSEEEECCC
T ss_pred             CEEEEECCCCHHHHHHHHHHHhCCCEEEEeechhccCCCHHHHHHHHHH-cCCCEEEeecc
Confidence            679999999999999999999999998865       344444455554 46898775433

>d1ws6a1 c.66.1.46 (A:15-185) Methyltransferase TTHA0928 {Thermus thermophilus [TaxId: 274]}

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: Methyltransferase TTHA0928
species: Thermus thermophilus [TaxId: 274]

Probab=87.66  E-value=1.2  Score=27.33  Aligned_cols=54  Identities=17%  Similarity=0.213  Sum_probs=39.7

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHH-cCCCccEEEEec
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVE-VAENGKEAVDLFR-SGAKFDIVFIDK   78 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~-~~~~~dlvl~d~   78 (145)
                      ..++..+|-++...+.++..++..|.... ...+.+..+.... ....||+|++|-
T Consensus        63 ga~vv~vD~~~~a~~~~~~N~~~~~~~~~v~~~~~d~~~~~~~~~~~~fD~If~DP  118 (171)
T d1ws6a1          63 GWEAVLVEKDPEAVRLLKENVRRTGLGARVVALPVEVFLPEAKAQGERFTVAFMAP  118 (171)
T ss_dssp             TCEEEEECCCHHHHHHHHHHHHHHTCCCEEECSCHHHHHHHHHHTTCCEEEEEECC
T ss_pred             cchhhhcccCHHHHhhhhHHHHhhccccceeeeehhcccccccccCCccceeEEcc
Confidence            44677899999999999999998876643 5556666554433 224699999984

>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=86.38  E-value=1.7  Score=29.20  Aligned_cols=59  Identities=12%  Similarity=0.160  Sum_probs=46.7

Q ss_pred             HHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCcee------ecC-CCCHHHHHHHHHHHHhc
Q 048318           86 IEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLC------HTK-PLSVDKILPLMEDLMKN  144 (145)
Q Consensus        86 ~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~------l~k-P~~~~~L~~~i~~~~~~  144 (145)
                      ++.++.+++..+.+|||...+-.+.....+++.+||+..      +.+ |--.+++.+-+++.+.+
T Consensus       243 l~~v~~~~~~~~~ipIi~~GGI~~~~d~~~~l~aGA~~Vqv~ta~~~~G~~~i~~i~~~L~~~m~~  308 (312)
T d1gtea2         243 LRAVTTIARALPGFPILATGGIDSAESGLQFLHSGASVLQVCSAVQNQDFTVIQDYCTGLKALLYL  308 (312)
T ss_dssp             HHHHHHHHHHSTTCCEEEESSCCSHHHHHHHHHTTCSEEEESHHHHTSCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCcEEEEcCCCCHHHHHHHHHcCCCeeEECHhhhccChHHHHHHHHHHHHHHHH
Confidence            677888888777899999999999999999999999976      344 44467777777776653

>d2fpoa1 c.66.1.46 (A:10-192) Methylase YhhF {Escherichia coli [TaxId: 562]}

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: Methylase YhhF
species: Escherichia coli [TaxId: 562]

Probab=86.00  E-value=2.5  Score=25.99  Aligned_cols=67  Identities=18%  Similarity=0.117  Sum_probs=45.0

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCe-EE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhc
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFK-VE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSM   95 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~-v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~   95 (145)
                      .|..+|.++...+.++..++..+.. +. ...+....+..  ....||+|++|-=-.......++..+.+.
T Consensus        68 ~v~~VE~~~~a~~~~k~N~~~~~~~~~~ii~~d~~~~l~~--~~~~fDlIf~DPPY~~~~~~~~l~~l~~~  136 (183)
T d2fpoa1          68 GATLIEMDRAVSQQLIKNLATLKAGNARVVNSNAMSFLAQ--KGTPHNIVFVDPPFRRGLLEETINLLEDN  136 (183)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCCSEEEECSCHHHHHSS--CCCCEEEEEECCSSSTTTHHHHHHHHHHT
T ss_pred             eeEEEEEeechhhHHHHHHhhccccceeeeeecccccccc--cccccCEEEEcCccccchHHHHHHHHHHC
Confidence            6899999999999999999876543 33 33444433322  23569999999532234456777777664

>d1lssa_ c.2.1.9 (A:) Ktn Mja218 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

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: Ktn Mja218
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=85.98  E-value=2  Score=24.78  Aligned_cols=108  Identities=16%  Similarity=0.114  Sum_probs=58.2

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEc-CHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAE-NGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~-~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      +..|.++|.|+...+.+...   .|+.+.... +..+.++.+.- ...|.++.=..- +....-.+...++.++. .+|+
T Consensus        23 g~~v~vid~d~~~~~~~~~~---~~~~vi~Gd~~~~~~l~~~~i-~~a~~vv~~t~~-d~~N~~~~~~~k~~~~~-~iI~   96 (132)
T d1lssa_          23 GHDIVLIDIDKDICKKASAE---IDALVINGDCTKIKTLEDAGI-EDADMYIAVTGK-EEVNLMSSLLAKSYGIN-KTIA   96 (132)
T ss_dssp             TCEEEEEESCHHHHHHHHHH---CSSEEEESCTTSHHHHHHTTT-TTCSEEEECCSC-HHHHHHHHHHHHHTTCC-CEEE
T ss_pred             CCCcceecCChhhhhhhhhh---hhhhhccCcccchhhhhhcCh-hhhhhhcccCCc-HHHHHHHHHHHHHcCCc-eEEE
Confidence            45688999998877765542   366655433 44455655543 357877763221 11112222333444433 5555


Q ss_pred             EeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          104 VTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      .+.  +........+.|++..+. |  .......+.+.++
T Consensus        97 ~~~--~~~~~~~l~~~G~d~vi~-p--~~~~a~~i~~~i~  131 (132)
T d1lssa_          97 RIS--EIEYKDVFERLGVDVVVS-P--ELIAANYIEKLIE  131 (132)
T ss_dssp             ECS--STTHHHHHHHTTCSEEEC-H--HHHHHHHHHHHHT
T ss_pred             Eec--CHHHHHHHHHCCCCEEEC-H--HHHHHHHHHHHhc
Confidence            544  344456678899987653 4  2344455555443

>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=85.56  E-value=2.4  Score=25.99  Aligned_cols=69  Identities=12%  Similarity=0.101  Sum_probs=51.1

Q ss_pred             ccEEEEecCCC--CCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHH
Q 048318           71 FDIVFIDKEMP--VMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDL  141 (145)
Q Consensus        71 ~dlvl~d~~~~--~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~  141 (145)
                      .|.+++-.+.-  -.+-.+.+..++...+..+|.+-+.  +.+....+.+.|+|-++.-.++++++...++.+
T Consensus        50 sd~iLIkdNHi~~~~~~~~~~~~~~~~~~~~~IeVEv~--~~~~~~~a~~~g~diImLDN~~pe~~~~av~~i  120 (167)
T d1qapa1          50 TDAFLIKENHIIASGSVRQAVEKAFWLHPDVPVEVEVE--NLDELDDALKAGADIIMLDNFNTDQMREAVKRV  120 (167)
T ss_dssp             SSCEEECHHHHHHHSSHHHHHHHHHHHSTTSCEEEEES--SHHHHHHHHHTTCSEEEESSCCHHHHHHHHHTT
T ss_pred             cceeEechhhHhhhhhhhhhhHHHhhcCCCceEEEecC--cHHHHHHHHhcCCcEEEecCCCHHHHHHHHHhc
Confidence            67777654432  1344577778887777777765444  566788899999999999999999999887643

>d1wv2a_ c.1.31.1 (A:) Thiazole biosynthesis protein ThiG {Pseudomonas aeruginosa [TaxId: 287]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: ThiG-like
family: ThiG-like
domain: Thiazole biosynthesis protein ThiG
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=84.92  E-value=3.6  Score=26.83  Aligned_cols=96  Identities=11%  Similarity=0.047  Sum_probs=64.9

Q ss_pred             HHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCC-----CCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHH
Q 048318           44 ALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMP-----VMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFM  117 (145)
Q Consensus        44 ~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~-----~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~  117 (145)
                      .|-+.||.|. .+.+....-+.+.. .....+ +-+.-|     +......++.+++. +++|+|+=++-...++...++
T Consensus       122 ~Lv~egF~Vlpy~~~D~v~ak~le~-~Gc~~v-MplgsPIGsg~Gi~n~~~l~~i~~~-~~vpvivdAGIg~psdaa~AM  198 (243)
T d1wv2a_         122 QLVKDGFDVMVYTSDDPIIARQLAE-IGCIAV-MPLAGLIGSGLGICNPYNLRIILEE-AKVPVLVDAGVGTASDAAIAM  198 (243)
T ss_dssp             HHHTTTCEEEEEECSCHHHHHHHHH-SCCSEE-EECSSSTTCCCCCSCHHHHHHHHHH-CSSCBEEESCCCSHHHHHHHH
T ss_pred             HhhcCceEEEeccCCCHHHHhHHHH-cCceee-eecccccccccccccHHHHHhcccc-CCcceEeecccCCHHHHHHHH
Confidence            4556799988 44433334344444 344444 444444     23344567777765 688998888889999999999


Q ss_pred             HhCCceee-----cCCCCHHHHHHHHHHHH
Q 048318          118 QAGLDLCH-----TKPLSVDKILPLMEDLM  142 (145)
Q Consensus       118 ~~g~~~~l-----~kP~~~~~L~~~i~~~~  142 (145)
                      +.|+|+.|     .|--++..+...++...
T Consensus       199 ElG~dgVLvnsaIa~A~dP~~mA~A~~~Av  228 (243)
T d1wv2a_         199 ELGCEAVLMNTAIAHAKDPVMMAEAMKHAI  228 (243)
T ss_dssp             HHTCSEEEESHHHHTSSSHHHHHHHHHHHH
T ss_pred             HccCCEEEechHhhcCCCHHHHHHHHHHHH
Confidence            99999997     45677777777776554

>d2hmva1 c.2.1.9 (A:7-140) Ktn bsu222 {Bacillus subtilis [TaxId: 1423]}

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: Ktn bsu222
species: Bacillus subtilis [TaxId: 1423]

Probab=84.84  E-value=2.2  Score=24.43  Aligned_cols=93  Identities=12%  Similarity=-0.021  Sum_probs=54.0

Q ss_pred             CceEEEEeCcHHHHHHHHHHHHHcCCeEEEEc-CHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEE
Q 048318           25 RLFALVVDDDCFIRTIHSMALKSLGFKVEVAE-NGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVG  103 (145)
Q Consensus        25 ~~~iLii~~~~~~~~~l~~~L~~~g~~v~~~~-~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~  103 (145)
                      +..++++|.|+...+.++    ..|+.+.... +-.+.++.+.- ...|.+++-..-. .....++...++..+..++++
T Consensus        23 g~~vvvid~d~~~~~~~~----~~~~~~~~gd~~~~~~l~~a~i-~~a~~vi~~~~~~-~~~~~~~~~~~~~~~~~~iia   96 (134)
T d2hmva1          23 GHEVLAVDINEEKVNAYA----SYATHAVIANATEENELLSLGI-RNFEYVIVAIGAN-IQASTLTTLLLKELDIPNIWV   96 (134)
T ss_dssp             TCCCEEEESCHHHHHHTT----TTCSEEEECCTTCTTHHHHHTG-GGCSEEEECCCSC-HHHHHHHHHHHHHTTCSEEEE
T ss_pred             CCeEEEecCcHHHHHHHH----HhCCcceeeecccchhhhccCC-ccccEEEEEcCch-HHhHHHHHHHHHHcCCCcEEe
Confidence            456788898888776653    4566665433 22334444432 2468777755321 122334455555565656655


Q ss_pred             EeCCCCHHHHHHHHHhCCceee
Q 048318          104 VTSLNSEAEREAFMQAGLDLCH  125 (145)
Q Consensus       104 l~~~~~~~~~~~~~~~g~~~~l  125 (145)
                      .+.  +......+...|++..+
T Consensus        97 r~~--~~~~~~~l~~~Gad~vi  116 (134)
T d2hmva1          97 KAQ--NYYHHKVLEKIGADRII  116 (134)
T ss_dssp             ECC--SHHHHHHHHHHTCSEEE
T ss_pred             ecc--cHhHHHHHHHCCCCEEE
Confidence            444  55666777889998765

>d2esra1 c.66.1.46 (A:28-179) Putative methyltransferase SPy1538 {Streptococcus pyogenes [TaxId: 1314]}

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 methyltransferase SPy1538
species: Streptococcus pyogenes [TaxId: 1314]

Probab=84.73  E-value=1.4  Score=26.27  Aligned_cols=66  Identities=15%  Similarity=0.251  Sum_probs=45.1

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCCe--EE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHh
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGFK--VE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRS   94 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~~--v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~   94 (145)
                      +|..+|.++...+.++..++..|..  +. ...+....++...  .++|+|++|.=.........+..+.+
T Consensus        39 ~v~~ve~~~~a~~~~~~n~~~~~~~~~~~ii~~D~~~~l~~~~--~~fDiIf~DPPy~~~~~~~~l~~i~~  107 (152)
T d2esra1          39 AAVLVEKNRKAQAIIQDNIIMTKAENRFTLLKMEAERAIDCLT--GRFDLVFLDPPYAKETIVATIEALAA  107 (152)
T ss_dssp             EEEEECCCHHHHHHHHHHHHTTTCGGGEEEECSCHHHHHHHBC--SCEEEEEECCSSHHHHHHHHHHHHHH
T ss_pred             eeeeehhchhhhhhhhhhhhhcccccchhhhcccccccccccc--cccceeEechhhccchHHHHHHHHHH
Confidence            7899999999999999999877643  44 4457777665542  46999999841111223455566654

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=84.02  E-value=2.7  Score=26.74  Aligned_cols=100  Identities=11%  Similarity=0.125  Sum_probs=57.0

Q ss_pred             CceEEEEeCcHHH---HHHHHHHHHHcCCeEEEEcCHHHHHHHH-------HcCCCccEEEEecCCCCC--CHHHHHHHH
Q 048318           25 RLFALVVDDDCFI---RTIHSMALKSLGFKVEVAENGKEAVDLF-------RSGAKFDIVFIDKEMPVM--NGIEATREI   92 (145)
Q Consensus        25 ~~~iLii~~~~~~---~~~l~~~L~~~g~~v~~~~~~~~al~~~-------~~~~~~dlvl~d~~~~~~--~~~~~~~~l   92 (145)
                      +.+|.++.-|...   .+.|+.+-+..|..+..+.+..+....+       .. ..+|+||+|.-  +.  ...+..+++
T Consensus        37 g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~~~~a~~-~~~d~ilIDTa--Gr~~~d~~~~~el  113 (211)
T d2qy9a2          37 GKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDAIQAAKA-RNIDVLIADTA--GRLQNKSHLMEEL  113 (211)
T ss_dssp             TCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHHHHHHHH-TTCSEEEECCC--CCGGGHHHHHHHH
T ss_pred             CCcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHHHHHHHHH-cCCCEEEeccC--CCccccHHHHHHH
Confidence            4567777655433   4666666677888888776554433222       23 46899999972  21  122233333


Q ss_pred             Hh----c------CCcceEEEEeCCCCHHHHHHHH----HhCCceeecC
Q 048318           93 RS----M------GIKIKIVGVTSLNSEAEREAFM----QAGLDLCHTK  127 (145)
Q Consensus        93 ~~----~------~~~~~iv~l~~~~~~~~~~~~~----~~g~~~~l~k  127 (145)
                      ++    .      .|.-+++++.+.........+.    ..|.+.++.-
T Consensus       114 ~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~~~~~lIlT  162 (211)
T d2qy9a2         114 KKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLT  162 (211)
T ss_dssp             HHHHHHHTTTCTTCCSEEEEEEEGGGTHHHHHHHHHHHHHSCCCEEEEE
T ss_pred             HHHHHHHhhhcccCcceeeeehhcccCcchHHHHhhhhhccCCceEEEe
Confidence            22    1      2456677777776665555443    3477777543

>d1zh8a1 c.2.1.3 (A:4-131,A:276-328) Hypothetical protein TM0312 {Thermotoga maritima [TaxId: 2336]}

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: Hypothetical protein TM0312
species: Thermotoga maritima [TaxId: 2336]

Probab=83.82  E-value=3.1  Score=25.30  Aligned_cols=30  Identities=17%  Similarity=0.241  Sum_probs=16.7

Q ss_pred             CHHHHHHHHHhCCceeecCCC--CHHHHHHHH
Q 048318          109 SEAEREAFMQAGLDLCHTKPL--SVDKILPLM  138 (145)
Q Consensus       109 ~~~~~~~~~~~g~~~~l~kP~--~~~~L~~~i  138 (145)
                      +.+....+++.|-.-++-||+  +.+++.+.+
T Consensus        80 h~~~~~~al~~gk~V~~EKPl~~~~~e~~~l~  111 (181)
T d1zh8a1          80 NLPFIEKALRKGVHVICEKPISTDVETGKKVV  111 (181)
T ss_dssp             HHHHHHHHHHTTCEEEEESSSSSSHHHHHHHH
T ss_pred             cccccccccccchhhhcCCCCcCCHHHHHHHH
Confidence            455566666666666666665  344444433

>d1qdlb_ c.23.16.1 (B:) Anthranilate synthase GAT subunit, TrpG {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

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: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=83.53  E-value=0.42  Score=29.90  Aligned_cols=50  Identities=16%  Similarity=0.097  Sum_probs=31.7

Q ss_pred             EEEEeCcHHHHHHHHHHHHHcCCeEEEEcCHHHHHHHHHcCCCccEEEEec
Q 048318           28 ALVVDDDCFIRTIHSMALKSLGFKVEVAENGKEAVDLFRSGAKFDIVFIDK   78 (145)
Q Consensus        28 iLii~~~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~~~dlvl~d~   78 (145)
                      +||||....+...+.++|+..|..+.....-.-.++.+.. ..+|.+++.-
T Consensus         4 ~liiD~~dsft~Ni~~~l~~lG~~~~vi~~d~~~~~~i~~-~~~~gvilsg   53 (195)
T d1qdlb_           4 TLIIDNYDSFVYNIAQIVGELGSYPIVIRNDEISIKGIER-IDPDRLIISP   53 (195)
T ss_dssp             EEEEECSCSSHHHHHHHHHHTTCEEEEEETTTSCHHHHHH-HCCSEEEECC
T ss_pred             EEEEECCCchHHHHHHHHHhCCCeEEEEeCCCCCHHHHHh-hCCCccccCC
Confidence            7899977766677788899999988765421111222322 2467666653

>d1rzua_ c.87.1.8 (A:) Glycogen synthase 1, GlgA {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: UDP-Glycosyltransferase/glycogen phosphorylase
superfamily: UDP-Glycosyltransferase/glycogen phosphorylase
family: Glycosyl transferases group 1
domain: Glycogen synthase 1, GlgA
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=82.89  E-value=2.5  Score=29.70  Aligned_cols=108  Identities=12%  Similarity=0.088  Sum_probs=59.1

Q ss_pred             EEEeCcHHHHHHHHHHHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCC
Q 048318           29 LVVDDDCFIRTIHSMALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSL  107 (145)
Q Consensus        29 Lii~~~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~  107 (145)
                      ++...+......+...-...+-.+. ...-.++....+..  .-|++++--. .+.-|.-+++.+..   .+|+|+ ++.
T Consensus       325 ~~G~G~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~--~aD~~v~PS~-~E~fglv~lEAma~---G~PvVa-s~~  397 (477)
T d1rzua_         325 VLGAGDVALEGALLAAASRHHGRVGVAIGYNEPLSHLMQA--GCDAIIIPSR-FEPCGLTQLYALRY---GCIPVV-ART  397 (477)
T ss_dssp             EEECBCHHHHHHHHHHHHHTTTTEEEEESCCHHHHHHHHH--HCSEEEECCS-CCSSCSHHHHHHHH---TCEEEE-ESS
T ss_pred             EEecCCchHHHHHHHHHhhcCCeEEEEcccChhHHHHHHH--hCccccCCcc-ccCCCHHHHHHHHc---CCCEEE-cCC
Confidence            3444444444444444444443333 22222222333322  2477776533 35567777777765   567775 333


Q ss_pred             CCHHH------HHHHHHhCCceeecCCCCHHHHHHHHHHHHh
Q 048318          108 NSEAE------REAFMQAGLDLCHTKPLSVDKILPLMEDLMK  143 (145)
Q Consensus       108 ~~~~~------~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~  143 (145)
                      ..-.+      .......+.++|+..|.+.++|...|.++++
T Consensus       398 GG~~E~v~d~~~~~~~~~~~~G~l~~~~d~~~la~ai~~~l~  439 (477)
T d1rzua_         398 GGLADTVIDANHAALASKAATGVQFSPVTLDGLKQAIRRTVR  439 (477)
T ss_dssp             HHHHHHCCBCCHHHHHTTCCCBEEESSCSHHHHHHHHHHHHH
T ss_pred             CCCcceeecCCccccccCCCceEEeCCCCHHHHHHHHHHHHh
Confidence            22111      1122345678999999999999999987664

>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=82.73  E-value=3.6  Score=25.18  Aligned_cols=70  Identities=13%  Similarity=0.072  Sum_probs=52.8

Q ss_pred             ccEEEEecCCCC--CCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCCCHHHHHHHHHHHH
Q 048318           71 FDIVFIDKEMPV--MNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPLSVDKILPLMEDLM  142 (145)
Q Consensus        71 ~dlvl~d~~~~~--~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~  142 (145)
                      +|.+++..+.-.  .+-.+.++.++...+..+|.+=.  .+.++..++...|+|-++.-.++++++...+..+-
T Consensus        50 ~d~ilikdNHi~~~g~i~~~i~~~k~~~~~~~I~VEv--~s~~q~~~a~~~~~diImLDN~sp~~~k~~v~~~~  121 (169)
T d1qpoa1          50 GDAALIKDNHVAAAGSVVDALRAVRNAAPDLPCEVEV--DSLEQLDAVLPEKPELILLDNFAVWQTQTAVQRRD  121 (169)
T ss_dssp             SSSEEECHHHHHHHSSHHHHHHHHHHHCTTSCEEEEE--SSHHHHHHHGGGCCSEEEEETCCHHHHHHHHHHHH
T ss_pred             cceEEeehhHHhHhcchhhhhhhhhhhcCCCceEEEe--ccHHHhhhhhhcCCcEEEecCcChHhHHHHHHHhh
Confidence            676776654322  23456788888877777776544  47788899999999999999999999998887643

>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=82.66  E-value=2.2  Score=28.20  Aligned_cols=50  Identities=20%  Similarity=0.081  Sum_probs=36.2

Q ss_pred             HHHHHHHHHhcCCcceEEEEeCC------CCHHHHHHHHHhCCceeecCCCCHHHH
Q 048318           85 GIEATREIRSMGIKIKIVGVTSL------NSEAEREAFMQAGLDLCHTKPLSVDKI  134 (145)
Q Consensus        85 ~~~~~~~l~~~~~~~~iv~l~~~------~~~~~~~~~~~~g~~~~l~kP~~~~~L  134 (145)
                      .+++++.+++....+|+|+++-.      ..+....++..+|+++++.-.+.+++-
T Consensus        81 ~~~~~~~~r~~~~~~pivlm~Y~N~i~~~G~~~f~~~~~~~Gv~GliipDlP~ee~  136 (267)
T d1qopa_          81 CFEMLAIIREKHPTIPIGLLMYANLVFNNGIDAFYARCEQVGVDSVLVADVPVEES  136 (267)
T ss_dssp             HHHHHHHHHHHCSSSCEEEEECHHHHHTTCHHHHHHHHHHHTCCEEEETTCCGGGC
T ss_pred             hhhhhhhhcccccccceEEEeeccchhhcCchHHHHHHHhcCCCceeccchhhhhh
Confidence            35667777777778899988743      345668889999999998875555443

>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=82.58  E-value=3.3  Score=26.44  Aligned_cols=84  Identities=19%  Similarity=0.269  Sum_probs=56.3

Q ss_pred             HHHHHHcCCe--EEEEcCHHHHHHHHHcCCCccEEEEe-cCCCCCCHHHHHHHHHh----cCCcceEEEEeCCCCHHHHH
Q 048318           42 SMALKSLGFK--VEVAENGKEAVDLFRSGAKFDIVFID-KEMPVMNGIEATREIRS----MGIKIKIVGVTSLNSEAERE  114 (145)
Q Consensus        42 ~~~L~~~g~~--v~~~~~~~~al~~~~~~~~~dlvl~d-~~~~~~~~~~~~~~l~~----~~~~~~iv~l~~~~~~~~~~  114 (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            3456677755  55677899988877654322222222 12235688888877664    35567776 58888999999


Q ss_pred             HHHHhCCceeec
Q 048318          115 AFMQAGLDLCHT  126 (145)
Q Consensus       115 ~~~~~g~~~~l~  126 (145)
                      ++...|+|-+-.
T Consensus       175 ~a~~~G~d~iTi  186 (218)
T d1vpxa_         175 EAALMGVDIVTM  186 (218)
T ss_dssp             HHHHHTCSEEEE
T ss_pred             HHHHcCCCEEEc
Confidence            999999997743

>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=81.90  E-value=4.5  Score=25.73  Aligned_cols=97  Identities=16%  Similarity=0.157  Sum_probs=62.0

Q ss_pred             HHHHcCCeEE-EEcCHHHHHHHHHcCCCccEEEEecCCCCCCH-----------HHHHHHHHhcCCcceEEEEeCCCCHH
Q 048318           44 ALKSLGFKVE-VAENGKEAVDLFRSGAKFDIVFIDKEMPVMNG-----------IEATREIRSMGIKIKIVGVTSLNSEA  111 (145)
Q Consensus        44 ~L~~~g~~v~-~~~~~~~al~~~~~~~~~dlvl~d~~~~~~~~-----------~~~~~~l~~~~~~~~iv~l~~~~~~~  111 (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            3446688854 88888888877654  5788888765432211           12344455566788988655556777


Q ss_pred             HHHHHHHhCCceeecC-----CCC-HHHHHHHHHHHH
Q 048318          112 EREAFMQAGLDLCHTK-----PLS-VDKILPLMEDLM  142 (145)
Q Consensus       112 ~~~~~~~~g~~~~l~k-----P~~-~~~L~~~i~~~~  142 (145)
                      ....+.+.|+|+++.-     .-+ ...+...++.+.
T Consensus       187 ~~~~~~~~g~dGvLVGsA~l~a~d~~~~i~~l~~~~~  223 (226)
T d1w0ma_         187 DVAAALRLGTRGVLLASAAVKAKDPYAKIVELAKPLS  223 (226)
T ss_dssp             HHHHHHHTTCSEEEECHHHHTCSSHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCCCEEEechheecCCCHHHHHHHHHHHHH
Confidence            7888899999999854     333 344444444443

>d1wx0a1 c.1.10.1 (A:1-211) Decameric fructose-6-phosphate aldolase/transaldolase {Thermus thermophilus [TaxId: 274]}

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: Thermus thermophilus [TaxId: 274]

Probab=81.81  E-value=4.3  Score=25.66  Aligned_cols=83  Identities=20%  Similarity=0.287  Sum_probs=55.3

Q ss_pred             HHHHHcCCe--EEEEcCHHHHHHHHHcCCCccEEEEec-CCCCCCHHHHHHHHHh----cCCcceEEEEeCCCCHHHHHH
Q 048318           43 MALKSLGFK--VEVAENGKEAVDLFRSGAKFDIVFIDK-EMPVMNGIEATREIRS----MGIKIKIVGVTSLNSEAEREA  115 (145)
Q Consensus        43 ~~L~~~g~~--v~~~~~~~~al~~~~~~~~~dlvl~d~-~~~~~~~~~~~~~l~~----~~~~~~iv~l~~~~~~~~~~~  115 (145)
                      ..|+..|+.  ++.+-+..+++.....+..|=..+++- .-.+.+|.++++.+++    ....++|+ .++..+.....+
T Consensus       104 ~~L~~~Gi~vn~T~vfs~~Qa~~Aa~aga~yispyvgR~~d~g~d~~~~~~~~~~~~~~~~~~tkil-~AS~R~~~~~~~  182 (211)
T d1wx0a1         104 KRLSAEGIKVNMTLIFSANQALLAARAGASYVSPFLGRVDDISWDGGELLREIVEMIQVQDLPVKVI-AASIRHPRHVTE  182 (211)
T ss_dssp             HHHHHTTCCEEEEEECSHHHHHHHHHTTCSEEEEBHHHHHHTTSCHHHHHHHHHHHHHHTTCSCEEE-EBCCCSHHHHHH
T ss_pred             HHHhhcCCceeEEEecCHHHHHHHHHcCCCEEEEeeecchhccccchhHHHHHHHHHHhccccceeE-eeecCCHHHHHH
Confidence            456666755  557779999888776533222223331 2235788888876664    34466665 588889999999


Q ss_pred             HHHhCCceeec
Q 048318          116 FMQAGLDLCHT  126 (145)
Q Consensus       116 ~~~~g~~~~l~  126 (145)
                      +...|+|.+-.
T Consensus       183 ~~~~G~d~vTi  193 (211)
T d1wx0a1         183 AALLGADIATM  193 (211)
T ss_dssp             HHHTTCSEEEE
T ss_pred             HHHcCCCEEEe
Confidence            99999998833

>d1u6ka1 c.127.1.1 (A:2-283) F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD) {Archaeon Methanopyrus kandleri [TaxId: 2320]}

class: Alpha and beta proteins (a/b)
fold: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)
superfamily: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)
family: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)
domain: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)
species: Archaeon Methanopyrus kandleri [TaxId: 2320]

Probab=80.90  E-value=2  Score=28.07  Aligned_cols=62  Identities=11%  Similarity=-0.062  Sum_probs=40.0

Q ss_pred             HHcCCCccEEEEecCCCCCCHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeecCCC
Q 048318           65 FRSGAKFDIVFIDKEMPVMNGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHTKPL  129 (145)
Q Consensus        65 ~~~~~~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~kP~  129 (145)
                      +.. +.||++++--=.+...|-.-.+.+-+. ..+|.|++++...... .++++....+|+.-|.
T Consensus        59 ~~~-~~pDf~i~isPN~a~PGP~~ARE~l~~-~giP~ivI~D~p~~k~-~d~~~~~gfGYIi~k~  120 (282)
T d1u6ka1          59 AED-FEPDFIVYGGPNPAAPGPSKAREMLAD-SEYPAVIIGDAPGLKV-KDEMEEQGLGYILVKP  120 (282)
T ss_dssp             HHH-HCCSEEEEECSCTTSHHHHHHHHHHHT-SSSCEEEEEEGGGGGG-HHHHHHTTCEEEEETT
T ss_pred             HHh-cCCCEEEEECCCCCCCCcHHHHHHHHh-cCCCEEEEcCCcchhh-HHHHHhcCCcEEEEec
Confidence            455 579988876555666777777666542 2678888888876664 4555555555654443

>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=80.51  E-value=4.5  Score=24.79  Aligned_cols=68  Identities=12%  Similarity=0.180  Sum_probs=49.4

Q ss_pred             eEEEEeCcHHHHHHHHHHHHHcCC--eEE-EEcCHHHHHHHHH-cCCCccEEEEecCCCCCCHHHHHHHHHh
Q 048318           27 FALVVDDDCFIRTIHSMALKSLGF--KVE-VAENGKEAVDLFR-SGAKFDIVFIDKEMPVMNGIEATREIRS   94 (145)
Q Consensus        27 ~iLii~~~~~~~~~l~~~L~~~g~--~v~-~~~~~~~al~~~~-~~~~~dlvl~d~~~~~~~~~~~~~~l~~   94 (145)
                      .|..+|.++.....++..++..+.  .+. ...+...+++.+. .+.+||+|++|-=-......+.+..+.+
T Consensus        66 ~v~~ve~~~~a~~~~~~N~~~~~~~~~~~i~~~D~~~~l~~~~~~~~~fDlIflDPPY~~~~~~~~l~~i~~  137 (182)
T d2fhpa1          66 KSICIEKNFAALKVIKENIAITKEPEKFEVRKMDANRALEQFYEEKLQFDLVLLDPPYAKQEIVSQLEKMLE  137 (182)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHHTCGGGEEEEESCHHHHHHHHHHTTCCEEEEEECCCGGGCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhhcccccccccccchhhhhhhcccCCCcceEEechhhhhhHHHHHHHHHHH
Confidence            689999999999999999987663  243 6678888887654 3357999999951113445677777755

>d1jr1a1 c.1.5.1 (A:17-112,A:233-514) Inosine monophosphate dehydrogenase (IMPDH) {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

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: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=80.18  E-value=2.7  Score=29.24  Aligned_cols=57  Identities=16%  Similarity=0.255  Sum_probs=44.5

Q ss_pred             CCccEEEEecCCCCC-CHHHHHHHHHhcCCcceEEEEeCCCCHHHHHHHHHhCCceeec
Q 048318           69 AKFDIVFIDKEMPVM-NGIEATREIRSMGIKIKIVGVTSLNSEAEREAFMQAGLDLCHT  126 (145)
Q Consensus        69 ~~~dlvl~d~~~~~~-~~~~~~~~l~~~~~~~~iv~l~~~~~~~~~~~~~~~g~~~~l~  126 (145)
                      ..+|++++|...... .-.+.++.+++..+++++| ...-.+.+....+.++|||.+.+
T Consensus       130 agv~vi~id~a~g~~~~~~~~i~~ik~~~~~~~iI-aGnVaT~e~a~~L~~aGAD~VkV  187 (378)
T d1jr1a1         130 AGVDVVVLDSSQGNSIFQINMIKYMKEKYPNLQVI-GGNVVTAAQAKNLIDAGVDALRV  187 (378)
T ss_dssp             HTCCEEEECCSSCCSHHHHHHHHHHHHHSTTCEEE-EEEECSHHHHHHHHHHTCSEEEE
T ss_pred             hccceEeeeccCccchhhHHHHHHHHHHCCCCcee-ecccccHHHHHHHHHhCCCEEee
Confidence            358999999876644 3467788888888887775 56777888888999999998853